Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 65 of 362
Found at i:19796786 original size:4 final size:4
Alignment explanation
Indices: 19796779--19796804 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
19796769 CAATCCGATT
19796779 TTTG TTTG TTTG TTTG TTTG TTTG TT
1 TTTG TTTG TTTG TTTG TTTG TTTG TT
19796805 CTAAGACAAA
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:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (4 bp):
TTTG
Found at i:19805238 original size:18 final size:18
Alignment explanation
Indices: 19805211--19805325 Score: 56
Period size: 18 Copynumber: 6.1 Consensus size: 18
19805201 TGTGAGGATG
19805211 TTAC-ATATACTATATGA
1 TTACAATATACTATATGA
*
19805228 TTACAATATACACTATGTGA
1 TTACAATAT--ACTATATGA
* *
19805248 -TCCAAACATACTATATGA
1 TTAC-AATATACTATATGA
* *
19805266 TAATAATATTGTACTATATGA
1 TTACAATA---TACTATATGA
* * *
19805287 TCA-AAGTATACTACATTA
1 TTACAA-TATACTATATGA
19805305 TTACAATATACATTATATGA
1 TTACAATATAC--TATATGA
19805325 T
1 T
19805326 CAACACATAC
Statistics
Matches: 72, Mismatches: 14, Indels: 21
0.67 0.13 0.20
Matches are distributed among these distances:
17 4 0.06
18 30 0.42
19 4 0.06
20 20 0.28
21 14 0.19
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (18 bp):
TTACAATATACTATATGA
Found at i:19805259 original size:38 final size:37
Alignment explanation
Indices: 19805217--19805341 Score: 133
Period size: 38 Copynumber: 3.3 Consensus size: 37
19805207 GATGTTACAT
*
19805217 ATACTATATGATTACAATATACACTATGTGATCCAAAC
1 ATACTATATGATTACAATATACACTATATGAT-CAAAC
* * ** *
19805255 ATACTATATGATAATAATATTGTACTATATGATCAAAGT
1 ATACTATATGATTACAATA-TACACTATATGATCAAA-C
* * *
19805294 ATACTACATTATTACAATATACATTATATGATCAACAC
1 ATACTATATGATTACAATATACACTATATGATCAA-AC
19805332 ATACTATATG
1 ATACTATATG
19805342 CTAAACCCTA
Statistics
Matches: 68, Mismatches: 16, Indels: 6
0.76 0.18 0.07
Matches are distributed among these distances:
38 42 0.62
39 26 0.38
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.35
Consensus pattern (37 bp):
ATACTATATGATTACAATATACACTATATGATCAAAC
Found at i:19805463 original size:7 final size:7
Alignment explanation
Indices: 19805451--19805480 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
19805441 ATATATGATC
19805451 ATACCAT
1 ATACCAT
19805458 ATACCAT
1 ATACCAT
19805465 ATACCAT
1 ATACCAT
19805472 ATACCAT
1 ATACCAT
19805479 AT
1 AT
19805481 GATTACAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (7 bp):
ATACCAT
Found at i:19811949 original size:46 final size:46
Alignment explanation
Indices: 19811882--19812236 Score: 245
Period size: 46 Copynumber: 7.5 Consensus size: 46
19811872 TTTGTGTTCT
* *
19811882 AGTGTAAGACATGTCTGGGACATGCATCGGCAACAATATGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCATCAATATGAGAGCC
* * * * *
19811928 AGTGTAAGATATGTCTGGGACATGCATCAGCCTCGAGATATTTA-AGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCATC-A-ATA-TGAGAGCC
* ** * * *
19811976 AGTGTAAGACATGTCTAGGACATGCATCGGCGTTGAGACGAGAGCT
1 AGTGTAAGACATGTCTAGGACATGCATCGGCATCAATATGAGAGCC
* * *
19812022 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATA-GATAAGCT
1 AGTGTAAGACATGTCTAGGACATGCATCGGCATC-A-ATATGA-GAGCC
* * * ** * *
19812070 AGTGTAAGACCTGTCTAGGACATGGCGTCAGC-T-TGT-TGTA-TGTC
1 AGTGTAAGACATGTCTAGGACAT-GCATCGGCATCAATATG-AGAGCC
* * * * *
19812114 AGTGTAAGACCTATCTAGGACATGGCATCGACACCCATAGATGAGAGCC
1 AGTGTAAGACATGTCTAGGACAT-GCATCGGCA-TCA-ATATGAGAGCC
* * *
19812163 AGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCACTATATGAAAGCC
1 AGTGTAAGACATGTCTAGGACAT-GCATCGGCATCA--ATATGAGAGCC
*
19812212 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTAGGACATG
19812237 GCGTCAGCAT
Statistics
Matches: 245, Mismatches: 46, Indels: 33
0.76 0.14 0.10
Matches are distributed among these distances:
44 29 0.12
45 3 0.01
46 68 0.28
47 3 0.01
48 68 0.28
49 62 0.25
50 12 0.05
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCATCAATATGAGAGCC
Found at i:19812029 original size:94 final size:94
Alignment explanation
Indices: 19811882--19812093 Score: 289
Period size: 94 Copynumber: 2.3 Consensus size: 94
19811872 TTTGTGTTCT
* * * * *
19811882 AGTGTAAGACATGTCTGGGACATGCATCGGCAACAATATGAGAGCCAGTGTAAGATATGTCTGGG
1 AGTGTAAGACATGTCTAGGACATGCATCGGCAACAAGACGAGAGCCAGTGTAAGACATGTCTAGG
**
19811947 ACATGCATCAGCCTCGAGATATTTAAGCC
66 ACATGCATCAGCCTCGAGATAGATAAGCC
**** *
19811976 AGTGTAAGACATGTCTAGGACATGCATCGGCGTTGAGACGAGAGCTAGTGTAAGACATGTCTAGG
1 AGTGTAAGACATGTCTAGGACATGCATCGGCAACAAGACGAGAGCCAGTGTAAGACATGTCTAGG
* *
19812041 ACATGCATCGGCCTCGAGATAGATAAGCT
66 ACATGCATCAGCCTCGAGATAGATAAGCC
*
19812070 AGTGTAAGACCTGTCTAGGACATG
1 AGTGTAAGACATGTCTAGGACATG
19812094 GCGTCAGCTT
Statistics
Matches: 103, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
94 103 1.00
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.23
Consensus pattern (94 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCAACAAGACGAGAGCCAGTGTAAGACATGTCTAGG
ACATGCATCAGCCTCGAGATAGATAAGCC
Found at i:19812174 original size:49 final size:49
Alignment explanation
Indices: 19811971--19812238 Score: 175
Period size: 49 Copynumber: 5.6 Consensus size: 49
19811961 CGAGATATTT
* * ** *
19811971 AAGCCAGTGTAAGACATGTCTAGGACAT-GCATCG---GCGTTGAGACGA
1 AAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGACCCCACT-AGATGA
* * * * * *
19812017 GAGCTAGTGTAAGACATGTCTAGGACAT-GCATCG--GCCTCGAGATAGA
1 AAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGACCCCACTAGAT-GA
* * * * * *
19812064 TAAGCTAGTGTAAGACCTGTCTAGGACATGGCGTC-A----GCTTGTTGT
1 -AAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGACCCCACTAGATGA
* * *
19812109 ATGTCAGTGTAAGACCTATCTAGGACATGGCATCGACACCCA-TAGATGA
1 AAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGAC-CCCACTAGATGA
* * * *
19812158 GAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCACTATATGA
1 AAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGACCCCACTAGATGA
*
19812207 AAGCCAGTGTAAGACCATGTCTGGGACATGGC
1 AAGCCAGTGTAAGACC-TGTCTAGGACATGGC
19812239 GTCAGCATCT
Statistics
Matches: 176, Mismatches: 33, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
44 29 0.16
45 2 0.01
46 38 0.22
47 3 0.02
48 29 0.16
49 61 0.35
50 14 0.08
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (49 bp):
AAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGACCCCACTAGATGA
Found at i:19819726 original size:30 final size:31
Alignment explanation
Indices: 19819692--19819754 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
19819682 ATTTATTTTA
19819692 TTGTTAA-TTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTTCTTATTATTTTAGAA-GCAT
*
19819722 TTGTTAATTTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTTCTTATTATTTTAGAAGCAT
19819753 TT
1 TT
19819755 TCTTCTTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 7 0.23
31 21 0.70
32 2 0.07
ACGTcount: A:0.25, C:0.05, G:0.10, T:0.60
Consensus pattern (31 bp):
TTGTTAATTTTTCTTATTATTTTAGAAGCAT
Found at i:19822836 original size:43 final size:43
Alignment explanation
Indices: 19822786--19822872 Score: 124
Period size: 43 Copynumber: 2.0 Consensus size: 43
19822776 ATTTATGATT
* *
19822786 TCGATATGTGTTTACGA-GTAAGACCCTGTCTGGGACAG-TGGCA
1 TCGATATGTGGTTAC-ATGTAAGACCATGTCTGGGA-AGTTGGCA
19822829 TCGATATGTGGTTACATGTAAGACCATGTCTGGGAAGTTGGCA
1 TCGATATGTGGTTACATGTAAGACCATGTCTGGGAAGTTGGCA
19822872 T
1 T
19822873 TGTACGATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
42 3 0.08
43 37 0.93
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (43 bp):
TCGATATGTGGTTACATGTAAGACCATGTCTGGGAAGTTGGCA
Found at i:19827159 original size:20 final size:20
Alignment explanation
Indices: 19827134--19827190 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
19827124 AATACTATGA
*
19827134 ACCATTCCATTTACTTTCTT
1 ACCATTCCATTTACTTACTT
19827154 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* *
19827174 TCCATTTCATTTACTTA
1 ACCATTCCATTTACTTA
19827191 GTATAAACTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:19832053 original size:27 final size:27
Alignment explanation
Indices: 19832013--19832066 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
19832003 TAACGTTAGT
19832013 CCATCCTCACGTTCATGAACCCAAGTA
1 CCATCCTCACGTTCATGAACCCAAGTA
*
19832040 CCATCCTCATGTTCATGAACCCAAGTA
1 CCATCCTCACGTTCATGAACCCAAGTA
19832067 TAACAATAAC
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:0.30, C:0.35, G:0.11, T:0.24
Consensus pattern (27 bp):
CCATCCTCACGTTCATGAACCCAAGTA
Found at i:19833846 original size:17 final size:18
Alignment explanation
Indices: 19833817--19833851 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
19833807 AAAACTTGGT
19833817 TTTAAAGACTAATTAAAA
1 TTTAAAGACTAATTAAAA
19833835 TTTAAA-ACTAATTAAAA
1 TTTAAAGACTAATTAAAA
19833852 GTTGAATCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (18 bp):
TTTAAAGACTAATTAAAA
Found at i:19835394 original size:15 final size:16
Alignment explanation
Indices: 19835355--19835391 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
19835345 CAAACCCATT
19835355 AGGAAGGTGAAGAGCA
1 AGGAAGGTGAAGAGCA
*
19835371 A-GAAGGTGAAGAGGA
1 AGGAAGGTGAAGAGCA
19835386 AGGAAG
1 AGGAAG
19835392 TGATAAGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.46, C:0.03, G:0.46, T:0.05
Consensus pattern (16 bp):
AGGAAGGTGAAGAGCA
Found at i:19844014 original size:17 final size:18
Alignment explanation
Indices: 19843994--19844029 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
19843984 TAATCTTGTT
19843994 TTAATAAATTAATA-GCA
1 TTAATAAATTAATATGCA
19844011 TTAATAAATTAATATGCA
1 TTAATAAATTAATATGCA
19844029 T
1 T
19844030 ATATTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (18 bp):
TTAATAAATTAATATGCA
Found at i:19847453 original size:19 final size:19
Alignment explanation
Indices: 19847425--19847468 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
19847415 CTCATTCACA
*
19847425 TCTCTTCTCTTACAATTCT
1 TCTCTCCTCTTACAATTCT
* * *
19847444 TCTCTCCTCTTTCACTTTT
1 TCTCTCCTCTTACAATTCT
19847463 TCTCTC
1 TCTCTC
19847469 ATTTTCCCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.09, C:0.36, G:0.00, T:0.55
Consensus pattern (19 bp):
TCTCTCCTCTTACAATTCT
