Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 38 of 373
Found at i:10948804 original size:31 final size:29
Alignment explanation
Indices: 10948769--10948851 Score: 71
Period size: 31 Copynumber: 2.8 Consensus size: 29
10948759 TGATAAAGCC
10948769 AAGTTTAGGTACCAATTTGAACCAAGAAACT
1 AAGTTTAGGTACCAATTTGAACCAA-AAA-T
* * * * *
10948800 AAGTTCAGGTGCCAAATTGGA-CTAAAAT
1 AAGTTTAGGTACCAATTTGAACCAAAAAT
10948828 AAGTTTTAGGTACCAAATTT-AACC
1 AAG-TTTAGGTACC-AATTTGAACC
10948852 TTAAAGCCAA
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
28 4 0.10
29 12 0.30
30 7 0.17
31 17 0.43
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.28
Consensus pattern (29 bp):
AAGTTTAGGTACCAATTTGAACCAAAAAT
Found at i:10963879 original size:20 final size:20
Alignment explanation
Indices: 10963843--10963882 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10963833 TTAAAAAATT
*
10963843 ATAATTTTTATACTTTTTAA
1 ATAATTTTAATACTTTTTAA
10963863 ATAATTTTAATGA-TTTTTAA
1 ATAATTTTAAT-ACTTTTTAA
10963883 TTTTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (20 bp):
ATAATTTTAATACTTTTTAA
Found at i:10963909 original size:18 final size:19
Alignment explanation
Indices: 10963875--10963912 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
10963865 AATTTTAATG
10963875 ATTTTTAATTTTAAAAAAT
1 ATTTTTAATTTTAAAAAAT
10963894 ATTTTTAATTTTAAAAAAT
1 ATTTTTAATTTTAAAAAAT
10963913 TAATTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTTTAATTTTAAAAAAT
Found at i:10963919 original size:18 final size:19
Alignment explanation
Indices: 10963879--10963919 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
10963869 TTAATGATTT
**
10963879 TTAATTTTAAAAAATATTT
1 TTAATTTTAAAAAATATAA
10963898 TTAATTTTAAAAAAT-TAA
1 TTAATTTTAAAAAATATAA
10963916 TTAA
1 TTAA
10963920 ATATTGATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAATTTTAAAAAATATAA
Found at i:10966032 original size:12 final size:12
Alignment explanation
Indices: 10966015--10966044 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10966005 TTAGGCTATT
10966015 ACATGGCCTAGC
1 ACATGGCCTAGC
*
10966027 ACATGGCCTGGC
1 ACATGGCCTAGC
10966039 ACATGG
1 ACATGG
10966045 ACGTGTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.17
Consensus pattern (12 bp):
ACATGGCCTAGC
Found at i:10987437 original size:75 final size:77
Alignment explanation
Indices: 10987349--10987510 Score: 213
Period size: 75 Copynumber: 2.1 Consensus size: 77
10987339 TTTTTTTTCA
* *
10987349 ATTTTTTAAGGTAAATTGTAAATAAGTATAT-TATTGATGTAAAAATATAATA-GA-ATACAATA
1 ATTTTTT-TGGTAAATTGTAAATAAGTATATCTATTGATGTAAAAATATAATACAATATACAATA
*
10987411 CAAACAAATTTTTT
65 CAAAC-AATTTGTT
* * *
10987425 ATTTTTTTGGTAAATTGTAAATAAGTATATGCTATTGGTGTAAAAATTTATTACAATATACAATA
1 ATTTTTTTGGTAAATTGTAAATAAGTATAT-CTATTGATGTAAAAATATAATACAATATACAATA
10987490 CAAACAATTTGTT
65 CAAACAATTTGTT
*
10987503 CTTTTTTT
1 ATTTTTTT
10987511 TTTATAAACA
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
75 22 0.29
76 7 0.09
77 18 0.24
78 15 0.20
79 13 0.17
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (77 bp):
ATTTTTTTGGTAAATTGTAAATAAGTATATCTATTGATGTAAAAATATAATACAATATACAATAC
AAACAATTTGTT
Found at i:10987793 original size:6 final size:6
Alignment explanation
Indices: 10987779--10987812 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
10987769 TTCCACTTCA
* *
10987779 ACCTAC ACCTCC ACCTCC ACCTCC ACCTCT ACCT
1 ACCTCC ACCTCC ACCTCC ACCTCC ACCTCC ACCT
10987813 AGATCTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.21, C:0.59, G:0.00, T:0.21
Consensus pattern (6 bp):
ACCTCC
Found at i:10993700 original size:68 final size:67
Alignment explanation
Indices: 10993628--10993777 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
10993618 CATCATGTGT
* * * *
10993628 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
10993690 ATGTAG
62 ATGTAG
** * *
10993696 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
10993761 AG
66 AG
10993763 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
10993778 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:10993733 original size:64 final size:64
Alignment explanation
Indices: 10993652--10993835 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
10993642 AGACATTATG
* *
10993652 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
10993716 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
10993781 AA
63 AA
* * * * *
10993783 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCTCCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
10993836 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:10998324 original size:31 final size:31
Alignment explanation
Indices: 10998258--10998326 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
10998248 AGAAGGCACA
*
10998258 TGTCAGGCGACACCAGTAGAAGAAGAGAGAC
1 TGTCAGGCGACACCAGTAGAAGAAGAGACAC
* * * * *
10998289 TGTCAGGCGACACTAGTGGAAGGAGGGACAT
1 TGTCAGGCGACACCAGTAGAAGAAGAGACAC
10998320 TGTCAGG
1 TGTCAGG
10998327 TGGCACCGAA
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:0.32, C:0.17, G:0.36, T:0.14
Consensus pattern (31 bp):
TGTCAGGCGACACCAGTAGAAGAAGAGACAC
Found at i:10998387 original size:30 final size:29
Alignment explanation
Indices: 10998353--10998428 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 29
10998343 TATATTTAAA
*
10998353 TTGAACAGTTGTAGCAATTTGTGTGTTTTC
1 TTGAATAGTTGTAGCAATTT-TGTGTTTTC
* * *
10998383 TTGAATTGTTGTAGTAAATTTTGTGTTTTG
1 TTGAATAGTTGTAG-CAATTTTGTGTTTTC
*
10998413 TTGAATGGTTGTAGCA
1 TTGAATAGTTGTAGCA
10998429 GTTAACCAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 1 0.03
30 33 0.85
31 5 0.13
ACGTcount: A:0.21, C:0.05, G:0.25, T:0.49
Consensus pattern (29 bp):
TTGAATAGTTGTAGCAATTTTGTGTTTTC
Found at i:10999707 original size:39 final size:39
Alignment explanation
Indices: 10999656--10999730 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
10999646 ATGAAGCCTG
*
10999656 CTAGGCACTAAGCCTGATTAACACT-GGCACATAGCCCTA
1 CTAGGCACTAAGCCTGAATAACA-TAGGCACATAGCCCTA
*
10999695 CTAGGCATTAAGCCTGAATAACATAGGCACATAGCC
1 CTAGGCACTAAGCCTGAATAACATAGGCACATAGCC
10999731 TGAATAACAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 1 0.03
39 32 0.97
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (39 bp):
CTAGGCACTAAGCCTGAATAACATAGGCACATAGCCCTA
Found at i:10999730 original size:22 final size:22
Alignment explanation
Indices: 10999705--10999751 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
10999695 CTAGGCATTA
* *
10999705 AGCCTGAATAACATAGGCACAT
1 AGCCTGAATAACACAAGCACAT
10999727 AGCCTGAATAACACAAGCACAT
1 AGCCTGAATAACACAAGCACAT
10999749 AGC
1 AGC
10999752 AGGCACTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.26, G:0.17, T:0.15
