Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 57 of 311
Found at i:16535164 original size:47 final size:47
Alignment explanation
Indices: 16535088--16535216 Score: 159
Period size: 47 Copynumber: 2.7 Consensus size: 47
16535078 TCATATATCA
* * * * *
16535088 CACACCGAAGCCATAGCCCAACTACGGTCTTATACGGAAGCACATAT
1 CACACCGATGCCATAGCCCAGCTATGGTCTTATACGAAAACACATAT
*
16535135 CACACCGATGCCATAGCCCAGCTATGGTCTTATACGAAAACAGATAT
1 CACACCGATGCCATAGCCCAGCTATGGTCTTATACGAAAACACATAT
* * * * *
16535182 CACACTGATGTCATATCCTAGATATGGTCTTATAC
1 CACACCGATGCCATAGCCCAGCTATGGTCTTATAC
16535217 AGATCTCACA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (47 bp):
CACACCGATGCCATAGCCCAGCTATGGTCTTATACGAAAACACATAT
Found at i:16538041 original size:43 final size:43
Alignment explanation
Indices: 16537994--16538131 Score: 163
Period size: 43 Copynumber: 3.2 Consensus size: 43
16537984 TCTTAAATAG
16537994 GGTCTTACACGAAATCGATAAATGATGCCAATGTCCCAGACAT
1 GGTCTTACACGAAATCGATAAATGATGCCAATGTCCCAGACAT
* * *
16538037 GGTCTTACACGTAATCG-TATAATGATACCAATGTCCCACACAT
1 GGTCTTACACGAAATCGATA-AATGATGCCAATGTCCCAGACAT
* * * ** *
16538080 TGTCTTACACAAAATC-ACAATACAATGCCAATGTCCTAGACAT
1 GGTCTTACACGAAATCGATAA-ATGATGCCAATGTCCCAGACAT
16538123 GGTCTTACA
1 GGTCTTACA
16538132 TGTAATCTCA
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
42 3 0.04
43 76 0.96
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGAAATCGATAAATGATGCCAATGTCCCAGACAT
Found at i:16541419 original size:53 final size:53
Alignment explanation
Indices: 16541319--16541423 Score: 147
Period size: 53 Copynumber: 2.0 Consensus size: 53
16541309 TTCTTTTTTA
* * * * *
16541319 AACTTACCATTGTCATGTCTTGACATGGTCTTGCGTGGTATCCTTGCCTTATG
1 AACTCACCATTGTCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* *
16541372 AACTCACCATTGTCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTAT
1 AACTCACCATTGTCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTAT
16541424 AGTAGTTTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (53 bp):
AACTCACCATTGTCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:16542480 original size:16 final size:16
Alignment explanation
Indices: 16542459--16542491 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
16542449 AAAAACCTAA
16542459 TGGTCTAATTACCATT
1 TGGTCTAATTACCATT
16542475 TGGTCTAATTACCATT
1 TGGTCTAATTACCATT
16542491 T
1 T
16542492 AAGGACCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.45
Consensus pattern (16 bp):
TGGTCTAATTACCATT
Found at i:16545942 original size:20 final size:20
Alignment explanation
Indices: 16545917--16545963 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
16545907 GCATCTTCAA
16545917 ATGCATAAGCAATCATATAT
1 ATGCATAAGCAATCATATAT
16545937 ATGCATAAGCAATCATATAT
1 ATGCATAAGCAATCATATAT
*
16545957 ATACATA
1 ATGCATA
16545964 TATATATACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.30
Consensus pattern (20 bp):
ATGCATAAGCAATCATATAT
Found at i:16546468 original size:86 final size:86
Alignment explanation
Indices: 16546355--16546564 Score: 228
Period size: 86 Copynumber: 2.5 Consensus size: 86
16546345 ATATAGCTCG
* * * * * *
16546355 TACAATGCC-ATATCCCAGACATGGTCTTACATGTTATCACAT-ATCGATGCCACTATCCTAGAC
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAAT-GATGCCAATATCCCACAA
* *
16546418 AGGGTCTTACACGAAATCGATAA
65 AGGGTCTTACACAAAATC-ACAA
* ** *** *
16546441 -ACGATGCCAATGTCCCAGACATGGTCTTACACATAATTGTATAATGATGCCAATGTCCCACAAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAATGATGCCAATATCCCACAAA
**
16546505 TTGTCTTACACAAAATCACAA
66 GGGTCTTACACAAAATCACAA
16546526 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
16546565 TCATCTCGGT
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
85 10 0.10
86 88 0.88
87 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (86 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAATGATGCCAATATCCCACAAA
GGGTCTTACACAAAATCACAA
Found at i:16546490 original size:43 final size:41
Alignment explanation
Indices: 16546400--16546557 Score: 145
Period size: 43 Copynumber: 3.7 Consensus size: 41
16546390 ATCACATATC
* * * * * *
16546400 GATGCCACTATCCTAGACAGGGTCTTACACGAAATCGATAAAC
1 GATGCCAATGTCCCAGACATGGTCTTACAC-AAATTGAT-AAT
16546443 GATGCCAATGTCCCAGACATGGTCTTACACATAATTGTATAAT
1 GATGCCAATGTCCCAGACATGGTCTTACACA-AATTG-ATAAT
* * * * * *
16546486 GATGCCAATGTCCCACAAATTGTCTTACACAAAATCACAAT
1 GATGCCAATGTCCCAGACATGGTCTTACACAAATTGATAAT
*
16546527 ACAATGCCAATGTCCCAGACATGGTCTTACA
1 --GATGCCAATGTCCCAGACATGGTCTTACA
16546558 TGTAATCTCA
Statistics
Matches: 95, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.04
42 4 0.04
43 85 0.89
44 2 0.02
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (41 bp):
GATGCCAATGTCCCAGACATGGTCTTACACAAATTGATAAT
Found at i:16549468 original size:6 final size:6
Alignment explanation
Indices: 16549453--16549485 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
16549443 AATTATACTC
16549453 TTTT-T TTTTCT TTTTCT TTTTCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
16549486 TTACGTTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTCT
Found at i:16549861 original size:23 final size:23
Alignment explanation
Indices: 16549840--16549887 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
16549830 ATAAATATTG
16549840 TAAAATAAATATAATTATTATTCA
1 TAAAA-AAATATAATTATTATTCA
* *
16549864 TAACAAATTATAATTATTATTCA
1 TAAAAAAATATAATTATTATTCA
16549887 T
1 T
16549888 TGATTTCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (23 bp):
TAAAAAAATATAATTATTATTCA
Found at i:16564858 original size:26 final size:26
Alignment explanation
Indices: 16564819--16564876 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
16564809 TGATACAAAT
16564819 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
16564845 TGATAAT-GGTTTAGGTAAATGTTTCA
1 TGATAATAGG-TTAGGTAAATGTTCCA
16564871 TGATAA
1 TGATAA
16564877 GAATTTCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 2 0.07
26 28 0.93
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:16566908 original size:137 final size:136
Alignment explanation
Indices: 16566662--16566947 Score: 518
Period size: 137 Copynumber: 2.1 Consensus size: 136
16566652 GAGTAGTCTC
*
16566662 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* *
16566727 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACCA
16566792 CTATTA
131 CTATTA
16566798 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
16566863 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC
16566928 ACTATTA
130 ACTATTA
**
16566935 CCTGAATGGGCTT
1 CCCAAATGGGCTT
16566948 AGGCCCAATG
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 20 0.14
137 124 0.86
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACCA
CTATTA
Found at i:16569325 original size:20 final size:20
Alignment explanation
Indices: 16569302--16569351 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
16569292 TAGTTTTATC
*
16569302 ATTTATAATATATTTTTAAT
1 ATTTATAATATATATTTAAT
* * *
16569322 ATTTGTTATGTATATTTAAT
1 ATTTATAATATATATTTAAT
16569342 AGTTTATAAT
1 A-TTTATAAT
16569352 TGGAGTTTGT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (20 bp):
ATTTATAATATATATTTAAT
Found at i:16569419 original size:13 final size:15
Alignment explanation
Indices: 16569389--16569421 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
16569379 CACCGTTACA
16569389 TTTAATATTTATTAG
1 TTTAATATTTATTAG
16569404 TTTAAT-TTTATT-G
1 TTTAATATTTATTAG
16569417 TTTAA
1 TTTAA
16569422 CTAAAGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 6 0.33
15 6 0.33
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (15 bp):
TTTAATATTTATTAG
Found at i:16569564 original size:20 final size:19
Alignment explanation
Indices: 16569527--16569565 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
16569517 TTTTTGTATT
**
16569527 TTTATATTATTTTTTAAAA
1 TTTATATTATTTAATAAAA
16569546 TTTATATATATTTAATAAAA
1 TTTATAT-TATTTAATAAAA
16569566 AGAATGCGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTATATTATTTAATAAAA
Found at i:16570182 original size:19 final size:22
Alignment explanation
Indices: 16570141--16570184 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
16570131 CCTTTTAAGT
*
16570141 AATTAATATAAATCATTTGTAA
1 AATTAATATAAATAATTTGTAA
16570163 AATT-ATATAAA-AATTT-TAA
1 AATTAATATAAATAATTTGTAA
16570182 AAT
1 AAT
16570185 AAAAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 4 0.19
21 7 0.33
22 4 0.19
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
AATTAATATAAATAATTTGTAA
Found at i:16572738 original size:55 final size:55
Alignment explanation
Indices: 16572668--16572829 Score: 225
Period size: 55 Copynumber: 2.9 Consensus size: 55
16572658 ATTTCTCAAA
* * * *
16572668 AATATTGCTTCTTTTGGATATATTGTTTTTATGTTTAAATTGATTATTATGTTGG
1 AATACTGCTTCTTTTGAATAAATTGTTTATATGTTTAAATTGATTATTATGTTGG
* * * *
16572723 AATACTGCTTCTTTTGAATAAATTATTTATATGTTTACATCGATTATCATGTTGG
1 AATACTGCTTCTTTTGAATAAATTGTTTATATGTTTAAATTGATTATTATGTTGG
* **
16572778 AAGACTGCTTCTTTTGAATCGATTGTTTATATGTTTAAATTGATTATTATGT
1 AATACTGCTTCTTTTGAATAAATTGTTTATATGTTTAAATTGATTATTATGT
16572830 AACATGTCTA
Statistics
Matches: 92, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.27, C:0.07, G:0.15, T:0.51
Consensus pattern (55 bp):
AATACTGCTTCTTTTGAATAAATTGTTTATATGTTTAAATTGATTATTATGTTGG
Found at i:16574717 original size:30 final size:29
Alignment explanation
Indices: 16574681--16574742 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
16574671 AAAAAAACCC
*
16574681 TTTTTTTGTTAATTA-CGAAAATGGACCGAT
1 TTTTTTTATTAATTATCGAAAA-GGACC-AT
* *
16574711 TTTTTTTATTATTTATGGAAAAGGACCAT
1 TTTTTTTATTAATTATCGAAAAGGACCAT
16574740 TTT
1 TTT
16574743 CCCCGAAAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.18
30 18 0.64
31 5 0.18
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.48
Consensus pattern (29 bp):
TTTTTTTATTAATTATCGAAAAGGACCAT
Found at i:16574902 original size:25 final size:24
Alignment explanation
Indices: 16574823--16574908 Score: 73
Period size: 26 Copynumber: 3.4 Consensus size: 24
16574813 TTTGCCTATT
*
16574823 TTTTTAAGGTTTAGGGTTTTGGTGG
1 TTTTTAAGGTTTAGGGTTTTAG-GG
* * * * *
16574848 ATTTTAGGGTTTAAGGTTGTTTAAGA
1 TTTTTAAGGTTT-AGGGT-TTTAGGG
16574874 TTTTTAATGGTTTAGGGTTTTAGGG
1 TTTTTAA-GGTTTAGGGTTTTAGGG
16574899 TTTTTTAAGG
1 -TTTTTAAGG
16574909 GAAAATTAAT
Statistics
Matches: 46, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
25 17 0.37
26 21 0.46
27 8 0.17
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (24 bp):