Found at i:19855185 original size:40 final size:40
Alignment explanation
Indices: 19855130--19855396 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
19855120 AACATTGGAT
19855130 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
19855170 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
19855210 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
19855250 CATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
19855290 TATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
19855330 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
19855370 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
19855397 ATGTGTTTGC
Statistics
Matches: 217, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:19857860 original size:40 final size:40
Alignment explanation
Indices: 19857695--19857880 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
19857685 TTGAATGATG
* * * *
19857695 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* *
19857735 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19857775 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19857815 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
19857855 TCCGGGTTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19857881 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 124 0.93
41 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:19857887 original size:40 final size:40
Alignment explanation
Indices: 19857695--19857913 Score: 214
Period size: 40 Copynumber: 5.5 Consensus size: 40
19857685 TTGAATGATG
* * * * * *
19857695 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTACGA-GTTACTAAA
**
19857735 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAA
** *
19857775 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAA
*
19857815 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
* * *
19857855 TCCGGGTTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTA-CTAAA
* *
19857895 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
19857914 TACGTGATTT
Statistics
Matches: 159, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 16 0.10
40 135 0.85
41 8 0.05
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
Found at i:19862707 original size:79 final size:81
Alignment explanation
Indices: 19862571--19862753 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
19862561 TCGAATGATG
* *
19862571 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTAGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
19862635 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
19862650 TTCCGGGCTAAG-CCCGAAGGCATTAGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTAGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
19862712 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
19862730 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
19862754 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTAGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:19862769 original size:40 final size:40
Alignment explanation
Indices: 19862572--19862755 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
19862562 CGAATGATGT
* * * *
19862572 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
19862612 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
19862652 CCGGGCTAAG-CCCGAAGGCATTAGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
19862690 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
19862731 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
19862756 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:19862777 original size:79 final size:79
Alignment explanation
Indices: 19862624--19862788 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
19862614 GGACTAAGAT
* **
19862624 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTAGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTAGAACGAGTTACTAA
*
19862689 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
19862703 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTAGAACGAGTTA-C
* *
19862766 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
19862782 CCGAAGG
1 CCGAAGG
19862789 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTAGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:19867467 original size:43 final size:43
Alignment explanation
Indices: 19867419--19867530 Score: 188
Period size: 43 Copynumber: 2.6 Consensus size: 43
19867409 ATTCAACGAA
*
19867419 ATCGCACACTTAGTGCCAATTAATTAGCTGACGCTATAATTGT
1 ATCGCACACTTAGTGCCAATTAATTAGCCGACGCTATAATTGT
*
19867462 ATCGCACACTTAGTGCCAATTAATTAGCCGAGGCTATAATTGT
1 ATCGCACACTTAGTGCCAATTAATTAGCCGACGCTATAATTGT
* *
19867505 ATCACACATTTAGTGCCAATTAATTA
1 ATCGCACACTTAGTGCCAATTAATTA
19867531 AACCGAACTT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (43 bp):
ATCGCACACTTAGTGCCAATTAATTAGCCGACGCTATAATTGT
Found at i:19868113 original size:21 final size:21
Alignment explanation
Indices: 19868069--19868113 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
19868059 TATTTCATTT
* *
19868069 ATTTACACTTTTAACCACTCA
1 ATTTACACTTTTAACAAATCA
* *
19868090 ATTTACACTTTTCACAAATTA
1 ATTTACACTTTTAACAAATCA
19868111 ATT
1 ATT
19868114 CGTTTTATGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTTACACTTTTAACAAATCA
Found at i:19872823 original size:40 final size:40
Alignment explanation
Indices: 19872779--19872854 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
19872769 TAGTGCAACA
*
19872779 TATAGCTGAAGCTATTCCAATTCGCACACTTAGTGTTATT
1 TATAGCTGAAGCTATTCCAAATCGCACACTTAGTGTTATT
*
19872819 TATAGCTGAAGCTATTTCAAATCGCACACTTAGTGT
1 TATAGCTGAAGCTATTCCAAATCGCACACTTAGTGT
19872855 CGAACGTAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.36
Consensus pattern (40 bp):
TATAGCTGAAGCTATTCCAAATCGCACACTTAGTGTTATT
Found at i:19881092 original size:52 final size:52
Alignment explanation
Indices: 19881014--19881118 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
19881004 ATTGTTATGG
19881014 CCATTTTTATAGCTCATGATTCATCACAATTCAATAGGCCATTATTTACGTC
1 CCATTTTTATAGCTCATGATTCATCACAATTCAATAGGCCATTATTTACGTC
*
19881066 CCATTTTTATAGTTCATGATTCATCACAATTCAATAGGCCATTATTTACGTC
1 CCATTTTTATAGCTCATGATTCATCACAATTCAATAGGCCATTATTTACGTC
19881118 C
1 C
19881119 ATCATTCTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.39
Consensus pattern (52 bp):
CCATTTTTATAGCTCATGATTCATCACAATTCAATAGGCCATTATTTACGTC
Found at i:19881102 original size:25 final size:25
Alignment explanation
Indices: 19881022--19881102 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
19881012 GGCCATTTTT
19881022 ATAGCTCATGATTCATCACAATTCA
1 ATAGCTCATGATTCATCACAATTCA
* * * * **
19881047 ATAGGC-CATTATTTACGTCCCATTTTT
1 ATA-GCTCATGA-TT-CATCACAATTCA
*
19881074 ATAGTTCATGATTCATCACAATTCA
1 ATAGCTCATGATTCATCACAATTCA
19881099 ATAG
1 ATAG
19881103 GCCATTATTT
Statistics
Matches: 39, Mismatches: 13, Indels: 8
0.65 0.22 0.13
Matches are distributed among these distances:
25 18 0.46
26 7 0.18
27 14 0.36
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (25 bp):
ATAGCTCATGATTCATCACAATTCA
Found at i:19889718 original size:42 final size:42
Alignment explanation
Indices: 19889672--19889785 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 42
19889662 TGTAATTTCA
* ** * **
19889672 TGTAAGACCATATTTGGGATATGGTGTTGATATGAGATTTTG
1 TGTAAGACCATGTTTGGGATATGGCATCGATATGAGATACTG
* * * *
19889714 TGTAAGACCATGTCTAGAATATGGCATCGATATGAGGTACTG
1 TGTAAGACCATGTTTGGGATATGGCATCGATATGAGATACTG
*
19889756 TGTAAGACCATGTTTGGGACATGGCATCGA
1 TGTAAGACCATGTTTGGGATATGGCATCGA
19889786 CACCAACATG
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTTTGGGATATGGCATCGATATGAGATACTG
Found at i:19890035 original size:30 final size:30
Alignment explanation
Indices: 19889999--19890055 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
19889989 AGTATGTACC
19889999 TAAACCTCATGAATATTGGACTCGATTACA
1 TAAACCTCATGAATATTGGACTCGATTACA
*
19890029 TAAACCTCATGAGTATTGGACTCGATT
1 TAAACCTCATGAATATTGGACTCGATT
19890056 CAGGTTAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (30 bp):
TAAACCTCATGAATATTGGACTCGATTACA
Found at i:19900287 original size:49 final size:48
Alignment explanation
Indices: 19900228--19900353 Score: 153
Period size: 48 Copynumber: 2.6 Consensus size: 48
19900218 ACGAGATCCC
* *
19900228 GTGTAAGACCATGTCTGGGACATGGCATTGGTTTTCGAGATAAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGTT-GAGATAAGAGCCA
* * ** *
19900277 GTGTAGGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGAGATAAGAGCCA
* * *
19900325 GTGTAAGACCATATCTGGGATATGACATC
1 GTGTAAGACCATGTCTGGGACATGGCATC
19900354 ATCATCGATA
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
48 34 0.52
49 32 0.48
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.28
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGAGATAAGAGCCA
Found at i:19900344 original size:48 final size:48
Alignment explanation
Indices: 19900228--19900398 Score: 148
Period size: 48 Copynumber: 3.5 Consensus size: 48
19900218 ACGAGATCCC
* * * * ** *
19900228 GTGTAAGACCATGTCTGGGACATGGCATTGGTTTTCGAGATAAGAGCCA
1 GTGTAAGACCATATCTGGGACATGGCATCGGTATT-GATATGTGTGCCA
* * *
19900277 GTGTAGGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTGCCA
1 GTGTAAGACCATATCTGGGACATGGCATCGGTATTGATATGTGTGCCA
* * * * **
19900325 GTGTAAGACCATATCTGGGATATGACATC-ATCATCGATATGTGATTTCA
1 GTGTAAGACCATATCTGGGACATGGCATCGGT-ATTGATATGTG-TGCCA
*
19900374 -TGTAAGACCATATCTGGGATATGGC
1 GTGTAAGACCATATCTGGGACATGGC
19900399 GTATATGAGA
Statistics
Matches: 103, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
47 1 0.01
48 67 0.65
49 35 0.34
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (48 bp):
GTGTAAGACCATATCTGGGACATGGCATCGGTATTGATATGTGTGCCA
Found at i:19900432 original size:40 final size:40
Alignment explanation
Indices: 19900361--19900438 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
19900351 ATCATCATCG
* *
19900361 ATATGTGATTTCATGTAAGACCATATCTGGGATATGGCGT
1 ATATGAGATTTCATGTAAGACCATATCTGGGACATGGCGT
* * * *
19900401 ATATGAGATTTCGTGTAAGACTATGTTTGGGACATGGC
1 ATATGAGATTTCATGTAAGACCATATCTGGGACATGGC
19900439 ATCGGCACCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.35
Consensus pattern (40 bp):
ATATGAGATTTCATGTAAGACCATATCTGGGACATGGCGT
