Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 73 of 216
Found at i:22134970 original size:15 final size:16
Alignment explanation
Indices: 22134935--22134973 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
22134925 ATAATTTTAA
*
22134935 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
22134952 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
22134967 ATTTAAT
1 ATTTAAT
22134974 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:22134977 original size:17 final size:18
Alignment explanation
Indices: 22134939--22134978 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
22134929 TTTTAAATTT
*
22134939 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
22134957 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
22134973 TATTAA
1 TATTAA
22134979 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:22135093 original size:15 final size:15
Alignment explanation
Indices: 22135058--22135109 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
22135048 TTAAGAATTT
*
22135058 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22135072 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
22135086 TATTTAATAATAAT-
1 TATTTAATTATAATA
22135100 TATGTTAATT
1 TAT-TTAATT
22135110 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:22135100 original size:120 final size:120
Alignment explanation
Indices: 22134934--22135225 Score: 459
Period size: 120 Copynumber: 2.4 Consensus size: 120
22134924 AATAATTTTA
* * *
22134934 AATTTTATTAAATCATATA-TTTAATTA-AATCATATTTAATATTAATTAT-TTGAAATTT-TCT
1 AATTTTATTAAATTATATATTTTAATTATAAT-ATATTTAATAATAATTATGTT--AATTTATAT
* *
22134995 TTTATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAAT-TTTATTTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTT-TTAAG
22135053 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
22135118 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTTTTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTTTTAAG
22135173 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
22135226 TAAATATGAT
Statistics
Matches: 162, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
119 23 0.14
120 128 0.79
121 11 0.07
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTTTTAAG
Found at i:22135190 original size:59 final size:59
Alignment explanation
Indices: 22135007--22135190 Score: 148
Period size: 59 Copynumber: 3.1 Consensus size: 59
22134997 TATAGTATCA
* *
22135007 TATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAGAATTTTATTAAAT
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAAT
* * * * * * * *
22135066 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-CAGTAT
1 TATATTATGATTTGAGTA-AAT-TCATATAAGAAT-ATTAT-TT-ATTAAGAATTTTATTA-AAT
22135125 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTT-TTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAAGAATATT-ATTTATTAAGAATTTTATTAAAT
22135186 TATAT
1 TATAT
22135191 ATTTTAATTA
Statistics
Matches: 92, Mismatches: 18, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
56 6 0.07
57 10 0.11
58 9 0.10
59 19 0.21
60 7 0.08
61 12 0.13
62 10 0.11
63 13 0.14
64 6 0.07
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (59 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAAT
Found at i:22135208 original size:16 final size:16
Alignment explanation
Indices: 22135187--22135228 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
22135177 TTATTAAATT
*
22135187 ATATATTTTAATTATA
1 ATATATTTTAATAATA
22135203 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
22135218 AT-TATGTTTAA
1 ATATAT-TTTAA
22135229 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:22135213 original size:15 final size:15
Alignment explanation
Indices: 22135178--22135219 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22135168 TTAAGAATTT
*
22135178 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22135192 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
22135206 TATTTAATAATAAT
1 TATTTAATTATAAT
22135220 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:22135339 original size:154 final size:156
Alignment explanation
Indices: 22135162--22135475 Score: 560
Period size: 154 Copynumber: 2.0 Consensus size: 156
22135152 ATAAGAATAT
* *
22135162 TAATTTTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
22135227 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAACAACAATAACAAT
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAACAACAATAACAAT
22135290 AATAATTTACCAAAACAAATTTATGC
131 AATAATTTACCAAAACAAATTTATGC
22135316 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
22135381 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAAT-ATAATCTTATTAAAATTTAAACAACAATAACAA
* *
22135446 TAATCATTTACCAAAACAAATTTCTGC
130 TAATAATTTACCAAAACAAATTTATGC
22135473 TAA
1 TAA
22135476 GGGTATTCTA
Statistics
Matches: 152, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
154 91 0.60
155 2 0.01
157 59 0.39
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAACAACAATAACAAT
AATAATTTACCAAAACAAATTTATGC
Found at i:22135356 original size:18 final size:17
Alignment explanation
Indices: 22135328--22135362 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22135318 ATTATTAAGA
*
22135328 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
22135345 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
22135363 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:22135396 original size:75 final size:75
Alignment explanation
Indices: 22135163--22135398 Score: 194
Period size: 75 Copynumber: 3.1 Consensus size: 75
22135153 TAAGAATATT
* *
22135163 AATTTTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
22135228 AATATGATTA
66 AATATGATTA
* ** * * * * ** * *
22135238 AATTATTTATTATTGATATTAATCTTATTAAAATTTAAACAACAATA-A--CAATAATAATT-TA
1 AATTATTAAGAATT-TTATTAA-ATTA-TATATTTTAATTAA-AATATATTTAATAATAATTATG
*** * *
22135299 CCAAAACA-AATTTA
62 TTTAAATATGA-TTA
22135313 TGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
1 ----AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
22135378 TTTAAATATGATTA
62 TTTAAATATGATTA
22135392 AATTATT
1 AATTATT
22135399 TATTATTGAT
Statistics
Matches: 113, Mismatches: 34, Indels: 28
0.65 0.19 0.16
Matches are distributed among these distances:
74 1 0.01
75 29 0.26
76 27 0.24
77 6 0.05
78 26 0.23
79 23 0.20
80 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:22142353 original size:19 final size:18
Alignment explanation
Indices: 22142312--22142364 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
22142302 TCTCTAATCA
*
22142312 TTATTTTTTGTCGTTTTG
1 TTATTTTTTGTTGTTTTG
* *
22142330 CTATTTGTTTGTTGTTTTT
1 TTATTT-TTTGTTGTTTTG
22142349 TTATTTCTGTTGTTGT
1 TTATTT-T-TTGTTGT
22142365 GTGTGGCTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 5 0.18
19 16 0.57
20 7 0.25
ACGTcount: A:0.06, C:0.06, G:0.17, T:0.72
Consensus pattern (18 bp):
TTATTTTTTGTTGTTTTG
Found at i:22143117 original size:89 final size:89
Alignment explanation
Indices: 22142972--22143424 Score: 681
Period size: 89 Copynumber: 5.1 Consensus size: 89
22142962 ATGAGATCCG
* * * *
22142972 CTATCTACAGTCTGCTCCACTGCAAACTCAAGGAGACGAGGCTGGTGTCTTTGATCTGCTTCGCT
1 CTATCTTCAGTCTGCTCCGCTGCAAACTCAAGGAGGCGAGGCTGGTGTCTTCGATCTGCTTCGCT
* * *
22143037 GCCAATATATGAAGACAAGATCTA
66 GCTAATACAGGAAGACAAGATCTA
* * *
22143061 CTATCTTCAGTCTGCTCCACTGCAAACTTAAGGAGGCGAGGCTGGTGTCTTCGATCTGTTTCGCT
1 CTATCTTCAGTCTGCTCCGCTGCAAACTCAAGGAGGCGAGGCTGGTGTCTTCGATCTGCTTCGCT
* * *
22143126 GCTAATACAAGAAGATAAGACCTA
66 GCTAATACAGGAAGACAAGATCTA
* * * *
22143150 CTATCTTCAGTTTGCTCCGCTGTAAACTAAAAGAGGCGAGGCTGGTGTCTTCGATCTGCTTCGCT
1 CTATCTTCAGTCTGCTCCGCTGCAAACTCAAGGAGGCGAGGCTGGTGTCTTCGATCTGCTTCGCT
22143215 GCTAATACAGGAAGACAAGATCTA
66 GCTAATACAGGAAGACAAGATCTA
* *
22143239 CTATCTTCAGTCTGCTCCGCTGCAAACTCAGGGAGGTGAGGCTGGTGTCTTCGATCTGCTTCGCT
1 CTATCTTCAGTCTGCTCCGCTGCAAACTCAAGGAGGCGAGGCTGGTGTCTTCGATCTGCTTCGCT
*
22143304 GCTAATACAGGAAGACAAGATCTG
66 GCTAATACAGGAAGACAAGATCTA
* * *
22143328 CTATCTTCAGTCTGCTCCGCTGCAAACTCAAGGAGGCAAGGCTGTTGTGTTCGATCTGCTTCGCT
1 CTATCTTCAGTCTGCTCCGCTGCAAACTCAAGGAGGCGAGGCTGGTGTCTTCGATCTGCTTCGCT
* *
22143393 GCTAATACAGAAAGACAAGATCTG
66 GCTAATACAGGAAGACAAGATCTA
22143417 CTATCTTC
1 CTATCTTC
22143425 TTCAATCCAT
Statistics
Matches: 332, Mismatches: 32, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 332 1.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (89 bp):
CTATCTTCAGTCTGCTCCGCTGCAAACTCAAGGAGGCGAGGCTGGTGTCTTCGATCTGCTTCGCT
GCTAATACAGGAAGACAAGATCTA
Found at i:22143215 original size:44 final size:45
Alignment explanation
Indices: 22143071--22143397 Score: 126
Period size: 44 Copynumber: 7.4 Consensus size: 45
22143061 CTATCTTCAG
* * * *
22143071 TCTGCTCCACTGC-AAACTTAAGGAGGCGAGGCTGGTGTCTTCGA
1 TCTGCTTCGCTGCTAAACTAAAAGAGGCGAGGCTGGTGTCTTCGA
* *** * ** *
22143115 TCTGTTTCGCTGCTAATAC-AAGAAGATAAGA-CCTACTATCTTC-A
1 TCTGCTTCGCTGCTAA-ACTAA-AAGAGGCGAGGCTGGTGTCTTCGA
* *
22143159 GTTTGCTCCGCTG-TAAACTAAAAGAGGCGAGGCTGGTGTCTTCGA
1 -TCTGCTTCGCTGCTAAACTAAAAGAGGCGAGGCTGGTGTCTTCGA
* * * ** *
22143204 TCTGCTTCGCTGCTAATAC-AGGAAGA--CAAGATCTACTATCTTC-A
1 TCTGCTTCGCTGCTAA-ACTA-AAAGAGGCGAG-GCTGGTGTCTTCGA
* * ** *
22143248 GTCTGCTCCGCTGC-AAACTCAGGGAGGTGAGGCTGGTGTCTTCGA
1 -TCTGCTTCGCTGCTAAACTAAAAGAGGCGAGGCTGGTGTCTTCGA
* * * * *
22143293 TCTGCTTCGCTGCTAATAC-AGGAAGA--CAAGATCTGCTATCTTC-A
1 TCTGCTTCGCTGCTAA-ACTA-AAAGAGGCGAG-GCTGGTGTCTTCGA
* * * * * *
22143337 GTCTGCTCCGCTGC-AAACTCAAGGAGGCAAGGCTGTTGTGTTCGA
1 -TCTGCTTCGCTGCTAAACTAAAAGAGGCGAGGCTGGTGTCTTCGA
22143382 TCTGCTTCGCTGCTAA
1 TCTGCTTCGCTGCTAA
22143398 TACAGAAAGA
Statistics
Matches: 197, Mismatches: 60, Indels: 51
0.64 0.19 0.17
Matches are distributed among these distances:
43 17 0.09
44 85 0.43
45 78 0.40
46 17 0.09