TTTTTAAGGTTTAGGGTTTTAGGG
Found at i:16575011 original size:23 final size:22
Alignment explanation
Indices: 16574985--16575035 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
16574975 ATTAAATTAA
*
16574985 GGTTTCGAGTTTTTTAAGGTTAG
1 GGTTTCGA-TTGTTTAAGGTTAG
* *
16575008 GGTTTTTGATTGTTTAGGGTTAG
1 GG-TTTCGATTGTTTAAGGTTAG
16575031 GGTTT
1 GGTTT
16575036 GTGGTTTAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 3 0.12
23 16 0.67
24 5 0.21
ACGTcount: A:0.14, C:0.02, G:0.33, T:0.51
Consensus pattern (22 bp):
GGTTTCGATTGTTTAAGGTTAG
Found at i:16575171 original size:156 final size:160
Alignment explanation
Indices: 16574875--16575246 Score: 560
Period size: 157 Copynumber: 2.4 Consensus size: 160
16574865 TGTTTAAGAT
* *
16574875 TTTTAATGGTTTAGGGTTTTAG-GGTTTTTTAAGGGA-AAATTAATGAACACTTAGAGTTGAGGG
1 TTTTAGTGGTTTAGGGTTTTAGTGG-TTTTTAAGGGAGAAATTAATGAACACTTAGAGTGGAGGG
*
16574938 TTAATTAATTAAATTAACTATGAGAATAAAAAAATCAATTAAATTAAGGTTTCGAGTTTTTTAAG
65 TTAATTAATTAAATTAACTATGAGAATAAAAAAATCAATTAAATCAAGGTTTCGAGTTTTTTAAG
16575003 GTTAGGGTTTTTGA-TTGTTTAGGGTTAGGG
130 GTTAGGGTTTTTGAGTTGTTTAGGGTTAGGG
*
16575033 -TTT-GTGGTTTAGGGTTTTAGTGGTTTTTAAGGAAGAAATTAATGAACACTTAGAGTGGAGGGT
1 TTTTAGTGGTTTAGGGTTTTAGTGGTTTTTAAGGGAGAAATTAATGAACACTTAGAGTGGAGGGT
* * * *
16575096 TAATTAATTAAATTAATTATGAGAAT-AAAAAATCAATTAAATCAGGGTTTTGAGTTTTTTAGGG
66 TAATTAATTAAATTAACTATGAGAATAAAAAAATCAATTAAATCAAGGTTTCGAGTTTTTTAAGG
*
16575160 TTAGGCG-TTTTGAGTTTTTTAGGGTTAGGG
131 TTAGG-GTTTTTGAGTTGTTTAGGGTTAGGG
* * *
16575190 TTTTAGTAGTTTAGGTTTTTTAGTGGTTTTTAAGGGAGAAATTAATGAACGCTTAGA
1 TTTTAGTGGTTTAGG-GTTTTAGTGGTTTTTAAGGGAGAAATTAATGAACACTTAGA
16575247 AATTAATGAA
Statistics
Matches: 194, Mismatches: 13, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
156 71 0.37
157 73 0.38
158 3 0.02
159 9 0.05
160 38 0.20
ACGTcount: A:0.31, C:0.03, G:0.25, T:0.41
Consensus pattern (160 bp):
TTTTAGTGGTTTAGGGTTTTAGTGGTTTTTAAGGGAGAAATTAATGAACACTTAGAGTGGAGGGT
TAATTAATTAAATTAACTATGAGAATAAAAAAATCAATTAAATCAAGGTTTCGAGTTTTTTAAGG
TTAGGGTTTTTGAGTTGTTTAGGGTTAGGG
Found at i:16575192 original size:23 final size:23
Alignment explanation
Indices: 16575139--16575193 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 23
16575129 CAATTAAATC
16575139 AGGGTTTTGAGTTTTTTAGGGTT
1 AGGGTTTTGAGTTTTTTAGGGTT
16575162 AGGCGTTTTGAGTTTTTTAGGGTT
1 AGG-GTTTTGAGTTTTTTAGGGTT
16575186 AGGGTTTT
1 AGGGTTTT
16575194 AGTAGTTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 8 0.26
24 23 0.74
ACGTcount: A:0.13, C:0.02, G:0.35, T:0.51
Consensus pattern (23 bp):
AGGGTTTTGAGTTTTTTAGGGTT
Found at i:16575522 original size:126 final size:126
Alignment explanation
Indices: 16575255--16575719 Score: 686
Period size: 126 Copynumber: 3.7 Consensus size: 126
16575245 GAAATTAATG
* * * *
16575255 AACACATTCAAGAATGATGCACTTTCAGCAAAATTTCGAAAAAAAGTTTCCACGTGGACGTTCTT
1 AACAC-TTCAAGAAGGATGCACTTTCAGCAAAATTTCGAAAAAAAGCTCCCACGTGGACGCTCTT
* * *
16575320 TTTCTACAGTGATATTTGATAAAATAA-TTTGAGAAGATGTTTCTGAACAAATAGTGTCAAA
65 TTGCTACAGTGGTATCTGATAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAA
** * * * * *
16575381 AACGTTTTAAGAAGGATGCACTTTTAGCAAAATTTCGGAAAAAAGCTTCCACGTGGACGCTATTT
1 AACACTTCAAGAAGGATGCACTTTCAGCAAAATTTCGAAAAAAAGCTCCCACGTGGACGCTCTTT
*
16575446 TGCTATAGTGGTATCTGATAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAA
66 TGCTACAGTGGTATCTGATAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAA
16575507 AACACTTCAAGAAGGATGCACTTTCAGCAAAATTTC-AGAAAAAAGCTCCCACGTGGACGCTCTT
1 AACACTTCAAGAAGGATGCACTTTCAGCAAAATTTCGA-AAAAAAGCTCCCACGTGGACGCTCTT
* * * *
16575571 TTGCTACAGTGGTCTTTGATAAAATAATTTTGACAAGATGTTTCTGAAAAAATAGTGTCAAA
65 TTGCTACAGTGGTATCTGATAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAA
* *
16575633 AACACTTCAAGAAGGATGCACTTTTAACAAAATTAT-GAAAAAAAGCTCCCACGTGGACGCTCTT
1 AACACTTCAAGAAGGATGCACTTTCAGCAAAATT-TCGAAAAAAAGCTCCCACGTGGACGCTCTT
16575697 TTGCTACAGTGGTATCTGA-AAAA
65 TTGCTACAGTGGTATCTGATAAAA
16575720 GCCTTAAACT
Statistics
Matches: 306, Mismatches: 29, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
125 79 0.26
126 225 0.74
127 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.30
Consensus pattern (126 bp):
AACACTTCAAGAAGGATGCACTTTCAGCAAAATTTCGAAAAAAAGCTCCCACGTGGACGCTCTTT
TGCTACAGTGGTATCTGATAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAA
Found at i:16577321 original size:53 final size:53
Alignment explanation
Indices: 16577180--16577330 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
16577170 ATAAGTGCGC
* **
16577180 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
16577233 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
16577286 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
16577331 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:16584809 original size:53 final size:53
Alignment explanation
Indices: 16584668--16584818 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
16584658 ATAAGTGCGC
* **
16584668 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
16584721 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
16584774 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
16584819 ACCATGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:16590139 original size:7 final size:7
Alignment explanation
Indices: 16590129--16590161 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
16590119 TTATTTAGGT
16590129 AATACTA
1 AATACTA
16590136 AATACTA
1 AATACTA
16590143 AATACTA
1 AATACTA
16590150 AATACTA
1 AATACTA
16590157 AATAC
1 AATAC
16590162 GAAACGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:16591318 original size:24 final size:24
Alignment explanation
Indices: 16591268--16591319 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
16591258 TTTGTAATTT
**
16591268 AAAAAATAAACACAACTTTTTTGA
1 AAAAAATAAACACAACTTTGATGA
*
16591292 AAAAAATTAAAGACAACTTTGAT-A
1 AAAAAA-TAAACACAACTTTGATGA
16591316 AAAA
1 AAAA
16591320 TTGAGAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.60, C:0.10, G:0.06, T:0.25
Consensus pattern (24 bp):
AAAAAATAAACACAACTTTGATGA
Found at i:16598869 original size:26 final size:25
Alignment explanation
Indices: 16598821--16598879 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
16598811 ACTTTTAAAT
* *
16598821 AAATAGTTAATAGAACCAGTTGGTC
1 AAATAGTTAATAGAACCACTTGGCC
*
16598846 AAATAAGTTAATAGAATCACTTGGCC
1 AAAT-AGTTAATAGAACCACTTGGCC
16598872 AAACTAGT
1 AAA-TAGT
16598880 CACTACAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 4 0.14
26 24 0.83
27 1 0.03
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (25 bp):
AAATAGTTAATAGAACCACTTGGCC
Found at i:16602466 original size:132 final size:131
Alignment explanation
Indices: 16602281--16603059 Score: 636
Period size: 132 Copynumber: 5.9 Consensus size: 131
16602271 TTCAGAGCTA
* * * * * *
16602281 CGATATTAAATCAAGTAACTCAAATAAAATTGCTCATGATTTGAAACCT-AACGAACTTTAGTTT
1 CGATCTTAAATCAACTAATTCAAATAAAATTGTTCATGATTTGAAA--TGAATGAACTTTAGGTT
* * * ** * * * **
16602345 GCGATATTCAATCAGTGAACCTAGATAATACCAGCTATGATATTAAGTCAATGAGCTCCTCGGAG
64 GAGATCTTAAATCAACGAACCTTGATAATACCAGCTACGATATTAAATCAATGAGCTATTCGGAG
16602410 TTG
129 TTG
* * * *
16602413 CAATCTTTAATCAACCAATTCAAATAAAATTGTTCATGATTTGAAATGAAACGAACTTTAGGTTG
1 CGATCTTAAATCAACTAATTCAAATAAAATTGTTCATGATTTGAAATG-AATGAACTTTAGGTTG
* * * * * * *
16602478 AAATCTTAAATCAACGAACCTTGATTATACCAGCTGCGATCTTAAGTCAATGAGCTGTTTGGAGT
65 AGATCTTAAATCAACGAACCTTGATAATACCAGCTACGATATTAAATCAATGAGCTATTCGGAGT
16602543 TG
130 TG
* * * * * * *
16602545 TGATCTTAAAT-AAGCTAATTTAAATAAAATTGGTCATGATCTAAAATCAAATGAAATTTAGGTT
1 CGATCTTAAATCAA-CTAATTCAAATAAAATTGTTCATGATTTGAAAT-GAATGAACTTTAGGTT
* * ** * * * *
16602609 GTGATCTTAACTCAAAAAACCTTGATAATACTAG-TGGCGATATTAAATCAGTGAGCTATTCGAA
64 GAGATCTTAAATCAACGAACCTTGATAATACCAGCT-ACGATATTAAATCAATGAGCTATTCGGA
16602673 GTTG
128 GTTG
* * * * *
16602677 TGATCTTAAATCAGCTAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGAAATTTAGGTTG
1 CGATCTTAAATCAACTAATTCAAATAAAATTGTTCATGATTTGAAAT-GAATGAACTTTAGGTTG
* * ** *
16602742 AGATCTTAAATCAACGAACCTTGATGATACCAGCTACAATATTAAATCAGCGAGCTATTCAGAGT
65 AGATCTTAAATCAACGAACCTTGATAATACCAGCTACGATATTAAATCAATGAGCTATTCGGAGT
16602807 TG
130 TG
* *
16602809 CGATCTTAAATTAGCTAATTCAAATAAAATTGTTCATGATTTGAAATCGAATGAACTTTAGGTTG
1 CGATCTTAAATCAACTAATTCAAATAAAATTGTTCATGATTTGAAAT-GAATGAACTTTAGGTTG
** * * * * * * * * * * **
16602874 CA-ATAGTAAATGAGCGAGCCTTCATGATACCAGCTATGATCTTAAATCAACGAGTTGTGT-AAA
65 -AGATCTTAAATCAACGAACCTTGATAATACCAGCTACGATATTAAATCAATGAGCTAT-TCGGA
*
16602937 GTTA
128 GTTG
* * * * * * * *
16602941 CTATATTAAATCAACTAACTCAAATAGAATTGTTCATGATCTCATATCGAATGAACATTAGGTTG
1 CGATCTTAAATCAACTAATTCAAATAAAATTGTTCATGATTTGAAAT-GAATGAACTTTAGGTTG
* ** * * * *
16603006 CA-ATCTTAACT-AAGCGAACCTTGACGATACCAACTGCGATCTTAAATCAGTGAG
65 -AGATCTTAAATCAA-CGAACCTTGATAATACCAGCTACGATATTAAATCAATGAG
16603060 TTGTTTAGAG
Statistics
Matches: 533, Mismatches: 104, Indels: 20
0.81 0.16 0.03
Matches are distributed among these distances:
130 1 0.00
131 4 0.01
132 524 0.98
133 4 0.01
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (131 bp):
CGATCTTAAATCAACTAATTCAAATAAAATTGTTCATGATTTGAAATGAATGAACTTTAGGTTGA
GATCTTAAATCAACGAACCTTGATAATACCAGCTACGATATTAAATCAATGAGCTATTCGGAGTT
G
Found at i:16602921 original size:264 final size:262
Alignment explanation
Indices: 16602271--16603055 Score: 781
Period size: 264 Copynumber: 3.0 Consensus size: 262
16602261 TCAGTAAGTT
* * * * * * *
16602271 TTCAGAGCTACGATATTAAATCAAG-TAACTCAAATAAAATTGCTCATGATTTGAAACCTAACGA
1 TTCAGAGTTGCGATCTTAAAT-AAGCTAATTCAAATAAAATTGCTCATGATTTGAAATCAAATGA
* * * * *
16602335 ACTTTAGTTTGCGATATTCAATCAGTGAACCTAGATAATACCAGCTATGATATTAAGTCAATGAG
65 ACTTTAGGTTGCGATATTAAATCAGAGAACCTTGATAATACCAGCTATGATATTAAATCAATGAG
** * * * * * *
16602400 CTCCTCGGAGTTGCAATCTTTAATCAACCAATTCAAATAAAATTGTTCATGATTTGAAAT-GAAA
130 CTATTCGAAGTTG-TATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTGAAATCG-AA
* * * * **
16602464 CGAACTTTAGGTTGAAATCTTAAATCAACGAACCTTGATTATACCAGCTGCGATCTTAAGTCAAT
193 TGAAATTTAGGTTG-AATCTTAAATCAACGAACCTTGATGATACCAGCTGCGATCTTAAATCAGC
*
16602529 GAGCTG
257 GAGCTA
** * * * * *
16602535 TTTGGAGTTGTGATCTTAAATAAGCTAATTTAAATAAAATTGGTCATGATCTAAAATCAAATGAA
1 TTCAGAGTTGCGATCTTAAATAAGCTAATTCAAATAAAATTGCTCATGATTTGAAATCAAATGAA
* * * * * * * ** *
16602600 ATTTAGGTTGTGATCTTAACTCAAAAAACCTTGATAATACTAG-TGGCGATATTAAATCAGTGAG
66 CTTTAGGTTGCGATATTAAATCAGAGAACCTTGATAATACCAGCT-ATGATATTAAATCAATGAG
*