Found at i:19900632 original size:21 final size:22
Alignment explanation
Indices: 19900606--19900646 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
19900596 ATTCAAGATT
19900606 ATGATTAAGAA-GTAGGGTAGA
1 ATGATTAAGAATGTAGGGTAGA
*
19900627 ATGATTAAGAATGTATGGTA
1 ATGATTAAGAATGTAGGGTA
19900647 CAGATATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.29
Consensus pattern (22 bp):
ATGATTAAGAATGTAGGGTAGA
Found at i:19913715 original size:46 final size:46
Alignment explanation
Indices: 19913662--19913837 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
19913652 TATTTGGGCA
*
19913662 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
19913708 TCCGAACTCGTTGAGTTGAGTCCAAG-T---TTGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--A--CG
* *
19913755 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
19913801 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19913838 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 2 0.02
46 59 0.56
47 25 0.24
48 2 0.02
50 5 0.05
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:19913811 original size:93 final size:93
Alignment explanation
Indices: 19913658--19913828 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
19913648 AGGATATTTG
* * *
19913658 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
19913723 TTGAGTCCAAGTTTGTGAGATGTAACTA
66 TTGAGTCCAAGTTTGTGAGATGTAACTA
* *
19913751 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
*
19913816 TTGAGTCCGAGTT
66 TTGAGTCCAAGTT
19913829 CGCTTATGGG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCAAGTTTGTGAGATGTAACTA
Found at i:19916866 original size:23 final size:23
Alignment explanation
Indices: 19916840--19916903 Score: 110
Period size: 25 Copynumber: 2.7 Consensus size: 23
19916830 TTTTTTTAGG
19916840 GGGTTAGGTTTTTTTTTTTTTTT
1 GGGTTAGGTTTTTTTTTTTTTTT
19916863 GGGTTAGGTTTTTTCTTTTTTTTTT
1 GGGTTAGG-TTTTT-TTTTTTTTTT
19916888 GGGTTAGGTTTTTTTT
1 GGGTTAGGTTTTTTTT
19916904 GGGGAGGGCT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
23 11 0.28
24 10 0.26
25 18 0.46
ACGTcount: A:0.05, C:0.02, G:0.23, T:0.70
Consensus pattern (23 bp):
GGGTTAGGTTTTTTTTTTTTTTT
Found at i:19917896 original size:72 final size:72
Alignment explanation
Indices: 19917760--19918379 Score: 936
Period size: 72 Copynumber: 8.5 Consensus size: 72
19917750 GTGATCTGAA
19917760 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
19917825 GTCTCGAG
65 GTCTCGAG
*
19917833 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
* *
19917898 TCCCAAG
66 TCTCGAG
* * * *
19917905 GATCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTGAAAAACAAAAATTGAAAATACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTG-AAAACAGAAATTGAAATTACCTCAG
* *
19917970 CATGTCTTGAG
62 CGTGTCTCGAG
19917981 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
19918046 GTCTCGAG
65 GTCTCGAG
*
19918054 GCTCAACTCACCTCTCGCAATATGAGTTGATTTATGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
*
19918119 TCTTGAG
66 TCTCGAG
* * * *
19918126 GCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATTGAAATTACCTCAGC
*
19918191 GTGTCTTGAG
63 GTGTCTCGAG
** * *
19918201 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
*
19918266 TCCCGAG
66 TCTCGAG
*
19918273 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGCAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
19918338 TC-CTGAG
66 TCTC-GAG
*
19918345 GCTCAACTCACCTCTCGCAGTATGAGTTGATTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
19918380 TTTTGAAACA
Statistics
Matches: 500, Mismatches: 39, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
71 1 0.00
72 264 0.53
73 99 0.20
74 15 0.03
75 63 0.13
76 58 0.12
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (72 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
TCTCGAG
Found at i:19918020 original size:221 final size:221
Alignment explanation
Indices: 19917760--19918387 Score: 1080
Period size: 221 Copynumber: 2.8 Consensus size: 221
19917750 GTGATCTGAA
19917760 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
*
19917825 GTCTCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAACAGAAATTGAAATTACC
66 GTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACC
** * * *
19917890 TCAGCGTGTCCCAAGGATCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTGAAAAACAAAAA
131 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTTGAAAAACAAAAA
*
19917955 TTGAAAATACCTCAGCATGTCTTGAG
196 TTGAAAATACCTCAACATGTCTTGAG
19917981 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
*
19918046 GTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTATGAAAACAGAAATTGAAATTACC
66 GTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACC
* *
19918111 TCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGA-TTTTTTTGAAAGACAAAAA
131 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTTGAAAAACAAAAA
*
19918175 TTGAAAATACCTCAACGTGTCTTGAG
196 TTGAAAATACCTCAACATGTCTTGAG
** * *
19918201 GCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAAAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
* *
19918265 GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGCAATTGAAATTACC
66 GTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACC
19918330 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTTTGAAA
131 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGA-TTTTTTTTGAAA
19918388 CAGAAATAAA
Statistics
Matches: 386, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
219 138 0.36
220 70 0.18
221 178 0.46
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (221 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
GTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACC
TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTTGAAAAACAAAAA
TTGAAAATACCTCAACATGTCTTGAG
Found at i:19932355 original size:39 final size:37
Alignment explanation
Indices: 19932312--19932388 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 37
19932302 TGGTTTCCTA
*
19932312 AATTCTTCATTCTTGC-TACTTGGCTTTGGATTAGTTCAT
1 AATTCTTCATTCTT-CATACTT-GCTTT-CATTAGTTCAT
*
19932351 AATTCTTCATTCTTCATTCTTGCTTTCATTAGTTCAT
1 AATTCTTCATTCTTCATACTTGCTTTCATTAGTTCAT
19932388 A
1 A
19932389 CTTTGGTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 11 0.31
38 6 0.17
39 18 0.51
ACGTcount: A:0.19, C:0.19, G:0.10, T:0.51
Consensus pattern (37 bp):
AATTCTTCATTCTTCATACTTGCTTTCATTAGTTCAT
Found at i:19948579 original size:21 final size:21
Alignment explanation
Indices: 19948555--19948603 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
19948545 ACTGTTTTCG
*
19948555 GTGTCATGACACACAAAGTCT
1 GTGTCACGACACACAAAGTCT
**
19948576 GTGTTGCGACACACAAAGTCT
1 GTGTCACGACACACAAAGTCT
*
19948597 ATGTCAC
1 GTGTCAC
19948604 AACATCGAGT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (21 bp):
GTGTCACGACACACAAAGTCT
Found at i:19953056 original size:27 final size:26
Alignment explanation
Indices: 19953008--19953067 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
19952998 ACGAGGCTGC
*
19953008 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
19953035 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
19953061 CAGATAT
1 CAGATAT
19953068 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:19966613 original size:37 final size:37
Alignment explanation
Indices: 19966570--19966666 Score: 115
Period size: 37 Copynumber: 2.6 Consensus size: 37
19966560 ATCCATCTGA
** *
19966570 AACACGCCAAATTCTCATAAGTTATAATCC-ACCCGAT
1 AACACGCCAAATTCTCATAAGAGATAA-CCTACCCAAT
* *
19966607 AACACGCCAAATGCTCATAAGAGCTAACCTACCCAAT
1 AACACGCCAAATTCTCATAAGAGATAACCTACCCAAT
* *
19966644 AACATGCCAAATTTTCATAAGAG
1 AACACGCCAAATTCTCATAAGAG
19966667 CTAATCTAGT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
36 2 0.04
37 49 0.96
ACGTcount: A:0.40, C:0.28, G:0.10, T:0.22
Consensus pattern (37 bp):
AACACGCCAAATTCTCATAAGAGATAACCTACCCAAT
Found at i:19966683 original size:37 final size:37
Alignment explanation
Indices: 19966600--19966691 Score: 112
Period size: 37 Copynumber: 2.5 Consensus size: 37
19966590 GTTATAATCC
*
19966600 ACCCGATAACACGCCAAATGCTCATAAGAGCTAACCT
1 ACCCGATAACATGCCAAATGCTCATAAGAGCTAACCT
* ** *
19966637 ACCCAATAACATGCCAAATTTTCATAAGAGCTAATCT
1 ACCCGATAACATGCCAAATGCTCATAAGAGCTAACCT
** *
19966674 AGTCGATAACATTCCAAA
1 ACCCGATAACATGCCAAA
19966692 ACAAGGACTA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.22
Consensus pattern (37 bp):
ACCCGATAACATGCCAAATGCTCATAAGAGCTAACCT
Found at i:19983364 original size:40 final size:38
Alignment explanation
Indices: 19983331--19983422 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 38
19983321 CTATGTTCGA
* *
19983331 CACTAAGTGTG-TGATTTGAAATAGCTTCGACTATAAATAG
1 CACTAAGTGTGCT-AATTGAAATAGCTTCGACTAT--ATTG
*
19983371 CACTAAGTGTGCTAATTGGAATAGCTTCGACTATATGTGG
1 CACTAAGTGTGCTAATTGAAATAGCTTCGACTATAT-T-G
19983411 CACTAAGTGTGC
1 CACTAAGTGTGC
19983423 AATATTGAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
38 2 0.04
40 43 0.93
41 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (38 bp):
CACTAAGTGTGCTAATTGAAATAGCTTCGACTATATTG
Found at i:19985823 original size:55 final size:56
Alignment explanation
Indices: 19985740--19985870 Score: 167
Period size: 55 Copynumber: 2.4 Consensus size: 56
19985730 GACCATGGCA
* * * **
19985740 TCGATA-ATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATTGATA-GTGGTT
1 TCGATATATGTGTGCGAGTAAAACCACGTTTAATACGTTGACATAGATATGTGACT
* *
19985794 TCGATATATGTGTACGAGTAAAACCACGTTTTATACGTTGACATAGATATGTGACT
1 TCGATATATGTGTGCGAGTAAAACCACGTTTAATACGTTGACATAGATATGTGACT
* *
19985850 CCGGTATATGTGTGCGAGTAA
1 TCGATATATGTGTGCGAGTAA
19985871 GACCTTATCT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 6 0.09
55 37 0.57
56 22 0.34
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAAACCACGTTTAATACGTTGACATAGATATGTGACT
Found at i:19991395 original size:42 final size:42
Alignment explanation
Indices: 19991329--19991442 Score: 106
Period size: 42 Copynumber: 2.7 Consensus size: 42
19991319 AAAATATACA
* * ** *
19991329 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAAAATCG
1 ATGCCAATGTCCCAGACAAGGTCTTACATGAAATCAAAAA-CG
* * * *
19991372 ATG-CAACTGTCCCA-ATAAGGTCTTACACGAAATCAGATACG
