Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 64 of 352
Found at i:20042339 original size:19 final size:20
Alignment explanation
Indices: 20042315--20042361 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
20042305 TTGTGAAATT
* *
20042315 TAATGCACATG-ATGTGATG
1 TAATGCAAATGCATGAGATG
20042334 TAATGCAAATGCATGAGATG
1 TAATGCAAATGCATGAGATG
20042354 -AATGCAAA
1 TAATGCAAA
20042362 ACTAAAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGAGATG
Found at i:20045866 original size:16 final size:17
Alignment explanation
Indices: 20045845--20045883 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
20045835 GAATGATATT
20045845 AATAAAGG-CGA-GAATA
1 AATAAAGGCCGATG-ATA
20045861 AATAAAGGCCGATGATA
1 AATAAAGGCCGATGATA
20045878 AATAAA
1 AATAAA
20045884 ATGAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.38
17 12 0.57
18 1 0.05
ACGTcount: A:0.56, C:0.08, G:0.21, T:0.15
Consensus pattern (17 bp):
AATAAAGGCCGATGATA
Found at i:20046271 original size:3 final size:3
Alignment explanation
Indices: 20046263--20046385 Score: 72
Period size: 3 Copynumber: 41.0 Consensus size: 3
20046253 AATGATATGG
* * * * * *
20046263 TAA TAA TAA TAG TGA TAA T-A CAA TAA TAA AAA TAA -AG TAGA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
* * * * *
20046307 TAA CAA TAA TAA TAA TAGA -AA AAA TAGA AAA TAG TAA TAA TAA AAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* * *
20046353 TAA AAA TAA TAT TAA TAA TAA TAC TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
20046386 CAAAAATTAA
Statistics
Matches: 87, Mismatches: 27, Indels: 12
0.69 0.21 0.10
Matches are distributed among these distances:
2 3 0.03
3 80 0.92
4 4 0.05
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (3 bp):
TAA
Found at i:20049933 original size:22 final size:22
Alignment explanation
Indices: 20049908--20049956 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 22
20049898 AAATAATTAA
*
20049908 ATTAATTATTTTTAATATT-TTT
1 ATTAATAATTTTTAA-ATTATTT
20049930 ATT-ATAATTTTTAAATTAATTT
1 ATTAATAATTTTTAAATT-ATTT
20049952 ATTAA
1 ATTAA
20049957 ATAAAACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 3 0.13
21 10 0.43
22 9 0.39
23 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
ATTAATAATTTTTAAATTATTT
Found at i:20071354 original size:12 final size:12
Alignment explanation
Indices: 20071333--20071362 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
20071323 TAATTATATA
20071333 TTTT-ATAATTT
1 TTTTAATAATTT
20071344 TTTTAATAATTT
1 TTTTAATAATTT
20071356 TTTTAAT
1 TTTTAAT
20071363 TTTTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTAATAATTT
Found at i:20081536 original size:50 final size:52
Alignment explanation
Indices: 20081477--20081575 Score: 148
Period size: 50 Copynumber: 1.9 Consensus size: 52
20081467 TTAATAAAGT
* *
20081477 CATGCATTATGTAACTCTCATGTAAGTT-AAGTTTGCATCA-TAAATTATGA
1 CATGAATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTATGA
* *
20081527 CATGAATTATGTAACTCCCATGTTAGTTAAAGTTTGCATTATTAAATTA
1 CATGAATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTA
20081576 AGGCTTGTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 25 0.58
51 11 0.26
52 7 0.16
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (52 bp):
CATGAATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTATGA
Found at i:20081593 original size:52 final size:50
Alignment explanation
Indices: 20081477--20081595 Score: 139
Period size: 50 Copynumber: 2.3 Consensus size: 50
20081467 TTAATAAAGT
* * *
20081477 CATGCATTATGTAACTCTCATGTAAGTTAAGTTTGCATCATAAATTATGA
1 CATGAATTATGTAACTCCCATGTAAGTTAAGTTTGCATCATAAATTAAGA
* * *
20081527 CATGAATTATGTAACTCCCATGTTAGTTAAAGTTTGCATTATTAAATTAAGG
1 CATGAATTATGTAACTCCCATGTAAGTT-AAGTTTGCATCA-TAAATTAAGA
* * *
20081579 CTTGTATTAAGTAACTC
1 CATGAATTATGTAACTC
20081596 ATTTGTTCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 25 0.43
51 11 0.19
52 22 0.38
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (50 bp):
CATGAATTATGTAACTCCCATGTAAGTTAAGTTTGCATCATAAATTAAGA
Found at i:20084752 original size:26 final size:25
Alignment explanation
Indices: 20084723--20084771 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
20084713 AAACCTTAAA
20084723 CCCTTATTT-CTCCCTTTTCTTTCTTT
1 CCCTT-TTTCCTCCC-TTTCTTTCTTT
*
20084749 CCCTTTTTCCTTCCTTTCTTTCT
1 CCCTTTTTCCTCCCTTTCTTTCT
20084772 CCCCTGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.61
Consensus pattern (25 bp):
CCCTTTTTCCTCCCTTTCTTTCTTT
Found at i:20084953 original size:23 final size:23
Alignment explanation
Indices: 20084899--20084946 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
20084889 TAATAAATAA
* *
20084899 ATATATATGTATTACAAATGTAC
1 ATATGTATTTATTACAAATGTAC
* *
20084922 ATATGTATTTATTACACATTTAC
1 ATATGTATTTATTACAAATGTAC
20084945 AT
1 AT
20084947 TATTATTACC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (23 bp):
ATATGTATTTATTACAAATGTAC
Found at i:20085018 original size:8 final size:8
Alignment explanation
Indices: 20085005--20085043 Score: 69
Period size: 8 Copynumber: 4.9 Consensus size: 8
20084995 TTTAATTAAT
20085005 ATAATATA
1 ATAATATA
20085013 ATAATATA
1 ATAATATA
20085021 ATAATATA
1 ATAATATA
20085029 ATAATATA
1 ATAATATA
*
20085037 ATGATAT
1 ATAATAT
20085044 TTACTTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (8 bp):
ATAATATA
Found at i:20088852 original size:13 final size:13
Alignment explanation
Indices: 20088834--20088867 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
20088824 TTCCTAAAAC
20088834 AAAAAATAAAATA
1 AAAAAATAAAATA
*
20088847 AAAAAATAAACTA
1 AAAAAATAAAATA
*
20088860 TAAAAATA
1 AAAAAATA
20088868 GTCACTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAAAATAAAATA
Found at i:20094976 original size:101 final size:101
Alignment explanation
Indices: 20094801--20095003 Score: 334
Period size: 101 Copynumber: 2.0 Consensus size: 101
20094791 TAGCAGAAAA
* * * *
20094801 GTTTGTTGGAAAACGATTTTTGCTCATATTGGATTATGTGTGGAATGAATACCATTACAAGTGGG
1 GTTTGTTGGAAAACGATTTTTGCTCATATTGGATTATGTGTGAAATGAATACCATGACAAATGAG
*
20094866 ACAGACTGAAGCAACCGCTATGGAGTGGACGAAGAG
66 ACAGACTGAAGCAACCGCTACGGAGTGGACGAAGAG
*
20094902 GTTTGTTGGGAAACGATTTTTGCTCATATTGGATTATGTGTGAAATGAATACCATGACAAATGAG
1 GTTTGTTGGAAAACGATTTTTGCTCATATTGGATTATGTGTGAAATGAATACCATGACAAATGAG
**
20094967 ACAGACTGAAGCAAGTGCTACGGAGTGGACGAAGAG
66 ACAGACTGAAGCAACCGCTACGGAGTGGACGAAGAG
20095003 G
1 G
20095004 AAGTGAAGTC
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 94 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (101 bp):
GTTTGTTGGAAAACGATTTTTGCTCATATTGGATTATGTGTGAAATGAATACCATGACAAATGAG
ACAGACTGAAGCAACCGCTACGGAGTGGACGAAGAG
Found at i:20104032 original size:43 final size:43
Alignment explanation
Indices: 20103962--20104170 Score: 156
Period size: 43 Copynumber: 4.9 Consensus size: 43
20103952 ATCCAATGAC
*
20103962 GTGTGTTAGTATAACTGCTTCGATTTATCCAATGATGCACTAT
1 GTGTGTCAGTATAACTGCTTCGATTTATCCAATGATGCACTAT
* * ** *
20104005 GTGTGTCAGTATAACTGTTTCGGTTTATCTGATGATGCATTAT
1 GTGTGTCAGTATAACTGCTTCGATTTATCCAATGATGCACTAT
* * * *
20104048 GTGTGTCAGTAT-TCATCCTTCGATTTATTCGATGATGCACTA-
1 GTGTGTCAGTATAAC-TGCTTCGATTTATCCAATGATGCACTAT
* * * * * **
20104090 -TGCG-CCGATATAACTACTTTGGTTTATCTGATGATGCACTAT
1 GTGTGTCAG-TATAACTGCTTCGATTTATCCAATGATGCACTAT
* * ** * * *
20104132 GTGTGCCAATATATTTCCTTCAATTTATCCGATGATGCA
1 GTGTGTCAGTATAACTGCTTCGATTTATCCAATGATGCA
20104171 ATGCTGTGCT
Statistics
Matches: 129, Mismatches: 31, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
40 2 0.02
41 28 0.22
42 2 0.02
43 96 0.74
44 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.40
Consensus pattern (43 bp):
GTGTGTCAGTATAACTGCTTCGATTTATCCAATGATGCACTAT
Found at i:20105798 original size:27 final size:28
Alignment explanation
Indices: 20105760--20105814 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
20105750 TAACATTTAA
20105760 ATATATAGAAAATAA-GAAA-TATATAT
1 ATATATAGAAAATAATGAAAGTATATAT
*
20105786 ATATAATATAAAATAATGAAAGTATATAT
1 ATAT-ATAGAAAATAATGAAAGTATATAT
20105815 GTAAAAATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 4 0.16
27 10 0.40
28 4 0.16
29 7 0.28
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (28 bp):
ATATATAGAAAATAATGAAAGTATATAT
Found at i:20105839 original size:17 final size:18
Alignment explanation
Indices: 20105826--20105874 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
20105816 TAAAAATGAT
20105826 ATATATAAATAAATAATAA
1 ATATAT-AATAAATAATAA
20105845 ATATATAATACAAGTAA-AA
1 ATATATAATA-AA-TAATAA
20105864 ATATAATAATA
1 ATAT-ATAATA
20105875 TAAAAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 4 0.15
19 14 0.52
20 9 0.33
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (18 bp):
ATATATAATAAATAATAA
Found at i:20105880 original size:16 final size:16
Alignment explanation
Indices: 20105841--20105906 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 16
20105831 TAAATAAATA
*
20105841 ATAAATATATAATACA-
1 ATAAAAATATAATA-AT
20105857 AGTAAAAATATAATAAT
1 A-TAAAAATATAATAAT
* *
20105874 ATAAAAAAATAATGAT
1 ATAAAAATATAATAAT
*
20105890 GT-AAAATAATAATAAT
1 ATAAAAAT-ATAATAAT
20105906 A
1 A
20105907 ATTTGTGAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
15 4 0.10
16 23 0.57
17 13 0.32
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (16 bp):
ATAAAAATATAATAAT
Found at i:20110011 original size:18 final size:18
Alignment explanation