Consensus pattern (22 bp):
AGCCTGAATAACACAAGCACAT
Found at i:11004398 original size:24 final size:24
Alignment explanation
Indices: 11004366--11004415 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
11004356 ATACCAAGAC
* *
11004366 AAGTGTACCATTTACAACAAAATT
1 AAGTATACCATCTACAACAAAATT
11004390 AAGTATACCATCTACAACAAAATT
1 AAGTATACCATCTACAACAAAATT
11004414 AA
1 AA
11004416 TCTTGTTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.18, G:0.06, T:0.26
Consensus pattern (24 bp):
AAGTATACCATCTACAACAAAATT
Found at i:11006375 original size:48 final size:48
Alignment explanation
Indices: 11006314--11006433 Score: 240
Period size: 48 Copynumber: 2.5 Consensus size: 48
11006304 ATTACAAACA
11006314 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
1 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
11006362 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
1 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
11006410 TCAATTATTTACCCTATTAACAAA
1 TCAATTATTTACCCTATTAACAAA
11006434 GCTCGGACTA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (48 bp):
TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
Found at i:11008028 original size:5 final size:5
Alignment explanation
Indices: 11008018--11008051 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
11008008 CTTATTTGTT
11008018 TATAA TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATA
11008052 CTTAATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:11008873 original size:5 final size:5
Alignment explanation
Indices: 11008829--11008855 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
11008819 TATTAAATAT
11008829 TAAAA TAAAA TAAAA TAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TA
11008856 TTTTTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:11011857 original size:39 final size:41
Alignment explanation
Indices: 11011778--11011868 Score: 141
Period size: 39 Copynumber: 2.3 Consensus size: 41
11011768 TAAAAAGTAT
* *
11011778 TTATATTAAAAAACACTATCATAAATATAATAAATGTTTTA
1 TTATATTAAAAAACACTATAATAAATATAATAAATATTTTA
11011819 TTATATTAAAAAACAC-A-AATAAATATAATAAATATTTTA
1 TTATATTAAAAAACACTATAATAAATATAATAAATATTTTA
*
11011858 TTGTATTAAAA
1 TTATATTAAAA
11011869 TTTTGTATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 30 0.64
40 1 0.02
41 16 0.34
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.38
Consensus pattern (41 bp):
TTATATTAAAAAACACTATAATAAATATAATAAATATTTTA
Found at i:11011984 original size:20 final size:19
Alignment explanation
Indices: 11011942--11012013 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 19
11011932 CTAATAAATT
*
11011942 TAATTATTATTAAAT-TA-A
1 TAATTAATA-TAAATATATA
11011960 TAATTTAATATAAATATATA
1 TAA-TTAATATAAATATATA
* * *
11011980 TAATTATTATTTAACATATA
1 TAATTAATA-TAAATATATA
11012000 TAATTAATATAAAT
1 TAATTAATATAAAT
11012014 TTTTTATAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
18 8 0.19
19 15 0.35
20 20 0.47
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (19 bp):
TAATTAATATAAATATATA
Found at i:11015978 original size:3 final size:3
Alignment explanation
Indices: 11015970--11015996 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
11015960 TACTGCATTG
11015970 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
11015997 TTTGGCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:11016551 original size:33 final size:30
Alignment explanation
Indices: 11016509--11016584 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 30
11016499 TTTTTTAAAA
11016509 TTTAAAAATTCAAAAAATATATAGAAAATTATT
1 TTTAAAAATT-AAAAAATAT-TA-AAAATTATT
*
11016542 TTTAAAAATTAAAAATTATTAAAAA-T-TT
1 TTTAAAAATTAAAAAATATTAAAAATTATT
* *
11016570 ATTAAACATTAAAAA
1 TTTAAAAATTAAAAA
11016585 CTAATATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
28 15 0.38
29 1 0.03
30 4 0.10
31 2 0.05
32 8 0.20
33 10 0.25
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (30 bp):
TTTAAAAATTAAAAAATATTAAAAATTATT
Found at i:11016572 original size:31 final size:33
Alignment explanation
Indices: 11016509--11016568 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
11016499 TTTTTTAAAA
11016509 TTTAAAAATTCAAAAAATATATAGAAAATTATT
1 TTTAAAAATTCAAAAAATATATAGAAAATTATT
*
11016542 TTTAAAAATT-AAAAATTAT-TA-AAAATT
1 TTTAAAAATTCAAAAAATATATAGAAAATT
11016569 TATTAAACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 6 0.23
31 2 0.08
32 8 0.31
33 10 0.38
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (33 bp):
TTTAAAAATTCAAAAAATATATAGAAAATTATT
Found at i:11017288 original size:31 final size:31
Alignment explanation
Indices: 11017222--11017313 Score: 105
Period size: 31 Copynumber: 2.9 Consensus size: 31
11017212 AACTATGAAG
* * *
11017222 TTTTTTACTCAATTTGGTACTTGAACTTATCA
1 TTTTTT-CTTAATTTGGTACTTAAATTTATCA
*
11017254 TTTTTTCTTAATTTGGTACTTAAATTTGGT-A
1 TTTTTTCTTAATTTGGTACTTAAATTT-ATCA
* *
11017285 TTTTTTCTTAATTTAGTACCTAAATTTAT
1 TTTTTTCTTAATTTGGTACTTAAATTTAT
11017314 TAAATGTTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
30 1 0.02
31 44 0.85
32 7 0.13
ACGTcount: A:0.25, C:0.11, G:0.09, T:0.55
Consensus pattern (31 bp):
TTTTTTCTTAATTTGGTACTTAAATTTATCA
Found at i:11017753 original size:60 final size:57
Alignment explanation
Indices: 11017683--11017853 Score: 175
Period size: 60 Copynumber: 2.9 Consensus size: 57
11017673 ATATCGAATA
* **
11017683 AAAAAAAGTTTAGGTATCAAATTAGGAAAAATAGTCAAATTCAGGTACCAAATTGGACTC
1 AAAAAAAGTTTAAGTA-CAAATTAGGAAAAATAGTCAAATTCAGGTACCAAATT--AAAC
** * ** *
11017743 CCAAAAAGTTTAAGTACCAAGTTAGGAAAAA-ATGTCAAATTTGGGTGCCAAATTAAAC
1 AAAAAAAGTTTAAGTA-CAAATTAGGAAAAATA-GTCAAATTCAGGTACCAAATTAAAC
*
11017801 AAAAAAAGTTTAAGTACTAAATTAGGAAAAAGTA-TCAAGTTCAGGTACCAAAT
1 AAAAAAAGTTTAAGTAC-AAATTAGGAAAAA-TAGTCAAATTCAGGTACCAAAT
11017854 GTTATATTAA
Statistics
Matches: 90, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
57 1 0.01
58 43 0.48
59 1 0.01
60 45 0.50
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (57 bp):
AAAAAAAGTTTAAGTACAAATTAGGAAAAATAGTCAAATTCAGGTACCAAATTAAAC
Found at i:11017852 original size:58 final size:58
Alignment explanation
Indices: 11017683--11017853 Score: 175
Period size: 58 Copynumber: 2.9 Consensus size: 58
11017673 ATATCGAATA
* **
11017683 AAAAAAAGTTTAGGTA-TCAAATTAGGAAAAATAGTCAAATTCAGGTACCAAATTGGACTC
1 AAAAAAAGTTTAAGTACT-AAATTAGGAAAAATA-TCAAATTCAGGTACCAAATT-GAAAC
** * * * ** *
11017743 CCAAAAAGTTTAAGTACCAAGTTAGGAAAAAATGTCAAATTTGGGTGCCAAATT-AAAC
1 AAAAAAAGTTTAAGTACTAAATTAGG-AAAAATATCAAATTCAGGTACCAAATTGAAAC
*
11017801 AAAAAAAGTTTAAGTACTAAATTAGGAAAAAGTATCAAGTTCAGGTACCAAAT
1 AAAAAAAGTTTAAGTACTAAATTAGGAAAAA-TATCAAATTCAGGTACCAAAT