1 ATGCCAA-TGTCCCAGACAAGGTCTTACATGAAATCAAAAACG
*
19991413 ATGCCAATGTCCCAGACATGGTCTTACATG
1 ATGCCAATGTCCCAGACAAGGTCTTACATG
19991443 CAAAACAGAA
Statistics
Matches: 56, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
41 12 0.21
42 36 0.64
43 8 0.14
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAAGGTCTTACATGAAATCAAAAACG
Found at i:20002173 original size:24 final size:24
Alignment explanation
Indices: 20002141--20002192 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
20002131 GACGCCACAC
* * *
20002141 GGCCGTGTGGTATGCCATGTGGTA
1 GGCCATGTGGTAAGCCATATGGTA
20002165 GGCCATGTGGTAAGCCATATGGTA
1 GGCCATGTGGTAAGCCATATGGTA
20002189 GGCC
1 GGCC
20002193 GTATGCATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.17, C:0.19, G:0.38, T:0.25
Consensus pattern (24 bp):
GGCCATGTGGTAAGCCATATGGTA
Found at i:20002197 original size:12 final size:12
Alignment explanation
Indices: 20002141--20002192 Score: 68
Period size: 12 Copynumber: 4.3 Consensus size: 12
20002131 GACGCCACAC
*
20002141 GGCCGTGTGGTA
1 GGCCATGTGGTA
*
20002153 TGCCATGTGGTA
1 GGCCATGTGGTA
20002165 GGCCATGTGGTA
1 GGCCATGTGGTA
* *
20002177 AGCCATATGGTA
1 GGCCATGTGGTA
20002189 GGCC
1 GGCC
20002193 GTATGCATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.38, T:0.25
Consensus pattern (12 bp):
GGCCATGTGGTA
Found at i:20004776 original size:22 final size:22
Alignment explanation
Indices: 20004751--20004802 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
20004741 CAAGAAAAGG
20004751 AAATGAAAAAGCATAAAA-ATAA
1 AAATGAAAAAGCATAAAATA-AA
* ***
20004773 AAATTAAATTTCATAAAATAAA
1 AAATGAAAAAGCATAAAATAAA
20004795 AAATGAAA
1 AAATGAAA
20004803 CTTCCTACGT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.21
Consensus pattern (22 bp):
AAATGAAAAAGCATAAAATAAA
Found at i:20014381 original size:14 final size:14
Alignment explanation
Indices: 20014362--20014389 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
20014352 AATAAGTATG
20014362 TGTGAGTAATCATT
1 TGTGAGTAATCATT
20014376 TGTGAGTAATCATT
1 TGTGAGTAATCATT
20014390 GAGTGATATC
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:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (14 bp):
TGTGAGTAATCATT
Found at i:20014512 original size:16 final size:16
Alignment explanation
Indices: 20014491--20014526 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
20014481 GGCAAATCCT
20014491 GAAATGCCA-AAAAGCC
1 GAAATG-CAGAAAAGCC
20014507 GAAATGCAGAAAAGCC
1 GAAATGCAGAAAAGCC
20014523 GAAA
1 GAAA
20014527 GTTTGGCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 2 0.11
16 17 0.89
ACGTcount: A:0.53, C:0.19, G:0.22, T:0.06
Consensus pattern (16 bp):
GAAATGCAGAAAAGCC
Found at i:20014779 original size:29 final size:29
Alignment explanation
Indices: 20014737--20014860 Score: 196
Period size: 29 Copynumber: 4.3 Consensus size: 29
20014727 AAATCATGTT
20014737 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
20014766 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
* *
20014795 TACGAATGTGATTTGGGCCTAATGGGTCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
* *
20014824 TATGAATGAGA-TTGGGCCTAGTGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
*
20014852 TATGCATGT
1 TATGAATGT
20014861 ATGTAGACTT
Statistics
Matches: 87, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 22 0.25
29 65 0.75
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.31
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATGGGCCA
Found at i:20021769 original size:39 final size:39
Alignment explanation
Indices: 20021673--20021771 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
20021663 ATTCACTTTT
* * * **
20021673 AAGCATATATCACATTACACATATGATTACATAATGTTC
1 AAGCATATATCACAATACTCATATGATGACATAACATTC
* * *
20021712 AAGCACATATCGCAATACTCATAT-AGTGGCATAACATTC
1 AAGCATATATCACAATACTCATATGA-TGACATAACATTC
20021751 AAGCATATATCACAATACTCA
1 AAGCATATATCACAATACTCA
20021772 AAAATAGGTT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
38 1 0.02
39 48 0.98
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.28
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATGATGACATAACATTC
Found at i:20023418 original size:26 final size:26
Alignment explanation
Indices: 20023383--20023445 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
20023373 TTAGCTCTTA
* *
20023383 TGAGCATCCCGATTAAA-GGCTCTTCG
1 TGAGCTTCCCG-TTAAATGGATCTTCG
*
20023409 TGAGCTTCCCGTTAAATTGGATCTTTG
1 TGAGCTTCCCGTTAAA-TGGATCTTCG
20023436 TGAGCTTCCC
1 TGAGCTTCCC
20023446 TATAGTGCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.16
26 10 0.31
27 17 0.53
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.33
Consensus pattern (26 bp):
TGAGCTTCCCGTTAAATGGATCTTCG
Found at i:20023513 original size:23 final size:24
Alignment explanation
Indices: 20023459--20023547 Score: 65
Period size: 24 Copynumber: 3.7 Consensus size: 24
20023449 AGTGCTCGCT
* * *
20023459 TGAACTTTCTGATATTGGTTATTTG
1 TGAACTTCCCGATA-TGGTTCTTTG
* *
20023484 -GAGCTTCCCGATATGGTT-TTTT
1 TGAACTTCCCGATATGGTTCTTTG
* * *
20023506 TTAACTTCCCAATAAGGTTCTTTG
1 TGAACTTCCCGATATGGTTCTTTG
*
20023530 TGAACTTCCTGATTATGG
1 TGAACTTCCCGA-TATGG
20023548 CTCGGATGAC
Statistics
Matches: 48, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
22 3 0.06
23 19 0.40
24 22 0.46
25 4 0.08
ACGTcount: A:0.20, C:0.16, G:0.19, T:0.45
Consensus pattern (24 bp):
TGAACTTCCCGATATGGTTCTTTG
Found at i:20039949 original size:33 final size:33
Alignment explanation
Indices: 20039905--20039969 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
20039895 CTTGTTAGAT
* * * * *
20039905 ATTAGAGAATAACGATTAACGGAAAGATAAGAG
1 ATTAGAAAATAAAGATCAACGAAAAGACAAGAG
20039938 ATTAGAAAATAAAGATCAACGAAAAGACAAGA
1 ATTAGAAAATAAAGATCAACGAAAAGACAAGA
20039970 TTAGAGAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.57, C:0.08, G:0.20, T:0.15
Consensus pattern (33 bp):
ATTAGAAAATAAAGATCAACGAAAAGACAAGAG
Found at i:20048350 original size:21 final size:21
Alignment explanation
Indices: 20048311--20048351 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
20048301 TTAAATAGAG
*
20048311 TTTAAAATTCATAATTTATTT
1 TTTAAAATTCATAAATTATTT
20048332 TTTAAAATT-ATAAAATTATT
1 TTTAAAATTCAT-AAATTATT
20048352 AATTTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTAAAATTCATAAATTATTT
Found at i:20049495 original size:30 final size:30
Alignment explanation
Indices: 20049461--20049523 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
20049451 ACTTATGTTA
20049461 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
20049491 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
20049521 TTG
1 TTG
20049524 CTTGTTCAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:20051053 original size:19 final size:20
Alignment explanation
Indices: 20051029--20051066 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
20051019 TGTACCACCA
20051029 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
20051048 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
20051067 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:20051452 original size:46 final size:46
Alignment explanation
Indices: 20051289--20051461 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
20051279 TAACCCGCCC
* * *
20051289 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
* * * * *
20051335 TAAATGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCATCCA
* * *
20051383 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
20051428 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
20051462 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.56
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
Found at i:20051461 original size:93 final size:93
Alignment explanation
Indices: 20051294--20051464 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
20051284 CGCCCTAAGT
* *
20051294 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
* *
20051359 TGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* * *
20051387 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
20051452 CGAGCTCGGATGC
66 CGAGCTCGGATGC
20051465 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:20051919 original size:31 final size:30
Alignment explanation
Indices: 20051884--20051944 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
20051874 ATTTAATACG
20051884 AACTTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTT-AAAAAATTACACTTTTGCCCCTA
** *
20051915 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTAAAAAATTACACTTTTGCCCCTA
20051945 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTTAAAAAATTACACTTTTGCCCCTA
Found at i:20054537 original size:14 final size:14
Alignment explanation
Indices: 20054508--20054560 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
20054498 TCATAATGAC
20054508 TAATTAATTTAA-TT
1 TAATT-ATTTAATTT
20054522 TAA-TATTTTAATTT
1 TAATTA-TTTAATTT
*
20054536 TAATTATTTAATTA
1 TAATTATTTAATTT
*
20054550 TAATTAATTAA
1 TAATTATTTAA
20054561 ATAATAATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
12 1 0.03
13 6 0.18
14 25 0.74
15 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TAATTATTTAATTT
Found at i:20073463 original size:56 final size:56
Alignment explanation
Indices: 20073377--20073552 Score: 334
Period size: 56 Copynumber: 3.1 Consensus size: 56
20073367 ACAAGGGATG
*
20073377 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
20073433 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
20073489 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
*
20073545 ATGAGCAA
1 ATGGGCAA
20073553 TAAACTAATA
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 118 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:20074919 original size:40 final size:40
Alignment explanation
Indices: 20074681--20074905 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
20074671 TCGAATGATG
* * * *
20074681 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
20074721 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
20074761 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20074800 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
20074840 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