Indices: 20109990--20110031 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
20109980 GGAAGAAGAC
* *
20109990 GAAGAATCTGAAGGCGAA
1 GAAGAATCCGAAGGAGAA
*
20110008 GAAGCATCCGAAGGAGAA
1 GAAGAATCCGAAGGAGAA
20110026 GAAGAA
1 GAAGAA
20110032 GCTTCCGAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.48, C:0.12, G:0.33, T:0.07
Consensus pattern (18 bp):
GAAGAATCCGAAGGAGAA
Found at i:20111252 original size:262 final size:264
Alignment explanation
Indices: 20110692--20111419 Score: 999
Period size: 262 Copynumber: 2.7 Consensus size: 264
20110682 ATTTAGCAAA
* * ** * *
20110692 TCTGCTTAAATTCTAGAAATGGATACTAGAATCGAAGTTTATGGTCTGTTCTTATTTAATA-GAC
1 TCTGCTTAAATTCTATAAATGCATACTAGGCTTGACGTTTATGGTCTGTTCTTATTTAA-AGGAC
* ** * * * * * * * *
20110756 TGCTGAAAGGAACTATATGG-TTGCTGAAGAGGCAT-TAAGTGATTGTTAGCTTT-AGTGACAGA
65 TGCTGAAGGGAAGGAGATGGCTT-ATGAAAAAGCATACAAGTGATTGTTAG-TTTCAATGGCTGA
* * * * *
20110818 GGAT-AGTATT-T-AAGTTAGAAGATATAATAATGAGAATGATGT-GCATTTTGCATATTTCTTG
128 GGATGA-T-TTGTAAATTTA-TAGATATAATCATGAGAATTATGTAG-AATTTGCATATTTCTTG
*
20110879 TTCCCTATAAGAGTTTGTCGGGGGGGGGGGGGGGGGAGGGGAATAAGTGAAATCGTTGTTCTGAG
189 TTCCCTATAAGAGTTTGTC----GGGGGGGGGGGGGA---GAATAAGTGAAATCGTTATTCTGAG
20110944 AATTGCTGCATTGTAATT
247 AATTGCTGCATTGTAATT
20110962 TCTGCTTAAATTCTATAAATGCATACTAGGCTTGACGTTTATGGTCTGTTCTTATTTAAAGGACT
1 TCTGCTTAAATTCTATAAATGCATACTAGGCTTGACGTTTATGGTCTGTTCTTATTTAAAGGACT
*
20111027 GCTGAAGGGAAGGAGATGGCTTATGAAAAAGCATACAAGTGATTGTTAGTTTCAATGGCTGAGGC
66 GCTGAAGGGAAGGAGATGGCTTATGAAAAAGCATACAAGTGATTGTTAGTTTCAATGGCTGAGGA
20111092 TGATTTGTAAATTTATAGATATAATCATGAGAATTATGTAGAATTTGCATATTTCTTGTTCCCTA
131 TGATTTGTAAATTTATAGATATAATCATGAGAATTATGTAGAATTTGCATATTTCTTGTTCCCTA
*
20111157 TAAGAGTTTGTC-GGGGGGGGGGGGA-ATTAAGTGAAATCGTTATTCTGAGAATTGCTGCATTGT
196 TAAGAGTTTGTCGGGGGGGGGGGGGAGAATAAGTGAAATCGTTATTCTGAGAATTGCTGCATTGT
20111220 AATT
261 AATT
* *
20111224 TCTGCTTAAATTCTATAAATGCATACTAGGCTTGACGTTTATGGTCTATTCTTATTTAATGGACT
1 TCTGCTTAAATTCTATAAATGCATACTAGGCTTGACGTTTATGGTCTGTTCTTATTTAAAGGACT
20111289 GCTGAAGGGAAGGAGATGGCTTATGAAAAAGCATACAAGTGATTGTTAGTTTCAATGGCTGAGGA
66 GCTGAAGGGAAGGAGATGGCTTATGAAAAAGCATACAAGTGATTGTTAGTTTCAATGGCTGAGGA
* *
20111354 TGATTTGTAAATTTATAGATATAATCATGAGAATTATGTAGAATTTGCATATCTCTTGTTCGCTA
131 TGATTTGTAAATTTATAGATATAATCATGAGAATTATGTAGAATTTGCATATTTCTTGTTCCCTA
20111419 T
196 T
20111420 TTGAATTTGT
Statistics
Matches: 420, Mismatches: 30, Indels: 24
0.89 0.06 0.05
Matches are distributed among these distances:
262 231 0.55
266 13 0.03
269 1 0.00
270 86 0.20
271 82 0.20
272 7 0.02
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.36
Consensus pattern (264 bp):
TCTGCTTAAATTCTATAAATGCATACTAGGCTTGACGTTTATGGTCTGTTCTTATTTAAAGGACT
GCTGAAGGGAAGGAGATGGCTTATGAAAAAGCATACAAGTGATTGTTAGTTTCAATGGCTGAGGA
TGATTTGTAAATTTATAGATATAATCATGAGAATTATGTAGAATTTGCATATTTCTTGTTCCCTA
TAAGAGTTTGTCGGGGGGGGGGGGGAGAATAAGTGAAATCGTTATTCTGAGAATTGCTGCATTGT
AATT
Found at i:20141057 original size:2 final size:2
Alignment explanation
Indices: 20141052--20141082 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
20141042 TATATGTAAC
20141052 TA 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 TA T
20141083 CTATTTTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20142363 original size:134 final size:133
Alignment explanation
Indices: 20142122--20142515 Score: 531
Period size: 134 Copynumber: 3.0 Consensus size: 133
20142112 AAAATTCTTC
* *
20142122 AAAACGAAGACGAGATTTGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGA-AATTGATATTTGGCAATTCGCGGAATAGTGCCCTAACGTGTTGGGTTGCAA
*
20142187 TTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCATTCATGTCTTTTAAAAATTTT
65 TTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATGTCTTTTAAAAATTTT
20142252 CTCT
130 CTCT
20142256 AAAACGAAGACGAAATTCGATATTTGGCAATTCGCGGAATAGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGAAATT-GATATTTGGCAATTCGCGGAATAGTGCCCTAACGTGTTGGGTTGCAA
* * * ** * *
20142321 TTTCGCGTTTACTCAAAATAATTGAATATCCCTTCAAGATTTCACCCACGCCTTTTAAAAA--TT
65 TTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATGTCTTTTAAAAATTTT
*
20142384 CTTT
130 CTCT
** ** * *
20142388 AAAACGAAGGTGATGTGTGATATTTGGCAATTCGCAGAATTGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGAAAT-TGATATTTGGCAATTCGCGGAATAGTGCCCTAACGTGTTGGGTTGCAA
* * * * * **
20142453 TTTCTCGGTTGCTTAAAATGATCAAATATCCCTTCAAAATTTCATTCATGTCTCCTAAAAATT
65 TTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATGTCTTTTAAAAATT
20142516 ATTTAAAACG
Statistics
Matches: 225, Mismatches: 31, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
132 109 0.48
133 4 0.02
134 112 0.50
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (133 bp):
AAAACGAAGACGAAATTGATATTTGGCAATTCGCGGAATAGTGCCCTAACGTGTTGGGTTGCAAT
TTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATGTCTTTTAAAAATTTTC
TCT
Found at i:20142512 original size:132 final size:130
Alignment explanation
Indices: 20142111--20142526 Score: 544
Period size: 132 Copynumber: 3.1 Consensus size: 130
20142101 TCATTCATTC
* *
20142111 AAAAATTCTTCAAAACGAAGACGAGATTTGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAAATTCTTTAAAACGAAG--GAGATTTGATATTTGGCAATTCGCGGAATAGTGCCCTAACGTG
*
20142176 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCATTCATGTCTT
64 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATGTCTT
20142241 TT
129 TT
* * *
20142243 AAAAATTTTCTCTAAAACGAAGACGAAATTCGATATTTGGCAATTCGCGGAATAGTGCCCTAACG
1 AAAAA--TTCTTTAAAACGAAG--GAGATTTGATATTTGGCAATTCGCGGAATAGTGCCCTAACG
* * * ** * *
20142308 TGTTGGGTTGCAATTTCGCGTTTACTCAAAATAATTGAATATCCCTTCAAGATTTCACCCACGCC
62 TGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATGTC
20142373 TTTT
127 TTTT
* * *
20142377 AAAAATTCTTTAAAACGAAGGTGATGTGTGATATTTGGCAATTCGCAGAATTGTGCCCTAACGTG
1 AAAAATTCTTTAAAACGAAGGAGAT-T-TGATATTTGGCAATTCGCGGAATAGTGCCCTAACGTG
* * * * * *
20142442 TTGGGTTGCAATTTCTCGGTTGCTTAAAATGATCAAATATCCCTTCAAAATTTCATTCATGTCTC
64 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATGTCTT
*
20142507 CT
129 TT
*
20142509 AAAAATTATTTAAAACGA
1 AAAAATTCTTTAAAACGA
20142527 GGGCAACATT
Statistics
Matches: 246, Mismatches: 34, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
130 3 0.01
131 1 0.00
132 123 0.50
134 119 0.48
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (130 bp):
AAAAATTCTTTAAAACGAAGGAGATTTGATATTTGGCAATTCGCGGAATAGTGCCCTAACGTGTT
GGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATGTCTTTT
Found at i:20142889 original size:130 final size:129
Alignment explanation
Indices: 20142647--20142889 Score: 326
Period size: 130 Copynumber: 1.9 Consensus size: 129
20142637 ATTAAAAACA
* * *
20142647 CTTTAAAACGAAGACGATGTTCAATGTTTGGTGATTTGAGAATCGTGCCCTAACGTGCTGGGTCG
1 CTTTAAAACGAAGACAATGTTCAATGTTTGGTGATTTGAGAATCGAGCCCGAACGTGCTGGGTCG
* * * *
20142712 CGCTTTTTCATTGGTCCGAAACAATTGCAGATCCCTTCGGAATTTCACTCACATTTTCTAAAAT
66 CGCTTTTTCATTGGTCCCAAACAATCGAACATCCCTTCGGAATTTCACTCACATTTTCTAAAAT
* * *
20142776 CTTTCAAAATGAAGACAATGTTCGATGTTTGGTGATTTGAGAATCGAGCTCGATA-GTGCTGGGT
1 CTTT-AAAACGAAGACAATGTTCAATGTTTGGTGATTTGAGAATCGAGCCCGA-ACGTGCTGGGT
* * * * *
20142840 TGCGCTTTTTCATTTGTCCCAAATAATCGAACATCTCTTCGGGATTTCAC
64 CGCGCTTTTTCATTGGTCCCAAACAATCGAACATCCCTTCGGAATTTCAC
20142890 ACGTATTTTC
Statistics
Matches: 97, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
129 4 0.04
130 92 0.95
131 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (129 bp):
CTTTAAAACGAAGACAATGTTCAATGTTTGGTGATTTGAGAATCGAGCCCGAACGTGCTGGGTCG
CGCTTTTTCATTGGTCCCAAACAATCGAACATCCCTTCGGAATTTCACTCACATTTTCTAAAAT
Found at i:20147250 original size:15 final size:14
Alignment explanation
Indices: 20147232--20147320 Score: 55
Period size: 13 Copynumber: 6.5 Consensus size: 14
20147222 TTAATTTATT
20147232 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
20147247 TAATAATAATCTAA
1 TAATAATAATCTAA
*
20147261 T-ATAA-AACCATAA
1 TAATAATAATC-TAA
**
20147274 TGTTAATTAA--TAA
1 TAATAA-TAATCTAA
*
20147287 TTATAATAATCTAA
1 TAATAATAATCTAA
*
20147301 T-ATAA-AACCATAA
1 TAATAATAATC-TAA
20147314 TAATAAT
1 TAATAAT
20147321 CATTATAATA
Statistics
Matches: 60, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
12 9 0.15
13 23 0.38
14 16 0.27
15 10 0.17
16 2 0.03
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:20147273 original size:21 final size:21
Alignment explanation
Indices: 20147249--20147317 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
20147239 AATGCTAATA
20147249 ATAATAATCTAATATAAAACC
1 ATAATAATCTAATATAAAACC
* **
20147270 ATAAT-GT-TAAT-TAATAATT
1 ATAATAATCTAATATAA-AACC
20147289 ATAATAATCTAATATAAAACC
1 ATAATAATCTAATATAAAACC
20147310 ATAATAAT
1 ATAATAAT
20147318 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.09, G:0.01, T:0.35
Consensus pattern (21 bp):
ATAATAATCTAATATAAAACC
Found at i:20154990 original size:17 final size:17
Alignment explanation
Indices: 20154968--20155001 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
20154958 TTTTTCTTCC
20154968 CCTGTTTTCGTTT-TGTT
1 CCTG-TTTCGTTTATGTT
20154985 CCTGTTTCGTTTATGTT
1 CCTGTTTCGTTTATGTT
20155002 TCTTTTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.03, C:0.18, G:0.18, T:0.62
Consensus pattern (17 bp):
CCTGTTTCGTTTATGTT
Found at i:20155358 original size:15 final size:14
Alignment explanation
Indices: 20155340--20155428 Score: 55
Period size: 13 Copynumber: 6.5 Consensus size: 14
20155330 TTAATTTATT