11017854 GTTATATTAA
Statistics
Matches: 88, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
57 5 0.06
58 40 0.45
60 37 0.42
61 6 0.07
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (58 bp):
AAAAAAAGTTTAAGTACTAAATTAGGAAAAATATCAAATTCAGGTACCAAATTGAAAC
Found at i:11017998 original size:24 final size:24
Alignment explanation
Indices: 11017954--11017999 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
11017944 ATATTTATGT
* *
11017954 TTAATTTAAATTATAATAAATTAG
1 TTAATTAAAAATATAATAAATTAG
11017978 TTAATTAAAAATATTAA-AAATT
1 TTAATTAAAAATA-TAATAAATT
11018000 GTATACAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
TTAATTAAAAATATAATAAATTAG
Found at i:11018496 original size:22 final size:23
Alignment explanation
Indices: 11018470--11018515 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
11018460 GACTTTGTTA
11018470 TGGGA-TGTTTTATTTTTGCTAT
1 TGGGATTGTTTTATTTTTGCTAT
* *
11018492 TGGGATTGTTTTCTTTTTGTTAT
1 TGGGATTGTTTTATTTTTGCTAT
11018515 T
1 T
11018516 TCTACTAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.11, C:0.04, G:0.22, T:0.63
Consensus pattern (23 bp):
TGGGATTGTTTTATTTTTGCTAT
Found at i:11020791 original size:49 final size:47
Alignment explanation
Indices: 11020674--11020993 Score: 198
Period size: 46 Copynumber: 6.8 Consensus size: 47
11020664 AGGGTATAAT
* * *
11020674 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGACTCATCAATCAA
* *
11020721 GTCGATGCCATGTCCCAAACATGGTCTTACACTGACT-ATCGAAATCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGACTCATC--AATC-AA
* * **
11020770 GCCGACGCCATGTCCCAAACATGGTCTTACACTGGAAC-C-TCTATACGT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACT-G-ACTCATCAAT-CAA
* * * * * **
11020818 GCCGATGCCATGTCCTAGACATTGTCTTACACTGAAAT-ATC-TTGTA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTG-ACTCATCAATCAA
* * * *
11020864 GCCGATG-CATATCCCAAACAT-GTCTTACCCTGGCTTACATC--TCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGAC-T-CATCAATC-AA
* **
11020910 GCCGATG-CATCTCCCAAACAT-GTCTTACACT-AGCTC-TCGTTTCAA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGA-CTCATC-AATCAA
** *
11020955 TGTTGATGCCATGTCCCAGACATGGTCTTACACTGACTC
1 -GCCGATGCCATGTCCCAAACATGGTCTTACACTGACTC
11020994 TTATAATGTG
Statistics
Matches: 216, Mismatches: 36, Indels: 41
0.74 0.12 0.14
Matches are distributed among these distances:
43 2 0.01
44 12 0.06
45 14 0.06
46 50 0.23
47 50 0.23
48 49 0.23
49 34 0.16
50 3 0.01
51 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGACTCATCAATCAA
Found at i:11023345 original size:46 final size:46
Alignment explanation
Indices: 11023198--11023463 Score: 211
Period size: 46 Copynumber: 5.7 Consensus size: 46
11023188 AGGGTATAAT
* * * *
11023198 GCCGATGCATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCCG-T
1 GCCGATGCATGTCCCAGACAT-GTCTTACACTGGCTCT--CATCT-CGAG
* * * * *
11023247 GCTGATTCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTC-ATA
1 GCCGA-TGCATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCGA-G
* *
11023293 GCCGATGCATGTCCCATACATGTCTTACATTGGCT-TACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAG
* * * *
11023339 GCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCGAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAG
* * * *
11023385 GCAGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGAG
*
11023433 GCCGATGCATGTCCTAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
11023464 AGCACACAAA
Statistics
Matches: 175, Mismatches: 31, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
44 9 0.05
45 16 0.09
46 68 0.39
47 26 0.15
48 25 0.14
49 6 0.03
50 25 0.14
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAG
Found at i:11023413 original size:94 final size:92
Alignment explanation
Indices: 11023296--11023466 Score: 256
Period size: 94 Copynumber: 1.8 Consensus size: 92
11023286 TCTCATAGCC
* * *
11023296 GATGCATGTCCCATACATGTCTTACATTGGCT-TACAT-CTCGAGGCCGATGCATGTCCTAGACA
1 GATGCATGTCCCAAACATGTCTTACACTGGCTCT-CATAAT-GAGGCCGATGCATGTCCTAGACA
11023359 TGTCTTACACTAGCTCTCGTCTCGATGCA
64 TGTCTTACACTAGCTCTCGTCTCGATGCA
*
11023388 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCTAGACA
1 GATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCTAGACA
11023453 TGTCTTACACTAGC
64 TGTCTTACACTAGC
11023467 ACACAAATAA
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
92 4 0.06
93 13 0.18
94 52 0.73
95 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (92 bp):
GATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCTAGACATG
TCTTACACTAGCTCTCGTCTCGATGCA
Found at i:11023454 original size:140 final size:140
Alignment explanation
Indices: 11023198--11023461 Score: 356
Period size: 140 Copynumber: 1.9 Consensus size: 140
11023188 AGGGTATAAT
* *
11023198 GCCGATGCATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCCGTGCTGATTCCATGTCCC
1 GCCGATGCATGTCCTAGACATGGTCTTACACTAGCTCT-ACATATCCGTGCAGATGCCATGTCCC
* * *
11023263 AGACATGGTCTTACACTGACACATCTCATAGCCGATGCATGTCCCATACATGTCTTACATTGGCT
65 AAACATGGTCTTACACTGACACATCTAATAGCCGATGCATGTCCCAGACATGTCTTACATTGGCT
11023328 TACATCTCGAG
130 TACATCTCGAG
* *
11023339 GCCGATGCATGTCCTAGACAT-GTCTTACACTAGCTCT-CGTCT-CGATGCAGATGCCATGTCCC
1 GCCGATGCATGTCCTAGACATGGTCTTACACTAGCTCTACATATCCG-TGCAGATGCCATGTCCC
* * * *
11023401 AAACATGGTCTTACACTGGCTC-TCATAATGTGGCCGATGCATGTCCTAGACATGTCTTACA
65 AAACATGGTCTTACACTGACACATC-TAA--TAGCCGATGCATGTCCCAGACATGTCTTACA
11023462 CTAGCACACA
Statistics
Matches: 108, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
137 4 0.04
138 39 0.36
140 44 0.41
141 21 0.19
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (140 bp):
GCCGATGCATGTCCTAGACATGGTCTTACACTAGCTCTACATATCCGTGCAGATGCCATGTCCCA
AACATGGTCTTACACTGACACATCTAATAGCCGATGCATGTCCCAGACATGTCTTACATTGGCTT
ACATCTCGAG
Found at i:11032505 original size:32 final size:30
Alignment explanation
Indices: 11032435--11032509 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 30
11032425 TAATTCCCCC
* * *
11032435 CCTTTTTTTTTCTTTTCTCTTTTCTTTATT
1 CCTTTTTGTTTCTATTCTATTTTCTTTATT
* *
11032465 TCTATTTTGTTTCTATTCTATTCTTCTTTCCTT
1 CCT-TTTTGTTTCTATTCTATT-TTCTTT-ATT
11032498 CCTTTTTGTTTC
1 CCTTTTTGTTTC
11032510 ACTTAATTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
30 2 0.06
31 15 0.42
32 15 0.42
33 4 0.11
ACGTcount: A:0.05, C:0.21, G:0.03, T:0.71
Consensus pattern (30 bp):
CCTTTTTGTTTCTATTCTATTTTCTTTATT
Found at i:11032756 original size:22 final size:20
Alignment explanation
Indices: 11032728--11032774 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
11032718 ATATAATTTT
*
11032728 TTTATAAATTAATATAATATA
1 TTTATAAACTAA-ATAATATA
11032749 CTTTAT-AACTAAATAATATA
1 -TTTATAAACTAAATAATATA