16602664 CTATTCGAAGTTGTGATCTTAAATCAGCTAACTCAAATAAAATTGTTCATGATCTGAAATCGAAT
130 CTATTCGAAGTTGT-ATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTGAAATCGAAT
* * *
16602729 GAAATTTAGGTTGAGATCTTAAATCAACGAACCTTGATGATACCAGCTACAATATTAAATCAGCG
194 GAAATTTAGGTTGA-ATCTTAAATCAACGAACCTTGATGATACCAGCTGCGATCTTAAATCAGCG
16602794 AGCTA
258 AGCTA
* * *
16602799 TTCAGAGTTGCGATCTTAAATTAGCTAATTCAAATAAAATTGTTCATGATTTGAAATCGAATGAA
1 TTCAGAGTTGCGATCTTAAATAAGCTAATTCAAATAAAATTGCTCATGATTTGAAATCAAATGAA
* * * * * * * * * *
16602864 CTTTAGGTTGCAATAGTAAATGAGCGAGCCTTCATGATACCAGCTATGATCTTAAATCAACGAGT
66 CTTTAGGTTGCGATATTAAATCAGAGAACCTTGATAATACCAGCTATGATATTAAATCAATGAGC
* * * * * * *
16602929 TGTGT-AAAGTTACTATATTAAATCAACTAACTCAAATAGAATTGTTCATGATCTCATATCGAAT
131 TAT-TCGAAGTT-GTATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTGAAATCGAAT
* * *
16602993 GAACA-TTAGGTTGCAATCTTAACT-AAGCGAACCTTGACGATACCAACTGCGATCTTAAATCAG
194 GAA-ATTTAGGTTG-AATCTTAAATCAA-CGAACCTTGATGATACCAGCTGCGATCTTAAATCAG
16603056 TGAGTTGTTT
Statistics
Matches: 419, Mismatches: 91, Indels: 22
0.79 0.17 0.04
Matches are distributed among these distances:
263 7 0.02
264 406 0.97
265 6 0.01
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (262 bp):
TTCAGAGTTGCGATCTTAAATAAGCTAATTCAAATAAAATTGCTCATGATTTGAAATCAAATGAA
CTTTAGGTTGCGATATTAAATCAGAGAACCTTGATAATACCAGCTATGATATTAAATCAATGAGC
TATTCGAAGTTGTATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGA
AATTTAGGTTGAATCTTAAATCAACGAACCTTGATGATACCAGCTGCGATCTTAAATCAGCGAGC
TA
Found at i:16603084 original size:396 final size:393
Alignment explanation
Indices: 16602244--16603085 Score: 893
Period size: 396 Copynumber: 2.1 Consensus size: 393
16602234 CTTAATAATA
* * * *
16602244 ACAACTGTGATATTAAATCAGTAAGTTTTCAGAGCTACGATATTAAATCAAGTAACTCAAATAAA
1 ACAACTGCGATATTAAATCAGTGAGTTTTTAGAGTTACGATATTAAATC-AGTAACTCAAATAAA
* * * * * * **
16602309 ATTGCTCATGATTTGAAACCTAACGAACTTTAGTTTGCGATATTCAATCAGTGAACCTAGATAAT
65 ATTGCTCATGATCTGAAACCGAACGAAATTTAGGTTGAGATATTAAATCAACGAACCTAGATAAT
** * * * * *
16602374 ACCAGCTATGATATTAAGTCAATGAGCTCCTCGGAGTTGCAATCTTTAATCAACCAATTCAAATA
130 ACCAGCTACAATATTAAATCAACGAGCTACTCAGAGTTGCAATCTTAAATCAACCAATTCAAATA
** * *
16602439 AAATTGTTCATGATTTGAAATGAAACGAACTTTAGGTTGAAATCTTAAATCAACGAACCTTGATT
195 AAATTGTTCATGATTTGAAATGAAACGAACTTTAGGTTGAAATAGTAAATCAACGAACCTTCATG
* * * * ** * * * *
16602504 ATACCAGCTGCGATCTTAAGTCAATGAGCTGTTTGGAGTTGTGATCTTAAATAAGCTAATTTAAA
260 ATACCAGCTACGATCTTAAATCAACGAGCTGTGTAAAGTTCTGATATTAAATAAGCTAACTCAAA
**
16602569 TAAAATTGGTCATGATCTAAAATCAAATGAAATTTAGGTTGTGATCTTAACTCAAAAAACCTTGA
325 TAAAATTGGTCATGATCTAAAATCAAATGAAATTTAGGTTGCAATCTTAACTCAAAAAACCTTGA
*
16602634 TAAT
390 CAAT
* * * * * ** *
16602638 ACTAGTGGCGATATTAAATCAGTGAGCTATTCGAAGTTGTGATCTTAAATCAGCTAACTCAAATA
1 ACAACT-GCGATATTAAATCAGTGAGTTTTTAG-AGTTACGATATTAAATCAG-TAACTCAAATA
* * * * * *
16602703 AAATTGTTCATGATCTGAAATCGAATGAAATTTAGGTTGAGATCTTAAATCAACGAACCTTGATG
63 AAATTGCTCATGATCTGAAACCGAACGAAATTTAGGTTGAGATATTAAATCAACGAACCTAGATA
* * * * * *
16602768 ATACCAGCTACAATATTAAATCAGCGAGCTATTCAGAGTTGCGATCTTAAATTAGCTAATTCAAA
128 ATACCAGCTACAATATTAAATCAACGAGCTACTCAGAGTTGCAATCTTAAATCAACCAATTCAAA
* * * * *
16602833 TAAAATTGTTCATGATTTGAAATCG-AATGAACTTTAGGTTGCAATAGTAAATGAGCGAGCCTTC
193 TAAAATTGTTCATGATTTGAAAT-GAAACGAACTTTAGGTTGAAATAGTAAATCAACGAACCTTC
* *
16602897 ATGATACCAGCTATGATCTTAAATCAACGAGTTGTGTAAAGTTACT-ATATTAAATCAA-CTAAC
257 ATGATACCAGCTACGATCTTAAATCAACGAGCTGTGTAAAGTT-CTGATATTAAAT-AAGCTAAC
* * * * * **
16602960 TCAAATAGAATTGTTCATGATCTCATATCGAATGAACA-TTAGGTTGCAATCTTAACT-AAGCGA
320 TCAAATAAAATTGGTCATGATCTAAAATCAAATGAA-ATTTAGGTTGCAATCTTAACTCAA-AAA
*
16603023 ACCTTGACGAT
383 ACCTTGACAAT
* *
16603034 ACCAACTGCGATCTTAAATCAGTGAGTTGTTTAGAGTTACAATATTAAATCA
1 A-CAACTGCGATATTAAATCAGTGAGTT-TTTAGAGTTACGATATTAAATCA
16603086 ATGAACCTTG
Statistics
Matches: 357, Mismatches: 81, Indels: 18
0.78 0.18 0.04
Matches are distributed among these distances:
394 4 0.01
395 24 0.07
396 318 0.89
397 11 0.03
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (393 bp):
ACAACTGCGATATTAAATCAGTGAGTTTTTAGAGTTACGATATTAAATCAGTAACTCAAATAAAA
TTGCTCATGATCTGAAACCGAACGAAATTTAGGTTGAGATATTAAATCAACGAACCTAGATAATA
CCAGCTACAATATTAAATCAACGAGCTACTCAGAGTTGCAATCTTAAATCAACCAATTCAAATAA
AATTGTTCATGATTTGAAATGAAACGAACTTTAGGTTGAAATAGTAAATCAACGAACCTTCATGA
TACCAGCTACGATCTTAAATCAACGAGCTGTGTAAAGTTCTGATATTAAATAAGCTAACTCAAAT
AAAATTGGTCATGATCTAAAATCAAATGAAATTTAGGTTGCAATCTTAACTCAAAAAACCTTGAC
AAT
Found at i:16603149 original size:67 final size:68
Alignment explanation
Indices: 16603002--16603152 Score: 162
Period size: 67 Copynumber: 2.2 Consensus size: 68
16602992 TGAACATTAG
* * * * * *
16603002 GTTGCAATCTTAACT-AAGCGAACCTTGACGATACCAACTGCGATCTTAAATCAGTGAGTTGTTT
1 GTTGCAATCTTAAATCAAGCGAACCTTGACGATACCAACTGCAATCTTAAATCAATGAGCTATTC
16603066 AGA
66 AGA
* * * * * * *
16603069 GTTACAATATTAAATCAA-TGAACCTTGATGATACCAATTGTAATCTTTAATCAATGAGCTATTC
1 GTTGCAATCTTAAATCAAGCGAACCTTGACGATACCAACTGCAATCTTAAATCAATGAGCTATTC
*
16603133 ATA
66 AGA
16603136 GTTGCAATCTTAAATCA
1 GTTGCAATCTTAAATCA
16603153 TCTAACCCAA
Statistics
Matches: 67, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
67 65 0.97
68 2 0.03
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (68 bp):
GTTGCAATCTTAAATCAAGCGAACCTTGACGATACCAACTGCAATCTTAAATCAATGAGCTATTC
AGA
Found at i:16606091 original size:49 final size:49
Alignment explanation
Indices: 16606026--16606269 Score: 292
Period size: 49 Copynumber: 4.9 Consensus size: 49
16606016 CTATTATGAG
* * *
16606026 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTA
* * * *
16606075 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-ATAACTTC
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA-TTA
* * **
16606125 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
1 G-TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTA
* *
16606175 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTG
1 -GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTA
* * * *
16606225 GTCGCATGTGTAGTAATAAGTGCAGGCTACTATGCGTACCAGATA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
16606270 GCTTTGGCTA
Statistics
Matches: 166, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
49 77 0.46
50 53 0.32
51 36 0.22
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTA
Found at i:16606161 original size:28 final size:28
Alignment explanation
Indices: 16606129--16606212 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
16606119 AACTTCGATC
16606129 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
16606157 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
16606179 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
16606207 ACGTGT
1 ACGTGT
16606213 ACCAGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:16618172 original size:46 final size:46
Alignment explanation
Indices: 16618105--16618274 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
16618095 TGTAACCCAC
*
16618105 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGAGCGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGAGCATTTGCAT
* * * *
16618151 CCATAAGTGAACTCGGACTCAACTAAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GA-G-C-ATTTGCAT
* * *
16618201 CTC-T---CGAACTCGGACTCAACTCAACGAGTTTG-GACATTCGCAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGCTCGAG-CATTTGCAT
*
16618244 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
16618275 TTCGGATGCT
Statistics
Matches: 101, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 1 0.01
43 7 0.07
44 2 0.02
46 56 0.55
47 25 0.25
48 1 0.01
49 1 0.01
50 7 0.07
51 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGAGCATTTGCAT
Found at i:16618219 original size:93 final size:93
Alignment explanation
Indices: 16618112--16618283 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
16618102 CACCCATAAG
* *
16618112 CGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTTGCATCCATAAGTGAACTCGGACTCAACTA
1 CGAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTA
16618176 AACGAGCTCGGATGCCTAGTTACATCTCT
65 AACGAGCTCGGATGCCTAGTTACATCTCT
* * *
16618205 CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTAA
*
16618270 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
16618284 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 70 0.97
94 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTAA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:16618299 original size:46 final size:46
Alignment explanation
Indices: 16618113--16618299 Score: 113
Period size: 46 Copynumber: 4.0 Consensus size: 46
16618103 ACCCATAAGC
***
16618113 GAACTCGGACTCAACTCAACGAGCTC-GA-GCGT-TTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGC-TCAACCATCC-T-AGT
* *
16618159 GAACTCGGACTCAACTAAACGAGCTCGGATGC-CTAGTTA-CATCTCT--C
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CTAGT
* * * * * *
16618206 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGCTCAACCATCCTAGT
*
16618252 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
16618298 GA
1 GA
16618300 CATGTCACTT
Statistics
Matches: 109, Mismatches: 16, Indels: 32
0.69 0.10 0.20
Matches are distributed among these distances:
44 9 0.08
46 57 0.52
47 30 0.28
48 2 0.02
49 4 0.04
50 6 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
Found at i:16623663 original size:15 final size:15
Alignment explanation
Indices: 16623645--16623687 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
16623635 ACAACACCAA
*
16623645 TGTATCCGCCACCGG
1 TGTATCTGCCACCGG
16623660 TGTATCTGCCACCGG
1 TGTATCTGCCACCGG
16623675 TGTATCTGCCACC
1 TGTATCTGCCACC
16623688 TCTGACAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.14, C:0.37, G:0.23, T:0.26
Consensus pattern (15 bp):
TGTATCTGCCACCGG
Found at i:16626273 original size:26 final size:27
Alignment explanation
Indices: 16626244--16626306 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
16626234 ATTTGAAATG
* *
16626244 AATTTTAATTAAAAT-TATCTATTTTT
1 AATTTTAATTAAAATATATATAATTTT
*
16626270 AATTTT-TTTAAAATATATATAATTTT
1 AATTTTAATTAAAATATATATAATTTT
16626296 AA-TTTAATTAA
1 AATTTTAATTAA
16626307 TTAAATAGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 10 0.32
26 21 0.68
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (27 bp):
AATTTTAATTAAAATATATATAATTTT
Found at i:16627007 original size:19 final size:19
Alignment explanation
Indices: 16626983--16627020 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
16626973 AAAGCATATT
16626983 AAAGCTTATATATTTTTTC
1 AAAGCTTATATATTTTTTC