20155340 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
20155355 TAATAATAATCTAA
1 TAATAATAATCTAA
*
20155369 T-ATAA-AACCATAA
1 TAATAATAATC-TAA
**
20155382 TGTTAATTAA--TAA
1 TAATAA-TAATCTAA
*
20155395 TTATAATAATCTAA
1 TAATAATAATCTAA
*
20155409 T-ATAA-AACCATAA
1 TAATAATAATC-TAA
20155422 TAATAAT
1 TAATAAT
20155429 CATTATAATA
Statistics
Matches: 60, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
12 9 0.15
13 23 0.38
14 16 0.27
15 10 0.17
16 2 0.03
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:20155381 original size:21 final size:21
Alignment explanation
Indices: 20155357--20155425 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
20155347 AATGCTAATA
20155357 ATAATAATCTAATATAAAACC
1 ATAATAATCTAATATAAAACC
* **
20155378 ATAAT-GT-TAAT-TAATAATT
1 ATAATAATCTAATATAA-AACC
20155397 ATAATAATCTAATATAAAACC
1 ATAATAATCTAATATAAAACC
20155418 ATAATAAT
1 ATAATAAT
20155426 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.09, G:0.01, T:0.35
Consensus pattern (21 bp):
ATAATAATCTAATATAAAACC
Found at i:20164709 original size:4 final size:4
Alignment explanation
Indices: 20164700--20164725 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
20164690 ACAGTAAACT
20164700 TAAC TAAC TAAC TAAC TAAC TAAC TA
1 TAAC TAAC TAAC TAAC TAAC TAAC TA
20164726 CTTAACCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAC
Found at i:20166389 original size:19 final size:19
Alignment explanation
Indices: 20166365--20166401 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
20166355 AATTTTGAAA
20166365 AAATTAAATT-AAATTAATC
1 AAATT-AATTAAAATTAATC
20166384 AAATTAATTAAAATTAAT
1 AAATTAATTAAAATTAAT
20166402 ATGATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTAATTAAAATTAATC
Found at i:20166651 original size:20 final size:21
Alignment explanation
Indices: 20166613--20166653 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
20166603 TGGTCGGAAA
*
20166613 GTCATTGGCCTAGACCAAACC
1 GTCATTGGCCCAGACCAAACC
20166634 GTCATTGGCCCA-ACCAAACC
1 GTCATTGGCCCAGACCAAACC
20166654 AGCTGCTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.29, C:0.37, G:0.17, T:0.17
Consensus pattern (21 bp):
GTCATTGGCCCAGACCAAACC
Found at i:20175149 original size:5 final size:5
Alignment explanation
Indices: 20175139--20175164 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
20175129 TGAGCATTCG
20175139 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
20175165 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:20176755 original size:9 final size:9
Alignment explanation
Indices: 20176730--20176775 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
20176720 CGAAAAAAAA
20176730 AATTCGAGTT
1 AATTCGA-TT
*
20176740 GATTCGATT
1 AATTCGATT
20176749 AATTCGATT
1 AATTCGATT
*
20176758 AACTCGATT
1 AATTCGATT
*
20176767 AACTCGATT
1 AATTCGATT
20176776 CGAATAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (9 bp):
AATTCGATT
Found at i:20177403 original size:14 final size:14
Alignment explanation
Indices: 20177386--20177412 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20177376 GCTGCCAAAA
20177386 TTCTCTTCTTCTTT
1 TTCTCTTCTTCTTT
20177400 TTCTCTTCTTCTT
1 TTCTCTTCTTCTT
20177413 CATTTTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (14 bp):
TTCTCTTCTTCTTT
Found at i:20177424 original size:16 final size:17
Alignment explanation
Indices: 20177389--20177430 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
20177379 GCCAAAATTC
*
20177389 TCTTCTTCTTTTTCTCT
1 TCTTCTTCATTTTCTCT
20177406 TCTTCTTCATTTT-TCT
1 TCTTCTTCATTTTCTCT
*
20177422 TCTCCTTCA
1 TCTTCTTCA
20177431 ATTAGTTGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.05, C:0.31, G:0.00, T:0.64
Consensus pattern (17 bp):
TCTTCTTCATTTTCTCT
Found at i:20180636 original size:13 final size:13
Alignment explanation
Indices: 20180599--20180636 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
20180589 TTAAACCAAT
20180599 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
20180612 TTTTCCATAGCAC
1 TTTTCAAAAGCAC
20180625 TTTTCAAAAGCA
1 TTTTCAAAAGCA
20180637 TTGTCAAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.34, C:0.24, G:0.08, T:0.34
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:20184187 original size:18 final size:19
Alignment explanation
Indices: 20184153--20184209 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
20184143 CTATTTTCAC
20184153 AAATTAAATACATTA-TTA
1 AAATTAAATACATTATTTA
*
20184171 AAATTAAAATAGA-TATTTAA
1 AAATT-AAATACATTATTT-A
20184191 AAATATAAATA-ATTATTTA
1 AAAT-TAAATACATTATTTA
20184210 GCAGACACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
18 7 0.21
19 10 0.30
20 15 0.45
21 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
AAATTAAATACATTATTTA
Found at i:20184207 original size:20 final size:21
Alignment explanation
Indices: 20184153--20184209 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 21
20184143 CTATTTTCAC
20184153 AAAT-TAAATACATTA-TTAA
1 AAATATAAATACATTATTTAA
* *
20184172 AATTA-AAATAGA-TATTTAA
1 AAATATAAATACATTATTTAA
20184191 AAATATAAATA-ATTATTTA
1 AAATATAAATACATTATTTA
20184210 GCAGACACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 2 0.06
19 18 0.58
20 11 0.35
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
AAATATAAATACATTATTTAA
Found at i:20185394 original size:27 final size:26
Alignment explanation
Indices: 20185335--20185403 Score: 95
Period size: 27 Copynumber: 2.7 Consensus size: 26
20185325 AAAGCTGTTG
20185335 TTTTTTTTTACTATTTTCTTTTTTTA
1 TTTTTTTTTACTATTTTCTTTTTTTA
* * *
20185361 TTGTTTTGTTGCTATTTTCTTTTTCT-
1 TT-TTTTTTTACTATTTTCTTTTTTTA
20185387 TTTTTTTTTACTATTTT
1 TTTTTTTTTACTATTTT
20185404 GCTACTATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 13 0.35
26 4 0.11
27 20 0.54
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.78
Consensus pattern (26 bp):
TTTTTTTTTACTATTTTCTTTTTTTA
Found at i:20185442 original size:11 final size:11
Alignment explanation
Indices: 20185398--20185445 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
20185388 TTTTTTTTAC
*
20185398 TATTTTGCTAC
1 TATTTTGCTAT
**
20185409 TATTTCACTAT
1 TATTTTGCTAT
*
20185420 TATATTGCTAT
1 TATTTTGCTAT
*
20185431 TATTTTGTTAT
1 TATTTTGCTAT
20185442 TATT
1 TATT
20185446 GTTTGGATAT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.23, C:0.10, G:0.06, T:0.60
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:20198378 original size:40 final size:40
Alignment explanation
Indices: 20198306--20198384 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
20198296 GAATAAAATG
* * *
20198306 ATTTTTATATCATTCAAGCATTAATTGTTAAGAAACTATT
1 ATTTTTACACCATTCAAGCATTAATTGATAAGAAACTATT
*
20198346 ATTTTTACACCATT-AAGACATTCATTGATAAGAAACTAT
1 ATTTTTACACCATTCAAG-CATTAATTGATAAGAAACTAT
20198385 AACTTTAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.09
40 31 0.91
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.41
Consensus pattern (40 bp):
ATTTTTACACCATTCAAGCATTAATTGATAAGAAACTATT
Found at i:20204011 original size:15 final size:14
Alignment explanation
Indices: 20203968--20204050 Score: 57
Period size: 14 Copynumber: 5.7 Consensus size: 14
20203958 AATTTATATT
20203968 TTAAATATTATTAAA
1 TTAAATATTA-TAAA
20203983 TTATAATCATTATAAA
1 TTA-AAT-ATTATAAA
*
20203999 GTTAAATATTATATA
1 -TTAAATATTATAAA
*
20204014 TTATATATT-TGAAA
1 TTAAATATTAT-AAA
20204028 -TAAAT-TTCAT-AA
1 TTAAATATT-ATAAA
20204040 TATAAATATTA
1 T-TAAATATTA
20204051 CATTAAAGAT
Statistics
Matches: 55, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
12 4 0.07
13 5 0.09
14 17 0.31
15 12 0.22
16 10 0.18
17 7 0.13
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (14 bp):
TTAAATATTATAAA
Found at i:20204013 original size:17 final size:16
Alignment explanation
Indices: 20203968--20204013 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
20203958 AATTTATATT
20203968 TTAAATATTAT-TAAA
1 TTAAATATTATATAAA
*
20203983 TTATAATCATTATA-AAG
1 TTA-AAT-ATTATATAAA
20204000 TTAAATATTATATA
1 TTAAATATTATATA
20204014 TTATATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
15 9 0.35
16 7 0.27
17 10 0.38
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (16 bp):
TTAAATATTATATAAA
Found at i:20206560 original size:28 final size:30
Alignment explanation
Indices: 20206527--20206583 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 30
20206517 TAAATTTTGA
*
20206527 GTTGGAGTTATTTTGAA-TATG-AATTTTC
1 GTTGGAATTATTTTGAATTATGTAATTTTC
20206555 GTTGGAATTATTTTGAATTATGTAATTTT
1 GTTGGAATTATTTTGAATTATGTAATTTT
20206584 AGATCTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 16 0.62
29 4 0.15
30 6 0.23
ACGTcount: A:0.26, C:0.02, G:0.19, T:0.53
Consensus pattern (30 bp):
GTTGGAATTATTTTGAATTATGTAATTTTC
Found at i:20207600 original size:17 final size:17
Alignment explanation
Indices: 20207558--20207600 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
20207548 ATGGACAAAT
20207558 AATTTAAAAATATAAAA
1 AATTTAAAAATATAAAA
* *
20207575 TATTCAAAAATA-AAAA
1 AATTTAAAAATATAAAA
20207591 AATTATAAAA
1 AATT-TAAAA
20207601 TTCAAAAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (17 bp):
AATTTAAAAATATAAAA
Found at i:20213174 original size:6 final size:6
Alignment explanation
Indices: 20213157--20213211 Score: 92
Period size: 6 Copynumber: 9.2 Consensus size: 6
20213147 CTATTCACTC
* *
20213157 GGGTCA GCGTCA GGGTCA GGGTCA GGGTCA GGGTCA GGGGCA GGGTCA
1 GGGTCA GGGTCA GGGTCA GGGTCA GGGTCA GGGTCA GGGTCA GGGTCA
