Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold12
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: 2382857
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.28
Warning! 280777 characters in sequence are not A, C, G, or T
File 10 of 12
Found at i:1935676 original size:33 final size:33
Alignment explanation
Indices: 1935612--1935745 Score: 216
Period size: 33 Copynumber: 4.1 Consensus size: 33
1935602 CCTTAACTGT
* * * *
1935612 TTGTATCGATACA-CACAATATGTATCAATACA
1 TTGTATTGATACATCCCAAAATGTATCGATACA
1935644 TTGTATTGATACATCCCAAAATGTATCGATACA
1 TTGTATTGATACATCCCAAAATGTATCGATACA
1935677 TTGTATTGATACATCCCAAAATGTATCGATACA
1 TTGTATTGATACATCCCAAAATGTATCGATACA
*
1935710 TTGTATTGATACATCCCAAAATGTATTGATACA
1 TTGTATTGATACATCCCAAAATGTATCGATACA
1935743 TTG
1 TTG
1935746 GCTTGTAACG
Statistics
Matches: 96, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
32 12 0.12
33 84 0.88
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (33 bp):
TTGTATTGATACATCCCAAAATGTATCGATACA
Found at i:1935736 original size:20 final size:20
Alignment explanation
Indices: 1935645--1935743 Score: 82
Period size: 20 Copynumber: 5.7 Consensus size: 20
1935635 ATCAATACAT
1935645 TGTATTGATACATCCCAAAA
1 TGTATTGATACATCCCAAAA
*
1935665 TGTATCGATACAT-------
1 TGTATTGATACATCCCAAAA
1935678 TGTATTGATACATCCCAAAA
1 TGTATTGATACATCCCAAAA
*
1935698 TGTATCGATACAT-------
1 TGTATTGATACATCCCAAAA
1935711 TGTATTGATACATCCCAAAA
1 TGTATTGATACATCCCAAAA
1935731 TGTATTGATACAT
1 TGTATTGATACAT
1935744 TGGCTTGTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 28
0.66 0.04 0.30
Matches are distributed among these distances:
13 24 0.39
20 37 0.61
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (20 bp):
TGTATTGATACATCCCAAAA
Found at i:1935763 original size:10 final size:10
Alignment explanation
Indices: 1935745--1935779 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
1935735 TTGATACATT
*
1935745 GGCTTGTAAC
1 GGCTAGTAAC
1935755 GGCTAGTAAC
1 GGCTAGTAAC
*
1935765 GACTAGTAAC
1 GGCTAGTAAC
1935775 GGCTA
1 GGCTA
1935780 TATTTTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (10 bp):
GGCTAGTAAC
Found at i:1937009 original size:34 final size:34
Alignment explanation
Indices: 1936946--1937011 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
1936936 GTTTTCCAGA
*
1936946 TTGTATCGATACAATGAAATTTATATGATACAAT
1 TTGTATCGATACAATGAAATGTATATGATACAAT
*
1936980 TTGTATTGATACAAT-ATTAATGTAT-TGATACA
1 TTGTATCGATACAATGA--AATGTATATGATACA
1937012 TTTCTCCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 1 0.04
34 21 0.75
35 6 0.21
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (34 bp):
TTGTATCGATACAATGAAATGTATATGATACAAT
Found at i:1939397 original size:20 final size:20
Alignment explanation
Indices: 1939372--1939417 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
1939362 TATTTCTATG
*
1939372 GATACACATTAAAATGTATT
1 GATACACATTAAAATGTATC
* **
1939392 GATACATATTGCAATGTATC
1 GATACACATTAAAATGTATC
1939412 GATACA
1 GATACA
1939418 ATGTATCGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
GATACACATTAAAATGTATC
Found at i:1939421 original size:13 final size:13
Alignment explanation
Indices: 1939403--1939430 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1939393 ATACATATTG
1939403 CAATGTATCGATA
1 CAATGTATCGATA
1939416 CAATGTATCGATA
1 CAATGTATCGATA
1939429 CA
1 CA
1939431 CCTTGCAATG
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:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1939429 original size:33 final size:33
Alignment explanation
Indices: 1939384--1939450 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
1939374 TACACATTAA
* *
1939384 AATGTATTGATACATATTGCAATGTATCGATAC
1 AATGTATCGATACACATTGCAATGTATCGATAC
*
1939417 AATGTATCGATACACCTTGCAATGTATCGATAC
1 AATGTATCGATACACATTGCAATGTATCGATAC
1939450 A
1 A
1939451 GGGCATTGGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (33 bp):
AATGTATCGATACACATTGCAATGTATCGATAC
Found at i:1939550 original size:20 final size:19
Alignment explanation
Indices: 1939498--1939557 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
1939488 CACATATAAG
*
1939498 AATGTCTCGATACAATTCCAT
1 AATGTATCGATAC-A-TCCAT
*
1939519 AATGTATTGATACATCCAT
1 AATGTATCGATACATCCAT
*
1939538 AATTGTATCGATACCTCCAT
1 AA-TGTATCGATACATCCAT
1939558 CTCGTCATCA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 7 0.21
20 16 0.47
21 11 0.32
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (19 bp):
AATGTATCGATACATCCAT
Found at i:1941857 original size:16 final size:16
Alignment explanation
Indices: 1941836--1941866 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1941826 TTTCATGATC
1941836 TATGAAATTATGCTTT
1 TATGAAATTATGCTTT
*
1941852 TATGAAATTGTGCTT
1 TATGAAATTATGCTT
1941867 ATACTTTTAT
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:0.29, C:0.06, G:0.16, T:0.48
Consensus pattern (16 bp):
TATGAAATTATGCTTT
Found at i:1942621 original size:21 final size:20
Alignment explanation
Indices: 1942595--1942652 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
1942585 ACACATATAG
1942595 GAATGTATCGATACAATTCCA
1 GAATGTATCGATACAATT-CA
1942616 GAATGTATCGATAC-A-TCA
1 GAATGTATCGATACAATTCA
*
1942634 TAATTGTATCGATACAATT
1 GAA-TGTATCGATACAATT
1942653 AGCCCAATGG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 4 0.12
19 12 0.36
20 2 0.06
21 15 0.45
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (20 bp):
GAATGTATCGATACAATTCA
Found at i:1944229 original size:28 final size:27
Alignment explanation
Indices: 1944145--1944230 Score: 68
Period size: 28 Copynumber: 3.1 Consensus size: 27
1944135 AACTTTGATT
* * ** *
1944145 AATAAATAAGAAAGATCGAGGAAGTGA
1 AATAAACAAGAAATATAAAGGAAGAGA
1944172 AATAAACAAGAAATATAAATGGAA-ACGA
1 AATAAACAAGAAATATAAA-GGAAGA-GA
*
1944200 AATAAGA-ATGAAATATCAAAGGAAGAGA
1 AATAA-ACAAGAAATAT-AAAGGAAGAGA
1944228 AAT
1 AAT
1944231 CAATGAAAAG
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
27 15 0.31
28 28 0.58
29 5 0.10
ACGTcount: A:0.60, C:0.05, G:0.20, T:0.15
Consensus pattern (27 bp):
AATAAACAAGAAATATAAAGGAAGAGA
Found at i:1944409 original size:50 final size:49
Alignment explanation
Indices: 1944308--1944436 Score: 174
Period size: 50 Copynumber: 2.7 Consensus size: 49
1944298 TTTAAGATGG
* * *
1944308 AAAAGGGTTATAATACTAGAACAC---TTTTTTTATGGATGATGAACAGC
1 AAAA-GGTTAAAACACTAGAACACTTTTTTTTTTATGGATGATGAACAAC
*
1944355 AAAAGGTTAGAACACTAGAACACTTTTTTTTATTATGGATGATGAACAAC
1 AAAAGGTTAAAACACTAGAACACTTTTTTTT-TTATGGATGATGAACAAC
*
1944405 AAAAGTTTAAAACACTAGAACACTTTTTTTTT
1 AAAAGGTTAAAACACTAGAACACTTTTTTTTT
1944437 GCTTTTTTTT
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
46 17 0.23
47 4 0.05
49 6 0.08
50 46 0.63
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.34
Consensus pattern (49 bp):
AAAAGGTTAAAACACTAGAACACTTTTTTTTTTATGGATGATGAACAAC
Found at i:1945155 original size:317 final size:315
Alignment explanation
Indices: 1944556--1945181 Score: 921
Period size: 316 Copynumber: 2.0 Consensus size: 315
1944546 CCAAATAATA
* * * * *
1944556 GAATCTTAGGCTAAAATCACAACCTAAAACACGATTGGATTGAATTAGACCTCTAGGATCATCTC
1 GAATCTTAGGCTAAAATCACAACCTAAAACACGATTAGATGGAATTAGACCCCAAAGATCATCTC
* * * * *
1944621 CAAAGTTAAGCAAAGAGAACTTGACCCCAATCAATCCTATTGATTAAAACCAAAGTTATAACAAT
66 CAAAATCAAACAAAGAGAACTTGACCCCAATCAAACCTATTGAGTAAAACCAAAGTTATAACAAT
* * *
1944686 CTTGATCGCCACAAGTTCCCTTGATAAGATCAATTTAAGTTCTTTTTAAAGAACAAAGAAGAAGT
131 CTTGATCACCACAAGTTACCTTGATAAGATCAATTTAAGTTCTTTTTAAAGAACAAAAAAGAAGT
* * * *
1944751 TCTCACTAAGTGAAGAAACTCTCAAGATATTTTTTTCTATTCAAATCTGTTGAATTACATGAATG
196 TCTCACAAAGTAAAGAAACTCTCAAAATATTTTTCTCTATTCAAATCTGTTGAATTACATGAATG
* * *
1944816 AGATAGCCTTTTATAAGCCTAAAATCTGTAGAGTCTTAACTAAACAAGGTAATGT
261 AAACAGCCTTTTATAAGCCTAAAATCTGTAGAGTCCTAACTAAACAAGGTAATGT
* *
1944871 GAATCTTAGGCTAAAAATTACAACCTAAAAC-CTGATTAGATGGAATTGGACCCCAAAGATCATC
1 GAATCTTAGGCT-AAAATCACAACCTAAAACAC-GATTAGATGGAATTAGACCCCAAAGATCATC
* ** * * *
1944935 TTCAAAATCAAATGAAGAGAACTTGACCCCAATCAAACTTGTTGAGTAGAACCAAAGTTATAACA
64 TCCAAAATCAAACAAAGAGAACTTGACCCCAATCAAACCTATTGAGTAAAACCAAAGTTATAACA
* **
1945000 ATCTTGATCACCATAAGTTACCTTGATAAGATCAATTTGGGTTCTTATTTAAAGAACAAAAAAGA
129 ATCTTGATCACCACAAGTTACCTTGATAAGATCAATTTAAGTTCTT-TTTAAAGAACAAAAAAGA
1945065 AGTTCTCACAAAGTAAAGAAACTCTCAAAATATTTTTCTCTATTCAAATCTGTTGAATTACATGA
193 AGTTCTCACAAAGTAAAGAAACTCTCAAAATATTTTTCTCTATTCAAATCTGTTGAATTACATGA
* *
1945130 ATGAAACATCCTTTTATAGGCCTAAAATCTGTAGAGTCCTAACTAAACAAGG
258 ATGAAACAGCCTTTTATAAGCCTAAAATCTGTAGAGTCCTAACTAAACAAGG
1945182 ACTCTTCTAT
Statistics
Matches: 275, Mismatches: 33, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
315 13 0.05
316 137 0.50
317 125 0.45
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (315 bp):
GAATCTTAGGCTAAAATCACAACCTAAAACACGATTAGATGGAATTAGACCCCAAAGATCATCTC
CAAAATCAAACAAAGAGAACTTGACCCCAATCAAACCTATTGAGTAAAACCAAAGTTATAACAAT
CTTGATCACCACAAGTTACCTTGATAAGATCAATTTAAGTTCTTTTTAAAGAACAAAAAAGAAGT
TCTCACAAAGTAAAGAAACTCTCAAAATATTTTTCTCTATTCAAATCTGTTGAATTACATGAATG
AAACAGCCTTTTATAAGCCTAAAATCTGTAGAGTCCTAACTAAACAAGGTAATGT
Found at i:1946664 original size:69 final size:69
Alignment explanation
Indices: 1946553--1946760 Score: 407
Period size: 69 Copynumber: 3.0 Consensus size: 69
1946543 CCATCCAAGG
1946553 TTGATTTGGCACAGGTAAAAGTGTGTATAAACCATGTGGCATTACTTTAGATTTTACTTGTTTAC
1 TTGATTTGGCACAGGTAAAAGTGTGTATAAACCATGTGGCATTACTTTAGATTTTACTTGTTTAC
1946618 ATGT
66 ATGT
1946622 TTGATTTGGCACAGGTAAAAGTGTGTATAAACCATGTGGCATTACTTTAGATTTTACTTGTTTAC
1 TTGATTTGGCACAGGTAAAAGTGTGTATAAACCATGTGGCATTACTTTAGATTTTACTTGTTTAC
1946687 ATGT
66 ATGT
*
1946691 TTGATTTGGCACAGGTAAAAGTGTGTATAAACCATATGGCATTACTTTAGATTTTACTTGTTTAC
1 TTGATTTGGCACAGGTAAAAGTGTGTATAAACCATGTGGCATTACTTTAGATTTTACTTGTTTAC
1946756 ATGT
66 ATGT
1946760 T
1 T
1946761 ATACATTTAT
Statistics
Matches: 138, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 138 1.00
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.41
Consensus pattern (69 bp):
TTGATTTGGCACAGGTAAAAGTGTGTATAAACCATGTGGCATTACTTTAGATTTTACTTGTTTAC
ATGT
Found at i:1948176 original size:13 final size:13
Alignment explanation
Indices: 1948158--1948182 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1948148 CATTTTATGG
1948158 TGTATCGATACAA
1 TGTATCGATACAA
1948171 TGTATCGATACA
1 TGTATCGATACA
1948183 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1948181 original size:33 final size:32
Alignment explanation
Indices: 1948135--1948202 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
1948125 CGTTACAAGC
* **
1948135 CAATGTATTGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTAT-GTGTATCGATA
*
1948168 CAATGTATCGATACATACTGTGTGTATCGATA
1 CAATGTATCGATACATACTATGTGTATCGATA
1948200 CAA
1 CAA
1948203 GTTTAGCTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 14 0.45
33 17 0.55
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
CAATGTATCGATACATACTATGTGTATCGATA
Found at i:1948280 original size:20 final size:20
Alignment explanation
Indices: 1948255--1948305 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
1948245 ATTCTTTTCA
1948255 TGTATCGATACAATGAAATC
1 TGTATCGATACAATGAAATC
* * *
1948275 TGTATCGATACATTTAAATG
1 TGTATCGATACAATGAAATC
1948295 TGTATCGATAC
1 TGTATCGATAC
1948306 TTTTCAGGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:1956500 original size:28 final size:29
Alignment explanation
Indices: 1956468--1956539 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 29
1956458 AAAAAAGATC
* *
1956468 AAGGAAATGAAATCAA-CACGAAACATGA
1 AAGGAAATGAAATCAAGCAAGAAACATCA