16627002 AAAGCTTATATATTTTTTC
1 AAAGCTTATATATTTTTTC
16627021 TTTCTTATTA
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:0.32, C:0.11, G:0.05, T:0.53
Consensus pattern (19 bp):
AAAGCTTATATATTTTTTC
Found at i:16636669 original size:26 final size:26
Alignment explanation
Indices: 16636634--16636683 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
16636624 CTGCCACATA
16636634 TACTGATACTGGCAGCTTTGCTGCGT
1 TACTGATACTGGCAGCTTTGCTGCGT
* *
16636660 TACTGTTACTGGTAGCTTTGCTGC
1 TACTGATACTGGCAGCTTTGCTGC
16636684 AATATTATTA
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:0.14, C:0.22, G:0.26, T:0.38
Consensus pattern (26 bp):
TACTGATACTGGCAGCTTTGCTGCGT
Found at i:16641870 original size:85 final size:85
Alignment explanation
Indices: 16641727--16641883 Score: 201
Period size: 85 Copynumber: 1.8 Consensus size: 85
16641717 CAAGTACAAC
* * * * *
16641727 GTCGATGTCCCAGACGTGGTCTTACATGTAATTCAATATCGATGCCTCTGACCCAGACAGGGTCT
1 GTCGATGTCCCAGACATGGTCTTACACGTAATTCAATATCGAGGCCACTGACCCAGACACGGTCT
16641792 TATACAAAATCAGATACGGT
66 TATACAAAATCAGATACGGT
* * * *
16641812 GTCGATGTCCCAGACATGGTCTTATACGTAAATCTC-A-ATCGAGGCCAGTGTCCTAGACACGGT
1 GTCGATGTCCCAGACATGGTCTTACACGT-AAT-TCAATATCGAGGCCACTGACCCAGACACGGT
16641875 CTTATACAA
64 CTTATACAA
16641884 TATCTCAGAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
85 55 0.90
86 4 0.07
87 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (85 bp):
GTCGATGTCCCAGACATGGTCTTACACGTAATTCAATATCGAGGCCACTGACCCAGACACGGTCT
TATACAAAATCAGATACGGT
Found at i:16649911 original size:43 final size:43
Alignment explanation
Indices: 16649845--16649930 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 43
16649835 AAGTCGTACA
*
16649845 ATGCCAACGTCCCAGACGTGGTCTTACAT-GTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTAC-TCGTAAACACATATCG
16649888 ATGCC-ACTGTCCCAGACAG-GGTCTTACTCGTAAACACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACTCGTAAACACATATCG
16649931 GAATCACATA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
42 3 0.08
43 35 0.90
44 1 0.03
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACTCGTAAACACATATCG
Found at i:16650039 original size:63 final size:63
Alignment explanation
Indices: 16649939--16650068 Score: 242
Period size: 63 Copynumber: 2.1 Consensus size: 63
16649929 CGGAATCACA
*
16649939 TAACGATGCCATGGTCTTACTTGCACACATATATCGAAATCCTATGTCATGACATATGTATCC
1 TAACGATGCCATGGTCTTACTCGCACACATATATCGAAATCCTATGTCATGACATATGTATCC
*
16650002 TAACGATGCCATGGTCTTACTCGCACACATATTTCGAAATCCTATGTCATGACATATGTATCC
1 TAACGATGCCATGGTCTTACTCGCACACATATATCGAAATCCTATGTCATGACATATGTATCC
16650065 TAAC
1 TAAC
16650069 TATTCCTAAG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (63 bp):
TAACGATGCCATGGTCTTACTCGCACACATATATCGAAATCCTATGTCATGACATATGTATCC
Found at i:16668680 original size:29 final size:30
Alignment explanation
Indices: 16668617--16668693 Score: 104
Period size: 31 Copynumber: 2.6 Consensus size: 30
16668607 GTCTATATAG
* * *
16668617 AATAT-ATATATATGCCTGGGTTTTGTTAT
1 AATATAATATATATGCATGGGTCTTGGTAT
16668646 ATATATAATATATATGCATGGGTCTTGGT-T
1 A-ATATAATATATATGCATGGGTCTTGGTAT
16668676 AATATAATATATATGCAT
1 AATATAATATATATGCAT
16668694 ATATGAGTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 18 0.42
30 6 0.14
31 19 0.44
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.44
Consensus pattern (30 bp):
AATATAATATATATGCATGGGTCTTGGTAT
Found at i:16668704 original size:33 final size:33
Alignment explanation
Indices: 16668648--16668728 Score: 98
Period size: 33 Copynumber: 2.6 Consensus size: 33
16668638 TTTGTTATAT
*
16668648 ATATAATATATATGC----ATGGGTCTTGGTTA
1 ATATAATATATATGCATATATGAGTCTTGGTTA
* *
16668677 ATATAATATATATGCATATATGAGTCTTGTTTT
1 ATATAATATATATGCATATATGAGTCTTGGTTA
*
16668710 ATATAATATATATGTATAT
1 ATATAATATATATGCATAT
16668729 GGGTTTTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
29 15 0.34
33 29 0.66
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.46
Consensus pattern (33 bp):
ATATAATATATATGCATATATGAGTCTTGGTTA
Found at i:16670356 original size:41 final size:41
Alignment explanation
Indices: 16670285--16670458 Score: 158
Period size: 41 Copynumber: 4.3 Consensus size: 41
16670275 CAATATCACA
**
16670285 CACACTAAGTGCCAATACATAGTTGAAGCTATTTTAATCTCG
1 CACACTAAGTGCC-ATACATAGCCGAAGCTATTTTAATCTCG
* * **** *
16670327 CACACTAAGTGCCTTACATAGCCAAAGCTATCGCCATCTCT
1 CACACTAAGTGCCATACATAGCCGAAGCTATTTTAATCTCG
* * * **
16670368 CATACTAAGTGCCACATATAGCCGAAGCTATTCCAAAT-T-G
1 CACACTAAGTGCCATACATAGCCGAAGCTATT-TTAATCTCG
*
16670408 CACACTAAGTGCCATACATAGCCGAAGCTATTTTGAA-C-CA
1 CACACTAAGTGCCATACATAGCCGAAGCTATTTT-AATCTCG
16670448 CACACTAAGTG
1 CACACTAAGTG
16670459 TAACACCCCT
Statistics
Matches: 103, Mismatches: 25, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
40 42 0.41
41 46 0.45
42 15 0.15
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.25
Consensus pattern (41 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATTTTAATCTCG
Found at i:16675215 original size:17 final size:17
Alignment explanation
Indices: 16675195--16675232 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
16675185 GAATGAATTA
*
16675195 TTATATTATATGAAATG
1 TTATATTAAATGAAATG
*
16675212 TTATATTAAATGAACTG
1 TTATATTAAATGAAATG
16675229 TTAT
1 TTAT
16675233 TATGCATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.47
Consensus pattern (17 bp):
TTATATTAAATGAAATG
Found at i:16691989 original size:46 final size:46
Alignment explanation
Indices: 16691924--16692047 Score: 176
Period size: 46 Copynumber: 2.7 Consensus size: 46
16691914 CATCTTGTAA
* * *
16691924 CTGATGCATGTTCCAGACATGTCTTACACTGGCTTACATTCCGAGG
1 CTGATGCATGTCCCAGACATGTCTTACACTAGATTACATTCCGAGG
* * * *
16691970 CTGATTCATGTCCCTGACATGTCTTGCACTAGATTACATTCTGAGG
1 CTGATGCATGTCCCAGACATGTCTTACACTAGATTACATTCCGAGG
*
16692016 TTGATGCATGTCCCAGACATGTCTTACACTAG
1 CTGATGCATGTCCCAGACATGTCTTACACTAG
16692048 CACACAAATG
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (46 bp):
CTGATGCATGTCCCAGACATGTCTTACACTAGATTACATTCCGAGG
Found at i:16692770 original size:13 final size:13
Alignment explanation
Indices: 16692752--16692776 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16692742 CCAAAAATGT
16692752 AAAAATCATCAAG
1 AAAAATCATCAAG
16692765 AAAAATCATCAA
1 AAAAATCATCAA
16692777 AATCACTTAC
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:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:16703300 original size:5 final size:5
Alignment explanation
Indices: 16703287--16703333 Score: 58
Period size: 5 Copynumber: 8.8 Consensus size: 5
16703277 ACACCTATTA
*
16703287 TTTAT TTTAC TTTAT TTTAT TTTATT TTTAT CTTTAT TTATAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT -TTTAT TT-TAT TTTA
16703334 AAATTACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
5 22 0.59
6 15 0.41
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:16710143 original size:46 final size:46
Alignment explanation
Indices: 16710076--16710204 Score: 206
Period size: 46 Copynumber: 2.8 Consensus size: 46
16710066 TGTAACCCGC
* *
16710076 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCAG-AT
*
16710122 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGACATTCAGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCAGAT
*
16710168 CCATAAGTGAACTCGGACTCAACTCAACGAACTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
16710205 TGCCCAAATA
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
46 76 0.99
47 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCAGAT
Found at i:16711883 original size:70 final size:70
Alignment explanation
Indices: 16711797--16711938 Score: 266
Period size: 70 Copynumber: 2.0 Consensus size: 70
16711787 TACTCACAAC
16711797 ATGGTTATACTTTTCTTGTTTAACTTAAACTATATCTCTCATCGTTGAACCATTTGGAAAGCTAT
1 ATGGTTATACTTTTCTTGTTTAACTTAAACTATATCTCTCATCGTTGAACCATTTGGAAAGCTAT
16711862 CGGAT
66 CGGAT
* *
16711867 ATGGTTATACTTTTCTTGTTTAACTTAAACTATATCTGTCATTGTTGAACCATTTGGAAAGCTAT
1 ATGGTTATACTTTTCTTGTTTAACTTAAACTATATCTCTCATCGTTGAACCATTTGGAAAGCTAT
16711932 CGGAT
66 CGGAT
16711937 AT
1 AT
16711939 TCATTAAGCC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (70 bp):
ATGGTTATACTTTTCTTGTTTAACTTAAACTATATCTCTCATCGTTGAACCATTTGGAAAGCTAT
CGGAT
Found at i:16721941 original size:17 final size:16
Alignment explanation
Indices: 16721919--16721950 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
16721909 TTATGAAGAC
16721919 ATCATTTATACAAAAAA
1 ATCATTTATA-AAAAAA
16721936 ATCATTTATAAAAAA
1 ATCATTTATAAAAAA
16721951 GCTTTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (16 bp):
ATCATTTATAAAAAAA
Found at i:16723197 original size:32 final size:32
Alignment explanation
Indices: 16723139--16723258 Score: 143
Period size: 32 Copynumber: 3.8 Consensus size: 32
16723129 TTAGTATAGT
** *
16723139 TTGCATAGATACAGTTTGCAT-TTCATTCAGC
1 TTGCATAGATACAGTTCACATAATCATTCAGC
* * *
16723170 TTGCACAAATATAGTTCACATAATCATTCAGC
1 TTGCATAGATACAGTTCACATAATCATTCAGC
* * *
16723202 TTGCGTAGATACAATTCACATATTCATTCAGC
1 TTGCATAGATACAGTTCACATAATCATTCAGC
*
16723234 TTGCATAGATACAGTTTACATAATC
1 TTGCATAGATACAGTTCACATAATC
16723259 CTACAACACG
Statistics
Matches: 72, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
31 16 0.22
32 56 0.78
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (32 bp):
TTGCATAGATACAGTTCACATAATCATTCAGC
Found at i:16723463 original size:55 final size:55
Alignment explanation
Indices: 16723389--16723509 Score: 127
Period size: 55 Copynumber: 2.2 Consensus size: 55
16723379 ATAGACTCAA
* * * *
16723389 ACAGACATATCGTAGATAGTTCC-AAAGGCAGTCATACTACGAATAGTCTCTACGT
1 ACAGACATATGGCAAATAG-TCCTAAAGACAGTCATACTACGAATAGTCTCTACGT
* ** * * *
16723444 ACAGACCTATGGCAAATAGTCCTGTAGATAGTCATACTGCGGATAGTCTCTACGT
1 ACAGACATATGGCAAATAGTCCTAAAGACAGTCATACTACGAATAGTCTCTACGT
*
16723499 ATAGACATATG
1 ACAGACATATG
16723510 ACGGATAGTC
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
54 3 0.06
55 50 0.94
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (55 bp):
ACAGACATATGGCAAATAGTCCTAAAGACAGTCATACTACGAATAGTCTCTACGT
Found at i:16723518 original size:55 final size:55
Alignment explanation
Indices: 16723417--16723547 Score: 156
Period size: 55 Copynumber: 2.4 Consensus size: 55
16723407 GTTCCAAAGG
* * * *
16723417 CAGTCATACTACGAATAGTCTCTACGTACAGACCTATGGCAAATAGTCCTGT-AGA
1 CAGTCATACTGCGGATAGTCTCTACGTACAGACATATGACAAATAGTCCTGTGA-A
* * **
16723472 TAGTCATACTGCGGATAGTCTCTACGTATAGACATATGACGGATAGTCCTGTGAA
1 CAGTCATACTGCGGATAGTCTCTACGTACAGACATATGACAAATAGTCCTGTGAA
