Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 15 of 284
Found at i:4980150 original size:182 final size:188
Alignment explanation
Indices: 4979838--4980350 Score: 795
Period size: 194 Copynumber: 2.7 Consensus size: 188
4979828 AAATTGTTGC
* *
4979838 TTGTCTGTTTCCTGAGAAAGAGTGAGATTTTCATGTTTGATTTTAGGTAAGAGTAGATCAATGTG
1 TTGTTTGTTTCCTGAGAAAGAGTGAGAATTTCATGTTTGATTTTAGGTAAGAGTAGATCAATGTG
4979903 AAGAGAAATGCATTAAGCTGTTTAGTTGATGTTGAAGATCTCTGTTCTCATTGCAGATTTGCTCT
66 AAGAGAAATGCATTAAGCTGTTTAGTTGATGTTGAAGATCTCTGTTCTCATTGCAGATTTGCTCT
**
4979968 ACTTAAAA-ATCTA-T-T-ACTCG-TTT-TTTTCACTACTTTGGTTAGTGTTTATTGT
131 ACTTAAAACATCTAGTCTAACTCGTTTTCTTTTCACTAAGTTGGTTAGTGTTTATTGT
*
4980020 TTGTTTGTTTCCTGAGAAAGAGTGAGAATTTCATGTTTGATTTTAGGTAATAGTAGATCAATGTG
1 TTGTTTGTTTCCTGAGAAAGAGTGAGAATTTCATGTTTGATTTTAGGTAAGAGTAGATCAATGTG
* * *
4980085 AAGAGAAATGCGTTAAGCTGTTTAGTTGATGTTGAAGATCTCTGTTCTCGTTGCAGATGTGCTCT
66 AAGAGAAATGCATTAAGCTGTTTAGTTGATGTTGAAGATCTCTGTTCTCATTGCAGATTTGCTCT
*
4980150 ACTTAAAACTTCTAGTCTAACTCGTTTCTTTTTTCTTTTCACTAAGTTGGTTAGTGTTTATTGT
131 ACTTAAAACATCTAGTCTAACTCG------TTTTCTTTTCACTAAGTTGGTTAGTGTTTATTGT
* * *
4980214 TTGTTTGTTTCCAGAGAAAGAGTGAGGATTTCATGTTTGATTTTAGGAAAGAGTAGATCAATGTG
1 TTGTTTGTTTCCTGAGAAAGAGTGAGAATTTCATGTTTGATTTTAGGTAAGAGTAGATCAATGTG
* * *
4980279 AAGAGAAATGCATTAAGCTGTTTAGTTGGTGTTGAAGATCTCTGTTGTAATTGCAGATTTGCTCT
66 AAGAGAAATGCATTAAGCTGTTTAGTTGATGTTGAAGATCTCTGTTCTCATTGCAGATTTGCTCT
4980344 ACTTAAA
131 ACTTAAA
4980351 TCTTCTATTG
Statistics
Matches: 300, Mismatches: 19, Indels: 12
0.91 0.06 0.04
Matches are distributed among these distances:
182 132 0.44
183 4 0.01
184 1 0.00
185 1 0.00
186 5 0.02
193 3 0.01
194 154 0.51
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.42
Consensus pattern (188 bp):
TTGTTTGTTTCCTGAGAAAGAGTGAGAATTTCATGTTTGATTTTAGGTAAGAGTAGATCAATGTG
AAGAGAAATGCATTAAGCTGTTTAGTTGATGTTGAAGATCTCTGTTCTCATTGCAGATTTGCTCT
ACTTAAAACATCTAGTCTAACTCGTTTTCTTTTCACTAAGTTGGTTAGTGTTTATTGT
Found at i:4981475 original size:3 final size:3
Alignment explanation
Indices: 4981467--4981491 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4981457 GAGTTGATAG
4981467 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
4981492 TAAATTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4984809 original size:84 final size:79
Alignment explanation
Indices: 4984671--4984822 Score: 223
Period size: 79 Copynumber: 1.9 Consensus size: 79
4984661 ATGTGGAATC
* *
4984671 GAATATTCGAATTCAATATTTGTTTTTTTTTTAAATTTTTTTAAATTTGTATTTATTAAATTCAA
1 GAATATTCGAACTCAATATTTGTTTTTTTTTTAAATTTTTTTAAATTTGTATTTACTAAATTCAA
4984736 GTATTATCTTATTT
66 GTATTATCTTATTT
* *
4984750 GAATATTCGAACTCATTATTTGTTTTGTTTTTTAAAATTTTATTTTTAATCTTGTATTTACTAAA
1 GAATATTCGAACTCAATATTTGTTTT-TTTTTT-AAA-TTT-TTTTAAAT-TTGTATTTACTAAA
4984815 TTCAAGTA
61 TTCAAGTA
4984823 CTTAGCCGAT
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
79 24 0.38
80 6 0.09
81 3 0.05
82 3 0.05
83 7 0.11
84 21 0.33
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (79 bp):
GAATATTCGAACTCAATATTTGTTTTTTTTTTAAATTTTTTTAAATTTGTATTTACTAAATTCAA
GTATTATCTTATTT
Found at i:4984840 original size:84 final size:79
Alignment explanation
Indices: 4984671--4984841 Score: 218
Period size: 84 Copynumber: 2.1 Consensus size: 79
4984661 ATGTGGAATC
* *
4984671 GAATATTCGAATTCAATATTTGTTTTTTTTTTAAATTTTTTTAAATTTGTATTTATTAAATTCAA
1 GAATATTCGAACTCAATATTTGTTTTTTTTTTAAATTTTTTTAAATTTGTATTTACTAAATTCAA
* **
4984736 GTATTATCTTATTT
66 GTATTAGCCGATTT
* *
4984750 GAATATTCGAACTCATTATTTGTTTTGTTTTTTAAAATTTTATTTTTAATCTTGTATTTACTAAA
1 GAATATTCGAACTCAATATTTGTTTT-TTTTTT-AAA-TTT-TTTTAAAT-TTGTATTTACTAAA
4984815 TTCAAGTACTTAGCCGATTT
61 TTCAAGTA-TTAGCCGATTT
4984835 G-ATATTC
1 GAATATTC
4984842 AATGGATAGT
Statistics
Matches: 79, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
79 24 0.30
80 6 0.08
81 3 0.04
82 3 0.04
83 7 0.09
84 27 0.34
85 9 0.11
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.54
Consensus pattern (79 bp):
GAATATTCGAACTCAATATTTGTTTTTTTTTTAAATTTTTTTAAATTTGTATTTACTAAATTCAA
GTATTAGCCGATTT
Found at i:4985567 original size:87 final size:89
Alignment explanation
Indices: 4985403--4985603 Score: 209
Period size: 89 Copynumber: 2.3 Consensus size: 89
4985393 ATCTTTAATT
* *
4985403 TTTTTAAAAAAAAGTAATTAAGCCATTCTTTTTTTTTGGCATTCAATTGAATACTTGAACTCTCA
1 TTTTTCAAAAAAAGTAATTAAGCCATTCTTTTTTTTT-G-ACTCAATTGAATACTTGAACTCTCA
* *
4985468 AAATGCATAAAAAAT-A-CTCTC-AAA
64 AAATACACAAAAAATGATC-CTCAAAA
* * * *
4985492 TTTATT-AAAAAAAGTAATTAAGCCTTTGCTTTTTTTTT-ACTCAATT-AGGTACTTGAGCTTTC
1 TTT-TTCAAAAAAAGTAATTAAGCCATT-CTTTTTTTTTGACTCAATTGA-ATACTTGAACTCTC
*
4985554 AAAATATACAAAAAATGATCCTCAAAA
63 AAAATACACAAAAAATGATCCTCAAAA
*
4985581 TTTTTCAAAAAAA-CAATTAAGCC
1 TTTTTCAAAAAAAGTAATTAAGCC
4985604 CCTGCTCTTA
Statistics
Matches: 96, Mismatches: 9, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
86 1 0.01
87 31 0.32
88 15 0.16
89 37 0.39
90 12 0.12
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (89 bp):
TTTTTCAAAAAAAGTAATTAAGCCATTCTTTTTTTTTGACTCAATTGAATACTTGAACTCTCAAA
ATACACAAAAAATGATCCTCAAAA
Found at i:4985713 original size:48 final size:46
Alignment explanation
Indices: 4985611--4985715 Score: 108
Period size: 47 Copynumber: 2.3 Consensus size: 46
4985601 GCCCCTGCTC
* * *
4985611 TTATTAAAAATTAGAATTTTTAATAATAAATAATAAATAATAAATT
1 TTATTAAAAATTAGAAATTTTAATAATAAATAATAAACAATAAAAT
* *
4985657 TTA-GAAAAATTATTTAAATTTTAATAA-AAAT-ATAAACAATTTAAAAT
1 TTATTAAAAATTA--GAAATTTTAATAATAAATAATAAACAA--TAAAAT
4985704 TTATTAAAAATT
1 TTATTAAAAATT
4985716 GTAAAAAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
45 15 0.31
46 7 0.15
47 19 0.40
48 7 0.15
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (46 bp):
TTATTAAAAATTAGAAATTTTAATAATAAATAATAAACAATAAAAT
Found at i:4985751 original size:20 final size:19
Alignment explanation
Indices: 4985652--4985757 Score: 65
Period size: 20 Copynumber: 5.4 Consensus size: 19
4985642 AATAAATAAT
* *
4985652 AAATTTTAGAAAAATTATTT
1 AAATTTTATAAAAA-TATTA
4985672 AAATTTTAATAAAAATA-TA
1 AAATTTT-ATAAAAATATTA
* **
4985691 AACAATTTA-AAATTTATTAA
1 AA-ATTTTATAAAAATATT-A
* *
4985711 AAATTGTAAAAAAAT-TGTA
1 AAATTTTATAAAAATAT-TA
4985730 AAATTTTATAAAAATCATTA
1 AAATTTTATAAAAAT-ATTA
*
4985750 AAAATTTA
1 AAATTTTA
4985758 ATGCCCCTAG
Statistics
Matches: 66, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
18 5 0.08
19 24 0.36
20 30 0.45
21 7 0.11
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.39
Consensus pattern (19 bp):
AAATTTTATAAAAATATTA
Found at i:4985753 original size:21 final size:20
Alignment explanation
Indices: 4985652--4985756 Score: 69
Period size: 19 Copynumber: 5.3 Consensus size: 20
4985642 AATAAATAAT
* *
4985652 AAATTTTAGAAAAATTATT-T
1 AAATTTTATAAAAA-TATTAA
4985672 AAATTTTAATAAAAATA-TAA
1 AAATTTT-ATAAAAATATTAA
**
4985692 ACAA-TTTA-AAATTTATTAA
1 A-AATTTTATAAAAATATTAA
* *
4985711 AAATTGTA-AAAAA-ATTGTA
1 AAATTTTATAAAAATATT-AA
4985730 AAATTTTATAAAAATCATTAA
1 AAATTTTATAAAAAT-ATTAA
4985751 AAATTT
1 AAATTT
4985757 AATGCCCCTA
Statistics
Matches: 66, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
18 10 0.15
19 20 0.30
20 18 0.27
21 15 0.23
22 3 0.05
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (20 bp):
AAATTTTATAAAAATATTAA
Found at i:4985753 original size:30 final size:28
Alignment explanation
Indices: 4985668--4985758 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 28
4985658 TAGAAAAATT
*
4985668 ATTT-AAATTTTAATAAAAATA-TAAACA
1 ATTTAAAATTTT-ATAAAAATATTAAAAA
4985695 ATTTAAAA-TTTATTAAAAAT-TGTAAAAAA
1 ATTTAAAATTTTA-TAAAAATAT-T-AAAAA
4985724 ATTGTAAAATTTTATAAAAATCATT-AAAA
1 ATT-TAAAATTTTATAAAAAT-ATTAAAAA
4985753 ATTTAA
1 ATTTAA
4985759 TGCCCCTAGG
Statistics
Matches: 54, Mismatches: 1, Indels: 17
0.75 0.01 0.24
Matches are distributed among these distances:
26 1 0.02
27 14 0.26
28 7 0.13
29 14 0.26
30 12 0.22
31 5 0.09
32 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (28 bp):
ATTTAAAATTTTATAAAAATATTAAAAA
Found at i:4986028 original size:19 final size:19
Alignment explanation
Indices: 4985986--4986028 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
4985976 AGTTCTATAT
* **
4985986 ATTTTATAATATTTTATGA
1 ATTTTATAAAATTTTACAA
*
4986005 TTTTTATAAAATTTTACAA
1 ATTTTATAAAATTTTACAA
4986024 ATTTT
1 ATTTT
4986029 TATTTTTTAT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
ATTTTATAAAATTTTACAA
Found at i:4988221 original size:6 final size:6
Alignment explanation
Indices: 4988207--4988238 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
4988197 ATCGAATAGC
*
4988207 ATATAT ATATGT ATATGT ATATGT ATATGT AT
1 ATATGT ATATGT ATATGT ATATGT ATATGT AT
4988239 TAACAGAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:4991267 original size:39 final size:39
Alignment explanation
Indices: 4991213--4991292 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
4991203 TATGCTAAAT
4991213 TTTACTAAGAATCTTATATACGTACAATAAAGATATGGA
1 TTTACTAAGAATCTTATATACGTACAATAAAGATATGGA
4991252 TTTACTAAGAATCTTATATACGTACAATAAAGATATGGA
1 TTTACTAAGAATCTTATATACGTACAATAAAGATATGGA
4991291 TT
1 TT
4991293 GAAGAGGAGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.35
Consensus pattern (39 bp):
TTTACTAAGAATCTTATATACGTACAATAAAGATATGGA
Found at i:4991772 original size:30 final size:30
Alignment explanation
Indices: 4991736--4991796 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
4991726 GACCTAAAGT
*
4991736 AAATTTTCTCTTATTTTAGAACAACAAATC
1 AAATTTTCTCTTATTCTAGAACAACAAATC
*
4991766 AAATTTTCTCTTATTCTGGAACAACAAATC
1 AAATTTTCTCTTATTCTAGAACAACAAATC
4991796 A
1 A
4991797 TACTTTGGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.38
Consensus pattern (30 bp):
AAATTTTCTCTTATTCTAGAACAACAAATC
Found at i:4991869 original size:20 final size:20
Alignment explanation
Indices: 4991844--4991917 Score: 112
Period size: 20 Copynumber: 3.7 Consensus size: 20
4991834 ATTGAGAAAT
*
4991844 GTATCGATATTTCAGCCAAA
1 GTATCGATACTTCAGCCAAA
* *
4991864 GTATCGATACTTCAGTCAAG
1 GTATCGATACTTCAGCCAAA
*
4991884 GTATCGATATTTCAGCCAAA
1 GTATCGATACTTCAGCCAAA
4991904 GTATCGATACTTCA
1 GTATCGATACTTCA
4991918 TTTAGGGTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (20 bp):
GTATCGATACTTCAGCCAAA
Found at i:4992114 original size:12 final size:12
Alignment explanation
Indices: 4992097--4992121 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4992087 GGTTGCTAAA
4992097 AGTTTTACTCGG
1 AGTTTTACTCGG
4992109 AGTTTTACTCGG
1 AGTTTTACTCGG
4992121 A
1 A
4992122 TTGATTCAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (12 bp):
AGTTTTACTCGG
Found at i:5000400 original size:46 final size:48
Alignment explanation
Indices: 5000323--5000449 Score: 168
Period size: 46 Copynumber: 2.7 Consensus size: 48
5000313 TAAAACATGT
* * *
5000323 ATACTAGCCAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGAC
1 ATACAAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGAC
* * * *
5000371 A-A-GAGCTTGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGAT
1 ATACAAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGAC
*
5000417 ATACAAGCTAGTGTAAGACCTGTCTGGGACATG
1 ATACAAGCTAGTGTAAGACATGTCTGGGACATG
5000450 ACGTTAGCTT
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 39 0.57
47 2 0.03
48 27 0.40
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (48 bp):
ATACAAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGAC
Found at i:5000528 original size:49 final size:49
Alignment explanation
Indices: 5000469--5000599 Score: 158
Period size: 49 Copynumber: 2.7 Consensus size: 49
5000459 TGTTGTGTGT
* * *
5000469 CAGTGTAAGACCTATCTGGGACATGGCATCGACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACAAGGCATCGAC-CTCGATAGATGAAAGC
* * * *
5000518 CAGTGTAAGACCTGTCTGGGATACGGCATC-AGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACAAGGCATCGA-CCTCGATAGATGAAAGC
*
5000567 CAGTGTAAGACCTGTCTGGGACAAGACATCGAC
1 CAGTGTAAGACCTGTCTGGGACAAGGCATCGAC
5000600 TTTGATGTTC
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
48 2 0.03
49 67 0.96
50 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACAAGGCATCGACCTCGATAGATGAAAGC
Found at i:5000583 original size:142 final size:138
Alignment explanation
Indices: 5000331--5000589 Score: 326
Period size: 142 Copynumber: 1.8 Consensus size: 138
5000321 GTATACTAGC
* ** **
5000331 CAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGACAAGAGCTTGTGTAAGACATGTCTGG
1 CAGTGTAAGACATATCTGGGACATGCATCGACACCGAGACAAGAGCCAGTGTAAGACATGTCTGG
*
5000396 GACATGCATCGACCTCGAGATATACAAGCTAGTGTAAGACCTGTCTGGGACATGACGTTAGCTTG
66 GACAGGCATCGACCTCGAGATATACAAGCTAGTGTAAGACCTGTCTGGGACATGACGTTAGCTTG
5000461 TTGTGTGT
131 TTGTGTGT
* ** *
5000469 CAGTGTAAGACCTATCTGGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTAAGACCTGTC
1 CAGTGTAAGACATATCTGGGACAT-GCATCGACACCG--AGACAAGAGCCAGTGTAAGACATGTC
* *
5000534 TGGGATACGGCATC-AGCCTCGATATATGA-AAG-TCAGTGTAAGACCTGTCTGGGACA
63 TGGGACA-GGCATCGA-CCTCGAGATAT-ACAAGCT-AGTGTAAGACCTGTCTGGGACA
5000590 AGACATCGAC
Statistics
Matches: 102, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
138 22 0.22
139 10 0.10
141 29 0.28
142 40 0.39
143 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (138 bp):
CAGTGTAAGACATATCTGGGACATGCATCGACACCGAGACAAGAGCCAGTGTAAGACATGTCTGG
GACAGGCATCGACCTCGAGATATACAAGCTAGTGTAAGACCTGTCTGGGACATGACGTTAGCTTG
TTGTGTGT
Found at i:5008082 original size:13 final size:13
Alignment explanation
Indices: 5008064--5008088 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5008054 CATCATAGGG
5008064 CTATCAATTAAAA
1 CTATCAATTAAAA
5008077 CTATCAATTAAA
1 CTATCAATTAAA
5008089 CATAGATAAA
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:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (13 bp):
CTATCAATTAAAA
Found at i:5014158 original size:22 final size:22
Alignment explanation
Indices: 5014132--5014186 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
5014122 GTCAGGTTGC
5014132 TGTCGTGACATCCTATGGCTGT
1 TGTCGTGACATCCTATGGCTGT
*
5014154 TGTCGTGACATCTTATGGCTGT
1 TGTCGTGACATCCTATGGCTGT
*
5014176 TGTCGCGACAT
1 TGTCGTGACAT
5014187 TAAAAATAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.15, C:0.22, G:0.27, T:0.36
Consensus pattern (22 bp):
TGTCGTGACATCCTATGGCTGT
Found at i:5031085 original size:35 final size:35
Alignment explanation
Indices: 5031045--5031207 Score: 164
Period size: 35 Copynumber: 4.6 Consensus size: 35
5031035 GTATGTACAT
5031045 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * * *
5031080 ATGTGATGTTATATTAAACATGAATATTTGACTAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * * * *
5031115 ATGTGATGTTTTATTGAGCTTGTGTATTAGGTCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * *
5031150 ATATGATGATATATTGTACTTGTATATTTGGCCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
*
5031185 ATGTGATGATATAATGAAACTTG
1 ATGTGATGATATATTG-AACTTG
5031208 AGTATATGGC
Statistics
Matches: 99, Mismatches: 28, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
35 94 0.95
36 5 0.05
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTTGGCCAC
Found at i:5038985 original size:6 final size:6
Alignment explanation
Indices: 5038974--5039247 Score: 207
Period size: 6 Copynumber: 45.3 Consensus size: 6
5038964 AACCAAAATG
5038974 AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC --AATAC TAGTAA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAAT-C -AG-AATC
* * * *
5039022 AGAATT AGAATC AAAATC AGAATT AG-GTGAC AGAATC AGAATC AGTAA-C
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AG-AATC
* *
5039071 AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
*
5039119 A-ATATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT AGTAA-C AGAATC
1 AGA-ATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC AGAATC
* * *
5039167 AGAATC AGAATC A-ATATT AGTAA-C AGAATC AGAATC AGAATC AAAATT
1 AGAATC AGAATC AGA-ATC AG-AATC AGAATC AGAATC AGAATC AGAATC
*
5039215 AG-GTGAC AGAATC AGAATC AGAATC AGAATC AG
1 AGAAT--C AGAATC AGAATC AGAATC AGAATC AG
5039248 TAACNNNNNN
Statistics
Matches: 216, Mismatches: 22, Indels: 60
0.72 0.07 0.20
Matches are distributed among these distances:
4 3 0.01
5 20 0.09
6 173 0.80
7 13 0.06
8 5 0.02
9 2 0.01
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:5039127 original size:60 final size:60
Alignment explanation
Indices: 5039052--5039251 Score: 323
Period size: 60 Copynumber: 3.3 Consensus size: 60
5039042 AATTAGGTGA
*
5039052 CAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 CAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
5039112 CAGAATCA-ATATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 CAGAATCAGA-ATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
* * *
5039172 CAGAATCA-ATATTAGTAACAGAATCAGAATCAGAATCAAAATTAGGTGACAGAATCAGAAT
1 CAGAATCAGA-ATCAGTAACAGAATCAGAATCAGAATCAATATTA-GTAACAGAATCAGAAT
5039233 CAGAATCAGAATCAGTAAC
1 CAGAATCAGAATCAGTAAC
5039252 NNNNNNNNNN
Statistics
Matches: 132, Mismatches: 5, Indels: 5
0.93 0.04 0.04
Matches are distributed among these distances:
59 1 0.01
60 99 0.75
61 31 0.23
62 1 0.01
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.20
Consensus pattern (60 bp):
CAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
Found at i:5040072 original size:108 final size:108
Alignment explanation
Indices: 5039880--5040362 Score: 655
Period size: 108 Copynumber: 4.5 Consensus size: 108
5039870 NNNNNNNNNN
* ** * * *
5039880 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATAAATC-AAGGGTAAAAC
5039944 GGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAACTG
65 GGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAACTG
* * * * *
5039988 AGGGTAAAACGGTAATTCTGTACATCGAGGGTAAAATGGTAATTTTACAAATCGAGGGTAAAATG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATAAATCAAGGGTAAAACG
* * *
5040053 GTAATTGTATAAATTGAGGGTAAAACAGTAATTCTGTAAACTG
66 GTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAACTG
* * * *
5040096 AGGGTAAAACAGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTATAAATCAAGGGTAAAACA
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATAAATCAAGGGTAAAACG
* * *
5040161 GTAATTCTATAAATCGAGGGTAAAACAGCAATTCTGTAAACTA
66 GTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAACTG
** * *
5040204 AGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATTAAGGGTAAAACG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATAAATCAAGGGTAAAACG
* * * * *
5040269 GTAATGCTATAAATCGAGGGTGAAACGGTAATTTTA-AAAATCG
66 GTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAACT-G
*
5040312 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAA
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATAAA
5040363 CCGGGAGTAC
Statistics
Matches: 332, Mismatches: 41, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
107 4 0.01
108 327 0.98
109 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.27
Consensus pattern (108 bp):
AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATAAATCAAGGGTAAAACG
GTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAACTG
Found at i:5040362 original size:27 final size:27
Alignment explanation
Indices: 5039880--5040355 Score: 591
Period size: 27 Copynumber: 17.6 Consensus size: 27
5039870 NNNNNNNNNN
5039880 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTATAAATCG
** *
5039907 AGGGTAAAATAGTAATTCTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTATAAATC-G
5039934 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTATAAATCG
*
5039961 AGGGTAAAACAGTAATTCTATAAA-CTG
1 AGGGTAAAACGGTAATTCTATAAATC-G
* *
5039988 AGGGTAAAACGGTAATTCTGTACATCG
1 AGGGTAAAACGGTAATTCTATAAATCG
* * *
5040015 AGGGTAAAATGGTAATTTTACAAATCG
1 AGGGTAAAACGGTAATTCTATAAATCG
* * *
5040042 AGGGTAAAATGGTAATTGTATAAATTG
1 AGGGTAAAACGGTAATTCTATAAATCG
* *
5040069 AGGGTAAAACAGTAATTCTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTATAAATC-G
* *
5040096 AGGGTAAAACAGTAATTCTATAAATTG
1 AGGGTAAAACGGTAATTCTATAAATCG
* *
5040123 AGGGTAAAACGGTAATTTTATAAATCA
1 AGGGTAAAACGGTAATTCTATAAATCG
*
5040150 AGGGTAAAACAGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTATAAATCG
* * * *
5040177 AGGGTAAAACAGCAATTCTGTAAA-CTA
1 AGGGTAAAACGGTAATTCTATAAATC-G
** *
5040204 AGGGTAAAATAGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTATAAATCG
**
5040231 AGGGTAAAACGGTAATTCTATAAATTA
1 AGGGTAAAACGGTAATTCTATAAATCG
*
5040258 AGGGTAAAACGGTAATGCTATAAATCG
1 AGGGTAAAACGGTAATTCTATAAATCG
* * *
5040285 AGGGTGAAACGGTAATTTTAAAAATCG
1 AGGGTAAAACGGTAATTCTATAAATCG
*
5040312 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTATAAATCG
5040339 AGGGTAAAACGGTAATT
1 AGGGTAAAACGGTAATT
5040356 TTGTAAACCG
Statistics
Matches: 387, Mismatches: 54, Indels: 16
0.85 0.12 0.04
Matches are distributed among these distances:
26 3 0.01
27 381 0.98
28 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.27
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTCTATAAATCG
Found at i:5041596 original size:35 final size:35
Alignment explanation
Indices: 5041557--5041715 Score: 167
Period size: 35 Copynumber: 4.5 Consensus size: 35
5041547 GTATGTACAT
*
5041557 ATGTGATGACATATTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * **
5041592 ATGTGAT-ATTATATTAAACTTGAATATTTGACTGC
1 ATGTGATGA-TATATTGAACTTGTATATTTGGCCAC
* * * * *
5041627 ATGTGATGTTTTATTGAGCTTGTATATTAGGTCAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * *
5041662 ATATGATGATATATTGTACTTGTATATTTGGCCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
*
5041697 ATGTGATGATATAATGAAC
1 ATGTGATGATATATTGAAC
5041716 CTTGAGTATT
Statistics
Matches: 95, Mismatches: 27, Indels: 4
0.75 0.21 0.03
Matches are distributed among these distances:
34 1 0.01
35 94 0.99
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTTGGCCAC
Found at i:5043297 original size:20 final size:20
Alignment explanation
Indices: 5043263--5043303 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