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (45 bp):
TCTGCTTCGCTGCTAAACTAAAAGAGGCGAGGCTGGTGTCTTCGA
Found at i:22157587 original size:16 final size:16
Alignment explanation
Indices: 22157568--22157599 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
22157558 AATTGGGAAA
22157568 TTAATTAACTACTTAG
1 TTAATTAACTACTTAG
22157584 TTAATTAACTACTTAG
1 TTAATTAACTACTTAG
22157600 AAAATAGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (16 bp):
TTAATTAACTACTTAG
Found at i:22163017 original size:41 final size:41
Alignment explanation
Indices: 22162970--22163052 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
22162960 TATTTAAAAT
*
22162970 TCATTTTCTTTGCATGGTTTTAAAGATCTATCGTAAGAGAA
1 TCATTTTCTTTGCATGATTTTAAAGATCTATCGTAAGAGAA
*
22163011 TCATTTTCTTTGCATGATTTTAAATATCTATCGTAAGAGAA
1 TCATTTTCTTTGCATGATTTTAAAGATCTATCGTAAGAGAA
22163052 T
1 T
22163053 AGATCCAACC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.43
Consensus pattern (41 bp):
TCATTTTCTTTGCATGATTTTAAAGATCTATCGTAAGAGAA
Found at i:22167557 original size:24 final size:24
Alignment explanation
Indices: 22167511--22167557 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
22167501 GAAGAATTGG
* * *
22167511 TGGCTTCGTCCACGACTTGCATGA
1 TGGCTTCGTCCACAACATACATGA
*
22167535 TGGCTTTGTCCACAACATACATG
1 TGGCTTCGTCCACAACATACATG
22167558 GTAGCTTGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (24 bp):
TGGCTTCGTCCACAACATACATGA
Found at i:22168515 original size:19 final size:18
Alignment explanation
Indices: 22168474--22168516 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
22168464 TTTTTTTGTC
*
22168474 ATAAAATAATTAATTTTT
1 ATAAAATAATTAATTTAT
22168492 ATAAAATAATTGAATTGTAT
1 ATAAAATAATT-AATT-TAT
22168512 -TAAAA
1 ATAAAA
22168517 ATTTGAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 11 0.50
19 9 0.41
20 2 0.09
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
ATAAAATAATTAATTTAT
Found at i:22176658 original size:35 final size:37
Alignment explanation
Indices: 22176619--22176708 Score: 118
Period size: 35 Copynumber: 2.6 Consensus size: 37
22176609 GATTTATGAT
* * *
22176619 TTGAATAT-AAAATGAAATTGAAATTGAAATTGA-AA
1 TTGAATATGAAAATGAAAATGAAAATGAAAATGAGAA
22176654 TTGAA-ATGAAAATGAAAATGAAAATGAAAATGAGAA
1 TTGAATATGAAAATGAAAATGAAAATGAAAATGAGAA
22176690 -TG-ATATGAAAATGAAAATG
1 TTGAATATGAAAATGAAAATG
22176709 GGAATGATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
34 3 0.06
35 44 0.90
36 2 0.04
ACGTcount: A:0.57, C:0.00, G:0.18, T:0.26
Consensus pattern (37 bp):
TTGAATATGAAAATGAAAATGAAAATGAAAATGAGAA
Found at i:22176683 original size:6 final size:6
Alignment explanation
Indices: 22176627--22176734 Score: 105
Period size: 6 Copynumber: 18.5 Consensus size: 6
22176617 ATTTGAATAT
* * * *
22176627 AAAATG AAATTG AAATTG AAATTG AAATTG -AAATG AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
* * ** *
22176674 AAAATG AAAATG AGAATG -ATATG AAAATG AAAATG GGAATG -ATATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
*
22176720 AAAATG GAAATG AAA
1 AAAATG AAAATG AAA
22176735 CGAATTACAG
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
5 10 0.12
6 76 0.88
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.22
Consensus pattern (6 bp):
AAAATG
Found at i:22176706 original size:23 final size:23
Alignment explanation
Indices: 22176623--22176732 Score: 109
Period size: 23 Copynumber: 4.8 Consensus size: 23
22176613 TATGATTTGA
*
22176623 ATAT-AAAATGAAATTGA-AATTG
1 ATATGAAAATGAAAATGAGAA-TG
* * *
22176645 AAATTGAAATTG-AAATGAAAATG
1 ATA-TGAAAATGAAAATGAGAATG
*
22176668 AAAATGAAAATGAAAATGAGAATG
1 -ATATGAAAATGAAAATGAGAATG
*
22176692 ATATGAAAATGAAAATGGGAATG
1 ATATGAAAATGAAAATGAGAATG
*
22176715 ATATGAAAATGGAAATGA
1 ATATGAAAATGAAAATGA
22176733 AACGAATTAC
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
22 2 0.03
23 52 0.70
24 20 0.27
ACGTcount: A:0.56, C:0.00, G:0.20, T:0.24
Consensus pattern (23 bp):
ATATGAAAATGAAAATGAGAATG
Found at i:22176720 original size:17 final size:17
Alignment explanation
Indices: 22176651--22176732 Score: 58
Period size: 17 Copynumber: 4.7 Consensus size: 17
22176641 ATTGAAATTG
* *
22176651 AAATTGAAATGAAAATGA
1 AAATGGAAATG-ATATGA
* *
22176669 AAATGAAAATGAAAATGA
1 AAATGGAAATG-ATATGA
* * *
22176687 GAAT-GATATGAAAATGA
1 AAATGGAAATG-ATATGA
*
22176704 AAATGGGAATGATATGA
1 AAATGGAAATGATATGA
22176721 AAATGGAAATGA
1 AAATGGAAATGA
22176733 AACGAATTAC
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
17 30 0.57
18 23 0.43
ACGTcount: A:0.57, C:0.00, G:0.22, T:0.21
Consensus pattern (17 bp):
AAATGGAAATGATATGA
Found at i:22178609 original size:29 final size:26
Alignment explanation
Indices: 22178562--22178631 Score: 72
Period size: 29 Copynumber: 2.6 Consensus size: 26
22178552 TGTGCAAACC
*
22178562 TATATGATATGC-AAGCCCTGATATGTTTA
1 TATATGATGTGCGAA-CCCTGAT-TG--TA
22178591 TATATGATGTGCGAACCCTGATTGTA
1 TATATGATGTGCGAACCCTGATTGTA
*
22178617 -ATATTATGTGCGAAC
1 TATATGATGTGCGAAC
22178632 TCTTAAAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
25 14 0.37
26 2 0.05
28 2 0.05
29 18 0.47
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (26 bp):
TATATGATGTGCGAACCCTGATTGTA
Found at i:22178751 original size:34 final size:34
Alignment explanation
Indices: 22178705--22178782 Score: 122
Period size: 34 Copynumber: 2.3 Consensus size: 34
22178695 GCGAAGCCCT
*
22178705 ATGTGAACCCTATGTTATGCGAATCC-TATGTGAC
1 ATGTGAACCCTATATTATGCGAA-CCATATGTGAC
*
22178739 ATGTGAAGCCTATATTATGCGAACCATATGTGAC
1 ATGTGAACCCTATATTATGCGAACCATATGTGAC
22178773 ATGTGAACCC
1 ATGTGAACCC
22178783 ACGGTTATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
33 2 0.05
34 38 0.95
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (34 bp):
ATGTGAACCCTATATTATGCGAACCATATGTGAC
Found at i:22178791 original size:34 final size:32
Alignment explanation
Indices: 22178705--22178804 Score: 110
Period size: 34 Copynumber: 2.9 Consensus size: 32
22178695 GCGAAGCCCT
22178705 ATGTGAACCCTATGTTATGCGAATCCTATGTGAC
1 ATGTGAACCC-ATGTTATGCGAA-CCTATGTGAC
* *
22178739 ATGTGAAGCCTATATTATGCGAACCATATGTGAC
1 ATGTGAA-CCCATGTTATGCGAACC-TATGTGAC
*
22178773 ATGTGAACCCACGGTTATGTGCGAACCTATGT
1 ATGTGAACCCA-TGTTA--TGCGAACCTATGT
22178805 AATATGCGAG
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
33 5 0.09
34 36 0.64
35 7 0.12
36 8 0.14
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (32 bp):
ATGTGAACCCATGTTATGCGAACCTATGTGAC
Found at i:22187629 original size:42 final size:42
Alignment explanation
Indices: 22187575--22187668 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
22187565 TGTTAACTCA
* * *
22187575 TATGAGTTTCTGTTTAACCCTAATATGTTTTCATTTAGCTCT
1 TATGAGCTTCTGTTTAACCCTAATAGGTTTTCATTTAGCTAT
* * * *
22187617 TTTGAGCTTCTGTTTAACCCTTATGGGTTTTCGTTTAGCTAT
1 TATGAGCTTCTGTTTAACCCTAATAGGTTTTCATTTAGCTAT
22187659 TATGAGCTTC
1 TATGAGCTTC
22187669 CATTCAACCC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.49
Consensus pattern (42 bp):
TATGAGCTTCTGTTTAACCCTAATAGGTTTTCATTTAGCTAT
Found at i:22187678 original size:42 final size:42
Alignment explanation
Indices: 22187601--22187709 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
22187591 ACCCTAATAT
* * ** * *
22187601 GTTTTCATTTAGCTCTTTTGAGCTTCTGTTTAACCCTTATGG
1 GTTTTCATTTAGCTATTATGAGCTTCCATTCAACCCTTACGG
*
22187643 GTTTTCGTTTAGCTATTATGAGCTTCCATTCAACCCTTACGG
1 GTTTTCATTTAGCTATTATGAGCTTCCATTCAACCCTTACGG
22187685 G-TTTCTATTTAGC-ATTTATGAGCTT
1 GTTTTC-ATTTAGCTA-TTATGAGCTT
22187710 TTATTTAGCA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
41 5 0.09
42 52 0.91
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (42 bp):
GTTTTCATTTAGCTATTATGAGCTTCCATTCAACCCTTACGG
Found at i:22192917 original size:31 final size:31
Alignment explanation
Indices: 22192879--22192938 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
22192869 AATGGTCACC
** *
22192879 AAACTATTGGAAAGTTTTCATTTAAGTCAGT
1 AAACTATTCAAAAGTTTTCATTCAAGTCAGT
22192910 AAACTATTCAAAAGTTTTCATTCAAGTCA
1 AAACTATTCAAAAGTTTTCATTCAAGTCA
22192939 TTGGGTTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (31 bp):
AAACTATTCAAAAGTTTTCATTCAAGTCAGT
Found at i:22194589 original size:42 final size:43
Alignment explanation
Indices: 22194529--22194638 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 43
22194519 CATAGGATTC
* * * *
22194529 CGATATGTGATTACGTGTAAGACCATGTTTGGGACATTGGCGT
1 CGATATATGATTACGTGTAAGACCATATCTGGGACAGTGGCGT
* *
22194572 CG-TATATGATTTCGTGTAAGACCTTATCTGGGACAGTGGCGT
1 CGATATATGATTACGTGTAAGACCATATCTGGGACAGTGGCGT
* *
22194614 CGATATTTGATTACATGTAAGACCA
1 CGATATATGATTACGTGTAAGACCA
22194639 CGTCTAGGAC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 36 0.64
43 20 0.36
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.33
Consensus pattern (43 bp):
CGATATATGATTACGTGTAAGACCATATCTGGGACAGTGGCGT
Found at i:22196713 original size:21 final size:21
Alignment explanation
Indices: 22196689--22196738 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
22196679 ATCTCCGGTG
* *
22196689 AGATTAGTTATTGTAGTAGTA
1 AGATTAGATACTGTAGTAGTA
* * *
22196710 AGATTGGATACTGTAGTGGTG
1 AGATTAGATACTGTAGTAGTA
22196731 AGATTAGA
1 AGATTAGA
22196739 ATCAAGGATG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.02, G:0.30, T:0.36
Consensus pattern (21 bp):
AGATTAGATACTGTAGTAGTA
Found at i:22201015 original size:23 final size:23
Alignment explanation
Indices: 22200970--22201025 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
22200960 ACTTTCCAAT
*
22200970 AAAAAACCAAATATAAGAGTACA
1 AAAAAACCAAATAAAAGAGTACA
*
22200993 AAAAATACCAAGTAAAAGA-TACA
1 AAAAA-ACCAAATAAAAGAGTACA
*
22201016 CAAATAACCA
1 -AAAAAACCA
22201026 GTCAAAAGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 13 0.46
24 15 0.54
ACGTcount: A:0.64, C:0.16, G:0.07, T:0.12