11032769 TTTATA
1 TTTATA
11032775 TAGTTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 5 0.22
20 8 0.35
21 5 0.22
22 5 0.22
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTATAAACTAAATAATATA
Found at i:11038591 original size:48 final size:47
Alignment explanation
Indices: 11038492--11038951 Score: 351
Period size: 48 Copynumber: 9.7 Consensus size: 47
11038482 TGATGTGTGT
**
11038492 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCACGATATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTTGATATGAGA
* ** * * *
11038539 GCTAGTGTAACACCATGTCTGAAACATGGCATCGACGTTGATATGTGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGATATGAGA
* ***
11038587 GCTAGTGTATA-ACCATGTCTGAGACATGGCATCGGCCACATTATGAGA
1 GCTAGTGTA-AGACCATGTCTGGGACATGGCATCGGCTTGA-TATGAGA
* * * * * * * * **
11038635 GCCAATGTAATACCATGTTTGGAACATGACATCGGCAATGTTGCGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGATATGAGA
* * * * *
11038683 GCCAGTGTAATACCATGTCTGGGACATGGCATCGGTATTGATATGTGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTTGATATGAGA
* **
11038731 GCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCTACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGA-TATGAGA
* * * * * *
11038779 GCCAGCGTAAGACCATGTTTGGAACATGGCATCGG-TAATGTTGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCT--TGATATGAGA
* * *
11038827 GCTAGTGTAAGACCATGTCAGGGACATGGCA-----TTGATATGTGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGAGA
* * * * *
11038869 GCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCCTCGACACGTGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTTGATATGAGA
* * *
11038917 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
11038952 TATTTCAGCC
Statistics
Matches: 323, Mismatches: 74, Indels: 31
0.75 0.17 0.07
Matches are distributed among these distances:
42 35 0.11
44 1 0.00
47 30 0.09
48 256 0.79
49 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGAGA
Found at i:11038780 original size:144 final size:142
Alignment explanation
Indices: 11038495--11038951 Score: 570
Period size: 144 Copynumber: 3.2 Consensus size: 142
11038485 TGTGTGTGCT
* * * * * **
11038495 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCACGATATGAGAGCTAGTGTAACACCATGTCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTGCGAGAGCTAGTGTAACACCATGTCT
**
11038559 GAAACATGGCATCGACGTTGATATGTGCGCTAGTGTATA-ACCATGTCTGAGACATGGCATCGGC
66 GGGACATGGCATCGA--TTGATATGTGCGCTAGTGTA-AGACCATGTCTGAGACATGGCATCGGC
*
11038623 CACATTATGAGAGCC
128 TACATTATGAGAGCC
* * * * *
11038638 AATGTAATACCATGTTTGGAACATGACATCGGCAATGTTGCGAGAGCCAGTGTAATACCATGTCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTGCGAGAGCTAGTGTAACACCATGTCT
* *
11038703 GGGACATGGCATCGGTATTGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCT
66 GGGACATGGCATC-G-ATTGATATGTGCGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCT
11038768 ACATTATGAGAGCC
129 ACATTATGAGAGCC
* * * * *
11038782 AGCGTAAGACCATGTTTGGAACATGGCATCGGTAATGTTGTGAGAGCTAGTGTAAGACCATGTCA
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTGCGAGAGCTAGTGTAACACCATGTCT
11038847 GGGACATGG---C-ATTGATATGTGCGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCCT-
66 GGGACATGGCATCGATTGATATGTGCGCTAGTGTAAGACCATGTCTGAGACATGGCATCGG-CTA
* * *
11038907 CGA-CACGTGAGCC
130 C-ATTATGAGAGCC
11038920 AGTGTAAGACCATGTTTGGAACATGGCATCGG
1 AGTGTAAGACCATGTTTGGAACATGGCATCGG
11038952 TATTTCAGCC
Statistics
Matches: 276, Mismatches: 32, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
138 84 0.30
139 3 0.01
141 1 0.00
143 21 0.08
144 165 0.60
145 1 0.00
146 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (142 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTGCGAGAGCTAGTGTAACACCATGTCT
GGGACATGGCATCGATTGATATGTGCGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCTAC
ATTATGAGAGCC
Found at i:11039641 original size:21 final size:21
Alignment explanation
Indices: 11039600--11039641 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
11039590 TTTTCTTGAA
* *
11039600 TCGAGTCGAGTGAGATGGAAT
1 TCGAGTCGAATGAGATCGAAT
11039621 TCGAGTCGAATCGA-ATCGAAT
1 TCGAGTCGAAT-GAGATCGAAT
11039642 ATATTTGTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (21 bp):
TCGAGTCGAATGAGATCGAAT
Found at i:11040325 original size:30 final size:30
Alignment explanation
Indices: 11040282--11040340 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
11040272 GGAGGTGGAA
*
11040282 TGGGAAGGAAGTAAAAGTTTTAGAGGGAAAG
1 TGGGAAGGAAGTAAAAATTTT-GAGGGAAAG
* *
11040313 TGGG-AGGGAGTAAAAATTTTGGGGGAAA
1 TGGGAAGGAAGTAAAAATTTTGAGGGAAA
11040341 ATAAAATGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.28
30 14 0.56
31 4 0.16
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (30 bp):
TGGGAAGGAAGTAAAAATTTTGAGGGAAAG
Found at i:11040569 original size:9 final size:9
Alignment explanation
Indices: 11040555--11040591 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
11040545 TATAGTTTGA
11040555 TATTCGAAT
1 TATTCGAAT
11040564 TATTCGAAT
1 TATTCGAAT
11040573 TATTC-AAGT
1 TATTCGAA-T
11040582 TATTCGAAT
1 TATTCGAAT
11040591 T
1 T
11040592 TGAAAACTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:11040666 original size:18 final size:18
Alignment explanation
Indices: 11040640--11040674 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11040630 AATCAAGTTG
* *
11040640 ACTCGAATAACTTGATTA
1 ACTCAAATAACTCGATTA
11040658 ACTCAAATAACTCGATT
1 ACTCAAATAACTCGATT
11040675 TGTTTAACTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (18 bp):
ACTCAAATAACTCGATTA
Found at i:11043112 original size:22 final size:22
Alignment explanation
Indices: 11043084--11043128 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
11043074 GCATCATCAC
11043084 CAGATGTGATTACGAGTACTTT
1 CAGATGTGATTACGAGTACTTT
11043106 CAGATGTGATTACGAGTACTTT
1 CAGATGTGATTACGAGTACTTT
11043128 C
1 C
11043129 TCTCTTCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.36
Consensus pattern (22 bp):
CAGATGTGATTACGAGTACTTT
Found at i:11047746 original size:11 final size:11
Alignment explanation
Indices: 11047711--11047759 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
11047701 CAAATCACTT
11047711 TTCAATTTCAAA
1 TTCAA-TTCAAA
* *
11047723 TTCACTTTAAA
1 TTCAATTCAAA
11047734 TTCAA-TCACAA
1 TTCAATTCA-AA
11047745 TTCAATTCAAA
1 TTCAATTCAAA
11047756 TTCA
1 TTCA
11047760 CTTTTCCACT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
10 2 0.06
11 22 0.71
12 7 0.23
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (11 bp):
TTCAATTCAAA
Found at i:11053624 original size:85 final size:85
Alignment explanation
Indices: 11053481--11053661 Score: 344
Period size: 85 Copynumber: 2.1 Consensus size: 85