* *
16723527 CAGTCATATTGTGGATAGTCT
1 CAGTCATACTGCGGATAGTCT
16723548 TTGACTTTAT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
55 63 0.98
56 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (55 bp):
CAGTCATACTGCGGATAGTCTCTACGTACAGACATATGACAAATAGTCCTGTGAA
Found at i:16732667 original size:44 final size:43
Alignment explanation
Indices: 16732596--16732754 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
16732586 TTTCGTTATG
* *
16732596 TGATTTCATGTAAGACCACGTCTGGGACGTTGGCATCGACT-TC
1 TGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGA-TATC
* * *
16732639 T-ATATTACGTGTAAGACCATGTATGGGACATCGGCATCG-TATC
1 TGAT-TT-CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATC
* * *
16732682 TGATTTCGTGTAAGACCCTGTCTGGGACAG-TGGCATCGATGTT
1 TGATTTCGTGTAAGACCATGTCTGGGAC-GTTGGCATCGATATC
* * * *
16732725 TGATTACATGTAAGACCACGTCTAGGACGT
1 TGATTTCGTGTAAGACCATGTCTGGGACGT
16732755 CAGCATTGTA
Statistics
Matches: 93, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
42 31 0.33
43 33 0.35
44 29 0.31
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGATATC
Found at i:16732708 original size:42 final size:41
Alignment explanation
Indices: 16732596--16732720 Score: 121
Period size: 42 Copynumber: 2.9 Consensus size: 41
16732586 TTTCGTTATG
* *
16732596 TGATTTCATGTAAGACCAC-GTCTGGGACGTTGGCATCGACTTC
1 TGATTTCGTGTAAGACC-CTGTCTGGGAC-ATGGCATCGAC-TC
* *
16732639 T-ATATTACGTGTAAGACCATGTATGGGACATCGGCATCGTA-TC
1 TGAT-TT-CGTGTAAGACCCTGTCTGGGACAT-GGCATCG-ACTC
16732682 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGA
1 TGATTTCGTGTAAGACCCTGTCTGGGACA-TGGCATCGA
16732721 TGTTTGATTA
Statistics
Matches: 69, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
41 1 0.01
42 30 0.43
43 10 0.14
44 27 0.39
45 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCCTGTCTGGGACATGGCATCGACTC
Found at i:16741803 original size:27 final size:27
Alignment explanation
Indices: 16741765--16741818 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
16741755 AATACAATGG
16741765 ATGAAGGAATACCATGTAATCGTACTA
1 ATGAAGGAATACCATGTAATCGTACTA
*
16741792 ATGAAGGAATACCATGTAATTGTACTA
1 ATGAAGGAATACCATGTAATCGTACTA
16741819 TCTTGACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.28
Consensus pattern (27 bp):
ATGAAGGAATACCATGTAATCGTACTA
Found at i:16744542 original size:29 final size:29
Alignment explanation
Indices: 16744510--16744585 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
16744500 ATCATATTCG
*
16744510 TATGGCCTATTAGGCCCAAATCACCTGTA
1 TATGGCCTATTAGGCCCAAATCACATGTA
* *
16744539 TATGGCCCATTAGGCCCAAATCACATTTA
1 TATGGCCTATTAGGCCCAAATCACATGTA
* *
16744568 TATGGCTTGTTAGGCCCA
1 TATGGCCTATTAGGCCCA
16744586 GTCACATTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (29 bp):
TATGGCCTATTAGGCCCAAATCACATGTA
Found at i:16755048 original size:27 final size:27
Alignment explanation
Indices: 16755012--16755153 Score: 101
Period size: 27 Copynumber: 5.3 Consensus size: 27
16755002 GGTAAATTAG
* **
16755012 TCATCTTACCATAAAAGGGCAAAATTC
1 TCATTTTACCATAAAAGGGCAAAATAA
* *
16755039 TCATTTTACC-TCATAAGGGCAAAACAA
1 TCATTTTACCAT-AAAAGGGCAAAATAA
*
16755066 TCATTTTAACCCAT--AAGGGTAAAATAA
1 TCATTTT-A-CCATAAAAGGGCAAAATAA
** * *
16755093 TCATTTTACCCCAAAAGGGCAAAACAG
1 TCATTTTACCATAAAAGGGCAAAATAA
* * ** *
16755120 TCATTTTTCCACATGAGGGAAAAATAA
1 TCATTTTACCATAAAAGGGCAAAATAA
16755147 TCATTTT
1 TCATTTT
16755154 TCCGATTAGG
Statistics
Matches: 90, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
25 2 0.02
26 2 0.02
27 82 0.91
28 1 0.01
29 2 0.02
30 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (27 bp):
TCATTTTACCATAAAAGGGCAAAATAA
Found at i:16755144 original size:54 final size:54
Alignment explanation
Indices: 16755039--16755153 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
16755029 GGCAAAATTC
* * *
16755039 TCATTTTACCTCATAAGGGCAAAACAATCATTTTAACCCATAAGGGTAAAATAA
1 TCATTTTACCCCAAAAGGGCAAAACAATCATTTTAACCCATAAGGGAAAAATAA
* * *
16755093 TCATTTTACCCCAAAAGGGCAAAACAGTCATTTT-TCCACATGAGGGAAAAATAA
1 TCATTTTACCCCAAAAGGGCAAAACAATCATTTTAACC-CATAAGGGAAAAATAA
16755147 TCATTTT
1 TCATTTT
16755154 TCCGATTAGG
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 2 0.04
54 52 0.96
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (54 bp):
TCATTTTACCCCAAAAGGGCAAAACAATCATTTTAACCCATAAGGGAAAAATAA
Found at i:16755149 original size:81 final size:81
Alignment explanation
Indices: 16755001--16755153 Score: 189
Period size: 81 Copynumber: 1.9 Consensus size: 81
16754991 CATCACGTAG
* * * ** * *
16755001 GGGTAAATTAGTCATCTTACCATAAAAGGGCAAAATTCTCATTTTACCTCATAAGGGCAAAACAA
1 GGGTAAAATAATCATCTTACCACAAAAGGGCAAAACACTCATTTTACCACATAAGGGAAAAACAA
16755066 TCATTTTAACCCATAA
66 TCATTTTAACCCATAA
* * * * * *
16755082 GGGTAAAATAATCATTTTACCCCAAAAGGGCAAAACAGTCATTTTTCCACATGAGGGAAAAATAA
1 GGGTAAAATAATCATCTTACCACAAAAGGGCAAAACACTCATTTTACCACATAAGGGAAAAACAA
16755147 TCATTTT
66 TCATTTT
16755154 TCCGATTAGG
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 59 1.00
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (81 bp):
GGGTAAAATAATCATCTTACCACAAAAGGGCAAAACACTCATTTTACCACATAAGGGAAAAACAA
TCATTTTAACCCATAA
Found at i:16755156 original size:27 final size:26
Alignment explanation
Indices: 16755039--16755153 Score: 122
Period size: 27 Copynumber: 4.3 Consensus size: 26
16755029 GGCAAAATTC
16755039 TCATTTTACCTCATAAGGGCAAAACAA
1 TCATTTTACC-CATAAGGGCAAAACAA
* *
16755066 TCATTTTAACCCATAAGGGTAAAATAA
1 TCATTTT-ACCCATAAGGGCAAAACAA
* *
16755093 TCATTTTACCCCAAAAGGGCAAAACAG
1 TCATTTTA-CCCATAAGGGCAAAACAA
* * * *
16755120 TCATTTTTCCACATGAGGGAAAAATAA
1 TCATTTTACC-CATAAGGGCAAAACAA
16755147 TCATTTT
1 TCATTTT
16755154 TCCGATTAGG
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
26 3 0.04
27 67 0.92
28 3 0.04
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (26 bp):
TCATTTTACCCATAAGGGCAAAACAA
Found at i:16760339 original size:17 final size:17
Alignment explanation
Indices: 16760317--16760368 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
16760307 TGTTTATTTC
16760317 TTGTTTTTCAGTTTAGT
1 TTGTTTTTCAGTTTAGT
*
16760334 TTGTTTTT-AGTTTTATT
1 TTGTTTTTCAG-TTTAGT
16760351 TTG-TTTTC-GTTTAGT
1 TTGTTTTTCAGTTTAGT
16760366 TTG
1 TTG
16760369 CTTGAAGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 8 0.26
16 7 0.23
17 16 0.52
ACGTcount: A:0.10, C:0.04, G:0.17, T:0.69
Consensus pattern (17 bp):
TTGTTTTTCAGTTTAGT
Found at i:16765060 original size:5 final size:5
Alignment explanation
Indices: 16765039--16765075 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
16765029 TTTATGGAAC
16765039 TTTCT TTGT-T TTT-T TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TT-TCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
16765076 TTTCTATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 5 0.17
5 24 0.80
6 1 0.03
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.84
Consensus pattern (5 bp):
TTTCT
Found at i:16765070 original size:15 final size:13
Alignment explanation
Indices: 16765039--16765078 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 13
16765029 TTTATGGAAC
16765039 TTTCTTTGTTTTTT
1 TTTCTTT-TTTTTT
16765053 TTTCTTTTCTTTTCT
1 TTTCTTTT-TTTT-T
16765068 TTTCTTTTTTT
1 TTTCTTTTTTT
16765079 CTATAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.04
14 14 0.58
15 9 0.38
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (13 bp):
TTTCTTTTTTTTT
Found at i:16768310 original size:17 final size:17
Alignment explanation
Indices: 16768288--16768321 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16768278 CATGGGTTTA
16768288 TTGTGAATTTCAGTAAT
1 TTGTGAATTTCAGTAAT
* *
16768305 TTGTGATTTTGAGTAAT
1 TTGTGAATTTCAGTAAT
16768322 AAGGACTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.50
Consensus pattern (17 bp):
TTGTGAATTTCAGTAAT
Found at i:16772465 original size:21 final size:20
Alignment explanation
Indices: 16772439--16772480 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
16772429 TGTGTCCCCT
16772439 GTTTTGAGTAAAATTTTCAAA
1 GTTTTGAG-AAAATTTTCAAA
* *
16772460 GTTTTGTGAAAATTTTTAAA
1 GTTTTGAGAAAATTTTCAAA
16772480 G
1 G
16772481 ATATTGGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (20 bp):
GTTTTGAGAAAATTTTCAAA
Found at i:16786839 original size:73 final size:74
Alignment explanation
Indices: 16786753--16786901 Score: 237
Period size: 74 Copynumber: 2.0 Consensus size: 74
16786743 TAGGTTCAGG
* * *
16786753 CTTGAATTGGGTG-AAAAAATGGCTTGGTTTTGGCCTATTCCTTGTCCACAAGGCCAAAGACACG
1 CTTGAATTGGGTGAAAAAAATGGCTTGGTTTTGGCCTATTCCTTGTCCACAAAGCAAAAAACACG
16786817 GGTGTGTGT
66 GGTGTGTGT
* * *
16786826 CTTGAATTGGGTGAAAAAAATGGCTTGGTTTTGGCCTATTTCTTGTCTACAAAGCAAAAAACACT
1 CTTGAATTGGGTGAAAAAAATGGCTTGGTTTTGGCCTATTCCTTGTCCACAAAGCAAAAAACACG
16786891 GGTGTGTGT
66 GGTGTGTGT
16786900 CT
1 CT
16786902 CAGCCATGTG
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
73 13 0.19
74 56 0.81
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (74 bp):
CTTGAATTGGGTGAAAAAAATGGCTTGGTTTTGGCCTATTCCTTGTCCACAAAGCAAAAAACACG
GGTGTGTGT
Found at i:16789826 original size:21 final size:21
Alignment explanation
Indices: 16789800--16789841 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
16789790 ATGATGCCTT
*
16789800 GATCCAAAGTCAAGCAGCAAC
1 GATCCAAAGCCAAGCAGCAAC
*
16789821 GATCCAAAGCCAAGCATCAAC
1 GATCCAAAGCCAAGCAGCAAC
16789842 ACTAAAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.43, C:0.31, G:0.17, T:0.10
Consensus pattern (21 bp):
GATCCAAAGCCAAGCAGCAAC
Found at i:16794196 original size:40 final size:40
Alignment explanation
Indices: 16794113--16794375 Score: 343
Period size: 40 Copynumber: 6.6 Consensus size: 40
16794103 TTGAATGCTG
* * * * * *
16794113 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
16794153 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGGTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
16794193 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
16794233 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
16794273 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
16794313 TCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
16794352 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
16794376 TGAACGAGGA
Statistics
Matches: 203, Mismatches: 17, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
39 35 0.17
40 160 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:16802012 original size:40 final size:40
Alignment explanation