5043253 ATAGAATGGC
*
5043263 ACCTTGGCTCAAGTATCGAT
1 ACCTTGGCCCAAGTATCGAT
* *
5043283 ACCTTGGCCCGAGTATTGAT
1 ACCTTGGCCCAAGTATCGAT
5043303 A
1 A
5043304 TTCGGATTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (20 bp):
ACCTTGGCCCAAGTATCGAT
Found at i:5043454 original size:20 final size:21
Alignment explanation
Indices: 5043408--5043455 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
5043398 TTTCCAGGTG
*
5043408 GTATTGATACTACTTAAAGGAA
1 GTATCGATACTAC-TAAAGGAA
* *
5043430 ATATCGATACTA-TAAAGGCA
1 GTATCGATACTACTAAAGGAA
5043450 GTATCG
1 GTATCG
5043456 TTACCTATGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 12 0.55
22 10 0.45
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (21 bp):
GTATCGATACTACTAAAGGAA
Found at i:5046632 original size:42 final size:42
Alignment explanation
Indices: 5046569--5046738 Score: 207
Period size: 42 Copynumber: 4.0 Consensus size: 42
5046559 ATGAAAATAT
* *
5046569 TTGAGATAGCTTCTGCTATGCATTGGCATTTAGTGTGCGAGA
1 TTGAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGA
* * *
5046611 TTGGGATAGCTTCGACTATGCATTAGCACTTAGCT-TGCGAGA
1 TTGAGATAGCTTCGGCTATGCATTGGCACTTAG-TGTGCGAGA
** *
5046653 TCAAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGTGA
1 TTGAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGA
* * * * *
5046695 TTGAGTTAGCTTCGGCTACGTATTGGCACTTAGTCTACGAGA
1 TTGAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGA
5046737 TT
1 TT
5046739 CCCGAGTAAC
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
41 1 0.01
42 105 0.98
43 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.34
Consensus pattern (42 bp):
TTGAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGA
Found at i:5046706 original size:84 final size:84
Alignment explanation
Indices: 5046572--5046727 Score: 231
Period size: 84 Copynumber: 1.9 Consensus size: 84
5046562 AAAATATTTG
* * * *
5046572 AGATAGCTTCTGCTATGCATTGGCATTTAGTGTGCGAGATTGGGATAGCTTCGACTATGCATTAG
1 AGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATTGAGATAGCTTCGACTACGCATTAG
5046637 CACTTAGCTTGCGAGATCA
66 CACTTAGCTTGCGAGATCA
* * * * *
5046656 AGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGTGATTGAGTTAGCTTCGGCTACGTATTGG
1 AGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATTGAGATAGCTTCGACTACGCATTAG
5046721 CACTTAG
66 CACTTAG
5046728 TCTACGAGAT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 63 1.00
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.33
Consensus pattern (84 bp):
AGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATTGAGATAGCTTCGACTACGCATTAG
CACTTAGCTTGCGAGATCA
Found at i:5046848 original size:32 final size:32
Alignment explanation
Indices: 5046803--5046869 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
5046793 TGAATATGAG
*
5046803 ATTGGTACAATATGGTACAGGTATGTACGGAA
1 ATTGGTACAATATGGTACAGGTATGTACGAAA
*
5046835 ATTGGTACGATATGGTACAGGTATGTACGAAA
1 ATTGGTACAATATGGTACAGGTATGTACGAAA
5046867 ATT
1 ATT
5046870 ATTGAGTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (32 bp):
ATTGGTACAATATGGTACAGGTATGTACGAAA
Found at i:5056141 original size:73 final size:72
Alignment explanation
Indices: 5056046--5056303 Score: 381
Period size: 73 Copynumber: 3.5 Consensus size: 72
5056036 TGGCAATACA
* *
5056046 TGTGAGTACGTGTAAGATCATAGCTCGGCTATGGCATCGTGATGACATGTAAGACCATAGCTGGT
1 TGTGA-TACGTGTAAGACCATAGCTGGGCTATGGCATCGTGATGACATGTAAGACCATAGCTGG-
5056111 CTATGGCAT
64 CTATGGCAT
* * *
5056120 TGTGATATGTGTAAGACCATAGCTGGGTTATGACATCGTGATGACATGTAAGACCATAGCTGGGC
1 TGTGATACGTGTAAGACCATAGCTGGGCTATGGCATCGTGATGACATGTAAGACCATAGCT-GGC
5056185 TATGGCAT
65 TATGGCAT
*
5056193 TGTAATACGTGTAAGACCATAGCTGGGCTATGGCATCGTGATGACATGTAAGACCATAGCTAGGC
1 TGTGATACGTGTAAGACCATAGCTGGGCTATGGCATCGTGATGACATGTAAGACCATAGCT-GGC
5056258 TATGGCAT
65 TATGGCAT
* * ** *
5056266 TGTGATACATGTAGGACCATATTTGGGATATGGCATCG
1 TGTGATACGTGTAAGACCATAGCTGGGCTATGGCATCG
5056304 GGATCGATAT
Statistics
Matches: 167, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
73 160 0.96
74 7 0.04
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (72 bp):
TGTGATACGTGTAAGACCATAGCTGGGCTATGGCATCGTGATGACATGTAAGACCATAGCTGGCT
ATGGCAT
Found at i:5056298 original size:36 final size:37
Alignment explanation
Indices: 5056056--5056303 Score: 322
Period size: 37 Copynumber: 6.8 Consensus size: 37
5056046 TGTGAGTACG
* *
5056056 TGTAAGATCATAGCTCGGCTATGGCATCGTGATGACA
1 TGTAAGACCATAGCTGGGCTATGGCATCGTGATGACA
* * **
5056093 TGTAAGACCATAGCTGGTCTATGGCATTGTGAT-ATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGTGATGACA
* *
5056129 TGTAAGACCATAGCTGGGTTATGACATCGTGATGACA
1 TGTAAGACCATAGCTGGGCTATGGCATCGTGATGACA
* * *
5056166 TGTAAGACCATAGCTGGGCTATGGCATTGTAAT-ACG
1 TGTAAGACCATAGCTGGGCTATGGCATCGTGATGACA
5056202 TGTAAGACCATAGCTGGGCTATGGCATCGTGATGACA
1 TGTAAGACCATAGCTGGGCTATGGCATCGTGATGACA
* *
5056239 TGTAAGACCATAGCTAGGCTATGGCATTGTGAT-ACA
1 TGTAAGACCATAGCTGGGCTATGGCATCGTGATGACA
* ** *
5056275 TGTAGGACCATATTTGGGATATGGCATCG
1 TGTAAGACCATAGCTGGGCTATGGCATCG
5056304 GGATCGATAT
Statistics
Matches: 181, Mismatches: 28, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
36 89 0.49
37 92 0.51
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (37 bp):
TGTAAGACCATAGCTGGGCTATGGCATCGTGATGACA
Found at i:5056358 original size:48 final size:48
Alignment explanation
Indices: 5056275--5056398 Score: 149
Period size: 48 Copynumber: 2.6 Consensus size: 48
5056265 TTGTGATACA
* * *
5056275 TGTAGGACCATATTTGGGATATGGCATCGGGATCGATATGAGATCCCG
1 TGTAAGACCATATCTGGGATATGGCATCGGCATCGATATGAGATCCCG
* * * **
5056323 TGTAAGACCATATCTAGGATATGGCATCTGCATCGATATGTGATTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGGCATCGATATGAGATCCCG
* * *
5056371 TATAAGACCATGTCTGGGACATGGCATC
1 TGTAAGACCATATCTGGGATATGGCATC
5056399 AATGTGAGAC
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 64 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (48 bp):
TGTAAGACCATATCTGGGATATGGCATCGGCATCGATATGAGATCCCG
Found at i:5063737 original size:42 final size:42
Alignment explanation
Indices: 5063673--5063824 Score: 187
Period size: 42 Copynumber: 3.6 Consensus size: 42
5063663 TATTTAAGAG
* * *
5063673 AGCTTCGGCTATGCATTGGCACTTAGTATGCGAGATCGGGAT
1 AGCTTCGGCTATGCATTAGCACTTAGTGTGCGAGATCGAGAT
* *
5063715 AGCTTCGGCTATGCATTAGCACTTAGTGTGTGAGATCAAGAT
1 AGCTTCGGCTATGCATTAGCACTTAGTGTGCGAGATCGAGAT
* * * *
5063757 AGCTTCGACTATGCATTAGCACTTAGTGTGCGTGATTGAGTT
1 AGCTTCGGCTATGCATTAGCACTTAGTGTGCGAGATCGAGAT
* * * *
5063799 AGCTTCAGCTACGTATTGGCACTTAG
1 AGCTTCGGCTATGCATTAGCACTTAG
5063825 CCTGCAAGAT
Statistics
Matches: 94, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 94 1.00
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (42 bp):
AGCTTCGGCTATGCATTAGCACTTAGTGTGCGAGATCGAGAT
Found at i:5063821 original size:84 final size:84
Alignment explanation
Indices: 5063668--5063824 Score: 206
Period size: 84 Copynumber: 1.9 Consensus size: 84
5063658 GAAAATATTT
* * * * *
5063668 AAGAGAGCTTCGGCTATGCATTGGCACTTAGTATGCGAGATCGGGATAGCTTCGGCTATGCATTA
1 AAGAGAGCTTCGACTATGCATTAGCACTTAGTATGCGAGATCGAGATAGCTTCAGCTACGCATTA
5063733 GCACTTAGTGTGTGAGATC
66 GCACTTAGTGTGTGAGATC
* * * * * * *
5063752 AAGATAGCTTCGACTATGCATTAGCACTTAGTGTGCGTGATTGAGTTAGCTTCAGCTACGTATTG
1 AAGAGAGCTTCGACTATGCATTAGCACTTAGTATGCGAGATCGAGATAGCTTCAGCTACGCATTA
5063817 GCACTTAG
66 GCACTTAG
5063825 CCTGCAAGAT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
84 61 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (84 bp):
AAGAGAGCTTCGACTATGCATTAGCACTTAGTATGCGAGATCGAGATAGCTTCAGCTACGCATTA
GCACTTAGTGTGTGAGATC
Found at i:5063937 original size:32 final size:32
Alignment explanation
Indices: 5063900--5063966 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
5063890 TGAATATGAG
5063900 ATTGGTACAAGATGGTACAGGTATGTACGGAA
1 ATTGGTACAAGATGGTACAGGTATGTACGGAA
5063932 ATTGGTACAAGATGGTACAGGTATGTACGGAA
1 ATTGGTACAAGATGGTACAGGTATGTACGGAA
5063964 ATT
1 ATT
5063967 CAATTGAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (32 bp):
ATTGGTACAAGATGGTACAGGTATGTACGGAA
Found at i:5064463 original size:55 final size:55
Alignment explanation
Indices: 5064395--5064555 Score: 238
Period size: 55 Copynumber: 2.9 Consensus size: 55
5064385 TTAGGCTAAG
5064395 GCCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCATGTAAGACCAT
1 GCCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCATGTAAGACCAT
*
5064450 GTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCATGTAAGACCAT
1 GCCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCATGTAAGACCAT
* * * *
5064505 GCCAAGGCATGGCATTGGTGAGTT-C-ATAAGGC-AAGGCTACCATGTCAAGAC
1 GCCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGG-TCCCATGT-AAGAC
5064556 ATGGCAATGG
Statistics
Matches: 98, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
52 4 0.04
53 14 0.14
54 6 0.06
55 74 0.76
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (55 bp):
GCCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCATGTAAGACCAT
Found at i:5064830 original size:16 final size:16
Alignment explanation
Indices: 5064809--5064839 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5064799 ATAAATTTGA
5064809 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
5064825 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
5064840 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:5071894 original size:53 final size:55
Alignment explanation
Indices: 5071765--5071918 Score: 199
Period size: 53 Copynumber: 2.8 Consensus size: 55
5071755 CATTAGGGTT
* *
5071765 CAAGGATACCATGTAAGACCATGTCAATAG-ATGGCATTGATAAGTTACTATAAGG
1 CAAGGATACCATGTAAGACCATGTCAA-GGCATGGCATTGGTAAGTTACTATAAGG
* * *
5071820 CAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTT-C-ATAAGG
1 C-AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTACTATAAGG
* *
5071873 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 CAAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGTT
5071919 TCAAAAGGAT
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
52 4 0.05
53 42 0.49
54 2 0.02
55 34 0.40
56 4 0.05
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (55 bp):
CAAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTACTATAAGG
Found at i:5087034 original size:40 final size:40
Alignment explanation
Indices: 5086990--5087257 Score: 477
Period size: 40 Copynumber: 6.7 Consensus size: 40
5086980 GCTACTTGCT
5086990 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
5087030 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
5087070 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
5087110 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
5087150 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
5087190 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
5087229 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
5087258 CATCCGAATA
Statistics
Matches: 220, Mismatches: 5, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