11053471 TTGGTGGCCA
11053481 CCATTTTTCCCCTTTCCGTTACACCTTTTTGCTGCCATTTTGGTACTGAAATTTTAGTCCTTCCC
1 CCATTTTTCCCCTTTCCGTTACACCTTTTTGCTGCCATTTTGGTACTGAAATTTTAGTCCTTCCC
*
11053546 TGCTCACCTTTTTTCTTAAT
66 TGCTCACCTTTTTCCTTAAT
*
11053566 CCATTTTTCCCCTTTCTGTTACACCTTTTTGCTGCCATTTTGGTACTGAAATTTTAGTCCTTCCC
1 CCATTTTTCCCCTTTCCGTTACACCTTTTTGCTGCCATTTTGGTACTGAAATTTTAGTCCTTCCC
11053631 TGCTCACCTTTTTCCTTAAT
66 TGCTCACCTTTTTCCTTAAT
11053651 CCATTTTTCCC
1 CCATTTTTCCC
11053662 TCTAATTCTT
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.14, C:0.30, G:0.09, T:0.47
Consensus pattern (85 bp):
CCATTTTTCCCCTTTCCGTTACACCTTTTTGCTGCCATTTTGGTACTGAAATTTTAGTCCTTCCC
TGCTCACCTTTTTCCTTAAT
Found at i:11060936 original size:18 final size:18
Alignment explanation
Indices: 11060880--11060941 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 18
11060870 AACTTACCAT
*
11060880 ACCCAATACCCAC-ATAA
1 ACCCAATACCCACAAAAA
11060897 ACCCAA-A-CCA-AAAATCA
1 ACCCAATACCCACAAAA--A
11060914 TACCCAATACCCACAAAAA
1 -ACCCAATACCCACAAAAA
11060933 ACCCAATAC
1 ACCCAATAC
11060942 GCAAGGTTGG
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
15 5 0.14
16 1 0.03
17 7 0.19
18 15 0.41
19 2 0.05
20 3 0.08
21 4 0.11
ACGTcount: A:0.52, C:0.39, G:0.00, T:0.10
Consensus pattern (18 bp):
ACCCAATACCCACAAAAA
Found at i:11067467 original size:17 final size:17
Alignment explanation
Indices: 11067445--11067504 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
11067435 AACTTACCAT
11067445 ACCCAATACCCACATAA
1 ACCCAATACCCACATAA
* * *
11067462 ACCCAA-ACCAAAAATCAT
1 ACCCAATACC-CACAT-AA
* *
11067480 ACCCAATGCCCACACAA
1 ACCCAATACCCACATAA
11067497 ACCCAATA
1 ACCCAATA
11067505 ACCAAGGTTG
Statistics
Matches: 31, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
16 3 0.10
17 17 0.55
18 9 0.29
19 2 0.06
ACGTcount: A:0.48, C:0.40, G:0.02, T:0.10
Consensus pattern (17 bp):
ACCCAATACCCACATAA
Found at i:11075208 original size:26 final size:26
Alignment explanation
Indices: 11075173--11075280 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
11075163 TGAAATGCCC
*
11075173 ATCATAGAACATTTACCTAAACCATT
1 ATCATAGAACATTTACCTAACCCATT
*
11075199 ATCATGGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAACCCATT
* *
11075225 ATCATAGAATATTTACCTAATCCATT
1 ATCATAGAACATTTACCTAACCCATT
*
11075251 ATCATGGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAACCCATT
11075277 ATCA
1 ATCA
11075281 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATAGAACATTTACCTAACCCATT
Found at i:11075250 original size:52 final size:52
Alignment explanation
Indices: 11075173--11075280 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 52
11075163 TGAAATGCCC
11075173 ATCATAGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
11075225 ATCATAGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
11075277 ATCA
1 ATCA
11075281 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (52 bp):
ATCATAGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:11076346 original size:13 final size:12
Alignment explanation
Indices: 11076318--11076371 Score: 53
Period size: 13 Copynumber: 4.7 Consensus size: 12
11076308 AAATAGAAGA
*
11076318 TATTA-TTATAT
1 TATTATTTATTT
11076329 T-TTATTTAGTTT
1 TATTATTTA-TTT
11076341 TATTATTTA-TT
1 TATTATTTATTT
11076352 T-TTATTTATTTT
1 TATTATTTA-TTT
11076364 TATTATTT
1 TATTATTT
11076372 TAGGATTAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
10 10 0.28
11 7 0.19
12 6 0.17
13 13 0.36
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (12 bp):
TATTATTTATTT
Found at i:11076347 original size:23 final size:23
Alignment explanation
Indices: 11076318--11076371 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 23
11076308 AAATAGAAGA
11076318 TATTA-TTATATTTTATTTAGTTT
1 TATTATTTAT-TTTTATTTAGTTT
*
11076341 TATTATTTATTTTTATTTATTTT
1 TATTATTTATTTTTATTTAGTTT
11076364 TATTATTT
1 TATTATTT
11076372 TAGGATTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 25 0.86
24 4 0.14
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (23 bp):
TATTATTTATTTTTATTTAGTTT
Found at i:11076369 original size:9 final size:10
Alignment explanation
Indices: 11076323--11076372 Score: 57
Period size: 10 Copynumber: 4.7 Consensus size: 10
11076313 GAAGATATTA
11076323 TTATATTTTAT
1 TTAT-TTTTAT
11076334 TTAGTTTTATTAT
1 TTA--TTT-TTAT
11076347 TTATTTTTAT
1 TTATTTTTAT
11076357 TTATTTTTA-
1 TTATTTTTAT
11076366 TTATTTT
1 TTATTTT
11076373 AGGATTAAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
9 7 0.19
10 13 0.36
11 6 0.17
12 2 0.06
13 8 0.22
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (10 bp):
TTATTTTTAT
Found at i:11091224 original size:201 final size:201
Alignment explanation
Indices: 11090861--11091261 Score: 653
Period size: 201 Copynumber: 2.0 Consensus size: 201
11090851 ACGCCAAATG
*
11090861 ACGTTCGAGCAAAAACTCACAGTTAACAGGTGCAAAATTGACAGGTGTAGAAGCAGGGTTAGCAC
1 ACGTTCAAGCAAAAACTCACAGTTAACAGGTGCAAAATTGACAGGTGTAGAAGCAGGGTTAGCAC
* * *
11090926 TAGTAATCTGCTGAAACGCTCTAATCATAGCTTCTATAAAGAGGGTCTACACCCTTATCAGGTAT
66 TAGTAATCTACTGAAACGCTCGAATCATAGCTTCTATAAAGAGGGTCTACACCCTCATCAGGTAT
* *
11090991 GTTCACTCTACGCAGCGGCACAAGAGGTGCAAAGAATGTACCATCCTCTTGAGCGCTAGCTCTCG
131 GTTCACTCTACGCAGCGGCACAAGAAGTGCAAAGAATGTACCATCCTCTTGAGCGCTAGCTCTCA
11091056 CATTAC
196 CATTAC
* * *
11091062 ACGTTCAAGCAAAAACTCATAGTTAACAGGTGCAAGATTGACAGGTGTAGGAGCAGGGTTAGCAC
1 ACGTTCAAGCAAAAACTCACAGTTAACAGGTGCAAAATTGACAGGTGTAGAAGCAGGGTTAGCAC
*
11091127 TAGTAATCTACTGAAATGCTCGAATCATAGCTTCTATAAAGAGGGTCTACACCCTCATCAGGTAT
66 TAGTAATCTACTGAAACGCTCGAATCATAGCTTCTATAAAGAGGGTCTACACCCTCATCAGGTAT
* * *
11091192 GTTCACTCTACGCGGC-G-ATATAGAAAGTGCAAAGAATGTACCATCTTCTTGAGCGCTAGCTCT
131 GTTCACTCTACGCAGCGGCACA-AG-AAGTGCAAAGAATGTACCATCCTCTTGAGCGCTAGCTCT
11091255 CACATTA
194 CACATTA
11091262 ACACATCTAG
Statistics
Matches: 185, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
199 2 0.01
200 3 0.02
201 180 0.97
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (201 bp):
ACGTTCAAGCAAAAACTCACAGTTAACAGGTGCAAAATTGACAGGTGTAGAAGCAGGGTTAGCAC
TAGTAATCTACTGAAACGCTCGAATCATAGCTTCTATAAAGAGGGTCTACACCCTCATCAGGTAT
GTTCACTCTACGCAGCGGCACAAGAAGTGCAAAGAATGTACCATCCTCTTGAGCGCTAGCTCTCA
CATTAC
Found at i:11091719 original size:20 final size:20
Alignment explanation
Indices: 11091694--11091738 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
11091684 TTATCTCGAG
11091694 TAATTATGATTGAAATAAGT
1 TAATTATGATTGAAATAAGT
11091714 TAATTATGATTGAAATAAGT
1 TAATTATGATTGAAATAAGT
*
11091734 GAATT
1 TAATT
11091739 TTACTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (20 bp):
TAATTATGATTGAAATAAGT
Found at i:11095132 original size:21 final size:18