Indices: 16801929--16802190 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
16801919 TTGAATGCTG
* * * * * *
16801929 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
16801969 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
16802009 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
16802049 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
16802089 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
16802129 TCCGGGTT-TGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
16802167 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
16802191 TGAACGAGGA
Statistics
Matches: 197, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
38 18 0.09
39 29 0.15
40 142 0.72
41 8 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:16802210 original size:78 final size:80
Alignment explanation
Indices: 16801968--16802225 Score: 229
Period size: 80 Copynumber: 3.3 Consensus size: 80
16801958 AAGTGAATAT
* * * * * * *
16801968 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
16802032 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
16802048 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
16802113 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
16802128 ATCCGGGTT-TGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
16802191 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
16802206 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
16802226 TACGTGATTT
Statistics
Matches: 152, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
77 4 0.03
78 54 0.36
79 16 0.11
80 78 0.51
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:16803703 original size:25 final size:26
Alignment explanation
Indices: 16803575--16803699 Score: 168
Period size: 26 Copynumber: 5.0 Consensus size: 26
16803565 GGGTGTTACA
* **
16803575 GCTTATGCCCTAGTTTACCGAAAAGG
1 GCTTATGCCCCAGTTTATTGAAAAGG
16803601 GCTTATGCCCCAGTTTATTGAAAAGG
1 GCTTATGCCCCAGTTTATTGAAAAGG
16803627 GCTTATGCCCCAGTTTATTGAAAAGG
1 GCTTATGCCCCAGTTTATTGAAAAGG
* **
16803653 GCTT-TGCCCCAATTTACCGAAAAGG
1 GCTTATGCCCCAGTTTATTGAAAAGG
16803678 GCTT-TGCCCCAG-TTATT-AAAAG
1 GCTTATGCCCCAGTTTATTGAAAAG
16803700 AGGGTAGGCC
Statistics
Matches: 90, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
23 5 0.06
24 3 0.03
25 29 0.32
26 53 0.59
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (26 bp):
GCTTATGCCCCAGTTTATTGAAAAGG
Found at i:16803948 original size:31 final size:31
Alignment explanation
Indices: 16803910--16803988 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
16803900 CGTTTACAGT
16803910 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
** * *
16803941 AAAGGCTTTGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
16803972 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCAGCCCAGT
16803989 AACCGTTAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGAAATGATTTATGA
Found at i:16806286 original size:27 final size:27
Alignment explanation
Indices: 16806226--16806599 Score: 243
Period size: 27 Copynumber: 13.9 Consensus size: 27
16806216 TTTAGTTTAC
** * *
16806226 AAATTACTGAAATACCCTC-AATTGTA
1 AAATTACCAAAATACCCTCGATTTATA
*
16806252 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* **** *
16806279 GAATTACCGTTTTATCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* * *** * *
16806306 GAATTACTATTTTACCCTTGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* * *** *
16806333 GAATTACTATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* * *
16806360 AAATTACTAAAATACCCTCGGTTTACA
1 AAATTACCAAAATACCCTCGATTTATA
*
16806387 AAATTACCAAAATACCCTCGA-TCAGTA
1 AAATTACCAAAATACCCTCGATTTA-TA
* *
16806414 AAATTACCAAAATACCCTAG-TCTATA
1 AAATTACCAAAATACCCTCGATTTATA
* * * * *
16806440 AAATTGCTAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* * ** *
16806467 AAATTATCGAAATACCCTTAATTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* * *
16806494 AAATTACCAAAATGCCCT-TAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTATA
* * * *
16806521 AAATTACCAAAATACCCTTGGTTTGTG
1 AAATTACCAAAATACCCTCGATTTATA
* * *
16806548 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
*
16806575 AAATTACCAAAATACCCTTGATTTA
1 AAATTACCAAAATACCCTCGATTTA
16806600 CAAAGTTATA
Statistics
Matches: 285, Mismatches: 57, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
26 38 0.13
27 247 0.87
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.34
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTATA
Found at i:16806403 original size:54 final size:54
Alignment explanation
Indices: 16806220--16806704 Score: 289
Period size: 54 Copynumber: 9.0 Consensus size: 54
16806210 GAATACTTTA
** * * *
16806220 GTTTAC-AAATTACTGAAATACCCTC-AATTGTAAAATTACCAAAGTACCCTCG
1 GTTTACAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTG
* * * **** * * * * ***
16806272 ATTTATAGAATTACCGTTTTATCCTCGATTTATAGAATTACTATTTTACCCTTG
1 GTTTACAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTG
* * * *** ** * *
16806326 ATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTCG
1 GTTTACAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTG
** *
16806380 GTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAAAATACCC-TA
1 GTTTACAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTG
* * * * * * * * *
16806433 GTCTATAAAATTGCTAAAATACCCTTGGTTTGTAAAATTATCGAAATACCCTTA
1 GTTTACAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTG
* ** * *
16806487 ATTTGTAAAATTACCAAAATGCCCT-TAGTTTGTAAAATTACCAAAATACCCTTG
1 GTTTACAAAATTACCAAAATACCCTCGA-TTTGTAAAATTACCAAAATACCCTTG
*** * *
16806541 GTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTTG
1 GTTTACAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTG
* * * * * * *
16806595 ATTTACAAAGTTA-TAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTG
1 GTTTACAAAATTACCA-AAATACCCTCGA-TTTGT-AAAATTACCA-AAATACCCTTG
** * * * * * *
16806651 GTTTACAAAATTACTGAAATACCTTTGGTTTGTAGATTTACCAAAACACCCTTG
1 GTTTACAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTG
16806705 TAGGATGAAA
Statistics
Matches: 334, Mismatches: 88, Indels: 20
0.76 0.20 0.05
Matches are distributed among these distances:
52 4 0.01
53 54 0.16
54 226 0.68
55 11 0.03
56 38 0.11
57 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (54 bp):
GTTTACAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTG
Found at i:16806615 original size:81 final size:81
Alignment explanation
Indices: 16806345--16806621 Score: 335
Period size: 81 Copynumber: 3.4 Consensus size: 81
16806335 ATTACTATTT
* * ** * * *
16806345 TACCCTCGATTTACAAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAATACCCTCGATC
1 TACCCTTGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATT
*
16806410 AGTAAAATTACCAAAA
66 TGTAAAATTACCAAAA
* * * * * *
16806426 TACCCTAG-TCTATAAAATTGCTAAAATACCCTTGGTTTGTAAAATTATCGAAATACCCTTAATT
1 TACCCTTGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATT
16806490 TGTAAAATTACCAAAA
66 TGTAAAATTACCAAAA
* ** * *
16806506 TGCCCTT-AGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAATACCCTCAAT
1 TACCCTTGA-TTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAAT
16806570 TTGTAAAATTACCAAAA
65 TTGTAAAATTACCAAAA
*
16806587 TACCCTTGATTTACAAAGTTA-TAGAAATACCCTTG
1 TACCCTTGATTTACAAAATTACTA-AAATACCCTTG
16806622 ACTTTCTAAA
Statistics
Matches: 165, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
80 66 0.40
81 98 0.59
82 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (81 bp):
TACCCTTGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATT
TGTAAAATTACCAAAA
Found at i:16806645 original size:29 final size:27
Alignment explanation
Indices: 16806318--16806673 Score: 117
Period size: 27 Copynumber: 13.1 Consensus size: 27
16806308 ATTACTATTT
* ***
16806318 TACCCTTGATTTACAGAATTACTA-TTT
1 TACCCTTGATTTACAAAATTA-TAGAAA
*
16806345 TACCCTCGATTTACAAAATTACTA-AAA
1 TACCCTTGATTTACAAAATTA-TAGAAA
* * *
16806372 TACCCTCGGTTTACAAAATTACCA-AAA
1 TACCCTTGATTTACAAAATTA-TAGAAA
* * * *
16806399 TACCCTCGA-TCAGTAAAATTACCA-AAA
1 TACCCTTGATTTA-CAAAATTA-TAGAAA
* * * *
16806426 TACCCTAG-TCTATAAAATTGCTA-AAA
1 TACCCTTGATTTACAAAATT-ATAGAAA
* ** *
16806452 TACCCTTGGTTTGTAAAATTATCGAAA
1 TACCCTTGATTTACAAAATTATAGAAA
* ** *
16806479 TACCCTTAATTTGTAAAATTACCA-AAA
1 TACCCTTGATTTACAAAATTA-TAGAAA
* ** *
16806506 TGCCCTT-AGTTTGTAAAATTACCA-AAA
1 TACCCTTGA-TTTACAAAATTA-TAGAAA
* *** **
16806533 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGATTTACAAAATTATAGAAA
** ** *
16806560 TACCCTCAATTTGTAAAATTACCA-AAA
1 TACCCTTGATTTACAAAATTA-TAGAAA
*
16806587 TACCCTTGATTTACAAAGTTATAGAAA
1 TACCCTTGATTTACAAAATTATAGAAA
16806614 TACCCTTGACTTT-CTAAAAATTATAGAAA
1 TACCCTTGA-TTTAC--AAAATTATAGAAA
* *
16806643 TACCATTGGTTTACAAAATTACT-GAAA
1 TACCCTTGATTTACAAAATTA-TAGAAA
16806670 TACC
1 TACC
16806674 TTTGGTTTGT
Statistics
Matches: 270, Mismatches: 43, Indels: 32
0.78 0.12 0.09
Matches are distributed among these distances:
26 24 0.09
27 218 0.81
28 8 0.03
29 20 0.07
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTATAGAAA
Found at i:16806764 original size:26 final size:26
Alignment explanation
Indices: 16806735--16806825 Score: 110
Period size: 27 Copynumber: 3.4 Consensus size: 26
16806725 ACCCCTATTA
*
16806735 GGTAAAAAGACCGTAAAGCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCTGTAG
*
16806761 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAG-CCCTGTAG
* * * *
16806788 GATAAAGTGACCGTAATACCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCTGTAG
16806815 GGTAAAATGAC
1 GGTAAAATGAC
16806826 AAATATGCCC
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
26 16 0.29
27 39 0.70
28 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (26 bp):
GGTAAAATGACCGTAAAGCCCTGTAG
Found at i:16807703 original size:52 final size:52
Alignment explanation
Indices: 16807625--16807781 Score: 261
Period size: 52 Copynumber: 3.1 Consensus size: 52
16807615 GAGGAAGTGC
16807625 AAAAGGGCTTATG-CCCTAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGTCCC-AGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
*
16807677 AAAAGGGCTTATGTCCCAGTTTACCGAAAAGGGCTTATGCACCAGTTTATTG
1 AAAAGGGCTTATGTCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
16807729 AAAAGGGCTT-TGTCCCAGTTTACCGAAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGTCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
16807777 AAAAG
1 AAAAG
16807782 AGGGTAGGCC
Statistics
Matches: 102, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
48 5 0.05
49 5 0.05
50 7 0.07
51 25 0.25
52 57 0.56