38 1 0.00
39 34 0.15
40 184 0.84
41 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:5096531 original size:116 final size:116
Alignment explanation
Indices: 5096390--5096614 Score: 441
Period size: 116 Copynumber: 1.9 Consensus size: 116
5096380 TTTGGTTATT
5096390 TTACTAAGAGTAATTATTCTTACTAATATCCCCTAAAAAGTTCCTTATTTTATCACAGTTATATA
1 TTACTAAGAGTAATTATTCTTACTAATATCCCCTAAAAAGTTCCTTATTTTATCACAGTTATATA
5096455 GAGCTCCTAAGCTCATCATCGCATAGGAACTAAAAACTCCACCGAGAAAGG
66 GAGCTCCTAAGCTCATCATCGCATAGGAACTAAAAACTCCACCGAGAAAGG
5096506 TTACTAAGAGTAATTATTCTTACTAATATCCCCTAAAAAGTTCCTTATTTTATCACAGTTATATA
1 TTACTAAGAGTAATTATTCTTACTAATATCCCCTAAAAAGTTCCTTATTTTATCACAGTTATATA
*
5096571 GAGCTCCTAAGCTCATCATCGCATAGGAACTAAAAGCTCCACCG
66 GAGCTCCTAAGCTCATCATCGCATAGGAACTAAAAACTCCACCG
5096615 GGGAAAGTTC
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 108 1.00
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (116 bp):
TTACTAAGAGTAATTATTCTTACTAATATCCCCTAAAAAGTTCCTTATTTTATCACAGTTATATA
GAGCTCCTAAGCTCATCATCGCATAGGAACTAAAAACTCCACCGAGAAAGG
Found at i:5097663 original size:365 final size:366
Alignment explanation
Indices: 5096987--5097715 Score: 1415
Period size: 365 Copynumber: 2.0 Consensus size: 366
5096977 TGATTTATGA
5096987 TTTTGATTGATATATCTTGAATTAAAACATAAGCATTTATACATTGATTGTTTAAAATTTAAGAC
1 TTTTGATTGATATATCTTGAATTAAAACATAAGCATTTATACATTGATTGTTTAAAATTTAAGAC
5097052 ATTAGAGAATCAAGCATGATAAGTTGATTTTTAAGAATTTAAAATCTTAAGTTGTTTCCCCAAAG
66 ATTAGAGAATCAAGCATGATAAGTTGATTTTTAAGAATTTAAAATCTTAAGTTGTTTCCCCAAAG
5097117 TTTAGGTATTACTTTGAGTTGGAATCCACAAGTTTTAAACATCAAAAAGCCATAATTTTTGTGAG
131 TTTAGGTATTACTTTGAGTTGGAATCCACAAGTTTTAAACATCAAAAAGCCATAATTTTTGTGAG
5097182 ATTTTTGAGCCTTTTGAGCATCTATTAATTCTTTCATGCTCACTTTTATTATTGCTTTGAGTGCG
196 ATTTTTGAGCCTTTTGAGCATCTATTAATTCTTTCATGCTCACTTTTATTATTGCTTTGAGTGCG
5097247 TCAGTATTGAACTGTTATTCTAGAACTTGCTTGATTATGCATGTCAAGACCACACCATTTGATTT
261 TCAGTATTGAACTGTTATTCTAGAACTTGCTTGATTATGCATGTCAAGACCACACCATTTGATTT
5097312 GATATGTCAAAATGATTAAGGCACTTAGGATTAACCCACAT
326 GATATGTCAAAATGATTAAGGCACTTAGGATTAACCCACAT
* * *
5097353 TTTTG-TTGATATATCTTGAATTAAAACATAGGCATTTATGCATTGATTGTTTAAACTTTAAGAC
1 TTTTGATTGATATATCTTGAATTAAAACATAAGCATTTATACATTGATTGTTTAAAATTTAAGAC
*
5097417 ATTAGAGAATCAAGCATGATAAGTTGATTTTTAAGAATTTAAAATCTTAGGTTGTTTCCCCAAAG
66 ATTAGAGAATCAAGCATGATAAGTTGATTTTTAAGAATTTAAAATCTTAAGTTGTTTCCCCAAAG
5097482 TTTAGGTATTACTTTGAGTTGGAATCCACAAGTTTTAAACATCAAAAAGCCATAATTTTTGTGAG
131 TTTAGGTATTACTTTGAGTTGGAATCCACAAGTTTTAAACATCAAAAAGCCATAATTTTTGTGAG
5097547 ATTTTTGAGCCTTTTGAGCATCTATTAATTCTTTCATGCTCACTTTTATTATTGCTTTGAGTGCG
196 ATTTTTGAGCCTTTTGAGCATCTATTAATTCTTTCATGCTCACTTTTATTATTGCTTTGAGTGCG
5097612 TCAGTATTGAACTGTTATTCTAGAACTTGCTTGATTATGCATGTCAAGACCACACCATTTGATTT
261 TCAGTATTGAACTGTTATTCTAGAACTTGCTTGATTATGCATGTCAAGACCACACCATTTGATTT
5097677 GATATGTCAAAATGATTAAGGCACTTAGGATTAACCCAC
326 GATATGTCAAAATGATTAAGGCACTTAGGATTAACCCAC
5097716 TCATGCCATG
Statistics
Matches: 359, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
365 354 0.99
366 5 0.01
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (366 bp):
TTTTGATTGATATATCTTGAATTAAAACATAAGCATTTATACATTGATTGTTTAAAATTTAAGAC
ATTAGAGAATCAAGCATGATAAGTTGATTTTTAAGAATTTAAAATCTTAAGTTGTTTCCCCAAAG
TTTAGGTATTACTTTGAGTTGGAATCCACAAGTTTTAAACATCAAAAAGCCATAATTTTTGTGAG
ATTTTTGAGCCTTTTGAGCATCTATTAATTCTTTCATGCTCACTTTTATTATTGCTTTGAGTGCG
TCAGTATTGAACTGTTATTCTAGAACTTGCTTGATTATGCATGTCAAGACCACACCATTTGATTT
GATATGTCAAAATGATTAAGGCACTTAGGATTAACCCACAT
Found at i:5099449 original size:170 final size:170
Alignment explanation
Indices: 5099167--5099506 Score: 680
Period size: 170 Copynumber: 2.0 Consensus size: 170
5099157 ATAATTAAGA
5099167 TGAGTTGATTGCGCGCCTAGACATAAAGTGACAAGATTTTATCGGATTAGGGTGAAACCTAATAA
1 TGAGTTGATTGCGCGCCTAGACATAAAGTGACAAGATTTTATCGGATTAGGGTGAAACCTAATAA
5099232 GAGGATCCATAGATCGAGTTAATGCAACCCTAGGGTGTTAATTAGAAAAAGCTCTCAATTATTCA
66 GAGGATCCATAGATCGAGTTAATGCAACCCTAGGGTGTTAATTAGAAAAAGCTCTCAATTATTCA
5099297 ATCTAAGGATTAGATGTTATTAGTCTTGAATAGGGATAAT
131 ATCTAAGGATTAGATGTTATTAGTCTTGAATAGGGATAAT
5099337 TGAGTTGATTGCGCGCCTAGACATAAAGTGACAAGATTTTATCGGATTAGGGTGAAACCTAATAA
1 TGAGTTGATTGCGCGCCTAGACATAAAGTGACAAGATTTTATCGGATTAGGGTGAAACCTAATAA
5099402 GAGGATCCATAGATCGAGTTAATGCAACCCTAGGGTGTTAATTAGAAAAAGCTCTCAATTATTCA
66 GAGGATCCATAGATCGAGTTAATGCAACCCTAGGGTGTTAATTAGAAAAAGCTCTCAATTATTCA
5099467 ATCTAAGGATTAGATGTTATTAGTCTTGAATAGGGATAAT
131 ATCTAAGGATTAGATGTTATTAGTCTTGAATAGGGATAAT
5099507 AACATAACTT
Statistics
Matches: 170, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
170 170 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (170 bp):
TGAGTTGATTGCGCGCCTAGACATAAAGTGACAAGATTTTATCGGATTAGGGTGAAACCTAATAA
GAGGATCCATAGATCGAGTTAATGCAACCCTAGGGTGTTAATTAGAAAAAGCTCTCAATTATTCA
ATCTAAGGATTAGATGTTATTAGTCTTGAATAGGGATAAT
Found at i:5103944 original size:29 final size:29
Alignment explanation
Indices: 5103911--5103972 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
5103901 AGATCTCTTG
5103911 AAATCAATAAGAAC-AAAGAAAA-AAAATCT
1 AAATC-ATAAGAACGAAAGAAAACAAAA-CT
* *
5103940 AAATCCTAATAACGAAAGAAAACAAAACT
1 AAATCATAAGAACGAAAGAAAACAAAACT
5103969 AAAT
1 AAAT
5103973 TTTACAGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 6 0.21
29 19 0.66
30 4 0.14
ACGTcount: A:0.66, C:0.13, G:0.06, T:0.15
Consensus pattern (29 bp):
AAATCATAAGAACGAAAGAAAACAAAACT
Found at i:5105489 original size:23 final size:24
Alignment explanation
Indices: 5105434--5105489 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
5105424 AGCCTTGTAA
* *
5105434 CGGGAAGCTCACATAGAGCCATTT
1 CGGGAAGCTCACAAAGAGCCATAT
* *
5105458 TGGGAAGCTCATAAAGAGCC-TAT
1 CGGGAAGCTCACAAAGAGCCATAT
5105481 CGGGAAGCT
1 CGGGAAGCT
5105490 TATCCAGGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.20
Consensus pattern (24 bp):
CGGGAAGCTCACAAAGAGCCATAT
Found at i:5109807 original size:43 final size:42
Alignment explanation
Indices: 5109707--5109834 Score: 143
Period size: 43 Copynumber: 3.0 Consensus size: 42
5109697 GTCATTCAAT
* * **
5109707 ATCGATGCCTCTGTCCTAGACA-GAGTCTTATACGAAATCAGA
1 ATCGATGCCTATGTCCCAGACATG-GTCTTATACGAAATCTCA
*
5109749 TAT-GATGCCGATGTCCCAGACATGGTCTTATACGTAAATCTCA
1 -ATCGATGCCTATGTCCCAGACATGGTCTTATACG-AAATCTCA
* * *
5109792 ATCGAGGCCTATGTCCCAGACATGGTCTTACACGATATCTCA
1 ATCGATGCCTATGTCCCAGACATGGTCTTATACGAAATCTCA
5109834 A
1 A
5109835 ATAGTTGGCA
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
42 36 0.49
43 37 0.51
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (42 bp):
ATCGATGCCTATGTCCCAGACATGGTCTTATACGAAATCTCA
Found at i:5120737 original size:56 final size:56
Alignment explanation
Indices: 5120651--5120882 Score: 446
Period size: 56 Copynumber: 4.1 Consensus size: 56
5120641 ACAAGGGATG
5120651 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
5120707 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
5120763 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
5120819 ATGGGCAAAACATGTCATCAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
5120875 ATGGGCAA
1 ATGGGCAA
5120883 TAAACTAATA
Statistics
Matches: 174, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 174 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:5136146 original size:214 final size:215
Alignment explanation
Indices: 5135777--5136211 Score: 863
Period size: 214 Copynumber: 2.0 Consensus size: 215
5135767 ACATACACAC
5135777 AAGATAGCCAAGTCCCTATACATGCCATAACTTAAAGTAATTCTAGTCACAAAATACCGAGATAG
1 AAGATAGCCAAGTCCCTATACATGCCATAACTTAAAGTAATTCTAGTCACAAAATACCGAGATAG
5135842 CTCATTGATAGTGTGAGGCGATCTCTGACGTCCTTATGATTTTTTGAGTTGGCTTTGCGATACAA
66 CTCATTGATAGTGTGAGGCGATCTCTGACGTCCTTATGATTTTTTGAGTTGGCTTTGCGATACAA
5135907 TAAAAAAGAGATAAAAGAAAGGGAGTAAGCATAAAGCTTAGTAACTTTGCATGTAAATAAATAAC
131 TAAAAAAGAGATAAAAGAAAGGGAGTAAGCATAAAGCTTAGTAACTTTGCATGTAAATAAATAAC
5135972 AACATTCTAAATGAATTAT-
196 AACATTCTAAATGAATTATA
5135991 AAGATAGCCAAGTCCCTATACATGCCATAACTTAAAGTAATTCTAGTCACAAAATACCGAGATAG
1 AAGATAGCCAAGTCCCTATACATGCCATAACTTAAAGTAATTCTAGTCACAAAATACCGAGATAG
5136056 CTCATTGATAGTGTGAGGCGATCTCTGACGTCCTTATGATTTTTTGAGTTGGCTTTGCGATACAA
66 CTCATTGATAGTGTGAGGCGATCTCTGACGTCCTTATGATTTTTTGAGTTGGCTTTGCGATACAA
5136121 TAAAAAAGAGATAAAAGAAAGGGAGTAAGCATAAAGCTTAGTAACTTTGCATGTAAATAAATAAC
131 TAAAAAAGAGATAAAAGAAAGGGAGTAAGCATAAAGCTTAGTAACTTTGCATGTAAATAAATAAC
5136186 AACATTCTAAATGAATTATA
196 AACATTCTAAATGAATTATA
5136206 AAGATA
1 AAGATA
5136212 ACCTGAACCT
Statistics
Matches: 220, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
214 214 0.97
215 6 0.03
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (215 bp):
AAGATAGCCAAGTCCCTATACATGCCATAACTTAAAGTAATTCTAGTCACAAAATACCGAGATAG
CTCATTGATAGTGTGAGGCGATCTCTGACGTCCTTATGATTTTTTGAGTTGGCTTTGCGATACAA
TAAAAAAGAGATAAAAGAAAGGGAGTAAGCATAAAGCTTAGTAACTTTGCATGTAAATAAATAAC
AACATTCTAAATGAATTATA
Found at i:5136390 original size:53 final size:54
Alignment explanation
Indices: 5136322--5136527 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 54
5136312 TTCCTTTTTA
* * *
5136322 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
5136375 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
5136429 TAGTTTATCAATGCCATGTCTTGACAT-GTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
5136483 AACTTACCAATGTCATGCCTTGGCATGGTCATACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
5136528 AAACTCTAAT
Statistics
Matches: 121, Mismatches: 29, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 66 0.55
54 36 0.30
55 19 0.16
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:5149476 original size:20 final size:20
Alignment explanation
Indices: 5149439--5149475 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5149429 TCAAACTACT
5149439 TTTTAATTTTTAATTTTTGA
1 TTTTAATTTTTAATTTTTGA
*
5149459 TTTTGATTTTT-ATTTTT
1 TTTTAATTTTTAATTTTT
5149476 TTAGCAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTTAATTTTTAATTTTTGA
Found at i:5167595 original size:46 final size:46
Alignment explanation
Indices: 5167522--5167739 Score: 199
Period size: 46 Copynumber: 4.7 Consensus size: 46
5167512 TATCTTAAGT
* * *
5167522 CGATGCCATGCCCCAAACATGGTCTTACACTGA-CTATCATCTCGCA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACT-ACCTCTCATCTCG-AGGC
* *
5167570 CGATGCATGTCTCAGACATGTCTTACACTACCT-TACGTCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTACCTCT-CATCTCGAGGC
* *** * *
5167616 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTTGCCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTACCTCTCATCTCGAGGC
** *** *
5167662 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTACCTCTCATCTCGAGGC
5167710 CGATGCATGTCCCAGACATGTCTTACACTA
1 CGATGCATGTCCCAGACATGTCTTACACTA
5167740 GCTCACACAC
Statistics
Matches: 143, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
45 3 0.02
46 73 0.51
47 40 0.28
48 27 0.19
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTACCTCTCATCTCGAGGC
Found at i:5167733 original size:140 final size:141
Alignment explanation
Indices: 5167475--5167739 Score: 354
Period size: 140 Copynumber: 1.9 Consensus size: 141
5167465 GATAAGGTGT
* * * * *
5167475 CGATGCCATGTCCCAGACATTGTCTTATACTGGCTCATATCTTAAGTCGATGCCATGCCCCAAAC
1 CGATGCCATGTCCCAGACATTGTCTTACACTAGCTCATACCTCAAGCCGATGCCATGCCCCAAAC
** *
5167540 ATGGTCTTACACTGACTATCATCTCGCAGCCGATGCATGTCTCAGACATGTCTTACACTACCTTA
66 ATGGTCTTACACTGACTATCATAACGCAGCCGATGCATGTCCCAGACATGTCTTACACTACCTTA
5167605 CGTCTCGAGGC
131 CGTCTCGAGGC
* * * *
5167616 CGATG-CATGTCCCAGACA-TGTCTTACACTAGCTCTTGCCTCAATGCCGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATTGTCTTACACTAGCTCATACCTCAA-GCCGATGCCATGCCCCAAA
* * * **
5167679 CATGGTCTTACACTGGCTCTCATAAGGTGGCCGATGCATGTCCCAGACATGTCTTACACTA
65 CATGGTCTTACACTGACTATCATAACGCAGCCGATGCATGTCCCAGACATGTCTTACACTA
5167740 GCTCACACAC
Statistics
Matches: 106, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
139 19 0.18
140 82 0.77
141 5 0.05
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.28
Consensus pattern (141 bp):
CGATGCCATGTCCCAGACATTGTCTTACACTAGCTCATACCTCAAGCCGATGCCATGCCCCAAAC
ATGGTCTTACACTGACTATCATAACGCAGCCGATGCATGTCCCAGACATGTCTTACACTACCTTA
CGTCTCGAGGC
Found at i:5185022 original size:31 final size:31
Alignment explanation
Indices: 5184976--5185050 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
5184966 ACGGTTACTA
*
5184976 GGCCGAAGCCTTTTCATAAATCATATCACTG
1 GGCCAAAGCCTTTTCATAAATCATATCACTG
* * *
5185007 GGCCAAAGCTTTTTCATAAATTATTTCACTG
1 GGCCAAAGCCTTTTCATAAATCATATCACTG
**
5185038 GGCTGAAGCCTTT
1 GGCCAAAGCCTTT
5185051 ACTGTAAACG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (31 bp):
GGCCAAAGCCTTTTCATAAATCATATCACTG
Found at i:5185121 original size:42 final size:42
Alignment explanation
Indices: 5185074--5185165 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
5185064 TAGCCTATAG
* * **
5185074 GCCCATTTCAATATCACATGTAAT-GTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACT-AATAAATGTATGCAA
5185116 GCCCATTTCAATATCACATGAAATACTAATAAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACTAATAAATGTATGCAA
5185158 GCCCATTT
1 GCCCATTT
5185166 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 44 0.98
43 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACTAATAAATGTATGCAA
Found at i:5185362 original size:26 final size:26
Alignment explanation
Indices: 5185310--5185459 Score: 248
Period size: 26 Copynumber: 5.8 Consensus size: 26
5185300 CCTCTTTAAT
5185310 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
5185335 AACTGGGGCATAAACCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
5185361 AACTGGGGCATAAGCCCTTTTCGTTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
5185387 AACTGGGGCATAAGCCGTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
5185413 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
5185439 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
5185460 GCACTTCCTC
Statistics
Matches: 115, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 10 0.09
26 105 0.91
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:5186362 original size:27 final size:27
Alignment explanation
Indices: 5186262--5186345 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
5186252 GGGCATATTC
* *
5186262 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
5186289 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
5186316 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
5186343 GTC
1 GTC
5186346 TTTTTACCTA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:5186414 original size:27 final size:27
Alignment explanation
Indices: 5186397--5186449 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
5186387 GGGTGTTTTG
5186397 GTAAATCTACAAACCAAGGGTATTTCA
1 GTAAATCTACAAACCAAGGGTATTTCA
* * *
5186424 GTAATTTTACAAACCAATGGTATTTC
1 GTAAATCTACAAACCAAGGGTATTTC
5186450 CATAATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (27 bp):
GTAAATCTACAAACCAAGGGTATTTCA
Found at i:5186477 original size:29 final size:27
Alignment explanation
Indices: 5186404--5186728 Score: 145
Period size: 27 Copynumber: 12.0 Consensus size: 27
5186394 TTGGTAAATC
5186404 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
*
5186431 TACAAACCAATGGTATTTCCA-TAATTTT
1 TACAAACCAAGGGTATTT-CAGTAA-TTT
* * ** *
5186459 TAGAAAGTCAAGGGTATTTTTGTAACTT
1 TACAAA-CCAAGGGTATTTCAGTAATTT
** * ** **
5186487 TGTAAATCTGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
*** **
5186514 TACAAATTGAGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* * **
5186541 CACAAACC-AGTGATATTTTGGTAATTT
1 TACAAACCAAG-GGTATTTCAGTAATTT
** * **
5186568 TACAAAGTAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
*** *
5186595 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* * *
5186622 TACAAACCAGGGGTATTTTAGCAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* * * **
5186649 TATAGACTAA-GGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
** * * **
5186675 TACTGATCGAGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
** * *
5186702 TGTAAA-CAAGGGCATTTTAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
5186728 T
1 T
5186729 GTAAATCGAG
Statistics
Matches: 235, Mismatches: 56, Indels: 15
0.77 0.18 0.05
Matches are distributed among these distances:
26 39 0.17
27 166 0.71
28 17 0.07
29 13 0.06
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTCAGTAATTT
Found at i:5186558 original size:54 final size:53
Alignment explanation
Indices: 5186498--5186740 Score: 217
Period size: 54 Copynumber: 4.5 Consensus size: 53
5186488 GTAAATCTGG
* * *
5186498 GGTATTTTGGTAATTTTACAAATTGA-GGGTATTTTGGTAATTTCACAAACCA
1 GGTATTTTGGTAATTTTACAAATCGAGGGGTATTTTGGTAATTTTACAAACAA
* *
5186550 GTGATATTTTGGTAATTTTACAAA--GTAGGGGTATTTTGGTAATTTTACAAATTGAG
1 G-G-TATTTTGGTAATTTTACAAATCG-AGGGGTATTTTGGTAATTTTACAAA--CAA
* * * * * *
5186606 GGTATTTCGGTAATTTTACAAA-CCAGGGGTATTTTAGCAATTTTATAGACTAA
1 GGTATTTTGGTAATTTTACAAATCGAGGGGTATTTTGGTAATTTTACAAAC-AA
** **
5186659 GGTATTTTGGTAATTTTACTGATCGA-GGGTATTTTGGTAATTTTGTAAACAA
1 GGTATTTTGGTAATTTTACAAATCGAGGGGTATTTTGGTAATTTTACAAACAA
* * **
5186711 GGGCATTTTAGTAATTTTGTAAATCGAGGG
1 -GGTATTTTGGTAATTTTACAAATCGAGGG
5186741 TAAAACAGTA
Statistics
Matches: 154, Mismatches: 26, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
52 4 0.03
53 62 0.40
54 86 0.56
55 1 0.01
56 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (53 bp):
GGTATTTTGGTAATTTTACAAATCGAGGGGTATTTTGGTAATTTTACAAACAA
Found at i:5186596 original size:81 final size:81
Alignment explanation
Indices: 5186496--5186701 Score: 288
Period size: 81 Copynumber: 2.6 Consensus size: 81
5186486 TTGTAAATCT
* *
5186496 GGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAGTGATATTTTG
1 GGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAGGGATATTTTA
* *
5186561 GTAATTTTACAAAGTA
66 GCAATTTTACAAACTA
* * *
5186577 GGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTA
1 GGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAGGGATATTTTA
* *
5186642 GCAATTTTATAGACTA
66 GCAATTTTACAAACTA
* ** *
5186658 -AGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTT
1 GGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTT
5186702 TGTAAACAAG
Statistics
Matches: 111, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
80 39 0.35
81 72 0.65
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (81 bp):
GGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAGGGATATTTTA
GCAATTTTACAAACTA
Found at i:5186724 original size:26 final size:26
Alignment explanation
Indices: 5186684--5186733 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
5186674 TTACTGATCG
* *
5186684 AGGGTATTTTGGTAATTTTGTAAACA
1 AGGGCATTTTAGTAATTTTGTAAACA
5186710 AGGGCATTTTAGTAATTTTGTAAA
1 AGGGCATTTTAGTAATTTTGTAAA
5186734 TCGAGGGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.32, C:0.04, G:0.22, T:0.42
Consensus pattern (26 bp):
AGGGCATTTTAGTAATTTTGTAAACA
Found at i:5186750 original size:27 final size:27
Alignment explanation
Indices: 5186720--5186824 Score: 142
Period size: 27 Copynumber: 3.9 Consensus size: 27
5186710 AGGGCATTTT
*
5186720 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
5186747 AGTAATTCTGTAAATCAAGGGTAAAA-
1 AGTAATTCTGTAAATCGAGGGTAAAAC
5186773 ATGGTAATTCTGTAAATCGAGGGTAAAAC
1 A--GTAATTCTGTAAATCGAGGGTAAAAC
*
5186802 -GATAATTCTATAAATCGAGGGTA
1 AG-TAATTCTGTAAATCGAGGGTA
5186825 CTTTGGTAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
26 2 0.03
27 44 0.63
28 24 0.34
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:5186795 original size:55 final size:55
Alignment explanation
Indices: 5186721--5186824 Score: 165
Period size: 55 Copynumber: 1.9 Consensus size: 55
5186711 GGGCATTTTA
* *
5186721 GTAATTTTGTAAATCGAGGGTAAAAC-AGTAATTCTGTAAATCAAGGGTAAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTATAAATCAAGGGTAAAAATG
*
5186776 GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATCAAGGGTA
5186825 CTTTGGTAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
55 44 0.98
56 1 0.02
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (55 bp):
GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAAATG
Found at i:5188519 original size:27 final size:27
Alignment explanation
Indices: 5188391--5188518 Score: 168
Period size: 27 Copynumber: 4.7 Consensus size: 27
5188381 CCAAATTGTT
5188391 TAAAATTACCGAAATACCCCC-AGTTTG
1 TAAAATTACCGAAATACCCCCGA-TTTG
5188418 TAAAATTACCGAAATACCCCCGATTTG
1 TAAAATTACCGAAATACCCCCGATTTG
**
5188445 TAAAATTATTGAAATACCCCCGATTTG
1 TAAAATTACCGAAATACCCCCGATTTG
** **
5188472 TAAAATTACTAAAATACCCCTTATTTG
1 TAAAATTACCGAAATACCCCCGATTTG
* *
5188499 TAAAATTATCAAAATACCCC
1 TAAAATTACCGAAATACCCC
5188519 TGTAGGGTAA
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 91 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.30
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCCCGATTTG
Found at i:5188528 original size:27 final size:27
Alignment explanation
Indices: 5188417--5188531 Score: 72
Period size: 27 Copynumber: 4.3 Consensus size: 27
5188407 CCCCCAGTTT
** ** **
5188417 GTAAAATTACCGAAATACCCCCGATTT
1 GTAAAATTACTAAAATACCCCTTATGG
* * ** **
5188444 GTAAAATTATTGAAATACCCCCGATTT
1 GTAAAATTACTAAAATACCCCTTATGG
**
5188471 GTAAAATTACTAAAATACCCCTTATTT
1 GTAAAATTACTAAAATACCCCTTATGG
5188498 GTAAAATTA-TCAAAATACCCCTGTA-GG
1 GTAAAATTACT-AAAATACCCCT-TATGG
5188525 GTAAAAT
1 GTAAAAT
5188532 GATTGTTTTG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.01
27 75 0.96
28 2 0.03
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.30
Consensus pattern (27 bp):
GTAAAATTACTAAAATACCCCTTATGG
Found at i:5191419 original size:90 final size:90
Alignment explanation
Indices: 5191266--5191434 Score: 223
Period size: 90 Copynumber: 1.9 Consensus size: 90
5191256 TACCAATGCC
* * * *
5191266 ATATCCCAGATATGGCCTTACATGGGATCACAACTCGATGCTAATGCCATGTCCCAGACATGGTC