**
1956496 AAGGAAATGAAAT-AAGCAAGAAATTTCA
1 AAGGAAATGAAATCAAGCAAGAAACATCA
*
1956524 AAGGAAAAGAAATCAA
1 AAGGAAATGAAATCAA
1956540 TAAAGAAGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.05
28 33 0.89
29 2 0.05
ACGTcount: A:0.60, C:0.10, G:0.18, T:0.12
Consensus pattern (29 bp):
AAGGAAATGAAATCAAGCAAGAAACATCA
Found at i:1958034 original size:19 final size:20
Alignment explanation
Indices: 1958010--1958062 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
1958000 CATTATGCTT
**
1958010 TGTATCGATACATGTTC-AC
1 TGTATCGATACATGGACAAC
*
1958029 TGTATCGATACATGGACAAT
1 TGTATCGATACATGGACAAC
1958049 TGTATCGATACATG
1 TGTATCGATACATG
1958063 AGATTGGCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATGGACAAC
Found at i:1958130 original size:13 final size:13
Alignment explanation
Indices: 1958112--1958137 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1958102 CATGGGACAA
1958112 TGTATCGATACAT
1 TGTATCGATACAT
1958125 TGTATCGATACAT
1 TGTATCGATACAT
1958138 GCTGGAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1958151 original size:33 final size:32
Alignment explanation
Indices: 1958091--1958157 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 32
1958081 CTATCACTAT
*
1958091 TTGTATCGATACATGGGACAATGTATCGATACA
1 TTGTATCGATACATGGGA-AATATATCGATACA
1958124 TTGTATCGATACATGCTGG-AATATATCGATACA
1 TTGTATCGATACATG--GGAAATATATCGATACA
1958157 T
1 T
1958158 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
35 2 0.06
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGGGAAATATATCGATACA
Found at i:1962050 original size:61 final size:59
Alignment explanation
Indices: 1961912--1962381 Score: 406
Period size: 61 Copynumber: 7.8 Consensus size: 59
1961902 TTATTATTCT
* * *
1961912 TGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCA-CAAGTCAG
1 TGGCAC-CCTTTCAAAG-CCACACAAGTCAGTGGC-ACTCTTTTCAAAGCCCACCAAGTCAG
* * *
1961973 TGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCACCCCTTTCAAAGCCCACGCAAGTTAG
1 TGGCACCCTTTCAAAG-CCACACAAGTCAGTGGCACTCTTTTCAAAGCCCAC-CAAGTCAG
* *
1962034 CGGCACCCTTTCAAAGCC-CACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAA-TCGG
1 TGGCACCCTTTCAAAGCCACACAAGTCAGTGGCACTCTTTTCAAAGCCCAC-C-AAGTCAG
* * *
1962093 TGGCAACTCTTTTCAAAGCC-CACAAGTCAGTGGCACCCCTTTCAAAGCCCA-CAAGTCAG
1 TGGC-AC-CCTTTCAAAGCCACACAAGTCAGTGGCACTCTTTTCAAAGCCCACCAAGTCAG
** * * * *
1962152 TGGCACATTTTCAAAACC-CACAAGTCAGTGGCATTTTTTTCAAAGCTCA-CAAGTCAG
1 TGGCACCCTTTCAAAGCCACACAAGTCAGTGGCACTCTTTTCAAAGCCCACCAAGTCAG
* * * * *
1962209 TGACACTCTTTTCAAAGCCCACACAAGTCGGTAGCAACTCTTTTCAAAGCCCACACAAATCAG
1 TGGCAC-CCTTTCAAAG-CCACACAAGTCAGTGGC-ACTCTTTTCAAAGCCCAC-CAAGTCAG
* * * *
1962272 TGGCA-CCTTTCCAAAGCCA-ACAAGTTAGTGGCACCCTTTT-AAATCCCA-CAAG-CTAA
1 TGGCACCCTTT-CAAAGCCACACAAGTCAGTGGCACTCTTTTCAAAGCCCACCAAGTC-AG
* * * * *
1962328 TGGTAACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAGGCCCA
1 TGG-CAC-CCTTTCAAAG-CCACACAAGTCAGTGGC-ACTCTTTTCAAAGCCCA
1962382 TATAAGTTAG
Statistics
Matches: 338, Mismatches: 50, Indels: 41
0.79 0.12 0.10
Matches are distributed among these distances:
55 1 0.00
56 7 0.02
57 50 0.15
58 24 0.07
59 75 0.22
60 63 0.19
61 96 0.28
62 11 0.03
63 11 0.03
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (59 bp):
TGGCACCCTTTCAAAGCCACACAAGTCAGTGGCACTCTTTTCAAAGCCCACCAAGTCAG
Found at i:1962128 original size:120 final size:118
Alignment explanation
Indices: 1961912--1962364 Score: 479
Period size: 120 Copynumber: 3.8 Consensus size: 118
1961902 TTATTATTCT
* * *
1961912 TGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGC
1 TGGCAC-CCTTTCAAAGCCCACA--AGTCAGTGGC-ACTCTTTTCAAAGCCCACAAATCAGTGGC
* *
1961977 AC-CCTTTCAAAGCCCACACAAGTCAGTGGCACCCCTTTCAAAGCCCACGCAAGTTAG
62 ACTCTTTTCAAAGCCCACACAAGTCAGTGGCACCCCTTTCAAAGCCCAC-CAAGTCAG
* *
1962034 CGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAATCGGTGGCAA
1 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA--AATCAGTGGC-A
1962099 CTCTTTTCAAAG-CC-CACAAGTCAGTGGCACCCCTTTCAAAGCCCA-CAAGTCAG
63 CTCTTTTCAAAGCCCACACAAGTCAGTGGCACCCCTTTCAAAGCCCACCAAGTCAG
** * * * * * *
1962152 TGGCACATTTTCAAAACCCACAAGTCAGTGGCATTTTTTTCAAAGCTCACAAGTCAGTGACACTC
1 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTC
* * * * *
1962217 TTTTCAAAGCCCACACAAGTCGGTAGCAACTCTTTTCAAAGCCCACACAAATCAG
66 TTTTCAAAGCCCACACAAGTCAGTGGC-ACCCCTTTCAAAGCCCAC-CAAGTCAG
* * * * * * *
1962272 TGGCA-CCTTTCCAAAGCCAACAAGTTAGTGGCACCCTTTT-AAATCCCAC-AAGCTAATGGTAA
1 TGGCACCCTTT-CAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATC-AGTGG-CA
* *
1962334 CTCTTTTCAAAGCCCACACGAGTCGGTGGCA
63 CTCTTTTCAAAGCCCACACAAGTCAGTGGCA
1962365 ACTCTTTTCA
Statistics
Matches: 280, Mismatches: 39, Indels: 27
0.81 0.11 0.08
Matches are distributed among these distances:
115 13 0.05
116 9 0.03
117 12 0.04
118 87 0.31
119 23 0.08
120 103 0.37
121 19 0.07
122 14 0.05
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (118 bp):
TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTC
TTTTCAAAGCCCACACAAGTCAGTGGCACCCCTTTCAAAGCCCACCAAGTCAG
Found at i:1962141 original size:90 final size:88
Alignment explanation
Indices: 1961912--1962381 Score: 477
Period size: 90 Copynumber: 5.2 Consensus size: 88
1961902 TTATTATTCT
* * *
1961912 TGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGC
1 TGGCACTCTTTTCAAAGCCCACA--AGTCAGTGGC-ACCCCTTTCAAAGCCCACAAGTCAGTGGC
*
1961977 AC-CCTTTCAAAGCCCACACAAGTCAG
63 ACTCTTTTCAAAGCCCACACAA-TCAG
* * * *
1962003 TGGCACCCCTTTCAAAGCCCACGCAAGTTAGCGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 TGGCACTCTTTTCAAAGCCCA--CAAGTCAGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCA
*
1962067 CTCTTTTCAAAGCCCACACGAATCGG
64 CTCTTTTCAAAGCCCACAC-AATCAG
1962093 TGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCAC
1 TGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
1962158 -ATTTTCAAAACCCACA-AGTCAG
65 TCTTTTCAAAGCCCACACAATCAG
* * * * * * * *
1962180 TGGCATTTTTTTCAAAGCTCACAAGTCAGTGACACTCTTTTCAAAGCCCACACAAGTCGGTAGCA
1 TGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCCTTTCAAAG-CC-CACAAGTCAGTGGC-
1962245 ACTCTTTTCAAAGCCCACACAAATCAG
63 ACTCTTTTCAAAGCCCACAC-AATCAG
* * * * * * *
1962272 TGGCAC-CTTTCCAAAGCCAACAAGTTAGTGGCA-CCCTTTTAAATCCCACAAG-CTAATGGTAA
1 TGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCACAAGTC-AGTGG-CA
* *
1962334 CTCTTTTCAAAGCCCACACGAGTCGG
64 CTCTTTTCAAAGCCCACAC-AATCAG
*
1962360 TGGCAACTCTTTTCAAGGCCCA
1 TGGC-ACTCTTTTCAAAGCCCA
1962382 TATAAGTTAG
Statistics
Matches: 314, Mismatches: 49, Indels: 33
0.79 0.12 0.08
Matches are distributed among these distances:
86 36 0.11
87 11 0.04
88 48 0.15
89 58 0.18
90 85 0.27
91 64 0.20
92 10 0.03
93 2 0.01
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (88 bp):
TGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCACT
CTTTTCAAAGCCCACACAATCAG
Found at i:1962395 original size:32 final size:32
Alignment explanation
Indices: 1961912--1962396 Score: 417
Period size: 29 Copynumber: 16.2 Consensus size: 32
1961902 TTATTATTCT
* *
1961912 TGGC-ACTCTTTTCAAAGCCCACACGAGTCGG
1 TGGCAACTCTTTTCAAAGCCCACACAAGTCAG
1961943 TGGCAACTCTTTTCAAAG-CC-CACAAGTCAG
1 TGGCAACTCTTTTCAAAGCCCACACAAGTCAG
*
1961973 TGGC-AC-CCTTTCAAAGCCCACACAAGTCAG
1 TGGCAACTCTTTTCAAAGCCCACACAAGTCAG
* * * *
1962003 TGGC-ACCCCTTTCAAAGCCCACGCAAGTTAG
1 TGGCAACTCTTTTCAAAGCCCACACAAGTCAG
* *
1962034 CGGC-AC-CCTTTCAAAG-CC-CACAAGTCAG
1 TGGCAACTCTTTTCAAAGCCCACACAAGTCAG
*
1962062 TGGC-ACTCTTTTCAAAGCCCACACGAA-TCGG
1 TGGCAACTCTTTTCAAAGCCCACAC-AAGTCAG
1962093 TGGCAACTCTTTTCAAAG-CC-CACAAGTCAG
1 TGGCAACTCTTTTCAAAGCCCACACAAGTCAG
* *
1962123 TGGC-ACCCCTTTCAAAG-CC-CACAAGTCAG
1 TGGCAACTCTTTTCAAAGCCCACACAAGTCAG
* *
1962152 TGGC-AC-ATTTTCAAA-ACC-CACAAGTCAG
1 TGGCAACTCTTTTCAAAGCCCACACAAGTCAG
* * *
1962180 TGGC-ATTTTTTTCAAAG--CTCACAAGTCAG
1 TGGCAACTCTTTTCAAAGCCCACACAAGTCAG
* *
1962209 TGAC-ACTCTTTTCAAAGCCCACACAAGTCGG
1 TGGCAACTCTTTTCAAAGCCCACACAAGTCAG
* *
1962240 TAGCAACTCTTTTCAAAGCCCACACAAATCAG
1 TGGCAACTCTTTTCAAAGCCCACACAAGTCAG
* *
1962272 TGGC-AC-CTTTCCAAAG-CCA-ACAAGTTAG
1 TGGCAACTCTTTTCAAAGCCCACACAAGTCAG
* * *
1962300 TGGC-ACCCTTTT-AAA-TCC-CACAAG-CTAA
1 TGGCAACTCTTTTCAAAGCCCACACAAGTC-AG
* * *
1962328 TGGTAACTCTTTTCAAAGCCCACACGAGTCGG
1 TGGCAACTCTTTTCAAAGCCCACACAAGTCAG
* * * *
1962360 TGGCAACTCTTTTCAAGGCCCATATAAGTTAG
1 TGGCAACTCTTTTCAAAGCCCACACAAGTCAG
1962392 TGGCA
1 TGGCA
1962397 CCTTTTTTTT
Statistics
Matches: 381, Mismatches: 47, Indels: 51
0.80 0.10 0.11
Matches are distributed among these distances:
28 74 0.19
29 92 0.24
30 62 0.16
31 61 0.16
32 91 0.24
33 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (32 bp):
TGGCAACTCTTTTCAAAGCCCACACAAGTCAG
Found at i:1962528 original size:45 final size:47
Alignment explanation
Indices: 1962464--1962572 Score: 132
Period size: 45 Copynumber: 2.3 Consensus size: 47
1962454 CTATTTGACA
* * *
1962464 TCGCTAGCATTGAATCAGCATATTAG-CACCTTT-ATTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCATATTAGCCACCTTTCATTAGCCCAAAG
* * *
1962509 TCGCTGGCCTTGAATCAGCATATTAGTCCACTTTTCCCTTAGTCCAAAG
1 TCGCTGGCCTTGAATCAGCATATTAG-CCACCTTT-CATTAGCCCAAAG
1962558 TCGCTGGCCTTGAAT
1 TCGCTGGCCTTGAAT
1962573 TGGCACATTG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
45 24 0.44
47 6 0.11
49 24 0.44
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (47 bp):
TCGCTGGCCTTGAATCAGCATATTAGCCACCTTTCATTAGCCCAAAG
Found at i:1962992 original size:20 final size:20
Alignment explanation
Indices: 1962967--1963033 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
1962957 AGATGTGTCT
*
1962967 ATACATTTTTCAATATATCG
1 ATACATTTTTCAATGTATCG
* * *
1962987 ATACATGTATGAATGTATCG
1 ATACATTTTTCAATGTATCG
* * *
1963007 ATATATTCTTCAATGTATCA
1 ATACATTTTTCAATGTATCG
1963027 ATACATT
1 ATACATT
1963034 ATGTCTTTTT
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (20 bp):
ATACATTTTTCAATGTATCG
Found at i:1965288 original size:24 final size:24
Alignment explanation
Indices: 1965261--1965320 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
1965251 TGATTCATGC
1965261 TTTGTTGTTGAATGAAT-TTTGATG
1 TTTGTTGTTGAAT-AATGTTTGATG
* *
1965285 TTTGTTATTGAATTATGTTTGATG
1 TTTGTTGTTGAATAATGTTTGATG
*
1965309 TTTGATG-TGAAT
1 TTTGTTGTTGAAT
1965321 TAGGGTCTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
23 7 0.23
24 24 0.77
ACGTcount: A:0.22, C:0.00, G:0.23, T:0.55
Consensus pattern (24 bp):
TTTGTTGTTGAATAATGTTTGATG
Found at i:1965605 original size:24 final size:22
Alignment explanation
Indices: 1965578--1965622 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1965568 TCATCAAATT
*
1965578 TTCAATAAATTTTCACTTTTTCAC
1 TTCAA-AAACTTTCA-TTTTTCAC
*
1965602 TTCAAATACTTTCATTTTTCA
1 TTCAAAAACTTTCATTTTTCA
1965623 TCAAAATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 7 0.37
24 5 0.26
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (22 bp):
TTCAAAAACTTTCATTTTTCAC
Found at i:1967963 original size:13 final size:13
Alignment explanation
Indices: 1967945--1967970 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1967935 ACTATGCTTT
1967945 GTATCGATACATG
1 GTATCGATACATG
1967958 GTATCGATACATG
1 GTATCGATACATG
1967971 CTCACTGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTATCGATACATG
Found at i:1967982 original size:19 final size:20
Alignment explanation
Indices: 1967958--1968009 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1967948 TCGATACATG
*
1967958 GTATCGATACATGCTC-ACT
1 GTATCGATACATGCACAACT
* *
1967977 GTATCGATACATGGACAATT
1 GTATCGATACATGCACAACT
1967997 GTATCGATACATG
1 GTATCGATACATG
1968010 AGATTGGCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGCACAACT
Found at i:1968077 original size:13 final size:13
Alignment explanation
Indices: 1968059--1968084 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1968049 CATGGGAAAA
1968059 TGTATCGATACAT
1 TGTATCGATACAT
1968072 TGTATCGATACAT
1 TGTATCGATACAT
1968085 AGCTTGTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1973074 original size:11 final size:11
Alignment explanation
Indices: 1973058--1973087 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
1973048 GCTAATGTGT
1973058 TTCCTTTACAA
1 TTCCTTTACAA
1973069 TTCCTTTACAA
1 TTCCTTTACAA
1973080 TTCCTTTA
1 TTCCTTTA
1973088 TCTGCATAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.23, C:0.27, G:0.00, T:0.50
Consensus pattern (11 bp):
TTCCTTTACAA
Found at i:1976533 original size:8 final size:8
Alignment explanation
Indices: 1976511--1976541 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
1976501 ACAAATCACC
1976511 TCAAATCA
1 TCAAATCA
1976519 TCAAAATCA
1 TC-AAATCA
1976528 TCAAATCA
1 TCAAATCA
1976536 TCAAAT
1 TCAAAT
1976542 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (8 bp):
TCAAATCA
Found at i:1978396 original size:49 final size:49
Alignment explanation
Indices: 1978325--1979009 Score: 325
Period size: 49 Copynumber: 14.8 Consensus size: 49
1978315 TTTGGAATGT
* *
1978325 TAAAGATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGA
* * * * * *
1978374 TGAAGGTGCGAGTGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGA
*
1978423 TAAAGGTGCCAATATGCTGATTCAAGGCCATCGATATTGGACTT--A-A
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGA
* * *** * **
1978469 T---GGTGCCAATGTGCTGATTCAAGGCTAGTAACATTGGTGTTAAAGA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGA
* * * *
1978515 TGAAGGTGCCAATATGCTGATTCAAGGCCAACAACATTGGGC-T-----
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGA
* * * * * *
1978558 T----GTGCCGATGTGCTGATTCAAGGCCAGCTACATTGGTCTTAAAGA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGA
* * * *
1978603 TGAAA-GTGCCAATATGCTGATTCAAGGCTAGCAATATTGGGC-T-----
1 T-AAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGA
* * * * *
1978646 T----GTGCCGATGTGCTGATTCAAGGCCAGCGACATTGGTC-T-----
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGA
* * * ** * **
1978685 TAAAGGTACCAATGTGCTGACTCAAGGCCAGTGACATTGGTTTTAAAGA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGA
* * * *
1978734 TGAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGC-T-----
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGA
* * ** * *
1978777 T----GTGCCGATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAAGA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT-AAAGA
* ** * *
1978823 TGAGAAAGGTGCCAATATACTGATTCAAGGCCAGTGATATTGGACTCAAAATGG
1 T---AAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACT-TAAA-GA
*
1978877 TAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----
1 T-AAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGA
* * * **
1978921 TAAAGGTGCCAATGTGCTGATTCAAGGCCACCGACATTGGTTTTAAAGA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGA
* * * * *
1978970 TGAAGGTGCCAACATGCTAATTCAAGGCTAGCGATATTGG
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGG
1979010 GCTTGTGTCG
Statistics
Matches: 499, Mismatches: 89, Indels: 96
0.73 0.13 0.14
Matches are distributed among these distances:
39 96 0.19
40 2 0.00
43 103 0.21
44 3 0.01
45 2 0.00
46 5 0.01
47 1 0.00
48 3 0.01
49 207 0.41
52 39 0.08
53 36 0.07
54 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (49 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGA
Found at i:1978574 original size:39 final size:39
Alignment explanation
Indices: 1978520--1978812 Score: 145
Period size: 39 Copynumber: 6.9 Consensus size: 39
1978510 AAAGATGAAG
*
1978520 GTGCCAATATGCTGATTCAAGGCCAACAACATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGGCTT
* * * *
1978559 GTGCCGATGTGCTGATTCAAGGCCAGCTACATTGGTCTTAAAGAT
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGGC-T-----T
* *
1978604 GAAAGTGCCAATATGCTGATTCAAGGCTAGCAATATTGGGCTT
1 ----GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGGCTT
* * * *
1978647 GTGCCGATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGGCTT
* * * ** * *
1978686 AAAGGTACCAATGTGCTGACTCAAGGCCAGTGACATTGGTTTTAAAGATGAAG
1 ----GTGCCAATATGCTGATTCAAGGCCAGCAACATTGG-------GCT---T
* * *
1978739 GTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGGCTT
* * **
1978778 GTGCCGATGTGCTGATTCAAGGCCAGTGACATTGG
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGG
1978813 TCTTAAAAGA
Statistics
Matches: 193, Mismatches: 37, Indels: 48
0.69 0.13 0.17
Matches are distributed among these distances:
39 95 0.49
40 1 0.01
42 2 0.01
43 32 0.17
45 1 0.01
48 1 0.01
49 60 0.31
50 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGGCTT
Found at i:1978606 original size:88 final size:88
Alignment explanation
Indices: 1978386--1978689 Score: 437
Period size: 88 Copynumber: 3.4 Consensus size: 88
1978376 AAGGTGCGAG
* *
1978386 TGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGC
1 TGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
* * * *
1978451 CATCGATATTGGACTTAATGGTGCCAA
66 CAACAATATTGGGC-T--T-GTGCCGA
* ** *
1978478 TGTGCTGATTCAAGGCTAGTAACATTGGTGTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
1 TGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
*
1978543 CAACAACATTGGGCTTGTGCCGA
66 CAACAATATTGGGCTTGTGCCGA
* *
1978566 TGTGCTGATTCAAGGCCAGCTACATTGGTCTTAAAGATGAAAGTGCCAATATGCTGATTCAAGGC
1 TGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
* *
1978631 TAGCAATATTGGGCTTGTGCCGA
66 CAACAATATTGGGCTTGTGCCGA
1978654 TGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG
1 TGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG
1978690 GTACCAATGT
Statistics
Matches: 192, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
88 121 0.63
89 1 0.01
91 1 0.01
92 69 0.36
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (88 bp):
TGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
CAACAATATTGGGCTTGTGCCGA
Found at i:1978700 original size:131 final size:131
Alignment explanation
Indices: 1978565--1978968 Score: 470
Period size: 131 Copynumber: 3.0 Consensus size: 131
1978555 GCTTGTGCCG
1978565 ATGTGCTGATTCAAGGCCAGCT-ACATTGGTCTTAAAGATGAAAGTGCCAATATGCTGATTCAAG
1 ATGTGCTGATTCAAGGCCAG-TGACATTGGTCTTAAAGATGAAAGTGCCAATATGCTGATTCAAG
* *
1978629 GCTAGCAATATTGGGCTTGTGCCGATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGTAC
65 GCCAGCGATATTGGGCTTGTGCCGATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGTAC
1978694 CA
130 CA
* * * *
1978696 ATGTGCTGACTCAAGGCCAGTGACATTGGTTTTAAAGATGAAGGTGCCAATATGCTAATTCAAGG
1 ATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGATGAAAGTGCCAATATGCTGATTCAAGG
*
1978761 CCAGCGATATTGGGCTTGTGCCGATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAAGATGA
66 CCAGCGATATTGGGCTTGTGCCGATGTGCTGATTCAAGGCCAGCGACATTGGTC-T------T--
*
1978826 GAAAGGTGCCA
122 -AAAGGTACCA
* * * * *
1978837 ATATACTGATTCAAGGCCAGTGATATTGGACTCAAA-ATGGTAAAAGGTGCCAATATGCTGATTC
1 ATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGAT-G--AAA-GTGCCAATATGCTGATTC
* * * *
1978901 AAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCACCGACATTGGTTTTA
62 AAGGCCAGCGATATTGGGCTT----GTGCCGATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
1978966 AAG
123 AAG
1978969 ATGAAGGTGC
Statistics
Matches: 232, Mismatches: 22, Indels: 31
0.81 0.08 0.11
Matches are distributed among these distances:
130 1 0.00
131 110 0.47
132 1 0.00
138 5 0.02
140 2 0.01
141 40 0.17
143 2 0.01
144 37 0.16
147 1 0.00
148 33 0.14
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (131 bp):
ATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGATGAAAGTGCCAATATGCTGATTCAAGG
CCAGCGATATTGGGCTTGTGCCGATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGTACC
A
Found at i:1978858 original size:53 final size:52
Alignment explanation
Indices: 1978789--1978924 Score: 193
Period size: 52 Copynumber: 2.6 Consensus size: 52
1978779 TGCCGATGTG
* *
1978789 CTGATTCAAGGCCAGTGACATTGGTCTTAAAA-GATGAGAAAGGTGCCAATATA
1 CTGATTCAAGGCCAGTGATATTGGACTTAAAATGAT-A-AAAGGTGCCAATATA
* * *
1978842 CTGATTCAAGGCCAGTGATATTGGACTCAAAATGGTAAAAGGTGCCAATATG
1 CTGATTCAAGGCCAGTGATATTGGACTTAAAATGATAAAAGGTGCCAATATA
*
1978894 CTGATTCAAGGCCAGCGATATTGGACTTAAA
1 CTGATTCAAGGCCAGTGATATTGGACTTAAA
1978925 GGTGCCAATG
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
52 43 0.57
53 30 0.40
54 2 0.03
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (52 bp):
CTGATTCAAGGCCAGTGATATTGGACTTAAAATGATAAAAGGTGCCAATATA
Found at i:1978968 original size:43 final size:43
Alignment explanation
Indices: 1978879--1978960 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
1978869 CAAAATGGTA
* *
1978879 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCACCGACATTGGACTT
*
1978922 AAAGGTGCCAATGTGCTGATTCAAGGCCACCGACATTGG
1 AAAGGTGCCAATATGCTGATTCAAGGCCACCGACATTGG
1978961 TTTTAAAGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCACCGACATTGGACTT
Found at i:1979142 original size:33 final size:33
Alignment explanation
Indices: 1979100--1979166 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1979090 CATTGGGCTT
*
1979100 AGAAGGGTTGTCACCGACTTATGTAGGCTTTAG
1 AGAAGGGTTGCCACCGACTTATGTAGGCTTTAG
* * *
1979133 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTATGTAGGCTTTAG
1979166 A
1 A
1979167 AGGGGGTGCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.30
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTATGTAGGCTTTAG
Found at i:1979207 original size:32 final size:32
Alignment explanation
Indices: 1979171--1979416 Score: 150
Period size: 34 Copynumber: 7.6 Consensus size: 32
1979161 TTTAGAAGGG
*
1979171 GGTGCCACAGAGTTGTGGACTTAAAAGGAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
* * *
1979203 GGTGCCATGGAGTTATGGGCTTTGAAAA-GAACAA
1 GGTGCCACGGAGTTGTGGAC-TT-AAAAGGAA-AA
* *
1979237 AG-GCCACGGAGTTGTGGACTT-ACAGGAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGG-AAAA
* * * *
1979268 GGGATGCCACAGAGATGTAGG-CTTTAGAAGG---G
1 -GG-TGCCACGGAGTTGT-GGAC-TTAAAAGGAAAA
*
1979300 GGTGCCACAGAGTTGTGGACTTAAAAGGAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
* * * *
1979332 GGTGCCATGGAGTTATGGGCTTTGAAAAGAAAAA
1 GGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAA
* *
1979366 AG-GCCACGGAGTTGTGGACTT-ACAGGAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGG-AAAA
*
1979397 GGGATGCCACGGAGGTGTGG
1 -GG-TGCCACGGAGTTGTGG
1979417 GCTTTTGGAA
Statistics
Matches: 162, Mismatches: 31, Indels: 40
0.70 0.13 0.17
Matches are distributed among these distances:
29 9 0.06
30 19 0.12
31 9 0.06
32 40 0.25
33 35 0.22
34 43 0.27
35 4 0.02
36 3 0.02
ACGTcount: A:0.33, C:0.13, G:0.35, T:0.19
Consensus pattern (32 bp):
GGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
Found at i:1979209 original size:64 final size:62
Alignment explanation
Indices: 1979152--1979338 Score: 175
Period size: 64 Copynumber: 2.9 Consensus size: 62
1979142 GCCACCGACT
**
1979152 TGTGTGGGCTTTAGAAGGGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCCATGGA
1 TGTGTGGGCTTTAGAAGGGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCCACAGA
* **** * *
1979214 -GTTATGGGCTTTGAAAAGAACAAAG-GCCACGGAGTTGTGGACTT-ACAGGAAAAAGGGATGCC
1 TG-TGTGGGCTTT----AGAAGGGGGTGCCACAGAGTTGTGGACTTAAAAGG-AAAA-GG-TGCC
1979276 ACAGA
58 ACAGA
*
1979281 -GATGTAGGCTTTAGAAGGGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCCA
1 TG-TGTGGGCTTTAGAAGGGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCCA
1979339 TGGAGTTATG
Statistics