20213205 GGGTCA G
1 GGGTCA G
20213212 TAAAAGTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.16, C:0.18, G:0.51, T:0.15
Consensus pattern (6 bp):
GGGTCA
Found at i:20216876 original size:50 final size:49
Alignment explanation
Indices: 20216755--20216943 Score: 216
Period size: 50 Copynumber: 3.8 Consensus size: 49
20216745 TGAGGTCGCA
* * * *
20216755 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-T-TGGTCACG
* **
20216806 TGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT-GGTCACG
* * * *
20216856 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCACG
* * * *
20216905 TGTGTAGTACTATGTGCACGCTACTATGCGTACTAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
20216944 GCTTTGGCTA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 39 0.33
50 44 0.38
51 34 0.29
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCACG
Found at i:20218782 original size:18 final size:18
Alignment explanation
Indices: 20218758--20218837 Score: 115
Period size: 18 Copynumber: 4.4 Consensus size: 18
20218748 TATCAATATC
20218758 ATTCAGTAACAATCAATT
1 ATTCAGTAACAATCAATT
* * *
20218776 TTTCAGTAGCAATCAGTT
1 ATTCAGTAACAATCAATT
20218794 ATTCAGTAACAATCAATT
1 ATTCAGTAACAATCAATT
* *
20218812 ATTCAGTAGCAATCAGTT
1 ATTCAGTAACAATCAATT
20218830 ATTCAGTA
1 ATTCAGTA
20218838 CCTTTATTCA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (18 bp):
ATTCAGTAACAATCAATT
Found at i:20218798 original size:36 final size:36
Alignment explanation
Indices: 20218758--20218837 Score: 151
Period size: 36 Copynumber: 2.2 Consensus size: 36
20218748 TATCAATATC
*
20218758 ATTCAGTAACAATCAATTTTTCAGTAGCAATCAGTT
1 ATTCAGTAACAATCAATTATTCAGTAGCAATCAGTT
20218794 ATTCAGTAACAATCAATTATTCAGTAGCAATCAGTT
1 ATTCAGTAACAATCAATTATTCAGTAGCAATCAGTT
20218830 ATTCAGTA
1 ATTCAGTA
20218838 CCTTTATTCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (36 bp):
ATTCAGTAACAATCAATTATTCAGTAGCAATCAGTT
Found at i:20219048 original size:43 final size:43
Alignment explanation
Indices: 20218998--20219080 Score: 132
Period size: 43 Copynumber: 1.9 Consensus size: 43
20218988 ACAGTAGCAG
*
20218998 TACGACACATATGGTGCCTCATCGACTTGAA-GTCGAAGTACAA
1 TACGACACATATAGTGCCTCATCGACTT-AAGGTCGAAGTACAA
*
20219041 TACGACACTTATAGTGCCTCATCGACTTAAGGTCGAAGTA
1 TACGACACATATAGTGCCTCATCGACTTAAGGTCGAAGTA
20219081 TCCCTAAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 2 0.05
43 35 0.95
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (43 bp):
TACGACACATATAGTGCCTCATCGACTTAAGGTCGAAGTACAA
Found at i:20219804 original size:12 final size:11
Alignment explanation
Indices: 20219764--20219804 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
20219754 TTAATATTTA
20219764 AATTTCTTATTC
1 AATTTC-TATTC
20219776 AATTTCTATTC
1 AATTTCTATTC
*
20219787 AATTTCTACTTT
1 AATTTCTA-TTC
20219799 AATTTC
1 AATTTC
20219805 AATTTTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 13 0.48
12 14 0.52
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTCTATTC
Found at i:20224311 original size:88 final size:89
Alignment explanation
Indices: 20224128--20224317 Score: 226
Period size: 88 Copynumber: 2.1 Consensus size: 89
20224118 CTTAAGAGTG
* * * * * * *
20224128 TAAAAAA-CCCTTAAAACTTTTTTAAAAAAAGTAATTAAGCCTTGCTCTTTTTTTTTTCACTCCA
1 TAAAAAAGCCC-TCAAACTCTTTCAAAAAAAGCAATTAAGCC-TCCTCTTTTTTTTTGCACTCAA
** *
20224192 TTGGGTACTTGAACTTTCAAAATGCA
64 TTGAATACTTGAACTGTCAAAATGCA
20224218 TAAAAAAGCCCTCAAACTCTTTCAAAAAAAGCAATTAAGCC-CCTAC-TTTTTTTTGCACTCAAT
1 TAAAAAAGCCCTCAAACTCTTTCAAAAAAAGCAATTAAGCCTCCT-CTTTTTTTTTGCACTCAAT
20224281 TGAATACTTGAACTGTC-AAATGCA
65 TGAATACTTGAACTGTCAAAATGCA
20224305 TAAAAAAGACCCT
1 TAAAAAAG-CCCT
20224318 TTGATTGTTA
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
87 15 0.17
88 35 0.40
89 1 0.01
90 33 0.38
91 3 0.03
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (89 bp):
TAAAAAAGCCCTCAAACTCTTTCAAAAAAAGCAATTAAGCCTCCTCTTTTTTTTTGCACTCAATT
GAATACTTGAACTGTCAAAATGCA
Found at i:20224430 original size:10 final size:9
Alignment explanation
Indices: 20224415--20224497 Score: 59
Period size: 8 Copynumber: 9.6 Consensus size: 9
20224405 GACATGTGAC
20224415 AAAAATAAT
1 AAAAATAAT
20224424 -AAAA-AAT
1 AAAAATAAT
20224431 AAAAATAAT
1 AAAAATAAT
20224440 -AAAA-AAT
1 AAAAATAAT
* *
20224447 AAAATTATT
1 AAAAATAAT
**
20224456 AAATTTTAAT
1 AAA-AATAAT
20224466 AAAAAT-AT
1 AAAAATAAT
*
20224474 AAAAATATTT
1 AAAAATA-AT
*
20224484 AAAAATTAT
1 AAAAATAAT
20224493 AAAAA
1 AAAAA
20224498 CTGTAAAAGA
Statistics
Matches: 58, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
7 6 0.10
8 23 0.40
9 15 0.26
10 14 0.24
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAAATAAT
Found at i:20224458 original size:16 final size:16
Alignment explanation
Indices: 20224415--20224450 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
20224405 GACATGTGAC
20224415 AAAAATAATAAAAAAT
1 AAAAATAATAAAAAAT
20224431 AAAAATAATAAAAAAT
1 AAAAATAATAAAAAAT
20224447 AAAA
1 AAAA
20224451 TTATTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAAATAATAAAAAAT
Found at i:20224619 original size:20 final size:21
Alignment explanation
Indices: 20224575--20224649 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
20224565 TAAAAAATGT
* * * *
20224575 AAAATTTTATAAAGTCATAAG
1 AAAATTATAAAAAATCATAAA
20224596 AAAATTATAAAAAAT-ATAAA
1 AAAATTATAAAAAATCATAAA
* * *
20224616 AAAATCAT-AAAATTCGTAAAA
1 AAAATTATAAAAAATCAT-AAA
20224637 AAAATTATAAAAA
1 AAAATTATAAAAA
20224650 TTATTGTACC
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
19 5 0.12
20 12 0.28
21 22 0.51
22 4 0.09
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (21 bp):
AAAATTATAAAAAATCATAAA
Found at i:20224883 original size:20 final size:19
Alignment explanation
Indices: 20224860--20224913 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
20224850 AAAAAAATAC
*
20224860 ATTTTTTTATATTTTTTATG
1 ATTTTTTTAT-TTTTTTATA
* * *
20224880 ATTTATATATTTTTTTTCTA
1 ATTTTTTTA-TTTTTTTATA
20224900 ATTTTTTTATTTTT
1 ATTTTTTTATTTTT
20224914 AATATTTTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 5 0.19
20 21 0.78
21 1 0.04
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (19 bp):
ATTTTTTTATTTTTTTATA
Found at i:20224975 original size:9 final size:9
Alignment explanation
Indices: 20224863--20224976 Score: 56
Period size: 9 Copynumber: 12.6 Consensus size: 9
20224853 AAAATACATT
*
20224863 TTTTTATAT
1 TTTTTATAA
*
20224872 TTTTTATGA
1 TTTTTATAA
**
20224881 TTTATATATTT
1 TTT-T-TATAA
*
20224892 TTTTTCTAA
1 TTTTTATAA
*
20224901 TTTTT-TTA
1 TTTTTATAA
*
20224909 TTTTTAATAT
1 TTTTT-ATAA
20224919 TTTATTA-AA
1 TTT-TTATAA
* *
20224928 GTTTAATAA
1 TTTTTATAA
20224937 TTTTTATAA
1 TTTTTATAA
* *
20224946 GTTTTATTGA
1 TTTTTA-TAA
20224956 TTTTTAT--
1 TTTTTATAA
20224963 TTTTTATAA
1 TTTTTATAA
20224972 TTTTT
1 TTTTT
20224977 CGCCACATGT
Statistics
Matches: 78, Mismatches: 18, Indels: 18
0.68 0.16 0.16
Matches are distributed among these distances:
7 7 0.09
8 9 0.12
9 40 0.51
10 14 0.18
11 8 0.10
ACGTcount: A:0.26, C:0.01, G:0.04, T:0.69
Consensus pattern (9 bp):
TTTTTATAA
Found at i:20225301 original size:86 final size:88
Alignment explanation
Indices: 20225080--20225327 Score: 256
Period size: 85 Copynumber: 2.8 Consensus size: 88
20225070 GTCAAAGAAT
*
20225080 CTTTTTAATGCATTTTGATAA-TTTAAGTA-CACAATTGAGTGTAAAAAAAAAGTAAGGGCTTAA
1 CTTTTTAATGCATTTTGA-AAGTTCAAGTACCA-AATTGAGTG-AAAAAAAAAG-AAGGGCTTAA
** *
20225143 TTTCTTTTTTTGAAAAAGGTAAAGGGT
62 TAGCTTTTTTTGAAAAAGGTAAAGGGC
* * * * *
20225170 TTTTTTGATGCATTTTGAAAGTGCAAGTACCTAATTGAGAGAAAAAAAAAG--GGGCTTAATAGC
1 CTTTTTAATGCATTTTGAAAGTTCAAGTACCAAATTGAGTGAAAAAAAAAGAAGGGCTTAATAGC
* * ***
20225233 TTTTTTTGAAAATGTTTGGGGGC
66 TTTTTTTGAAAAAGGTAAAGGGC
* *
20225256 CTTTTT-ATGCATTTTGAAAGTTCAAGTACCAAATTGAGTGAAAAAAAAGGTAGGAGCTTAATTA
1 CTTTTTAATGCATTTTGAAAGTTCAAGTACCAAATTGAGTGAAAAAAAAAGAAGG-GCTTAA-TA
20225320 -CTTTTTTT
64 GCTTTTTTT
20225328 TTTTGAAAAA
Statistics
Matches: 133, Mismatches: 19, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
85 40 0.30
86 32 0.24
87 2 0.02
88 14 0.11
89 14 0.11
90 30 0.23
91 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (88 bp):
CTTTTTAATGCATTTTGAAAGTTCAAGTACCAAATTGAGTGAAAAAAAAAGAAGGGCTTAATAGC
TTTTTTTGAAAAAGGTAAAGGGC
Found at i:20231006 original size:24 final size:24
Alignment explanation
Indices: 20230979--20231067 Score: 97
Period size: 24 Copynumber: 3.7 Consensus size: 24
20230969 GCAGCGTTTC
*
20230979 CTCGCACACATAGTGCTATATAAT
1 CTCGCACACATAGTGCCATATAAT
* *
20231003 CTCGCACACATAGTGCCATGTAGTT
1 CTCGCACACATAGTGCCATATA-AT
* * ** *
20231028 TTTGCACACATAGTGCCGCATAAC
1 CTCGCACACATAGTGCCATATAAT
20231052 CTCGCACACATAGTGC
1 CTCGCACACATAGTGC
20231068 TGAAATTTCT
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
24 34 0.65
25 18 0.35
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (24 bp):
CTCGCACACATAGTGCCATATAAT
Found at i:20234188 original size:21 final size:22
Alignment explanation
Indices: 20234164--20234205 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
20234154 CGAAAGTTTC
*
20234164 AATTTTTTAAT-TACGTTTATA
1 AATTATTTAATATACGTTTATA
*
20234185 AATTATTTAATATATGTTTAT
1 AATTATTTAATATACGTTTAT
20234206 TAAAATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (22 bp):
AATTATTTAATATACGTTTATA
Found at i:20234217 original size:23 final size:21
Alignment explanation