Consensus pattern (23 bp):
AAAAAACCAAATAAAAGAGTACA
Found at i:22206966 original size:28 final size:28
Alignment explanation
Indices: 22206912--22206966 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
22206902 AAATAGAAAC
* *
22206912 ATTAAATTTTAAAAATAAAAGTGTAAAT
1 ATTAAATTCTAAAAATAAAAGTATAAAT
* * *
22206940 ATTAAATTCTAAATATATAATTATAAA
1 ATTAAATTCTAAAAATAAAAGTATAAA
22206967 AAATTGAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (28 bp):
ATTAAATTCTAAAAATAAAAGTATAAAT
Found at i:22207245 original size:18 final size:19
Alignment explanation
Indices: 22207219--22207254 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
22207209 GGATTTTAAT
*
22207219 TAAATATATTA-TAAAAAG
1 TAAAAATATTACTAAAAAG
22207237 TAAAAATATTACTAAAAA
1 TAAAAATATTACTAAAAA
22207255 TGGTAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (19 bp):
TAAAAATATTACTAAAAAG
Found at i:22212086 original size:16 final size:15
Alignment explanation
Indices: 22212061--22212090 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
22212051 TTCTCAAAAT
22212061 ATTAATTAATTAATA
1 ATTAATTAATTAATA
22212076 ATTATATTAATTAAT
1 ATTA-ATTAATTAAT
22212091 TTTACACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTAATTAATTAATA
Found at i:22212533 original size:13 final size:14
Alignment explanation
Indices: 22212517--22212553 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
22212507 AATCGGACTC
22212517 GTAAATATTTATT-
1 GTAAATATTTATTA
22212530 GTAAATATTT-TTA
1 GTAAATATTTATTA
*
22212543 ATAAATATTTA
1 GTAAATATTTA
22212554 CGAAGTTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 2 0.10
13 19 0.90
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (14 bp):
GTAAATATTTATTA
Found at i:22212810 original size:35 final size:37
Alignment explanation
Indices: 22212729--22212812 Score: 102
Period size: 35 Copynumber: 2.4 Consensus size: 37
22212719 TGGCATAAGT
*
22212729 GTATATATATTATAAATATTTAAAGTTAAAAAATATA
1 GTATATATATTATAAATATTAAAAGTTAAAAAATATA
* * **
22212766 TTATA-ATATTAT-ACTATTAAAAGTTAAAAGTTA-A
1 GTATATATATTATAAATATTAAAAGTTAAAAAATATA
22212800 GTATATATATTAT
1 GTATATATATTAT
22212813 TATATTATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
34 5 0.12
35 24 0.60
36 7 0.17
37 4 0.10
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (37 bp):
GTATATATATTATAAATATTAAAAGTTAAAAAATATA
Found at i:22212889 original size:25 final size:24
Alignment explanation
Indices: 22212839--22212918 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 24
22212829 GGTAAAAGAA
*
22212839 AAAGAAATAGAAAAAGAAGGAGAG
1 AAAGAAATAGAAAAAGAAGGAAAG
22212863 AAAGAAAT-GAAACAGAGAAGGAAAG
1 AAAGAAATAGAAA-A-AGAAGGAAAG
* * *
22212888 AAA-AAACAAGAAAAAAAAAAGAAAG
1 AAAGAAA-TAG-AAAAAGAAGGAAAG
22212913 AAAGAA
1 AAAGAA
22212919 GGAGAAAAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
23 4 0.09
24 12 0.26
25 23 0.50
26 4 0.09
27 3 0.07
ACGTcount: A:0.72, C:0.03, G:0.23, T:0.03
Consensus pattern (24 bp):
AAAGAAATAGAAAAAGAAGGAAAG
Found at i:22213607 original size:24 final size:24
Alignment explanation
Indices: 22213580--22213626 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
22213570 ATTGAAATGG
22213580 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
22213604 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
22213627 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:22218735 original size:4 final size:4
Alignment explanation
Indices: 22218668--22218759 Score: 64
Period size: 4 Copynumber: 22.5 Consensus size: 4
22218658 TGATAAAGTA
* * * *
22218668 AAAG AAA- AAAG AAAT AGAA- AAAG AATG AGAG AAAG AAAC AAA- ACAGAG
1 AAAG AAAG AAAG AAAG A-AAG AAAG AAAG AAAG AAAG AAAG AAAG A-A-AG
* *
22218716 AAGG AAAG AAATG AAAG AAAG AAAAG AAAA AAAG AAAG AAAG AA
1 AAAG AAAG AAA-G AAAG AAAG -AAAG AAAG AAAG AAAG AAAG AA
22218760 GGAGAAAAGT
Statistics
Matches: 70, Mismatches: 10, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
3 6 0.09
4 51 0.73
5 12 0.17
6 1 0.01
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.03
Consensus pattern (4 bp):
AAAG
Found at i:22218767 original size:21 final size:21
Alignment explanation
Indices: 22218714--22218767 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
22218704 AACAAAACAG
*
22218714 AGAAGGA-AAGAAATGAAAGAA
1 AGAAGGAGAA-AAAAGAAAGAA
*
22218735 AGAA-AAGAAAAAAAGAAAGAA
1 AGAAGGAG-AAAAAAGAAAGAA
22218756 AGAAGGAGAAAA
1 AGAAGGAGAAAA
22218768 GTTGGGGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
20 1 0.04
21 22 0.81
22 4 0.15
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (21 bp):
AGAAGGAGAAAAAAGAAAGAA
Found at i:22219304 original size:24 final size:24
Alignment explanation
Indices: 22219276--22219322 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
22219266 ATTGAAATGA
22219276 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
22219300 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
22219323 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:22219521 original size:41 final size:40
Alignment explanation
Indices: 22219475--22219602 Score: 122
Period size: 41 Copynumber: 3.2 Consensus size: 40
22219465 TTCGACTTCG
22219475 ATTCGATGAGACACTAGGTGTCAATTTATTATTTCGGATTA
1 ATTCGATGAGACACT-GGTGTCAATTTATTATTTCGGATTA
* * * *
22219516 ATTCGATGAGGCACTGGGTGCCAATTTA--CTTT-GGTTTA
1 ATTCGATGAGACACT-GGTGTCAATTTATTATTTCGGATTA
* * *
22219554 A-CCGATGAGACACTGGATGTCAATTTATTACTTCGAATT-
1 ATTCGATGAGACACTGG-TGTCAATTTATTATTTCGGATTA
*
22219593 ATTCAATGAG
1 ATTCGATGAG
22219603 GCATTGGGTG
Statistics
Matches: 68, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
36 2 0.03
37 20 0.29
38 6 0.09
39 6 0.09
40 9 0.13
41 25 0.37
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (40 bp):
ATTCGATGAGACACTGGTGTCAATTTATTATTTCGGATTA
Found at i:22219568 original size:37 final size:40
Alignment explanation
Indices: 22219478--22219581 Score: 115
Period size: 37 Copynumber: 2.6 Consensus size: 40
22219468 GACTTCGATT
* *
22219478 CGATGAGACACTAGGTGTCAATTTATTATTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAATTTA-TATTTCGGATTAATC
* * * *
22219519 CGATGAGGCACTGGGTGCCAATTTA-CTTT-GGTTTAA-C
1 CGATGAGACACTGGGTGTCAATTTATATTTCGGATTAATC
*
22219556 CGATGAGACACTGGATGTCAATTTAT
1 CGATGAGACACTGGGTGTCAATTTAT
22219582 TACTTCGAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
37 22 0.42
38 6 0.11
39 3 0.06
41 22 0.42
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAATTTATATTTCGGATTAATC
Found at i:22219782 original size:20 final size:20
Alignment explanation
Indices: 22219757--22219796 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
22219747 TTGAATATGG
**
22219757 TATGGATAAAGTAATTGCAT
1 TATGGATAAAACAATTGCAT
22219777 TATGGATAAAACAATTGCAT
1 TATGGATAAAACAATTGCAT
22219797 AAATGAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.33
Consensus pattern (20 bp):
TATGGATAAAACAATTGCAT
Found at i:22223619 original size:16 final size:19
Alignment explanation
Indices: 22223592--22223629 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
22223582 ATTAATTAGA
22223592 TAAATGAATTTT-TCAA-T
1 TAAATGAATTTTCTCAACT
22223609 TAAAT-AATTTTCTCAACT
1 TAAATGAATTTTCTCAACT
22223627 TAA
1 TAA
22223630 TTCTAATTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 9 0.47
18 4 0.21
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.45
Consensus pattern (19 bp):
TAAATGAATTTTCTCAACT
Found at i:22231012 original size:161 final size:161
Alignment explanation
Indices: 22230747--22231068 Score: 635
Period size: 161 Copynumber: 2.0 Consensus size: 161
22230737 AAGTTAGCTG
22230747 AACCTAGTTGCAATAATATCAAAAACATAAAAATTACAAGAAACGAGTAGGAAAATCACTTACAT
1 AACCTAGTTGCAATAATATCAAAAACATAAAAATTACAAGAAACGAGTAGGAAAATCACTTACAT
22230812 GCAAGAAGAAAATTAAAGCCGAAGCTTCAAGGTCCTCTAATGGTGGTTCGACTTTGGAAAATGAA
66 GCAAGAAGAAAATTAAAGCCGAAGCTTCAAGGTCCTCTAATGGTGGTTCGACTTTGGAAAATGAA
22230877 AAGAATGAAAGAGATGAAGCTTATTTTCTTC
131 AAGAATGAAAGAGATGAAGCTTATTTTCTTC
*
22230908 AACCTAGTTGCAATAATATCAAAAACATAAAAATTACAAGAAACGGGTAGGAAAATCACTTACAT
1 AACCTAGTTGCAATAATATCAAAAACATAAAAATTACAAGAAACGAGTAGGAAAATCACTTACAT
22230973 GCAAGAAGAAAATTAAAGCCGAAGCTTCAAGGTCCTCTAATGGTGGTTCGACTTTGGAAAATGAA
66 GCAAGAAGAAAATTAAAGCCGAAGCTTCAAGGTCCTCTAATGGTGGTTCGACTTTGGAAAATGAA
22231038 AAGAATGAAAGAGATGAAGCTTATTTTCTTC
131 AAGAATGAAAGAGATGAAGCTTATTTTCTTC
22231069 TTTTGTTTTA
Statistics
Matches: 160, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
161 160 1.00
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.24
Consensus pattern (161 bp):
AACCTAGTTGCAATAATATCAAAAACATAAAAATTACAAGAAACGAGTAGGAAAATCACTTACAT
GCAAGAAGAAAATTAAAGCCGAAGCTTCAAGGTCCTCTAATGGTGGTTCGACTTTGGAAAATGAA
AAGAATGAAAGAGATGAAGCTTATTTTCTTC
Found at i:22234189 original size:23 final size:23
Alignment explanation
Indices: 22234162--22234223 Score: 61
Period size: 25 Copynumber: 2.6 Consensus size: 23
22234152 TTTAATTTAA
**
22234162 TATTTAATAATTTCATATATTTT
1 TATTTAATAATTTCATATATAAT
* *
22234185 TATTTACTAAAATTTTATATATAAT
1 TATTTA--ATAATTTCATATATAAT
22234210 TATCTTAATAATTT
1 TAT-TTAATAATTT
22234224 TTTATGTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 6 0.19
24 6 0.19
25 16 0.52
26 3 0.10
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (23 bp):
TATTTAATAATTTCATATATAAT
Found at i:22235294 original size:22 final size:22
Alignment explanation
Indices: 22235234--22235291 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
22235224 AATCTTTAAG
22235234 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
22235253 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
22235275 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
22235292 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:22236860 original size:25 final size:26
Alignment explanation
Indices: 22236826--22236879 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