Matches: 97, Mismatches: 18, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
61 1 0.01
62 14 0.14
63 7 0.07
64 26 0.27
65 26 0.27
66 7 0.07
67 16 0.16
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (62 bp):
TGTGTGGGCTTTAGAAGGGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCCACAGA
Found at i:1979327 original size:29 final size:30
Alignment explanation
Indices: 1979263--1979327 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
1979253 GACTTACAGG
*
1979263 AAAAAGGGATGCCACAGAGATGTAGGCTTT
1 AAAAGGGGATGCCACAGAGATGTAGGCTTT
* * *
1979293 AGAAGGGGGTGCCACAGAGTTGT-GGAC-TT
1 AAAAGGGGATGCCACAGAGATGTAGG-CTTT
1979322 AAAAGG
1 AAAAGG
1979328 AAAAGGTGCC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.34, C:0.12, G:0.35, T:0.18
Consensus pattern (30 bp):
AAAAGGGGATGCCACAGAGATGTAGGCTTT
Found at i:1979388 original size:129 final size:129
Alignment explanation
Indices: 1979158--1979421 Score: 492
Period size: 129 Copynumber: 2.0 Consensus size: 129
1979148 GACTTGTGTG
1979158 GGCTTTAGAAGGGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCCATGGAGTTATGGGC
1 GGCTTTAGAAGGGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCCATGGAGTTATGGGC
*
1979223 TTTGAAAAGAACAAAGGCCACGGAGTTGTGGACTTACAGGAAAAAGGGATGCCACAGAGATGTA
66 TTTGAAAAGAAAAAAGGCCACGGAGTTGTGGACTTACAGGAAAAAGGGATGCCACAGAGATGTA
1979287 GGCTTTAGAAGGGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCCATGGAGTTATGGGC
1 GGCTTTAGAAGGGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCCATGGAGTTATGGGC
* * *
1979352 TTTGAAAAGAAAAAAGGCCACGGAGTTGTGGACTTACAGGAAAAAGGGATGCCACGGAGGTGTG
66 TTTGAAAAGAAAAAAGGCCACGGAGTTGTGGACTTACAGGAAAAAGGGATGCCACAGAGATGTA
1979416 GGCTTT
1 GGCTTT
1979422 TGGAAAAAGA
Statistics
Matches: 131, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
129 131 1.00
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (129 bp):
GGCTTTAGAAGGGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCCATGGAGTTATGGGC
TTTGAAAAGAAAAAAGGCCACGGAGTTGTGGACTTACAGGAAAAAGGGATGCCACAGAGATGTA
Found at i:1979397 original size:65 final size:67
Alignment explanation
Indices: 1979174--1979421 Score: 246
Period size: 65 Copynumber: 3.8 Consensus size: 67
1979164 AGAAGGGGGT
* *
1979174 GCCACAGAGTTGTGGACTTAAAAGGAAAA-GG-TGCCATGGAGTTATGGGCTTTGAAAAGAACAA
1 GCCACAGAGTTGTGGACTTAAAAGGAAAAGGGATGCCACGGAGTTATGGGCTTTGAAAAGAAAAA
1979237 AG
66 AG
* * * * * * **
1979239 GCCACGGAGTTGTGGACTT-ACAGGAAAAAGGGATGCCACAGAGATGTAGGCTTT----AGAAGG
1 GCCACAGAGTTGTGGACTTAAAAGG-AAAAGGGATGCCACGGAGTTATGGGCTTTGAAAAGAAAA
**
1979299 GGG
65 AAG
*
1979302 TGCCACAGAGTTGTGGACTTAAAAGGAAAA-GG-TGCCATGGAGTTATGGGCTTTGAAAAGAAAA
1 -GCCACAGAGTTGTGGACTTAAAAGGAAAAGGGATGCCACGGAGTTATGGGCTTTGAAAAGAAAA
1979365 AAG
65 AAG
* * * *
1979368 GCCACGGAGTTGTGGACTT-ACAGGAAAAAGGGATGCCACGGAGGTGTGGGCTTT
1 GCCACAGAGTTGTGGACTTAAAAGG-AAAAGGGATGCCACGGAGTTATGGGCTTT
1979422 TGGAAAAAGA
Statistics
Matches: 144, Mismatches: 27, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
62 16 0.11
63 7 0.05
64 30 0.21
65 48 0.33
66 9 0.06
67 34 0.24
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (67 bp):
GCCACAGAGTTGTGGACTTAAAAGGAAAAGGGATGCCACGGAGTTATGGGCTTTGAAAAGAAAAA
AG
Found at i:1979408 original size:34 final size:34
Alignment explanation
Indices: 1979173--1979416 Score: 119
Period size: 33 Copynumber: 7.5 Consensus size: 34
1979163 TAGAAGGGGG
*
1979173 TGCCACAGAGTTGTGGACTTAAAAGG-AAAA-GG-
1 TGCCACGGAGTTGTGGACTT-AAAGGAAAAAGGGA
* * * *
1979205 TGCCATGGAGTTATGGGCTTTGAAAAGAACAAA--G-
1 TGCCACGGAGTTGTGGAC-TT-AAAGGAA-AAAGGGA
*
1979239 -GCCACGGAGTTGTGGACTTACAGGAAAAAGGGA
1 TGCCACGGAGTTGTGGACTTAAAGGAAAAAGGGA
* * * * *
1979272 TGCCACAGAGATGTAGG-CTT-TA-G--AAGGGGG
1 TGCCACGGAGTTGT-GGACTTAAAGGAAAAAGGGA
*
1979302 TGCCACAGAGTTGTGGACTTAAAAGG-AAAA-GG-
1 TGCCACGGAGTTGTGGACTT-AAAGGAAAAAGGGA
* * * *
1979334 TGCCATGGAGTTATGGGCTTTGAAAAGAAAAA---A
1 TGCCACGGAGTTGTGGAC-TT-AAAGGAAAAAGGGA
* *
1979367 GGCCACGGAGTTGTGGACTTACAGGAAAAAGGGA
1 TGCCACGGAGTTGTGGACTTAAAGGAAAAAGGGA
*
1979401 TGCCACGGAGGTGTGG
1 TGCCACGGAGTTGTGG
1979417 GCTTTTGGAA
Statistics
Matches: 160, Mismatches: 33, Indels: 36
0.70 0.14 0.16
Matches are distributed among these distances:
29 2 0.01
30 24 0.15
31 13 0.08
32 35 0.22
33 44 0.28
34 37 0.23
35 5 0.03
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.19
Consensus pattern (34 bp):
TGCCACGGAGTTGTGGACTTAAAGGAAAAAGGGA
Found at i:1979546 original size:62 final size:61
Alignment explanation
Indices: 1979470--1980189 Score: 671
Period size: 62 Copynumber: 11.5 Consensus size: 61
1979460 TGGGCTTAAA
* * * *
1979470 GAAGAAATGCCACTGAGTCATGGACTTTGAAGAAAAGACGTCACTGAGTCGTGGACTTTGG
1 GAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGG
* * * * *
1979531 GAAGAGATTGCCACTGAATCATGGACTTTTAAGAAAAAAGATGCCACTGAGTCATAGAC-TTGG
1 GAAGAGA-TGCCACTGAGTCGTGGACTTTGAAG--AAAAGATGCCACTGAGTCGTGGACTTTGG
* * * * *
1979594 AAGAAAAGGATGCCACTAAGTCGTGGACTTAGAA-AAGAGATGCCACTGAGTTGTGGACTTTGAA
1 --GAAGA-GATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTG--
1979658 G
61 G
* * * * *
1979659 AAAAAAGATGCCACTGAGTCATGGACTTGGAAGAAAAAGATGCCACTGAGTCATGGAC-TTGG
1 -GAAGAGATGCCACTGAGTCGTGGACTTTGAAG-AAAAGATGCCACTGAGTCGTGGACTTTGG
* * * * * **
1979721 AAGAAAAGGATGCCACTAATTCGTGGACTTAGAA-AAGAGATGCCACTGAGTTTTGGACTTTGAG
1 --GAAGA-GATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTT--G
1979785 G
61 G
* * * * *
1979786 GAAAAAGATGCCACTGAGTCATGGACTTGGAAGAAAAGGATGCCACTGAGTCGTGGACTTAGA
1 G-AAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAA-GATGCCACTGAGTCGTGGACTTTGG
* * * *
1979849 AAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAAAGATGTCACTGAGTCATGGACTTTGG
1 GAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGG
* *
1979910 GAAGAGATTGCCACTAAGTCGTGGACTTTGAAGGAAAAGGATGCCACTGAGTCATGGACTTTGG
1 GAAGAGA-TGCCACTGAGTCGTGGACTTTGAA-GAAAA-GATGCCACTGAGTCGTGGACTTTGG
* * * *
1979974 GAAAAGAGATGCCACCGAGTCGTGGACTTTG-AGAAGAGATGCCACTGAGTTGTGGACTTTGA
1 G--AAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGG
* * * * * * * *
1980036 GAAGAAATGCCACTTAGCCGTGGACTTTGGGAA-AAGAGATGCCACTAAGTTGTGAACTTTGA
1 GAAGAGATGCCACTGAGTCGTGGACTTT--GAAGAAAAGATGCCACTGAGTCGTGGACTTTGG
* * *
1980098 GAAGAGATGCCACTGAGTCGTGGACTTT-AGGAAGAGATGCCACTGAGTTGTGGACTTTGG
1 GAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGG
**
1980158 GAAAAGAGATGCCACTGAGTTATGGACTTTGA
1 G--AAGAGATGCCACTGAGTCGTGGACTTTGA
1980190 GAAGGGATTT
Statistics
Matches: 553, Mismatches: 75, Indels: 60
0.80 0.11 0.09
Matches are distributed among these distances:
59 1 0.00
60 50 0.09
61 33 0.06
62 219 0.40
63 72 0.13
64 83 0.15
65 87 0.16
66 8 0.01
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (61 bp):
GAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGG
Found at i:1979598 original size:95 final size:94
Alignment explanation
Indices: 1979476--1980193 Score: 628
Period size: 95 Copynumber: 7.6 Consensus size: 94
1979466 TAAAGAAGAA
* * * *
1979476 ATGCCACTGAGTCATGGACTTTGAAGAAAAGACGTCACTGAGTCGTGGACTTTGGGAAGAGATTG
1 ATGCCACTGAGTCATGGACTTGGAAGAAAAGATGCCACTGAGTCATGGACTTTGGGAAGAGA-TG
*
1979541 CCACTGAATCATGGACTTTTAAGAAAAAAG
65 CCACTGAATCGTGGACTTTTAAGAAAAAAG
* * * * **
1979571 ATGCCACTGAGTCATAGACTTGGAAGAAAAGGATGCCACTAAGTCGTGGACTTAGAAAAGAGATG
1 ATGCCACTGAGTCATGGACTTGGAAGAAAA-GATGCCACTGAGTCATGGACTTTGGGAAGAGATG
* * *
1979636 CCACTGAGTTGTGGACTTTGAAGAAAAAAG
65 CCACTGAATCGTGGACTTTTAAGAAAAAAG
*
1979666 ATGCCACTGAGTCATGGACTTGGAAGAAAAAGATGCCACTGAGTCATGGAC-TTGGAAGAAAAGG
1 ATGCCACTGAGTCATGGACTTGGAAG-AAAAGATGCCACTGAGTCATGGACTTTGG--GAAGA-G
*
1979730 ATGCCACT-AATTCGTGGAC--TT-AGAAAAGAG
62 ATGCCACTGAA-TCGTGGACTTTTAAGAAAAAAG
** * * *
1979760 ATGCCACTGAGTTTTGGACTTTGAGGGAAAAAGATGCCACTGAGTCATGGAC-TTGGAAGAAAAG
1 ATGCCACTGAGTCATGGACTTGGA-AG-AAAAGATGCCACTGAGTCATGGACTTTGG--GAAGA-
* *
1979824 GATGCCACTGAGTCGTGGAC--TT-AGAAAAGAG
61 GATGCCACTGAATCGTGGACTTTTAAGAAAAAAG
** * *
1979855 ATGCCACTGAGTTGTGGACTTTGAAGAAAAGATGTCACTGAGTCATGGACTTTGGGAAGAGATTG
1 ATGCCACTGAGTCATGGACTTGGAAGAAAAGATGCCACTGAGTCATGGACTTTGGGAAGAGA-TG
* * *
1979920 CCACT-AAGTCGTGGACTTTGAAGGAAAAGG
65 CCACTGAA-TCGTGGACTTTTAAGAAAAAAG
* * * *
1979950 ATGCCACTGAGTCATGGACTTTGGGAA-AAGAGATGCCACCGAGTCGTGGACTTTGAGAAGAGAT
1 ATGCCACTGAGTCATGGAC-TT-GGAAGAAAAGATGCCACTGAGTCATGGACTTTGGGAAGAGAT
* * * *
1980014 GCCACTGAGTTGTGGAC-TTTGAG-AAGAA-
64 GCCACTGAATCGTGGACTTTTAAGAAAAAAG
* * * * * ** * *
1980042 ATGCCACTTAGCCGTGGACTTTGGGAA-AAGAGATGCCACTAAGTTGTGAACTTTGAGAAGAGAT
1 ATGCCACTGAGTCATGGAC-TT-GGAAGAAAAGATGCCACTGAGTCATGGACTTTGGGAAGAGAT
* * *
1980106 GCCACTGAGTCGTGGAC-TTT-AG-GAAGAG
64 GCCACTGAATCGTGGACTTTTAAGAAAAAAG
** * * *
1980134 ATGCCACTGAGTTGTGGACTTTGGGAA-AAGAGATGCCACTGAGTTATGGACTTTGAGAAG
1 ATGCCACTGAGTCATGGAC-TT-GGAAGAAAAGATGCCACTGAGTCATGGACTTTGGGAAG
1980194 GGATTTGAAG
Statistics
Matches: 537, Mismatches: 68, Indels: 39
0.83 0.11 0.06
Matches are distributed among these distances:
91 7 0.01
92 149 0.28
93 26 0.05
94 41 0.08
95 226 0.42
96 69 0.13
97 19 0.04
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.23
Consensus pattern (94 bp):
ATGCCACTGAGTCATGGACTTGGAAGAAAAGATGCCACTGAGTCATGGACTTTGGGAAGAGATGC
CACTGAATCGTGGACTTTTAAGAAAAAAG
Found at i:1979724 original size:26 final size:29
Alignment explanation
Indices: 1979476--1980192 Score: 405
Period size: 30 Copynumber: 22.9 Consensus size: 29
1979466 TAAAGAAGAA
*
1979476 ATGCCACTGAGTCATGGACTTTGAAGAAAAG
1 ATGCCACTGAGTCATGGAC-TTGGAG-AAAG
* * *
1979507 ACGTCACTGAGTCGTGGACTTTGG-GAAGAG
1 ATGCCACTGAGTCATGGAC-TTGGAGAA-AG
* * *
1979537 ATTGCCACTGAATCATGGACTTTTAAGAAAAAAG
1 A-TGCCACTGAGTCATGGAC--TT--GGAGAAAG
*
1979571 ATGCCACTGAGTCATAGACTTGGAAGAAAAGG
1 ATGCCACTGAGTCATGGACTTGG-AG-AAA-G
* * * *
1979603 ATGCCACTAAGTCGTGGACTTAGAAAAGAG
1 ATGCCACTGAGTCATGGACTTGGAGAA-AG
** *
1979633 ATGCCACTGAGTTGTGGACTTTGAAGAAAAAAG
1 ATGCCACTGAGTCATGGAC-TTG--G-AGAAAG
1979666 ATGCCACTGAGTCATGGACTTGGAAGAAAAAG
1 ATGCCACTGAGTCATGGACTTGG-AG--AAAG
1979698 ATGCCACTGAGTCATGGACTTGGAAGAAAAGG
1 ATGCCACTGAGTCATGGACTTGG-AG-AAA-G
* * * * *
1979730 ATGCCACTAATTCGTGGACTTAGAAAAGAG
1 ATGCCACTGAGTCATGGACTTGGAGAA-AG
** *
1979760 ATGCCACTGAGTTTTGGACTTTGAGGGAAAAAG
1 ATGCCACTGAGTCATGGAC-TT---GGAGAAAG
1979793 ATGCCACTGAGTCATGGACTTGGAAGAAAAGG
1 ATGCCACTGAGTCATGGACTTGG-AG-AAA-G
* * *
1979825 ATGCCACTGAGTCGTGGACTTAGAAAAGAG
1 ATGCCACTGAGTCATGGACTTGGAGAA-AG
** *
1979855 ATGCCACTGAGTTGTGGACTTTGAAGAAAAG
1 ATGCCACTGAGTCATGGAC-TTGGAG-AAAG
*
1979886 ATGTCACTGAGTCATGGACTTTGG-GAAGAG
1 ATGCCACTGAGTCATGGAC-TTGGAGAA-AG
* * *
1979916 ATTGCCACTAAGTCGTGGACTTTGAAGGAAAAGG
1 A-TGCCACTGAGTCATGGAC-TTGGA-G-AAA-G
*
1979950 ATGCCACTGAGTCATGGACTTTGGGAAAAGAG
1 ATGCCACTGAGTCATGGAC-TT-GGAGAA-AG
* * *
1979982 ATGCCACCGAGTCGTGGACTTTGAGAAGAG
1 ATGCCACTGAGTCATGGACTTGGAGAA-AG
** * *
1980012 ATGCCACTGAGTTGTGGACTTTGAGAAGAA
1 ATGCCACTGAGTCATGGACTTGGAGAA-AG
* * * *
1980042 ATGCCACTTAGCCGTGGACTTTGGGAAAAGAG
1 ATGCCACTGAGTCATGGAC-TT-GGAGAA-AG
* ** * *
1980074 ATGCCACTAAGTTGTGAACTTTGAGAAGAG
1 ATGCCACTGAGTCATGGACTTGGAGAA-AG
* *
1980104 ATGCCACTGAGTCGTGGACTTTAGGA-AGAG
1 ATGCCACTGAGTCATGGAC-TT-GGAGAAAG
** *
1980134 ATGCCACTGAGTTGTGGACTTTGGGAAAAGAG
1 ATGCCACTGAGTCATGGAC-TT-GGAGAA-AG
* *
1980166 ATGCCACTGAGTTATGGACTTTGAGAA
1 ATGCCACTGAGTCATGGACTTGGAGAA
1980193 GGGATTTGAA
Statistics
Matches: 557, Mismatches: 87, Indels: 85
0.76 0.12 0.12
Matches are distributed among these distances:
29 7 0.01
30 175 0.31
31 112 0.20
32 165 0.30
33 77 0.14
34 19 0.03
35 2 0.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.23
Consensus pattern (29 bp):
ATGCCACTGAGTCATGGACTTGGAGAAAG
