Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 47 of 125
Found at i:14542369 original size:24 final size:23
Alignment explanation
Indices: 14542323--14542379 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
14542313 TAACAAGAAC
* *
14542323 AAAATGAAATAACTAAAGCTTAA
1 AAAAAGAAATAACTAAAACTTAA
* *
14542346 GAAAAGAAATAACTAAAAATTTAA
1 AAAAAGAAATAACT-AAAACTTAA
14542370 AAAGAAGAAA
1 AAA-AAGAAA
14542380 GAAAATGTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 12 0.44
24 9 0.33
25 6 0.22
ACGTcount: A:0.67, C:0.05, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAAGAAATAACTAAAACTTAA
Found at i:14549824 original size:14 final size:15
Alignment explanation
Indices: 14549805--14549834 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
14549795 AAAATTTGTT
14549805 ATTAAAGAAAA-AGA
1 ATTAAAGAAAAGAGA
14549819 ATTAAAGAAAAGAGA
1 ATTAAAGAAAAGAGA
14549834 A
1 A
14549835 AAAGAAAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (15 bp):
ATTAAAGAAAAGAGA
Found at i:14555483 original size:24 final size:24
Alignment explanation
Indices: 14555438--14555484 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
14555428 TAACAAGAAC
* *
14555438 AAAATGAAATAATTAAAGCCTAAG
1 AAAATGAAATAATAAAAACCTAAG
14555462 AAAA-GAAATAACTAAAAACCTAA
1 AAAATGAAATAA-TAAAAACCTAA
14555485 AATGAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.64, C:0.11, G:0.09, T:0.17
Consensus pattern (24 bp):
AAAATGAAATAATAAAAACCTAAG
Found at i:14557061 original size:23 final size:22
Alignment explanation
Indices: 14557035--14557078 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
14557025 AAAATATTTC
*
14557035 ATTAAATAATTTGGGTTGAATTA
1 ATTAAATAAATTGGGTT-AATTA
*
14557058 ATTAATTAAATTGGGTTAATT
1 ATTAAATAAATTGGGTTAATT
14557079 TTATTTAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (22 bp):
ATTAAATAAATTGGGTTAATTA
Found at i:14561231 original size:23 final size:22
Alignment explanation
Indices: 14561205--14561248 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
14561195 AAAATATTTC
*
14561205 ATTAAATAATTTGGGTTGAATTA
1 ATTAAATAAATTGGGTT-AATTA
*
14561228 ATTAATTAAATTGGGTTAATT
1 ATTAAATAAATTGGGTTAATT
14561249 TTATTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (22 bp):
ATTAAATAAATTGGGTTAATTA
Found at i:14563949 original size:58 final size:57
Alignment explanation
Indices: 14563887--14564083 Score: 193
Period size: 58 Copynumber: 3.4 Consensus size: 57
14563877 AGGACGAATA
* * *
14563887 AGGGTAAAATGATAATTTTTGGACACTCAAGGGTAAAATGGTACTTTTTGGACATTCG
1 AGGGTAAAATGGTAATTTTTGGACACTCGAGGGTAAAATGGTA-TTTTTGGAAATTCG
* * *
14563945 AGGGTAAAATGGTAATTTTTGGACACTCGGGGGCAAAATGGTAATTTTTGAAAAGTTC-
1 AGGGTAAAATGGTAATTTTTGGACACTCGAGGGTAAAATGGT-ATTTTTGGAAA-TTCG
* * * * ** *
14564003 AGGATCAAAAAT-GTAATTTTTTGACA-TCCGAGGGTAAAATGATAATTTTGGATGTTTG
1 AGGGT--AAAATGGTAATTTTTGGACACT-CGAGGGTAAAATGGTATTTTTGGAAATTCG
*
14564061 GGGGTAAAATGGTAATTTTTGGA
1 AGGGTAAAATGGTAATTTTTGGA
14564084 AAGTTCGGGG
Statistics
Matches: 113, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
56 5 0.04
57 13 0.12
58 61 0.54
59 29 0.26
60 5 0.04
ACGTcount: A:0.33, C:0.08, G:0.26, T:0.34
Consensus pattern (57 bp):
AGGGTAAAATGGTAATTTTTGGACACTCGAGGGTAAAATGGTATTTTTGGAAATTCG
Found at i:14564087 original size:87 final size:88
Alignment explanation
Indices: 14563888--14564110 Score: 247
Period size: 87 Copynumber: 2.6 Consensus size: 88
14563878 GGACGAATAA
* * * * *
14563888 GGGTAAAATGATAATTTTTGGACA-CTCAAGGGT--AAAATGGTACTTTTTGGACATTCGAGGGT
1 GGGTAAAATGGTAATTTTTGGAAAGTTC-AGGGTCAAAAAT-GTAATTTTTGGACATCCGAGGGT
*
14563950 AAAATGGTAATTTTTGGACACTCGG
64 AAAATGATAATTTTTGGACACTCGG
* * * *
14563975 GGGCAAAATGGTAATTTTTGAAAAGTTCAGGATCAAAAATGTAATTTTTTGACATCCGAGGGTAA
1 GGGTAAAATGGTAATTTTTGGAAAGTTCAGGGTCAAAAATGTAATTTTTGGACATCCGAGGGTAA
*** *
14564040 AATGATAA-TTTTGGATGTTTGG
66 AATGATAATTTTTGGACACTCGG
* * *
14564062 GGGTAAAATGGTAATTTTTGGAAAGTTCGGGGTCAAAAATATGATTTTT
1 GGGTAAAATGGTAATTTTTGGAAAGTTCAGGGTCAAAAATGTAATTTTT
14564111 AGAAGTTTAG
Statistics
Matches: 113, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
87 77 0.68
88 31 0.27
89 5 0.04
ACGTcount: A:0.33, C:0.08, G:0.26, T:0.34
Consensus pattern (88 bp):
GGGTAAAATGGTAATTTTTGGAAAGTTCAGGGTCAAAAATGTAATTTTTGGACATCCGAGGGTAA
AATGATAATTTTTGGACACTCGG
Found at i:14564093 original size:29 final size:28
Alignment explanation
Indices: 14563863--14564099 Score: 172
Period size: 29 Copynumber: 8.1 Consensus size: 28
14563853 GCCCTAGGAC
* * **
14563863 AAAATGGTAATTTTAGGACGAATAAGGGT
1 AAAATGGTAATTTTTGGAC-ATTCGGGGT
* * *
14563892 AAAATGATAATTTTTGGACACTCAAGGGT
1 AAAATGGTAATTTTTGGACATTC-GGGGT
*
14563921 AAAATGGTACTTTTTGGACATTCGAGGGT
1 AAAATGGTAATTTTTGGACATTCG-GGGT
* *
14563950 AAAATGGTAATTTTTGGACACTCGGGGGC
1 AAAATGGTAATTTTTGGACATTC-GGGGT
* * * *
14563979 AAAATGGTAATTTTTGAAAAGTTCAGGAT
1 AAAATGGTAATTTTTGGACA-TTCGGGGT
* *
14564008 CAAAAAT-GTAATTTTTTGACATCCGAGGGT
1 --AAAATGGTAATTTTTGGACATTCG-GGGT
* ** *
14564038 AAAATGATAA-TTTTGGATGTTTGGGGGT
1 AAAATGGTAATTTTTGGA-CATTCGGGGT
*
14564066 AAAATGGTAATTTTTGGAAAGTTCGGGGT
1 AAAATGGTAATTTTTGGACA-TTCGGGGT
14564095 CAAAA
1 -AAAA
14564100 ATATGATTTT
Statistics
Matches: 163, Mismatches: 33, Indels: 23
0.74 0.15 0.11
Matches are distributed among these distances:
28 26 0.16
29 111 0.68
30 21 0.13
31 5 0.03
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.32
Consensus pattern (28 bp):
AAAATGGTAATTTTTGGACATTCGGGGT
Found at i:14564101 original size:59 final size:60
Alignment explanation
Indices: 14564038--14564182 Score: 149
Period size: 59 Copynumber: 2.5 Consensus size: 60
14564028 ATCCGAGGGT
* * * * *
14564038 AAAATGAT-AATTTTGGATGTTTGGGGGT-AAAATGGTAATTTTTG-GAAAGTTCGGGGTCA
1 AAAATGATGAATTTTAGAAGTTTAGGGGTAAAAAT-GTAATTTTTGAG-AAGTTAGAGGTCA
*
14564097 AAAAT-ATGATTTTTAGAAGTTTAGGGGTAAAAATGTAATTTTTGAGAAGTTAGAGGTCA
1 AAAATGATGAATTTTAGAAGTTTAGGGGTAAAAATGTAATTTTTGAGAAGTTAGAGGTCA
*
14564156 AAAATG-TG-ATTCTTAGATAGTTCAGGG
1 AAAATGATGAATT-TTAGA-AGTTTAGGG
14564183 ACCTTCTGAG
Statistics
Matches: 72, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
58 4 0.06
59 54 0.75
60 14 0.19
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.35
Consensus pattern (60 bp):
AAAATGATGAATTTTAGAAGTTTAGGGGTAAAAATGTAATTTTTGAGAAGTTAGAGGTCA
Found at i:14564124 original size:30 final size:30
Alignment explanation
Indices: 14564090--14564182 Score: 109
Period size: 30 Copynumber: 3.1 Consensus size: 30
14564080 TGGAAAGTTC
*
14564090 GGGGTCAAAAATATGATTTTTAGAAGTTTA
1 GGGGTCAAAAATGTGATTTTTAGAAGTTTA
*
14564120 GGGGT-AAAAATGTAATTTTTGAGAAG-TTA
1 GGGGTCAAAAATGTGATTTTT-AGAAGTTTA
* * *
14564149 GAGGTCAAAAATGTGATTCTTAGATAGTTCA
1 GGGGTCAAAAATGTGATTTTTAGA-AGTTTA
14564180 GGG
1 GGG
14564183 ACCTTCTGAG
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
29 23 0.44
30 25 0.48
31 4 0.08
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.33
Consensus pattern (30 bp):
GGGGTCAAAAATGTGATTTTTAGAAGTTTA
Found at i:14564125 original size:87 final size:86
Alignment explanation
Indices: 14563931--14564138 Score: 206
Period size: 87 Copynumber: 2.4 Consensus size: 86
14563921 AAAATGGTAC
*
14563931 TTTTTGGACATTC-GAGGGTAAAATGGTAATTTTTGGACACTCGGGGGCAAAATGGTAATTTTTG
1 TTTTTAGACA-TCAGAGGGTAAAAT-GTAA-TTTTGGACACTCGGGGGCAAAATGGTAATTTTTG
*
14563995 AAAAGTTCAGGATCAAAAATGTAA
63 AAAAGTTCAGGATCAAAAATATAA
* * *** * * *
14564019 TTTTTTGACATCCGAGGGTAAAATGATAATTTTGGATGTTTGGGGGTAAAATGGTAATTTTTGGA
1 TTTTTAGACATCAGAGGGTAAAATG-TAATTTTGGACACTCGGGGGCAAAATGGTAATTTTTGAA
* * *
14564084 AAGTTCGGGGTCAAAAATATGA
65 AAGTTCAGGATCAAAAATATAA
*
14564106 TTTTTAGA-AGTTTAG-GGGTAAAAATGTAATTTT
1 TTTTTAGACA--TCAGAGGGT-AAAATGTAATTTT
14564139 TGAGAAGTTA
Statistics
Matches: 101, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
86 1 0.01
87 69 0.68
88 31 0.31
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (86 bp):
TTTTTAGACATCAGAGGGTAAAATGTAATTTTGGACACTCGGGGGCAAAATGGTAATTTTTGAAA
AGTTCAGGATCAAAAATATAA
Found at i:14566034 original size:17 final size:17
Alignment explanation
Indices: 14566012--14566061 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
14566002 TCTTTCAAAT
14566012 TTTAAATTTAAAATAAC
1 TTTAAATTTAAAATAAC
*
14566029 TTTAAATTTAAAATAAT
1 TTTAAATTTAAAATAAC
*
14566046 TTTAAACTTAAAATAA
1 TTTAAATTTAAAATAA
14566062 AAATTGGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (17 bp):
TTTAAATTTAAAATAAC
Found at i:14573881 original size:39 final size:39
Alignment explanation
Indices: 14573807--14573881 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 39
14573797 AGGTTCAGAA
* *
14573807 TTTGGGTTTGGGATTTAATGTTCAAAGTTCGGGTTTGAG
1 TTTGGGTTTGGGATTCAATGTTCAAAGTTCAGGTTTGAG
* * *
14573846 TTTGGGTTTTGGG-TTCAATGTTTAAGGTTTAGGTTT
1 TTTGGG-TTTGGGATTCAATGTTCAAAGTTCAGGTTT
14573882 AGGGTTTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
39 24 0.80
40 6 0.20
ACGTcount: A:0.16, C:0.04, G:0.32, T:0.48
Consensus pattern (39 bp):
TTTGGGTTTGGGATTCAATGTTCAAAGTTCAGGTTTGAG
Found at i:14573911 original size:28 final size:27
Alignment explanation
Indices: 14573845--14573916 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 27
14573835 TCGGGTTTGA
* * * *
14573845 GTTTGGGTTTTGGGTTCAATGTTTAAG
1 GTTTAGGTTTAGGGTTTAAAGTTTAAG
14573872 GTTTAGGTTTAGGGTTTAAAGTTTATAG
1 GTTTAGGTTTAGGGTTTAAAGTTTA-AG
14573900 GTTTAGCG-TTAGGGTTT
1 GTTTAG-GTTTAGGGTTT
14573917 GGGTTTAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
27 21 0.54
28 17 0.44
29 1 0.03
ACGTcount: A:0.18, C:0.03, G:0.32, T:0.47
Consensus pattern (27 bp):
GTTTAGGTTTAGGGTTTAAAGTTTAAG
Found at i:14573999 original size:14 final size:15
Alignment explanation
Indices: 14573974--14574006 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
14573964 TCAACCTTAA
14573974 GGTTTAAGGGTTTAG
1 GGTTTAAGGGTTTAG
*
14573989 GGTTT-AGGGTTTGG
1 GGTTTAAGGGTTTAG
14574003 GGTT
1 GGTT
14574007 GAGATTTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.12, C:0.00, G:0.45, T:0.42
Consensus pattern (15 bp):
GGTTTAAGGGTTTAG
Found at i:14575268 original size:3 final size:3
Alignment explanation
Indices: 14575260--14575295 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
14575250 CTTTGTTTTC
14575260 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
14575296 ACCCAACCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:14576921 original size:37 final size:37
Alignment explanation
Indices: 14576880--14577001 Score: 190
Period size: 37 Copynumber: 3.3 Consensus size: 37
14576870 AATCACATAG
* * *
14576880 CATTATGCTCTAACCAAGACGTAAGCCTTTCATATAA
1 CATTACGCTCTAACCGAGACGTAAGCCTTCCATATAA
* *
14576917 CATTACGCTCTAACTGAGACATAAGCCTTCCATATAA
1 CATTACGCTCTAACCGAGACGTAAGCCTTCCATATAA
*
14576954 CATTACGCTCTAATCGAGACGTAAGCCTTCCATATAA
1 CATTACGCTCTAACCGAGACGTAAGCCTTCCATATAA
14576991 CATTACGCTCT
1 CATTACGCTCT
14577002 CCATCGGAGT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 77 1.00
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.29
Consensus pattern (37 bp):
CATTACGCTCTAACCGAGACGTAAGCCTTCCATATAA
Found at i:14581341 original size:29 final size:29
Alignment explanation
Indices: 14581300--14581355 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
14581290 AAATATATCA
* * * *
14581300 ATTTATTTTTATATTAGATAAATATAATT
1 ATTTATGTATATAATAGATAAACATAATT
*
14581329 ATTTATGTATATAATATATAAACATAA
1 ATTTATGTATATAATAGATAAACATAA
14581356 AATGATGTCA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (29 bp):
ATTTATGTATATAATAGATAAACATAATT
Found at i:14584501 original size:22 final size:24