Alignment explanation
Indices: 11095103--11095143 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 18
11095093 AACCGTGACA
11095103 TTACATAATCTGAATGATCT
1 TTACATAATCTG-AT-ATCT
11095123 TTACAATAATCTGATATCT
1 TTAC-ATAATCTGATATCT
11095142 TT
1 TT
11095144 TTCAAAACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 6 0.30
21 8 0.40
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (18 bp):
TTACATAATCTGATATCT
Found at i:11099510 original size:20 final size:21
Alignment explanation
Indices: 11099483--11099547 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 21
11099473 CCTAATCAAT
11099483 ATACGACACATAAGTGCCTGA
1 ATACGACACATAAGTGCCTGA
* * *
11099504 A-ACGACACACGAGGTGCCTAAA
1 ATACGACACA-TAAGTGCCT-GA
11099526 ATACGACACATAAAGTGCCTGA
1 ATACGACACAT-AAGTGCCTGA
11099548 TCGGCAAAGC
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 8 0.24
21 8 0.24
22 3 0.09
23 15 0.44
ACGTcount: A:0.40, C:0.25, G:0.20, T:0.15
Consensus pattern (21 bp):
ATACGACACATAAGTGCCTGA
Found at i:11099932 original size:13 final size:13
Alignment explanation
Indices: 11099901--11099938 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
11099891 TATTCATAAA
11099901 TTAATTCACTTTAT
1 TTAATTCA-TTTAT
11099915 TTAATTCATATT-T
1 TTAATTCAT-TTAT
11099928 TTAATTCATTT
1 TTAATTCATTT
11099939 TCTAATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.09
13 11 0.48
14 10 0.43
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (13 bp):
TTAATTCATTTAT
Found at i:11100939 original size:3 final size:3
Alignment explanation
Indices: 11100931--11100956 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11100921 ATTAGTTAAC
11100931 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
11100957 ATATCTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11101386 original size:5 final size:5
Alignment explanation
Indices: 11101376--11101429 Score: 65
Period size: 5 Copynumber: 11.0 Consensus size: 5
11101366 TATTTATTTC
* * * *
11101376 ATAAT ATAAT ATAAC ATAAT ATAAT ATAAT ATAAT -TATT ATAAT TTAAC
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
11101425 ATAAT
1 ATAAT
11101430 TAAATTTATA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
4 3 0.08
5 37 0.93
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:11102459 original size:6 final size:6
Alignment explanation
Indices: 11102440--11102480 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
11102430 CTGTATTTGT
*
11102440 ATCTGG ATAC-GG ATCTGG ATCTAG ATCTGG ATCTGG ATCTG
1 ATCTGG AT-CTGG ATCTGG ATCTGG ATCTGG ATCTGG ATCTG
11102481 TAATTGCATC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 1 0.03
6 29 0.94
7 1 0.03
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (6 bp):
ATCTGG
Found at i:11103643 original size:20 final size:20
Alignment explanation
Indices: 11103614--11103652 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11103604 ACGGCGCGCG
*
11103614 CAAATGGTTGTTTTTTTTAA
1 CAAATAGTTGTTTTTTTTAA
11103634 CAAATAGTTGTTTTTTTTA
1 CAAATAGTTGTTTTTTTTA
11103653 GTATCCAGCA
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:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (20 bp):
CAAATAGTTGTTTTTTTTAA
Found at i:11106528 original size:27 final size:27
Alignment explanation
Indices: 11106462--11106516 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
11106452 ATCAATAAAG
*
11106462 TACATTATTTATTACTTTCATATTTTC
1 TACATTCTTTATTACTTTCATATTTTC
11106489 TACATTCTTTATTACTTTCATATTTTC
1 TACATTCTTTATTACTTTCATATTTTC
11106516 T
1 T
11106517 TTGTTCTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.60
Consensus pattern (27 bp):
TACATTCTTTATTACTTTCATATTTTC
Found at i:11113421 original size:28 final size:27
Alignment explanation
Indices: 11113388--11113440 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
11113378 TTAAAATCTA
*
11113388 AAAAATAAAGAGATTAAATTCCTAAAAT
1 AAAAATAAAGAAATTAAATT-CTAAAAT
* *
11113416 AAAAATCAAGAAATTGAATTCTAAA
1 AAAAATAAAGAAATTAAATTCTAAA
11113441 TTTACAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.25
Consensus pattern (27 bp):
AAAAATAAAGAAATTAAATTCTAAAAT
Found at i:11122652 original size:32 final size:32
Alignment explanation
Indices: 11122629--11122747 Score: 159
Period size: 32 Copynumber: 3.8 Consensus size: 32
11122619 TAACAAACGT
* *
11122629 CCCATTTTGGTAATTAATATTGTAGCAAACAA
1 CCCATTTCGGTAACTAATATTGTAGCAAACAA
* *
11122661 CCCATTTCGGTAGCTAATATCGTAGCAAACAA
1 CCCATTTCGGTAACTAATATTGTAGCAAACAA
* * * *
11122693 CCCATTTCAGTAATTAATAATGTAGCAAACGA
1 CCCATTTCGGTAACTAATATTGTAGCAAACAA
11122725 CCCATTTCGGTAACTAAT-TTGTA
1 CCCATTTCGGTAACTAATATTGTA
11122748 AGGTAACCCA
Statistics
Matches: 74, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
31 4 0.05
32 70 0.95
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.31
Consensus pattern (32 bp):
CCCATTTCGGTAACTAATATTGTAGCAAACAA
Found at i:11125096 original size:36 final size:36
Alignment explanation
Indices: 11125020--11125096 Score: 82
Period size: 36 Copynumber: 2.1 Consensus size: 36
11125010 TAACAGAATT
** * *
11125020 AACAATAAAATAATAATTATATAGTATCGAAATAAT
1 AACAATAAAATAATAACAATATAGTAACGAAATAAC
* * * *
11125056 AACAATAAAATAGTAACAATATATTAACGAGATGAC
1 AACAATAAAATAATAACAATATAGTAACGAAATAAC
11125092 AACAA
1 AACAA
11125097 AATAACAGCA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.58, C:0.09, G:0.08, T:0.25
Consensus pattern (36 bp):
AACAATAAAATAATAACAATATAGTAACGAAATAAC
Found at i:11129338 original size:163 final size:161
Alignment explanation
Indices: 11129033--11129358 Score: 553
Period size: 163 Copynumber: 2.0 Consensus size: 161
11129023 GACCATTTAT
* * * *
11129033 GGAACATGCAAGACCATGGATATATAGTGGTTCCTTGTCCTAAAAGTAGCATATGAAATAAGCAT
1 GGAACATGCAAGACCATAGATATATACTAGTTCATTGTCCTAAAAGTAGCATATGAAATAAGCAT
* *
11129098 TTATCTTTATGTGATTCCATCATCTGAAAACATGATAAGCCATTCAACATAACACTAGGATGTTA
66 CTATCTTTATGTGATTCCATCATCTGAAAACATGATAAGCCACTCAACATAACACTAGGATGTTA
11129163 AGATTAGGTGCTAATTGATAATTGAGTGTAA
131 AGATTAGGTGCTAATTGATAATTGAGTGTAA
*
11129194 GGAACATGCAAGACCATAGATATATACTAGTTCATTGTCCTACAAGTAGCATATGAAATAAGCAT
1 GGAACATGCAAGACCATAGATATATACTAGTTCATTGTCCTAAAAGTAGCATATGAAATAAGCAT
* *
11129259 CTATCTTTATATGTGATTCCATCATCTGAAAACATGATAAGCCACTCAGCTTAACACTAGGATGT
66 CTATC-TT-TATGTGATTCCATCATCTGAAAACATGATAAGCCACTCAACATAACACTAGGATGT
11129324 TAAGATTAGGTGCTAATTGATAATTGAGTGTAA
129 TAAGATTAGGTGCTAATTGATAATTGAGTGTAA
11129357 GG
1 GG
11129359 TGATAATCTT
Statistics
Matches: 154, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
161 64 0.42
162 2 0.01
163 88 0.57
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (161 bp):
GGAACATGCAAGACCATAGATATATACTAGTTCATTGTCCTAAAAGTAGCATATGAAATAAGCAT