Found at i:1979763 original size:157 final size:158
Alignment explanation
Indices: 1979471--1980189 Score: 748
Period size: 157 Copynumber: 4.6 Consensus size: 158
1979461 GGGCTTAAAG
* * *
1979471 AAGAAATGCCACTGAGTCATGGACTTTGAAG-AAAAGACGTCACTGAGTCGTGGACTTTGG-G-A
1 AAGAGATGCCACTGAGTCATGGACTTTGAAGAAAAAGATGCCACTGAGTCGTGGAC-TTGGAGAA
* * * * *
1979533 AGAGATTGCCACTGAATCATGGACTTTTAAGAAAAAAGATGCCACTGAGTCATAGACTTGGAAGA
65 AAAGA-TGCCACTGAGTTATGGACTTTGAAG--AAAAGATGCCACTGAGTCATGGACTT-G-AGA
1979598 AAAG-GATGCCACTAAGTCGTGGAC-TT-A-GAA
125 AAAGAGATGCCACTAAGTCGTGGACTTTGAGGAA
** *
1979628 AAGAGATGCCACTGAGTTGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCATGGACTTGGAAGA
1 AAGAGATGCCACTGAGTCATGGACTTTGAAG-AAAAAGATGCCACTGAGTCGTGGACTTGG-AGA
* * * * *
1979693 AAAAGATGCCACTGAGTCATGGACTTGGAAGAAAAGGATGCCACTAATTCGTGGACTT-AGAAAA
64 AAAAGATGCCACTGAGTTATGGACTTTGAAGAAAA-GATGCCACTGAGTCATGGACTTGAGAAAA
* **
1979757 GAGATGCCACTGAGTTTTGGACTTTGAGGGAA
128 GAGATGCCACTAAGTCGTGGACTTTGA-GGAA
* *
1979789 AA-AGATGCCACTGAGTCATGGACTTGGAAGAAAAGGATGCCACTGAGTCGTGGACTT--AGAAA
1 AAGAGATGCCACTGAGTCATGGACTTTGAAGAAAAAGATGCCACTGAGTCGTGGACTTGGAGAAA
* * *
1979851 AGAGATGCCACTGAGTTGTGGACTTTGAAGAAAAGATGTCACTGAGTCATGGACTTTG-G-GAAG
66 A-AGATGCCACTGAGTTATGGACTTTGAAGAAAAGATGCCACTGAGTCATGGAC-TTGAGAAAAG
1979914 AGATTGCCACTAAGTCGTGGACTTTGAAGGAA
129 AGA-TGCCACTAAGTCGTGGACTTTG-AGGAA
* * *
1979946 AAG-GATGCCACTGAGTCATGGACTTTG-GGAAAAGAGATGCCACCGAGTCGTGGACTTTGAG-A
1 AAGAGATGCCACTGAGTCATGGACTTTGAAGAAAA-AGATGCCACTGAGTCGTGGACTTGGAGAA
* * * * * *
1980008 AGAGATGCCACTGAGTTGTGGACTTTG-AGAAGAA-ATGCCACTTAGCCGTGGACTTTGGGAAAA
65 AAAGATGCCACTGAGTTATGGACTTTGAAGAA-AAGATGCCACTGAGTCATGGAC-TTGAGAAAA
* *
1980071 GAGATGCCACTAAGTTGTGAACTTTGA-G--
128 GAGATGCCACTAAGTCGTGGACTTTGAGGAA
* * * *
1980099 AAGAGATGCCACTGAGTCGTGGACTTT--AGGAAGAGATGCCACTGAGTTGTGGACTTTGG-GAA
1 AAGAGATGCCACTGAGTCATGGACTTTGAAGAAAAAGATGCCACTGAGTCGTGGAC-TTGGAGAA
1980161 AAGAGATGCCACTGAGTTATGGACTTTGA
65 AA-AGATGCCACTGAGTTATGGACTTTGA
1980190 GAAGGGATTT
Statistics
Matches: 480, Mismatches: 54, Indels: 58
0.81 0.09 0.10
Matches are distributed among these distances:
152 20 0.04
153 11 0.02
154 46 0.10
155 1 0.00
156 64 0.13
157 194 0.40
158 19 0.04
159 67 0.14
160 48 0.10
161 10 0.02
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (158 bp):
AAGAGATGCCACTGAGTCATGGACTTTGAAGAAAAAGATGCCACTGAGTCGTGGACTTGGAGAAA
AAGATGCCACTGAGTTATGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTGAGAAAAGAG
ATGCCACTAAGTCGTGGACTTTGAGGAA
Found at i:1981496 original size:6 final size:6
Alignment explanation
Indices: 1981485--1981524 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
1981475 GTGTCTATTT
1981485 TTTTTG TTTTTG TTTTTG -TTTTG TTTTT- TTTTTG TGTTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG T-TTTT
1981525 TACTTTTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.32
6 17 0.55
7 4 0.13
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:1981502 original size:12 final size:12
Alignment explanation
Indices: 1981485--1981524 Score: 57
Period size: 11 Copynumber: 3.4 Consensus size: 12
1981475 GTGTCTATTT
1981485 TTTTTGTTTTTG
1 TTTTTGTTTTTG
1981497 TTTTTG-TTTTG
1 TTTTTGTTTTTG
1981508 TTTTT-TTTTTG
1 TTTTTGTTTTTG
1981519 TGTTTT
1 T-TTTT
1981525 TACTTTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (12 bp):
TTTTTGTTTTTG
Found at i:1981511 original size:24 final size:26
Alignment explanation
Indices: 1981483--1981539 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
1981473 GTGTGTCTAT
* *
1981483 TTTTTTTGTTTTTGTTTTT-GTTTTG-
1 TTTTTTT-TTTGTGTTTTTACTTTTGA
1981508 TTTTTTTTTTGTGTTTTTACTTTTGA
1 TTTTTTTTTTGTGTTTTTACTTTTGA
1981534 TTTTTT
1 TTTTTT
1981540 CATCATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 10 0.36
25 12 0.43
26 6 0.21
ACGTcount: A:0.04, C:0.02, G:0.12, T:0.82
Consensus pattern (26 bp):
TTTTTTTTTTGTGTTTTTACTTTTGA
Found at i:1988575 original size:13 final size:13
Alignment explanation
Indices: 1988557--1988582 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1988547 ACAAAGATCC
1988557 ATGTATCGATACA
1 ATGTATCGATACA
1988570 ATGTATCGATACA
1 ATGTATCGATACA
1988583 TGGAATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1988647 original size:13 final size:13
Alignment explanation
Indices: 1988629--1988654 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1988619 CAAGGTAACT
1988629 TTGTATCGATACA
1 TTGTATCGATACA
1988642 TTGTATCGATACA
1 TTGTATCGATACA
1988655 ACACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1998546 original size:21 final size:20
Alignment explanation
Indices: 1998513--1998553 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
1998503 GAGATGTTGG
1998513 ACATACTAAAAATGCATGAA
1 ACATACTAAAAATGCATGAA
* *
1998533 ACATATCTCAAAATGTATGAA
1 ACATA-CTAAAAATGCATGAA
1998554 CATGGGCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.24
Consensus pattern (20 bp):
ACATACTAAAAATGCATGAA
Found at i:1999486 original size:13 final size:13
Alignment explanation
Indices: 1999470--1999495 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1999460 AGCGTAGTTT
1999470 TGTATCGATACAA
1 TGTATCGATACAA
1999483 TGTATCGATACAA
1 TGTATCGATACAA
1999496 ATTGTAGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2000230 original size:61 final size:62
Alignment explanation
Indices: 2000133--2000262 Score: 156
Period size: 61 Copynumber: 2.1 Consensus size: 62
2000123 CATGATGAAA
*
2000133 ATGAGAA-GAGTGATAAAAATGCAAATATGCTAATTCAGGGCCAACGATATTGCGCTTAAAG
1 ATGAGAAGGAGTGATAAAAATGCAAATATGCTAATTCAAGGCCAACGATATTGCGCTTAAAG
** * * * ** *
2000194 ATGAGAAGGA-TGATAAAGGTGCTAATATGCTGATTCAAGGCTAGTGATATTGGGCTTAAAG
1 ATGAGAAGGAGTGATAAAAATGCAAATATGCTAATTCAAGGCCAACGATATTGCGCTTAAAG
*
2000255 ATGCGAAG
1 ATGAGAAG
2000263 AATGTTAATG
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
61 56 0.97
62 2 0.03
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.25
Consensus pattern (62 bp):
ATGAGAAGGAGTGATAAAAATGCAAATATGCTAATTCAAGGCCAACGATATTGCGCTTAAAG
Found at i:2000304 original size:52 final size:52
Alignment explanation
Indices: 2000213--2000348 Score: 164
Period size: 52 Copynumber: 2.6 Consensus size: 52
2000203 ATGATAAAGG
* * * * * *
2000213 TGCTAATATGCTGATTCAAGGCTAGTGATATTGGGCTTAAAGATGCGAAGAA
1 TGCTAATGTGCTGATTCAAGGCCAGTGACATTAGACTTAAAGATGAGAAGAA
* *
2000265 TGTTAATGTGCTGATTCACGGCCAGTGACATTAGACTTAAAGATGAGAAGAA
1 TGCTAATGTGCTGATTCAAGGCCAGTGACATTAGACTTAAAGATGAGAAGAA
* * * *
2000317 TGCCAATGTGCAGATTCAAGGCCTGCGACATT
1 TGCTAATGTGCTGATTCAAGGCCAGTGACATT
2000349 GGGCTTTGGA
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (52 bp):
TGCTAATGTGCTGATTCAAGGCCAGTGACATTAGACTTAAAGATGAGAAGAA
Found at i:2000468 original size:101 final size:101
Alignment explanation
Indices: 2000269--2000647 Score: 306
Period size: 101 Copynumber: 3.8 Consensus size: 101
2000259 GAAGAATGTT
* * * * * * *
2000269 AATGTGCTGATTCACGGCCAGTGACATTAGACTTAAAGATGAGAAGAATGCCAATGTGC-AGATT
1 AATGTGCTAATTCAAGGCCAGAGATATCAGACTTAAAGAT--GAAG-GTGCCAATATGCTA-ATT
** * * ** * *
2000333 CAAGGCCTGCGACATTGGGCTTTGGA-ATGTTAAAGATGCC
62 CAAGGCCAACAACATT-GGATTTAAAGATGGTAAAGGTGCC
* * ** * *
2000373 AATATGCTGATTCAAGGTTAGAGATATCAGACTTAAAGATGAAGGTGCCACTATGCTAATTTAAG
1 AATGTGCTAATTCAAGGCCAGAGATATCAGACTTAAAGATGAAGGTGCCAATATGCTAATTCAAG
* * *
2000438 GCCAACGACATTGGATTTTAAGATGGTAAAGGTGCT
66 GCCAACAACATTGGATTTAAAGATGGTAAAGGTGCC
* * ** * * *
2000474 AATGTGCTAATTCAATGCCAGGGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGATTCAAG
1 AATGTGCTAATTCAAGGCCAGAGATATCAGACTTAAAGATGAAGGTGCCAATATGCTAATTCAAG
* *
2000539 GCCAGCAACATTGGATTTAAATATGGTAAAGGTGCC
66 GCCAACAACATTGGATTTAAAGATGGTAAAGGTGCC
* * ** *
2000575 AATGTACTAATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCTAATTCAAG
1 AATGTGCTAATTCAAGGCCAGAGATATCAGACTTAAAGATGAAGGTGCCAATATGCTAATTCAAG
*
2000634 GCCAACGACATTGG
66 GCCAACAACATTGG
2000648 GCATAGAAGG
Statistics
Matches: 229, Mismatches: 44, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
95 35 0.15
100 6 0.03
101 150 0.66
102 5 0.02
104 33 0.14
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.26
Consensus pattern (101 bp):
AATGTGCTAATTCAAGGCCAGAGATATCAGACTTAAAGATGAAGGTGCCAATATGCTAATTCAAG
GCCAACAACATTGGATTTAAAGATGGTAAAGGTGCC
Found at i:2000483 original size:52 final size:51
Alignment explanation
Indices: 2000317--2000647 Score: 229
Period size: 52 Copynumber: 6.7 Consensus size: 51
2000307 ATGAGAAGAA
* * ** * *
2000317 TGCCAATGTGC-AGATTCAAGGCCTGCGACATTGGGCTTTGGAATGTTAAAGA
1 TGCCAATGTGCTA-ATTCAAGGCCAGCGACATT-GGATTTTAAATGGTAAAGG
* * ** * * ** * * *
2000369 TGCCAATATGCTGATTCAAGGTTAGAGATATCAGA-CTTAAA-GATGAAGG
1 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGATTTTAAATGGTAAAGG
* * * *
2000418 TGCCACTATGCTAATTTAAGGCCAACGACATTGGATTTTAAGATGGTAAAGG
1 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGATTTTAA-ATGGTAAAGG
* * * * * *
2000470 TGCTAATGTGCTAATTCAATGCCAGGGATATTGGA-CTTAAA-GGTGAAGG
1 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGATTTTAAATGGTAAAGG
* * *
2000519 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGATTTAAATATGGTAAAGG
1 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGATTTTAA-ATGGTAAAGG
* * *
2000571 TGCCAATGTACTAATTCAAGGCCAGCGATATTGG------ACT--TAAAGG
1 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGATTTTAAATGGTAAAGG
*
2000614 TGCCAATGTGCTAATTCAAGGCCAACGACATTGG
1 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGG
2000648 GCATAGAAGG
Statistics
Matches: 216, Mismatches: 56, Indels: 23
0.73 0.19 0.08
Matches are distributed among these distances:
43 37 0.17
45 1 0.00
46 1 0.00
49 66 0.31
50 11 0.05
51 7 0.03
52 93 0.43
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (51 bp):
TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGATTTTAAATGGTAAAGG
Found at i:2000628 original size:43 final size:43
Alignment explanation
Indices: 2000565--2000647 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
2000555 TTAAATATGG
* *
2000565 TAAAGGTGCCAATGTACTAATTCAAGGCCAGCGATATTGGACT
1 TAAAGGTGCCAATGTACTAATTCAAGGCCAACGACATTGGACT
*
2000608 TAAAGGTGCCAATGTGCTAATTCAAGGCCAACGACATTGG
1 TAAAGGTGCCAATGTACTAATTCAAGGCCAACGACATTGG
2000648 GCATAGAAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (43 bp):
TAAAGGTGCCAATGTACTAATTCAAGGCCAACGACATTGGACT
Found at i:2000699 original size:32 final size:32
Alignment explanation
Indices: 2000659--2000880 Score: 196
Period size: 32 Copynumber: 7.0 Consensus size: 32
2000649 CATAGAAGGA
*
2000659 GGTT-CCACCCACTTGTGTGGGCTTTTGAAAG
1 GGTTGCCACCTACTTGTGTGGGCTTTTGAAAG
* *
2000690 GGTTGCCACCGACTTGTGTGGGC-TTTAAGAAG
1 GGTTGCCACCTACTTGTGTGGGCTTTTGA-AAG
2000722 GGTTGCCA-CTAGCTTGTGTGGGC-TTTG-AAG
1 GGTTGCCACCTA-CTTGTGTGGGCTTTTGAAAG
*
2000752 GGCTGCCA-CTAACTTGTGTGGGCTTTTG-AAG
1 GGTTGCCACCT-ACTTGTGTGGGCTTTTGAAAG
* *
2000783 AGGTTGCCACCAACTTGTGTGGGCTTTT-AGTAG
1 -GGTTGCCACCTACTTGTGTGGGCTTTTGA-AAG
* * *
2000816 GGTTGCCA-CTAGCTTATATGGCCTTTTG-AAG
1 GGTTGCCACCTA-CTTGTGTGGGCTTTTGAAAG
* *
2000847 AGGTTGCCA-CTAGCTTGTGTAGGCTTTGGAAAG
1 -GGTTGCCACCTA-CTTGTGTGGGCTTTTGAAAG
2000880 G
1 G
2000881 TTTCTCCAGT
Statistics
Matches: 160, Mismatches: 18, Indels: 25
0.79 0.09 0.12
Matches are distributed among these distances:
30 23 0.14
31 22 0.14
32 109 0.68
33 6 0.04
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (32 bp):
GGTTGCCACCTACTTGTGTGGGCTTTTGAAAG
Found at i:2000745 original size:64 final size:64
Alignment explanation
Indices: 2000670--2000880 Score: 250
Period size: 64 Copynumber: 3.3 Consensus size: 64
2000660 GTTCCACCCA
* *
2000670 CTTGTGTGGGCTTTTGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAGAAG-GGTTGCCACTAG
1 CTTGTGTGGGCTTTTGAAAGGGTTGCCACCAACTTGTGTGGGCTTT-TGAAGAGGTTGCCACTAG
* * * *
2000734 CTTGTGTGGGC-TTTG-AAGGGCTGCCACTAACTTGTGTGGGCTTTTGAAGAGGTTGCCACCAA
1 CTTGTGTGGGCTTTTGAAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAGAGGTTGCCACTAG
* * * * * *
2000796 CTTGTGTGGGCTTTT-AGTAGGGTTGCCACTAGCTTATATGGCCTTTTGAAGAGGTTGCCACTAG
1 CTTGTGTGGGCTTTTGA-AAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAGAGGTTGCCACTAG
* *
2000860 CTTGTGTAGGCTTTGGAAAGG
1 CTTGTGTGGGCTTTTGAAAGG
2000881 TTTCTCCAGT
Statistics
Matches: 125, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
61 4 0.03
62 47 0.38
63 7 0.06
64 66 0.53
65 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.33, T:0.33
Consensus pattern (64 bp):
CTTGTGTGGGCTTTTGAAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAGAGGTTGCCACTAG
Found at i:2000778 original size:94 final size:96
Alignment explanation
Indices: 2000669--2000880 Score: 304
Period size: 94 Copynumber: 2.2 Consensus size: 96
2000659 GGTTCCACCC
*
2000669 ACTTGTGTGGGCTTTTGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAGAAGGGTTGCCACTAG
1 ACTTGTGTGGGCTTTTGAAAGGGTTGCCACCAACTTGTGTGGGCTTTAAGAAGGGTTGCCACTAG
* * *
2000734 CTTGTGTGGGC-TTTGAAG-GGCTGCCACTA
66 CTTATATGGCCTTTTGAAGAGGCTGCCACTA
* *
2000763 ACTTGTGTGGGCTTTTG-AAGAGGTTGCCACCAACTTGTGTGGGCTTTTAGTAGGGTTGCCACTA
1 ACTTGTGTGGGCTTTTGAAAG-GGTTGCCACCAACTTGTGTGGGCTTTAAGAAGGGTTGCCACTA
*
2000827 GCTTATATGGCCTTTTGAAGAGGTTGCCACTA
65 GCTTATATGGCCTTTTGAAGAGGCTGCCACTA
* * *
2000859 GCTTGTGTAGGCTTTGGAAAGG
1 ACTTGTGTGGGCTTTTGAAAGG
2000881 TTTCTCCAGT
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
93 3 0.03
94 66 0.63
95 7 0.07
96 25 0.24
97 3 0.03
ACGTcount: A:0.18, C:0.17, G:0.33, T:0.33
Consensus pattern (96 bp):
ACTTGTGTGGGCTTTTGAAAGGGTTGCCACCAACTTGTGTGGGCTTTAAGAAGGGTTGCCACTAG
CTTATATGGCCTTTTGAAGAGGCTGCCACTA
Found at i:2001103 original size:28 final size:28
Alignment explanation
Indices: 2001067--2001120 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
2001057 CCAATGATTA
*
2001067 TGGATTTCGAAAAGATGCCACTGACTTG
1 TGGACTTCGAAAAGATGCCACTGACTTG
* *
2001095 TGGACTTCGAAGAGGTGCCACTGACT
1 TGGACTTCGAAAAGATGCCACTGACT
2001121 AGTAGGCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (28 bp):
TGGACTTCGAAAAGATGCCACTGACTTG
Found at i:2003024 original size:33 final size:33
Alignment explanation
Indices: 2002982--2003046 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2002972 TTAGAAGCAA
* *
2002982 TGTATCGATACAAT-TCATCATGTATTGATACAT
1 TGTATCGATACAATAT-ACCATGTATCGATACAT
2003015 TGTATCGATACAATATACCATGTATCGATACA
1 TGTATCGATACAATATACCATGTATCGATACA
2003047 AATAGTGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
TGTATCGATACAATATACCATGTATCGATACAT
Found at i:2003120 original size:19 final size:20
Alignment explanation
Indices: 2003076--2003126 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
2003066 CTGCTAGTTT
* **
2003076 CATGTATCAATACAATTGTC
1 CATGTATCGATACAATTGAA
2003096 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
2003115 CATGTATCGATA
1 CATGTATCGATA
2003127 TATTGTATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:2003782 original size:13 final size:13
Alignment explanation
Indices: 2003764--2003789 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2003754 AATTGGTTAA
2003764 AAAGATTTTCTCC
1 AAAGATTTTCTCC
2003777 AAAGATTTTCTCC
1 AAAGATTTTCTCC
2003790 CCCTTGATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAGATTTTCTCC
Found at i:2005254 original size:165 final size:165
Alignment explanation
Indices: 2004982--2005290 Score: 476
Period size: 165 Copynumber: 1.9 Consensus size: 165
2004972 ATGGTCAGAC
* * *
2004982 AGCCAACCCTGAGAAAGTTTAGTTAAAGTGTTCGAGGTTGGTTTGGGTTCGAAAATAACCTTTAA
1 AGCCAACCATGAGAAAGTTTAGTTAAAGTGTTCGAGGTTGGTTTGGGTTCGAAAACAACCTTCAA
* *
2005047 AGAAGGTTTGATTTTTAGGATTTAATGAAGAAGCACCTCGAGTGCGTCTTTGAGCAAGTAATTTC
66 AGAAGGTTTGATTTTGAGGATTTAATGAAGAAGCACCTCGAGTGCATCTTTGAGCAAGTAATTTC
* *
2005112 GTTCGAGGAGCCATATTCGGTTAAAGTGTTTAGAT
131 ATTCGAGAAGCCATATTCGGTTAAAGTGTTTAGAT
* * * *
2005147 AGCCAACCATGAGAAAGTTTGGTTAAAGTGTTCGAGGTTGGTTTGTGTTTGAAAACAACCTTCGA
1 AGCCAACCATGAGAAAGTTTAGTTAAAGTGTTCGAGGTTGGTTTGGGTTCGAAAACAACCTTCAA
* * *
2005212 AGAAGGTTTGATTTTGAGGATTT-GTCGAAGAAGCACCTCGAGTGCATTTTTGAGCAGGTAATTT
66 AGAAGGTTTGATTTTGAGGATTTAAT-GAAGAAGCACCTCGAGTGCATCTTTGAGCAAGTAATTT
2005276 CATTCGAGAAGCCAT
130 CATTCGAGAAGCCAT
2005291 CAGGTTGGTT
Statistics
Matches: 129, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
164 1 0.01
165 128 0.99
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (165 bp):
AGCCAACCATGAGAAAGTTTAGTTAAAGTGTTCGAGGTTGGTTTGGGTTCGAAAACAACCTTCAA
AGAAGGTTTGATTTTGAGGATTTAATGAAGAAGCACCTCGAGTGCATCTTTGAGCAAGTAATTTC
ATTCGAGAAGCCATATTCGGTTAAAGTGTTTAGAT
Found at i:2011172 original size:20 final size:20
Alignment explanation
Indices: 2011147--2011201 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
2011137 CTGCCAAGGA
2011147 AATGTATCGATACATT-ATTC
1 AATGTATCGATACATTGA-TC
2011167 AATGTATCGATACATTGATC
1 AATGTATCGATACATTGATC
**
2011187 TTTGTATCGATACAT
1 AATGTATCGATACAT
2011202 CTAGGAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:2011269 original size:50 final size:48
Alignment explanation
Indices: 2011164--2011269 Score: 117
Period size: 50 Copynumber: 2.1 Consensus size: 48
2011154 CGATACATTA
**
2011164 TTCA-ATGTATCGATACATTGATCTTTGTATCGATACATCTAGGAATT
1 TTCATATGTATCGATACATTGATCAATGTATCGATACATCTAGGAATT
* *
2011211 TACCCATATGTATCGATACATTGAAT-AATGTATCGATACATGTAGGCAAATT
1 T--TCATATGTATCGATACATTG-ATCAATGTATCGATACATCTAGG--AATT
2011263 TTCATAT
1 TTCATAT
2011270 TTTGGGACAT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
47 1 0.02
49 2 0.04
50 38 0.79
51 2 0.04
52 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (48 bp):
TTCATATGTATCGATACATTGATCAATGTATCGATACATCTAGGAATT
Found at i:2013127 original size:28 final size:29
Alignment explanation
Indices: 2013082--2013136 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
2013072 GATGATTAGG
2013082 AAAAAAAATCGGGATTGGAGTATCCCCTC
1 AAAAAAAATCGGGATTGGAGTATCCCCTC
* *
2013111 AAAAATAA-CGGGGTTGGAGTATCCCC
1 AAAAAAAATCGGGATTGGAGTATCCCC
2013137 AATTATGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (29 bp):
AAAAAAAATCGGGATTGGAGTATCCCCTC
Found at i:2013179 original size:79 final size:79
Alignment explanation
Indices: 2013014--2013215 Score: 208
Period size: 79 Copynumber: 2.6 Consensus size: 79
2013004 GATAATAACA
* * * * ** * *
2013014 GGGTTGGGGTATCCCCTTGAAAATGACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGATT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGATT
*
2013079 AGGAAAAAAAATCG
66 AGGAAAAAAAACCG
* *
2013093 GGATTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA-T
* * * *
2013157 TTGGGAATAAAGCCG
65 TAGGAAAAAAAACCG
* * ** *
2013172 GGGTTGGAGTATCCTCTCGGAGGTAACAGGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
2013216 GATGAAATAA
Statistics
Matches: 100, Mismatches: 22, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
78 1 0.01
79 99 0.99
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGATT
AGGAAAAAAAACCG
Found at i:2013300 original size:53 final size:52
Alignment explanation
Indices: 2013229--2013404 Score: 230
Period size: 52 Copynumber: 3.4 Consensus size: 52
2013219 GAAATAACGA
* *
2013229 GGTTGGAGTATCCTCGATTGTGAAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTG-TTTTAGAAATAAAATCGG
* * * *
2013282 AGCTGGAGTATCCCCGA-T-TAAAGGAAAATTGGTGTTTTAAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAA--AAAATTGGTGTTTTAGAAATAAAATCGG
* * *
2013334 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGTAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTAGAAATAAAATCGG
2013386 GGTTGGAGTATCCCCGATT
1 GGTTGGAGTATCCCCGATT
2013405 ATGAGAAATC
Statistics
Matches: 106, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
51 3 0.03
52 76 0.72
53 25 0.24
54 2 0.02
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTAGAAATAAAATCGG
Found at i:2013444 original size:51 final size:52
Alignment explanation
Indices: 2013323--2013451 Score: 156
Period size: 52 Copynumber: 2.5 Consensus size: 52
2013313 GTGTTTTAAA
* * * * *
2013323 AATAAAATCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGT
1 AATAAAAGCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAGT
* *
2013375 AATAAAATCGGGGTTGGAGTATCCCCGATTAT-GAGAAATCAATATTTTAAG-
1 AATAAAAGCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTT-AGT
2013426 AAT-AAAGCAGGGGTTGGAGTATCCCC
1 AATAAAAGC-GGGGTTGGAGTATCCCC
2013452 TCGGAAATAA
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
50 4 0.06
51 32 0.46
52 33 0.48
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (52 bp):
AATAAAAGCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAGT
Found at i:2013497 original size:27 final size:28
Alignment explanation
Indices: 2013435--2013509 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 28
2013425 GAATAAAGCA
***
2013435 GGGGTTGGAGTATCCCCTCGGAAATAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
*
2013463 GGGGTTGGAGTATCCCCGATG-ATTAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
2013490 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
2013510 TGTGAAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 25 0.58
28 18 0.42
ACGTcount: A:0.21, C:0.20, G:0.35, T:0.24
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATGAAATAAC
Found at i:2015935 original size:13 final size:13
Alignment explanation
Indices: 2015917--2015942 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2015907 ATAAAGATCC
2015917 ATGTATCGATACA
1 ATGTATCGATACA
2015930 ATGTATCGATACA
1 ATGTATCGATACA
2015943 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2016006 original size:19 final size:18
Alignment explanation
Indices: 2015982--2016049 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2015972 CAGTAGCTAA
2015982 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2016001 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2016016 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2016033 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2016050 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2016022 original size:13 final size:13
Alignment explanation
Indices: 2016004--2016028 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2015994 ACAATACTTA
2016004 TGTATCGATACAT
1 TGTATCGATACAT
2016017 TGTATCGATACA
1 TGTATCGATACA
2016029 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2016026 original size:32 final size:32
Alignment explanation
Indices: 2015985--2016047 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2015975 TAGCTAATTA
*
2015985 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2016017 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2016048 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2026991 original size:19 final size:21
Alignment explanation
Indices: 2026943--2026995 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
2026933 AATTTCAACA
2026943 AATTGTATCGATACAAACAGT
1 AATTGTATCGATACAAACAGT
* *
2026964 AAATGTATCGATACATA-AGT
1 AATTGTATCGATACAAACAGT
2026984 -ATTGTATCGATA
1 AATTGTATCGATA
2026996 TAATGTATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 11 0.38
20 3 0.10
21 15 0.52
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (21 bp):
AATTGTATCGATACAAACAGT
Found at i:2027067 original size:13 final size:13
Alignment explanation
Indices: 2027049--2027074 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2027039 CATTATTTAA