1 ATATCCCAGATATGGCCTTACATGAGAACACAACTCGATGCCAATGCCATATCCCAGACATGGTC
*
5191331 TTACATGGGATCTCCTATTAAATTT
66 TTACACGGGATCTCCTATTAAATTT
* * ** *
5191356 ATATCCCAGATATGGTCTTACATGATAACACATACT-GATGCCAATGCCATATCCTGGATATGGT
1 ATATCCCAGATATGGCCTTACATGAGAACACA-ACTCGATGCCAATGCCATATCCCAGACATGGT
*
5191420 CTTATACGGGATCTC
65 CTTACACGGGATCTC
5191435 ATCACCCCAA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
90 64 0.96
91 3 0.04
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (90 bp):
ATATCCCAGATATGGCCTTACATGAGAACACAACTCGATGCCAATGCCATATCCCAGACATGGTC
TTACACGGGATCTCCTATTAAATTT
Found at i:5199264 original size:46 final size:46
Alignment explanation
Indices: 5198434--5199241 Score: 1507
Period size: 46 Copynumber: 17.5 Consensus size: 46
5198424 TACATCTCAC
5198434 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
5198480 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
5198526 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
5198572 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
5198618 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
5198664 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
5198710 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
5198756 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
5198802 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
5198848 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
5198894 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
5198940 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
5198986 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
5199032 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
5199078 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
* * * *
5199124 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGTTC-GA--AC-A-TTCGCATCCGTAAGT
5199171 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
5199217 GAACTCGGACTCAACTCAACGAGTT
1 GAACTCGGACTCAACTCAACGAGTT
5199242 TGGATGCTCA
Statistics
Matches: 745, Mismatches: 8, Indels: 18
0.97 0.01 0.02
Matches are distributed among these distances:
42 2 0.00
43 4 0.01
44 2 0.00
45 2 0.00
46 697 0.94
47 28 0.04
48 2 0.00
49 2 0.00
50 4 0.01
51 2 0.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGT
Found at i:5211367 original size:30 final size:30
Alignment explanation
Indices: 5211309--5211367 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
5211299 ATTTTTGGGT
* * **
5211309 CTAGGGGTAAAATGGTTATTTTGTCAAAGC
1 CTAGGGATAAAATGGTCATTTTACCAAAGC
*
5211339 CTAGGGATAGAATGGTCATTTTACCAAAG
1 CTAGGGATAAAATGGTCATTTTACCAAAG
5211368 TTATAATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (30 bp):
CTAGGGATAAAATGGTCATTTTACCAAAGC
Found at i:5211855 original size:46 final size:45
Alignment explanation
Indices: 5211708--5211875 Score: 155
Period size: 46 Copynumber: 3.6 Consensus size: 45
5211698 ATTGTGAGCT
*
5211708 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA-G-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTC--TA-GACGTAGCC
* * *
5211754 AATGTAAGACCATGTCTGGGACATGGCATCAGCAT-TGAGACAGGT-GCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCT-AGAC--GTAGCC
* *
5211802 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCTAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCTAGACGT-AGCC
* *
5211848 AGTGTAAGACATGTCTGGTACCTGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
5211876 GACTACGAGA
Statistics
Matches: 100, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
44 2 0.02
45 3 0.03
46 48 0.48
47 28 0.28
48 19 0.19
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCTAGACGTAGCC
Found at i:5213060 original size:13 final size:13
Alignment explanation
Indices: 5213042--5213069 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5213032 GTGTGAGCCA
5213042 CATGAGCCATCAG
1 CATGAGCCATCAG
5213055 CATGAGCCATCAG
1 CATGAGCCATCAG
5213068 CA
1 CA
5213070 CGAACATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.32, G:0.21, T:0.14
Consensus pattern (13 bp):
CATGAGCCATCAG
Found at i:5222030 original size:16 final size:17
Alignment explanation
Indices: 5221997--5222030 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5221987 TCGGGCAATA
*
5221997 ACCATGCATTTCCAAAC
1 ACCATGCATATCCAAAC
5222014 ACCATGCATAT-CAAAC
1 ACCATGCATATCCAAAC
5222030 A
1 A
5222031 TAGTATACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.41, C:0.32, G:0.06, T:0.21
Consensus pattern (17 bp):
ACCATGCATATCCAAAC
Found at i:5222572 original size:75 final size:75
Alignment explanation
Indices: 5222477--5222648 Score: 283
Period size: 75 Copynumber: 2.3 Consensus size: 75
5222467 AAAGAAAAAT
* * *
5222477 TAGGATTATACCCTAATTAATAGAGAAGGCAAAT-GAAAGGTTAGAAAAATGAATTATATTCTTT
1 TAGGATTATTCCCTTATTAATAGAGAAGGCAAATAGAAA-GTTAGAAAAAAGAATTATATTCTTT
*
5222541 CCAAAATAATA
65 CCAAAAGAATA
*
5222552 TAGGATTATTCTCTTATTAATAGAGAAGGCAAATAGAAAGTTAGAAAAAAGAATTATATTCTTTC
1 TAGGATTATTCCCTTATTAATAGAGAAGGCAAATAGAAAGTTAGAAAAAAGAATTATATTCTTTC
5222617 CAAAAGAATA
66 CAAAAGAATA
5222627 TAGGATTATTCCCTTATTAATA
1 TAGGATTATTCCCTTATTAATA
5222649 TAAAGTTAAA
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
75 86 0.96
76 4 0.04
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (75 bp):
TAGGATTATTCCCTTATTAATAGAGAAGGCAAATAGAAAGTTAGAAAAAAGAATTATATTCTTTC
CAAAAGAATA
Found at i:5222871 original size:137 final size:138
Alignment explanation
Indices: 5222665--5222947 Score: 433
Period size: 137 Copynumber: 2.1 Consensus size: 138
5222655 TAAAAAAAGA
* **
5222665 AATTATATTCTTTCCAAAATAATATTAATTTCCATATCTTTTATATTTTGATTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAA
* ** *
5222730 TATAATTGTTTATATTAATAAATTTGGTAAAATATATACAATTAAAATTTTGTATGAATCAAATT
66 TATAATTATTTATATTAATAAATTCAGTAAAATATATACAATTAAAATTTTATATGAATCAAATT
*
5222795 CATATAAT
131 CACATAAT
* *
5222803 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTC-TTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAA
* * *
5222867 TATAATTATTTATATTAATAAATTCAGTCAAATCTATACAATTAATATTTTATATGAATCAAATT
66 TATAATTATTTATATTAATAAATTCAGTAAAATATATACAATTAAAATTTTATATGAATCAAATT
*
5222932 CACATATT
131 CACATAAT
5222940 AATTATAT
1 AATTATAT
5222948 CTATGTTCTC
Statistics
Matches: 131, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
137 96 0.73
138 35 0.27
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.46
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAA
TATAATTATTTATATTAATAAATTCAGTAAAATATATACAATTAAAATTTTATATGAATCAAATT
CACATAAT
Found at i:5225914 original size:54 final size:54
Alignment explanation
Indices: 5225844--5225976 Score: 212
Period size: 54 Copynumber: 2.5 Consensus size: 54
5225834 GTCATTCAGA
* * *
5225844 GGGATTTAGCCTAGACTAGTAATCCCGACATTGCTATATGAGTTACTACTATGG
1 GGGATTTAGCCTAGACTGGTAATCCCGACATTGCTATATAAGTTACTACTACGG
*
5225898 GGGATTTAGCCTAGACTGGTAATCCCGACATTGCTCTATAAGTTACTACTACGG
1 GGGATTTAGCCTAGACTGGTAATCCCGACATTGCTATATAAGTTACTACTACGG
**
5225952 GAAATTTAGCCTAGACTGGTAATCC
1 GGGATTTAGCCTAGACTGGTAATCC
5225977 TGCCGTAAGA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 73 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (54 bp):
GGGATTTAGCCTAGACTGGTAATCCCGACATTGCTATATAAGTTACTACTACGG
Found at i:5226838 original size:14 final size:14
Alignment explanation
Indices: 5226819--5226846 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5226809 AATTAGGCCA
5226819 TGTTAAATACCATT
1 TGTTAAATACCATT
5226833 TGTTAAATACCATT
1 TGTTAAATACCATT
5226847 GAAGTCTCTA
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:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
TGTTAAATACCATT
Found at i:5231580 original size:46 final size:48
Alignment explanation
Indices: 5231458--5231582 Score: 170
Period size: 46 Copynumber: 2.7 Consensus size: 48
5231448 CATGAGAGCC
*
5231458 AATGTAAGACCATGTCTGGGACATGGCATCGG-TATTAAGACGAGTGCT
1 AATGTAAGACCATGTCTGGGACATGGCATCGGCTATCAAGAC-AGTGCT
* *
5231506 AATGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CAAGA-TGTGTT
1 AATGTAAGACCATGTCTGGGACATGGCATCGGCTATCAAGACAGTGCT
*
5231550 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AATGTAAGACCATGTCTGGGACATGGCATCGGC
5231583 ACCTTACCCC
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
44 12 0.17
45 14 0.20
46 19 0.27
47 16 0.23
48 9 0.13
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
AATGTAAGACCATGTCTGGGACATGGCATCGGCTATCAAGACAGTGCT
Found at i:5233628 original size:22 final size:22
Alignment explanation
Indices: 5233600--5233644 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
5233590 AAGCTCCTAA
*
5233600 AGTGCAAAACCTAGTTTAATCT
1 AGTGCAAAAACTAGTTTAATCT
5233622 AGTGCAAAAACTAGTTTAATCT
1 AGTGCAAAAACTAGTTTAATCT
5233644 A
1 A
5233645 CTACACCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (22 bp):
AGTGCAAAAACTAGTTTAATCT
Found at i:5240988 original size:13 final size:13
Alignment explanation
Indices: 5240972--5240996 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5240962 TGGACTGTCC
5240972 CGTAGGACCGTCA
1 CGTAGGACCGTCA
5240985 CGTAGGACCGTC
1 CGTAGGACCGTC
5240997 GTTAGGGAGA
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:0.20, C:0.32, G:0.32, T:0.16
Consensus pattern (13 bp):
CGTAGGACCGTCA
Found at i:5241685 original size:59 final size:59
Alignment explanation
Indices: 5241603--5241971 Score: 621
Period size: 59 Copynumber: 6.1 Consensus size: 59
5241593 ATTTAGGAAT
*
5241603 ATGAATATACGTTTATCGAACATGCATGATTAAGATAAGAAAGCATTGAAATTTATTGC
1 ATGAATATACGTTTATAGAACATGCATGATTAAGATAAGAAAGCATTGAAATTTATTGC
5241662 ATGAATATACGTTTATAGAACATGCATGATTAAGATAAGAAAGCATTGAAATTTATTGC
1 ATGAATATACGTTTATAGAACATGCATGATTAAGATAAGAAAGCATTGAAATTTATTGC
5241721 ATGAATATACGTTTATAGAACATGCATGATTAAGATAAGAAAGCATTGAAATTTATTGC
1 ATGAATATACGTTTATAGAACATGCATGATTAAGATAAGAAAGCATTGAAATTTATTGC
5241780 ATGAATATACGTTTATAGAACATGCATGATTAAGATAAGAAAGCATTGAAATTTATTGC
1 ATGAATATACGTTTATAGAACATGCATGATTAAGATAAGAAAGCATTGAAATTTATTGC
5241839 ATGAATATACGTTTATAGAACATGCATGATTAAGATAAGAAAGCATTGAAATTTATTGC
1 ATGAATATACGTTTATAGAACATGCATGATTAAGATAAGAAAGCATTGAAATTTATTGC
5241898 ATGAATATACGTTTATAATAAATATTCTTGAACATGCATGATTAAGATAAGAAAGCATTGAAATT
1 ATGAATATACG--T-T--T--ATA-----GAACATGCATGATTAAGATAAGAAAGCATTGAAATT
5241963 TATTGC
54 TATTGC
5241969 ATG
1 ATG
5241972 TTAAAAGGAT
Statistics
Matches: 297, Mismatches: 1, Indels: 12
0.96 0.00 0.04
Matches are distributed among these distances:
59 246 0.83
61 1 0.00
62 1 0.00
64 1 0.00
66 3 0.01
71 45 0.15
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.33
Consensus pattern (59 bp):
ATGAATATACGTTTATAGAACATGCATGATTAAGATAAGAAAGCATTGAAATTTATTGC
Found at i:5241990 original size:71 final size:71
Alignment explanation
Indices: 5241856--5241999 Score: 218
Period size: 71 Copynumber: 2.0 Consensus size: 71
5241846 TACGTTTATA
* * ** *
5241856 GAACATGCATGATTAAGATAAGAAAGCATTGAAATTTATTGCATGAATATACGTTTATAATAAAT
1 GAACATGCATGATTAAGATAAGAAAGCATTGAAATTTATTGCATGAATAAAAGGATAAAATAAAT
5241921 ATTCTT
66 ATTCTT