CTATCTTTATGTGATTCCATCATCTGAAAACATGATAAGCCACTCAACATAACACTAGGATGTTA
AGATTAGGTGCTAATTGATAATTGAGTGTAA
Found at i:11138004 original size:483 final size:483
Alignment explanation
Indices: 11137098--11138067 Score: 1611
Period size: 483 Copynumber: 2.0 Consensus size: 483
11137088 CACAACTTCA
*
11137098 TGCAGTTGGGTTCTCTCCTCTTGAGTTGCACTGAGCAGCTGCCCTGCTTCCAGAAGCTCATTCTC
1 TGCAGTTGGGTTCTCTCCTCTTGAGTTGCACTGAGCAGCTGCCCTGCTTCCAAAAGCTCATTCTC
* * * * *
11137163 CTTCTGGCATAGTAGATCCTTTCCCTTCACGACTTCGTCATTTAACTGATTGCAAACAGATTTAA
66 CTTCAGGCATAATAGATCCTTTCCCTTCACAACTTCATCATTTAACTGATTGCAAACAGATCTAA
* *
11137228 CTGAAACTAGCTCATTCTCCAAGTTCTGCACCTTATCCTTGAGATGTGAGTTTACCATTTGCGTT
131 CTGAAACTAGCCCATTCTCCAAGTTCTGCACCTTATCCTTGAGATGTAAGTTTACCATTTGCGTT
11137293 TCTTCAAACTTGATCCCCATTATCCTCAGTTTTCCCTCAAGATCATCATTGAAACATTTGAGTTT
196 TCTTCAAACTTGATCCCCATTATCCTCAGTTTTCCCTCAAGATCATCATTGAAACATTTGAGTTT
11137358 ATCCAGATTGGCCATGAGATGCTTTATTTCAACAAAATTATCAGTAATAATGTCCTTGAGAATAA
261 ATCCAGATTGGCCATGAGATGCTTTATTTCAACAAAATTATCAGTAATAATGTCCTTGAGAATAA
* * *
11137423 GCGAAATGTTACTTTGAGATACTGCTTCAGCAAAGACAGCGCAGTTTTCCTCTTCTAGATTGTGT
326 GAGAAATGTTACTTTGAGATACTGCTTCAGCAAAGACAGCACAATTTTCCTCTTCTAGATTGTGT
*
11137488 TTCTCCTTGCCCAAGTCTGAAACAAACTTCATCAAAGTCCTTTTCTCATCTAGCACCTTGTGGTT
391 TTCTCCTTGCCCAAATCTGAAACAAACTTCATCAAAGTCCTTTTCTCATCTAGCACCTTGTGGTT
*
11137553 CTCTTCAACTGAACTTTGATATGCGCTT
456 CTCTTCAACTGAACTTTGATATGCCCTT
* * * * *
11137581 TGCAGTTGGTTTCTCTCCTCTTGAGTTGCACTGAGCATCTTCTCTGCTTCCAAAAGCTCCTTCTC
1 TGCAGTTGGGTTCTCTCCTCTTGAGTTGCACTGAGCAGCTGCCCTGCTTCCAAAAGCTCATTCTC
11137646 CTTCAGGCATAATAGATCCTTTCCCTTCACAACTTCATCATTTAACTGATTGCAAACAGATCTAA
66 CTTCAGGCATAATAGATCCTTTCCCTTCACAACTTCATCATTTAACTGATTGCAAACAGATCTAA
*
11137711 CTGAAACTAGCCCATTCTCCAAGTTCTGCA-CTGTATCCTTGAGATGTAAGTTTACCATTTGTGT
131 CTGAAACTAGCCCATTCTCCAAGTTCTGCACCT-TATCCTTGAGATGTAAGTTTACCATTTGCGT
* * **
11137775 TTCTTCAAGCTTGATCTCCATTATCCTCAGTTTTCCCTCAAGATTGTCATTGAAACATTTGAGTT
195 TTCTTCAAACTTGATCCCCATTATCCTCAGTTTTCCCTCAAGATCATCATTGAAACATTTGAGTT
* *
11137840 TATCCAGATTGG-CACTGAGATGCTTTATTTCCACAAAATTATCAGTAATAATGTTCTTGAGAAT
260 TATCCAGATTGGCCA-TGAGATGCTTTATTTCAACAAAATTATCAGTAATAATGTCCTTGAGAAT
* * *
11137904 AAGAGCAATGTTACTTTGAGATATTGCTTCGGCAAAGACAGCACAATTTTCCTCTTCTAGATTGT
324 AAGAGAAATGTTACTTTGAGATACTGCTTCAGCAAAGACAGCACAATTTTCCTCTTCTAGATTGT
*** *
11137969 GTTTCTCCTTGCCCAAATCTGAAACTTCCTTCATCAAAGTCCTTTTCTCGTCTAGCACCTTGTGG
389 GTTTCTCCTTGCCCAAATCTGAAACAAACTTCATCAAAGTCCTTTTCTCATCTAGCACCTTGTGG
*
11138034 TTCTCTTCAATTGAACTTTGATATGCCCTT
454 TTCTCTTCAACTGAACTTTGATATGCCCTT
11138064 TGCA
1 TGCA
11138068 ACTCTGATAG
Statistics
Matches: 452, Mismatches: 33, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
482 4 0.01
483 448 0.99
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.36
Consensus pattern (483 bp):
TGCAGTTGGGTTCTCTCCTCTTGAGTTGCACTGAGCAGCTGCCCTGCTTCCAAAAGCTCATTCTC
CTTCAGGCATAATAGATCCTTTCCCTTCACAACTTCATCATTTAACTGATTGCAAACAGATCTAA
CTGAAACTAGCCCATTCTCCAAGTTCTGCACCTTATCCTTGAGATGTAAGTTTACCATTTGCGTT
TCTTCAAACTTGATCCCCATTATCCTCAGTTTTCCCTCAAGATCATCATTGAAACATTTGAGTTT
ATCCAGATTGGCCATGAGATGCTTTATTTCAACAAAATTATCAGTAATAATGTCCTTGAGAATAA
GAGAAATGTTACTTTGAGATACTGCTTCAGCAAAGACAGCACAATTTTCCTCTTCTAGATTGTGT
TTCTCCTTGCCCAAATCTGAAACAAACTTCATCAAAGTCCTTTTCTCATCTAGCACCTTGTGGTT
CTCTTCAACTGAACTTTGATATGCCCTT
Found at i:11140384 original size:855 final size:847
Alignment explanation
Indices: 11138727--11141698 Score: 3289
Period size: 855 Copynumber: 3.4 Consensus size: 847
11138717 CAGACTTTCT
* * * *
11138727 CCTTGTAGGAAATGGATCTGAGATTCCATAGAAGTAGCCCTGGTTTCATTCAACTTCACAAAACT
1 CCTTGTAGAAAATGGATCTGAGATTCCATAGAAGTAACTCGGGTTTCATTCAACTTCACAAAACT
* **
11138792 AGCATGTTGC-TGCTTTTCAGCATCTAATGACCTTTGTAG-TTCTTCTACTTCATGAAGCATTGA
66 AGCATGTT-CTTGCTTTTCAGCATCTAATGACTTTTGTAGCTT-TTCTACTTCATGAAGTGTTGA
* *
11138855 TTCTCTCTCTTTCTCCAGGA-CCTCATACTTTTCTTCTAATCCCTGATATCTATTTTCCAAATCT
129 TTCTCTCTCTTTCTCCA-GACCCACATATTTTTCTTCTAATCCCTGATATCT-TTTTCCAAATCT
* * *
11138919 TCCATCCTTTTCTGACTGATATTCAACTCAGAAATCAAACCTTCTCTCTGTGTTAGCAAACCAGA
192 TCCAGCCTTTTCTGACTGACATTCAACTCAG-AATCAAACCTTCTCTCTGTGTTAGCAGACCAGA
* *
11138984 CTTCTCATCACCAAGCAGCTGGTATGAAATTTCTAAGCTCTTTAATTTTGTAC-TCAATCCTTCA
256 CTTCTCATCACCAAGCAGCTGGTATGAAATTTCTAAGCTCTTTAATTTT-TCCTTCAAACCTTCA
* * * *
11139048 ACTTCAGCATTTGCATCACAAAGATAATTCTTCACTTCTGAAAACTGCTCAGACTGAACCTTCAA
320 ACTTCAGCATTTGCATCACAAAGATGATTCTCCACTTCTGAAAATTGCTCGGACTGAACCTTCAA
*
11139113 TTCCTGATGCAGTGAGTTATTTTCTGTTGCAAGATTTTCAGCCTCTAGCTTCAGTTGCCCAAGCA
385 CTCCTGATGCAGTGAGTTATTTTCTGTTGCAAGATTTTCAGCCTCTAG-TTCAGTTGCCCAAGCA
* *
11139178 ATCCAATAAGAACTGAATTCTCAATTATGATTTGCTGATTTTCATCCAGAGACTTCAAAAGTGAA
449 ATCCAATAAGAACTGAATTCTCAATTATGAATTGCTGATTTTCATCCAGAGACTT-TAAAGTGAA
* * *
11139243 TTTTGCATCTTTTGGAGTCTGCCAAATATACAGTCAAGAACTGATTGGTCTTGTTTGATCATGTC
513 TTTTGCATCTTTTGGAGCCTGCCAAATATACAGTCAAGAACTGATTGGTCTTGTTTGAT-TTATC
* * * *
11139308 ATCATAACTATGGATAGCATCAATCCCAAGAGTCCTCAACATCTGATTAAGCCCCATCCTTAATA
577 ATCATAACCATGGATA-CATCAATACCAAGAGTCCTCAACATCTGA-TAAGCCCCATCCTCAGTA
* *
11139373 TGGTAATTAGATCAAATAAGGATTTTATCTCCATCTGTTTTCTGGAATTTCCTAGCTCCAATTCA
640 TAGTAATTAGATCAAATAAGGATTTTATCTCCATCTGTTTT-TGGAATTTCCAAGCTCCAATTCA
* * ** * *
11139438 GAGATAAGTATTTCA-GACAATTTCAACGCTTCCAAGAGCTTCCTACACTCAAGCAATAGGGATA
704 GAGATAAGT-TTTTAGGA-AAATTGGAGGCTTCCAAGAGTTTCCTACACTCAAGCAATAGGGATA
* * *
11139502 AATTATTCTCTTCCAGATCTCGTGCACATCTCTGCAAAACGAAGGTTTCTACATGAGCATCCATG
767 AATTCTTCTCTTCCAGATCTTGTGCACATCTCTGCAAAATGAAGGTTTCTACATGAGCATCCATG
11139567 G-CCTTGTCAAGTTCC
832 GTCCTTGTCAAGTTCC
*
11139582 CCTTGTAGAAAATGGATCTGAGATACCATAGAAGTAACTCGGGTTTCATTCAACTTCACAAAACT
1 CCTTGTAGAAAATGGATCTGAGATTCCATAGAAGTAACTCGGGTTTCATTCAACTTCACAAAACT
* * * * * *
11139647 AGCATGTTCTTCCATTTCAGCATCCAATGACTTTTGTAGCTTTTGTACTCCATGAAGTGCTGATT
66 AGCATGTTCTTGCTTTTCAGCATCTAATGACTTTTGTAGCTTTTCTACTTCATGAAGTGTTGATT
* * *
11139712 CTCTCTCTTTCTCCAAACCCACATATTTTTCTTCTAATTCCTGATATCGTTTTTCCAAATCTTTC
131 CTCTCTCTTTCTCCAGACCCACATATTTTTCTTCTAATCCCTGATATC-TTTTTCCAAATCTTCC
* *
11139777 AGCCTTTTCTGGCTGACATTCAACTCAGAAGTCAAACCTTCTCTCTGTGTTAGCAGACCAAACTT
195 AGCCTTTTCTGACTGACATTCAACTCAGAA-TCAAACCTTCTCTCTGTGTTAGCAGACCAGACTT
11139842 CTCATCACCAAGCAGCTGGTATGAAATTTCTAAGCTCTTTAATTTTTCCTTCAAACCTTCAACTT
259 CTCATCACCAAGCAGCTGGTATGAAATTTCTAAGCTCTTTAATTTTTCCTTCAAACCTTCAACTT
*
11139907 CAGCATTTGCATCACAAAGATGATTCTCCACTTCTGAAAATTGCTCGGACTGAACCTTCAGCTCC
324 CAGCATTTGCATCACAAAGATGATTCTCCACTTCTGAAAATTGCTCGGACTGAACCTTCAACTCC
*
11139972 TGATGCAGTGAATTATTTTCTGTTGCAAGATTTTCAGCCTCTAGTTCCAGTTGCCCAAGCAATCC
389 TGATGCAGTGAGTTATTTTCTGTTGCAAGATTTTCAGCCTCTAGTT-CAGTTGCCCAAGCAATCC