2027049 TGTATCGATACAT
1 TGTATCGATACAT
2027062 TGTATCGATACAT
1 TGTATCGATACAT
2027075 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2032448 original size:15 final size:15
Alignment explanation
Indices: 2032428--2032502 Score: 91
Period size: 15 Copynumber: 4.9 Consensus size: 15
2032418 CCTCCGCAAA
2032428 AAAAAAAAACAAAAC
1 AAAAAAAAACAAAAC
2032443 AAAAAAACAA-AAAAC
1 AAAAAAA-AACAAAAC
*
2032458 AAAAAAATA-AAAAC
1 AAAAAAAAACAAAAC
*
2032472 AAAAAAAAACAAAAA
1 AAAAAAAAACAAAAC
2032487 ATAAAAAAAAGCAAAA
1 A-AAAAAAAA-CAAAA
2032503 AGGGTCCTGA
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
14 14 0.26
15 24 0.45
16 10 0.19
17 5 0.09
ACGTcount: A:0.87, C:0.09, G:0.01, T:0.03
Consensus pattern (15 bp):
AAAAAAAAACAAAAC
Found at i:2032481 original size:39 final size:42
Alignment explanation
Indices: 2032426--2032503 Score: 117
Period size: 40 Copynumber: 1.9 Consensus size: 42
2032416 ATCCTCCGCA
*
2032426 AAAAAAAAAAACAAAACAAAAAA-ACAAAAAA-CAAAAAAAT
1 AAAAAAAAAAACAAAACAAAAAATAAAAAAAAGCAAAAAAAT
*
2032466 AAAAACAAAAA-AAAACAAAAAATAAAAAAAAGCAAAAA
1 AAAAAAAAAAACAAAACAAAAAATAAAAAAAAGCAAAAA
2032504 GGGTCCTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 11 0.32
40 17 0.50
41 6 0.18
ACGTcount: A:0.87, C:0.09, G:0.01, T:0.03
Consensus pattern (42 bp):
AAAAAAAAAAACAAAACAAAAAATAAAAAAAAGCAAAAAAAT
Found at i:2032503 original size:1 final size:1
Alignment explanation
Indices: 2032425--2032496 Score: 72
Period size: 1 Copynumber: 72.0 Consensus size: 1
2032415 CATCCTCCGC
* * * * * * * *
2032425 AAAAAAAAAAAACAAAACAAAAAAACAAAAAACAAAAAAATAAAAACAAAAAAAAACAAAAAATA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2032490 AAAAAAA
1 AAAAAAA
2032497 GCAAAAAGGG
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.89, C:0.08, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:2032503 original size:16 final size:14
Alignment explanation
Indices: 2032428--2032503 Score: 91
Period size: 14 Copynumber: 5.4 Consensus size: 14
2032418 CCTCCGCAAA
2032428 AAAAAAAAACAAAAC
1 AAAAAAAAA-AAAAC
2032443 AAAAAAACAAAAAAC
1 AAAAAAA-AAAAAAC
*
2032458 AAAAAAATAAAAAC
1 AAAAAAAAAAAAAC
*
2032472 AAAAAAAAACAAA-
1 AAAAAAAAAAAAAC
* *
2032485 AAATAAAAAAAAGC
1 AAAAAAAAAAAAAC
2032499 AAAAA
1 AAAAA
2032504 GGGTCCTGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
13 10 0.19
14 21 0.40
15 19 0.37
16 2 0.04
ACGTcount: A:0.87, C:0.09, G:0.01, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAAAAAC
Found at i:2033972 original size:29 final size:29
Alignment explanation
Indices: 2033939--2034438 Score: 646
Period size: 29 Copynumber: 17.4 Consensus size: 29
2033929 CCTCACCTTC
*
2033939 CAAAGCCCACAAGTTAGTGGCACCCTTTT
1 CAAAGCCCACAAGTCAGTGGCACCCTTTT
2033968 CAAAGCCCACAAGTCAGTGGCACCCTTTT
1 CAAAGCCCACAAGTCAGTGGCACCCTTTT
* * *
2033997 CAAAGCCTATAAGTCAGTGGCA-TCTTTT
1 CAAAGCCCACAAGTCAGTGGCACCCTTTT
*
2034025 CAAAAGCCCATAAGTCAGTGGCACCCTTTT
1 C-AAAGCCCACAAGTCAGTGGCACCCTTTT
* *
2034055 CAAAGCCCACAAGTCAATGGCACCTTTTT
1 CAAAGCCCACAAGTCAGTGGCACCCTTTT
*
2034084 CCAAGCCCACAAGTCAGTGGCACCCTTTT
1 CAAAGCCCACAAGTCAGTGGCACCCTTTT
*
2034113 CAAAGCCCACAAGTCAGTGGCA-TCTTTT
1 CAAAGCCCACAAGTCAGTGGCACCCTTTT
2034141 CAAAAGCCCACAAGTCAGTGGCACCCTTTT
1 C-AAAGCCCACAAGTCAGTGGCACCCTTTT
*
2034171 CAAAAGCCCACAAGTCAGTGGCACCCTTAT
1 C-AAAGCCCACAAGTCAGTGGCACCCTTTT
*
2034201 CAAAGCCCACAAGTCAGTGGCA-TCTTTT
1 CAAAGCCCACAAGTCAGTGGCACCCTTTT
* *
2034229 CAAAAGCCCACCAGTCACTGGCACCCTTTT
1 C-AAAGCCCACAAGTCAGTGGCACCCTTTT
2034259 CAAAGCCCACAAGTCAGTGGCA-CCTTTT
1 CAAAGCCCACAAGTCAGTGGCACCCTTTT
* *
2034287 CATAAGCCCACAAGTTAGTGGCA-TCTTTT
1 CA-AAGCCCACAAGTCAGTGGCACCCTTTT
*
2034316 CAAAGCCCACAAGTCAGTGGCAACC--TT
1 CAAAGCCCACAAGTCAGTGGCACCCTTTT
* *
2034343 CAAAGCCCACAAGGCAGTGGCAACC--TT
1 CAAAGCCCACAAGTCAGTGGCACCCTTTT
*
2034370 CAGAAGCCCACAAGTC-GATGGCACCCCTTT
1 CA-AAGCCCACAAGTCAG-TGGCACCCTTTT
* * *
2034400 CAAAGCCCATAAGTTAGTGGCAACC--TT
1 CAAAGCCCACAAGTCAGTGGCACCCTTTT
2034427 CAAAAGCCCACA
1 C-AAAGCCCACA
2034439 CAAGTTGGTG
Statistics
Matches: 423, Mismatches: 34, Indels: 29
0.87 0.07 0.06
Matches are distributed among these distances:
27 34 0.08
28 72 0.17
29 265 0.63
30 52 0.12
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (29 bp):
CAAAGCCCACAAGTCAGTGGCACCCTTTT
Found at i:2034520 original size:43 final size:43
Alignment explanation
Indices: 2034458--2034595 Score: 177
Period size: 43 Copynumber: 3.1 Consensus size: 43
2034448 GGCAGCTTCT
* *
2034458 TTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCACC
1 TTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACC
* * *
2034501 TTTAAGTCTAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCA----C--C
2034550 TTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACC
1 TTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACC
2034593 TTT
1 TTT
2034596 GTCATCTTCA
Statistics
Matches: 81, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
43 40 0.49
45 1 0.01
47 1 0.01
49 39 0.48
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (43 bp):
TTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACC
Found at i:2034572 original size:49 final size:49
Alignment explanation
Indices: 2034458--2034743 Score: 226
Period size: 52 Copynumber: 5.8 Consensus size: 49
2034448 GGCAGCTTCT
* * *
2034458 TTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCA----C--C
1 TTTAAGTCTAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* *
2034501 TTTAAGTCTAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCTAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
*
2034550 TTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATC
1 TTTAAGTCTAATATCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATC
* * * * *
2034602 TTCAAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCATTCTTCTCATC
1 TTTAAGTCTAATATCGCTGGCCTTGAATCAGCACATTGGCA--CCT-TCATC
* * * *** * *
2034654 TTCAAGTCTAATGTCGCTGACCACAAATCAGCACATTGACATTCTTTACATC
1 TTTAAGTCTAATATCGCTGGCCTTGAATCAGCACATTGGCA--CCTT-CATC
* * * *
2034706 TTTAAGCCTAATATCACTGATCC-TGAATCAGCATATTG
1 TTTAAGTCTAATATCGCTG-GCCTTGAATCAGCACATTG
2034744 TCATCTTTAT
Statistics
Matches: 200, Mismatches: 30, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
43 36 0.18
47 1 0.00
49 41 0.20
51 2 0.01
52 117 0.58
53 2 0.01
54 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (49 bp):
TTTAAGTCTAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
Found at i:2034623 original size:52 final size:51
Alignment explanation
Indices: 2034504--2034691 Score: 236
Period size: 52 Copynumber: 3.7 Consensus size: 51
2034494 TGGCACCTTT
* *
2034504 AAGTCTAATGTTGCTGGCCTTGAATCAGCACATTGGCACC--TTCATCTTT
1 AAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTC
* *
2034553 AAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTC
1 AAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT-TCATCTTC
* * * *
2034605 AAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCATTCTTCTCATCTTC
1 AAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTTTCATCTTC
* ***
2034657 AAGTCTAATGTCGCTGACCACAAATCAGCACATTG
1 AAGTCTAATGTCGCTGGCCTTGAATCAGCACATTG
2034692 ACATTCTTTA
Statistics
Matches: 119, Mismatches: 16, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
49 37 0.31
51 1 0.01
52 78 0.66
53 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (51 bp):
AAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTC
Found at i:2034767 original size:18 final size:17
Alignment explanation
Indices: 2034744--2034777 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2034734 CAGCATATTG
*
2034744 TCATCTTTATCACTCTTC
1 TCATCTTCATCA-TCTTC
2034762 TCATCTTCATCATCTT
1 TCATCTTCATCATCTT
2034778 TAAGTCCAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.18, C:0.32, G:0.00, T:0.50
Consensus pattern (17 bp):
TCATCTTCATCATCTTC
Found at i:2035375 original size:13 final size:13
Alignment explanation
Indices: 2035357--2035382 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2035347 TTCAACAATT
2035357 TGTATCGATACAA
1 TGTATCGATACAA
2035370 TGTATCGATACAA
1 TGTATCGATACAA
2035383 AAGCTACCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2039847 original size:20 final size:20
Alignment explanation
Indices: 2039822--2039875 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
2039812 GTTAAAAGCA
*
2039822 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATAT-ACC
2039842 ATGTATCGATACAATATACC
1 ATGTATCGATACAATATACC
2039862 ATGTATCGATACAA
1 ATGTATCGATACAA
2039876 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATATACC
Found at i:2041155 original size:20 final size:20
Alignment explanation
Indices: 2041130--2041181 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
2041120 TACAAGCCAA
**
2041130 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
2041150 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
2041169 TGTATCGATACAA
1 TGTATCGATACAA
2041182 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:2045830 original size:15 final size:15
Alignment explanation
Indices: 2045810--2045840 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2045800 ATTTCGTTTG
*
2045810 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2045825 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2045840 G
1 G
2045841 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2049851 original size:19 final size:19
Alignment explanation
Indices: 2049814--2049852 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2049804 TCCCGTGTGA
*
2049814 ATGTATGATACAATTTTTG
1 ATGTATGATACAATATTTG
2049833 ATGTATCGATAC-ATATTTG
1 ATGTAT-GATACAATATTTG
2049852 A
1 A
2049853 AAATATAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (19 bp):
ATGTATGATACAATATTTG
Found at i:2049923 original size:13 final size:13
Alignment explanation
Indices: 2049905--2049930 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2049895 CAATTTTTTG
2049905 TGTATCGATACAT
1 TGTATCGATACAT
2049918 TGTATCGATACAT
1 TGTATCGATACAT
2049931 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2049942 original size:32 final size:33
Alignment explanation
Indices: 2049885--2049948 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2049875 TACAAGCCAA
**
2049885 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
2049918 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
2049949 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:2050416 original size:18 final size:15
Alignment explanation
Indices: 2050393--2050463 Score: 61
Period size: 16 Copynumber: 4.5 Consensus size: 15
2050383 TTTTTTCCCC
2050393 TTTTTTTGTTTGTTATT
1 TTTTTTTGTTT-TT-TT
* *
2050410 GTTTTTTGATTTTTT
1 TTTTTTTGTTTTTTT
* **
2050425 ATTCGTTGTTTGTTTT
1 TTTTTTTGTTT-TTTT
2050441 TTTTTTTGTTTTTATT
1 TTTTTTTGTTTTT-TT
2050457 TTTTTTT
1 TTTTTTT
2050464 CAAAAGATGG
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
15 11 0.26
16 23 0.53
17 9 0.21
ACGTcount: A:0.06, C:0.01, G:0.11, T:0.82
Consensus pattern (15 bp):
TTTTTTTGTTTTTTT
Found at i:2050453 original size:29 final size:31
Alignment explanation
Indices: 2050398--2050456 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
2050388 TCCCCTTTTT
2050398 TTGTTTGTTATTGTTTTTTGATTTTTTATTCG
1 TTGTTTGTTATTGTTTTTTGA-TTTTTATTCG
*
2050430 TTGTTTGTT-TTTTTTTTTG-TTTTTATT
1 TTGTTTGTTATTGTTTTTTGATTTTTATT
2050457 TTTTTTTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 8 0.31
31 9 0.35
32 9 0.35
ACGTcount: A:0.07, C:0.02, G:0.14, T:0.78
Consensus pattern (31 bp):
TTGTTTGTTATTGTTTTTTGATTTTTATTCG
Found at i:2055849 original size:13 final size:13