Indices: 20234170--20234217 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 21
20234160 TTTCAATTTT
* *
20234170 TTAATTACGTTTATAAATTAT
1 TTAATTACGTTTATAAAATAA
*
20234191 TTAATATATGTTTATTAAAATAA
1 TTAAT-TACGTTTA-TAAAATAA
20234214 TTAA
1 TTAA
20234218 GATGGATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 5 0.23
22 7 0.32
23 10 0.45
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (21 bp):
TTAATTACGTTTATAAAATAA
Found at i:20249914 original size:40 final size:40
Alignment explanation
Indices: 20249859--20249934 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
20249849 TATTGAAACC
20249859 TACAATTTTTTTATCAAATCAGCAACATTGTAGTTAGGCA
1 TACAATTTTTTTATCAAATCAGCAACATTGTAGTTAGGCA
*
20249899 TACAATTTTTTTATCAAATCAGCAACGTTGTAGTTA
1 TACAATTTTTTTATCAAATCAGCAACATTGTAGTTA
20249935 ATTATCTAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (40 bp):
TACAATTTTTTTATCAAATCAGCAACATTGTAGTTAGGCA
Found at i:20253064 original size:20 final size:19
Alignment explanation
Indices: 20253035--20253076 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
20253025 TTGTAATTAG
20253035 TATAAGTAATTATTATTA-AA
1 TATAAGTAA-TATT-TTATAA
*
20253055 TATAATTAATATTTTATAA
1 TATAAGTAATATTTTATAA
20253074 TAT
1 TAT
20253077 TTTCCAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 3 0.15
19 9 0.45
20 8 0.40
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
TATAAGTAATATTTTATAA
Found at i:20254046 original size:70 final size:71
Alignment explanation
Indices: 20253917--20254066 Score: 230
Period size: 74 Copynumber: 2.1 Consensus size: 71
20253907 GTACAGACTA
* * *
20253917 GTTTTTAAATTATTATTTATTTATTTATTTTAATATGTTGAAAATTTTCATTTTCAAAATAAAAA
1 GTTTTTAAAATATTATTTATTTATTAATTTTAATATATTG---ATTTTCATTTTCAAAATAAAAA
20253982 CCTTTAATG
63 CCTTTAATG
*
20253991 GTTTTTAAAATATTATTTATTTATTAATTTTAATATATTG-TTTTCATTTTCAAAATAAAAACTT
1 GTTTTTAAAATATTATTTATTTATTAATTTTAATATATTGATTTTCATTTTCAAAATAAAAACCT
20254055 TTAATG
66 TTAATG
20254061 GTTTTT
1 GTTTTT
20254067 CAAACACTCC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
70 35 0.49
74 37 0.51
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (71 bp):
GTTTTTAAAATATTATTTATTTATTAATTTTAATATATTGATTTTCATTTTCAAAATAAAAACCT
TTAATG
Found at i:20254492 original size:33 final size:33
Alignment explanation
Indices: 20254450--20254513 Score: 112
Period size: 33 Copynumber: 1.9 Consensus size: 33
20254440 TTTACAAAAA
20254450 AAATTTCACAAATAAGATCA-AAGGTTTAACACC
1 AAATTTCACAAATAAGATCAGAA-GTTTAACACC
20254483 AAATTTCACAAATAAGATCAGAAGTTTAACA
1 AAATTTCACAAATAAGATCAGAAGTTTAACA
20254514 AGTGTCTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.50, C:0.16, G:0.09, T:0.25
Consensus pattern (33 bp):
AAATTTCACAAATAAGATCAGAAGTTTAACACC
Found at i:20259039 original size:19 final size:20
Alignment explanation
Indices: 20259003--20259041 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
20258993 TTCTTGAAAT
*
20259003 AATTCTAAAAAAGTTTTAATA
1 AATTATAAAAAAG-TTTAATA
20259024 AATTATAAAAAA-TTTAAT
1 AATTATAAAAAAGTTTAAT
20259042 CAAAGGTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
AATTATAAAAAAGTTTAATA
Found at i:20259150 original size:20 final size:20
Alignment explanation
Indices: 20259110--20259150 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
20259100 AAGATCGAAC
*
20259110 ACATAAATTTTACGTGGAAA
1 ACATAAATTTTACGTGAAAA
20259130 ACATAAATTTTACGTGAAAA
1 ACATAAATTTTACGTGAAAA
20259150 A
1 A
20259151 ACTCCTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (20 bp):
ACATAAATTTTACGTGAAAA
Found at i:20259871 original size:13 final size:14
Alignment explanation
Indices: 20259855--20259885 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
20259845 AAGAAAGGAA
20259855 ATAAACAATT-TTT
1 ATAAACAATTGTTT
20259868 ATAAACAATTGTTT
1 ATAAACAATTGTTT
20259882 ATAA
1 ATAA
20259886 TAATTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (14 bp):
ATAAACAATTGTTT
Found at i:20259924 original size:14 final size:15
Alignment explanation
Indices: 20259903--20259942 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
20259893 TTAGAATCTC
*
20259903 TATAATTTTTTTATT
1 TATAATTTTATTATT
20259918 T-TAA-TTTATTATT
1 TATAATTTTATTATT
20259931 TATAA-TTTATTA
1 TATAATTTTATTA
20259943 AAAATTGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 9 0.39
14 13 0.57
15 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TATAATTTTATTATT
Found at i:20263132 original size:7 final size:7
Alignment explanation
Indices: 20263098--20263135 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
20263088 TTGTACTTGT
*
20263098 GGTTTAA
1 GGTTTAG
20263105 GGTTTAG
1 GGTTTAG
*
20263112 GATTTAG
1 GGTTTAG
20263119 GGTTTAG
1 GGTTTAG
20263126 GGTTTAG
1 GGTTTAG
20263133 GGT
1 GGT
20263136 CTCAAGTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:20263756 original size:40 final size:39
Alignment explanation
Indices: 20263701--20263776 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 39
20263691 AAAAAATATT
* * *
20263701 TAGGTATTAGCGGCGTTTATACATAAAACGCCGCAAATGA
1 TAGGTAATAGCGGCGTTT-TACAGAAAACGCCACAAATGA
*
20263741 TAGGTAATAGCGGCGTTTTTCAGAAAACGCCACAAA
1 TAGGTAATAGCGGCGTTTTACAGAAAACGCCACAAA
20263777 ATTTAATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
39 15 0.47
40 17 0.53
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (39 bp):
TAGGTAATAGCGGCGTTTTACAGAAAACGCCACAAATGA
Found at i:20265627 original size:39 final size:39
Alignment explanation
Indices: 20265584--20265661 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
20265574 AAGTAGAGAA
*
20265584 CTTAAATTTGTTATTTTGCATGATTATTTGAGATCTGCT
1 CTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGCT
*
20265623 CTTAAATTTGTTATTCTGCATGATTATTTGAGATTTGCT
1 CTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGCT
20265662 TTTGTCAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.51
Consensus pattern (39 bp):
CTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGCT
Found at i:20265651 original size:20 final size:20
Alignment explanation
Indices: 20265589--20265652 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
20265579 GAGAACTTAA
*
20265589 ATTTGTTATTTTGCATGATT
1 ATTTGTTATTCTGCATGATT
** *
20265609 ATTTGAGA-TCTGC-T-CTT
1 ATTTGTTATTCTGCATGATT
20265626 AAATTTGTTATTCTGCATGATT
1 --ATTTGTTATTCTGCATGATT
20265648 ATTTG
1 ATTTG
20265653 AGATTTGCTT
Statistics
Matches: 32, Mismatches: 7, Indels: 10
0.65 0.14 0.20
Matches are distributed among these distances:
17 2 0.06
18 1 0.03
19 10 0.31
20 16 0.50
21 1 0.03
22 2 0.06
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (20 bp):
ATTTGTTATTCTGCATGATT
Found at i:20267301 original size:26 final size:26
Alignment explanation
Indices: 20267255--20267307 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
20267245 TCAAACATGC
*
20267255 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
20267281 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
20267307 A
1 A
20267308 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:20268824 original size:26 final size:26
Alignment explanation
Indices: 20268795--20268897 Score: 179
Period size: 26 Copynumber: 4.0 Consensus size: 26
20268785 ATTCCCATCT
*
20268795 TGGAACATTTACCTAAACCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
20268821 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
* *
20268847 TGGAATATTTACCTAATCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
20268873 TGGAACATTTACCTAACCCATTATC
1 TGGAACATTTACCTAACCCATTATC
20268898 GATTTGTACC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
TGGAACATTTACCTAACCCATTATCA
Found at i:20270976 original size:65 final size:65
Alignment explanation
Indices: 20270872--20271005 Score: 268
Period size: 65 Copynumber: 2.1 Consensus size: 65
20270862 TCTTGAGCAG
20270872 ACCATTGGATCTGAAATCTTGTTTATGTTAAAAGATATCAACTTCAGTTATGGGAAGATGAATCA
1 ACCATTGGATCTGAAATCTTGTTTATGTTAAAAGATATCAACTTCAGTTATGGGAAGATGAATCA
20270937 ACCATTGGATCTGAAATCTTGTTTATGTTAAAAGATATCAACTTCAGTTATGGGAAGATGAATCA
1 ACCATTGGATCTGAAATCTTGTTTATGTTAAAAGATATCAACTTCAGTTATGGGAAGATGAATCA
20271002 ACCA
1 ACCA
20271006 CCTAACGCAC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 69 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (65 bp):
ACCATTGGATCTGAAATCTTGTTTATGTTAAAAGATATCAACTTCAGTTATGGGAAGATGAATCA
Found at i:20274366 original size:13 final size:14
Alignment explanation
Indices: 20274350--20274378 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
20274340 TTATAAATAT
20274350 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
20274363 TTATAATGGTTTAA
1 TTATAATGGTTTAA
20274377 TT
1 TT
20274379 CGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:20277339 original size:31 final size:31
Alignment explanation
Indices: 20277301--20277359 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
20277291 AAATCTAGTA
20277301 AGACGAACTTATAAACATCCCAATAGATACT
1 AGACGAACTTATAAACATCCCAATAGATACT
*
20277332 AGACGAACTTATAAACATCCTAATAGAT
1 AGACGAACTTATAAACATCCCAATAGAT
20277360 TTTTTATTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.24
Consensus pattern (31 bp):
AGACGAACTTATAAACATCCCAATAGATACT
Found at i:20279485 original size:25 final size:25
Alignment explanation
Indices: 20279451--20279501 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
20279441 TTCCTTATAA
**
20279451 ACTTTAAATTAGAAATTCTATTAGG
1 ACTTTAAATTAGAAATTAGATTAGG
*
20279476 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGAAATTAGATTAGG
20279501 A
1 A
20279502 TTTTCCTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGAAATTAGATTAGG
Found at i:20284123 original size:25 final size:25
Alignment explanation
Indices: 20284089--20284139 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
20284079 TTCCTTATAA
**
20284089 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
20284114 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
20284139 A
1 A
20284140 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:20284138 original size:12 final size:12
Alignment explanation
Indices: 20284092--20284139 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
20284082 CTTATAAACT
20284092 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
20284104 TTCTATTAGGACT
1 TTAAATTAGGA-A
20284117 TTAAATTAGGAA
1 TTAAATTAGGAA
*
20284129 TTAGATTAGGA
1 TTAAATTAGGA
20284140 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:20288419 original size:75 final size:74
Alignment explanation
Indices: 20288284--20288425 Score: 198
Period size: 75 Copynumber: 1.9 Consensus size: 74
20288274 TTCCCCTGCT
* *
20288284 GTTGATTTCATGTTCTTTTCTGATTTTTATTTCAGTTTTTATGTCATTAAATACTGGTTTAAGTT
1 GTTGATTTCATGCTCTTTTCTGATATTTATTTCAGTTTTTATGTCATTAAATACTGGTTTAAGTT
20288349 GAAGTTGAA
66 GAAGTTGAA
* * *
20288358 GTTGATTTCATGCTCTTTTCCT-A-ATTTATTTCTGTTTTTATATGTCATTAAATATTTGTTTAA
1 GTTGATTTCATGCTCTTTT-CTGATATTTATTTCAG-TTTT-TATGTCATTAAATACTGGTTTAA
20288421 GTTGA
63 GTTGA
20288426 CATTATTATG
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
73 9 0.15
74 23 0.38
75 28 0.47
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.54
Consensus pattern (74 bp):
GTTGATTTCATGCTCTTTTCTGATATTTATTTCAGTTTTTATGTCATTAAATACTGGTTTAAGTT
GAAGTTGAA
Found at i:20302426 original size:22 final size:22
Alignment explanation
Indices: 20302395--20302446 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
20302385 TGTGTAAATT
*
20302395 AACCATAGCCTATATCAGCTCA
1 AACCACAGCCTATATCAGCTCA
20302417 AACCACAGCCTATATCAGCTCA
1 AACCACAGCCTATATCAGCTCA
20302439 AACCACAG
1 AACCACAG
20302447 AAATAGAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.38, C:0.35, G:0.10, T:0.17
Consensus pattern (22 bp):
AACCACAGCCTATATCAGCTCA
Found at i:20302700 original size:20 final size:20
Alignment explanation
Indices: 20302675--20302718 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
20302665 TCACCAGATA
*
20302675 CAGATATTGTGCAGAGCCAC
1 CAGATAATGTGCAGAGCCAC
*
20302695 CAGATAATGTGCATAGCCAC
1 CAGATAATGTGCAGAGCCAC
20302715 CAGA
1 CAGA
20302719 CAGATATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (20 bp):
CAGATAATGTGCAGAGCCAC
Found at i:20302758 original size:27 final size:26
Alignment explanation
Indices: 20302695--20302824 Score: 183
Period size: 27 Copynumber: 4.9 Consensus size: 26
20302685 GCAGAGCCAC
20302695 CAGATAATGT-GCATAGCCACCAGA-
1 CAGATAATGTGGCATAGCCACCAGAT
*
20302719 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATA-ATGTGGCATAGCCACCAGAT
*
20302746 CAGATAATCGTGGCATAGCCACCAGAA
1 CAGATAAT-GTGGCATAGCCACCAGAT
*
20302773 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATA-ATGTGGCATAGCCACCAGAT
20302800 CAGATAATTGTGGCATAGCCACCAG
1 CAGATAA-TGTGGCATAGCCACCAG
20302825 GACGCTTCCT
Statistics
Matches: 94, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
24 6 0.06
25 4 0.04
26 16 0.17
27 66 0.70
28 2 0.02
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (26 bp):
CAGATAATGTGGCATAGCCACCAGAT
Found at i:20302785 original size:54 final size:53
Alignment explanation
Indices: 20302666--20302824 Score: 228
Period size: 54 Copynumber: 3.1 Consensus size: 53
20302656 GTGACGAAGT
20302666 CACCAGATACAGATAT-TGT-GCAGAGCCA-C----CAGATAATGT-GCATAGC
1 CACCAGA-ACAGATATATGTGGCAGAGCCACCAGATCAGATAATGTGGCATAGC
20302712 CACCAG-ACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGC
1 CACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAAT-GTGGCATAGC
20302765 CACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGC
1 CACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAA-TGTGGCATAGC
20302819 CACCAG
1 CACCAG
20302825 GACGCTTCCT
Statistics
Matches: 102, Mismatches: 0, Indels: 14
0.88 0.00 0.12
Matches are distributed among these distances:
44 8 0.08
45 3 0.03
46 15 0.15
47 1 0.01
51 8 0.08
52 2 0.02
53 13 0.13
54 51 0.50
55 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.18
Consensus pattern (53 bp):
CACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATGTGGCATAGC
Found at i:20304478 original size:26 final size:26
Alignment explanation
Indices: 20304443--20304550 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
20304433 TGAAATTCCC
20304443 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
20304469 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
20304495 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
20304521 ATCATGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
20304547 ATCA
1 ATCA
20304551 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
25 2 0.03
26 72 0.97
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:20306585 original size:29 final size:29
Alignment explanation
Indices: 20306550--20306607 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
20306540 CCCCTTGTTT
20306550 TTGTGGCTAGAACCCTCTAGTTTTTACAA
1 TTGTGGCTAGAACCCTCTAGTTTTTACAA
20306579 TTGTGGCTAGAACCCTCTAGTTTTTACAA
1 TTGTGGCTAGAACCCTCTAGTTTTTACAA
20306608 GACTCAACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (29 bp):
TTGTGGCTAGAACCCTCTAGTTTTTACAA
Found at i:20307048 original size:20 final size:20
Alignment explanation
Indices: 20307001--20307048 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
20306991 TACAAGATGT
* * *
20307001 ATGGGTAGAAGTGGACTTGT
1 ATGGGTAGAAGAGGACCTGA
**
20307021 ATTAGTAGAAGAGGACCTGA
1 ATGGGTAGAAGAGGACCTGA
20307041 ATGGGTAG
1 ATGGGTAG
20307049 GAGTCCCCCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.06, G:0.38, T:0.25
Consensus pattern (20 bp):
ATGGGTAGAAGAGGACCTGA
Found at i:20308081 original size:10 final size:9
Alignment explanation
Indices: 20308059--20308098 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
20308049 AAAAGAACCA
*
20308059 TTTTATAAT
1 TTTTATTAT
20308068 TTTTATTGAT
1 TTTTATT-AT
20308078 TTTTATT-T
1 TTTTATTAT
20308086 TTTTATTAT
1 TTTTATTAT
20308095 TTTT
1 TTTT
20308099 CACCATATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 8 0.29
9 11 0.39
10 9 0.32
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (9 bp):
TTTTATTAT
Found at i:20315581 original size:26 final size:26
Alignment explanation
Indices: 20315545--20315600 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
20315535 GAAGAAGGAA
20315545 TAAACCATAACTATATTAAGCATGAT
1 TAAACCATAACTATATTAAGCATGAT
20315571 TAAACCATAACTATATTAAGCATGAT
1 TAAACCATAACTATATTAAGCATGAT
20315597 TAAA
1 TAAA
20315601 TCATTCCAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.30
Consensus pattern (26 bp):
TAAACCATAACTATATTAAGCATGAT
Found at i:20327911 original size:26 final size:26
Alignment explanation
Indices: 20327882--20328015 Score: 241
Period size: 26 Copynumber: 5.2 Consensus size: 26
20327872 TGATACAAAT
20327882 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
20327908 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
20327934 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
20327960 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
20327986 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
20328012 TGAT
1 TGAT
20328016 GGGAATTTCA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:20355319 original size:42 final size:43
Alignment explanation
Indices: 20355248--20355341 Score: 129
Period size: 42 Copynumber: 2.2 Consensus size: 43
20355238 ATTAGGTTGT
* * *
20355248 TATAGTGATTGTGTGTAAGACCGTGTCTGGGACATTGGCATCG
1 TATATTGATTGTGTGTAAGACCCTGTCTGGGACAGTGGCATCG
*
20355291 TATATTGATT-TGTGTAAGACCCTTTCTGGGACAGTGGCATCG
1 TATATTGATTGTGTGTAAGACCCTGTCTGGGACAGTGGCATCG
20355333 -ATATGTGAT
1 TATAT-TGAT
20355342 AACATGTAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
41 4 0.09
42 33 0.72
43 9 0.20
ACGTcount: A:0.22, C:0.14, G:0.29, T:0.35
Consensus pattern (43 bp):
TATATTGATTGTGTGTAAGACCCTGTCTGGGACAGTGGCATCG
Found at i:20355364 original size:43 final size:41
Alignment explanation
Indices: 20355261--20355377 Score: 110
Period size: 42 Copynumber: 2.8 Consensus size: 41
20355251 AGTGATTGTG
* * ***
20355261 TGTAAGACCGTGTCTGGGACATTGGCATCGTATATTGATTTG
1 TGTAAGACCATATCTGGGACA-TGGCATCGTATATTGATACA
* *
20355303 TGTAAGACCCTTTCTGGGACAGTGGCATCG-ATATGTGATAACA
1 TGTAAGACCATATCTGGGACA-TGGCATCGTATAT-TGAT-ACA
* *
20355346 TGTAAGACCATATCTGGGATATGGCATTGTAT
1 TGTAAGACCATATCTGGGACATGGCATCGTAT
20355378 GAGCTTATGT
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 4 0.06
42 38 0.61
43 20 0.32
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (41 bp):
TGTAAGACCATATCTGGGACATGGCATCGTATATTGATACA
Found at i:20355986 original size:21 final size:20
Alignment explanation
Indices: 20355957--20355995 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
20355947 CTTGTTTTGG
*
20355957 TATGTTTATCATAATTGTTGA
1 TATGGTTAT-ATAATTGTTGA
*
20355978 TATGGTTATATAGTTGTT
1 TATGGTTATATAATTGTT
20355996 CTTTTGGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.26, C:0.03, G:0.18, T:0.54
Consensus pattern (20 bp):
TATGGTTATATAATTGTTGA
Found at i:20358444 original size:42 final size:41