20074881 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20074906 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 119 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:20074927 original size:119 final size:119
Alignment explanation
Indices: 20074681--20074938 Score: 274
Period size: 119 Copynumber: 2.2 Consensus size: 119
20074671 TCGAATGATG
* *
20074681 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
** **
20074746 GTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
20074800 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
20074863 TTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
20074920 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
20074939 TACGTGATTT
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 82 0.71
120 31 0.27
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:20077099 original size:21 final size:20
Alignment explanation
Indices: 20077061--20077105 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
20077051 TTTGCCTAAT
20077061 ATGTGAATTGAATAAAATTGA
1 ATGTGAATTGAATAAAATT-A
** *
20077082 ATGTGAATTTTATCAAATTA
1 ATGTGAATTGAATAAAATTA
20077102 ATGT
1 ATGT
20077106 TAAATTCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.40
Consensus pattern (20 bp):
ATGTGAATTGAATAAAATTA
Found at i:20081022 original size:14 final size:15
Alignment explanation
Indices: 20080998--20081027 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
20080988 GGATATCAAA
20080998 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
20081013 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
20081027 A
1 A
20081028 AGTTAAATAC
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:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:20082137 original size:39 final size:40
Alignment explanation
Indices: 20082090--20082177 Score: 115
Period size: 39 Copynumber: 2.2 Consensus size: 40
20082080 CGTTTGAATG
20082090 AAAAACGCCACTAAAGAACGAGCATTAGCGGCGC-TTTTC
1 AAAAACGCCACTAAAGAACGAGCATTAGCGGCGCTTTTTC
* ** * * *
20082129 AAAAACGCCGCTAAAGATTGAGTATTAGTGGCGCTTTTTT
1 AAAAACGCCACTAAAGAACGAGCATTAGCGGCGCTTTTTC
20082169 AAAAACGCC
1 AAAAACGCC
20082178 GCTATATGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 29 0.69
40 13 0.31
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (40 bp):
AAAAACGCCACTAAAGAACGAGCATTAGCGGCGCTTTTTC
Found at i:20082409 original size:38 final size:40
Alignment explanation
Indices: 20082318--20082411 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
20082308 TAGCGGCACT
* *
20082318 TTTTTAAAAACGCCGCTATATGTACACCTTTAGTAGCGCT
1 TTTTAAAAAACGCCGCTATATGTACACCTTTAGTAGCGCG
* ** *
20082358 TTTTAGAAAACGCCGCTA-ATGCTTGATCTTTAGT-G-GCG
1 TTTTAAAAAACGCCGCTATATG-TACACCTTTAGTAGCGCG
20082396 TTTTAAAAAACGCCGC
1 TTTTAAAAAACGCCGC
20082412 AAAATAATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
38 17 0.37
39 4 0.09
40 25 0.54
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (40 bp):
TTTTAAAAAACGCCGCTATATGTACACCTTTAGTAGCGCG
Found at i:20082732 original size:49 final size:49
Alignment explanation
Indices: 20082679--20082826 Score: 287
Period size: 49 Copynumber: 3.0 Consensus size: 49
20082669 AATTGTAAAT
20082679 GAGATAGTATTAATTTTAAAATATTGAATTAATTATCATTATATTTTAG
1 GAGATAGTATTAATTTTAAAATATTGAATTAATTATCATTATATTTTAG
*
20082728 GAGATGGTATTAATTTTAAAATATTGAATTAATTATCATTATATTTTAG
1 GAGATAGTATTAATTTTAAAATATTGAATTAATTATCATTATATTTTAG
20082777 GAGATAGTATTAATTTTAAAATATTGAATTAATTATCATTATATTTTAG
1 GAGATAGTATTAATTTTAAAATATTGAATTAATTATCATTATATTTTAG
20082826 G
1 G
20082827 GTTTACGATA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 97 1.00
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (49 bp):
GAGATAGTATTAATTTTAAAATATTGAATTAATTATCATTATATTTTAG
Found at i:20082989 original size:29 final size:29
Alignment explanation
Indices: 20082955--20083017 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
20082945 AGGGGGGTTG
20082955 GGGTTTAAGGTTTAGGGGTTAAGGGTTAA
1 GGGTTTAAGGTTTAGGGGTTAAGGGTTAA
* * ** * *
20082984 GGGTTTATGTTTTATTGTTTAAGGTTTAA
1 GGGTTTAAGGTTTAGGGGTTAAGGGTTAA
20083013 GGGTT
1 GGGTT
20083018 AGGGGCTAGG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (29 bp):
GGGTTTAAGGTTTAGGGGTTAAGGGTTAA
Found at i:20084891 original size:40 final size:40
Alignment explanation
Indices: 20084715--20084937 Score: 229
Period size: 40 Copynumber: 5.6 Consensus size: 40
20084705 TCCTCGTTCA
* * * * *
20084715 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTACTAACTCGCACG
*
20084754 AATGCCTTCGGGACATAACCCGGATTTAAC-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTT-ACTAACTCGCACG
* *
20084794 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTACTAACTCGCACG
* *
20084834 AATGCCTTCGGGACTTAACCCGGATTTACTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTACTAACTCGCACG
* * * * * *
20084874 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTACTAAC-TCGCACG
* *
20084914 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
20084938 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 37 0.24
40 112 0.71
41 8 0.05
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTACTAACTCGCACG
Found at i:20091892 original size:43 final size:43
Alignment explanation
Indices: 20091844--20092028 Score: 316
Period size: 43 Copynumber: 4.3 Consensus size: 43
20091834 GGTCATAATT
* *
20091844 TTTAGCAGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACC
* *
20091887 TTTAGCGGCGTTTGTGGGATAAGCGCCGCTAACGGTCATGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACC
*
20091930 TTTAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGGTCATGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACC
*
20091973 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACC
20092016 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
20092029 TTTTCATAAA
Statistics
Matches: 135, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 135 1.00
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACC
Found at i:20100881 original size:3 final size:3
Alignment explanation
Indices: 20100873--20100907 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
20100863 TTAATCCCAA
*
20100873 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
20100908 CCCATATTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:20104000 original size:17 final size:18
Alignment explanation
Indices: 20103969--20104002 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20103959 GGTGATGGGT
*
20103969 GTTACAACAATAGCATAA
1 GTTACAACAAGAGCATAA
20103987 GTTA-AACAAGAGCATA
1 GTTACAACAAGAGCATA
20104003 CTAAGGAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.21
Consensus pattern (18 bp):
GTTACAACAAGAGCATAA
Found at i:20108670 original size:20 final size:20
Alignment explanation
Indices: 20108619--20108670 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
20108609 TGGCTTGCCT
*
20108619 ACACGGGCATGTCCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
* *
20108639 ACACAAGG-GTGTCCCTAGCC
1 ACAC-GGGCGTGTCCCAAGCC
20108659 ACACGGGCGTGT
1 ACACGGGCGTGT
20108671 GGCTCTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.23, C:0.35, G:0.29, T:0.13
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAGCC
Found at i:20119093 original size:13 final size:13
Alignment explanation
Indices: 20119075--20119102 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
20119065 CCTCGCCAGG
20119075 GACACGCCCGTGT
1 GACACGCCCGTGT
20119088 GACACGCCCGTGT
1 GACACGCCCGTGT
20119101 GA
1 GA
20119103 GTCGTGCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.36, G:0.32, T:0.14
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:20124370 original size:371 final size:371
Alignment explanation
Indices: 20123687--20124429 Score: 1432
Period size: 371 Copynumber: 2.0 Consensus size: 371
20123677 TGGTTTATCG
20123687 TGTGTTCTCGGCTTATGCGTCCGCCATTTATCTAGCTCCTCAATTTGTAGCCTTTGATCTTCATG
1 TGTGTTCTCGGCTTATGCGTCCGCCATTTATCTAGCTCCTCAATTTGTAGCCTTTGATCTTCATG
*
20123752 AATAGGTTCTCTACGATTGCCTGAGAATGGCTCATGTACTTCCTTTATTGCACGATATTGTCAGT
66 AATAGGTTCTCTACGATTGCCTGAGAATGGCTCATGTACTTCCTTTATTGCACGATAATGTCAGT
* *
20123817 TTTAGTAGAATGGTTTAGACGATTACCTTCAATTTCTGATGTATTTCCAGAATTTTGATCTTGAA
131 TTTAGTAGAATGGTTTAGACGATTACCTTCAATTTCTGATGTATTTCCAGAATTTCGAGCTTGAA
20123882 GGGTGATTGTTTCGTCTCCCACACGAAGTGTGAGCTCACCTGTGCCAACATCAATAATCATTTTA
196 GGGTGATTGTTTCGTCTCCCACACGAAGTGTGAGCTCACCTGTGCCAACATCAATAATCATTTTA
20123947 GCAGTTGCTAAAAAGGGCCGTCCTAAAATCAGAGGAGTGTTGCTATCCTCCTCTATGTCTAGAAC
261 GCAGTTGCTAAAAAGGGCCGTCCTAAAATCAGAGGAGTGTTGCTATCCTCCTCTATGTCTAGAAC
*
20124012 AATGAAGCCAACAGGAAATATAAATTTATCGATTTTAACTAGCACA
326 AATGAAGCCAACAGGAAACATAAATTTATCGATTTTAACTAGCACA
20124058 TGTGTTCTCGGCTTATGCGTCCGCCATTTATCTAGCTCCTCAATTTGTAGCCTTTGATCTTCATG
1 TGTGTTCTCGGCTTATGCGTCCGCCATTTATCTAGCTCCTCAATTTGTAGCCTTTGATCTTCATG
20124123 AATAGGTTCTCTACGATTGCCTGAGAATGGCTCATGTACTTCCTTTATTGCACGATAATGTCAGT
66 AATAGGTTCTCTACGATTGCCTGAGAATGGCTCATGTACTTCCTTTATTGCACGATAATGTCAGT
20124188 TTTAGTAGAATGGTTTAGACGATTACCTTCAATTTCTGATGTATTTCCAGAATTTCGAGCTTGAA
131 TTTAGTAGAATGGTTTAGACGATTACCTTCAATTTCTGATGTATTTCCAGAATTTCGAGCTTGAA
20124253 GGGTGATTGTTTCGTCTCCCACACGAAGTGTGAGCTCACCTGTGCCAACATCAATAATCATTTTA
196 GGGTGATTGTTTCGTCTCCCACACGAAGTGTGAGCTCACCTGTGCCAACATCAATAATCATTTTA
20124318 GCAGTTGCTAAAAAGGGCCGTCCTAAAATCAGAGGAGTGTTGCTATCCTCCTCTATGTCTAGAAC
261 GCAGTTGCTAAAAAGGGCCGTCCTAAAATCAGAGGAGTGTTGCTATCCTCCTCTATGTCTAGAAC
* *
20124383 AATGAAGTCAACGGGAAACATAAATTTATCGATTTTAACTAGCACA
326 AATGAAGCCAACAGGAAACATAAATTTATCGATTTTAACTAGCACA
20124429 T
1 T
20124430 CTTCAATAAT
Statistics
Matches: 366, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
371 366 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (371 bp):
TGTGTTCTCGGCTTATGCGTCCGCCATTTATCTAGCTCCTCAATTTGTAGCCTTTGATCTTCATG
AATAGGTTCTCTACGATTGCCTGAGAATGGCTCATGTACTTCCTTTATTGCACGATAATGTCAGT
TTTAGTAGAATGGTTTAGACGATTACCTTCAATTTCTGATGTATTTCCAGAATTTCGAGCTTGAA
GGGTGATTGTTTCGTCTCCCACACGAAGTGTGAGCTCACCTGTGCCAACATCAATAATCATTTTA
GCAGTTGCTAAAAAGGGCCGTCCTAAAATCAGAGGAGTGTTGCTATCCTCCTCTATGTCTAGAAC
AATGAAGCCAACAGGAAACATAAATTTATCGATTTTAACTAGCACA
Found at i:20126529 original size:16 final size:16