Alignment explanation
Indices: 14584461--14584504 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
14584451 TGATAAAGTA
14584461 TTTTGATATAATAAATTAAAATAT
1 TTTTGATATAATAAATTAAAATAT
*
14584485 TTTTGA-AT-ATAAGTTAAAAT
1 TTTTGATATAATAAATTAAAAT
14584505 TAATAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 2 0.11
24 6 0.32
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (24 bp):
TTTTGATATAATAAATTAAAATAT
Found at i:14584627 original size:20 final size:20
Alignment explanation
Indices: 14584585--14584687 Score: 84
Period size: 20 Copynumber: 5.0 Consensus size: 20
14584575 AGTTTGAAAG
*
14584585 AATTTTAAAATCAAGTTAAAAT
1 AATTTT-AAA-CAAGTCAAAAT
*
14584607 AATTTTAAACATGTCAAAAT
1 AATTTTAAACAAGTCAAAAT
*
14584627 AA-TTTGAACTAAGTCAAAAT
1 AATTTTAAAC-AAGTCAAAAT
* ** *
14584647 CATTTT-AACACTTTAAAAT
1 AATTTTAAACAAGTCAAAAT
*
14584666 ATTTTTCAAACAAGTCAAAAT
1 AATTTT-AAACAAGTCAAAAT
14584687 A
1 A
14584688 GCTTCAGGCC
Statistics
Matches: 64, Mismatches: 13, Indels: 9
0.74 0.15 0.10
Matches are distributed among these distances:
19 17 0.27
20 24 0.38
21 17 0.27
22 6 0.09
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.35
Consensus pattern (20 bp):
AATTTTAAACAAGTCAAAAT
Found at i:14587128 original size:27 final size:27
Alignment explanation
Indices: 14587098--14587175 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
14587088 TTATGAACAA
14587098 CCTTTGTGGTGAACTCTGCA-AGAAATG
1 CCTTTGTGGTGAACTCTG-ATAGAAATG
* *
14587125 CCTTTATGGTGAACTTTGATAGAAATG
1 CCTTTGTGGTGAACTCTGATAGAAATG
** *
14587152 CCTTTGTGGCAAACTCTAATAGAA
1 CCTTTGTGGTGAACTCTGATAGAA
14587176 CTATCTTTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.02
27 42 0.98
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (27 bp):
CCTTTGTGGTGAACTCTGATAGAAATG
Found at i:14588913 original size:23 final size:23
Alignment explanation
Indices: 14588887--14589003 Score: 144
Period size: 23 Copynumber: 5.0 Consensus size: 23
14588877 TTCATTTAAC
*
14588887 TTAATCAAACATGTTCACGAACA
1 TTAATCGAACATGTTCACGAACA
* *
14588910 TTAAACGAACATGTTCATGAACA
1 TTAATCGAACATGTTCACGAACA
*
14588933 TATAATTGAACATGTTCACGAACA
1 T-TAATCGAACATGTTCACGAACA
* *
14588957 TTAAACGAACATGTTCATGAACA
1 TTAATCGAACATGTTCACGAACA
* *
14588980 TATAATTGAACATGTTTACGAACA
1 T-TAATCGAACATGTTCACGAACA
14589004 ATGTTAGTGA
Statistics
Matches: 79, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
23 41 0.52
24 38 0.48
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (23 bp):
TTAATCGAACATGTTCACGAACA
Found at i:14588933 original size:12 final size:12
Alignment explanation
Indices: 14588894--14588980 Score: 63
Period size: 12 Copynumber: 7.4 Consensus size: 12
14588884 AACTTAATCA
14588894 AACATGTTCACG
1 AACATGTTCACG
**
14588906 AACAT-TAAACG
1 AACATGTTCACG
*
14588917 AACATGTTCATG
1 AACATGTTCACG
* * *
14588929 AACAT-ATAATTG
1 AACATGTTCA-CG
14588941 AACATGTTCACG
1 AACATGTTCACG
**
14588953 AACAT-TAAACG
1 AACATGTTCACG
*
14588964 AACATGTTCATG
1 AACATGTTCACG
14588976 AACAT
1 AACAT
14588981 ATAATTGAAC
Statistics
Matches: 56, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
11 20 0.36
12 34 0.61
13 2 0.04
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (12 bp):
AACATGTTCACG
Found at i:14588953 original size:47 final size:47
Alignment explanation
Indices: 14588894--14589003 Score: 211
Period size: 47 Copynumber: 2.3 Consensus size: 47
14588884 AACTTAATCA
14588894 AACATGTTCACGAACATTAAACGAACATGTTCATGAACATATAATTG
1 AACATGTTCACGAACATTAAACGAACATGTTCATGAACATATAATTG
14588941 AACATGTTCACGAACATTAAACGAACATGTTCATGAACATATAATTG
1 AACATGTTCACGAACATTAAACGAACATGTTCATGAACATATAATTG
*
14588988 AACATGTTTACGAACA
1 AACATGTTCACGAACA
14589004 ATGTTAGTGA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 62 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (47 bp):
AACATGTTCACGAACATTAAACGAACATGTTCATGAACATATAATTG
Found at i:14591693 original size:30 final size:31
Alignment explanation
Indices: 14591639--14591699 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
14591629 ATTAATAAAG
* *
14591639 ATAAAATTTTATTTTGATTTTTTTAAAAATT
1 ATAAAATTTTAATTTGAATTTTTTAAAAATT
14591670 ATAAAATTTTAATTT-AATTTTTTAAAAATT
1 ATAAAATTTTAATTTGAATTTTTTAAAAATT
14591700 TTATTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 14 0.50
31 14 0.50
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (31 bp):
ATAAAATTTTAATTTGAATTTTTTAAAAATT
Found at i:14591697 original size:22 final size:22
Alignment explanation
Indices: 14591672--14591735 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
14591662 TAAAAATTAT
**
14591672 AAAATTTTAATTTAATTTTTTA
1 AAAATTTTAATTTAATTTCGTA
*
14591694 AAAATTTT-ATTTTATTATCGTA
1 AAAATTTTAATTTAATT-TCGTA
*
14591716 AAAATTATAATTTAATTTCG
1 AAAATTTTAATTTAATTTCG
14591736 ATCTCTCTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 7 0.20
22 21 0.60
23 7 0.20
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (22 bp):
AAAATTTTAATTTAATTTCGTA
Found at i:14592822 original size:21 final size:20
Alignment explanation
Indices: 14592788--14592828 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
14592778 TTAAGATATT
14592788 ATTTTAATAAAATAT-TTAA
1 ATTTTAATAAAATATATTAA
14592807 ATTTTATATAAAAATATATTAA
1 ATTTTA-AT-AAAATATATTAA
14592829 TAACATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 2 0.11
21 7 0.37
22 4 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTTTAATAAAATATATTAA
Found at i:14597738 original size:24 final size:24
Alignment explanation
Indices: 14597692--14597738 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
14597682 GATGTTTTAA
**
14597692 TAAATAATAAATAAATATTAATAT
1 TAAATAATAAATAAATAAAAATAT
14597716 TAAATAA-AAATAAAATAAAAATA
1 TAAATAATAAAT-AAATAAAAATA
14597739 AAAAAGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (24 bp):
TAAATAATAAATAAATAAAAATAT
Found at i:14597748 original size:11 final size:11
Alignment explanation
Indices: 14597693--14597741 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
14597683 ATGTTTTAAT
14597693 AAATAATAAATA
1 AAATAA-AAATA
* * *
14597705 AATATTAATATT
1 AA-ATAAAAATA
14597717 AAATAAAAATA
1 AAATAAAAATA
14597728 AAATAAAAATA
1 AAATAAAAATA
14597739 AAA
1 AAA
14597742 AAGAAATTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
11 20 0.67
12 7 0.23
13 3 0.10
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAATAAAAATA
Found at i:14598701 original size:30 final size:30
Alignment explanation
Indices: 14598658--14598982 Score: 281
Period size: 30 Copynumber: 10.9 Consensus size: 30
14598648 TAGGTCTTTG
*
14598658 AACTT-TCCAAAAATCATATTTTGACCCCTA
1 AACTTCTCC-AAAATCACATTTTGACCCCTA
* * *
14598688 AACTTCTCCAAAATTAGATTTTAACCCCTA
1 AACTTCTCCAAAATCACATTTTGACCCCTA
* * *
14598718 AAATTTTCCAAAATTACATTTTGACCCCTA
1 AACTTCTCCAAAATCACATTTTGACCCCTA
* * *
14598748 AACTTTTCCAAAATTATATTTTGACTCCC-A
1 AACTTCTCCAAAATCACATTTTGAC-CCCTA
* * *
14598778 AACTTCTTCAGAATCACATTTTG-TCCCTCA
1 AACTTCTCCAAAATCACATTTTGACCCCT-A
14598808 AATCTTC-CCAAAAATCACATTTTGA-CCCTCA
1 AA-CTTCTCC-AAAATCACATTTTGACCCCT-A
* * **
14598839 AACTTTTCTAAAATTGCATTTTGA-CCC-A
1 AACTTCTCCAAAATCACATTTTGACCCCTA
* * * * *
14598867 AATTTTTCCAAGATTACATTTTGACCCTTA
1 AACTTCTCCAAAATCACATTTTGACCCCTA
* * *
14598897 AACTTCTCTAAAATCACGTTTTGACCCTTA
1 AACTTCTCCAAAATCACATTTTGACCCCTA
*
14598927 AACCTTC-CCAAAAATCACATTTTGACCTC-A
1 AA-CTTCTCC-AAAATCACATTTTGACCCCTA
14598957 AACTTCTCCAAAATCACATTTTGACC
1 AACTTCTCCAAAATCACATTTTGACC
14598983 TCGTATTCTC
Statistics
Matches: 246, Mismatches: 36, Indels: 27
0.80 0.12 0.09
Matches are distributed among these distances:
28 24 0.10
29 23 0.09
30 147 0.60
31 52 0.21
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.35
Consensus pattern (30 bp):
AACTTCTCCAAAATCACATTTTGACCCCTA
Found at i:14598919 original size:119 final size:120
Alignment explanation
Indices: 14598667--14598982 Score: 360
Period size: 119 Copynumber: 2.6 Consensus size: 120
14598657 GAACTTTCCA
* * * * *
14598667 AAAATCATATTTTGACCC-CTAAA-CTTCTCC-AAAATTAGATTTTAACCC-CTAAAATTTTCCA
1 AAAATCACATTTTGACCCTC-AAACCTTC-CCAAAAATCACATTTTGACCCTC-AAACTTTTCCA
*
14598728 AAATTACATTTTGACCCCTAAACTTTTCCAAAATTATATTTTGACTCCCAAACTTCTTC
63 AAATTACATTTTGA-CCCTAAACTTTTCCAAAATTACATTTTGACTCCCAAACTTCTTC
* * * *
14598787 AGAATCACATTTTGTCCCTCAAATCTTCCCAAAAATCACATTTTGACCCTCAAACTTTTCTAAAA
1 AAAATCACATTTTGACCCTCAAACCTTCCCAAAAATCACATTTTGACCCTCAAACTTTTCCAAAA
* * * *
14598852 TTGCATTTTGACCC-AAATTTTTCCAAGATTACATTTTGAC-CCTTAAACTTC-TC
66 TTACATTTTGACCCTAAACTTTTCCAAAATTACATTTTGACTCC-CAAACTTCTTC
* * *
14598905 TAAAATCACGTTTTGACCCTTAAACCTTCCCAAAAATCACATTTTGA-CCTCAAACTTCTCCAAA
1 -AAAATCACATTTTGACCCTCAAACCTTCCCAAAAATCACATTTTGACCCTCAAACTTTTCCAAA
*
14598969 ATCACATTTTGACC
65 ATTACATTTTGACC
14598983 TCGTATTCTC
Statistics
Matches: 168, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
118 31 0.18
119 71 0.42
120 23 0.14
121 42 0.25
122 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.35
Consensus pattern (120 bp):
AAAATCACATTTTGACCCTCAAACCTTCCCAAAAATCACATTTTGACCCTCAAACTTTTCCAAAA
TTACATTTTGACCCTAAACTTTTCCAAAATTACATTTTGACTCCCAAACTTCTTC
Found at i:14608524 original size:83 final size:83
Alignment explanation
Indices: 14608372--14608537 Score: 235
Period size: 83 Copynumber: 2.0 Consensus size: 83
14608362 TCAAACCCCT
* * * *
14608372 TCTTCTTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTGATTAGATAT
1 TCTTCTTGATGAGATACAGAGAAGTGGATCAAAG--ATAAAGCGGTCATCTTCCTGATGAGATAC
14608437 AGAGAAATAGACCAAATCCA
64 AGAGAAATAGACCAAATCCA
* *
14608457 TCTTCTTGATGAGATACAGAGAAGTGGATCACAAG-TGATGCGGTCATCTTCCTGATGAGATACA
1 TCTTCTTGATGAGATACAGAGAAGTGGATCA-AAGATAAAGCGGTCATCTTCCTGATGAGATACA
*
14608521 GAGAAGTAGACCAAATC
65 GAGAAATAGACCAAATC
14608538 GATGAAGCGA
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
83 41 0.56
85 29 0.40
86 3 0.04
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (83 bp):
TCTTCTTGATGAGATACAGAGAAGTGGATCAAAGATAAAGCGGTCATCTTCCTGATGAGATACAG
AGAAATAGACCAAATCCA
Found at i:14608659 original size:207 final size:201
Alignment explanation
Indices: 14608291--14608725 Score: 626
Period size: 207 Copynumber: 2.1 Consensus size: 201
14608281 AACTTTAAGT
* * ** *
14608291 GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAATTCAACGAAGTGAAGCTCAATGTGAGTG
1 GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAACGAAGCGAAGCTCAATGCAAGCG
* * * *
14608356 AAACTTTCAAACCCCTTCTTCTTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGCGGTCAT
66 AAACTTTCAAACCCCATCTTCTTAATGAGATACTGAGAAGTGGGACAAAACAATAAAGCGGTCAT
* * *
14608421 CTTCCTGATTAGATATAGAGAAATAGACCAAATCCATCTTCTTGATGAGATACAGAGAAGTGGAT
131 CTTCCTGATGAGATACAGAGAAATAGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTGGA-
14608486 CACAAGTGATGC
195 C-CAA---AT-C
* *
14608498 GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGCAAGCG
1 GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAACGAAGCGAAGCTCAATGCAAGCG
*
14608563 AAACTTT-GAACCTCCATCTTCTTAATGAGATACTGAGAAGTGGGACAAAACAATAAAGCGGTCA
66 AAACTTTCAAACC-CCATCTTCTTAATGAGATACTGAGAAGTGGGACAAAACAATAAAGCGGTCA
* *
14608627 TCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTGGA
130 TCTTCCTGATGAGATACAGAGAAATAGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTGGA
14608692 CCAAATC
195 CCAAATC
14608699 ---CATCTTCCTGATGAGATACAGAGAAGT
1 GGTCATCTTCCTGATGAGATACAGAGAAGT
14608726 GGATCACAAG
Statistics
Matches: 210, Mismatches: 17, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
198 27 0.13
201 1 0.00
202 2 0.01
205 3 0.01
206 5 0.02
207 172 0.82