*
5241927 GAACATGCATGATTAAGATAAGAAAGCATTGAAATTTATTGCATG-TTAAAAGGATAAATATAAA
1 GAACATGCATGATTAAGATAAGAAAGCATTGAAATTTATTGCATGAATAAAAGGATAAA-ATAAA
5241991 TATTCTT
65 TATTCTT
5241998 GA
1 GA
5242000 GGATTAGGTT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 7 0.11
71 59 0.89
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (71 bp):
GAACATGCATGATTAAGATAAGAAAGCATTGAAATTTATTGCATGAATAAAAGGATAAAATAAAT
ATTCTT
Found at i:5259029 original size:43 final size:44
Alignment explanation
Indices: 5258982--5259064 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 44
5258972 TATATGATTG
*
5258982 ATATTGAAATGGAAAAGATGAAAAATG-AATATGAGATGAGAAA
1 ATATTGAAATGGAAAAGATGAAAAATGAAATATGAAATGAGAAA
* * *
5259025 ATATTTAAATGGCAAAGATGAGAAATGAAATATGAAATGA
1 ATATTGAAATGGAAAAGATGAAAAATGAAATATGAAATGA
5259065 TGAATTGAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
43 24 0.69
44 11 0.31
ACGTcount: A:0.54, C:0.01, G:0.22, T:0.23
Consensus pattern (44 bp):
ATATTGAAATGGAAAAGATGAAAAATGAAATATGAAATGAGAAA
Found at i:5271102 original size:18 final size:18
Alignment explanation
Indices: 5271076--5271113 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
5271066 ACTCAGGTTG
*
5271076 CAAAGTTGCGAGCCCATC
1 CAAACTTGCGAGCCCATC
*
5271094 CAAACTTGCGAGCTCATC
1 CAAACTTGCGAGCCCATC
5271112 CA
1 CA
5271114 GAGTTGTGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (18 bp):
CAAACTTGCGAGCCCATC
Found at i:5274413 original size:42 final size:42
Alignment explanation
Indices: 5274308--5274469 Score: 182
Period size: 43 Copynumber: 3.8 Consensus size: 42
5274298 TGATATGTTT
* * *
5274308 TTTCGTGTAAGACCATGTATGGGACGTTGGCATCG-ACTTATGA
1 TTTCATGTAAGACCATGTCTGGGACATTGGCATCGTA-TT-TGA
* *
5274351 TTTACACGTAAGACCATGTCTGGGACATTAGCATCGTATTTGA
1 TTT-CATGTAAGACCATGTCTGGGACATTGGCATCGTATTTGA
* *
5274394 TTTCATGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGA
1 TTTCATGTAAGACCATGTCTGGGACATTGGCATCG-TATTTGA
* * * *
5274437 TTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 TTTCATGTAAGACCATGTCTGGGACATTGGCAT
5274470 TGTACAAGTT
Statistics
Matches: 101, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 28 0.28
43 43 0.43
44 29 0.29
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TTTCATGTAAGACCATGTCTGGGACATTGGCATCGTATTTGA
Found at i:5288250 original size:74 final size:74
Alignment explanation
Indices: 5288152--5288300 Score: 280
Period size: 74 Copynumber: 2.0 Consensus size: 74
5288142 TCTTACGTGA
*
5288152 TTCCAATCGATCGAGCATCCAATGATCTATAAAAGAGAGAAAAATAACTGTGTAAGAACTAATGC
1 TTCCAATCGATCGAGCATCAAATGATCTATAAAAGAGAGAAAAATAACTGTGTAAGAACTAATGC
5288217 TTAGTAAGC
66 TTAGTAAGC
*
5288226 TTCCGATCGATCGAGCATCAAATGATCTATAAAAGAGAGAAAAATAACTGTGTAAGAACTAATGC
1 TTCCAATCGATCGAGCATCAAATGATCTATAAAAGAGAGAAAAATAACTGTGTAAGAACTAATGC
5288291 TTAGTAAGC
66 TTAGTAAGC
5288300 T
1 T
5288301 CGTATGAAGG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (74 bp):
TTCCAATCGATCGAGCATCAAATGATCTATAAAAGAGAGAAAAATAACTGTGTAAGAACTAATGC
TTAGTAAGC
Found at i:5289049 original size:20 final size:20
Alignment explanation
Indices: 5288999--5289062 Score: 83
Period size: 20 Copynumber: 3.1 Consensus size: 20
5288989 TCGAAATGCT
*
5288999 AATAGAGGCACCGTAGTGCA
1 AATAGAGGCACCGAAGTGCA
*
5289019 AATAAAGAGGCATCGAAGTGCA
1 AAT--AGAGGCACCGAAGTGCA
*
5289041 AATAGAGGCACCAAAGTGCA
1 AATAGAGGCACCGAAGTGCA
5289061 AA
1 AA
5289063 CCTGTACAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 20 0.53
22 18 0.47
ACGTcount: A:0.44, C:0.17, G:0.27, T:0.12
Consensus pattern (20 bp):
AATAGAGGCACCGAAGTGCA
Found at i:5294196 original size:32 final size:31
Alignment explanation
Indices: 5294129--5294196 Score: 73
Period size: 32 Copynumber: 2.2 Consensus size: 31
5294119 TTAATCATTG
* * *
5294129 AACTTGACAATTATTCCTATATTGGGGCTTG
1 AACTTGACAATTATTCCTATATTAGGGCCTA
* * *
5294160 AACTTGGCAATTTGTTCCTATGTTAGGGCCTA
1 AACTTGACAA-TTATTCCTATATTAGGGCCTA
5294192 AACTT
1 AACTT
5294197 TAAGGTTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
31 9 0.30
32 21 0.70
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (31 bp):
AACTTGACAATTATTCCTATATTAGGGCCTA
Found at i:5294349 original size:16 final size:17
Alignment explanation
Indices: 5294328--5294360 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
5294318 TTACCAAATT
5294328 TAAACCCGAAAA-AAAA
1 TAAACCCGAAAATAAAA
5294344 TAAACCCGAAAATAAAA
1 TAAACCCGAAAATAAAA
5294361 ATGTGTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.67, C:0.18, G:0.06, T:0.09
Consensus pattern (17 bp):
TAAACCCGAAAATAAAA
Found at i:5296106 original size:17 final size:17
Alignment explanation
Indices: 5296060--5296108 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
5296050 AAAATATGAT
*
5296060 TTTAAAGTAACTAATTA
1 TTTAAAGTAATTAATTA
**
5296077 GATAATAGT-ATTAATTA
1 TTTAA-AGTAATTAATTA
5296094 TTTAAAGTAATTAAT
1 TTTAAAGTAATTAAT
5296109 GATATTATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
16 3 0.12
17 19 0.76
18 3 0.12
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (17 bp):
TTTAAAGTAATTAATTA
Found at i:5296495 original size:27 final size:27
Alignment explanation
Indices: 5296465--5296517 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
5296455 ATTTTAAAGG
5296465 TTCAATTTCCATTATAGGAAGAGACTA
1 TTCAATTTCCATTATAGGAAGAGACTA
5296492 TTCAATTTCCATTATAGGAAGAGACT
1 TTCAATTTCCATTATAGGAAGAGACT
5296518 GACCCCCTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (27 bp):
TTCAATTTCCATTATAGGAAGAGACTA
Found at i:5306395 original size:26 final size:26
Alignment explanation
Indices: 5306359--5306412 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
5306349 CATTTGGAAA
5306359 TCATACCAACAAATTCCAATATTCTT
1 TCATACCAACAAATTCCAATATTCTT
5306385 TCATACCAACAAATTCCAATATTCTT
1 TCATACCAACAAATTCCAATATTCTT
5306411 TC
1 TC
5306413 TTTCTTTCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.28, G:0.00, T:0.35
Consensus pattern (26 bp):
TCATACCAACAAATTCCAATATTCTT
Found at i:5312376 original size:49 final size:49
Alignment explanation
Indices: 5312320--5312502 Score: 188
Period size: 50 Copynumber: 3.7 Consensus size: 49
5312310 CTGGTACGCA
* *
5312320 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTC-GTTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTA-TCGGATACATG
* ** * *
5312369 TAGTAGCCTGCACTTAGTACTACACATGTAACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCGGATACATG
* ** * * * *
5312419 TAGTAGCCAGCACTTAGTACTACACACATGATCGAAGTTATCGGGTACGTA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCGGATACATG
*
5312470 TAGTAGCTTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
5312503 TCACAATAGA
Statistics
Matches: 107, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
49 33 0.31
50 39 0.36
51 35 0.33
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCGGATACATG
Found at i:5312779 original size:27 final size:27
Alignment explanation
Indices: 5312749--5312802 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
5312739 TCATACAACC
*
5312749 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAATAATAATTTAACATTCAATT
* **
5312776 CATGTGATAATAATTTGCCATTCAATT
1 CATGTAATAATAATTTAACATTCAATT
5312803 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (27 bp):
CATGTAATAATAATTTAACATTCAATT
Found at i:5321473 original size:21 final size:21
Alignment explanation
Indices: 5321418--5321460 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
5321408 CTACCAAGAG
5321418 AAAGAAAAAGTAAATTAATAA
1 AAAGAAAAAGTAAATTAATAA
5321439 AAAGAAAAAGTAAATTAATAA
1 AAAGAAAAAGTAAATTAATAA
5321460 A
1 A
5321461 TAATAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (21 bp):
AAAGAAAAAGTAAATTAATAA
Found at i:5327185 original size:18 final size:17
Alignment explanation
Indices: 5327121--5327188 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 17
5327111 ATAAGTGACG
*
5327121 TTTTGAAAATTAATAAC
1 TTTTGAAAATGAATAAC
*
5327138 GTTTTGAAAGA-GTATAAC
1 -TTTTGAAA-ATGAATAAC
*
5327156 TTTGTGATAATGAATAAC
1 TTT-TGAAAATGAATAAC
5327174 ATTTTGAAAATGAAT
1 -TTTTGAAAATGAAT
5327189 GACACGTCCT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
17 4 0.10
18 33 0.80
19 4 0.10
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.38
Consensus pattern (17 bp):
TTTTGAAAATGAATAAC
Found at i:5327978 original size:20 final size:20
Alignment explanation
Indices: 5327953--5327991 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
5327943 ATGTTAGTAA
5327953 ATATTTATAATTGAAAATAT
1 ATATTTATAATTGAAAATAT
*
5327973 ATATTTATAGTTGAAAATA
1 ATATTTATAATTGAAAATA
5327992 AATTATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (20 bp):
ATATTTATAATTGAAAATAT
Found at i:5328024 original size:3 final size:3
Alignment explanation
Indices: 5328018--5328069 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
5328008 TGCTGCTAAA
* * *
5328018 TAT TAT TAT GAT TAT TAT TAT CAT TAT TAT TAC TACT T-T TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA-T TAT
5328064 TAT TAT
1 TAT TAT
5328070 AGTAATTACA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
2 2 0.05
3 34 0.85
4 4 0.10
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:5335167 original size:22 final size:22
Alignment explanation
Indices: 5335142--5335207 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
5335132 AGAACATCCC
5335142 TTCAATTTATAATTAACTTATT
1 TTCAATTTATAATTAACTTATT
* *
5335164 TTC-ACTTACTAA-T---TTAAT
1 TTCAATTTA-TAATTAACTTATT
5335182 TT-AATATTATAATTAACTTATT
1 TTCAAT-TTATAATTAACTTATT
5335204 TTCA
1 TTCA
5335208 GTTAAAACCA
Statistics
Matches: 32, Mismatches: 4, Indels: 15
0.63 0.08 0.29
Matches are distributed among these distances:
18 10 0.31
19 4 0.12
21 5 0.16
22 12 0.38
23 1 0.03
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (22 bp):
TTCAATTTATAATTAACTTATT
Found at i:5337336 original size:140 final size:140
Alignment explanation
Indices: 5337063--5337339 Score: 333
Period size: 140 Copynumber: 2.0 Consensus size: 140
5337053 ACGATAACAA
* * * * *
5337063 TATACATGTACATAATACCATCTCAGATTGCCTAGCAATGATGGCATTCTCAATTTTATTAATCT
1 TATACATGTACATAATACCACCTCAGATTGCCCAGCAACGATGGCATTCTCAATCTAATTAATCT
* * * * * * *
5337128 GTCACCTTGGTTTCCAGACAAAGATGACACACTAAATACAATCTACCATCTTAGGTTGTGTGGCA
66 GTCACCTAGGCTACCAGACAAAGATGACACACTAAATACAATCTACCATCCTAGGTTGTCTAGAA
5337193 ACGATGACGC
131 ACGATGACGC
* * *
5337203 TATACATGTACATAATATCACCTCAGATTGCCCGGCAACGATGGCTTTCTCAATCTAATTAATCT
1 TATACATGTACATAATACCACCTCAGATTGCCCAGCAACGATGGCATTCTCAATCTAATTAATCT
* * ** * *
5337268 GTCACCCTAGGCTACCTGACCAAGATGACTTACTGATTACAATCTACCATCCT-GGTT-TCCTAG
66 GTCA-CCTAGGCTACCAGACAAAGATGACACACTAAATACAATCTACCATCCTAGGTTGT-CTAG
5337331 AAACGATGA
129 AAACGATGA
5337340 TTTTCAATCA
Statistics
Matches: 114, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
139 1 0.01
140 75 0.66
141 38 0.33
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (140 bp):
TATACATGTACATAATACCACCTCAGATTGCCCAGCAACGATGGCATTCTCAATCTAATTAATCT