22236816 ATGATAAGAG
* *
22236826 TTTTAGTAAGTAACAT-TTTTTAAGT
1 TTTTAGTAAGGAACATATTTTTAAAT
* *
22236851 TTTTATTAAGGATCATATTTTTAAAT
1 TTTTAGTAAGGAACATATTTTTAAAT
22236877 TTT
1 TTT
22236880 CGACATTAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.31, C:0.04, G:0.09, T:0.56
Consensus pattern (26 bp):
TTTTAGTAAGGAACATATTTTTAAAT
Found at i:22242452 original size:88 final size:88
Alignment explanation
Indices: 22242214--22242455 Score: 349
Period size: 88 Copynumber: 2.8 Consensus size: 88
22242204 ATTAGTGAAG
* * *
22242214 ATAGCAGATCTTGCCTTCTTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCACTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTG
***
22242279 GGTTGTAGCAGAGTTGGTTAAAA
66 GGTTGTAGCAGAGCAAGTTAAAA
* *
22242302 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACTAGCTTTACCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTG
*
22242367 GGTTGTAGCGGAGCAAGTTAAAA
66 GGTTGTAGCAGAGCAAGTTAAAA
* * * * * *
22242390 ATAGCAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCGATGACCCCAACCCTATCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTG
22242455 G
66 G
22242456 ACAGCAGTAG
Statistics
Matches: 137, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 137 1.00
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (88 bp):
ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTG
GGTTGTAGCAGAGCAAGTTAAAA
Found at i:22242492 original size:44 final size:44
Alignment explanation
Indices: 22242443--22242564 Score: 176
Period size: 44 Copynumber: 2.8 Consensus size: 44
22242433 TGACCCCAAC
*
22242443 CCTATCTCCCTGGACAGCAGTAGAATAGGTTGAAGATTGT-AAGT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAA-T
*
22242487 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *
22242531 CCTATCTCCCT-GAGCAACAGTGGAGTAGGTTGAA
1 CCTATCTCCCTGGA-CAGCAGTGGAATAGGTTGAA
22242565 AATAGCAGAT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
43 1 0.01
44 68 0.96
45 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (44 bp):
CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:22242686 original size:50 final size:50
Alignment explanation
Indices: 22242618--22242735 Score: 112
Period size: 50 Copynumber: 2.4 Consensus size: 50
22242608 AAGACATCAG
* * * * **
22242618 TCTTATCGCCTTGACGTTGCAATGGA-AAAGATTGAAGCCACAACGGTGAA
1 TCTTATCTCCCTGGCGTTGCAACGGAGAAA-ATTGAAGCCACAACGACGAA
* * * * * *
22242668 TCTTATTTCCGTGGCGTTGTAGCGGAGCAAATTGAAGCCACGACGACGAA
1 TCTTATCTCCCTGGCGTTGCAACGGAGAAAATTGAAGCCACAACGACGAA
22242718 TCTTATCTCCCTGGCGTT
1 TCTTATCTCCCTGGCGTT
22242736 AAGGCTTGGA
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
50 52 0.96
51 2 0.04
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (50 bp):
TCTTATCTCCCTGGCGTTGCAACGGAGAAAATTGAAGCCACAACGACGAA
Found at i:22243115 original size:44 final size:45
Alignment explanation
Indices: 22243059--22243177 Score: 140
Period size: 45 Copynumber: 2.7 Consensus size: 45
22243049 CGCATCTAGT
22243059 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGC-AAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-AGCGAA-C
* * *
22243103 CTTATC-CTCCTGAAGTTGTAGT-GAGACAGACTGAAGATGGCGAAT
1 CTTATCTC-CCTGAAGTTGCAGTGGAG-CAGACTGAAGATAGCGAAC
22243148 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA
22243178 TTAAAGCCAA
Statistics
Matches: 64, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
43 4 0.06
44 25 0.39
45 28 0.44
46 7 0.11
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAAC
Found at i:22243164 original size:45 final size:44
Alignment explanation
Indices: 22243056--22243435 Score: 208
Period size: 44 Copynumber: 8.7 Consensus size: 44
22243046 GATCGCATCT
22243056 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* * *
22243100 AGCCTTATC-CTCCTGAAGTTGTAGT-GAGACAGACTGAAG-ATGGCGA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGACT-AAGTA-AGC-A
* * *
22243146 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-TA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCA
* * ** * *
22243190 A-TCCTATCTCCCTGAATTTGCAGTGGAGTGGATTAA--AATCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
*** * * * * * *
22243231 CAGATCTTATCTTTTTGAAGTTGCAG-AGAGCATA-T-CG-CATCG
1 -AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* * * * *
22243273 GGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACCCAAGAAAGCG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAGTAAGCA
* * *
22243318 AGTATTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGCA
* * * * * *
22243363 AGTCTTATCCCCCTGAAATTGTAGTGGGGCAGACTAAATAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* *** * *
22243407 AATCCCGTCTCCCTAAAGTTGTAGTGGAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAG
22243436 TGAATTAGAA
Statistics
Matches: 257, Mismatches: 59, Indels: 40
0.72 0.17 0.11
Matches are distributed among these distances:
40 20 0.08
41 8 0.03
42 5 0.02
43 10 0.04
44 105 0.41
45 102 0.40
46 6 0.02
47 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
Found at i:22243203 original size:44 final size:43
Alignment explanation
Indices: 22242928--22243400 Score: 177
Period size: 44 Copynumber: 10.9 Consensus size: 43
22242918 GAAGACGGTG
*
22242928 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* * * * ** *
22242972 AATCCTATCTCCCTAAAGTCGCAGTAGAGTGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCA-AT
* * ** * *
22243016 GATCTTATCTCTCTGAAGTTGCA-AAGAGCAGA-T--CGCATCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA-AT
* * * *
22243056 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-T
* * * *
22243099 AAGCCTTATC-CTCCTGAAGTTGTAGT-GAGACAGACTGAAGATGGC--G
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGA-TTAA-A--GCAAT
22243145 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* * ** *
22243189 AATCCTATCTCCCTGAATTTGCAGTGGAGTGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCA-AT
* *** * **
22243233 GATCTTATCTTTTTGAAGTTGCAG-AGAGC--A-TATCGC-AT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
** * *** * *
22243271 CGGGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACCCAAGAAAGCG
1 --AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA--T
* * * * *
22243318 AGTATTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
* * * * *
22243361 CAAGTCTTATCCCCCTGAAATTGTAGTGGGGCAGACTAAA
1 -AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
22243401 TAAACAAATC
Statistics
Matches: 315, Mismatches: 80, Indels: 67
0.68 0.17 0.15
Matches are distributed among these distances:
37 1 0.00
39 4 0.01
40 40 0.13
41 13 0.04
42 3 0.01
43 18 0.06
44 127 0.40
45 100 0.32
46 7 0.02
47 1 0.00
49 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
Found at i:22243288 original size:217 final size:217
Alignment explanation
Indices: 22242913--22243306 Score: 662
Period size: 217 Copynumber: 1.8 Consensus size: 217
22242903 GCAATTTAAA
* *
22242913 AGACTGAAGACGGTGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
1 AGACTGAAGACGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
22242978 ATCTCCCTAAAGTCGCAGTAGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAAAGA
66 ATCTCCCTAAAGTCGCAGTAGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAAAGA
* *
22243043 GCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGCCTTAT
131 GCAGATCGCATCGAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGCAAGCCTTAT
22243108 CCTCCTGAAGTTGTAGTGAGAC
196 CCTCCTGAAGTTGTAGTGAGAC
*
22243130 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
1 AGACTGAAGACGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
* * * * * * *
22243195 ATCTCCCTGAATTTGCAGTGGAGTGGATTAAAATCACAGATCTTATCTTTTTGAAGTTGCAGAGA
66 ATCTCCCTAAAGTCGCAGTAGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAAAGA
* *
22243260 GCATATCGCATCGGGTCTTATCTCCCTGAAGTTACAGTGGAGCAGAC
131 GCAGATCGCATCGAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGAC
22243307 CCAAGAAAGC
Statistics
Matches: 163, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
217 163 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (217 bp):
AGACTGAAGACGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
ATCTCCCTAAAGTCGCAGTAGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAAAGA
GCAGATCGCATCGAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGCAAGCCTTAT
CCTCCTGAAGTTGTAGTGAGAC
Found at i:22243970 original size:19 final size:19
Alignment explanation
Indices: 22243946--22244026 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 19
22243936 AATCTTCAAG
22243946 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
22243965 GATATGTAATCTTAGATATGTAGATAT
1 GATATGCAATC-T---TA----GATAT
*
22243992 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
22244011 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
22244027 AGATATGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
19 30 0.58
20 1 0.02
23 4 0.08
26 1 0.02
27 16 0.31
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:22243982 original size:14 final size:14
Alignment explanation
Indices: 22243965--22244011 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
22243955 TCTTAGATAT
22243965 GATATGTAATCTTA
1 GATATGTAATCTTA
*
22243979 GATATGTAGAT-AT-
1 GATATGTA-ATCTTA
22243992 GATATGTAATCTTA
1 GATATGTAATCTTA
22244006 GATATG
1 GATATG
22244012 ATATGCAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 2 0.07
13 9 0.32
14 15 0.54
15 2 0.07
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.40
Consensus pattern (14 bp):
GATATGTAATCTTA
Found at i:22243996 original size:27 final size:27
Alignment explanation
Indices: 22243958--22244011 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
22243948 TATGCAATCT
22243958 TAGATATGATATGTAATCTTAGATATG
1 TAGATATGATATGTAATCTTAGATATG
22243985 TAGATATGATATGTAATCTTAGATATG