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.23
Consensus pattern (201 bp):
GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAACGAAGCGAAGCTCAATGCAAGCG
AAACTTTCAAACCCCATCTTCTTAATGAGATACTGAGAAGTGGGACAAAACAATAAAGCGGTCAT
CTTCCTGATGAGATACAGAGAAATAGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTGGAC
CAAATC
Found at i:14608666 original size:37 final size:37
Alignment explanation
Indices: 14608625--14608728 Score: 208
Period size: 37 Copynumber: 2.8 Consensus size: 37
14608615 ATAAAGCGGT
14608625 CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATC
1 CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATC
14608662 CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATC
1 CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATC
14608699 CATCTTCCTGATGAGATACAGAGAAGTGGA
1 CATCTTCCTGATGAGATACAGAGAAGTGGA
14608729 TCACAAGTGA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (37 bp):
CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATC
Found at i:14608824 original size:122 final size:122
Alignment explanation
Indices: 14608453--14608905 Score: 476
Period size: 122 Copynumber: 3.7 Consensus size: 122
14608443 ATAGACCAAA
14608453 TCCATCTTCTTGATGAGATACAGAGAAGTGGATCACAAGTGATGCGGTCATCTTCCTGATGAGAT
1 TCCATCTTCTTGATGAGATACAGAGAAGTGGATCACAAGTGATGCGGTCATCTTCCTGATGAGAT
* **
14608518 ACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGCAAGCGAAACTTTGAACC
66 ACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGCAAGTGAAACTTCAAACC
* * * *
14608575 TCCATCTTCTTAATGAGATACTGAGAAGTGGGA-CAAAACAA-TAAAGCGGTCATCTTCCTGATG
1 TCCATCTTCTTGATGAGATACAGAGAAGT-GGATC---ACAAGTGATGCGGTCATCTTCCTGATG
* * **** * *
14608638 AGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGA-G-AAGTG-GAC--CAAA-
62 AGATACAGAGAAGTAGACCAAATCGATGAAGC-GA--AGCT-CA-ATGCAAGTGAAACTTCAAAC
14608697 -
122 C
* * *
14608697 TCCATCTTCCTGATGAGATACAGAGAAGTGGATCACAAGTGATGCGATCATCTTCCTGATGAAAT
1 TCCATCTTCTTGATGAGATACAGAGAAGTGGATCACAAGTGATGCGGTCATCTTCCTGATGAGAT
* *
14608762 ATAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGCGAGTGAAACTTCAAACC
66 ACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGCAAGTGAAACTTCAAACC
* * * * * *
14608819 CCCATCTTCTTGATGAGATACTGAGAAGTGGGTCA-AAATAATAAAGCGGTCATCTTCTTGATGA
1 TCCATCTTCTTGATGAGATACAGAGAAGTGGATCACAAGTGAT---GCGGTCATCTTCCTGATGA
* *
14608883 GATACAGAGACGTGGACCAAATC
63 GATACAGAGAAGTAGACCAAATC
14608906 CATCTTTCTG
Statistics
Matches: 266, Mismatches: 44, Indels: 40
0.76 0.13 0.11
Matches are distributed among these distances:
115 1 0.00
116 3 0.01
117 7 0.03
118 2 0.01
119 6 0.02
120 47 0.18
121 8 0.03
122 86 0.32
123 3 0.01
124 84 0.32
125 6 0.02
126 2 0.01
127 7 0.03
128 3 0.01
129 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (122 bp):
TCCATCTTCTTGATGAGATACAGAGAAGTGGATCACAAGTGATGCGGTCATCTTCCTGATGAGAT
ACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGCAAGTGAAACTTCAAACC
Found at i:14608847 original size:244 final size:244
Alignment explanation
Indices: 14608418--14608935 Score: 865
Period size: 244 Copynumber: 2.1 Consensus size: 244
14608408 ATAAAGCGGT
* * * * *
14608418 CATCTTCCTGATTAGATATAGAGAAATAGACCAAATCCATCTTCTTGATGAGATACAGAGAAGTG
1 CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTG
* *
14608483 GATCACAAGTGATGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCGATGAAGCGA
66 GATCACAAGTGATGCGATCATCTTCCTGATGAAATACAGAGAAGTAGACCAAATCGATGAAGCGA
** *
14608548 AGCTCAATGCAAGCGAAACTTTGAACCTCCATCTTCTTAATGAGATACTGAGAAGTGGGACAAAA
131 AGCTCAATGCAAGCGAAACTTCAAACCCCCATCTTCTTAATGAGATACTGAGAAGTGGGACAAAA
14608613 CAATAAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATC
196 CAATAAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATC
14608662 CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTG
1 CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTG
*
14608727 GATCACAAGTGATGCGATCATCTTCCTGATGAAATATAGAGAAGTAGACCAAATCGATGAAGCGA
66 GATCACAAGTGATGCGATCATCTTCCTGATGAAATACAGAGAAGTAGACCAAATCGATGAAGCGA
* * * *
14608792 AGCTCAATGCGAGTGAAACTTCAAACCCCCATCTTCTTGATGAGATACTGAGAAGTGGGTCAAAA
131 AGCTCAATGCAAGCGAAACTTCAAACCCCCATCTTCTTAATGAGATACTGAGAAGTGGGACAAAA
* * *
14608857 TAATAAAGCGGTCATCTTCTTGATGAGATACAGAGACGTGGACCAAATC
196 CAATAAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATC
*
14608906 CATCTTTCTGATGAGATACAGAGAAGTGGA
1 CATCTTCCTGATGAGATACAGAGAAGTGGA
14608936 TCACAATAAT
Statistics
Matches: 255, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
244 255 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (244 bp):
CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTG
GATCACAAGTGATGCGATCATCTTCCTGATGAAATACAGAGAAGTAGACCAAATCGATGAAGCGA
AGCTCAATGCAAGCGAAACTTCAAACCCCCATCTTCTTAATGAGATACTGAGAAGTGGGACAAAA
CAATAAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATC
Found at i:14608877 original size:48 final size:47
Alignment explanation
Indices: 14608821--14608980 Score: 171
Period size: 48 Copynumber: 3.6 Consensus size: 47
14608811 TTCAAACCCC
* *
14608821 CATCTTCTTGATGAGATACTGAGAAGTGGGTCAAAATAATAAAGCGGT
1 CATCTTCTTGATGAGATACAGAGAAGTGGGTCACAATAAT-AAGCGGT
* *
14608869 CATCTTCTTGATGAGATACAGAGACGT-GG--ACCA-AAT---C---
1 CATCTTCTTGATGAGATACAGAGAAGTGGGTCACAATAATAAGCGGT
*
14608906 CATCTT-TCTGATGAGATACAGAGAAGTGGATCACAATAATGAAGCGGT
1 CATCTTCT-TGATGAGATACAGAGAAGTGGGTCACAATAAT-AAGCGGT
14608954 CATCTTCTTGATGAGATACAGAGAAGT
1 CATCTTCTTGATGAGATACAGAGAAGT
14608981 AAACCAAATC
Statistics
Matches: 92, Mismatches: 7, Indels: 26
0.74 0.06 0.21
Matches are distributed among these distances:
36 1 0.01
37 24 0.26
38 1 0.01
40 4 0.04
41 3 0.03
44 3 0.03
45 3 0.03
47 2 0.02
48 50 0.54
49 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (47 bp):
CATCTTCTTGATGAGATACAGAGAAGTGGGTCACAATAATAAGCGGT
Found at i:14608963 original size:85 final size:85
Alignment explanation
Indices: 14608820--14608977 Score: 264
Period size: 85 Copynumber: 1.9 Consensus size: 85
14608810 CTTCAAACCC
* *
14608820 CCATCTTCTTGATGAGATACTGAGAAGTGGGTCAAAATAATAAAGCGGTCATCTTCTTGATGAGA
1 CCATCTTCTTGATGAGATACAGAGAAGTGGATCAAAATAATAAAGCGGTCATCTTCTTGATGAGA
14608885 TACAGAGACGTGGACCAAAT
66 TACAGAGACGTGGACCAAAT
* *
14608905 CCATCTT-TCTGATGAGATACAGAGAAGTGGATCACAATAATGAAGCGGTCATCTTCTTGATGAG
1 CCATCTTCT-TGATGAGATACAGAGAAGTGGATCAAAATAATAAAGCGGTCATCTTCTTGATGAG
14608969 ATACAGAGA
65 ATACAGAGA
14608978 AGTAAACCAA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
84 1 0.01
85 67 0.99
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.26
Consensus pattern (85 bp):
CCATCTTCTTGATGAGATACAGAGAAGTGGATCAAAATAATAAAGCGGTCATCTTCTTGATGAGA
TACAGAGACGTGGACCAAAT
Found at i:14609053 original size:209 final size:209
Alignment explanation
Indices: 14608662--14609321 Score: 975
Period size: 209 Copynumber: 3.2 Consensus size: 209
14608652 GGACCAAATC
14608662 CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTG
1 CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTG
* * * * * *
14608727 GATCAC-A-AGTGATGCGATCATCTTCCTGATGAAATATAGAGAAGTAGACCAAATCGATGAAGC
66 GATCACAATAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCGATGAAGC
*
14608790 GAAGCTCAATGCGAGTGAAACTTCAAACCCCCATCTTCTTGATGAGATACTGAGAAGTGGGTCAA
131 AAAGCTCAATGCGAGTGAAACTTCAAACCCCCATCTTCTTGATGAGATACTGAGAAGTGGGTCAA
14608855 AATAATAAAGCGGT
196 AATAATAAAGCGGT
* * *
14608869 CATCTTCTTGATGAGATACAGAGACGTGGACCAAATCCATCTTTCTGATGAGATACAGAGAAGTG
1 CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTG
* *
14608934 GATCACAATAATGAAGCGGTCATCTTCTTGATGAGATACAGAGAAGTAAACCAAATCGATTAAGC
66 GATCACAATAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCGATGAAGC
** **
14608999 AAAGCTCAATGCGAGCAAAACTTTGAACCCCCATCTT-TCTGATGAGATACTGAGAAGTGGGTCA
131 AAAGCTCAATGCGAGTGAAACTTCAAACCCCCATCTTCT-TGATGAGATACTGAGAAGTGGGTCA
14609063 AAATAATAAAGCGGT
195 AAATAATAAAGCGGT
* * * *
14609078 CATCTTCCTGATGAGATATAGAGAAATGGATCAAATCCATCTTCCTAATGAGATACAGAGAAGTG
1 CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTG
* * * * *
14609143 GATTACAATAATGAAGTGGTCATCTTCCTGATGAGATACAGAGAAGTACACCGAATCAAATGAAG
66 GATCACAATAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATC-GATGAAG
* * * * *
14609208 CAAAGTTCAATGCGAGTGAAACTCCAAACCCCTATCTTCTTGATGAGATACAGAGAAGTGGGTCG
130 CAAAGCTCAATGCGAGTGAAACTTCAAACCCCCATCTTCTTGATGAGATACTGAGAAGTGGGTCA
*
14609273 AAACAATAAAGCGGT
195 AAATAATAAAGCGGT
* * *
14609288 CATCTTTCTGATGAGATATAGAGAAGTAGACCAA
1 CATCTTCCTGATGAGATACAGAGAAGTGGACCAA
14609322 GAGATGAAGC
Statistics
Matches: 404, Mismatches: 44, Indels: 7
0.89 0.10 0.02
Matches are distributed among these distances:
207 68 0.17
208 2 0.00
209 230 0.57
210 103 0.25
211 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (209 bp):
CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTG
GATCACAATAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCGATGAAGC
AAAGCTCAATGCGAGTGAAACTTCAAACCCCCATCTTCTTGATGAGATACTGAGAAGTGGGTCAA
AATAATAAAGCGGT
Found at i:14609089 original size:48 final size:46
Alignment explanation
Indices: 14609030--14609189 Score: 149
Period size: 48 Copynumber: 3.6 Consensus size: 46
14609020 TTTGAACCCC
* * *
14609030 CATCTTTCTGATGAGATACTGAGAAGTGGGTCAAAATAATAAAGCGGT
1 CATCTTCCTGATGAGATACAGAGAAGTGGATC-AAATAAT-AAGCGGT
* *
14609078 CATCTTCCTGATGAGATATAGAGAAATGGATC--A-AAT---C---
1 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAATAATAAGCGGT
* * *
14609115 CATCTTCCTAATGAGATACAGAGAAGTGGATTACAATAATGAAGTGGT
1 CATCTTCCTGATGAGATACAGAGAAGTGGATCA-AATAAT-AAGCGGT
14609163 CATCTTCCTGATGAGATACAGAGAAGT
1 CATCTTCCTGATGAGATACAGAGAAGT
14609190 ACACCGAATC
Statistics
Matches: 90, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
37 28 0.31
40 2 0.02
41 3 0.03
44 3 0.03
45 1 0.01
48 53 0.59
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (46 bp):
CATCTTCCTGATGAGATACAGAGAAGTGGATCAAATAATAAGCGGT
Found at i:14609137 original size:453 final size:451
Alignment explanation
Indices: 14608293--14609144 Score: 1350
Period size: 453 Copynumber: 1.9 Consensus size: 451
14608283 CTTTAAGTGG
* * * *
14608293 TCATCTTCCTGATGAGATACAGAGAAGTAGACCAATTCAACGAAGTGAAGCTCAATGTGAGTGAA
1 TCATCTTCCTGATGAAATACAGAGAAGTAGACCAAATCAACGAAGCGAAGCTCAATGCGAGTGAA
* *
14608358 ACTTTCAAACCCCTTCTTCTTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCT
66 ACTTTCAAACCCCATCTTCTTGATGAGATACTGAGAAGTGGGTCAAAACAATAAAGCGGTCATCT
* *
14608423 TCCTGATTAGATATAGAGAAATAGACCAAATCCATCTTCTTGATGAGATACAGAGAAGTGGATCA
131 TCCTGATGAGATACAGAGAAATAGACCAAATCCATCTTCTTGATGAGATACAGAGAAGTGGATCA
* * * *
14608488 CAAGTGATGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTC
196 CAAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCGATGAAGCAAAGCTC
* *
14608553 AATGCAAGCGAAACTTTGAACCTCCATCTTCTTAATGAGATACTGAGAAGTGGGACAAAACAATA
261 AATGCAAGCAAAACTTTGAACCCCCATCTTCTTAATGAGATACTGAGAAGTGGGACAAAACAATA
* *
14608618 AAGCGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAG
326 AAGCGGTCATCTTCCTGATGAGATACAGAGAAATGGACCAAATCCATCTTCCTAATGAGATACAG
14608683 AGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTGGATCACAAGTGATGCGA
391 AGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTGGATCACAAGTGATGCGA
* * *
14608744 TCATCTTCCTGATGAAATATAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGCGAGTGAA
1 TCATCTTCCTGATGAAATACAGAGAAGTAGACCAAATCAACGAAGCGAAGCTCAATGCGAGTGAA
*
14608809 AC-TTCAAACCCCCATCTTCTTGATGAGATACTGAGAAGTGGGTCAAAATAATAAAGCGGTCATC
66 ACTTTCAAA-CCCCATCTTCTTGATGAGATACTGAGAAGTGGGTCAAAACAATAAAGCGGTCATC
* ** *
14608873 TTCTTGATGAGATACAGAGACGTGGACCAAATCCATCTT-TCTGATGAGATACAGAGAAGTGGAT