Alignment explanation
Indices: 20126508--20126538 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
20126498 TGGGATACGT
20126508 GTAAGGGGTGTTACAG
1 GTAAGGGGTGTTACAG
20126524 GTAAGGGGTGTTACA
1 GTAAGGGGTGTTACA
20126539 TTTAGTGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.42, T:0.26
Consensus pattern (16 bp):
GTAAGGGGTGTTACAG
Found at i:20132569 original size:42 final size:42
Alignment explanation
Indices: 20132477--20132574 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 42
20132467 ACCTAGATTA
*
20132477 TGTGTAAGACCATATCTAGGATATGGCATCATTATAAGATTT
1 TGTGTAAGACCATATCTAGGATATGGCATCATTATAAGATGT
* * * * * *
20132519 TGTTTAAGATCATGTCTGGGATGTGGCATCGA-TATGAGATGT
1 TGTGTAAGACCATATCTAGGATATGGCATC-ATTATAAGATGT
20132561 TGTGTAAGACCATA
1 TGTGTAAGACCATA
20132575 GCTGGGTTAT
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
42 44 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (42 bp):
TGTGTAAGACCATATCTAGGATATGGCATCATTATAAGATGT
Found at i:20134819 original size:14 final size:14
Alignment explanation
Indices: 20134800--20134829 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
20134790 ACCCCTTCAT
*
20134800 TCCCTCATTCATCA
1 TCCCTCATCCATCA
20134814 TCCCTCATCCATCA
1 TCCCTCATCCATCA
20134828 TC
1 TC
20134830 ATTCTTTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.47, G:0.00, T:0.33
Consensus pattern (14 bp):
TCCCTCATCCATCA
Found at i:20135591 original size:30 final size:30
Alignment explanation
Indices: 20135557--20135745 Score: 263
Period size: 30 Copynumber: 6.2 Consensus size: 30
20135547 AACCAAAATG
* * *
20135557 AGAATCAGAATTAGAATCAGTAACAGAATT
1 AGAATCAGAATCAGAATTAGTAACAGAATC
20135587 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
*
20135617 AGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
20135648 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
20135678 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
* * *
20135708 AAAATCAAAATCAGAATTACGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
20135739 AGAATCA
1 AGAATCA
20135746 AAATGTGAAT
Statistics
Matches: 142, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
29 1 0.01
30 96 0.68
31 45 0.32
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:20135657 original size:91 final size:91
Alignment explanation
Indices: 20135557--20135745 Score: 324
Period size: 91 Copynumber: 2.1 Consensus size: 91
20135547 AACCAAAATG
* * *
20135557 AGAATCAGAATTAGAATCAGTAACAGAATTAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAAAAT
* *
20135622 CAGAATCAGAATTAGGTGACAGAATC
66 CAAAATCAGAATTACGTGACAGAATC
*
20135648 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAAAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAAAAT
20135713 CAAAATCAGAATTACGTGACAGAATC
66 CAAAATCAGAATTACGTGACAGAATC
20135739 AGAATCA
1 AGAATCA
20135746 AAATGTGAAT
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 92 1.00
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (91 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAAAAT
CAAAATCAGAATTACGTGACAGAATC
Found at i:20135744 original size:6 final size:6
Alignment explanation
Indices: 20135557--20135724 Score: 150
Period size: 6 Copynumber: 27.8 Consensus size: 6
20135547 AACCAAAATG
* * *
20135557 AGAATC AGAATT AGAATC AGTAA-C AGAATT AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
20135605 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
20135654 AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC
* *
20135702 AGAATC AAAATC AAAATC AGAAT
1 AGAATC AGAATC AGAATC AGAAT
20135725 TACGTGACAG
Statistics
Matches: 133, Mismatches: 16, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
5 10 0.08
6 113 0.85
7 8 0.06
8 2 0.02
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:20135903 original size:27 final size:26
Alignment explanation
Indices: 20135866--20135931 Score: 96
Period size: 27 Copynumber: 2.5 Consensus size: 26
20135856 AGCATGGCTG
*
20135866 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
20135892 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
20135919 CCAGAATCAGATA
1 CCAGAA-CAGATA
20135932 ATGTTGCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 6 0.17
27 30 0.83
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:20135946 original size:27 final size:27
Alignment explanation
Indices: 20135890--20135947 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
20135880 GTGACAGAGT
* * *
20135890 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
*
20135917 CACCAGA-ATCAGATAATGTTGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
20135944 CACC
1 CACC
20135948 TAACAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:20136152 original size:22 final size:22
Alignment explanation
Indices: 20136104--20136162 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
20136094 GTAAATACGT
*
20136104 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
20136126 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
20136148 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
20136163 TAATAATGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:20136315 original size:27 final size:26
Alignment explanation
Indices: 20136250--20136332 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
20136240 TCGATCGGTC
* ** *
20136250 AACAGATATTGTGACAGAGTAACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
*
20136276 ATACAGATATTGTGGCAGAGCCACTAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
20136303 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
20136330 AAC
1 AAC
20136333 GCTTCCTCCG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 8 0.17
27 40 0.83
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:20136561 original size:27 final size:27
Alignment explanation
Indices: 20136531--20136726 Score: 248
Period size: 27 Copynumber: 7.3 Consensus size: 27
20136521 GGGGCAAAAT
* * *
20136531 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
20136558 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
20136585 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
20136612 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
20136639 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
20136666 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
20136693 GGAAAGTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
20136720 AGTAATT
1 GGTAATT
20136727 TCACAATCAA
Statistics
Matches: 143, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:20136767 original size:27 final size:27
Alignment explanation
Indices: 20136731--20137302 Score: 690
Period size: 27 Copynumber: 21.2 Consensus size: 27
20136721 GTAATTTCAC
*
20136731 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
20136758 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
20136785 AA-CTGAGGGTAAACCAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
20136812 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20136839 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * * **
20136866 AATTGAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
20136893 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
20136920 AATCGAGGGTAAAAC-ATGAATTCTATA
1 AATCGAGGGTAAAACGGT-AATTCTGTA
**
20136947 AA-CTGAGGGTAAAATAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
20136974 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20137001 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
20137028 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* ** *
20137055 AATCAAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20137082 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * *
20137109 AATCAAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20137136 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20137163 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
20137190 AATAGAGGATAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20137217 AA-CTGAGGGTAAAAAGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
20137244 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20137271 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20137298 AATCG
1 AATCG
20137303 GGAGTACTTT
Statistics
Matches: 473, Mismatches: 58, Indels: 28
0.85 0.10 0.05
Matches are distributed among these distances:
26 7 0.01
27 460 0.97
28 6 0.01
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:20139593 original size:39 final size:39
Alignment explanation
Indices: 20139399--20139600 Score: 332
Period size: 39 Copynumber: 5.2 Consensus size: 39
20139389 GGACTTTAGC
* * * *
20139399 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
20139438 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
20139477 CCGGATATAATTCCAGCACATAGCCTACGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
* *
20139516 TCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
20139555 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
20139594 CTGGATA
1 CCGGATA
20139601 CACAGCAAAT
Statistics
Matches: 152, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 152 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:20148985 original size:28 final size:28
Alignment explanation
Indices: 20148953--20149034 Score: 119
Period size: 28 Copynumber: 2.9 Consensus size: 28
20148943 CACACACTGT
*
20148953 CATTGCTGTCGCACGTCATTGTCACCGC
1 CATTGCTGTCGCACGTCGTTGTCACCGC
**
20148981 CATTGCTGTCGCACGTCGTTGTCATTGC
1 CATTGCTGTCGCACGTCGTTGTCACCGC
* *
20149009 CATTGCTATCGCACGTTGTTGTCACC
1 CATTGCTGTCGCACGTCGTTGTCACC
20149035 ACCTCACACT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.13, C:0.32, G:0.22, T:0.33
Consensus pattern (28 bp):
CATTGCTGTCGCACGTCGTTGTCACCGC
Found at i:20154571 original size:39 final size:40
Alignment explanation
Indices: 20154527--20154672 Score: 161
Period size: 40 Copynumber: 3.7 Consensus size: 40
20154517 CCTTCGGAGT
** * *
20154527 TTAG-CCGGATATAGCCACTAGCTCAAACGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
* * *
20154566 TTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGAGAC
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
* * *
20154606 TTAGCCCGG-TATAATAACTCGCACAAATGCCTTTGGGAC