53 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (52 bp):
AAAAGGGCTTATGTCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
Found at i:16807785 original size:25 final size:26
Alignment explanation
Indices: 16807625--16807781 Score: 196
Period size: 26 Copynumber: 6.2 Consensus size: 26
16807615 GAGGAAGTGC
* **
16807625 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
16807651 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
16807677 AAAAGGGCTTATGTCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
16807703 AAAAGGGCTTATGCACCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
16807729 AAAAGGGCTT-TGTCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
16807754 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
16807777 AAAAG
1 AAAAG
16807782 AGGGTAGGCC
Statistics
Matches: 114, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
23 5 0.04
24 3 0.03
25 28 0.25
26 78 0.68
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:16808027 original size:31 final size:31
Alignment explanation
Indices: 16807992--16808070 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
16807982 CTTTTACAGT
*
16807992 AAAGGCTTCAGCCTAGTGAAATGATTTATGA
1 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
** *
16808023 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
16808054 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCAGCCCAGT
16808071 AACCGTTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGAAATGATTTATGA
Found at i:16825000 original size:21 final size:19
Alignment explanation
Indices: 16824965--16825003 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 19
16824955 TAAACACCTA
16824965 TTATTTTTATTTATTTATT
1 TTATTTTTATTTATTTATT
16824984 TTATTTTTATCTTTATTTAT
1 TTATTTTTA--TTTATTTAT
16825004 ATTTTGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (19 bp):
TTATTTTTATTTATTTATT
Found at i:16830303 original size:46 final size:46
Alignment explanation
Indices: 16830246--16830421 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
16830236 TGGTTGAGCA
* *
16830246 TCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
16830292 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
16830339 TCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
16830385 CCCGAGCTTGTTGAGTTGAGTCCTAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16830422 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.57
47 27 0.26
48 3 0.03
50 6 0.06
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:16830402 original size:93 final size:93
Alignment explanation
Indices: 16830243--16830414 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
16830233 GGATGGTTGA
* * *
16830243 GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCAAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAATCAGAGTTCACTTATGGATGCAAACGCCCAAACTCGTTGAGT
16830308 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
16830336 GCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCAAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAATCAGAGTTCACTTATGGATGCAAACGCCCAAACTCGTTGAGT
*
16830401 TGAGTCCTAGTTCG
66 TGAGTCCGAGTTCG
16830415 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAATCAGAGTTCACTTATGGATGCAAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:16864312 original size:93 final size:93
Alignment explanation
Indices: 16864153--16864323 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
16864143 ACCCCTAAGT
** * *
16864153 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
16864218 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
16864246 GAACTCGGACTCAACTCAATGAGTTCGAACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
16864311 CGAGTTCGGATGC
66 CGAGTTCGGATGC
16864324 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:16864316 original size:46 final size:46
Alignment explanation
Indices: 16864148--16864318 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 46
16864138 AACCTACCCC
* ** * *
16864148 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCA
* * * * *
16864194 TAAATGAACTTGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GA--AC-ATTTGCATCCA
* * *
16864242 TCA-CGAACTCGGACTCAACTCAATGAGTTCGAACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCA
16864287 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
16864319 GATGCTCAAC
Statistics
Matches: 99, Mismatches: 19, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 56 0.57
47 25 0.25
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCA
Found at i:16872007 original size:15 final size:15
Alignment explanation
Indices: 16871987--16872024 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
16871977 CACAATCGCA
16871987 ACAAGTAATAAAGTG
1 ACAAGTAATAAAGTG
16872002 ACAAGTAATAAAGTG
1 ACAAGTAATAAAGTG
16872017 ACAAGTAA
1 ACAAGTAA
16872025 ATGTCGAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.55, C:0.08, G:0.18, T:0.18
Consensus pattern (15 bp):
ACAAGTAATAAAGTG
Found at i:16877854 original size:29 final size:29
Alignment explanation
Indices: 16877796--16877855 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
16877786 GCCTTTTGAC
* * **
16877796 AATATTTACAAAAAGAGGCATCTAGTTTT
1 AATATTTACAAAAAGAGGCACCAAAATTT
16877825 AATATTTACAAAAAGA-GCAACCAAAATTT
1 AATATTTACAAAAAGAGGC-ACCAAAATTT
16877854 AA
1 AA
16877856 AAATAATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 2 0.08
29 24 0.92
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (29 bp):
AATATTTACAAAAAGAGGCACCAAAATTT
Found at i:16891024 original size:19 final size:19
Alignment explanation
Indices: 16890992--16891038 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
16890982 AACTAAACAC
*
16890992 AAATAATATTAATAAAAATA
1 AAATAATATGAAT-AAAATA
16891012 AAATAA-ATGAATAAAATA
1 AAATAATATGAATAAAATA
16891030 ATAATAATA
1 A-AATAATA
16891039 AACTATGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 7 0.29
19 10 0.42
20 7 0.29
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (19 bp):
AAATAATATGAATAAAATA
Found at i:16904960 original size:41 final size:41
Alignment explanation
Indices: 16904849--16904960 Score: 145
Period size: 41 Copynumber: 2.7 Consensus size: 41
16904839 TGGAGATAGC
* * *
16904849 GATTTAGGCTTTGTACCTAGC-AGTTTTAGTGCTGGTGTATT
1 GATTCAGGCTTTGTGCCTAGCAAGTTTT-GTGCCGGTGTATT
* *
16904890 GATTCAAGCTTTGTGCCTAGCAGGTTTTGTGCCGGTGTATT
1 GATTCAGGCTTTGTGCCTAGCAAGTTTTGTGCCGGTGTATT
* *
16904931 GATTCAGGCTTTGTGCCTACCAAGCTTTGT
1 GATTCAGGCTTTGTGCCTAGCAAGTTTTGT
16904961 AACACCTTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 56 0.92
42 5 0.08
ACGTcount: A:0.16, C:0.17, G:0.27, T:0.40
Consensus pattern (41 bp):
GATTCAGGCTTTGTGCCTAGCAAGTTTTGTGCCGGTGTATT
Found at i:16914322 original size:52 final size:52
Alignment explanation
Indices: 16914261--16914366 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
16914251 TGAATAAATA
*
16914261 AATCATTTGAATTATAGTAATACAAACCTGAATTTCACAATTACTCCTCGAC
1 AATCATTTGAATTATAGTAATACAAACCCGAATTTCACAATTACTCCTCGAC
16914313 AATCATTTGAATTATAGTAATACAAACCCGAATTTCACAATTACTCCTCGAC
1 AATCATTTGAATTATAGTAATACAAACCCGAATTTCACAATTACTCCTCGAC
16914365 AA
1 AA
16914367 CCTTTTCCTT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.31
Consensus pattern (52 bp):
AATCATTTGAATTATAGTAATACAAACCCGAATTTCACAATTACTCCTCGAC
Found at i:16914512 original size:17 final size:18
Alignment explanation
Indices: 16914478--16914513 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16914468 TGAATTTCTA
16914478 TTCAATTTATACCCTAAT
1 TTCAATTTATACCCTAAT
*
16914496 TTCAATTTA-ATCCTAAT
1 TTCAATTTATACCCTAAT
16914513 T
1 T
16914514 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.47
Consensus pattern (18 bp):
TTCAATTTATACCCTAAT
Found at i:16914977 original size:22 final size:20
Alignment explanation
Indices: 16914943--16914983 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
16914933 CTCTATTTCT
16914943 TTTTAGCTTTGTTTCTTTTG
1 TTTTAGCTTTGTTTCTTTTG
16914963 TTTTATGCTATTGTTTCTTTT
1 TTTTA-GCT-TTGTTTCTTTT
16914984 ATTTCATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 3 0.16
22 11 0.58
ACGTcount: A:0.07, C:0.10, G:0.12, T:0.71
Consensus pattern (20 bp):
TTTTAGCTTTGTTTCTTTTG
Found at i:16915206 original size:9 final size:9
Alignment explanation
Indices: 16915192--16915239 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
16915182 AAAAATCTCG
16915192 TAATATAAT
1 TAATATAAT
16915201 TAATATAAAT
1 TAATAT-AAT
16915211 T-ATA-AAT
1 TAATATAAT
16915218 TAATA-AAT
1 TAATATAAT
16915226 TAATAATAA-
1 TAAT-ATAAT
16915235 TAATA
1 TAATA
16915240 ATACACTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
7 4 0.11
8 11 0.31
9 14 0.40
10 6 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
TAATATAAT
Found at i:16915238 original size:17 final size:16
Alignment explanation
Indices: 16915195--16915240 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
16915185 AATCTCGTAA
16915195 TATAATTAAT-ATAAAT
1 TATAA-TAATAATAAAT
*
16915211 TATAA-ATTAATAAAT
1 TATAATAATAATAAAT
16915226 TAATAATAATAATAA
1 T-ATAATAATAATAA
16915241 TACACTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 2 0.08
15 7 0.28
16 9 0.36
17 7 0.28
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TATAATAATAATAAAT
Found at i:16915240 original size:25 final size:26
Alignment explanation
Indices: 16915192--16915240 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
16915182 AAAAATCTCG
*
16915192 TAATATAATTAATATAAATTATAAAT
1 TAATATAATTAATATAAATAATAAAT
16915218 TAATA-AATTAATA-ATAATAATAA
1 TAATATAATTAATATA-AATAATAA
16915241 TACACTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 15 0.71
26 5 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (26 bp):
TAATATAATTAATATAAATAATAAAT
Found at i:16915412 original size:19 final size:19
Alignment explanation
Indices: 16915388--16915440 Score: 67
Period size: 17 Copynumber: 2.9 Consensus size: 19
16915378 ATAATTATTT
16915388 AATTAATAAATATATTTTA
1 AATTAATAAATATATTTTA
**
16915407 AATTAAT-AAT-TATAATA
1 AATTAATAAATATATTTTA
16915424 AA-TAATAAATATATTTT
1 AATTAATAAATATATTTT
16915441 TACTTAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 4 0.14
17 10 0.36
18 7 0.25
19 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTAATAAATATATTTTA
Found at i:16915431 original size:16 final size:17
Alignment explanation
Indices: 16915388--16915436 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
16915378 ATAATTATTT
*
16915388 AATTAATAAATATATTTTA
1 AATTAATAAATATA--ATA
*
16915407 AATTAATAATTATAATA
1 AATTAATAAATATAATA
16915424 AA-TAATAAATATA