130 TTCCTGATGAGATACAGAGAAATAGACCAAATCCATCTTCT-TGATGAGATACAGAGAAGTGGAT
* *
14608937 CACAATAATGAAGCGGTCATCTTCTTGATGAGATACAGAGAAGTAAACCAAATCGATTAAGCAAA
194 CAC-A-AATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCGATGAAGCAAA
* * *
14609002 GCTCAATGCGAGCAAAACTTTGAACCCCCATCTT-TCTGATGAGATACTGAGAAGTGGGTCAAAA
257 GCTCAATGCAAGCAAAACTTTGAACCCCCATCTTCT-TAATGAGATACTGAGAAGTGGGACAAAA
* * *
14609066 TAATAAAGCGGTCATCTTCCTGATGAGATATAGAGAAATGGATCAAATCCATCTTCCTAATGAGA
321 CAATAAAGCGGTCATCTTCCTGATGAGATACAGAGAAATGGACCAAATCCATCTTCCTAATGAGA
14609131 TACAGAGAAGTGGA
386 TACAGAGAAGTGGA
14609145 TTACAATAAT
Statistics
Matches: 364, Mismatches: 32, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
450 7 0.02
451 171 0.47
452 2 0.01
453 184 0.51
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (451 bp):
TCATCTTCCTGATGAAATACAGAGAAGTAGACCAAATCAACGAAGCGAAGCTCAATGCGAGTGAA
ACTTTCAAACCCCATCTTCTTGATGAGATACTGAGAAGTGGGTCAAAACAATAAAGCGGTCATCT
TCCTGATGAGATACAGAGAAATAGACCAAATCCATCTTCTTGATGAGATACAGAGAAGTGGATCA
CAAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCGATGAAGCAAAGCTC
AATGCAAGCAAAACTTTGAACCCCCATCTTCTTAATGAGATACTGAGAAGTGGGACAAAACAATA
AAGCGGTCATCTTCCTGATGAGATACAGAGAAATGGACCAAATCCATCTTCCTAATGAGATACAG
AGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTGGATCACAAGTGATGCGA
Found at i:14609172 original size:85 final size:85
Alignment explanation
Indices: 14609029--14609187 Score: 237
Period size: 85 Copynumber: 1.9 Consensus size: 85
14609019 CTTTGAACCC
* * * *
14609029 CCATCTTTCTGATGAGATACTGAGAAGTGGGTCAAAATAATAAAGCGGTCATCTTCCTGATGAGA
1 CCATCTTCCTAATGAGATACAGAGAAGTGGATCAAAATAATAAAGCGGTCATCTTCCTGATGAGA
*
14609094 TATAGAGAAATGGATCAAAT
66 TACAGAGAAATGGATCAAAT
* * * *
14609114 CCATCTTCCTAATGAGATACAGAGAAGTGGATTACAATAATGAAGTGGTCATCTTCCTGATGAGA
1 CCATCTTCCTAATGAGATACAGAGAAGTGGATCAAAATAATAAAGCGGTCATCTTCCTGATGAGA
14609179 TACAGAGAA
66 TACAGAGAA
14609188 GTACACCGAA
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 65 1.00
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.26
Consensus pattern (85 bp):
CCATCTTCCTAATGAGATACAGAGAAGTGGATCAAAATAATAAAGCGGTCATCTTCCTGATGAGA
TACAGAGAAATGGATCAAAT
Found at i:14610784 original size:27 final size:28
Alignment explanation
Indices: 14610716--14610783 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
14610706 ACTAGTTTTA
* *
14610716 AAAAAATAATAAAATAGATTTGAAAAGTT
1 AAAAAA-AATAAAACAGATTTGAAAAGTC
14610745 AAAAAAAATAAAACAGATTTG-AAAG-C
1 AAAAAAAATAAAACAGATTTGAAAAGTC
*
14610771 AAAGAAAATAAAA
1 AAAAAAAATAAAA
14610784 AAAGGGAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 12 0.33
27 4 0.11
28 14 0.39
29 6 0.17
ACGTcount: A:0.68, C:0.03, G:0.10, T:0.19
Consensus pattern (28 bp):
AAAAAAAATAAAACAGATTTGAAAAGTC
Found at i:14611105 original size:30 final size:29
Alignment explanation
Indices: 14611071--14611433 Score: 343
Period size: 30 Copynumber: 12.1 Consensus size: 29
14611061 TAGAAATCAT
*
14611071 ATTTTAACTCCTAAACTTCTCCAAAATTAC
1 ATTTTAAC-CCTAAACTTTTCCAAAATTAC
*
14611101 ATTTTAACCCTTAAACTTTTTCAAAATTAC
1 ATTTTAACCC-TAAACTTTTCCAAAATTAC
* **
14611131 ATTTTGACCTCTAAACTTTTGAAAAATTAC
1 ATTTTAACC-CTAAACTTTTCCAAAATTAC
** * * *
14611161 ACCTTGACTTCTAAACTTCTCCAAAATTAC
1 ATTTTAAC-CCTAAACTTTTCCAAAATTAC
* *
14611191 ATTTTAACCCCTAAACTTCTCTAAAATTAC
1 ATTTTAA-CCCTAAACTTTTCCAAAATTAC
* **
14611221 ATTTTAACCCCTAAATTTTTCTTAAATTAC
1 ATTTTAA-CCCTAAACTTTTCCAAAATTAC
14611251 ATTTTAACCCTTAAACTTTTCCAAAATTAC
1 ATTTTAACCC-TAAACTTTTCCAAAATTAC
* * * *
14611281 ATTTTAACCCCTAAA-TATCTCCAAAGTCAT
1 ATTTTAA-CCCTAAACT-TTTCCAAAATTAC
* * *
14611311 ATTTTGACCCTCAAAC-CTTCCTAAAATCAC
1 ATTTTAACCCT-AAACTTTTCC-AAAATTAC
* *
14611341 ATTTTAACCCCAAACTTTTCTAAAATTAC
1 ATTTTAACCCTAAACTTTTCCAAAATTAC
* *
14611370 ATTTTAACCTATAAACCTTTCCAAAATTAC
1 ATTTTAACC-CTAAACTTTTCCAAAATTAC
* *
14611400 ATTTTGACCCTCAAACTTTTCCAAAATCAC
1 ATTTTAACCCT-AAACTTTTCCAAAATTAC
14611430 ATTT
1 ATTT
14611434 GACCCTCAAA
Statistics
Matches: 276, Mismatches: 44, Indels: 26
0.80 0.13 0.08
Matches are distributed among these distances:
29 34 0.12
30 237 0.86
31 5 0.02
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.38
Consensus pattern (29 bp):
ATTTTAACCCTAAACTTTTCCAAAATTAC
Found at i:14611206 original size:90 final size:89
Alignment explanation
Indices: 14611053--14611433 Score: 392
Period size: 90 Copynumber: 4.2 Consensus size: 89
14611043 ATAGGTCTTT
* * *
14611053 AAACTTTT-TAGAAATCATATTTTAACTCCTAAACTTCTCCAAAATTACATTTTAACCCTTAAAC
1 AAACTTTTCTA-AAATTACATTTTAAC-CCTAAACTTCTCCAAAATTACATTTTAACCCCTAAAC
*
14611117 TTTTTCAAAATTACATTTTGA-CCTC
64 TTTTCCAAAATTACATTTTGACCCTC
** ** * *
14611142 TAAACTTTTGAAAAATTACACCTTGACTTCTAAACTTCTCCAAAATTACATTTTAACCCCTAAAC
1 -AAACTTTTCTAAAATTACATTTTAAC-CCTAAACTTCTCCAAAATTACATTTTAACCCCTAAAC
* * *
14611207 TTCTCTAAAATTACATTTTAACCC-C
64 TTTTCCAAAATTACATTTTGACCCTC
* * *
14611232 TAAATTTTTCTTAAATTACATTTTAACCCTTAAACTTTTCCAAAATTACATTTTAACCCCTAAA-
1 -AAACTTTTCTAAAATTACATTTTAACCC-TAAACTTCTCCAAAATTACATTTTAACCCCTAAAC
* * * *
14611296 TATCTCCAAAGTCATATTTTGACCCTC
64 T-TTTCCAAAATTACATTTTGACCCTC
* * * * * * ** *
14611323 AAACCTTCCTAAAATCACATTTTAACCCCAAACTTTTCTAAAATTACATTTTAACCTATAAACCT
1 AAACTTTTCTAAAATTACATTTTAACCCTAAACTTCTCCAAAATTACATTTTAACCCCTAAACTT
14611388 TTCCAAAATTACATTTTGACCCTC
66 TTCCAAAATTACATTTTGACCCTC
* *
14611412 AAACTTTTCCAAAATCACATTT
1 AAACTTTTCTAAAATTACATTT
14611434 GACCCTCAAA
Statistics
Matches: 242, Mismatches: 43, Indels: 13
0.81 0.14 0.04
Matches are distributed among these distances:
89 72 0.30
90 166 0.69
91 4 0.02
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (89 bp):
AAACTTTTCTAAAATTACATTTTAACCCTAAACTTCTCCAAAATTACATTTTAACCCCTAAACTT
TTCCAAAATTACATTTTGACCCTC
Found at i:14611393 original size:89 final size:90
Alignment explanation
Indices: 14611064--14611505 Score: 340
Period size: 90 Copynumber: 4.9 Consensus size: 90
14611054 AACTTTTTAG
* * * * * *
14611064 AAATCATATTTTAACTCCT-AAACTTCTCCAAAATTACATTTTAACCCTTAAACTTTTTCAAAAT
1 AAATCACATTTTAAC-CCTCAAACTTTTCCAAAATTACATTTTAACCCATAAACATCTCCAAAAT
* * **
14611128 TACATTTTGA-CCTCTAAACTTTTGAA
65 CACATTTTGACCCTC-AAACTCTTCCA
* ** * * * * * *
14611154 AAATTACACCTTGA-CTTCTAAACTTCTCCAAAATTACATTTTAACCCCTAAACTTCTCTAAAAT
1 AAATCACATTTTAACCCTC-AAACTTTTCCAAAATTACATTTTAACCCATAAACATCTCCAAAAT
* * * * **
14611218 TACATTTTAACCC-CTAAATTTTTCTT
65 CACATTTTGACCCTC-AAACTCTTCCA
* * * * *
14611244 AAATTACATTTTAACCCTTAAACTTTTCCAAAATTACATTTTAACCCCTAAATATCTCCAAAGTC
1 AAATCACATTTTAACCCTCAAACTTTTCCAAAATTACATTTTAACCCATAAACATCTCCAAAATC
*
14611309 ATATTTTGACCCTCAAAC-CTTCCTA
66 ACATTTTGACCCTCAAACTCTTCC-A
* * * * *
14611334 AAATCACATTTTAACCC-CAAACTTTTCTAAAATTACATTTTAACCTATAAACCTTTCCAAAATT
1 AAATCACATTTTAACCCTCAAACTTTTCCAAAATTACATTTTAACCCATAAACATCTCCAAAATC
*
14611398 ACATTTTGACCCTCAAACTTTTCCA
66 ACATTTTGACCCTCAAACTCTTCCA
* * * * * *
14611423 AAATCACATTTGACCCTCAAACCTCAAACCTTTCTAAAAATCACATTTTGACCC-CAAACATCTC
1 AAATCACATTT-----T-AACCCTCAAACTTTTC-CAAAATTACATTTTAACCCATAAACATCTC
14611487 CAAAATCACATTTTGACCC
59 CAAAATCACATTTTGACCC
14611506 CGTATTTTCT
Statistics
Matches: 283, Mismatches: 54, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
88 2 0.01
89 70 0.25
90 152 0.54
91 5 0.02
94 1 0.00
95 4 0.01
96 34 0.12
97 15 0.05
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.36
Consensus pattern (90 bp):
AAATCACATTTTAACCCTCAAACTTTTCCAAAATTACATTTTAACCCATAAACATCTCCAAAATC
ACATTTTGACCCTCAAACTCTTCCA
Found at i:14611466 original size:37 final size:36
Alignment explanation
Indices: 14611408--14611481 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 36
14611398 ACATTTTGAC
* *
14611408 CCTCAAACTTTTCCAAAATCACA-TTTGACCCTCAAA
1 CCTCAAACCTTTCAAAAATCACATTTTGACCC-CAAA
14611444 CCTCAAACCTTTCTAAAAATCACATTTTGACCCCAAA
1 CCTCAAACCTTTC-AAAAATCACATTTTGACCCCAAA
14611481 C
1 C
14611482 ATCTCCAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 12 0.35
37 14 0.41
38 8 0.24
ACGTcount: A:0.36, C:0.34, G:0.03, T:0.27
Consensus pattern (36 bp):
CCTCAAACCTTTCAAAAATCACATTTTGACCCCAAA
Found at i:14616397 original size:23 final size:21
Alignment explanation
Indices: 14616371--14616414 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
14616361 TCAGCAAATG
14616371 ATTTTAAAATTATAAAAATTATT
1 ATTTTAAAA-TAT-AAAATTATT
*
14616394 ATTTTTAAATATAAAATTATT
1 ATTTTAAAATATAAAATTATT
14616415 TTAAAATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 3 0.15
23 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTTTAAAATATAAAATTATT
Found at i:14616409 original size:30 final size:30
Alignment explanation
Indices: 14616375--14616435 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
14616365 CAAATGATTT
*
14616375 TAAAATTA-TAAAAATTATTATTTTTAAATA
1 TAAAATTATTAAAAATTACT-TTTTTAAATA
*
14616405 TAAAATTATTTTAAAATTACTTTTTTAAATA
1 TAAAATTA-TTAAAAATTACTTTTTTAAATA
14616436 ATTTTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 8 0.30
31 10 0.37
32 9 0.33
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (30 bp):
TAAAATTATTAAAAATTACTTTTTTAAATA
Found at i:14617594 original size:20 final size:19
Alignment explanation
Indices: 14617515--14617600 Score: 54
Period size: 20 Copynumber: 4.4 Consensus size: 19
14617505 TGATGATTTT
14617515 AATAA-TTTTATATTTTAAA
1 AATAATTTTTATATTTT-AA
* *
14617534 AATGATTTTAAAATAATTTT--
1 AATAATTTT--TAT-ATTTTAA
*
14617554 AATAA-TTTTATATTTAAAA
1 AATAATTTTTATATTT-TAA
14617573 AATAATTTTTATAATTTTAA
1 AATAATTTTTAT-ATTTTAA
*
14617593 AATCATTT
1 AATAATTT
14617601 GCTGACGTGG
Statistics
Matches: 51, Mismatches: 7, Indels: 17
0.68 0.09 0.23
Matches are distributed among these distances:
16 4 0.08
17 2 0.04
19 12 0.24
20 22 0.43
21 4 0.08
22 2 0.04
23 5 0.10
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (19 bp):
AATAATTTTTATATTTTAA
Found at i:14619311 original size:24 final size:24
Alignment explanation
Indices: 14619284--14619330 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
14619274 GAGGTGGTGG
14619284 TGGTTCAGGATCAGGAGCAGGGGC
1 TGGTTCAGGATCAGGAGCAGGGGC
* * *
14619308 TGGTTCCGGTTCAGGATCAGGGG
1 TGGTTCAGGATCAGGAGCAGGGG
14619331 GTTCTAGTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.45, T:0.21
Consensus pattern (24 bp):
TGGTTCAGGATCAGGAGCAGGGGC
Found at i:14619493 original size:60 final size:60
Alignment explanation
Indices: 14619384--14619496 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 60
14619374 TTCATCTGGT
* * *
14619384 GGGTCTGGTGCAGGTTCTGAAGCTGGCTCATCCGCAGGTTCTTACGCTGGGTCTCGAGCC
1 GGGTCTGGTGCAGGTTCAGAAGCTGGCTCATCCGCAGGGTCTGACGCTGGGTCTCGAGCC
* * *
14619444 GGGTCTGGTGCAGGTTCAGAAGCTGGTTCATCTGCTGGGTCTCGA-GCTGGGTC
1 GGGTCTGGTGCAGGTTCAGAAGCTGGCTCATCCGCAGGGTCT-GACGCTGGGTC
14619497 AGGACGAGGC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
60 45 0.98
61 1 0.02
ACGTcount: A:0.12, C:0.24, G:0.37, T:0.27
Consensus pattern (60 bp):
GGGTCTGGTGCAGGTTCAGAAGCTGGCTCATCCGCAGGGTCTGACGCTGGGTCTCGAGCC
Found at i:14623769 original size:21 final size:22
Alignment explanation
Indices: 14623743--14623793 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
14623733 ATGTGTCACG
14623743 AAATGAAA-TTAAAATG-AAACC
1 AAATGAAAGTT-AAATGAAAACC
14623764 AAATGAAAGTTAAATGAAAACC
1 AAATGAAAGTTAAATGAAAACC
*
14623786 TAATGAAA
1 AAATGAAA
14623794 AAAGCAACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.61, C:0.08, G:0.12, T:0.20
Consensus pattern (22 bp):
AAATGAAAGTTAAATGAAAACC
Found at i:14626767 original size:23 final size:23
Alignment explanation
Indices: 14626736--14627599 Score: 1010