GTCACCTAGGCTACCAGACAAAGATGACACACTAAATACAATCTACCATCCTAGGTTGTCTAGAA
ACGATGACGC
Found at i:5339888 original size:36 final size:36
Alignment explanation
Indices: 5339841--5339911 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
5339831 AGTAAACTCT
* **
5339841 ATTCAGTTCAGCAATCTTTT-GGATCTATTCTAACTG
1 ATTCAGTTCAGC-AGCTTTTAAAATCTATTCTAACTG
5339877 ATTCAGTTCAGCAGCTTTTAAAATCTATTCTAACT
1 ATTCAGTTCAGCAGCTTTTAAAATCTATTCTAACT
5339912 TATGTGCTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 6 0.19
36 25 0.81
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (36 bp):
ATTCAGTTCAGCAGCTTTTAAAATCTATTCTAACTG
Found at i:5344203 original size:20 final size:19
Alignment explanation
Indices: 5344178--5344228 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
5344168 GTGGGGAGGG
5344178 ATTAATTTATTTTTCTATAA
1 ATTAATTT-TTTTTCTATAA
*
5344198 ATTAA-TTTGTTT-TATAA
1 ATTAATTTTTTTTCTATAA
5344215 AGTTAATTTTTTTT
1 A-TTAATTTTTTTT
5344229 TCAAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 8 0.30
20 5 0.19
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (19 bp):
ATTAATTTTTTTTCTATAA
Found at i:5344215 original size:17 final size:17
Alignment explanation
Indices: 5344186--5344227 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
5344176 GGATTAATTT
*
5344186 ATTTTTCTATAAA-TTA
1 ATTTTTTTATAAAGTTA
5344202 ATTTGTTTTATAAAGTTA
1 ATTT-TTTTATAAAGTTA
5344220 ATTTTTTT
1 ATTTTTTT
5344228 TTCAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 12 0.52
18 7 0.30
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (17 bp):
ATTTTTTTATAAAGTTA
Found at i:5344222 original size:18 final size:16
Alignment explanation
Indices: 5344181--5344227 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
5344171 GGGAGGGATT
* *
5344181 AATTTATTTTTCTATA
1 AATTAATTTTTTTATA
5344197 AATTAATTTGTTTTATA
1 AATTAATTT-TTTTATA
5344214 AAGTTAATTTTTTT
1 AA-TTAATTTTTTT
5344228 TTCAAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 8 0.30
17 12 0.44
18 7 0.26
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (16 bp):
AATTAATTTTTTTATA
Found at i:5346185 original size:19 final size:19
Alignment explanation
Indices: 5346161--5346198 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
5346151 CCATCTTAGT
5346161 TTTCTTGCTAGGCGGTTCA
1 TTTCTTGCTAGGCGGTTCA
5346180 TTTCTTGCTAGGCGGTTCA
1 TTTCTTGCTAGGCGGTTCA
5346199 GCTGTTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.11, C:0.21, G:0.26, T:0.42
Consensus pattern (19 bp):
TTTCTTGCTAGGCGGTTCA
Found at i:5348590 original size:45 final size:45
Alignment explanation
Indices: 5348514--5348688 Score: 226
Period size: 45 Copynumber: 3.9 Consensus size: 45
5348504 CTTTCCTTTC
** * * *
5348514 TGGCTGTGCAGCCTTTTTGGAATGACCCTCATCAGGAATAGTCTT
1 TGGCTGTGCAGCCTTTTCAGAATGACTCTCATCAGGTATACTCTT
* ** * *
5348559 TGACTGTGCAGCCTTTTTGGATTGACTCTCATCAGGTATACTTTT
1 TGGCTGTGCAGCCTTTTCAGAATGACTCTCATCAGGTATACTCTT
*
5348604 TGGCTGTGCAGCCTTTTCAG-ATCGACTCCCATCAGGTATACTCTT
1 TGGCTGTGCAGCCTTTTCAGAAT-GACTCTCATCAGGTATACTCTT
*
5348649 TGGCTGAGCAGCCTTTTCAGAATGACTCTCATCAGGTATA
1 TGGCTGTGCAGCCTTTTCAGAATGACTCTCATCAGGTATA
5348689 GACCCACTTG
Statistics
Matches: 114, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
44 1 0.01
45 111 0.97
46 2 0.02
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (45 bp):
TGGCTGTGCAGCCTTTTCAGAATGACTCTCATCAGGTATACTCTT
Found at i:5349479 original size:47 final size:48
Alignment explanation
Indices: 5349416--5349511 Score: 142
Period size: 47 Copynumber: 2.0 Consensus size: 48
5349406 ATTAAGGAGA
5349416 ATAAATCAGTTATAACTTCAATCAAG-A-CATAACAGATTTTATTAAGC
1 ATAAATCAGTTATAACTTCAATCAAGAAGCATAACAGATTTTA-TAAGC
* *
5349463 ATAAATCAGTTGTAACTTCAATGAAGAAGGCATAACAGATTTTATAAGC
1 ATAAATCAGTTATAACTTCAATCAAGAA-GCATAACAGATTTTATAAGC
5349512 CAACGACACA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 24 0.55
48 1 0.02
49 5 0.11
50 14 0.32
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (48 bp):
ATAAATCAGTTATAACTTCAATCAAGAAGCATAACAGATTTTATAAGC
Found at i:5351543 original size:94 final size:94
Alignment explanation
Indices: 5351382--5351574 Score: 350
Period size: 94 Copynumber: 2.1 Consensus size: 94
5351372 AAAAAGCATC
* *
5351382 CACTAACATGCACTAGCGTAAGGTAGAACACAAAGGATATTAAACTATTAGAGTACCTAAAATAT
1 CACTAACATGCACTAGCGTAAGGTAGAACACAAAGGATATTAAACTATTAGAGCACCAAAAATAT
5351447 TAAGACAATCAGTCAGTTGTAGCATGATT
66 TAAGACAATCAGTCAGTTGTAGCATGATT
* *
5351476 CACTAACATGCACTAGTGTAAGGTAGAGCACAAAGGATATTAAACTATTAGAGCACCAAAAATAT
1 CACTAACATGCACTAGCGTAAGGTAGAACACAAAGGATATTAAACTATTAGAGCACCAAAAATAT
5351541 TAAGACAATCAGTCAGTTGTAGCATGATT
66 TAAGACAATCAGTCAGTTGTAGCATGATT
5351570 CACTA
1 CACTA
5351575 GTCACAAAAC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 95 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (94 bp):
CACTAACATGCACTAGCGTAAGGTAGAACACAAAGGATATTAAACTATTAGAGCACCAAAAATAT
TAAGACAATCAGTCAGTTGTAGCATGATT
Found at i:5353732 original size:22 final size:22
Alignment explanation
Indices: 5353702--5353756 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
5353692 ATATATACCT
*
5353702 AATAGAATTAATTCCAAAATTA
1 AATAAAATTAATTCCAAAATTA
*
5353724 AATAAAATTCATTCCAAAATTA
1 AATAAAATTAATTCCAAAATTA
5353746 AACT-AAATTAA
1 AA-TAAAATTAA
5353757 AAATATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.31
Consensus pattern (22 bp):
AATAAAATTAATTCCAAAATTA
Found at i:5354235 original size:6 final size:6
Alignment explanation
Indices: 5354224--5354270 Score: 62
Period size: 6 Copynumber: 8.0 Consensus size: 6
5354214 AATATTCCAA
*
5354224 ATTTTT ATTTTT ATTTTT ACTTTTT -TATTT -TTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT A-TTTTT ATTTTT ATTTTT ATTTTT ATTTTT
5354271 TTGAAATGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 8 0.22
6 24 0.65
7 5 0.14
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:5354255 original size:15 final size:15
Alignment explanation
Indices: 5354225--5354271 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 15
5354215 ATATTCCAAA
5354225 TTTT-TATTTTTATT
1 TTTTCTATTTTTATT
*
5354239 TTTACT-TTTTTATT
1 TTTTCTATTTTTATT
*
5354253 TTTTTTATTTTTATT
1 TTTTCTATTTTTATT
5354268 TTTT
1 TTTT
5354272 TGAAATGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 15 0.54
15 13 0.46
ACGTcount: A:0.13, C:0.02, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTCTATTTTTATT
Found at i:5354893 original size:45 final size:45
Alignment explanation
Indices: 5354843--5354950 Score: 164
Period size: 45 Copynumber: 2.4 Consensus size: 45
5354833 AGCAGCAGCA
* *
5354843 GTAACAGTAACAATAACAGTATTCAACACACAAAGTG-CTGAATCT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTC-GAATCG
* *
5354888 GTAACAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAATCG
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCG
5354933 GTAACAGTAACAGTAACA
1 GTAACAGTAACAGTAACA
5354951 ATAGTCGGCA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
45 56 0.98
46 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.20
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCG
Found at i:5356059 original size:3 final size:3
Alignment explanation
Indices: 5356051--5356081 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
5356041 TATTAACTTT
5356051 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
5356082 ATATCTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:5356349 original size:20 final size:20
Alignment explanation
Indices: 5356326--5356382 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
5356316 TTAATTTATT
5356326 TTTAATAATAATAATCATAA
1 TTTAATAATAATAATCATAA
*
5356346 TTTAATAAT-ATAAATTATAA
1 TTTAATAATAAT-AATCATAA
5356366 TTTAATAGAATAATAAT
1 TTTAAT--AATAATAAT
5356383 AAATAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.06
20 22 0.69
22 6 0.19
23 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
TTTAATAATAATAATCATAA
Found at i:5357676 original size:2 final size:2
Alignment explanation
Indices: 5357669--5357708 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
5357659 GGTGTAATCA
5357669 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
5357709 ATGGGTTCTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:5357734 original size:3 final size:3
Alignment explanation
Indices: 5357726--5357754 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
5357716 CTGAAAGAGA
5357726 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
5357755 TCTCCTTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:5360921 original size:26 final size:26
Alignment explanation
Indices: 5360892--5360945 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
5360882 ATCCTCTCTC
5360892 GAGCCATATAA-CAGGAAACTCACAAA
1 GAGCCAT-TAATCAGGAAACTCACAAA
* *
5360918 GAGCCATTAATCAGGGAGCTCACAAA
1 GAGCCATTAATCAGGAAACTCACAAA
5360944 GA
1 GA
5360946 TCCTATCGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 3 0.12
26 22 0.88
ACGTcount: A:0.44, C:0.22, G:0.20, T:0.13
Consensus pattern (26 bp):
GAGCCATTAATCAGGAAACTCACAAA
Found at i:5361007 original size:25 final size:24
Alignment explanation
Indices: 5360979--5361055 Score: 64
Period size: 26 Copynumber: 3.0 Consensus size: 24
5360969 CTATATAACG
5360979 GGAAGCTCACACAGAGCCATAATCA
1 GGAAGCTCACA-AGAGCCATAATCA
* * **
5361004 GGAAGTTCACATAGAACTTTTAATCA
1 GGAAGCTCACA-AGAGC-CATAATCA
*
5361030 GGAAGCTCATGAAGAGCCATTAATCA
1 GGAAGCTCA-CAAGAGCCA-TAATCA
5361056 AGAGCTTCAG
Statistics
Matches: 39, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
25 14 0.36
26 24 0.62
27 1 0.03
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (24 bp):
GGAAGCTCACAAGAGCCATAATCA
Found at i:5363940 original size:16 final size:16
Alignment explanation
Indices: 5363916--5363955 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
5363906 ATGTGAATAA
5363916 TATTATTAAAAATTAT
1 TATTATTAAAAATTAT
*
5363932 TATT-TT-TAAATT-T
1 TATTATTAAAAATTAT
5363945 TATTATTAAAA
1 TATTATTAAAA
5363956 TAAAATTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 5
0.74 0.07 0.19
Matches are distributed among these distances:
13 5 0.25
14 7 0.35
15 4 0.20
16 4 0.20
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTATTAAAAATTAT
Found at i:5364100 original size:9 final size:9
Alignment explanation
Indices: 5364075--5364104 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
5364065 TGAAAAATAT
5364075 AATATTTTA
1 AATATTTTA
5364084 AATAATTTTA
1 AAT-ATTTTA
5364094 AATATTTTA
1 AATATTTTA
5364103 AA
1 AA
5364105 AATAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
AATATTTTA
Found at i:5365668 original size:18 final size:18
Alignment explanation
Indices: 5365638--5365679 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
5365628 CCTTTTCAAG
*
5365638 TACATATACAAATATAAA
1 TACATATACAAATACAAA
5365656 TACA-ATACAAAATACAAA
1 TACATATAC-AAATACAAA
5365674 TA-ATAT
1 TACATAT
5365680 GATGAACTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (18 bp):
TACATATACAAATACAAA
Done.