1 TAGATATGATATGTAATCTTAGATATG
22244012 ATATGCAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.41
Consensus pattern (27 bp):
TAGATATGATATGTAATCTTAGATATG
Found at i:22243997 original size:13 final size:13
Alignment explanation
Indices: 22243958--22243999 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
22243948 TATGCAATCT
22243958 TAGATATGATATG
1 TAGATATGATATG
*
22243971 TA-ATCTTAGATATG
1 TAGAT-AT-GATATG
22243985 TAGATATGATATG
1 TAGATATGATATG
22243998 TA
1 TA
22244000 ATCTTAGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
12 2 0.08
13 11 0.46
14 9 0.38
15 2 0.08
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.40
Consensus pattern (13 bp):
TAGATATGATATG
Found at i:22247637 original size:14 final size:15
Alignment explanation
Indices: 22247606--22247638 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
22247596 AAGTTACATG
22247606 ATGTCATAAGCTTAT
1 ATGTCATAAGCTTAT
*
22247621 ATGTCATAATC-TAT
1 ATGTCATAAGCTTAT
22247635 ATGT
1 ATGT
22247639 TAAATTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (15 bp):
ATGTCATAAGCTTAT
Found at i:22251349 original size:51 final size:51
Alignment explanation
Indices: 22251280--22251415 Score: 148
Period size: 51 Copynumber: 2.7 Consensus size: 51
22251270 GGTCGCATGT
* * *
22251280 GTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-TTCGATCACGTAA
1 GTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGTAAT-GATCACATAA
* * * * * **
22251331 GTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGTAATGGTCACATGT
1 GTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGTAATGATCACATAA
* *
22251382 GTAGTACTATGTGCAGGCTACTATGTGAACCGAA
1 GTAGTACTATGTGCAGGCTACTATGCGTACCGAA
22251416 CATCATTGAT
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
51 70 0.99
52 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (51 bp):
GTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGTAATGATCACATAA
Found at i:22251466 original size:45 final size:45
Alignment explanation
Indices: 22251410--22251504 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
22251400 TACTATGTGA
* *
22251410 ACCGAACATCATTGATTAGTAAAGTGGTTGCTATGTGCTGATTTC
1 ACCGAACATCATTGATTAATAAAGTGATTGCTATGTGCTGATTTC
* * * *
22251455 ACCGGACATCATTGATTAATAAGGTGATTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAAGTGATTGCTATGTGCTGATTTC
22251500 ACCGA
1 ACCGA
22251505 GTATCTGTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAAGTGATTGCTATGTGCTGATTTC
Found at i:22257132 original size:51 final size:49
Alignment explanation
Indices: 22256964--22257150 Score: 187
Period size: 51 Copynumber: 3.7 Consensus size: 49
22256954 AGTGAAAGTG
* * *
22256964 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACAGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTAC--GAATGGT
* * * * *
22257015 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGAATGGT
* * * **
22257064 TTCGATCACGTAAGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGAATGGT
*
22257115 AATGGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
22257151 TGTGAACCGA
Statistics
Matches: 107, Mismatches: 25, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
49 4 0.04
50 34 0.32
51 68 0.64
52 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (49 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACGAATGGT
Found at i:22262164 original size:14 final size:14
Alignment explanation
Indices: 22262145--22262174 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22262135 TAGAAATGCA
22262145 AATTACAGCCAAAC
1 AATTACAGCCAAAC
*
22262159 AATTACAGGCAAAC
1 AATTACAGCCAAAC
22262173 AA
1 AA
22262175 CCAAACCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.23, G:0.10, T:0.13
Consensus pattern (14 bp):
AATTACAGCCAAAC
Found at i:22268636 original size:48 final size:48
Alignment explanation
Indices: 22268565--22268700 Score: 193
Period size: 48 Copynumber: 2.9 Consensus size: 48
22268555 TTGTCGAATT
* * *
22268565 GATTTGAAATCCCGTATAAGACCATATCTGGGATATGGCATTGGCATC
1 GATTTGAGATACCGTATAAGACCATATCTGGGATATGACATTGGCATC
*
22268613 GATTTGAGATACCGTATAAGACCATATCTGGGATATGACATTGGCATT
1 GATTTGAGATACCGTATAAGACCATATCTGGGATATGACATTGGCATC
** **
22268661 GATTTGAGATTTCGTATAAGACCATAT-AAGGATATGACAT
1 GATTTGAGATACCGTATAAGACCATATCTGGGATATGACAT
22268701 CGATATGAGA
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
47 11 0.14
48 69 0.86
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (48 bp):
GATTTGAGATACCGTATAAGACCATATCTGGGATATGACATTGGCATC
Found at i:22268722 original size:41 final size:42
Alignment explanation
Indices: 22268665--22268772 Score: 128
Period size: 41 Copynumber: 2.5 Consensus size: 42
22268655 GGCATTGATT
*
22268665 TGAGATTTCGTATAAGACCATATAAGGATA-TGACATCGATA
1 TGAGATTTCGTGTAAGACCATATAAGGATATTGACATCGATA
* ** * *
22268706 TGAGACTTCGTGTAAGACCATAGTTGGGCTATTGGCATCGATA
1 TGAGATTTCGTGTAAGACCATA-TAAGGATATTGACATCGATA
*
22268749 TGAGATTTCTATGTAAGACCATAT
1 TGAGATTTC-GTGTAAGACCATAT
22268773 TTGGGACATA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 20 0.36
42 5 0.09
43 19 0.34
44 12 0.21
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.31
Consensus pattern (42 bp):
TGAGATTTCGTGTAAGACCATATAAGGATATTGACATCGATA
Found at i:22283801 original size:25 final size:25
Alignment explanation
Indices: 22283755--22283802 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
22283745 ATTTCTTATC
**
22283755 TTTAGTTTTTATTTCTTTTTAGATG
1 TTTAGTTTTTATTTCTAGTTAGATG
22283780 TTTA-TTTTTATTTCCTAGTTAGA
1 TTTAGTTTTTATTT-CTAGTTAGA
22283803 ATTTTTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.19, C:0.06, G:0.10, T:0.65
Consensus pattern (25 bp):
TTTAGTTTTTATTTCTAGTTAGATG
Found at i:22303954 original size:51 final size:51
Alignment explanation
Indices: 22303877--22304149 Score: 451
Period size: 51 Copynumber: 5.4 Consensus size: 51
22303867 CGGATCACAT
*
22303877 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
22303928 TTATCAATTGTCACTTGTCACCGATCAGATAAGTGTAGCT-AAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
22303978 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
22304029 TTATCACTTGTCACTTATCACCGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
22304080 TTATCACTTGTCACTTATCACTGATCAGATAACTGTAACTAAA-CTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
22304130 TTATCACTTGTCACTGATCA
1 TTATCACTTGTCACTTATCA
22304150 GAAGTATTCA
Statistics
Matches: 209, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
50 72 0.34
51 137 0.66
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (51 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:22303990 original size:101 final size:102
Alignment explanation
Indices: 22303877--22304149 Score: 469
Period size: 101 Copynumber: 2.7 Consensus size: 102
22303867 CGGATCACAT
* *
22303877 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAATTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
*
22303942 TTGTCACCGATCAGATAAGTGTAGCT-AAGCTACCAC
66 TTATCACCGATCAGATAAGTGTAGCTAAAGCTACCAC
*
22303978 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
22304043 TTATCACCGATCAGATAAGTGTAGCTAAAGCTACCAC
66 TTATCACCGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
22304080 TTATCACTTGTCACTTATCACTGATCAGATAACTGTAACTAAA-CTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
*
22304144 TGATCA
66 TTATCA
22304150 GAAGTATTCA
Statistics
Matches: 163, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
101 113 0.69
102 50 0.31
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (102 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
TTATCACCGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:22304245 original size:17 final size:17
Alignment explanation
Indices: 22304223--22304255 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22304213 TATTCTCAAT
22304223 TCATCA-ACAAATATATC
1 TCATCATAC-AATATATC
22304240 TCATCATACAATATAT
1 TCATCATACAATATAT
22304256 AATTCATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
TCATCATACAATATATC
Found at i:22307587 original size:12 final size:13
Alignment explanation
Indices: 22307551--22307590 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
22307541 AATTTTTATC
22307551 TTTGTTTTGTTT-
1 TTTGTTTTGTTTA
22307563 TTT-TTTTGGTTTA
1 TTTGTTTT-GTTTA
22307576 TTTGTTTT-TTTA
1 TTTGTTTTGTTTA
22307588 TTT
1 TTT
22307591 TCTAGCGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.16
12 14 0.56
13 3 0.12
14 4 0.16
ACGTcount: A:0.05, C:0.00, G:0.12, T:0.82
Consensus pattern (13 bp):
TTTGTTTTGTTTA
Found at i:22307846 original size:19 final size:19
Alignment explanation
Indices: 22307822--22307860 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22307812 TGCTACTCAT
22307822 ATTTTTA-AAAACTTATCAG
1 ATTTTTAGAAAACTTA-CAG
*
22307841 ATTTTTAGAACACTTACAG
1 ATTTTTAGAAAACTTACAG
22307860 A
1 A
22307861 ATCGGCGTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (19 bp):
ATTTTTAGAAAACTTACAG
Found at i:22314297 original size:117 final size:113
Alignment explanation
Indices: 22314087--22314303 Score: 317
Period size: 117 Copynumber: 1.9 Consensus size: 113
22314077 TATGTCAATG
* *
22314087 AGCATTGGGTGCACTTTACTTCGGACGTTTCGATGAGGTACTGGGTGTCAAATGATTACTTCGAC
1 AGCATTGGGTGCACTTTACTTCGGACGTTCCGATGAGGCACTGGGTGTCAAATGATTACTTCGAC
** * *
22314152 TACGTGCCCCTGAGTGCTGGACATAATTTTTACTTTAGTCAACCGATA
66 TACGTGCCAATGAGTGCTAGACACAATTTTTACTTTAGTCAACCGATA
*
22314200 AGCATTGGGTGCAAACTACTTACTTCGGAGGTTCCGATGAGGCACTGGGTGTCAAATGATTACTT
1 AGCATTGGGTGC--ACT--TTACTTCGGACGTTCCGATGAGGCACTGGGTGTCAAATGATTACTT
* *
22314265 CGACTATGTGTCAATGAGTGCTAGACACAATTTTTACTT
62 CGACTACGTGCCAATGAGTGCTAGACACAATTTTTACTT
22314304 CAGTTGAGCG
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
113 12 0.13
115 3 0.03
117 76 0.84
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (113 bp):