Period size: 23 Copynumber: 37.6 Consensus size: 23
14626726 GTGTTCTTTT
*
14626736 ATTTATGCTTAAATATTAATATG
1 ATTTGTGCTTAAATATTAATATG
* *
14626759 ATTTGTGCTCAAAAATTAATATG
1 ATTTGTGCTTAAATATTAATATG
* * * *
14626782 ATTTATGCATAAATATTAGTGTG
1 ATTTGTGCTTAAATATTAATATG
* * * *
14626805 ATTTATGTTTAAATATTATTGTG
1 ATTTGTGCTTAAATATTAATATG
* * *
14626828 ATTTATTCTTAAATGTTAATATG
1 ATTTGTGCTTAAATATTAATATG
* * *
14626851 ATTTATACTTAAATATTAATGTG
1 ATTTGTGCTTAAATATTAATATG
14626874 ATTTGTGCTTAAATATTAATATG
1 ATTTGTGCTTAAATATTAATATG
* *
14626897 ATTTGTGCTCAAATATTAATGTG
1 ATTTGTGCTTAAATATTAATATG
*
14626920 ATTTATGCTTAAATATTAATATG
1 ATTTGTGCTTAAATATTAATATG
* * * *
14626943 ATTTATGATTAAATAGTAATGTG
1 ATTTGTGCTTAAATATTAATATG
* *
14626966 ATTTGTGCTTAAGTATTAATGTG
1 ATTTGTGCTTAAATATTAATATG
* *
14626989 ATTTATGCTTAAATGTTAATATG
1 ATTTGTGCTTAAATATTAATATG
* * *
14627012 ATTTGTGCTCAAATATTAATGTT
1 ATTTGTGCTTAAATATTAATATG
14627035 ATTTGTGCTTAAATATTAATATG
1 ATTTGTGCTTAAATATTAATATG
* * * * *
14627058 ATTTTTGCTCAAATATTGATTTA
1 ATTTGTGCTTAAATATTAATATG
*
14627081 ATTTGTGCTTAAATATTAATGTG
1 ATTTGTGCTTAAATATTAATATG
* *
14627104 ATTTATGCTTAAATGTTAATATG
1 ATTTGTGCTTAAATATTAATATG
*
14627127 ATTTATGCTTAAATATTAATATG
1 ATTTGTGCTTAAATATTAATATG
* * *
14627150 ATTTGTGCTCAAATATTAATGTA
1 ATTTGTGCTTAAATATTAATATG
*
14627173 ATTTATGCTTAAATATTAATATG
1 ATTTGTGCTTAAATATTAATATG
* * * *
14627196 ATTTATGATTAAATAGTAATACG
1 ATTTGTGCTTAAATATTAATATG
* * *
14627219 ATTTGTGCTTAAGTTTTAATGTG
1 ATTTGTGCTTAAATATTAATATG
* *
14627242 ATTTATGCTTAAATGTTAATATG
1 ATTTGTGCTTAAATATTAATATG
* *
14627265 ATTTGTGCTCAAATATTAATGTG
1 ATTTGTGCTTAAATATTAATATG
14627288 ATTTGTGCTTAAATATTAATATG
1 ATTTGTGCTTAAATATTAATATG
* * *
14627311 ATTTGTGCTCAAATATTAATGTA
1 ATTTGTGCTTAAATATTAATATG
* *
14627334 ATTTGTGCTTAAATAATAATGTG
1 ATTTGTGCTTAAATATTAATATG
* *
14627357 ATTTATGCTTAAATATTAATGTG
1 ATTTGTGCTTAAATATTAATATG
*
14627380 ATTTGTGCATAAATATTAATATG
1 ATTTGTGCTTAAATATTAATATG
* * *
14627403 ATTTGTTCTCAAATATTAATGTG
1 ATTTGTGCTTAAATATTAATATG
* *
14627426 ATTTATTCTTAAATATTAATATG
1 ATTTGTGCTTAAATATTAATATG
* *
14627449 ATTTGTTG-TCAAATATTAATGTG
1 ATTTG-TGCTTAAATATTAATATG
14627472 ATTTGTGCTTAAATATTAATATG
1 ATTTGTGCTTAAATATTAATATG
* *
14627495 ATTTGTGCTCAAATATTAATGTG
1 ATTTGTGCTTAAATATTAATATG
*
14627518 ATTTATGCTTAAATATTAATATG
1 ATTTGTGCTTAAATATTAATATG
*
14627541 ATTTGTGCTTAAATATGAATATG
1 ATTTGTGCTTAAATATTAATATG
* * *
14627564 ATTTATGATTAAATATTAATGTG
1 ATTTGTGCTTAAATATTAATATG
*
14627587 ACTTGTGCTTAAA
1 ATTTGTGCTTAAA
14627600 GAATTAAGAT
Statistics
Matches: 712, Mismatches: 127, Indels: 4
0.84 0.15 0.00
Matches are distributed among these distances:
22 2 0.00
23 709 1.00
24 1 0.00
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (23 bp):
ATTTGTGCTTAAATATTAATATG
Found at i:14627717 original size:36 final size:36
Alignment explanation
Indices: 14627672--14627814 Score: 205
Period size: 36 Copynumber: 4.0 Consensus size: 36
14627662 TGACTGTTGT
*
14627672 GAAAGTATGTGGGTATGTTCTTCATGCCATGTGACA
1 GAAAATATGTGGGTATGTTCTTCATGCCATGTGACA
* * *
14627708 AAAAATATGTGGGTACGTTGTTCATGCCATGTGACA
1 GAAAATATGTGGGTATGTTCTTCATGCCATGTGACA
* * *
14627744 GAAAATATGTGTGTATGTTCTTCATGCTATGTGATA
1 GAAAATATGTGGGTATGTTCTTCATGCCATGTGACA
* *
14627780 GAAAATATTTGAGTATGTTCTTCATGCCATGTGAC
1 GAAAATATGTGGGTATGTTCTTCATGCCATGTGAC
14627815 TGATTATATT
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 93 1.00
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.36
Consensus pattern (36 bp):
GAAAATATGTGGGTATGTTCTTCATGCCATGTGACA
Found at i:14628678 original size:15 final size:16
Alignment explanation
Indices: 14628648--14628689 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
14628638 TGATAGTTGA
* *
14628648 TAAATCGATGTAAGAT
1 TAAATTGATTTAAGAT
*
14628664 TGAATT-ATTTAAGAT
1 TAAATTGATTTAAGAT
14628679 TAAATTGATTT
1 TAAATTGATTT
14628690 TTCGATAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.43
Consensus pattern (16 bp):
TAAATTGATTTAAGAT
Found at i:14635591 original size:6 final size:7
Alignment explanation
Indices: 14635564--14635590 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
14635554 CCAACTCATT
14635564 TAAAAAA
1 TAAAAAA
14635571 TAAAAAA
1 TAAAAAA
14635578 TAAAAAA
1 TAAAAAA
14635585 TAAAAA
1 TAAAAA
14635591 TTGAAATACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:14639364 original size:2 final size:2
Alignment explanation
Indices: 14639318--14639346 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14639308 TCAAATTAAT
14639318 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14639347 GAAAATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14639483 original size:24 final size:24
Alignment explanation
Indices: 14639456--14639514 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
14639446 GAATTTATTA
* *
14639456 GAAATTAAAATAAATATTTCAAAT
1 GAAATTAAAATAAATATTCCAAAC
14639480 GAAATTAAAATAAATATTCCAAAC
1 GAAATTAAAATAAATATTCCAAAC
14639504 GAAATTAAAAT
1 GAAATTAAAAT
14639515 GTAACAGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (24 bp):
GAAATTAAAATAAATATTCCAAAC
Found at i:14639894 original size:18 final size:18
Alignment explanation
Indices: 14639871--14639905 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14639861 AGACGAAAAT
*
14639871 GTGCCATAAGGTAGAAGC
1 GTGCCACAAGGTAGAAGC
14639889 GTGCCACAAGGTAGAAG
1 GTGCCACAAGGTAGAAG
14639906 AAAAGCATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.17, G:0.34, T:0.14
Consensus pattern (18 bp):
GTGCCACAAGGTAGAAGC
Found at i:14640169 original size:16 final size:16
Alignment explanation
Indices: 14640148--14640181 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
14640138 AAGTATTCAT
14640148 GTACAATCTACCTA-AA
1 GTACAATCT-CCTATAA
14640164 GTACAATCTCCTATAA
1 GTACAATCTCCTATAA
14640180 GT
1 GT
14640182 TTGGGGCAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (16 bp):
GTACAATCTCCTATAA
Found at i:14645016 original size:27 final size:27
Alignment explanation
Indices: 14644986--14645039 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
14644976 GAAGGCACAC
*
14644986 TTTAACTCTGCTTTTGAAAATTCTAAA
1 TTTAACCCTGCTTTTGAAAATTCTAAA
14645013 TTTAACCCTGCTTTTGAAAATTCTAAA
1 TTTAACCCTGCTTTTGAAAATTCTAAA
14645040 GGAATTACAA
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:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (27 bp):
TTTAACCCTGCTTTTGAAAATTCTAAA
Found at i:14647031 original size:15 final size:15
Alignment explanation
Indices: 14646992--14647040 Score: 59
Period size: 14 Copynumber: 3.3 Consensus size: 15
14646982 AACACAAAGC
14646992 ACGAAAGAATAAATAT
1 ACGAAA-AATAAATAT
14647008 ACG-AAAATAAATAT
1 ACGAAAAATAAATAT
14647022 GA-GAAAAATAAA-AT
1 -ACGAAAAATAAATAT
14647036 ACGAA
1 ACGAA
14647041 TTATGAATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.03
14 15 0.50
15 11 0.37
16 3 0.10
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.16
Consensus pattern (15 bp):
ACGAAAAATAAATAT
Found at i:14647278 original size:28 final size:28
Alignment explanation
Indices: 14647223--14647475 Score: 242
Period size: 29 Copynumber: 8.7 Consensus size: 28
14647213 AGGCTTTCGG
*
14647223 GGGTAAAAATGTAACTTTTTAGAAGTTCA
1 GGGTAAAAATGTAA-TTTTTGGAAGTTCA
* *
14647252 GGGTATAAATGTATTTTTTGGAAGTTC-
1 GGGTAAAAATGTAATTTTTGGAAGTTCA
14647279 GAGGTCAAAAATGTAATTTTTGAGAAGTTCGA
1 G-GGT-AAAAATGTAATTTTTG-GAAGTTC-A
* * * * *
14647311 GAGTTAAAATGTGATTTTTAGAAGTTCGG
1 GGGTAAAAATGTAATTTTTGGAAGTTC-A
*
14647340 GGGTAAAAATGTAATTTTTGGAAGTTTA
1 GGGTAAAAATGTAATTTTTGGAAGTTCA
**
14647368 GGGGTAAAAATGTAATTTTTTGAGAAGTTTGG
1 -GGGTAAAAATGTAA-TTTTTG-GAAG-TTCA
* * *
14647400 GGGTTAAAATGTGATTTTTGGAAGTTTGA
1 GGGTAAAAATGTAATTTTTGGAAG-TTCA
*
14647429 GGGT-AAAATGTAATTTTTGGAAGTTTA
1 GGGTAAAAATGTAATTTTTGGAAGTTCA
14647456 GGGGT-AAAATGTAATTTTTG
1 -GGGTAAAAATGTAATTTTTG
14647476 AAAAATTCGA
Statistics
Matches: 191, Mismatches: 23, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
27 4 0.02
28 52 0.27
29 82 0.43
30 32 0.17
31 18 0.09
32 3 0.02
ACGTcount: A:0.32, C:0.02, G:0.27, T:0.38
Consensus pattern (28 bp):
GGGTAAAAATGTAATTTTTGGAAGTTCA
Found at i:14647351 original size:88 final size:87
Alignment explanation
Indices: 14647228--14647563 Score: 344
Period size: 88 Copynumber: 3.8 Consensus size: 87
14647218 TTCGGGGGTA
* * * * *
14647228 AAAATGTAACTTTTTAGAAGTTC-AGGGTATAAATGTATTTTTTGGAAG-TTCGAGGTCAAAAAT
1 AAAATGTGA-TTTTTAGAAGTTCGAGGGTAAAAATGTAATTTTTGGAAGTTTAGGGGT-AAAAAT
14647291 GTAATTTTTGAGAAGTTCGAGAGTT
64 GTAATTTTTGAGAAGTTCGAG-GTT
*
14647316 AAAATGTGATTTTTAGAAGTTCGGGGGTAAAAATGTAATTTTTGGAAGTTTAGGGGTAAAAATGT
1 AAAATGTGATTTTTAGAAGTTCGAGGGTAAAAATGTAATTTTTGGAAGTTTAGGGGTAAAAATGT
* *
14647381 AATTTTTTGAGAAGTTTGGGGGTT
66 AA-TTTTTGAGAAG-TTCGAGGTT
* *
14647405 AAAATGTGATTTTTGGAAGTTTGAGGGT-AAAATGTAATTTTTGGAAGTTTAGGGGT-AAAATGT
1 AAAATGTGATTTTTAGAAGTTCGAGGGTAAAAATGTAATTTTTGGAAGTTTAGGGGTAAAAATGT
* *
14647468 AATTTTTGAAAAATTCGATGG-T
66 AATTTTTGAGAAGTTCGA-GGTT
* * * ** * * *
14647490 CAAATGTGATTTTGGAAAAGTTTAAGGGTTAAAATGTGA-TTTTGGAAAAGTTT-GGGGTCAAAA
1 AAAATGTGATTTT-TAGAAGTTCGAGGGTAAAAATGTAATTTTTGG--AAGTTTAGGGGTAAAAA
* *
14647553 TATGATTTTTG
63 TGTAATTTTTG
14647564 GACAGTTAAG
Statistics
Matches: 215, Mismatches: 23, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
85 16 0.07
86 28 0.13
87 35 0.16
88 87 0.40
89 45 0.21
90 4 0.02
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.38
Consensus pattern (87 bp):
AAAATGTGATTTTTAGAAGTTCGAGGGTAAAAATGTAATTTTTGGAAGTTTAGGGGTAAAAATGT
AATTTTTGAGAAGTTCGAGGTT
Found at i:14647570 original size:29 final size:28
Alignment explanation
Indices: 14647222--14647575 Score: 227
Period size: 29 Copynumber: 12.1 Consensus size: 28
14647212 TAGGCTTTCG
* * *
14647222 GGGGTAAAAATGTAACTTTTTAGAAGTTCA
1 GGGGT-AAAATGTGA-TTTTTGGAAGTTTA
*
14647252 -GGGTATAAATGT-ATTTTTTGGAAG-TTC
1 GGGGTA-AAATGTGA-TTTTTGGAAGTTTA
* * *
14647279 GAGGTCAAAAATGTAATTTTTGAGAAGTTCGA
1 GGGGT--AAAATGTGATTTTTG-GAAGTT-TA
* * * **
14647311 GAGTTAAAATGTGATTTTTAGAAGTTCG
1 GGGGTAAAATGTGATTTTTGGAAGTTTA
*
14647339 GGGGTAAAAATGTAATTTTTGGAAGTTTA
1 GGGGT-AAAATGTGATTTTTGGAAGTTTA
* *
14647368 GGGGTAAAAATGTAATTTTTTGAGAAGTTTG
1 GGGGT-AAAATGTGA-TTTTTG-GAAGTTTA
14647399 GGGGTTAAAATGTGATTTTTGGAAGTTT-
1 GGGG-TAAAATGTGATTTTTGGAAGTTTA
*
14647427 GAGGGTAAAATGTAATTTTTGGAAGTTTA
1 G-GGGTAAAATGTGATTTTTGGAAGTTTA
* * ** *
14647456 GGGGTAAAATGTAATTTTTGAAAAATTC
1 GGGGTAAAATGTGATTTTTGGAAGTTTA
* *
14647484 GATGGTCAAATGTGA-TTTTGGAAAAGTTTAA
1 G-GGGTAAAATGTGATTTTTGG--AAGTTT-A
*
14647515 GGGTTAAAATGTGA-TTTTGGAAAAGTTT-
1 GGGGTAAAATGTGATTTTTGG--AAGTTTA
* *
14647543 GGGGTCAAAATATGATTTTTGGACAGTTAA
1 GGGGT-AAAATGTGATTTTTGGA-AGTTTA
14647573 GGG
1 GGG
14647576 ACTTTCTGGG
Statistics
Matches: 264, Mismatches: 38, Indels: 44
0.76 0.11 0.13
Matches are distributed among these distances:
27 1 0.00
28 74 0.28
29 95 0.36
30 68 0.26
31 21 0.08
32 5 0.02
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (28 bp):
GGGGTAAAATGTGATTTTTGGAAGTTTA
Found at i:14648322 original size:18 final size:19
Alignment explanation
Indices: 14648296--14648333 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
14648286 TTCGTTTCTT
14648296 ACCCCTTTT-CTATTTAAA
1 ACCCCTTTTACTATTTAAA
* *
14648314 ACCCTTTTTATTATTTAAA
1 ACCCCTTTTACTATTTAAA
14648333 A
1 A
14648334 TAAACCAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (19 bp):
ACCCCTTTTACTATTTAAA
Found at i:14649091 original size:14 final size:16
Alignment explanation
Indices: 14649062--14649093 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