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
* * *
20154645 TTAGCCCGGATATAATAGCTCGCACAAA
1 TTAGCCCGGATATAGTAACTAGCACAAA
20154673 CGCCCGGATA
Statistics
Matches: 93, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 39 0.42
40 54 0.58
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
Found at i:20154599 original size:40 final size:39
Alignment explanation
Indices: 20154550--20154672 Score: 174
Period size: 40 Copynumber: 3.1 Consensus size: 39
20154540 GCCACTAGCT
* * *
20154550 CAAACGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
*
20154590 CAAATGCCTTCGAGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
* *
20154629 CAAATGCCTTTGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
20154669 CAAA
1 CAAA
20154673 CGCCCGGATA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
39 35 0.47
40 40 0.53
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
Found at i:20162598 original size:39 final size:40
Alignment explanation
Indices: 20162481--20162665 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
20162471 GCTACTCGTT
*
20162481 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
20162521 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
20162561 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * * *
20162600 CAAATGCCTT-TGGATATTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
20162641 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20162666 CATCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 74 0.61
41 13 0.11
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:20162625 original size:79 final size:82
Alignment explanation
Indices: 20162481--20162665 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 82
20162471 GCTACTCGTT
* * * *
20162481 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGAATTAACCCG
* *
20162545 GATTTAGTAAC-TCGCA
66 GATATAGTAACTTAGCA
* * **
20162561 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTT-TGGATATTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-ATTAACCC
* *
20162623 GGATATGGTCACTTAGCA
65 GGATATAGTAACTTAGCA
20162641 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20162666 CATCATTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 52 0.58
80 34 0.38
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGAATTAACCCG
GATATAGTAACTTAGCA
Found at i:20170827 original size:41 final size:41
Alignment explanation
Indices: 20170782--20170988 Score: 292
Period size: 41 Copynumber: 5.1 Consensus size: 41
20170772 AAAGCCTAGT
* *
20170782 ATAATACACTGGCATAGAGCCTGCTAGGCAATAGGCCTGAA
1 ATAATACACTGGCATAAAGCCTGCTAGGCAATAAGCCTGAA
* **
20170823 ATAATACGCCAGCATAAAGCCTGCTAGGCAATAAGCCTGAA
1 ATAATACACTGGCATAAAGCCTGCTAGGCAATAAGCCTGAA
* *
20170864 ATAATACACCGGCATAAAGCCTGCTAGGCAATAAGCCTGAT
1 ATAATACACTGGCATAAAGCCTGCTAGGCAATAAGCCTGAA
* *
20170905 ATAATTCACTGGCATAAAGCCTGCTAGGCAATAAGCCTGAT
1 ATAATACACTGGCATAAAGCCTGCTAGGCAATAAGCCTGAA
* *
20170946 ATAATTCACTGGCATAAAGCTTGCTAGGC-ATAAAGCCT-AA
1 ATAATACACTGGCATAAAGCCTGCTAGGCAAT-AAGCCTGAA
20170986 ATA
1 ATA
20170989 TCACTGATAC
Statistics
Matches: 153, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
40 6 0.04
41 147 0.96
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (41 bp):
ATAATACACTGGCATAAAGCCTGCTAGGCAATAAGCCTGAA
Found at i:20188852 original size:41 final size:41
Alignment explanation
Indices: 20188807--20189020 Score: 243
Period size: 41 Copynumber: 5.3 Consensus size: 41
20188797 GTATTAAAAG
20188807 GAAGGGCTTTTGAGCCAGTGTCATAATCCGAGCTTGGTCTC
1 GAAGGGCTTTTGAGCCAGTGTCATAATCCGAGCTTGGTCTC
* * * * *
20188848 GAAGGGCTTTTGAGCCAGTGTCATAA-CTGAACCTAGTTTC
1 GAAGGGCTTTTGAGCCAGTGTCATAATCCGAGCTTGGTCTC
* * * * *
20188888 AAAAGGCTTTCGGGCCAATGTCATAATCCGAGCTTGGTCTC
1 GAAGGGCTTTTGAGCCAGTGTCATAATCCGAGCTTGGTCTC
* * * *
20188929 GAAGGGCTTTTGAGCCAGTGTCATAA-CCGAACCTAGTTTC
1 GAAGGGCTTTTGAGCCAGTGTCATAATCCGAGCTTGGTCTC
* * * * *
20188969 GAAGGGCCTTTGGGCCAATGTCATAATCAGAGCTTGATCTC
1 GAAGGGCTTTTGAGCCAGTGTCATAATCCGAGCTTGGTCTC
20189010 GAAGGGCTTTT
1 GAAGGGCTTTT
20189021 TGAGTCAGCG
Statistics
Matches: 137, Mismatches: 34, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
40 63 0.46
41 74 0.54
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (41 bp):
GAAGGGCTTTTGAGCCAGTGTCATAATCCGAGCTTGGTCTC
Found at i:20188910 original size:40 final size:40
Alignment explanation
Indices: 20188807--20188994 Score: 196
Period size: 40 Copynumber: 4.7 Consensus size: 40
20188797 GTATTAAAAG
* * * * *
20188807 GAAGGGCTTTTGAGCCAGTGTCATAATCCGAGCTTGGTCTC
1 GAAGGGCTTTTGAGCCAATGTCATAA-CCGAACCTAGTTTC
* *
20188848 GAAGGGCTTTTGAGCCAGTGTCATAACTGAACCTAGTTTC
1 GAAGGGCTTTTGAGCCAATGTCATAACCGAACCTAGTTTC
* * * * * * * *
20188888 AAAAGGCTTTCGGGCCAATGTCATAATCCGAGCTTGGTCTC
1 GAAGGGCTTTTGAGCCAATGTCATAA-CCGAACCTAGTTTC
*
20188929 GAAGGGCTTTTGAGCCAGTGTCATAACCGAACCTAGTTTC
1 GAAGGGCTTTTGAGCCAATGTCATAACCGAACCTAGTTTC
* *
20188969 GAAGGGCCTTTGGGCCAATGTCATAA
1 GAAGGGCTTTTGAGCCAATGTCATAA
20188995 TCAGAGCTTG
Statistics
Matches: 119, Mismatches: 27, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
40 63 0.53
41 56 0.47
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
GAAGGGCTTTTGAGCCAATGTCATAACCGAACCTAGTTTC
Found at i:20188946 original size:81 final size:80
Alignment explanation
Indices: 20188815--20189020 Score: 331
Period size: 81 Copynumber: 2.5 Consensus size: 80
20188805 AGGAAGGGCT
* * *
20188815 TTTGAGCCAGTGTCATAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAACTGAAC
1 TTTGGGCCAATGTCATAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAACCGAAC
20188880 CTAGTTTCAAAAGGC
66 CTAGTTTCAAAAGGC
20188895 TTTCGGGCCAATGTCATAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAACCGAA
1 TTT-GGGCCAATGTCATAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAACCGAA
* *
20188960 CCTAGTTTCGAAGGGCC
65 CCTAGTTTCAAAAGG-C
* *
20188977 TTTGGGCCAATGTCATAATCAGAGCTTGATCTCGAAGGGCTTTT
1 TTTGGGCCAATGTCATAATCCGAGCTTGGTCTCGAAGGGCTTTT
20189021 TGAGTCAGCG
Statistics
Matches: 117, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
80 3 0.03
81 110 0.94
82 4 0.03
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (80 bp):
TTTGGGCCAATGTCATAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAACCGAAC
CTAGTTTCAAAAGGC
Found at i:20195742 original size:41 final size:41
Alignment explanation
Indices: 20195697--20195910 Score: 252
Period size: 41 Copynumber: 5.3 Consensus size: 41
20195687 GTATTAAAAG
20195697 GAAGGGCTTTTGAGCCAGTGTCATAATCCGAGCTTAGTCTC
1 GAAGGGCTTTTGAGCCAGTGTCATAATCCGAGCTTAGTCTC
* * * *
20195738 GAAGGGCTTTTGAGCTAGTGTCATAA-CCGAACCTAGTTTC
1 GAAGGGCTTTTGAGCCAGTGTCATAATCCGAGCTTAGTCTC
* * * * * *
20195778 GAAGGGCCTTCGGGCCAATGTCATAATTCGAGCTTGGTCTC
1 GAAGGGCTTTTGAGCCAGTGTCATAATCCGAGCTTAGTCTC
* * * *
20195819 GAAGGGATTTTGAGCCAGTGTCATAAT-CGAACCTAGTTTC
1 GAAGGGCTTTTGAGCCAGTGTCATAATCCGAGCTTAGTCTC
* * * *
20195859 GAAGGGCCTTTGGGCCAATGTCATAATCCGAGCTTGGTCTC
1 GAAGGGCTTTTGAGCCAGTGTCATAATCCGAGCTTAGTCTC
20195900 GAAGGGCTTTT
1 GAAGGGCTTTT
20195911 TGAGTCAGCG
Statistics
Matches: 139, Mismatches: 32, Indels: 4
0.79 0.18 0.02
Matches are distributed among these distances:
40 64 0.46
41 75 0.54
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (41 bp):
GAAGGGCTTTTGAGCCAGTGTCATAATCCGAGCTTAGTCTC
Found at i:20195832 original size:81 final size:81
Alignment explanation
Indices: 20195710--20195910 Score: 339
Period size: 81 Copynumber: 2.5 Consensus size: 81
20195700 GGGCTTTTGA
* * *
20195710 GCCAGTGTCATAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCTAGTGTCATAACCGAACCTAGT
1 GCCAATGTCATAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAACCGAACCTAGT
20195775 TTCGAAGGGCCTTCGG
66 TTCGAAGGGCCTTCGG
* * *
20195791 GCCAATGTCATAATTCGAGCTTGGTCTCGAAGGGATTTTGAGCCAGTGTCATAATCGAACCTAGT
1 GCCAATGTCATAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAACCGAACCTAGT
*
20195856 TTCGAAGGGCCTTTGG
66 TTCGAAGGGCCTTCGG
20195872 GCCAATGTCATAATCCGAGCTTGGTCTCGAAGGGCTTTT
1 GCCAATGTCATAATCCGAGCTTGGTCTCGAAGGGCTTTT
20195911 TGAGTCAGCG
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
81 111 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (81 bp):
GCCAATGTCATAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAACCGAACCTAGT
TTCGAAGGGCCTTCGG
Found at i:20201660 original size:25 final size:25
Alignment explanation
Indices: 20201604--20201661 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
20201594 GAATACTCTT
**
20201604 ATGAGCTTCCTGTTATACAACATGG
1 ATGAGCTTCCTGTTATACAACATAC
*
20201629 ATAAGCTTCCTGTTATACAAC-TCAC
1 ATGAGCTTCCTGTTATACAACAT-AC
20201654 ATGAGCTT
1 ATGAGCTT
20201662 TCCATTGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCTGTTATACAACATAC
Found at i:20202174 original size:45 final size:45
Alignment explanation
Indices: 20202068--20202200 Score: 223
Period size: 44 Copynumber: 3.0 Consensus size: 45
20202058 TTATATGAAC
**
20202068 TTACTAAGCATTAAATGCTTACTCTATTTCATTTCCTTCATTTTT
1 TTACTAAGCATTAAATGCTTACTCTATTTCATTTCCTTTGTTTTT
20202113 TT-CTAAGCATTAAATGCTTACTCTATTTCATTTCCTTTGTTTTT
1 TTACTAAGCATTAAATGCTTACTCTATTTCATTTCCTTTGTTTTT
* *
20202157 TTACTAAGCATTCAATGCTTACTTTATTTCATTTCCTTTGTTTT
1 TTACTAAGCATTAAATGCTTACTCTATTTCATTTCCTTTGTTTT
20202201 ATAGTACTTT
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
44 42 0.51
45 41 0.49
ACGTcount: A:0.22, C:0.19, G:0.06, T:0.53
Consensus pattern (45 bp):
TTACTAAGCATTAAATGCTTACTCTATTTCATTTCCTTTGTTTTT
Found at i:20212103 original size:15 final size:15
Alignment explanation
Indices: 20212079--20212108 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20212069 CTAATGTATT
20212079 TTTTGAGGTTTCGGC
1 TTTTGAGGTTTCGGC
*
20212094 TTTTGTGGTTTCGGC
1 TTTTGAGGTTTCGGC
20212109 ACAAGTGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.33, T:0.50
Consensus pattern (15 bp):
TTTTGAGGTTTCGGC
Found at i:20214116 original size:16 final size:16
Alignment explanation
Indices: 20214095--20214125 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20214085 CATTTCAACA
20214095 ATGTTACGAAAACATG
1 ATGTTACGAAAACATG
*
20214111 ATGTTATGAAAACAT
1 ATGTTACGAAAACAT
20214126 ATACCATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (16 bp):
ATGTTACGAAAACATG