AGCATTGGGTGCACTTTACTTCGGACGTTCCGATGAGGCACTGGGTGTCAAATGATTACTTCGAC
TACGTGCCAATGAGTGCTAGACACAATTTTTACTTTAGTCAACCGATA
Found at i:22322804 original size:24 final size:23
Alignment explanation
Indices: 22322745--22322807 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
22322735 TATTCAAAAA
*
22322745 TTAATAAAATTTTAAAAATATAT
1 TTAATTAAATTTTAAAAATATAT
* * * *
22322768 TTAGTTACTATTTTATATATATAT
1 TTAATTA-AATTTTAAAAATATAT
22322792 TATAATTAAATTTTAA
1 T-TAATTAAATTTTAA
22322808 TTTAAAAATA
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
23 5 0.17
24 20 0.67
25 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
TTAATTAAATTTTAAAAATATAT
Found at i:22328518 original size:17 final size:18
Alignment explanation
Indices: 22328498--22328531 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22328488 TCCTTTTTGT
*
22328498 ATTTTATTTCC-TTTTAA
1 ATTTTATCTCCATTTTAA
22328515 ATTTTATCTCCATTTTA
1 ATTTTATCTCCATTTTA
22328532 TTTCTGTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTATCTCCATTTTAA
Found at i:22328882 original size:24 final size:24
Alignment explanation
Indices: 22328829--22328898 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 24
22328819 TAAAATCGTT
**
22328829 TAATTTATTATATTTTATTATCTTA
1 TAATTTATTATACATTATTAT-TTA
* *
22328854 -GATTTATTATGCATTATTATTTA
1 TAATTTATTATACATTATTATTTA
*
22328877 TAATTTATCA-ACATTATTATTT
1 TAATTTATTATACATTATTATTT
22328899 TAAATTCATC
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
23 14 0.38
24 23 0.62
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.59
Consensus pattern (24 bp):
TAATTTATTATACATTATTATTTA
Found at i:22333004 original size:69 final size:69
Alignment explanation
Indices: 22332893--22333030 Score: 249
Period size: 69 Copynumber: 2.0 Consensus size: 69
22332883 TAGTGAATTT
* *
22332893 GCATTTTGAATTACATGAGTTGGACGATTTTACCCTTTTAAGTGGGAGTGAGAAACTATTCCTTC
1 GCATTTTGAATTACATGAGTTGGACGATGTTACCCCTTTAAGTGGGAGTGAGAAACTATTCCTTC
22332958 GTAA
66 GTAA
*
22332962 GCATTTTGCATTACATGAGTTGGACGATGTTACCCCTTTAAGTGGGAGTGAGAAACTATTCCTTC
1 GCATTTTGAATTACATGAGTTGGACGATGTTACCCCTTTAAGTGGGAGTGAGAAACTATTCCTTC
22333027 GTAA
66 GTAA
22333031 AGTTTTCACC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (69 bp):
GCATTTTGAATTACATGAGTTGGACGATGTTACCCCTTTAAGTGGGAGTGAGAAACTATTCCTTC
GTAA
Found at i:22343927 original size:24 final size:24
Alignment explanation
Indices: 22343892--22343943 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
22343882 AAAAGCACAA
*
22343892 TGGATTGGACCTTGAAGATTACAG
1 TGGATTGAACCTTGAAGATTACAG
22343916 TGGATTGAACCTTGAAGATTACAG
1 TGGATTGAACCTTGAAGATTACAG
22343940 TGGA
1 TGGA
22343944 GGCAATCCGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.29
Consensus pattern (24 bp):
TGGATTGAACCTTGAAGATTACAG
Found at i:22344492 original size:44 final size:44
Alignment explanation
Indices: 22344444--22344635 Score: 157
Period size: 44 Copynumber: 4.5 Consensus size: 44
22344434 AAACTAATCC
* *
22344444 TATCTCCCTGAAGTTACAGTGGAGCGAATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCACAGATCT
* * * ***
22344488 TATCTCTCTGAAGTTGCAG-AGAGC-AAATCGCATCA-AG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCACAGATCT
* *
22344528 TATCTCCCTGAAGTTGCAGTAGG-GCAGACTGAATGAA-C-CA-ATCT
1 TATCTCCCTGAAGTTGCAGT-GGAGC-GAATTAA--AATCACAGATCT
* * *
22344572 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATGATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCACAGATCT
* *
22344616 TATCTCTCTGAAGTTCCAGT
1 TATCTCCCTGAAGTTGCAGT
22344636 AAAATAGATC
Statistics
Matches: 113, Mismatches: 23, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
40 21 0.19
41 6 0.05
42 7 0.06
43 12 0.11
44 66 0.58
45 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCACAGATCT
Found at i:22348487 original size:14 final size:14
Alignment explanation
Indices: 22348468--22348497 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
22348458 TACACTATAT
22348468 AAACCTAAAATTAA
1 AAACCTAAAATTAA
22348482 AAACCTAAAATTAA
1 AAACCTAAAATTAA
22348496 AA
1 AA
22348498 GCCATCAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.20
Consensus pattern (14 bp):
AAACCTAAAATTAA
Found at i:22348609 original size:3 final size:3
Alignment explanation
Indices: 22348601--22348632 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
22348591 TTTAGTCCTC
22348601 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
22348633 TTGCAATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:22354364 original size:22 final size:22
Alignment explanation
Indices: 22354320--22354365 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
22354310 TGGCGGCTAT
* *
22354320 GAAGAAAAGAGAGGAAGAGGAA
1 GAAGAAAAAAGAAGAAGAGGAA
22354342 GAAGAAAAAAAGAAGAAGA-GAA
1 GAAG-AAAAAAGAAGAAGAGGAA
22354364 GA
1 GA
22354366 TAGGAGAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (22 bp):
GAAGAAAAAAGAAGAAGAGGAA
Found at i:22354569 original size:21 final size:21
Alignment explanation
Indices: 22354543--22354592 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
22354533 TGAAAGTGTT
* *
22354543 GATACTTTTTAG-AAGGATATC
1 GATACTTGTTAGAAAGG-TAAC
22354564 GATACTTGTTAGAAAGGTAAC
1 GATACTTGTTAGAAAGGTAAC
22354585 GATACTTG
1 GATACTTG
22354593 CATAAGTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (21 bp):
GATACTTGTTAGAAAGGTAAC
Found at i:22358475 original size:33 final size:33
Alignment explanation
Indices: 22358438--22358504 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
22358428 TTTTTTGGTG
22358438 TGAATTTTTTTACATAATTAAATATTTTTATTT
1 TGAATTTTTTTACATAATTAAATATTTTTATTT
**
22358471 TGAATTTTTTTAGTTAATTAAATATTTTTATTT
1 TGAATTTTTTTACATAATTAAATATTTTTATTT
22358504 T
1 T
22358505 TATTTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (33 bp):
TGAATTTTTTTACATAATTAAATATTTTTATTT
Found at i:22359083 original size:21 final size:21
Alignment explanation
Indices: 22359057--22359104 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
22359047 CAAGACATGG
*
22359057 CCGTGTGGCTACTTCACACGC
1 CCGTGTGACTACTTCACACGC
* *
22359078 CCGTGTGACTACTTCATATGC
1 CCGTGTGACTACTTCACACGC
22359099 CCGTGT
1 CCGTGT
22359105 ACGCTAACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.15, C:0.33, G:0.23, T:0.29
Consensus pattern (21 bp):
CCGTGTGACTACTTCACACGC
Found at i:22362119 original size:51 final size:50
Alignment explanation
Indices: 22361926--22362270 Score: 354
Period size: 51 Copynumber: 6.8 Consensus size: 50
22361916 ACTTTTATCA
* *
22361926 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAG-TT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* *
22361975 TTACGGTTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAG-TT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* * *
22362025 TTACGGTTCATGTAATAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * * * * *
22362077 TTCAGTACACATACTAGCCTTCACTTAGTACTACACATGTGACC-ATCATT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
* * *
22362127 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* ** * * * * ***
22362179 CTCGGTACATATTGTAGCATTCACTTAGTACTACACATGTGACCATTATT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* *
22362229 TATCGATACATGTAGTAGCCTTCACATAGTACTACACACGTG
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTG
22362271 TTCATCGATA
Statistics
Matches: 246, Mismatches: 42, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
49 4 0.02
50 93 0.38
51 141 0.57
52 6 0.02
53 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (50 bp):
TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
Found at i:22362167 original size:102 final size:102
Alignment explanation
Indices: 22361927--22362270 Score: 451
Period size: 102 Copynumber: 3.4 Consensus size: 102
22361917 CTTTTATCAT
* * *
22361927 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGTTCACGTAG
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAG
* * * ***
22361990 TAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA
65 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * * * *
22362028 -CGGTTCATGTAATAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCAGTACACATACT
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
22362092 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * * *
22362129 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACATATTGT
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
* *
22362194 AGCATTCACTTAGTACTACACATGTGACCATTATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
*
22362231 TCGATACATGTAGTAGCCTTCACATAGTACTACACACGTG
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
22362271 TTCATCGATA
Statistics
Matches: 211, Mismatches: 29, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
100 37 0.18
101 43 0.20
102 131 0.62
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (102 bp):
TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
Found at i:22371222 original size:49 final size:50
Alignment explanation
Indices: 22371130--22371227 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 50
22371120 ATCTATTTAT
* * * * * *
22371130 AGGTTGAAAAAACTTTATTCTGATCAATGTCAAATAGATGAAGTGTAGTA
1 AGGTTGAAAAAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGTA
22371180 AGGTTG-AAAAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGT
1 AGGTTGAAAAAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGT
22371228 TCTATATGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
49 36 0.86
50 6 0.14
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (50 bp):
AGGTTGAAAAAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGTA
Found at i:22378083 original size:20 final size:21
Alignment explanation
Indices: 22378048--22378090 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
22378038 TCCCCTTCTA
22378048 TTTTCTCTCAATTTTCCTTCC