Alignment explanation
Indices: 20358333--20358454 Score: 140
Period size: 42 Copynumber: 3.0 Consensus size: 41
20358323 TGAATTTTCT
* *
20358333 TTTAACTCTAATGGGTTTCCGTTTAGCTC-TTGAGCTTCAG
1 TTTAACCCTCATGGGTTTCCGTTTAGCTCTTTGAGCTTCAG
** * **
20358373 AATAACCCTTC-TGGGTTTCAGTTCCGCTCTTTCGAGCTTCAG
1 TTTAACCC-TCATGGGTTTCCGTTTAGCTCTTT-GAGCTTCAG
20358415 TTTAACCCTCATGGGTTTCCGTTTAGCTCTTATGAGCTTC
1 TTTAACCCTCATGGGTTTCCGTTTAGCTCTT-TGAGCTTC
20358455 CATTCAACCC
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
40 20 0.31
41 5 0.08
42 39 0.60
43 1 0.02
ACGTcount: A:0.16, C:0.25, G:0.19, T:0.40
Consensus pattern (41 bp):
TTTAACCCTCATGGGTTTCCGTTTAGCTCTTTGAGCTTCAG
Found at i:20358464 original size:42 final size:41
Alignment explanation
Indices: 20358343--20358483 Score: 121
Period size: 42 Copynumber: 3.4 Consensus size: 41
20358333 TTTAACTCTA
* * * *
20358343 ATGGGTTTCCGTTTAGCTC-TTGAGCTTCAGAATAACCCTTC
1 ATGGGTTTCAGTTTAGCTCTTTGAGCTTC-CATTAACCCATC
**
20358384 -TGGGTTTCAGTTCCGCTCTTTCGAGCTT-CAGTTTAACCC-TC
1 ATGGGTTTCAGTTTAGCTCTTT-GAGCTTCCA--TTAACCCATC
*
20358425 ATGGGTTTCCGTTTAGCTCTTATGAGCTTCCATTCAACCCAT-
1 ATGGGTTTCAGTTTAGCTCTT-TGAGCTTCCATT-AACCCATC
*
20358467 ATAGGTTTCAGTTTAGC
1 ATGGGTTTCAGTTTAGC
20358484 ACTTATGTGC
Statistics
Matches: 81, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
40 16 0.20
41 6 0.07
42 55 0.68
43 4 0.05
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.38
Consensus pattern (41 bp):
ATGGGTTTCAGTTTAGCTCTTTGAGCTTCCATTAACCCATC
Found at i:20360739 original size:19 final size:20
Alignment explanation
Indices: 20360702--20360742 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
20360692 GACTAAACCG
*
20360702 AAAACATATAAAATTTTTCAA
1 AAAAAATATAAAA-TTTTCAA
20360723 AAAAAATATAAAA-TTTCAA
1 AAAAAATATAAAATTTTCAA
20360742 A
1 A
20360743 CTACAAGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
21 12 0.63
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAAATATAAAATTTTCAA
Found at i:20364549 original size:64 final size:64
Alignment explanation
Indices: 20364339--20364549 Score: 142
Period size: 64 Copynumber: 3.2 Consensus size: 64
20364329 CTGGGCCAGA
* *
20364339 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCTTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
20364403 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
20364465 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
20364476 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
20364540 GCCCATTTCA
1 GCCCATTTCA
20364550 AAATACATGC
Statistics
Matches: 102, Mismatches: 28, Indels: 34
0.62 0.17 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.25
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 4 0.04
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:20364554 original size:137 final size:137
Alignment explanation
Indices: 20364316--20364590 Score: 541
Period size: 137 Copynumber: 2.0 Consensus size: 137
20364306 ATCCCATTCA
*
20364316 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCTTTATT
1 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
20364381 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
66 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
20364446 CCATTTG
131 CCATTTG
20364453 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
20364518 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
66 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
20364583 CCATTTG
131 CCATTTG
20364590 G
1 G
20364591 AGAGACTACT
Statistics
Matches: 137, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 137 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
CCATTTG
Found at i:20364885 original size:26 final size:26
Alignment explanation
Indices: 20364839--20364891 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
20364829 TCAAACATGC
*
20364839 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAAGGGT
* *
20364865 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAAC-CCTAAGGGT
20364891 A
1 A
20364892 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAAGGGT
Found at i:20366407 original size:26 final size:26
Alignment explanation
Indices: 20366376--20366483 Score: 155
Period size: 26 Copynumber: 4.2 Consensus size: 26
20366366 TGAAATTCCC
20366376 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
20366402 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
20366428 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
20366454 GTCATGAAACATTTACCT-AACACATT
1 ATCATGGAACATTTACCTAAAC-CATT
20366480 ATCA
1 ATCA
20366484 ATTTGTATCA
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
25 2 0.03
26 71 0.97
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:20366453 original size:52 final size:52
Alignment explanation
Indices: 20366376--20366483 Score: 171
Period size: 52 Copynumber: 2.1 Consensus size: 52
20366366 TGAAATTCCC
* *
20366376 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACACATT
* * *
20366428 ATCATGGAATATTTACCTAATCCATTGTCATGAAACATTTACCTAACACATT
1 ATCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACACATT
20366480 ATCA
1 ATCA
20366484 ATTTGTATCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACACATT
Found at i:20368008 original size:37 final size:37
Alignment explanation
Indices: 20367958--20368031 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
20367948 TTTCGACAAT
20367958 AGCAAAATGACAATGAAAAAGATGATGCTAATTTTTA
1 AGCAAAATGACAATGAAAAAGATGATGCTAATTTTTA
*
20367995 AGCAAAATGACAATGAAAAAGATTATGCTAATTTTTA
1 AGCAAAATGACAATGAAAAAGATGATGCTAATTTTTA
20368032 CTTGATTATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.49, C:0.08, G:0.15, T:0.28
Consensus pattern (37 bp):
AGCAAAATGACAATGAAAAAGATGATGCTAATTTTTA
Found at i:20369097 original size:14 final size:13
Alignment explanation
Indices: 20369074--20369105 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
20369064 AGGATATCAA
20369074 AACAATAATTAAG
1 AACAATAATTAAG
20369087 AACACATAATTAAG
1 AACA-ATAATTAAG
20369101 AACAA
1 AACAA
20369106 GTCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:20370818 original size:37 final size:37
Alignment explanation
Indices: 20370762--20370916 Score: 183
Period size: 37 Copynumber: 4.2 Consensus size: 37
20370752 ACTTAATGCG
*
20370762 TGGCGTGTTATCG-GTTGGATTAGCTCTTATGAGCATT
1 TGGCATGTTATCGAG-TGGATTAGCTCTTATGAGCATT
* *
20370799 TGGCGTGTTATCGAATGGATTAGCT-TTGATGAGCATT
1 TGGCATGTTATCGAGTGGATTAGCTCTT-ATGAGCATT
* * *
20370836 TGGCATGTTATCTAGTGGATTAGCTTTTATGAGTATT
1 TGGCATGTTATCGAGTGGATTAGCTCTTATGAGCATT
* * *
20370873 TGGCATGTTATTGGGTGGATTAGCTCTTATGA-TA-T
1 TGGCATGTTATCGAGTGGATTAGCTCTTATGAGCATT
20370908 TGGCATGTT
1 TGGCATGTT
20370917 TTGGTTGGAT
Statistics
Matches: 106, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
35 10 0.09
36 4 0.04
37 90 0.85
38 2 0.02
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.42
Consensus pattern (37 bp):
TGGCATGTTATCGAGTGGATTAGCTCTTATGAGCATT
Found at i:20378742 original size:11 final size:11
Alignment explanation
Indices: 20378726--20378758 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
20378716 TTATAGCCGA
20378726 AAAATAAAAAT
1 AAAATAAAAAT
20378737 AAAATAAATAA-
1 AAAATAAA-AAT
20378748 AAAATAAAAAT
1 AAAATAAAAAT
20378759 TTCCTTGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 2 0.10
11 16 0.80
12 2 0.10
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:20378747 original size:15 final size:16
Alignment explanation
Indices: 20378727--20378756 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20378717 TATAGCCGAA
20378727 AAAT-AAAAATAAAAT
1 AAATAAAAAATAAAAT
20378742 AAATAAAAAATAAAA
1 AAATAAAAAATAAAA
20378757 ATTTCCTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (16 bp):
AAATAAAAAATAAAAT
Found at i:20379000 original size:25 final size:23
Alignment explanation
Indices: 20378954--20379000 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
20378944 TATTTTACTT
*
20378954 TGGGCTAATAATTTGCTTGTAAG
1 TGGGCTAATAATTGGCTTGTAAG
20378977 TGGGCTAGATAATTGGACTTGTAA
1 TGGGCTA-ATAATTGG-CTTGTAA
20379001 CAGGGACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 7 0.33
25 7 0.33
ACGTcount: A:0.28, C:0.09, G:0.28, T:0.36
Consensus pattern (23 bp):
TGGGCTAATAATTGGCTTGTAAG
Found at i:20380282 original size:11 final size:11
Alignment explanation
Indices: 20380262--20380315 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
20380252 AAAGCAACAG
*
20380262 CAAAATAGCAC
1 CAAAACAGCAC
20380273 CAAAACAGCAC
1 CAAAACAGCAC
*
20380284 C-AAACAGCAA
1 CAAAACAGCAC
*
20380294 CAAAACAACAC
1 CAAAACAGCAC
*
20380305 AAAAAACAGCA
1 -CAAAACAGCA
20380316 TCACCAACAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
10 9 0.26
11 18 0.51
12 8 0.23
ACGTcount: A:0.61, C:0.30, G:0.07, T:0.02
Consensus pattern (11 bp):
CAAAACAGCAC
Found at i:20385680 original size:57 final size:57
Alignment explanation
Indices: 20385613--20385726 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
20385603 GACTAGTAAA
20385613 TTATTAGTTATGGTTTCTGGTTTCTATTTGTTATTTAGTTTTGAAAGTAAGGTTTTT
1 TTATTAGTTATGGTTTCTGGTTTCTATTTGTTATTTAGTTTTGAAAGTAAGGTTTTT
*
20385670 TTATTAGTTATGGTTTTTGGTTTCTATTTGTTATTTAGTTTTGAAAGTAAGGTTTTT
1 TTATTAGTTATGGTTTCTGGTTTCTATTTGTTATTTAGTTTTGAAAGTAAGGTTTTT
20385727 ACTAACACTG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.19, C:0.03, G:0.19, T:0.59
Consensus pattern (57 bp):
TTATTAGTTATGGTTTCTGGTTTCTATTTGTTATTTAGTTTTGAAAGTAAGGTTTTT