14649052 TTTAGGTCTT
14649062 TTTTGGTAATTTGGGC
1 TTTTGGTAATTTGGGC
14649078 TTTT-GTAA-TTGGGC
1 TTTTGGTAATTTGGGC
14649092 TT
1 TT
14649094 GGGATCCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 4 0.25
16 4 0.25
ACGTcount: A:0.12, C:0.06, G:0.28, T:0.53
Consensus pattern (16 bp):
TTTTGGTAATTTGGGC
Found at i:14649328 original size:21 final size:19
Alignment explanation
Indices: 14649299--14649337 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
14649289 AATAGCCTAA
14649299 TTTAGAATTTTGTTATTTTAT
1 TTTAGAA-TTT-TTATTTTAT
*
14649320 TTTATAATTTTTATTTTA
1 TTTAGAATTTTTATTTTA
14649338 GTTTGACTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTAGAATTTTTATTTTAT
Found at i:14663779 original size:53 final size:53
Alignment explanation
Indices: 14663639--14663779 Score: 183
Period size: 53 Copynumber: 2.7 Consensus size: 53
14663629 CATGGCACTC
* * * *
14663639 AAAGAAAACCATATCGTCTAAGACCATAGATGTTAGGTTATGGCATCATATGG
1 AAAGAAAACTATATCGTGTAAGACCATAGATGGTGGGTTATGGCATCATATGG
* * * *
14663692 AAAGAATATTATATCATGTAAGACTATAGATGGTGGGTTATGGCATCATATGG
1 AAAGAAAACTATATCGTGTAAGACCATAGATGGTGGGTTATGGCATCATATGG
* * *
14663745 AAAGAAGACTATATTGTGTAAGACCATAGTTGGTG
1 AAAGAAAACTATATCGTGTAAGACCATAGATGGTG
14663780 TAACACCTGA
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 74 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (53 bp):
AAAGAAAACTATATCGTGTAAGACCATAGATGGTGGGTTATGGCATCATATGG
Found at i:14664214 original size:24 final size:24
Alignment explanation
Indices: 14664177--14664236 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
14664167 ATACAAGTAC
14664177 CCAGACTACCGATACTT-CTATGA
1 CCAGACTACCGATACTTACTATGA
*
14664200 CCAGATCTATCGATACTTACTATG-
1 CCAGA-CTACCGATACTTACTATGA
14664224 -CA-ACTACCGATAC
1 CCAGACTACCGATAC
14664237 AACTCAAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 9 0.27
22 1 0.03
23 7 0.21
24 11 0.33
25 5 0.15
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.27
Consensus pattern (24 bp):
CCAGACTACCGATACTTACTATGA
Found at i:14666350 original size:222 final size:222
Alignment explanation
Indices: 14665964--14666408 Score: 845
Period size: 222 Copynumber: 2.0 Consensus size: 222
14665954 AATCCTACTT
*
14665964 ATTATCAATATGTGTCATAATAAACCACCCACTAAAATACTTTAGGCTGATTTACCCATATGGTC
1 ATTATCAATATGTGTCATAATAAACCACCCACTAAAATACTTTAGGCTAATTTACCCATATGGTC
14666029 CTTCTAACTTCACAACTTCTACTTTTGAACCTTTTACAATTTAATCCTCTTTATTCAATTAACCA
66 CTTCTAACTTCACAACTTCTACTTTTGAACCTTTTACAATTTAATCCTCTTTATTCAATTAACCA
*
14666094 TCTAAACATCAAAATTTCATAACCGAATTTTAATATGATGCTAACGACATTATAAGTATTAAAAA
131 TCTAAACATCAAAATTTCATAACCAAATTTTAATATGATGCTAACGACATTATAAGTATTAAAAA
14666159 TAGATAAATTTATGACTTGAATCTTTG
196 TAGATAAATTTATGACTTGAATCTTTG
*
14666186 ATTATCAATATGTGTCATAATAAACCACCCACTAAAATACTTTAGGCTAATTTACCCATTTGGTC
1 ATTATCAATATGTGTCATAATAAACCACCCACTAAAATACTTTAGGCTAATTTACCCATATGGTC
14666251 CTTCTAACTTCACAACTTCTACTTTTGAACCTTTTACAATTTAATCCTCTTTATTCAATTAACCA
66 CTTCTAACTTCACAACTTCTACTTTTGAACCTTTTACAATTTAATCCTCTTTATTCAATTAACCA
* *
14666316 TCTAAACGTCAAAATTTCATAATCAAATTTTAATATGATGCTAACGACATTATAAGTATTAAAAA
131 TCTAAACATCAAAATTTCATAACCAAATTTTAATATGATGCTAACGACATTATAAGTATTAAAAA
14666381 TAGATAAATTTATGACTTGAATCTTTG
196 TAGATAAATTTATGACTTGAATCTTTG
14666408 A
1 A
14666409 AATTATGATC
Statistics
Matches: 218, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
222 218 1.00
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (222 bp):
ATTATCAATATGTGTCATAATAAACCACCCACTAAAATACTTTAGGCTAATTTACCCATATGGTC
CTTCTAACTTCACAACTTCTACTTTTGAACCTTTTACAATTTAATCCTCTTTATTCAATTAACCA
TCTAAACATCAAAATTTCATAACCAAATTTTAATATGATGCTAACGACATTATAAGTATTAAAAA
TAGATAAATTTATGACTTGAATCTTTG
Found at i:14666702 original size:29 final size:29
Alignment explanation
Indices: 14666656--14666712 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
14666646 GTGACAATCT
* *
14666656 CTATTAAGGAAACACCTTTATGGTGATCC
1 CTATGAAGGAAACACCTTTATAGTGATCC
** *
14666685 CTATGAAGGAAATGCCTTTGTAGTGATC
1 CTATGAAGGAAACACCTTTATAGTGATC
14666713 TTTGCTAAGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (29 bp):
CTATGAAGGAAACACCTTTATAGTGATCC
Found at i:14666757 original size:29 final size:29
Alignment explanation
Indices: 14666719--14666780 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
14666709 GATCTTTGCT
14666719 AAGGTGAAGCCTCTAT-AGCAAAACTCTTGA
1 AAGGTGAAGCCTCTATGA-CAAAACTC-TGA
* *
14666749 AAGGT-AAGCCTTTGTGACAAAACTCTGA
1 AAGGTGAAGCCTCTATGACAAAACTCTGA
14666777 AAGG
1 AAGG
14666781 AAACACTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 7 0.24
29 16 0.55
30 6 0.21
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23
Consensus pattern (29 bp):
AAGGTGAAGCCTCTATGACAAAACTCTGA
Found at i:14666903 original size:27 final size:26
Alignment explanation
Indices: 14666863--14666919 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
14666853 TTCTTTATTA
14666863 AAAGAAAACCTTCGTGGCAATA-TCTGT
1 AAAGAAAACCTTCGTGG-AA-ACTCTGT
* *
14666890 AAAGAAAGCTTTCGTGGAAACTCTGT
1 AAAGAAAACCTTCGTGGAAACTCTGT
14666916 AAAG
1 AAAG
14666920 GAATGCCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 1 0.04
26 11 0.41
27 15 0.56
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.25
Consensus pattern (26 bp):
AAAGAAAACCTTCGTGGAAACTCTGT
Found at i:14672145 original size:22 final size:22
Alignment explanation
Indices: 14672110--14672158 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
14672100 AATTGTTCAA
*
14672110 ATTTTTTATTTATTTAA-CAATT
1 ATTTTTTATATA-TTAATCAATT
* *
14672132 ATTTTTTCTATATTAATCATTT
1 ATTTTTTATATATTAATCAATT
14672154 ATTTT
1 ATTTT
14672159 AATTGTTTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (22 bp):
ATTTTTTATATATTAATCAATT
Found at i:14673952 original size:18 final size:18
Alignment explanation
Indices: 14673875--14673960 Score: 68
Period size: 18 Copynumber: 4.8 Consensus size: 18
14673865 TCCTCGGTTG
* *
14673875 CATCTTGTTCCTCAACTA
1 CATCTTCTTCCTCAGCTA
*
14673893 CATCTTCTTCCTC-G-TT
1 CATCTTCTTCCTCAGCTA
** * *
14673909 CGTATCTTCTTTATCACCCA
1 C--ATCTTCTTCCTCAGCTA
*
14673929 CGTCTTCTTCCTCAGCTA
1 CATCTTCTTCCTCAGCTA
14673947 CATCTTCTTCCTCA
1 CATCTTCTTCCTCA
14673961 TCTATGCCTT
Statistics
Matches: 50, Mismatches: 14, Indels: 8
0.69 0.19 0.11
Matches are distributed among these distances:
16 2 0.04
18 47 0.94
20 1 0.02
ACGTcount: A:0.15, C:0.37, G:0.06, T:0.42
Consensus pattern (18 bp):
CATCTTCTTCCTCAGCTA
Found at i:14682681 original size:39 final size:39
Alignment explanation
Indices: 14682617--14682691 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 39
14682607 AACAAATGTT
* *
14682617 TAGAGTATCGATACCTTTGTAAAGTATCGATACCATGAA
1 TAGAGTATCGATACCTTTGTAAAGTAGCAATACCATGAA
*
14682656 TAGAGTGTCGATA-CTTTAG-ACAAGTAGCAATACCAT
1 TAGAGTATCGATACCTTT-GTA-AAGTAGCAATACCAT
14682692 TTTGACAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
38 5 0.16
39 26 0.84
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (39 bp):
TAGAGTATCGATACCTTTGTAAAGTAGCAATACCATGAA
Found at i:14691368 original size:14 final size:14
Alignment explanation
Indices: 14691349--14691376 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14691339 GAACACATCG
14691349 ATAAGTGTTCGTCC
1 ATAAGTGTTCGTCC
14691363 ATAAGTGTTCGTCC
1 ATAAGTGTTCGTCC
14691377 CATTGCTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (14 bp):
ATAAGTGTTCGTCC
Found at i:14702193 original size:24 final size:24
Alignment explanation
Indices: 14702156--14702211 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
14702146 AACAATGTTG
*
14702156 ATTTTTGTATATTCACAGTGGAGTT
1 ATTTTT-TAGATTCACAGTGGAGTT
*
14702181 ATTTTTTAGATTCACGGTGGAGTT
1 ATTTTTTAGATTCACAGTGGAGTT
*
14702205 TTTTTTT
1 ATTTTTT
14702212 TTTGAGATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 22 0.79
25 6 0.21
ACGTcount: A:0.20, C:0.07, G:0.20, T:0.54
Consensus pattern (24 bp):
ATTTTTTAGATTCACAGTGGAGTT
Found at i:14706413 original size:12 final size:12
Alignment explanation
Indices: 14706376--14706414 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
14706366 TTTGTGATCA
14706376 AAATTGGAAGTG
1 AAATTGGAAGTG
* *
14706388 AAAGTGAAAGTG
1 AAATTGGAAGTG
*
14706400 AAATTGGAATTG
1 AAATTGGAAGTG
14706412 AAA
1 AAA
14706415 ATGATATGAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.28, T:0.23
Consensus pattern (12 bp):
AAATTGGAAGTG
Found at i:14711758 original size:12 final size:12
Alignment explanation
Indices: 14711721--14711759 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
14711711 TTTGTGATCA
14711721 AAATTGGAAGTG
1 AAATTGGAAGTG
* *
14711733 AAAGTGAAAGTG
1 AAATTGGAAGTG
*
14711745 AAATTGGAATTG
1 AAATTGGAAGTG
14711757 AAA
1 AAA
14711760 ATGATATGAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.28, T:0.23
Consensus pattern (12 bp):
AAATTGGAAGTG
Found at i:14714920 original size:3 final size:3
Alignment explanation
Indices: 14714912--14714951 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
14714902 GTTAAGGTAT
14714912 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
14714952 TGCCTTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:14717995 original size:40 final size:40
Alignment explanation
Indices: 14717940--14718141 Score: 260
Period size: 40 Copynumber: 5.0 Consensus size: 40
14717930 AAATTGTTAC
* *
14717940 GTTAAATTTCAAGCTACGGCTTAGCAGGCTATAAGCCGAT
1 GTTAAAATTCAAGCTACGGCTTAGCAGGCTATGAGCCGAT
* * *
14717980 GTTAAAATTCAAGCTACGGCTTAGCAGGCTAAGAGTCGGT
1 GTTAAAATTCAAGCTACGGCTTAGCAGGCTATGAGCCGAT
* * *
14718020 GTTAAAATTCAAGCTACGGCTTAGCGGGCAATGAGCCGTT
1 GTTAAAATTCAAGCTACGGCTTAGCAGGCTATGAGCCGAT
** *
14718060 GTTAAAATTTCAAGCTACAACTTAGCAGGCTATGAGCCGGT
1 GTTAAAA-TTCAAGCTACGGCTTAGCAGGCTATGAGCCGAT
* * * *
14718101 GCTAAGATACAAGCTACGACTTAGCAGGCTATGAGCCGAT
1 GTTAAAATTCAAGCTACGGCTTAGCAGGCTATGAGCCGAT
14718141 G
1 G
14718142 AATCCGTACA
Statistics
Matches: 141, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 108 0.77
41 33 0.23
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (40 bp):
GTTAAAATTCAAGCTACGGCTTAGCAGGCTATGAGCCGAT
Found at i:14718101 original size:81 final size:80
Alignment explanation
Indices: 14717940--14718141 Score: 278
Period size: 81 Copynumber: 2.5 Consensus size: 80
14717930 AAATTGTTAC
* * **
14717940 GTTAAATTTCAAGCTACGGCTTAGCAGGCTATAAGCCGATGTTAAAATTCAAGCTACGGCTTAGC
1 GTTAAAATTCAAGCTACGGCTTAGCAGGCTATGAGCCGATGTTAAAATTCAAGCTACAACTTAGC
*
14718005 AGGCTAAGAGTCGGT
66 AGGCTAAGAGCCGGT
* * *
14718020 GTTAAAATTCAAGCTACGGCTTAGCGGGCAATGAGCCGTTGTTAAAATTTCAAGCTACAACTTAG
1 GTTAAAATTCAAGCTACGGCTTAGCAGGCTATGAGCCGATGTTAAAA-TTCAAGCTACAACTTAG
*
14718085 CAGGCTATGAGCCGGT
65 CAGGCTAAGAGCCGGT
* * * *
14718101 GCTAAGATACAAGCTACGACTTAGCAGGCTATGAGCCGATG
1 GTTAAAATTCAAGCTACGGCTTAGCAGGCTATGAGCCGATG
14718142 AATCCGTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 42 0.40
81 63 0.60
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (80 bp):
GTTAAAATTCAAGCTACGGCTTAGCAGGCTATGAGCCGATGTTAAAATTCAAGCTACAACTTAGC
AGGCTAAGAGCCGGT
Found at i:14724933 original size:38 final size:38
Alignment explanation
Indices: 14724882--14725020 Score: 215
Period size: 38 Copynumber: 3.7 Consensus size: 38
14724872 CCAATCCGAC
*
14724882 ATAAATTGCGCTTCATGCCTCATCGAAATGTCCAAAGT
1 ATAAATTGCGCTCCATGCCTCATCGAAATGTCCAAAGT
* * *
14724920 ATAAATTGCGCTTCATGCCTCATTGGAATGTCCAAAGT
1 ATAAATTGCGCTCCATGCCTCATCGAAATGTCCAAAGT
* *
14724958 ATAAATTGCACTCCATGCCTCATCAAAATGTCCAAAGT
1 ATAAATTGCGCTCCATGCCTCATCGAAATGTCCAAAGT
*
14724996 ATAAATTGCGCTCCACGCCTCATCG
1 ATAAATTGCGCTCCATGCCTCATCG