Found at i:20216853 original size:43 final size:43
Alignment explanation
Indices: 20216806--20216889 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
20216796 AAATCATATA
*
20216806 ACAATGCCAATGTCCCAAACATGGTTTTACACGTAATCACAAT
1 ACAATGCCAATGTCCCAAACATGGTCTTACACGTAATCACAAT
** *
20216849 ACAATGCCAATGTCCCAGGCATGGTCTTACATGTAATCACA
1 ACAATGCCAATGTCCCAAACATGGTCTTACACGTAATCACA
20216890 TCTCGGTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (43 bp):
ACAATGCCAATGTCCCAAACATGGTCTTACACGTAATCACAAT
Found at i:20223789 original size:5 final size:5
Alignment explanation
Indices: 20223779--20223819 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
20223769 TCTCTTGAAC
*
20223779 TTTTA TTTTA TTTTA -TTTA TGTTA TTTTA TTTTA TTGTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA T
20223820 AAAAACCCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
4 4 0.12
5 24 0.75
6 4 0.12
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:20223803 original size:14 final size:14
Alignment explanation
Indices: 20223780--20223810 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
20223770 CTCTTGAACT
*
20223780 TTTATTTTATTTTA
1 TTTATGTTATTTTA
20223794 TTTATGTTATTTTA
1 TTTATGTTATTTTA
20223808 TTT
1 TTT
20223811 TATTGTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (14 bp):
TTTATGTTATTTTA
Found at i:20226774 original size:20 final size:20
Alignment explanation
Indices: 20226745--20226792 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
20226735 CCCGCCCATA
*
20226745 AACGAACTCGGACTCAACTC
1 AACGAGCTCGGACTCAACTC
20226765 AACGAGCTCGGACTCAACTC
1 AACGAGCTCGGACTCAACTC
20226785 AACGAGCT
1 AACGAGCT
20226793 TGGATGCCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.19, T:0.15
Consensus pattern (20 bp):
AACGAGCTCGGACTCAACTC
Found at i:20231841 original size:40 final size:39
Alignment explanation
Indices: 20231777--20231987 Score: 255
Period size: 40 Copynumber: 5.3 Consensus size: 39
20231767 TCTTCGGAAT
* *
20231777 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
*
20231816 TTAGCCCGGATATATCAACTCGCACAAATGCCTTC-GGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
20231855 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
20231895 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
20231935 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
20231975 TTAGCCCGGATAT
1 TTAGCCCGGATAT
20231988 CATTCAAATG
Statistics
Matches: 146, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
39 41 0.28
40 102 0.70
41 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:20231903 original size:79 final size:80
Alignment explanation
Indices: 20231777--20231987 Score: 336
Period size: 79 Copynumber: 2.7 Consensus size: 80
20231767 TCTTCGGAAT
* * * * *
20231777 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
20231841 AAATGCCTTC-GGTC
66 AAATGCCTTCGGGTC
* *
20231855 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
20231920 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
20231935 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
20231988 CATTCAAATG
Statistics
Matches: 121, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
78 4 0.03
79 63 0.52
80 54 0.45
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:20239905 original size:40 final size:39
Alignment explanation
Indices: 20239841--20240051 Score: 246
Period size: 40 Copynumber: 5.3 Consensus size: 39
20239831 TCTTCGGAAT
* *
20239841 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
*
20239880 TTAGCCCGGATATATCAACTCGCACAAATGCCTTC-GGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
20239919 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
20239959 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * * *
20239999 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCAGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
20240039 TTAGCCCGGATAT
1 TTAGCCCGGATAT
20240052 CATTCAAATG
Statistics
Matches: 145, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
39 41 0.28
40 101 0.70
41 3 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:20239967 original size:79 final size:80
Alignment explanation
Indices: 20239841--20240051 Score: 327
Period size: 79 Copynumber: 2.7 Consensus size: 80
20239831 TCTTCGGAAT
* * * * *
20239841 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
20239905 AAATGCCTTC-GGTC
66 AAATGCCTTCGGGTC
* *
20239919 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
20239984 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
20239999 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCAGGACTTAGCCCGGATAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
20240052 CATTCAAATG
Statistics
Matches: 120, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 4 0.03
79 63 0.52
80 53 0.44
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:20249494 original size:39 final size:39
Alignment explanation
Indices: 20249412--20249674 Score: 327
Period size: 39 Copynumber: 6.6 Consensus size: 39
20249402 ACCCAAGTAT
* *
20249412 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGC-ACTAGCACAAATGC
* **
20249451 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATG-
1 CTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATGC
20249490 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATGC
20249530 CTTCGGGACTTAGCCCGG-TATAGCACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCACTA---GCACAAATGC
*
20249571 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGC-ACTA---GCACAAATGC
* *
20249614 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATGC
20249654 CTTC-GGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
20249675 CATCCGAATA
Statistics
Matches: 204, Mismatches: 11, Indels: 18
0.88 0.05 0.08
Matches are distributed among these distances:
38 5 0.02
39 69 0.34
40 52 0.25
41 29 0.14
42 6 0.03
43 43 0.21
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
CTTCGGGACTTAGCCCGGATATAGCACTAGCACAAATGC
Found at i:20255089 original size:14 final size:14
Alignment explanation
Indices: 20255055--20255083 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
20255045 AATAGATTTA
20255055 ACTATACTAAAATG
1 ACTATACTAAAATG
20255069 ACTATACTAAAATG
1 ACTATACTAAAATG
20255083 A
1 A
20255084 TCATACATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.28
Consensus pattern (14 bp):
ACTATACTAAAATG
Found at i:20257897 original size:20 final size:20
Alignment explanation
Indices: 20257872--20257912 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
20257862 TAGTGGTATC
20257872 AGAGCCAGGTTCAAGACTCG
1 AGAGCCAGGTTCAAGACTCG
20257892 AGAGCCAGGTTCAAGACTCG
1 AGAGCCAGGTTCAAGACTCG
20257912 A
1 A
20257913 CTGTGAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.24, G:0.29, T:0.15
Consensus pattern (20 bp):
AGAGCCAGGTTCAAGACTCG
Found at i:20260302 original size:40 final size:40
Alignment explanation
Indices: 20260228--20260449 Score: 358
Period size: 40 Copynumber: 5.6 Consensus size: 40
20260218 AACCCAAGTA
* * *
20260228 CCTTCGGGATTTAG-CTGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
20260267 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
20260307 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
20260347 CCTTCGGGACTTAGCTCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
20260387 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
20260427 CCTTCGGGACTTAGCCCGTATAT
1 CCTTCGGGACTTAGCCCGGATAT
20260450 CATTCGAATA
Statistics
Matches: 171, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 12 0.07
40 158 0.92
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:20268740 original size:48 final size:48
Alignment explanation
Indices: 20268684--20269003 Score: 292
Period size: 48 Copynumber: 6.7 Consensus size: 48
20268674 TGATATGTGT
* *
20268684 GCCAGTGTAAAACCATGTCTGGGACATGGCGTCGGCCACGATGTGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATGTGAGA
* * * * *
20268732 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCGATGTTGTGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATGTGAGA
* * * * * * *
20268780 GCTAGTGTAAGACCATGTGTGGGACATGGCATCAG-CATTGATATGTGC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATGTGAGA
** * * **
20268828 GATAGTGTAAGACGATGTCTGGGACATGGCATCGGCCACAACATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATGTGAGA
* * * * *
20268876 GCCAATGTAAGACCATGT-TGGAATATGGCATCGG-CATTGA-GACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATG-TGAGA
* *
20268923 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGT-A-A
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACG--ATGTGAGA
* *
20268971 GCCAGTGTAAGACCATGTTTGGAACATGGCATC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
20269004 AGTAATTCAC
Statistics
Matches: 218, Mismatches: 45, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
46 2 0.01
47 36 0.17
48 174 0.80
49 4 0.02
50 1 0.00
51 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATGTGAGA
Found at i:20268943 original size:95 final size:95
Alignment explanation
Indices: 20268728--20269005 Score: 333
Period size: 95 Copynumber: 2.9 Consensus size: 95
20268718 GCCACGATGT
* * * * * *** *
20268728 GAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCGATGTTGTGAGAGCTAGTGTAAGAC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGACATGAGAGCCAGTGTAAGAC
* * *
20268793 CATGTGTGGGACATGGCATCAGCATTGATAT
66 CATGT-TGGAACATGGCATCAGCATTGAGAC
* * * * * *
20268824 GTGCGATAGTGTAAGACGATGTCTGGGACATGGCATCGGCCACAACATGAGAGCCAATGTAAGAC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGACATGAGAGCCAGTGTAAGAC
* *
20268889 CATGTTGGAATATGGCATCGGCATTGAGAC
66 CATGTTGGAACATGGCATCAGCATTGAGAC
*
20268919 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTA-AGCCAGTGTAAGA
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGACATG-AGAGCCAGTGTAAGA
20268983 CCATGTTTGGAACATGGCATCAG
65 CCATG-TTGGAACATGGCATCAG
20269006 TAATTCACCC
Statistics
Matches: 151, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
95 80 0.53
96 71 0.47
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (95 bp):
GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGACATGAGAGCCAGTGTAAGAC
CATGTTGGAACATGGCATCAGCATTGAGAC
Done.