Found at i:20390696 original size:6 final size:6
Alignment explanation
Indices: 20390687--20390721 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
20390677 ATTTTCTTGC
20390687 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTC
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTC
20390722 CACTTGAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:20391230 original size:96 final size:97
Alignment explanation
Indices: 20391037--20391230 Score: 221
Period size: 96 Copynumber: 2.0 Consensus size: 97
20391027 TCATACTTAC
* * * ** *
20391037 ATTCTTCTCTAGTTGGATATTTAATTGAACATTGGAAACCCTTATGATGTTTTGAACTACACTAA
1 ATTCTTCTCTAGTTGGATATTTAATTGAACATCGAAAACCCTCATGACCTTTTGAACTACACCAA
* ** *
20391102 TAAAATTGCACAAAAGGTGATAGCTCATTTGT
66 TAAAATTGCACAAAAGGTGAGAAATCAGTTGT
* *
20391134 ATTC-TCTCTATTTGGATATTTCATT-AGACATCGAAAACCCTCATGACCTTTTGAACTACACCA
1 ATTCTTCTCTAGTTGGATATTTAATTGA-ACATCGAAAACCCTCATGACCTTTTGAACTACACCA
* * **
20391197 ATAACATTTCACAGTAGGTGAGAAATCAGTTGT
65 ATAAAATTGCACAAAAGGTGAGAAATCAGTTGT
20391230 A
1 A
20391231 CTCCTCCTTT
Statistics
Matches: 80, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
95 1 0.01
96 75 0.94
97 4 0.05
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (97 bp):
ATTCTTCTCTAGTTGGATATTTAATTGAACATCGAAAACCCTCATGACCTTTTGAACTACACCAA
TAAAATTGCACAAAAGGTGAGAAATCAGTTGT
Found at i:20392271 original size:19 final size:19
Alignment explanation
Indices: 20392249--20392285 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
20392239 AATATTTTTT
20392249 TATT-TTTCTTTATTTTTCG
1 TATTATTTCTTT-TTTTTCG
20392268 TATTATTTCTTTTTTTTC
1 TATTATTTCTTTTTTTTC
20392286 ACTTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.76
Consensus pattern (19 bp):
TATTATTTCTTTTTTTTCG
Found at i:20397883 original size:241 final size:241
Alignment explanation
Indices: 20397315--20397857 Score: 901
Period size: 241 Copynumber: 2.3 Consensus size: 241
20397305 TTAGTTTACC
* *
20397315 AAATTAC-GAAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCA
1 AAATTACTG-AAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCA
* * *
20397378 AATATCCTCGATTTGTAAAATTACCGAAATACCGTCGATTGTAAAATTACTGAAATACCATCGAT
65 AATATCCTCGATTTATAAAATTATCAAAATACCGTCGATTGTAAAATTACTGAAATACCATCGAT
*
20397443 TTGTAAAATTACTGAAATACCGTCGATTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTAT
130 TTGTAAAATTACTGAAATACAGTCGATTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTAT
*
20397508 CGAAATACCCTCAGTTTGCAAAATTACTAAAATACCCTTGATTTATA
195 CGAAATACCCTCAGTTTGCAAAATTACTAAAATACCCTCGATTTATA
*
20397555 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCCAA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
* * *
20397620 ATATCCTCGATTTATAAAATTATCAAAATATCGTTGATTGTAAAATTACTGAAATACCCTCGATT
66 ATATCCTCGATTTATAAAATTATCAAAATACCGTCGATTGTAAAATTACTGAAATACCATCGATT
*
20397685 TGTAAAATTCCTGAAATACAGTCGATTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTATC
131 TGTAAAATTACTGAAATACAGTCGATTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTATC
* * * *
20397750 GAAATACCCTCAGTTTGTAAAATTATTGAAATACCCTCGATTTGTA
196 GAAATACCCTCAGTTTGCAAAATTACTAAAATACCCTCGATTTATA
* *
20397796 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTACAGAATTACC
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACC
20397858 GTTTTACCCT
Statistics
Matches: 282, Mismatches: 19, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
240 15 0.05
241 267 0.95
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (241 bp):
AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
ATATCCTCGATTTATAAAATTATCAAAATACCGTCGATTGTAAAATTACTGAAATACCATCGATT
TGTAAAATTACTGAAATACAGTCGATTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTATC
GAAATACCCTCAGTTTGCAAAATTACTAAAATACCCTCGATTTATA
Found at i:20397892 original size:27 final size:27
Alignment explanation
Indices: 20397315--20397893 Score: 547
Period size: 27 Copynumber: 21.6 Consensus size: 27
20397305 TTAGTTTACC
* *
20397315 AAATTAC-GAAAATACCC-CCAGTTGTA
1 AAATTACTG-AAATACCCTCGATTTGTA
* * *
20397341 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** *
20397368 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
20397395 AAATTACCGAAATACCGTCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
20397421 AAATTACTGAAATACCATCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
20397448 AAATTACTGAAATACCGTCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
20397474 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
20397501 AAATTA-TCGAAATACCCTC-AGTTTGCA
1 AAATTACT-GAAATACCCTCGA-TTTGTA
* * *
20397528 AAATTACTAAAATACCCTTGATTTATA
1 AAATTACTGAAATACCCTCGATTTGTA
*
20397555 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
20397582 AAATTAC-CAAAGTACCCCCGGTTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** * *
20397609 AAATTACCCAAATATCCTCGATTTATA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
20397636 AAATTA-TCAAAATATCGTTGA-TTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
20397662 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* **
20397689 AAATTCCTGAAATACAGTCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
20397715 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
20397742 AAATTA-TCGAAATACCCTC-AGTTTGTA
1 AAATTACT-GAAATACCCTCGA-TTTGTA
*
20397769 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
20397796 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * **
20397823 AAATTAC-CAAAGTACCCCCGATTTACA
1 AAATTACTGAAA-TACCCTCGATTTGTA
* * *** * *
20397850 GAATTACCGTTTTACCCTTGATTTATA
1 AAATTACTGAAATACCCTCGATTTGTA
*
20397877 AAATTATTGAAATACCC
1 AAATTACTGAAATACCC
20397894 CTGTAGGGTA
Statistics
Matches: 461, Mismatches: 71, Indels: 41
0.80 0.12 0.07
Matches are distributed among these distances:
25 3 0.01
26 111 0.24
27 335 0.73
28 12 0.03
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:20397915 original size:27 final size:27
Alignment explanation
Indices: 20397885--20398339 Score: 570
Period size: 27 Copynumber: 16.9 Consensus size: 27
20397875 TAAAATTATT
* *
20397885 GAAATACCCCTGTAGGGTAGAAATATC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
20397912 GAAATACTCTTATAGGGTAGAAATATC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * **
20397939 GAAATACCCTTGTAGAGTAGAATTATT
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
20397966 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
20397993 GAAATACCCTTTTAGGGTAGAAATATC
1 GAAATACCCTTGTAGGGTAGAAATACC
20398020 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * * * *
20398047 AAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
20398074 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAAATACC
*
20398101 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAAATACC
20398128 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
20398155 GAAATACCCCTGTAGGATAGAAATACT
1 GAAATACCCTTGTAGGGTAGAAATACC
20398182 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
20398209 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* * * *
20398236 AAAATACCCCTGTAGGATAGAATTACC
1 GAAATACCCTTGTAGGGTAGAAATACC
20398263 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
20398290 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
20398317 GAGATACCCTTGTGGGGTA-AAAT
1 GAAATACCCTTGTAGGGTAGAAAT
20398340 TACCATTTTG
Statistics
Matches: 377, Mismatches: 51, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
26 3 0.01
27 374 0.99
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAAATACC
Found at i:20398823 original size:22 final size:22
Alignment explanation
Indices: 20398771--20398835 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
20398761 TTAAAGCCTT
* *
20398771 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
20398793 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
20398815 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
20398836 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:20399030 original size:26 final size:26
Alignment explanation
Indices: 20398986--20399071 Score: 102
Period size: 26 Copynumber: 3.3 Consensus size: 26
20398976 TGCCATGTAT
* *
20398986 TCTGTT-TAGTGGCTTTGCCACATTA
1 TCTGTTCTAGTGGCTCTGCCACAATA
20399011 TCTGTTCTAGTGGCTCTGCCACAATA
1 TCTGTTCTAGTGGCTCTGCCACAATA
* ** *
20399037 TCTGTATCTGGTAACTCTGTCACAATA
1 TCTGT-TCTAGTGGCTCTGCCACAATA
20399064 TCTGTTCT
1 TCTGTTCT
20399072 GGCAGCCATG
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
25 6 0.11
26 25 0.47
27 22 0.42
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (26 bp):
TCTGTTCTAGTGGCTCTGCCACAATA
Found at i:20399200 original size:6 final size:6
Alignment explanation
Indices: 20399191--20399278 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
20399181 TTGCATTCAC
* *
20399191 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
20399241 ATTCTG ATTCTA ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
20399279 AATGTTTCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:20399222 original size:25 final size:25
Alignment explanation
Indices: 20399194--20399257 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
20399184 CATTCACATT
*
20399194 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTGATA
*
20399219 CTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTGTCACCTGATA
*
20399244 CTGATTCTAATTCT
1 CTGATTCTGATTCT
20399258 CATTTTGATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTGATA
Done.