1 TTTTCTCTCAATTTTCCTTCC
* *
22378069 TTTTCTC-CCATTTTCTTTCC
1 TTTTCTCTCAATTTTCCTTCC
22378089 TT
1 TT
22378091 ATTTTCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.07, C:0.33, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTCTCTCAATTTTCCTTCC
Found at i:22378135 original size:3 final size:3
Alignment explanation
Indices: 22378127--22378159 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
22378117 CTTTGTGTTC
*
22378127 TCT TCT TCT TCT TTT TCT TCT TCT T-T TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
22378160 GCCGAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (3 bp):
TCT
Found at i:22378146 original size:12 final size:11
Alignment explanation
Indices: 22378124--22378159 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
22378114 CCCCTTTGTG
*
22378124 TTCTCTTCTTC
1 TTCTTTTCTTC
22378135 TTCTTTTTCTTC
1 TTC-TTTTCTTC
22378147 TTCTTTTCTTC
1 TTCTTTTCTTC
22378158 TT
1 TT
22378160 GCCGAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (11 bp):
TTCTTTTCTTC
Found at i:22378832 original size:37 final size:37
Alignment explanation
Indices: 22378765--22378861 Score: 131
Period size: 37 Copynumber: 2.6 Consensus size: 37
22378755 ATAATATTAA
* * *
22378765 TGAATGCATGATTAAGCATGCCACTGAAATTGTTAAAC
1 TGAAAGCATGA-TAAGCATGCCACTAAAATTATTAAAC
* * *
22378803 TGGAAGCATGATAAGCCTGCTACTAAAATTATTAAAC
1 TGAAAGCATGATAAGCATGCCACTAAAATTATTAAAC
22378840 TGAAAGCATGATAAGCATGCCA
1 TGAAAGCATGATAAGCATGCCA
22378862 TTGATATTGG
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
37 41 0.82
38 9 0.18
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (37 bp):
TGAAAGCATGATAAGCATGCCACTAAAATTATTAAAC
Found at i:22390249 original size:25 final size:26
Alignment explanation
Indices: 22390204--22390300 Score: 71
Period size: 25 Copynumber: 3.8 Consensus size: 26
22390194 CATGTATGCT
*
22390204 TATACGAGCTCTGAAT-T-GGTATGCTC
1 TATACGAG--CTGAATATCGGTAAGCTC
22390230 T-TACGAGCTGAATATCGGTAAGCTC
1 TATACGAGCTGAATATCGGTAAGCTC
** * *
22390255 -ATGTGAGCTGAATAACGATAAGCTC
1 TATACGAGCTGAATATCGGTAAGCTC
*
22390280 TCT-CGAGCTGAGA-ATCGGTAA
1 TATACGAGCTGA-ATATCGGTAA
22390301 CCTTAATGAC
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
23 6 0.11
24 1 0.02
25 47 0.82
26 3 0.05
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (26 bp):
TATACGAGCTGAATATCGGTAAGCTC
Found at i:22391843 original size:18 final size:18
Alignment explanation
Indices: 22391820--22391855 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22391810 TCGAGGATGC
* *
22391820 TGATTGTAGTTCTCTTGT
1 TGATTGTAATTCCCTTGT
22391838 TGATTGTAATTCCCTTGT
1 TGATTGTAATTCCCTTGT
22391856 CACAGATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.19, T:0.53
Consensus pattern (18 bp):
TGATTGTAATTCCCTTGT
Found at i:22400131 original size:3 final size:3
Alignment explanation
Indices: 22400123--22400188 Score: 114
Period size: 3 Copynumber: 22.0 Consensus size: 3
22400113 GATACTCTCA
* *
22400123 TTC TTC TTC TTC TTC TTG TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
22400171 TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC
22400189 ACATTTTGGT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.00, C:0.30, G:0.02, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:22416618 original size:88 final size:87
Alignment explanation
Indices: 22416469--22416971 Score: 448
Period size: 88 Copynumber: 5.7 Consensus size: 87
22416459 TTGAGTTGTT
* * * * *
22416469 ATTTAAGATCACAACCTTCAAACTTCAAAGATTTTGATAATCATAGAGTTAGTGATTTAAGATCA
1 ATTTAAGATCGCAACCTTCAAACTTCAAGGATTTT-AGAATCTTAGAGTTAGAGATTTAAGATCA
22416534 CGACTCCTCTTTAAGGTTTGCTG
65 CGACTCCTCTTTAAGGTTTGCTG
* * * * * *
22416557 ATTTAAGATTGCAACCTTCAAAATCCAAGAATATTTAGAATCTTAGAGTTAGAGGTTTAAGATAA
1 ATTTAAGATCGCAACCTTCAAACTTCAAGGAT-TTTAGAATCTTAGAGTTAGAGATTTAAGATCA
* * **
22416622 CGAGTCCCCTTTAAGGTTTGCCA
65 CGACTCCTCTTTAAGGTTTGCTG
* * * *
22416645 ATTTAAGATCACAACCTTCAAACTTCAAGGATTTTTAGAATCTTAGACTTA-ACGATTTAAAATT
1 ATTTAAGATCGCAACCTTCAAACTTCAAGGA-TTTTAGAATCTTAGAGTTAGA-GATTTAAGATC
* * **
22416709 GCAACT-CTCCTTTAAGGTTCACTG
64 ACGACTCCT-CTTTAAGGTTTGCTG
* *
22416733 ATTTAAGATCGCAACCTTCAAACTTTAAGGATTTTCAGAATCTTAGCGTTAGCA-ATTTAAGAT-
1 ATTTAAGATCGCAACCTTCAAACTTCAAGGATTTT-AGAATCTTAGAGTTAG-AGATTTAAGATC
*
22416796 ATGGACAT--TCATTTAAGG-TT-CATCG
64 A-CGAC-TCCTC-TTTAAGGTTTGC-T-G
* * * * * *
22416821 ATTTAAAATCGCAACCTTTAAAATTCAAGGATTTTCAGAATCTTAGAGTTAGTGATTTAACATCG
1 ATTTAAGATCGCAACCTTCAAACTTCAAGGATTTT-AGAATCTTAGAGTTAGAGATTTAAGATCA
* *
22416886 TGACTCC-CTTTTAAGGTTTGCCG
65 CGACTCCTC-TTTAAGGTTTGCTG
* * * * *
22416909 ATTTAAGATCACAACCTTTCAAACTTCAAAGATTTTTAGAATTTTAGTGTTAGCGATTTAAGA
1 ATTTAAGATCGCAACC-TTCAAACTTCAAGGA-TTTTAGAATCTTAGAGTTAGAGATTTAAGA
22416972 ATATCATTTC
Statistics
Matches: 334, Mismatches: 61, Indels: 39
0.77 0.14 0.09
Matches are distributed among these distances:
86 1 0.00
87 10 0.03
88 276 0.83
89 41 0.12
90 6 0.02
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (87 bp):
ATTTAAGATCGCAACCTTCAAACTTCAAGGATTTTAGAATCTTAGAGTTAGAGATTTAAGATCAC
GACTCCTCTTTAAGGTTTGCTG
Found at i:22416775 original size:176 final size:174
Alignment explanation
Indices: 22416469--22416971 Score: 533
Period size: 176 Copynumber: 2.9 Consensus size: 174
22416459 TTGAGTTGTT
* * * * * *
22416469 ATTTAAGATCACAACCTTCAAACTTCAAAGATTTTGATAATCATAGAGTTAGTGATTTAAGATCA
1 ATTTAAGATCACAACCTTCAAACTTCAAGGATTTTCAGAATCTTAGAGTTAGTGATTTAAAATCG
* * * *
22416534 CGACTCCTCTTTAAGGTTTGCTGATTTAAGATTGCAACCTTCAAAATCCAAGAATATTTAGAATC
66 CGACTCC-CTTTAAGGTTTGCTGATTTAAGATCGCAACCTTCAAACTTCAAGGAT-TTTAGAATC
* * * **
22416599 TTAGAGTTAGAGGTTTAAGATAACGA-GTCCCCTTTAAGGTTTGCCA
129 TTAGAGTTAGAGATTTAAGATAACGACAT-CCATTTAAGGTTCACCA
* * ** *
22416645 ATTTAAGATCACAACCTTCAAACTTCAAGGATTTTTAGAATCTTAGACTTAACGATTTAAAATTG
1 ATTTAAGATCACAACCTTCAAACTTCAAGGATTTTCAGAATCTTAGAGTTAGTGATTTAAAATCG
* ** *
22416710 CAACTCTCCTTTAAGGTTCACTGATTTAAGATCGCAACCTTCAAACTTTAAGGATTTTCAGAATC
66 CGACTC-CCTTTAAGGTTTGCTGATTTAAGATCGCAACCTTCAAACTTCAAGGATTTT-AGAATC
* ** * * *
22416775 TTAGCGTTAGCA-ATTTAAGATATGGACATTCATTTAAGGTTCATCG
129 TTAGAGTTAG-AGATTTAAGATAACGACATCCATTTAAGGTTCACCA
* * * * *
22416821 ATTTAAAATCGCAACCTTTAAAATTCAAGGATTTTCAGAATCTTAGAGTTAGTGATTTAACATCG
1 ATTTAAGATCACAACCTTCAAACTTCAAGGATTTTCAGAATCTTAGAGTTAGTGATTTAAAATCG
* * * *
22416886 TGACTCCCTTTTAAGGTTTGCCGATTTAAGATCACAACCTTTCAAACTTCAAAGATTTTTAGAAT
66 CGACTCCC-TTTAAGGTTTGCTGATTTAAGATCGCAACC-TTCAAACTTCAAGGA-TTTTAGAAT
* * *
22416951 TTTAGTGTTAGCGATTTAAGA
128 CTTAGAGTTAGAGATTTAAGA
22416972 ATATCATTTC
Statistics
Matches: 269, Mismatches: 50, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
175 5 0.02
176 222 0.83
177 38 0.14
178 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (174 bp):
ATTTAAGATCACAACCTTCAAACTTCAAGGATTTTCAGAATCTTAGAGTTAGTGATTTAAAATCG
CGACTCCCTTTAAGGTTTGCTGATTTAAGATCGCAACCTTCAAACTTCAAGGATTTTAGAATCTT
AGAGTTAGAGATTTAAGATAACGACATCCATTTAAGGTTCACCA
Found at i:22427744 original size:25 final size:25
Alignment explanation
Indices: 22427684--22427751 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
22427674 GGACACACCA
*
22427684 CAGCTCCCATGAGA-TTCCTCTTATT
1 CAGCTCACATGA-ACTTCCTCTTATT
* ** *
22427709 CAACTTGCATGAACTTCCTGTTATT
1 CAGCTCACATGAACTTCCTCTTATT
*
22427734 CAGCTCACATGAGCTTCC
1 CAGCTCACATGAACTTCC
22427752 CATTTACAGC
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
24 1 0.03
25 33 0.97
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.34
Consensus pattern (25 bp):
CAGCTCACATGAACTTCCTCTTATT
Found at i:22434681 original size:25 final size:25
Alignment explanation
Indices: 22434652--22434736 Score: 100
Period size: 25 Copynumber: 3.4 Consensus size: 25
22434642 CACACCACAG
22434652 CTCGCATGAGCTTCCTGTTATTCAA
1 CTCGCATGAGCTTCCTGTTATTCAA
* * *
22434677 CTCGCACGAGCTTCCCGTTATTCAG
1 CTCGCATGAGCTTCCTGTTATTCAA
* * *
22434702 CTCACATGAGCTTCTTGTT-TACAA
1 CTCGCATGAGCTTCCTGTTATTCAA
*
22434726 CTCGTATGAGC
1 CTCGCATGAGC
22434737 ATACAAGTAC
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
24 12 0.24
25 37 0.76
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.33
Consensus pattern (25 bp):
CTCGCATGAGCTTCCTGTTATTCAA
Found at i:22435578 original size:15 final size:14
Alignment explanation
Indices: 22435544--22435582 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
22435534 TCGATTCATT
22435544 TTTAATAAAATTAA
1 TTTAATAAAATTAA
* *
22435558 TATAATAACATTTAA
1 TTTAATAA-AATTAA
22435573 TTTAATAAAA
1 TTTAATAAAA
22435583 AATATACATA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (14 bp):
TTTAATAAAATTAA
Found at i:22438428 original size:25 final size:25
Alignment explanation
Indices: 22438396--22438464 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
22438386 AGCTATAAAT
*
22438396 GGGAAGCTCCTTCGAGCTGAATAAC
1 GGGAAGCTCATTCGAGCTGAATAAC
* *
22438421 GGGAAGCTCATGT-GAGTTGAATAAT
1 GGGAAGCTCAT-TCGAGCTGAATAAC
*
22438446 GGGAAGCTCATGCGAGCTG
1 GGGAAGCTCATTCGAGCTG
22438465 TGGTGTGTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 36 0.97
26 1 0.03
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.22
Consensus pattern (25 bp):
GGGAAGCTCATTCGAGCTGAATAAC
Found at i:22444873 original size:2 final size:2
Alignment explanation
Indices: 22444866--22444893 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22444856 GTATAATAAC
22444866 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22444894 CCATTCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22447323 original size:17 final size:18
Alignment explanation
Indices: 22447296--22447330 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
22447286 GTAGGTTTGT
*
22447296 AAAAATAGAAATGGAAAC
1 AAAAATAGAAATGAAAAC
22447314 AAAAAT-GAAATGAAAAC
1 AAAAATAGAAATGAAAAC
22447331 TTGCAATCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.69, C:0.06, G:0.14, T:0.11