Alignment explanation
Indices: 2055831--2055856 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2055821 CAGGGTAGAT
2055831 TTGTATCAATACA
1 TTGTATCAATACA
2055844 TTGTATCAATACA
1 TTGTATCAATACA
2055857 AAACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
TTGTATCAATACA
Found at i:2056808 original size:33 final size:33
Alignment explanation
Indices: 2056766--2056833 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
2056756 GAGATTGGGT
* *
2056766 ATGGGTTCATATGAGGAAAAAGAAGTTTCCAAA
1 ATGGGTTCATATAAAGAAAAAGAAGTTTCCAAA
*
2056799 ATGGGTTCATATAAAGAAAAAGAGGTTTCCAAA
1 ATGGGTTCATATAAAGAAAAAGAAGTTTCCAAA
2056832 AT
1 AT
2056834 AAAAGAAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.44, C:0.09, G:0.22, T:0.25
Consensus pattern (33 bp):
ATGGGTTCATATAAAGAAAAAGAAGTTTCCAAA
Found at i:2058299 original size:21 final size:21
Alignment explanation
Indices: 2058275--2058325 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
2058265 CTACAATTTG
* *
2058275 TATCAATACAATTAGTGAATA
1 TATCGATACAATAAGTGAATA
*
2058296 TATCGATAC-ATAAGTGAATG
1 TATCGATACAATAAGTGAATA
2058316 TATCGATACA
1 TATCGATACA
2058326 TGTCTGAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (21 bp):
TATCGATACAATAAGTGAATA
Found at i:2058313 original size:20 final size:20
Alignment explanation
Indices: 2058288--2058326 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2058278 CAATACAATT
2058288 AGTGAATATATCGATACATA
1 AGTGAATATATCGATACATA
*
2058308 AGTGAATGTATCGATACAT
1 AGTGAATATATCGATACAT
2058327 GTCTGAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
AGTGAATATATCGATACATA
Found at i:2058444 original size:31 final size:32
Alignment explanation
Indices: 2058409--2058481 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
2058399 TTTCATTGTG
*
2058409 TCGATATATTTTGGG-TTTTGACCCAAATGTA
1 TCGATACATTTTGGGTTTTTGACCCAAATGTA
*
2058440 TCGATACATTTTGGGTTTTTGCCCCAAATGTA
1 TCGATACATTTTGGGTTTTTGACCCAAATGTA
2058472 TCGATACATT
1 TCGATACATT
2058482 CTTCAATGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 14 0.36
32 25 0.64
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (32 bp):
TCGATACATTTTGGGTTTTTGACCCAAATGTA
Found at i:2068547 original size:80 final size:82
Alignment explanation
Indices: 2068414--2068571 Score: 191
Period size: 80 Copynumber: 2.0 Consensus size: 82
2068404 ATTTAGGATA
* * * *
2068414 AAGATTTAGATAGATGTCGCATGACTTAGGGTAAAGTGCTAATGTATTGATTCAAGGCCAAT-GA
1 AAGATTTAGATAGATGTCGCATGACTTAGGGTAAAGTACCAATGTACTAATTCAAGGCC-ATCGA
2068478 CATTAGGCATTAGGGAAT
65 CATTAGGCATTAGGGAAT
* *
2068496 AAGATTT-GATAGATG-CTGCATGAC-TAGGGTAGAA-TACCAATGTGCTAATTCAAGGCCGTCG
1 AAGATTTAGATAGATGTC-GCATGACTTAGGGTA-AAGTACCAATGTACTAATTCAAGGCCATCG
*
2068557 ACATTAGGCTTTAGG
64 ACATTAGGCATTAGG
2068572 AGATACCACT
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
79 1 0.02
80 41 0.62
81 17 0.26
82 7 0.11
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (82 bp):
AAGATTTAGATAGATGTCGCATGACTTAGGGTAAAGTACCAATGTACTAATTCAAGGCCATCGAC
ATTAGGCATTAGGGAAT
Found at i:2068858 original size:32 final size:32
Alignment explanation
Indices: 2068820--2069125 Score: 377
Period size: 32 Copynumber: 9.6 Consensus size: 32
2068810 CATGTAGACC
* * ***
2068820 TTGAAAAGGCTGCCACTAACTTTTGTGGGCTT
1 TTGAAAAGGTTGCCACCAACCCATGTGGGCTT
*
2068852 TTGAAAAGGTTGCCACCAACTCATGTGGGCTT
1 TTGAAAAGGTTGCCACCAACCCATGTGGGCTT
*
2068884 TTGAAAAGGTTGCCACCAACTCATGTGGGCTT
1 TTGAAAAGGTTGCCACCAACCCATGTGGGCTT
*
2068916 TGGAAAAGGTTGCCACCAACCCATGTGGGCTT
1 TTGAAAAGGTTGCCACCAACCCATGTGGGCTT
* *
2068948 TTAAAAAGGTTGCCACCAACCCATATGGGCTT
1 TTGAAAAGGTTGCCACCAACCCATGTGGGCTT
* ** *
2068980 TTGAAAAGGTTGCTACCAACCTGTATGGGC-T
1 TTGAAAAGGTTGCCACCAACCCATGTGGGCTT
* *
2069011 TCGAAAAGGTTGCCACCAACCC-TGTATGGAC-T
1 TTGAAAAGGTTGCCACCAACCCATG--TGGGCTT
*
2069043 TTGAAAAGGTTGCCACCAACCCATATGGGC-T
1 TTGAAAAGGTTGCCACCAACCCATGTGGGCTT
* * **
2069074 TTGAAAAGGTTGCCACCAACTCGTGCAGGCTT
1 TTGAAAAGGTTGCCACCAACCCATGTGGGCTT
2069106 TTGAAAAGGTTGCCACCAAC
1 TTGAAAAGGTTGCCACCAAC
2069126 TTTGCTTTCT
Statistics
Matches: 244, Mismatches: 26, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
30 1 0.00
31 50 0.20
32 192 0.79
33 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.26
Consensus pattern (32 bp):
TTGAAAAGGTTGCCACCAACCCATGTGGGCTT
Found at i:2069806 original size:31 final size:31
Alignment explanation
Indices: 2069768--2069836 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
2069758 TATGGAGAAG
** * *
2069768 AAAAAGGTTACTGCCAATTTATGTGGGCTTT
1 AAAAAGGTTACCACCAATTCATGTGGACTTT
*
2069799 AAAAAGGTTGCCACCAATTCATGTGGACTTT
1 AAAAAGGTTACCACCAATTCATGTGGACTTT
*
2069830 GAAAAGG
1 AAAAAGG
2069837 GTTTAGTTGC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.29
Consensus pattern (31 bp):
AAAAAGGTTACCACCAATTCATGTGGACTTT
Found at i:2069861 original size:37 final size:36
Alignment explanation
Indices: 2069805--2069937 Score: 151
Period size: 37 Copynumber: 3.6 Consensus size: 36
2069795 CTTTAAAAAG
*
2069805 GTTGCCACC-AATTCATGTGGACTTTGAAAAGGGTTTA
1 GTTGCCACCAAATT-GTGTGGACTTTGAAAA-GGTTTA
*
2069842 GTTGCCACCAAATTGTGTGGACTTTGGAAAAGGTTTG
1 GTTGCCACCAAATTGTGTGGACTTT-GAAAAGGTTTA
* * * *
2069879 GTTGCCACCAACTTGTGTGAACTTTAAAAATGATTTA
1 GTTGCCACCAAATTGTGTGGACTTTGAAAA-GGTTTA
* *
2069916 CTTGCCACCAACTTGTGTGGAC
1 GTTGCCACCAAATTGTGTGGAC
2069938 ATCAAAAAGG
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
36 4 0.05
37 71 0.85
38 9 0.11
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.32
Consensus pattern (36 bp):
GTTGCCACCAAATTGTGTGGACTTTGAAAAGGTTTA
Found at i:2070211 original size:16 final size:15
Alignment explanation
Indices: 2070174--2070231 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
2070164 TTGATAAAGA
2070174 TCTTGACAAAAGTTT
1 TCTTGACAAAAGTTT
* *
2070189 TCTTGACACATGTTT
1 TCTTGACAAAAGTTT
*
2070204 TACTTGAC-AAAGATT
1 T-CTTGACAAAAGTTT
*
2070219 T-TTGATAAAAGTT
1 TCTTGACAAAAGTT
2070232 CTTGATGATA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
13 4 0.12
14 5 0.15
15 19 0.56
16 6 0.18
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (15 bp):
TCTTGACAAAAGTTT
Found at i:2070925 original size:13 final size:13
Alignment explanation
Indices: 2070907--2070931 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2070897 CATGCTGCTT
2070907 TGTATCGATACAA
1 TGTATCGATACAA
2070920 TGTATCGATACA
1 TGTATCGATACA
2070932 TGTTCAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2071028 original size:20 final size:19
Alignment explanation
Indices: 2071003--2071055 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
2070993 TATCACTATT
2071003 TGTATCGATACATG-GTATAA
1 TGTATCGATACATGAG-A-AA
2071023 TGTATCGATACATGAAGAAA
1 TGTATCGATACATG-AGAAA
2071043 TGTATCGATACAT
1 TGTATCGATACAT
2071056 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (19 bp):
TGTATCGATACATGAGAAA
Found at i:2078112 original size:18 final size:20
Alignment explanation
Indices: 2078072--2078122 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
2078062 TTTTTATAAA
2078072 AAGGGGGAGAAGATAATTGTTT
1 AAGGGGGAGAA-AT-ATTGTTT
2078094 AAGGGGGAGAAAT-TT-TTT
1 AAGGGGGAGAAATATTGTTT
2078112 AA-GGGGAGAAA
1 AAGGGGGAGAAA
2078123 AACGAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 9 0.31
18 5 0.17
19 2 0.07
21 2 0.07
22 11 0.38
ACGTcount: A:0.39, C:0.00, G:0.37, T:0.24
Consensus pattern (20 bp):
AAGGGGGAGAAATATTGTTT
Found at i:2078119 original size:17 final size:18
Alignment explanation
Indices: 2078086--2078122 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
2078076 GGGAGAAGAT
2078086 AATTGTTTAAGGGGGAGA
1 AATTGTTTAAGGGGGAGA
*
2078104 AATTTTTTAA-GGGGAGA
1 AATTGTTTAAGGGGGAGA
2078121 AA
1 AA
2078123 AACGAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.30
Consensus pattern (18 bp):
AATTGTTTAAGGGGGAGA
Found at i:2078750 original size:20 final size:19
Alignment explanation
Indices: 2078725--2078777 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
2078715 TATCACTATT
2078725 TGTATCGATACATG-GTACAA
1 TGTATCGATACATGAG-A-AA
2078745 TGTATCGATACATGAAGAAA
1 TGTATCGATACATG-AGAAA
2078765 TGTATCGATACAT
1 TGTATCGATACAT
2078778 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (19 bp):
TGTATCGATACATGAGAAA
Found at i:2083577 original size:51 final size:51
Alignment explanation
Indices: 2083517--2083651 Score: 200
Period size: 51 Copynumber: 2.6 Consensus size: 51
2083507 ATTTGCCTAC
* * * *
2083517 ATGTATCGATACATTGACTAATGTATCGATACATTTGGGTAAAAACCCAGA
1 ATGTATCGATACAATGAATAATGTATCGATACATCTAGGTAAAAACCCAGA
*
2083568 ATGTATCGATACAATGAATAATGTATCAATACATCTAGGTAAAAACCCAGA
1 ATGTATCGATACAATGAATAATGTATCGATACATCTAGGTAAAAACCCAGA
*
2083619 ATGTATC-AGTACAATGAATAATGAATCGATACA
1 ATGTATCGA-TACAATGAATAATGTATCGATACA
2083652 AATAGTAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
50 1 0.01
51 75 0.99
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (51 bp):
ATGTATCGATACAATGAATAATGTATCGATACATCTAGGTAAAAACCCAGA
Found at i:2086557 original size:326 final size:327
Alignment explanation
Indices: 2085953--2086589 Score: 902
Period size: 326 Copynumber: 1.9 Consensus size: 327
2085943 AAGGAATAAT
* ** * *
2085953 GAACCAAGAGGGGGGTGAATTGGTTCTTTTCGAATTTTCAGGGTTTTAAAGGATTTTGGAACAAA
1 GAACCAAGAGAGGGGTGAATTGGTTCTTTTCGAATTTT-AGGGTTTTAAACAAATTTGAAACAAA
2086018 ACAATTCAAAAGATAAAAAGGATTGAGGAAGAAAAACTTTGACACAAAAGTTTTATAGAGGTTCG
65 ACAATTCAAAAGATAAAAA-GATTGAGGAAGAAAAACTTTGACACAAAAGTTTTATAGAGGTTCG
* * *
2086083 GTCCAAATCGGCACCTACGTCCTTTCTCCTCGACACTTCCTTGTCGAGTGATTACCCAATTCACT
129 GTCCAAAACGGCACCTACGTCCTCTCTCCTCAACACTTCCTTGTCGAGTGATTACCCAATTCACT
*
2086148 AATAGAATTGATTACCTTTAAGGCAAAGGTATAACCTTACAATCCTTATCTTTTTAAGGCTAAGA
194 AATAGAATTGATTACCTTTAAGGCAAAGGTATAACCTTACAATCCGTATCTTTTTAAGGCTAAGA
* *
2086213 TAACAACCTCTTAATCTC-TT-CAAGAACTATACC-CTAAGTTCCTAAGAGATTGAAAGCTTATC
259 TAACAACCTCTCAATCTCTTTGC-A-AACTATACCAC-AAGTTCCAAAGAGATTGAAAGCTTATC
2086275 AAGTAAC
321 AAGTAAC
*
2086282 GAACCAAGAGAGGGGTGAATTGGTTCTTTTCGAATTTT-GGGTTTTGAACAAATTTGAAACAAAA
1 GAACCAAGAGAGGGGTGAATTGGTTCTTTTCGAATTTTAGGGTTTTAAACAAATTTGAAACAAAA
* * *
2086346 CAATTCGAAATGA-AAAGAA-ATT-AGGGAAGGAAAAC-TTGACACAAGA-TATTTATAGAGGTT
66 CAATTC-AAAAGATAAA-AAGATTGA-GGAAGAAAAACTTTGACACAAAAGT-TTTATAGAGGTT
*
2086406 CGGTCCAAACACGGCACCTACGTCCTCTCTCTTCAACACTTCCTTGTCGAGTGATTACCCAATTC
127 CGGTCCAAA-ACGGCACCTACGTCCTCTCTCCTCAACACTTCCTTGTCGAGTGATTACCCAATTC
*
2086471 ACTAATCGAATTGATTACCTTTAAGGCAAAGGTATAACCTTACAA-CTCGTATC-TTTTACAGGC
191 ACTAATAGAATTGATTACCTTTAAGGCAAAGGTATAACCTTACAATC-CGTATCTTTTTA-AGGC
* *
2086534 TTAGATACCAACCT-TACAATCTCTTTGCAAACTATACCACAAGTTCCAAAGAGATT
254 TAAGATAACAACCTCT-CAATCTCTTTGCAAACTATACCACAAGTTCCAAAGAGATT
2086590 CTCTCTCAAG
Statistics
Matches: 278, Mismatches: 19, Indels: 25
0.86 0.06 0.08
Matches are distributed among these distances:
324 1 0.00
325 39 0.14
326 159 0.57
327 34 0.12
328 8 0.03
329 37 0.13
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (327 bp):
GAACCAAGAGAGGGGTGAATTGGTTCTTTTCGAATTTTAGGGTTTTAAACAAATTTGAAACAAAA
CAATTCAAAAGATAAAAAGATTGAGGAAGAAAAACTTTGACACAAAAGTTTTATAGAGGTTCGGT
CCAAAACGGCACCTACGTCCTCTCTCCTCAACACTTCCTTGTCGAGTGATTACCCAATTCACTAA
TAGAATTGATTACCTTTAAGGCAAAGGTATAACCTTACAATCCGTATCTTTTTAAGGCTAAGATA
ACAACCTCTCAATCTCTTTGCAAACTATACCACAAGTTCCAAAGAGATTGAAAGCTTATCAAGTA
AC
Found at i:2087052 original size:13 final size:13
Alignment explanation
Indices: 2087034--2087059 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2087024 CAACTTTATG
2087034 TGTATCGATACAT
1 TGTATCGATACAT
2087047 TGTATCGATACAT
1 TGTATCGATACAT
2087060 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Done.