14725021 GTATTGTTAA
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 91 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (38 bp):
ATAAATTGCGCTCCATGCCTCATCGAAATGTCCAAAGT
Found at i:14725104 original size:6 final size:6
Alignment explanation
Indices: 14725093--14725175 Score: 59
Period size: 6 Copynumber: 14.0 Consensus size: 6
14725083 GTTTTAAATT
* **
14725093 TTTAAA TTTAAA --TATA TCTTAAA TTTAAA TTTATCTG TTTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTA--AA T-TTAAA TTTAAA
*
14725143 TTT-AC TTTAAA TTTAAA TTT-AA -TTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
14725176 ATAATATTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
4 5 0.08
5 8 0.13
6 38 0.63
7 5 0.08
8 1 0.02
9 3 0.05
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:14725116 original size:17 final size:17
Alignment explanation
Indices: 14725093--14725175 Score: 89
Period size: 17 Copynumber: 4.7 Consensus size: 17
14725083 GTTTTAAATT
*
14725093 TTTAAATTTAAATATA-
1 TTTAAATTTAAATTTAC
14725109 TCTTAAATTTAAATTTATC
1 T-TTAAATTTAAATTTA-C
14725128 TGTTTTAAATTTAAATTTAC
1 ---TTTAAATTTAAATTTAC
14725148 TTTAAATTTAAATTTA-
1 TTTAAATTTAAATTTAC
*
14725164 ATTAAATTTAAA
1 TTTAAATTTAAA
14725176 ATAATATTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
16 12 0.20
17 30 0.51
20 1 0.02
21 15 0.25
22 1 0.02
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.52
Consensus pattern (17 bp):
TTTAAATTTAAATTTAC
Found at i:14726032 original size:16 final size:16
Alignment explanation
Indices: 14725993--14726036 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
14725983 AAATATATTA
* *
14725993 TTAATAATAAT-TTTT
1 TTAATAATAATAGTAT
14726008 TTAATTAATAATAGTAT
1 TTAA-TAATAATAGTAT
14726025 TTAATAATAATA
1 TTAATAATAATA
14726037 ATAATAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.16
16 15 0.60
17 6 0.24
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
TTAATAATAATAGTAT
Found at i:14727184 original size:30 final size:29
Alignment explanation
Indices: 14727138--14727384 Score: 145
Period size: 30 Copynumber: 8.4 Consensus size: 29
14727128 TTAAAATTAT
*
14727138 ATTTTTACCCTC-AAACTTCCAATAATTCC
1 ATTTTTACCC-CGAAACTTCCAAAAATTCC
**
14727167 ATTTTTAACCCCGAAACTTCCAAAAATTAA
1 ATTTTT-ACCCCGAAACTTCCAAAAATTCC
* * * *
14727197 ATTTTTACTCTCG-GACGTCCAAAAACTCC
1 ATTTTTAC-CCCGAAACTTCCAAAAATTCC
*
14727226 ATTTTTTACCTCGAAACTTCCAAAAATTACC
1 A-TTTTTACCCCGAAACTTCCAAAAATT-CC
14727257 A-TTTTACCCTCG-AA-TGTCCAAAAACTT-C
1 ATTTTTACCC-CGAAACT-TCCAAAAA-TTCC
* * * *
14727285 ATTTTCAACCCCAAAACTTTCAAAAATTATC
1 ATTTT-TACCCCGAAACTTCCAAAAATT-CC
* * *
14727316 A-TTTTACTCCC-AAA-TGTCAAAAAACTCT
1 ATTTTTAC-CCCGAAACT-TCCAAAAATTCC
* *
14727344 ATTTTTGACCCCAAAACTTACAAAAATTACC
1 ATTTTT-ACCCCGAAACTTCCAAAAATT-CC
14727375 A-TTTTACCCC
1 ATTTTTACCCC
14727385 CGAATGTCTA
Statistics
Matches: 170, Mismatches: 26, Indels: 44
0.71 0.11 0.18
Matches are distributed among these distances:
28 5 0.03
29 72 0.42
30 84 0.49
31 9 0.05
ACGTcount: A:0.36, C:0.28, G:0.04, T:0.33
Consensus pattern (29 bp):
ATTTTTACCCCGAAACTTCCAAAAATTCC
Found at i:14727218 original size:59 final size:59
Alignment explanation
Indices: 14727130--14727408 Score: 217
Period size: 59 Copynumber: 4.7 Consensus size: 59
14727120 GAACTTCTTT
* * * *
14727130 AAAATTATATTTTTACCCTCAAACTTCCAATAATTCCATTTTTAACCCCGAAACTTCCA
1 AAAATTAAATTTTTACCCTCGAACGTCCAAAAATTCCATTTTTAACCCCGAAACTTCCA
* * * * *
14727189 AAAATTAAATTTTTACTCTCGGACGTCCAAAAACTCCATTTTTTACCTCGAAACTTCCA
1 AAAATTAAATTTTTACCCTCGAACGTCCAAAAATTCCATTTTTAACCCCGAAACTTCCA
* * * * *
14727248 AAAATTACCA-TTTTACCCTCGAATGTCCAAAAACTT-CATTTTCAACCCCAAAACTTTCA
1 AAAATTA-AATTTTTACCCTCGAACGTCCAAAAA-TTCCATTTTTAACCCCGAAACTTCCA
* * * * * * * * *
14727307 AAAATTATCA-TTTTACTCC-CAAATGTCAAAAAACTCTATTTTTGACCCCAAAACTTACA
1 AAAATTA-AATTTTTAC-CCTCGAACGTCCAAAAATTCCATTTTTAACCCCGAAACTTCCA
* * * * * *
14727366 AAAATTACCA-TTTTACCCCCGAATGTCTAACAATTTCATTTTT
1 AAAATTA-AATTTTTACCCTCGAACGTCCAAAAATTCCATTTTT
14727409 GATCCTGATT
Statistics
Matches: 181, Mismatches: 34, Indels: 10
0.80 0.15 0.04
Matches are distributed among these distances:
58 3 0.02
59 174 0.96
60 4 0.02
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (59 bp):
AAAATTAAATTTTTACCCTCGAACGTCCAAAAATTCCATTTTTAACCCCGAAACTTCCA
Found at i:14727383 original size:29 final size:29
Alignment explanation
Indices: 14727229--14727384 Score: 90
Period size: 29 Copynumber: 5.3 Consensus size: 29
14727219 AAACTCCATT
* * *
14727229 TTTTACCTCGAAACTTCCAAAAATTACCA
1 TTTTACCCCAAAACTTACAAAAATTACCA
* *
14727258 TTTTACCCTC-GAA-TGTCCAAAAACTT--CA
1 TTTTACCC-CAAAACT-TACAAAAA-TTACCA
* *
14727286 TTTTCAACCCCAAAACTTTCAAAAATTATCA
1 TTTT--ACCCCAAAACTTACAAAAATTACCA
** * * *
14727317 TTTTACTCCCAAATGTCA-AAAAACT-CTA
1 TTTTAC-CCCAAAACTTACAAAAATTACCA
14727345 TTTTTGACCCCAAAACTTACAAAAATTACCA
1 -TTTT-ACCCCAAAACTTACAAAAATTACCA
14727376 TTTTACCCC
1 TTTTACCCC
14727385 CGAATGTCTA
Statistics
Matches: 97, Mismatches: 16, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
28 8 0.08
29 45 0.46
30 35 0.36
31 9 0.09
ACGTcount: A:0.37, C:0.28, G:0.03, T:0.32
Consensus pattern (29 bp):
TTTTACCCCAAAACTTACAAAAATTACCA
Found at i:14727451 original size:118 final size:118
Alignment explanation
Indices: 14727166--14727407 Score: 306
Period size: 118 Copynumber: 2.1 Consensus size: 118
14727156 CCAATAATTC
* * * * * * *
14727166 CATTTTTAACCCCGAAACTTCCAAAAATTA-AATTTTTACTCTCGGACGTCCAAAAACTCCATTT
1 CATTTTCAACCCCAAAACTTTCAAAAATTATCA-TTTTACTCCCGGATGTCAAAAAACTCCATTT
* * * * *
14727230 TTTACCTCGAAACTTCCAAAAATTACCATTTTACCCTCGAATGTCCAAAAACTT
65 TTGACCCCAAAACTTACAAAAATTACCATTTTACCCCCGAATGTCCAAAAACTT
** *
14727284 CATTTTCAACCCCAAAACTTTCAAAAATTATCATTTTACTCCCAAATGTCAAAAAACTCTATTTT
1 CATTTTCAACCCCAAAACTTTCAAAAATTATCATTTTACTCCCGGATGTCAAAAAACTCCATTTT
* * *
14727349 TGACCCCAAAACTTACAAAAATTACCATTTTACCCCCGAATGTCTAACAATTT
66 TGACCCCAAAACTTACAAAAATTACCATTTTACCCCCGAATGTCCAAAAACTT
14727402 CATTTT
1 CATTTT
14727408 TGATCCTGAT
Statistics
Matches: 105, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
118 104 0.99
119 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (118 bp):
CATTTTCAACCCCAAAACTTTCAAAAATTATCATTTTACTCCCGGATGTCAAAAAACTCCATTTT
TGACCCCAAAACTTACAAAAATTACCATTTTACCCCCGAATGTCCAAAAACTT
Found at i:14735979 original size:24 final size:24
Alignment explanation
Indices: 14735952--14736030 Score: 81
Period size: 24 Copynumber: 3.3 Consensus size: 24
14735942 GGGTACTTGG
14735952 GTTTATATATATATATTGGATTGA
1 GTTTATATATATATATTGGATTGA
** * * *
14735976 GTTTATAT-TGGAT-TGGGTCTTGG
1 GTTTATATATATATATTGG-ATTGA
*
14735999 GTTTATATATATATATTAGATTGA
1 GTTTATATATATATATTGGATTGA
14736023 GTTTATAT
1 GTTTATAT
14736031 TGGATTGGGT
Statistics
Matches: 41, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
22 3 0.07
23 14 0.34
24 22 0.54
25 2 0.05
ACGTcount: A:0.28, C:0.01, G:0.20, T:0.51
Consensus pattern (24 bp):
GTTTATATATATATATTGGATTGA
Found at i:14735999 original size:47 final size:47
Alignment explanation
Indices: 14735935--14736047 Score: 199
Period size: 47 Copynumber: 2.4 Consensus size: 47
14735925 TAGGATTGGG
* *
14735935 TTGGGTTGGGTACTTGGGTTTATATATATATATTGGATTGAGTTTATA
1 TTGGATTGGGT-CTTGGGTTTATATATATATATTAGATTGAGTTTATA
14735983 TTGGATTGGGTCTTGGGTTTATATATATATATTAGATTGAGTTTATA
1 TTGGATTGGGTCTTGGGTTTATATATATATATTAGATTGAGTTTATA
14736030 TTGGATTGGGTCTTGGGT
1 TTGGATTGGGTCTTGGGT
14736048 AGTGGGCTAA
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
47 53 0.84
48 10 0.16
ACGTcount: A:0.21, C:0.03, G:0.28, T:0.48
Consensus pattern (47 bp):
TTGGATTGGGTCTTGGGTTTATATATATATATTAGATTGAGTTTATA
Found at i:14747051 original size:26 final size:25
Alignment explanation
Indices: 14747017--14747117 Score: 82
Period size: 26 Copynumber: 3.9 Consensus size: 25
14747007 ATTATCGCCC
*
14747017 TTTTAATTATTTTGTCTTTATTTCATA
1 TTTT-ATTATTTT-TATTTATTTCATA
**
14747044 TTTTATTATTTTTTATTTATTGTGGTA
1 TTTTATTA-TTTTTATTTATT-TCATA
*
14747071 TTTTA-TA-TTTTATTTTATTT-TTA
1 TTTTATTATTTTTA-TTTATTTCATA
14747094 TTTTATCTATTATTTATTTATTTC
1 TTTTAT-TATT-TTTATTTATTTC
14747118 TTGTCATTTA
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
23 7 0.11
24 6 0.10
25 8 0.13
26 21 0.34
27 20 0.32
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (25 bp):
TTTTATTATTTTTATTTATTTCATA
Found at i:14747106 original size:12 final size:11
Alignment explanation
Indices: 14747023--14747112 Score: 60
Period size: 11 Copynumber: 8.0 Consensus size: 11
14747013 GCCCTTTTAA
* *
14747023 TTATTTTGTCT
1 TTATTTTATTT
*
14747034 TTATTTCATATT
1 TTATTTTAT-TT
*
14747046 TTATTAT-TTT
1 TTATTTTATTT
14747056 TTA-TTTATTGT
1 TTATTTTATT-T
*
14747067 GGTATTTTATATT
1 -TTATTTTAT-TT
14747080 TTATTTTATTT
1 TTATTTTATTT
*
14747091 TTATTTTATCTA
1 TTATTTTAT-TT
14747103 TTA-TTTATTT
1 TTATTTTATTT
14747113 ATTTCTTGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 15
0.71 0.11 0.17
Matches are distributed among these distances:
9 2 0.03
10 8 0.13
11 25 0.40
12 20 0.32
13 6 0.10
14 1 0.02
ACGTcount: A:0.20, C:0.03, G:0.04, T:0.72
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:14747106 original size:95 final size:94
Alignment explanation
Indices: 14746921--14747097 Score: 221
Period size: 97 Copynumber: 1.8 Consensus size: 94
14746911 GTCTTTTGCA
* * * *
14746921 CTTTTATTTATTTTGTATTATTTGTGTTTTATTATCTTTTATTCATTTTGTAATTTTATTTTATT
1 CTTTTAATTATTTTGTATTATTTATATTTTATTATCTTTTATTCATTTGGTAATTTTATTTTATT
*
14746986 TTATTTATTTTTTTCATATACATTATCGCC
66 TTATTTATTATTTTCATATA-ATTATCGCC
* * * *
14747016 CTTTTAATTATTTTGTCTTTATTTCATATTTTATTATTTTTTATTTATTGTGGTATTTTATATTT
1 CTTTTAATTATTTTGT-ATTATTT-ATATTTTATTATCTTTTATTCATT-TGGTAATTT-TATTT
14747081 TATTTTATTT-TTATTTT
62 TATTTTATTTATTATTTT
14747098 ATCTATTATT
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
95 15 0.22
96 6 0.09
97 20 0.29
98 13 0.19
99 15 0.22
ACGTcount: A:0.20, C:0.06, G:0.05, T:0.69
Consensus pattern (94 bp):
CTTTTAATTATTTTGTATTATTTATATTTTATTATCTTTTATTCATTTGGTAATTTTATTTTATT
TTATTTATTATTTTCATATAATTATCGCC
Found at i:14747114 original size:15 final size:15
Alignment explanation
Indices: 14747069--14747112 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
14747059 TTTATTGTGG
*
14747069 TATTTTATATTTTATTT
1 TATTTT-TATTTTA-TC
14747086 TATTTTTATTTTATC
1 TATTTTTATTTTATC
14747101 TATTATTTATTT
1 TATT-TTTATTT
14747113 ATTTCTTGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 5 0.20
16 14 0.56
17 6 0.24
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (15 bp):
TATTTTTATTTTATC
Found at i:14747522 original size:16 final size:16
Alignment explanation
Indices: 14747501--14747535 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
14747491 TTCTTTACTT
14747501 TCGAGTTCCCGAAATG
1 TCGAGTTCCCGAAATG
*
14747517 TCGAGTTCCCGAGATG
1 TCGAGTTCCCGAAATG
14747533 TCG
1 TCG
14747536 TGTTTTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.20, C:0.26, G:0.29, T:0.26
Consensus pattern (16 bp):
TCGAGTTCCCGAAATG
Found at i:14748179 original size:85 final size:85
Alignment explanation
Indices: 14748022--14748182 Score: 218
Period size: 85 Copynumber: 1.9 Consensus size: 85
14748012 GTGACCCAAT
* * * *
14748022 CACACCTATTTAAAAATGATTGGTGACGACTTCATTTTCTATTTTAAAAATATAAGTCTGGACTT
1 CACACCAAATTAAAAAAGATTGGTGACGACTTCATTTTCTATTTTAAAAATAAAAGTCTGGACTT
14748087 TTTAAAAAAAATGATTTCGA
66 TTTAAAAAAAATGATTTCGA
* * * *
14748107 CACACCAAATTAAAAAAGATTGGTGACGACTTTATTTTC-ATTTTTAAAATAAAATTC-GATACT
1 CACACCAAATTAAAAAAGATTGGTGACGACTTCATTTTCTATTTTAAAAATAAAAGTCTG-GACT