Consensus pattern (18 bp):
AAAAATAGAAATGAAAAC
Found at i:22448204 original size:3 final size:3
Alignment explanation
Indices: 22448190--22448258 Score: 120
Period size: 3 Copynumber: 22.7 Consensus size: 3
22448180 TTAAAGGGGG
*
22448190 TTC TTAC TTC TTC TTA TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
22448236 TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TT
22448259 ATTTCTTTTC
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 60 0.95
4 3 0.05
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:22448945 original size:28 final size:28
Alignment explanation
Indices: 22448907--22449040 Score: 96
Period size: 28 Copynumber: 4.8 Consensus size: 28
22448897 ACACGATAGG
*
22448907 AAAGAATAGTCTTTGTGGCAAAATTTGA
1 AAAGAATAGTCTTTGTGGCAAAATCTGA
* *
22448935 AAAGAATAGTCTTTGTGG-AGAACTTTGAA
1 AAAGAATAGTCTTTGTGGCA-AAATCTG-A
* * * * *
22448964 AAAAAATA-TCATTTGAGGCGAACTCTAA
1 AAAGAATAGTC-TTTGTGGCAAAATCTGA
* *
22448992 AAAGAATAGT-TGTTGTGACGAAATCTGA
1 AAAGAATAGTCT-TTGTGGCAAAATCTGA
* *
22449020 AAGGGAT-GTCTTTGTGGCAAA
1 AAAGAATAGTCTTTGTGGCAAA
22449041 CTCTAAATTG
Statistics
Matches: 84, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
27 12 0.14
28 52 0.62
29 20 0.24
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (28 bp):
AAAGAATAGTCTTTGTGGCAAAATCTGA
Found at i:22450086 original size:13 final size:13
Alignment explanation
Indices: 22450051--22450107 Score: 55
Period size: 13 Copynumber: 4.3 Consensus size: 13
22450041 CTGACTCGTT
*
22450051 TTTTGATTTAATTCA
1 TTTT-ATTT-ATTTA
22450066 TTTT-TTTATTT-
1 TTTTATTTATTTA
22450077 TTCTTATTTATTTA
1 TT-TTATTTATTTA
*
22450091 TTTTAGTTATTTA
1 TTTTATTTATTTA
22450104 TTTT
1 TTTT
22450108 TATCTAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
11 2 0.05
12 5 0.14
13 24 0.65
14 2 0.05
15 4 0.11
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.74
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:22450100 original size:17 final size:17
Alignment explanation
Indices: 22450065--22450106 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
22450055 GATTTAATTC
* *
22450065 ATTTTTTTATTTTTCTT
1 ATTTATTTATTTTACTT
*
22450082 ATTTATTTATTTTAGTT
1 ATTTATTTATTTTACTT
22450099 ATTTATTT
1 ATTTATTT
22450107 TTATCTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.76
Consensus pattern (17 bp):
ATTTATTTATTTTACTT
Found at i:22450135 original size:31 final size:29
Alignment explanation
Indices: 22450070--22450136 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 29
22450060 AATTCATTTT
* *
22450070 TTTATTTTTCTTATTTATTTATTTTAGTTA
1 TTTATTTTTATTAATTATTTATTTTAG-TA
22450100 TTTATTTTTATCTAATTATTATATTTTA-TA
1 TTTATTTTTAT-TAATTATT-TATTTTAGTA
22450130 GTTTATT
1 -TTTATT
22450137 GTAATATAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 12 0.38
31 13 0.41
32 7 0.22
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (29 bp):
TTTATTTTTATTAATTATTTATTTTAGTA
Found at i:22453330 original size:4 final size:4
Alignment explanation
Indices: 22453321--22453345 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
22453311 CATAATAATT
22453321 TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA T
22453346 AAGCTCTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:22455914 original size:35 final size:35
Alignment explanation
Indices: 22455850--22455921 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 35
22455840 GGTGTTACAT
* ** * *
22455850 ACCAAATGCTCATAAGAGCTAGTATCATCCAGCAC
1 ACCAAATGCTCATAAGAGCCAAAACCATCCAACAC
22455885 ACCAAATGCTCATAAGAGCCAAAACCATCCAACAC
1 ACCAAATGCTCATAAGAGCCAAAACCATCCAACAC
22455920 AC
1 AC
22455922 TAGAAACACT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.42, C:0.32, G:0.11, T:0.15
Consensus pattern (35 bp):
ACCAAATGCTCATAAGAGCCAAAACCATCCAACAC
Found at i:22457243 original size:20 final size:20
Alignment explanation
Indices: 22457218--22457256 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
22457208 AGCCCAAAAG
22457218 TTAGTGGATTTAATTATGTA
1 TTAGTGGATTTAATTATGTA
22457238 TTAGTGGATTTAATTATGT
1 TTAGTGGATTTAATTATGT
22457257 CACCACCGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (20 bp):
TTAGTGGATTTAATTATGTA
Found at i:22460237 original size:23 final size:23
Alignment explanation
Indices: 22460206--22460256 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
22460196 ACCTACTTTC
* *
22460206 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
22460229 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
22460252 TTACA
1 TTACA
22460257 AAGGCATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:22461590 original size:18 final size:19
Alignment explanation
Indices: 22461551--22461590 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
22461541 ATGATAAAAT
*
22461551 ATTATATGAAATAACAATA
1 ATTATATGAAATAACAAGA
*
22461570 ATTATAT-AAATAATAAGA
1 ATTATATGAAATAACAAGA
22461588 ATT
1 ATT
22461591 TCAATTATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (19 bp):
ATTATATGAAATAACAAGA
Found at i:22462243 original size:99 final size:100
Alignment explanation
Indices: 22461992--22462249 Score: 317
Period size: 102 Copynumber: 2.6 Consensus size: 100
22461982 TGGTCGGTAT
* * * * *
22461992 CAGTGTATTTTAAAATAAAATTAGGTG-TAGGCCATGTAATGGTCGGCACCAAGTACAATTTTGG
1 CAGTGTATTTAAAAAAAAAATTAGGTGCT-GGCCATGTAATGG-CTGCACCAAGTACAATTTCGA
*
22462056 CTCCCAATGCATTTTTTTGGAACATTGCTAGGCGGCAC
64 CTCCCAATG-ATTTTTTTGGAACATTGATAGGCGGCAC
* * *
22462094 CAGTGTATTTAAAAAACAATTTGGGTGCTGGCCATGTAATGGCCTGCACCAAGTACAATTTCGAC
1 CAGTGTATTTAAAAAAAAAATTAGGTGCTGGCCATGTAATGG-CTGCACCAAGTACAATTTCGAC
* **
22462159 TCTCAATG-TTTTTTTTTAACATTGAT-GGCCGGCAC
65 TCCCAATGATTTTTTTGGAACATTGATAGG-CGGCAC
*
22462194 CAGTGTATTTAAAAAAAAAATT-GGTGCTGCCCATGTAATGGCTAGCACCAAGTACA
1 CAGTGTATTTAAAAAAAAAATTAGGTGCTGGCCATGTAATGGCT-GCACCAAGTACA
22462250 TTTAATTAAA
Statistics
Matches: 137, Mismatches: 16, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
98 2 0.01
99 32 0.23
100 41 0.30
102 61 0.45
103 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (100 bp):
CAGTGTATTTAAAAAAAAAATTAGGTGCTGGCCATGTAATGGCTGCACCAAGTACAATTTCGACT
CCCAATGATTTTTTTGGAACATTGATAGGCGGCAC
Found at i:22463364 original size:90 final size:91
Alignment explanation
Indices: 22463191--22463396 Score: 326
Period size: 90 Copynumber: 2.3 Consensus size: 91
22463181 AAAAATACCC
* * * *
22463191 TAGTACCGGCCAATGGATTCCCAAACTCAAAAAAATTATTTTTTTAAAGCCTGACTCAATCATCA
1 TAGTGCCGGCCATTGGGTTCCCAAACTCAAAAAAATTATTTTTTTAAAGCCTGACTCAATCAACA
*
22463256 GGCAATAATGGGGCCAAAACACTAGG
66 GGCAATAATGGGGACAAAACACTAGG
*
22463282 TAGTGCCGGTCATTGGGTTCCCAAACTCAAAAAAATTA-TTTTTTAAAGCCTGACAT-AATCAAC
1 TAGTGCCGGCCATTGGGTTCCCAAACTCAAAAAAATTATTTTTTTAAAGCCTGAC-TCAATCAAC
*
22463345 AGGCAATCATGGGGACAAAACACTAGG
65 AGGCAATAATGGGGACAAAACACTAGG
22463372 TAGTGCCGGCCATTGGGTTCCCAAA
1 TAGTGCCGGCCATTGGGTTCCCAAA
22463397 ACCTAAATTT
Statistics
Matches: 106, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
90 71 0.67
91 35 0.33
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (91 bp):
TAGTGCCGGCCATTGGGTTCCCAAACTCAAAAAAATTATTTTTTTAAAGCCTGACTCAATCAACA
GGCAATAATGGGGACAAAACACTAGG
Found at i:22469552 original size:44 final size:43
Alignment explanation
Indices: 22469488--22469571 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 43
22469478 TGATAAAATA
22469488 TTATTAATATAAAATAAAAATAATTATAATTATTTTATATTATT
1 TTATTAATATAAAATAAAAATAATTATAATTATTTT-TATTATT
* *
22469532 TTATTAATAGTAATAT-AAAATAATTTTAATTATTTTTATT
1 TTATTAATA-TAAAATAAAAATAATTATAATTATTTTTATT
22469572 TTATTAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
43 4 0.11
44 28 0.76
45 5 0.14
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (43 bp):
TTATTAATATAAAATAAAAATAATTATAATTATTTTTATTATT
Found at i:22469580 original size:18 final size:19
Alignment explanation
Indices: 22469557--22469592 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
22469547 TAAAATAATT
22469557 TTAATTATTTTT-ATTTTA
1 TTAATTATTTTTCATTTTA
22469575 TTAATTATTTTTCATTTT
1 TTAATTATTTTTCATTTT
22469593 TAGTATTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (19 bp):
TTAATTATTTTTCATTTTA
Found at i:22469600 original size:19 final size:18
Alignment explanation
Indices: 22469558--22469597 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
22469548 AAAATAATTT
*
22469558 TAATTATTTTTATTTTAT
1 TAATTATTTTTATTTTAG
22469576 TAATTATTTTTCATTTTTAG
1 TAATTATTTTT-A-TTTTAG
22469596 TA
1 TA
22469598 TTACAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 1 0.05
20 7 0.37
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (18 bp):
TAATTATTTTTATTTTAG
Found at i:22470181 original size:19 final size:19
Alignment explanation
Indices: 22470159--22470208 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
22470149 CCAAAATACC
22470159 GATCCTCCTCCAGTCCACA
1 GATCCTCCTCCAGTCCACA
*
22470178 GATCCTCCTCCAGTCCACT
1 GATCCTCCTCCAGTCCACA
*
22470197 GATCCACCTCCA
1 GATCCTCCTCCA
22470209 CCGATCCACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.20, C:0.48, G:0.10, T:0.22
Consensus pattern (19 bp):
GATCCTCCTCCAGTCCACA
Found at i:22470430 original size:40 final size:41
Alignment explanation
Indices: 22470371--22470470 Score: 139
Period size: 44 Copynumber: 2.4 Consensus size: 41
22470361 GATTCCCTTC
*
22470371 CATTTTCTGTCT-GCTTGTTTCTGGTTAATCCGGGTAACTT
1 CATTTTCTGTTTGGCTTGTTTCTGGTTAATCCGGGTAACTT
* *
22470411 CATTTTCTGTTTGGCTGTTTGTTTTTGGTTAATCTGGGTAACTT
1 CATTTTCTGTTTGGC---TTGTTTCTGGTTAATCCGGGTAACTT
22470455 CATTTTCTGTTTGGCT
1 CATTTTCTGTTTGGCT
22470471 GTATTTTGCT
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
40 11 0.21
41 3 0.06
44 39 0.74
ACGTcount: A:0.11, C:0.16, G:0.21, T:0.52
Consensus pattern (41 bp):
CATTTTCTGTTTGGCTTGTTTCTGGTTAATCCGGGTAACTT
Done.