1 AATTAATAAATATA
16915437 TTTTTACTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 10 0.37
17 4 0.15
19 13 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATTAATAAATATAATA
Found at i:16925076 original size:23 final size:21
Alignment explanation
Indices: 16925034--16925092 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 21
16925024 ACATGAAACA
* *
16925034 ACACACGAGGTGCCTGATATG
1 ACACACAAGGTGCCTAATATG
16925055 ACACACAAGGTGCCTCAAATATG
1 ACACACAAGGTGCCT--AATATG
* *
16925078 ACACATAAAGTGCCT
1 ACACACAAGGTGCCT
16925093 GATCAATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 14 0.44
23 18 0.56
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (21 bp):
ACACACAAGGTGCCTAATATG
Found at i:16925581 original size:17 final size:18
Alignment explanation
Indices: 16925551--16925584 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16925541 AATTTCTATT
16925551 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
16925569 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
16925585 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:16928507 original size:25 final size:24
Alignment explanation
Indices: 16928479--16928546 Score: 57
Period size: 25 Copynumber: 2.8 Consensus size: 24
16928469 AGCTCTTCAT
16928479 GAGCGTCCTATTATATGGCTCCCCG
1 GAGC-TCCTATTATATGGCTCCCCG
* * **
16928504 GAGCTTCT-TGATATGGCTCGCTTG
1 GAGCTCCTATTATATGGCTC-CCCG
* *
16928528 AACCTCCTATTATATGGCT
1 GAGCTCCTATTATATGGCT
16928547 ATTTAGAGCT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
23 10 0.30
24 10 0.30
25 13 0.39
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (24 bp):
GAGCTCCTATTATATGGCTCCCCG
Found at i:16928624 original size:25 final size:24
Alignment explanation
Indices: 16928591--16928642 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
16928581 GCCTGTTAAA
*
16928591 CTCAATGAGCTTCCTATTACATGG
1 CTCAATGAGCATCCTATTACATGG
* *
16928615 CTCACATGAGCATCCTGTTATATGG
1 CTCA-ATGAGCATCCTATTACATGG
16928640 CTC
1 CTC
16928643 GAGATTGTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (24 bp):
CTCAATGAGCATCCTATTACATGG
Found at i:16929334 original size:25 final size:26
Alignment explanation
Indices: 16929306--16929357 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
16929296 AGCATTAAAA
*
16929306 TATATATGT-ATTAATGCTTA-ATTAT
1 TATATATGTGATAAATG-TTATATTAT
*
16929331 TATATTTGTGATAAATGTTATATTAT
1 TATATATGTGATAAATGTTATATTAT
16929357 T
1 T
16929358 GAAATGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.54
Consensus pattern (26 bp):
TATATATGTGATAAATGTTATATTAT
Found at i:16947324 original size:43 final size:43
Alignment explanation
Indices: 16947263--16947387 Score: 164
Period size: 43 Copynumber: 2.9 Consensus size: 43
16947253 ACATAGGATT
16947263 TCGATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGACA
1 TCGATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGACA
* * *
16947306 TCGATTTGTGATTTCGTGTAAGACC-CTGTTTGGGACAG-TGGCA
1 TCGATATGTGATTTCGTGTAAGACCAC-GTCTGGGAC-GTTGACA
* * *
16947349 TCGATATGTTATTACATGTAAGACCACGTCTGGGACGTT
1 TCGATATGTGATTTCGTGTAAGACCACGTCTGGGACGTT
16947388 TTCGTTGTAC
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
42 2 0.03
43 66 0.94
44 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (43 bp):
TCGATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGACA
Found at i:16951396 original size:13 final size:13
Alignment explanation
Indices: 16951378--16951405 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16951368 CATTGGCTCC
16951378 GATCTGATAATCT
1 GATCTGATAATCT
16951391 GATCTGATAATCT
1 GATCTGATAATCT
16951404 GA
1 GA
16951406 ATCACTAATC
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:0.14, G:0.18, T:0.36
Consensus pattern (13 bp):
GATCTGATAATCT
Found at i:16959438 original size:22 final size:22
Alignment explanation
Indices: 16959413--16959454 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
16959403 AGTCATGAAG
16959413 AAGGTCAAATCAATCCAATTGA
1 AAGGTCAAATCAATCCAATTGA
*
16959435 AAGGTTAAATCAATCCAATT
1 AAGGTCAAATCAATCCAATT
16959455 AACTCCCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.26
Consensus pattern (22 bp):
AAGGTCAAATCAATCCAATTGA
Found at i:16961430 original size:40 final size:40
Alignment explanation
Indices: 16961365--16961476 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 40
16961355 TTCATAGTCT
16961365 AAGCTATTTT-AATCTAGCACACTAAGTGTCACATATAGCCG
1 AAGCTATTTTGAATC--GCACACTAAGTGTCACATATAGCCG
* *
16961406 AAGCTATTTTGAATCGCACACTAAGTGCCATATATAGCCG
1 AAGCTATTTTGAATCGCACACTAAGTGTCACATATAGCCG
* * *
16961446 AAGCTATCTCGAATCGTACACTAAGTGTCAC
1 AAGCTATTTTGAATCGCACACTAAGTGTCAC
16961477 CTGTATATAT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
40 49 0.78
41 10 0.16
42 4 0.06
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (40 bp):
AAGCTATTTTGAATCGCACACTAAGTGTCACATATAGCCG
Found at i:16979317 original size:10 final size:10
Alignment explanation
Indices: 16979302--16979329 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
16979292 TAAAACTATT
16979302 AAAGTTTCTA
1 AAAGTTTCTA
16979312 AAAGTTTCTA
1 AAAGTTTCTA
16979322 AAAGTTTC
1 AAAGTTTC
16979330 CATTGATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (10 bp):
AAAGTTTCTA
Found at i:16993347 original size:56 final size:56
Alignment explanation
Indices: 16993279--16993392 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
16993269 ACCCTTGGAA
16993279 TATGTAAGCAAAATGCATAAATGGTATAAATTAGAAACGTAAAAACTGTATTGGGT
1 TATGTAAGCAAAATGCATAAATGGTATAAATTAGAAACGTAAAAACTGTATTGGGT
16993335 TATGTAAGCAAAATGCATAAATGGTATAAATTAGAAACGTAAAAACTGTATTGGGT
1 TATGTAAGCAAAATGCATAAATGGTATAAATTAGAAACGTAAAAACTGTATTGGGT
16993391 TA
1 TA
16993393 GTTTCTTACC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.45, C:0.07, G:0.19, T:0.29
Consensus pattern (56 bp):
TATGTAAGCAAAATGCATAAATGGTATAAATTAGAAACGTAAAAACTGTATTGGGT
Found at i:16994826 original size:28 final size:28
Alignment explanation
Indices: 16994793--16994850 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
16994783 TGCTCATGTC
16994793 CTTTCATTTTCTTCTTTTTTCTTTATAG
1 CTTTCATTTTCTTCTTTTTTCTTTATAG
16994821 CTTTCATTTTCTTCTTTTTTCTTTATAG
1 CTTTCATTTTCTTCTTTTTTCTTTATAG
16994849 CT
1 CT
16994851 CTGTTATCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.10, C:0.19, G:0.03, T:0.67
Consensus pattern (28 bp):
CTTTCATTTTCTTCTTTTTTCTTTATAG
Found at i:16996020 original size:39 final size:40
Alignment explanation
Indices: 16995934--16996086 Score: 129
Period size: 39 Copynumber: 3.9 Consensus size: 40
16995924 ACTTGAAACC
** * * *
16995934 AATTACCAGCACA-AGCCTGCGGGAATTTAAACCTGG-TAT
1 AATT-CCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
* * *
16995973 AATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACAT
1 AATTCCAGCAC-ATAGCCTGCGGGACCTTAAGCCCGGACAT
* * *
16996012 ATTTCCAGCACATAGCCTGC-GGACCTTAAGTCCGGATAT
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
* *
16996051 AATTCCAGCACATAGCCTGC-GGACCCTAAGTCCGGA
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGA
16996087 TATACATCAA
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
38 17 0.18
39 78 0.82
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (40 bp):
AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
Found at i:16996087 original size:39 final size:39
Alignment explanation
Indices: 16996004--16996090 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
16995994 GGACTTTAGC
* * *
16996004 CCGGACATATTTCCAGCACATAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
16996043 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
16996082 CCGGATATA
1 CCGGATATA
16996091 CATCAATATC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:17000007 original size:107 final size:108
Alignment explanation
Indices: 16999889--17000104 Score: 407
Period size: 107 Copynumber: 2.0 Consensus size: 108
16999879 TAAACAAAAT
*
16999889 ATTAGTTTAACAAAATAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
1 ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
16999954 AATTGTATTAAAATTTTTGTTAATTACTCT-ATAAAATTTTTG
66 AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
*
16999996 ATTAGTTTAACAAAACAATGATATGTTAAGTTGGAATAAGTTTTAAATAATAAAATTTCTAACAA
1 ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
17000061 AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
66 AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
17000104 A
1 A
17000105 CTTGTTTTTT
Statistics
Matches: 106, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
107 93 0.88
108 13 0.12
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (108 bp):
ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
Found at i:17002010 original size:22 final size:21
Alignment explanation
Indices: 17001982--17002023 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
17001972 ACCTTATTTA
17001982 AAATATAT-TTTCTCTCTTTTTT
1 AAATATATCTTT-T-TCTTTTTT
17002004 AAATATATCTTTTTCTTTTT
1 AAATATATCTTTTTCTTTTT
17002024 CATAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 9 0.47
23 3 0.16
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (21 bp):
AAATATATCTTTTTCTTTTTT
Found at i:17003153 original size:5 final size:5
Alignment explanation
Indices: 17003133--17003181 Score: 80
Period size: 5 Copynumber: 9.6 Consensus size: 5
17003123 TAAGGTGAGT
*
17003133 ATTGA TATTAA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATT
1 ATTGA -ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATT
17003182 ATGAATTATG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 37 0.90
6 4 0.10
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (5 bp):
ATTGA
Found at i:17013912 original size:10 final size:10
Alignment explanation
Indices: 17013893--17013924 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
17013883 TTTTAGAGTT
17013893 TTAT-TTTAA
1 TTATCTTTAA
17013902 TTATCTTTAA
1 TTATCTTTAA
17013912 TTATCTTTAA
1 TTATCTTTAA
17013922 TTA
1 TTA
17013925 ATTGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:17018824 original size:15 final size:14
Alignment explanation
Indices: 17018804--17018850 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
17018794 GCAACCCAAT
17018804 TTTTATTTTTATTTA
1 TTTTATTTTTA-TTA
*
17018819 TTTTA-TCTTATTA
1 TTTTATTTTTATTA
17018832 TTTTATTATTTATTA
1 TTTTATT-TTTATTA
17018847 TTTT
1 TTTT
17018851 CAGATATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 8 0.29
14 5 0.18
15 15 0.54
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATTTTTATTA
Done.