14748170 TTTTCAAAAAAAA
65 TTTT-AAAAAAAA
14748183 ATTCGACAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
83 1 0.02
84 22 0.33
85 43 0.65
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (85 bp):
CACACCAAATTAAAAAAGATTGGTGACGACTTCATTTTCTATTTTAAAAATAAAAGTCTGGACTT
TTTAAAAAAAATGATTTCGA
Found at i:14749443 original size:26 final size:25
Alignment explanation
Indices: 14749396--14749467 Score: 74
Period size: 25 Copynumber: 2.7 Consensus size: 25
14749386 AAAAATTATA
14749396 AAAAAATAAA-TAAAAATTATTAAATTTT
1 AAAAAATAAATTAAAAATTA--AAA--TT
*
14749424 AAAAAATATATTAAAAATTAAAATT
1 AAAAAATAAATTAAAAATTAAAATT
*
14749449 AGAAAATAAATTATAAAAT
1 AAAAAATAAATTA-AAAAT
14749468 GCGTCAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
25 13 0.33
26 5 0.13
27 3 0.08
28 9 0.23
29 9 0.23
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (25 bp):
AAAAAATAAATTAAAAATTAAAATT
Found at i:14749444 original size:19 final size:18
Alignment explanation
Indices: 14749407--14749446 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
14749397 AAAAATAAAT
**
14749407 AAAAATTATTAAATTTTA
1 AAAAATTATTAAAAATTA
14749425 AAAAATATATTAAAAATTA
1 AAAAAT-TATTAAAAATTA
14749444 AAA
1 AAA
14749447 TTAGAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAATTATTAAAAATTA
Found at i:14749687 original size:90 final size:90
Alignment explanation
Indices: 14749588--14749796 Score: 253
Period size: 90 Copynumber: 2.3 Consensus size: 90
14749578 AAAAATAGGG
*
14749588 ACTTAATTGCTTTTTTTGAAAAAATTTGAAAGTC-TTTTTAATGCATTTTAAAAGTTCAAATA-C
1 ACTTAATTGCTTTTTTTGAAAAAATTT-AAAGACTTTTTTAATGCATTTTAAAAGTTCAAATATC
* *
14749651 CTAATTGAATGCAAAATAAAAACAAGA
65 C-AATTGAATACAAAATAAAAACAAAA
* * * * * * *
14749678 GCTTAATTGCTATTTTTAAAAAAATTTAAAGACTTTTTTTATGCATTTTGAAAGTTTAAGTATCC
1 ACTTAATTGCTTTTTTTGAAAAAATTTAAAGACTTTTTTAATGCATTTTAAAAGTTCAAATATCC
* * *
14749743 AATTGAGTATAAAATAAAAATAAAA
66 AATTGAATACAAAATAAAAACAAAA
*
14749768 ACTTAATT-TTTTTTTTGAAAAAATTTAAA
1 ACTTAATTGCTTTTTTTGAAAAAATTTAAA
14749797 AATTTATAAC
Statistics
Matches: 100, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
89 23 0.23
90 75 0.75
91 2 0.02
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (90 bp):
ACTTAATTGCTTTTTTTGAAAAAATTTAAAGACTTTTTTAATGCATTTTAAAAGTTCAAATATCC
AATTGAATACAAAATAAAAACAAAA
Found at i:14750751 original size:24 final size:24
Alignment explanation
Indices: 14750718--14750765 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
14750708 TGAAACGATT
*
14750718 AACACTTTTTAACTATCAGACATG
1 AACACCTTTTAACTATCAGACATG
14750742 AACACCTTTTAACTATCAGACATG
1 AACACCTTTTAACTATCAGACATG
14750766 GGATTATCCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (24 bp):
AACACCTTTTAACTATCAGACATG
Found at i:14753946 original size:57 final size:59
Alignment explanation
Indices: 14753885--14754038 Score: 168
Period size: 57 Copynumber: 2.6 Consensus size: 59
14753875 TTAATATAAT
* * ** * *
14753885 ATTTGGTACTTGAATTTGATA-TTTTTTTTAATTTAGTACCTAAA-TTTTTTTTATCCA
1 ATTTGGTACTTGAACTTGACACTTTTTCCTAATTTAGCACCTAAACTTTTTTTAATCCA
*
14753942 ATTTGGTACTTGAACTTGACACTTTTTCCTAATTTGGCACCTAAACTTTTTTTAATCCA
1 ATTTGGTACTTGAACTTGACACTTTTTCCTAATTTAGCACCTAAACTTTTTTTAATCCA
** * *
14754001 ATTTTAATACATGAACTTGACAGTTTTTTTCCTAATTT
1 A-TTTGGTACTTGAACTTGACA--CTTTTTCCTAATTT
14754039 GGTACTTAAG
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
57 19 0.23
58 19 0.23
59 13 0.16
60 17 0.21
62 13 0.16
ACGTcount: A:0.27, C:0.14, G:0.09, T:0.50
Consensus pattern (59 bp):
ATTTGGTACTTGAACTTGACACTTTTTCCTAATTTAGCACCTAAACTTTTTTTAATCCA
Found at i:14754055 original size:62 final size:59
Alignment explanation
Indices: 14753895--14754058 Score: 181
Period size: 62 Copynumber: 2.8 Consensus size: 59
14753885 ATTTGGTACT
* * * * ** *
14753895 TGAATTTGATATTTTTTT--TAATTTAGTACCTAAATTTTTTTTATCCAATTTGGTACT
1 TGAACTTGACATTTTTTTCCTAATTTGGTACCTAAATTTTTTTAATCCAATTTAATACA
* *
14753952 TGAACTTGACA-CTTTTTCCTAATTTGGCACCTAAACTTTTTTTAATCCAATTTTAATACA
1 TGAACTTGACATTTTTTTCCTAATTTGGTACCTAAA-TTTTTTTAATCCAA-TTTAATACA
*
14754012 TGAACTTGACAGTTTTTTTCCTAATTTGGTACTTAAGATTTTTTTAA
1 TGAACTTGACA-TTTTTTTCCTAATTTGGTACCTAA-ATTTTTTTAA
14754059 GATTCAATTT
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
56 5 0.06
57 9 0.10
58 14 0.16
59 13 0.15
60 17 0.19
62 29 0.33
63 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.09, T:0.50
Consensus pattern (59 bp):
TGAACTTGACATTTTTTTCCTAATTTGGTACCTAAATTTTTTTAATCCAATTTAATACA
Found at i:14754315 original size:30 final size:31
Alignment explanation
Indices: 14754279--14754358 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
14754269 GGACCCCAAA
*
14754279 AAGTTTAAGTATCAACTTAA-AAAAAGTGAC
1 AAGTTTAAGTATCAAATTAAGAAAAAGTGAC
* *
14754309 AAGTTTAGGTATCAAATTAAGAAAAAGTGTC
1 AAGTTTAAGTATCAAATTAAGAAAAAGTGAC
*
14754340 AAGTTTGAGTA-CTAAATTA
1 AAGTTTAAGTATC-AAATTA
14754359 GACAAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 19 0.44
31 24 0.56
ACGTcount: A:0.46, C:0.07, G:0.16, T:0.30
Consensus pattern (31 bp):
AAGTTTAAGTATCAAATTAAGAAAAAGTGAC
Found at i:14754832 original size:18 final size:19
Alignment explanation
Indices: 14754811--14754850 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
14754801 ATTTATTTAC
*
14754811 TTTAAAAATA-AGATAAAT
1 TTTAAAAATATACATAAAT
*
14754829 TTTAAAATTATACATAAAT
1 TTTAAAAATATACATAAAT
14754848 TTT
1 TTT
14754851 GATTCAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (19 bp):
TTTAAAAATATACATAAAT
Found at i:14755149 original size:91 final size:90
Alignment explanation
Indices: 14754909--14755166 Score: 265
Period size: 93 Copynumber: 2.8 Consensus size: 90
14754899 TTAATGGTGT
** * * *
14754909 AAAAAACCCTCAAACTTTTTCAAAAAAATCAATTAA-AACTCTACTTTTATTTTGCATTTACTTG
1 AAAAAACCCTCAAACTTTTTCAAAAAAATCAATTAAGTCCT-TACTTTTATTTTGCACTCAATTG
* * * * *
14754973 GATATTTGAATTTTTATAATGCATCA
65 GGTACTTAAACTTTTAAAATGCATCA
*** *
14754999 AAAAAACCCTCAAA-TTTAAAAAAAAAAAAAGCAATTAAGTCAC-TACTTTTATTTTGCACTCAA
1 AAAAAACCCTCAAACTTT---TTCAAAAAAATCAATTAAGTC-CTTACTTTTATTTTGCACTC-A
14755062 ATTGGGTACTTAAACTTTTAAAATGCATCA
61 ATTGGGTACTTAAACTTTTAAAATGCATCA
*
14755092 AAAAAACCCTTAAACTTTTTCAAAAAAATCAATTAAGTCCTTGA-TTGTT-TTTTGCACTCAATT
1 AAAAAACCCTCAAACTTTTTCAAAAAAATCAATTAAGTCCTT-ACTT-TTATTTTGCACTCAATT
*
14755155 GAGTACTTAAAC
64 GGGTACTTAAAC
14755167 CACCCCTAAT
Statistics
Matches: 138, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
89 3 0.02
90 30 0.22
91 30 0.22
92 33 0.24
93 38 0.28
94 4 0.03
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.35
Consensus pattern (90 bp):
AAAAAACCCTCAAACTTTTTCAAAAAAATCAATTAAGTCCTTACTTTTATTTTGCACTCAATTGG
GTACTTAAACTTTTAAAATGCATCA
Found at i:14755296 original size:21 final size:20
Alignment explanation
Indices: 14755246--14755336 Score: 58
Period size: 21 Copynumber: 4.5 Consensus size: 20
14755236 TTAAAGACAT
** * *
14755246 TTTTTTATGCATTTTATACA
1 TTTTTTATTAATTTTTTATA
14755266 TTTTTT-TTAATTTTTTATA
1 TTTTTTATTAATTTTTTATA
** *
14755285 TTTTTCTATTAAAATTTAATA
1 TTTTT-TATTAATTTTTTATA
** *
14755306 TTTTTTTATTTTTTATTTTTTA
1 -TTTTTTATTAATT-TTTTATA
14755328 TTTTTTATT
1 TTTTTTATT
14755337 TTTTATTACC
Statistics
Matches: 54, Mismatches: 13, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
19 14 0.26
20 7 0.13
21 23 0.43
22 10 0.19
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (20 bp):
TTTTTTATTAATTTTTTATA
Found at i:14755317 original size:8 final size:7
Alignment explanation
Indices: 14755307--14755343 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
14755297 AATTTAATAT
14755307 TTTTTTA
1 TTTTTTA
14755314 TTTTTTA
1 TTTTTTA
14755321 TTTTTTA
1 TTTTTTA
14755328 TTTTTTA
1 TTTTTTA
14755335 TTTTTTA
1 TTTTTTA
14755342 TT
1 TT
14755344 ACCACATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTA
Found at i:14757257 original size:10 final size:9
Alignment explanation
Indices: 14757233--14757288 Score: 58
Period size: 10 Copynumber: 5.8 Consensus size: 9
14757223 TATACACATT
*
14757233 AAAAATATG
1 AAAAATATA
14757242 AAAAATATA
1 AAAAATATA
14757251 AATAAATATA
1 AA-AAATATA
*
14757261 TAAAAAAATA
1 -AAAAATATA
14757271 AGAAAATATA
1 A-AAAATATA
14757281 TAAAAATA
1 -AAAAATA
14757289 AAATTTACAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
9 11 0.28
10 26 0.65
11 3 0.08
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (9 bp):
AAAAATATA
Found at i:14757271 original size:20 final size:21
Alignment explanation
Indices: 14757232--14757286 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
14757222 ATATACACAT
* *
14757232 TAAAAATATGAAAAATATAA-A
1 TAAATATAT-AAAAAAATAAGA
14757253 TAAATATATAAAAAAATAAGA
1 TAAATATATAAAAAAATAAGA
14757274 -AAATATATAAAAA
1 TAAATATATAAAAA
14757287 TAAAATTTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 22 0.71
21 9 0.29
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.24
Consensus pattern (21 bp):
TAAATATATAAAAAAATAAGA
Found at i:14757364 original size:11 final size:11
Alignment explanation
Indices: 14757348--14757384 Score: 58
Period size: 10 Copynumber: 3.4 Consensus size: 11
14757338 ATATTATTAC
14757348 AAAAAAATGTA
1 AAAAAAATGTA
14757359 AAAAAAAT-TA
1 AAAAAAATGTA
14757369 AAAAAAATTGTA
1 AAAAAAA-TGTA
14757381 AAAA
1 AAAA
14757385 TATTTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 9 0.38
11 9 0.38
12 6 0.25
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (11 bp):
AAAAAAATGTA
Found at i:14757368 original size:22 final size:22
Alignment explanation
Indices: 14757343--14757384 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
14757333 TGATAATATT
14757343 ATTACAAAAAAA-TGTAAAAAAA
1 ATTA-AAAAAAATTGTAAAAAAA
14757365 ATTAAAAAAAATTGTAAAAA
1 ATTAAAAAAAATTGTAAAAA
14757385 TATTTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.21
Consensus pattern (22 bp):
ATTAAAAAAAATTGTAAAAAAA
Found at i:14757751 original size:25 final size:26
Alignment explanation
Indices: 14757706--14757757 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
14757696 TAATATTATA
*
14757706 ATTTTTTATTTTTAACTTAAATTTAAT
1 ATTTTTTATTTTTAAC-TAAATCTAAT
14757733 ATTTTTTATTTTTAA-TAAATCTAAT
1 ATTTTTTATTTTTAACTAAATCTAAT
14757758 TATCATTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (26 bp):
ATTTTTTATTTTTAACTAAATCTAAT
Found at i:14757924 original size:20 final size:21
Alignment explanation
Indices: 14757886--14757933 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
14757876 TTTGATATTT
*
14757886 TAAATATCAAATTTAAAAAAA
1 TAAATATCAAATATAAAAAAA
*
14757907 TAAATATC-AATATAAAAAAT
1 TAAATATCAAATATAAAAAAA
14757927 TAAATAT
1 TAAATAT
14757934 AATTCAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (21 bp):
TAAATATCAAATATAAAAAAA
Found at i:14758387 original size:7 final size:7
Alignment explanation
Indices: 14758375--14758415 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
14758365 ATCAAGTCCC
14758375 GCTTCTT
1 GCTTCTT
14758382 GCTTCTT
1 GCTTCTT
14758389 GCTTCTT
1 GCTTCTT
14758396 GCTTCTT
1 GCTTCTT
14758403 GCTTCTT
1 GCTTCTT
14758410 GCTTCT
1 GCTTCT
14758416 AACTTAACAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.00, C:0.29, G:0.15, T:0.56
Consensus pattern (7 bp):
GCTTCTT
Found at i:14758659 original size:17 final size:17
Alignment explanation
Indices: 14758634--14758666 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14758624 TTTACTAAAA
*
14758634 TAAATTTAATAAAATAT
1 TAAAATTAATAAAATAT
14758651 TAAAATTAATAAAATA
1 TAAAATTAATAAAATA
14758667 ATATTGGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAAATTAATAAAATAT
Done.