* *
11140037 AATAAGAACTGAATTCTCAATTATGAACTGCTGATTTTCGTCCAGAGACTTTAGAAGTGAATTTT
453 AATAAGAACTGAATTCTCAATTATGAATTGCTGATTTTCATCCAGAGACTTTA-AAGTGAATTTT
** * *
11140102 GCATCTTTTGGAGCCTGCCTGATATACAGTCAAGTACTGATTGATCTTGTTTGATTGTATCATCA
517 GCATCTTTTGGAGCCTGCCAAATATACAGTCAAGAACTGATTGGTCTTGTTTGATT-TATCATCA
* * *
11140167 TAACCACGGATACCATCAAAACCAAGAGTCCTCAACATCTGATAGAGCCCCATCCTCAGTAAAGT
581 TAACCATGGATA-CATCAATACCAAGAGTCCTCAACATCTGATA-AGCCCCATCCTCAGTATAGT
* * * * * *
11140232 GATTTGATCAGATAAGGATTCTATCTCCACCTGTTTTTGGGAATTTCCAAGCTCCAACTCAGAGA
644 AATTAGATCAAATAAGGATTTTATCTCCATCTGTTTTT-GGAATTTCCAAGCTCCAATTCAGAGA
* * * *
11140297 TAAGTTTTTTGGATAATCTGGAGGCTTCCAAGAGTTTGCTACACTCACGCAATAGGGATAAATTC
708 TAAGTTTTTAGGAAAAT-TGGAGGCTTCCAAGAGTTTCCTACACTCAAGCAATAGGGATAAATTC
* * *
11140362 TTCACTTCGAGATCTTGTGCACATCTCTGCAAAATGAAGGTTTCTACATGAGCATTCATGGCCTT
772 TTCTCTTCCAGATCTTGTGCACATCTCTGCAAAATGAAGGTTTCTACATGAG----CAT--CCAT
*
11140427 GTCCAGTTCCTTCTCGTATTCTTTCTTCCTGCATAGACTTTCT
831 G----G-TCC-T-T-G-------------T-CA-AG---TTCC
* * ** * *
11140470 CCTTGTAGAAAATGGATTTGAGATTCCATAGAAGTGACTCGGACTTCATTCGACTTCACAAATCT
1 CCTTGTAGAAAATGGATCTGAGATTCCATAGAAGTAACTCGGGTTTCATTCAACTTCACAAAACT
* * * **
11140535 AGCATGTTCTTGCTTTTCCGCATCTAGTGACTTTTGTAGCTCTTCTACTTCACAAAGTGTTGATT
66 AGCATGTTCTTGCTTTTCAGCATCTAATGACTTTTGTAGCTTTTCTACTTCATGAAGTGTTGATT
* * *
11140600 CTCTCACTTTCTCCAGACCCACATATTTTTCCTCTAATCCCTGATATCTTTCCTCCAAATCTTCC
131 CTCTCTCTTTCTCCAGACCCACATATTTTTCTTCTAATCCCTGATATCTTT-TTCCAAATCTTCC
*
11140665 AGCCTTTTCTGACTGACATTCAACTCAGATATCAAACCTTCTCTCTGTGTTAGCAGGCCAGACTT
195 AGCCTTTTCTGACTGACATTCAACTCAGA-ATCAAACCTTCTCTCTGTGTTAGCAGACCAGACTT
* * * * ** * * * *
11140730 CTCTTCACCAAGCAGCAGGCATGAACTTTCTAAGCTC-TTAAGTTTCGCTCTTGATA-TTTCAAG
259 CTCATCACCAAGCAGCTGGTATGAAATTTCTAAGCTCTTTAA-TTTTTC-CTTCAAACCTTCAAC
* * * * * * * *
11140793 TTCAGCATTTGTATTAAAAAG-GGAAGTCTCCAATTCTGAGAACTT-CTCGAACTGAACCTTCAA
322 TTCAGCATTTGCATCACAAAGATG-ATTCTCCACTTCTGA-AAATTGCTCGGACTGAACCTTCAA
* * * * * *
11140856 CTCCTGGTGCAGTGAGTTCTTCTCTGTGGCAAGATTTTCTGCCTCAAGTTTCAGTTGCCCAAGCA
385 CTCCTGATGCAGTGAGTTATTTTCTGTTGCAAGATTTTCAGCCTCTAG-TTCAGTTGCCCAAGCA
* *
11140921 ATCCAATAAGAACTGAATTCTCAATTATGAATTGCTGATTATCATCCAGAGACTTTAAATGTGAG
449 ATCCAATAAGAACTGAATTCTCAATTATGAATTGCTGATTTTCATCCAGAGACTTTAAA-GTGAA
* * *
11140986 TTCTT-CATCTTTTGGATCCCT-CCAAATATACAGTCAAGGACTAATTGGTCTTGTTTGATCTTA
513 TT-TTGCATCTTTTGGA-GCCTGCCAAATATACAGTCAAGAACTGATTGGTCTTGTTTGAT-TTA
** * *
11141049 TCATCATAACCATGG--ACATCAATTTCAAGAG-CCTTCAGCATTTGATAAAGCCCCATCCTCAG
575 TCATCATAACCATGGATACATCAATACCAAGAGTCC-TCAACATCTGAT-AAGCCCCATCCTCAG
* * **
11141111 TATAGTAATTCGATCAAATAAGGATTTTATCTCCATCTCTTTTTTGGAATTTCTGAGCTCCAATT
638 TATAGTAATTAGATCAAATAAGGATTTTATCTCCATCT-GTTTTTGGAATTTCCAAGCTCCAATT
* * *
11141176 CAGAGATAAGTTTTTCAGAAAAATTGGAGGCTTCCAGGAGTTTCCTACACTCAAACAATAGGGAT
702 CAGAGATAAGTTTTT-AGGAAAATTGGAGGCTTCCAAGAGTTTCCTACACTCAAGCAATAGGGAT
* * *
11141241 AAATTCTTCTCTTCCATATCTTGTGCACATTTCTGCAAGATGAAGGTTTCTACATGAGCATTCAT
766 AAATTCTTCTCTTCCAGATCTTGTGCACATCTCTGCAAAATGAAGGTTTCTACATGAGCA-TC--
* *
11141306 GGACCTGTCCAGTTCCTCTTCATATTCTTTCTTTCTGCACAGACTTTCC
828 ---CATG----G-------------TC---C-TTGT-CA-AG---TTCC
* * **
11141355 CCTTGTAGAAAACT-GATCTGAGATTCCATAGCAGTAACTCGGGTTTCATTCAACTGCATGAAAC
1 CCTTGTAGAAAA-TGGATCTGAGATTCCATAGAAGTAACTCGGGTTTCATTCAACTTCACAAAAC
* * * * *
11141419 TGGCATATTCTTGCTTTTCCA-CATCTAGTGACTTTTGTAGCTCTTCTACTTCACT-AAGTGTTA
65 TAGCATGTTCTTGCTTTT-CAGCATCTAATGACTTTTGTAGCTTTTCTACTTCA-TGAAGTGTTG
* ** * *
11141482 ATTCTCTCTCTTTCTCCAGGCCCATGTATTTTTCTTCTAAACCCTGATATCTTTTTTCCGAATCT
128 ATTCTCTCTCTTTCTCCAGACCCACATATTTTTCTTCTAATCCCTGATATC-TTTTTCCAAATCT
* * * * * * * * **
11141547 TCCAACCTTTCCTGACTGATACTCAACTCAGAAATCAAGCCTTCTCTTTGTCTTATCAGGGCAGA
192 TCCAGCCTTTTCTGACTGACATTCAACTCAG-AATCAAACCTTCTCTCTGTGTTAGCAGACCAGA
* * ** * ** * * * *
11141612 CTTCTCATCACCAAGCAGCAGGCATGAGTTTTCTAAGCTCATTACCTTTACCCTCAATCCTCCAA
256 CTTCTCATCACCAAGCAGCTGGTATGAAATTTCTAAGCTCTTTAATTTTTCCTTCAAACCTTCAA
* * *
11141677 GTTCAGCATGTGCATCAAAAAG
321 CTTCAGCATTTGCATCACAAAG
11141699 GGAATTCTCC
Statistics
Matches: 1808, Mismatches: 220, Indels: 148
0.83 0.10 0.07
Matches are distributed among these distances:
854 17 0.01
855 724 0.40
856 3 0.00
859 3 0.00
861 4 0.00
865 1 0.00
867 2 0.00
868 1 0.00
869 1 0.00
870 1 0.00
880 1 0.00
881 2 0.00
882 1 0.00
883 1 0.00
884 7 0.00
885 489 0.27
886 21 0.01
887 10 0.01
888 494 0.27
889 18 0.01
897 3 0.00
899 1 0.00
900 3 0.00
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (847 bp):
CCTTGTAGAAAATGGATCTGAGATTCCATAGAAGTAACTCGGGTTTCATTCAACTTCACAAAACT
AGCATGTTCTTGCTTTTCAGCATCTAATGACTTTTGTAGCTTTTCTACTTCATGAAGTGTTGATT
CTCTCTCTTTCTCCAGACCCACATATTTTTCTTCTAATCCCTGATATCTTTTTCCAAATCTTCCA
GCCTTTTCTGACTGACATTCAACTCAGAATCAAACCTTCTCTCTGTGTTAGCAGACCAGACTTCT
CATCACCAAGCAGCTGGTATGAAATTTCTAAGCTCTTTAATTTTTCCTTCAAACCTTCAACTTCA
GCATTTGCATCACAAAGATGATTCTCCACTTCTGAAAATTGCTCGGACTGAACCTTCAACTCCTG
ATGCAGTGAGTTATTTTCTGTTGCAAGATTTTCAGCCTCTAGTTCAGTTGCCCAAGCAATCCAAT
AAGAACTGAATTCTCAATTATGAATTGCTGATTTTCATCCAGAGACTTTAAAGTGAATTTTGCAT
CTTTTGGAGCCTGCCAAATATACAGTCAAGAACTGATTGGTCTTGTTTGATTTATCATCATAACC
ATGGATACATCAATACCAAGAGTCCTCAACATCTGATAAGCCCCATCCTCAGTATAGTAATTAGA
TCAAATAAGGATTTTATCTCCATCTGTTTTTGGAATTTCCAAGCTCCAATTCAGAGATAAGTTTT
TAGGAAAATTGGAGGCTTCCAAGAGTTTCCTACACTCAAGCAATAGGGATAAATTCTTCTCTTCC
AGATCTTGTGCACATCTCTGCAAAATGAAGGTTTCTACATGAGCATCCATGGTCCTTGTCAAGTT
CC
Found at i:11141699 original size:885 final size:884
Alignment explanation
Indices: 11139578--11141709 Score: 2791
Period size: 885 Copynumber: 2.4 Consensus size: 884
11139568 CCTTGTCAAG
*
11139578 TTCCCCTTGTAGAAAATGGATCTGAGATACCATAGAAGTAACTCGGGTTTCATTCAACTTCACAA
1 TTCCCCTTGTAGAAAATGGATCTGAGATTCCATAGAAGTAACTCGGGTTTCATTCAACTTCA-AA
* * * * * * *
11139643 AACTAGCATGTTCTTCCATTT-CAGCATCCAATGACTTTTGTAGCTTTTGTACTCCA-TGAAGTG
65 AACTAGCATGTTCTTGCTTTTCCA-CATCTAGTGACTTTTGTAGCTCTTCTACTTCACT-AAGTG
* * * *
11139706 CTGATTCTCTCTCTTTCTCCAAACCCACATATTTTTCTTCTAATTCCTGATATCGTTTTTCCAAA
128 TTGATTCTCTCTCTTTCTCCAGACCCACATATTTTTCTTCTAATCCCTGATATCTTTTTTCCAAA
* * * *
11139771 TCTTTCAGCCTTTTCTGGCTGACATTCAACTCAGAAGTCAAACCTTCTCTCTGTGTTAGCAGACC
193 TCTTCCAGCCTTTTCTGACTGACATTCAACTCAGAAATCAAACCTTCTCTCTGTGTTAGCAGGCC
* * * * * *
11139836 AAACTTCTCATCACCAAGCAGCTGGTATGAAATTTCTAAGCTCTTTAATTTTTCCTTCAAACCTT
258 AGACTTCTCATCACCAAGCAGCAGGCATGAAATTTCTAAGCTC-TTAA-CTTTCCCTCAATCCTT
* * * * *
11139901 CAACTTCAGCATTTGCATCACAAAGATG-ATTCTCCACTTCTGAAAATTGCTCGGACTGAACCTT
321 CAAGTTCAGCATTTGCATCAAAAAG-GGAATTCTCCAATTCTGAAAATTGCTCGAACTGAACCTT
* * * *
11139965 CAGCTCCTGATGCAGTGAATTATTTTCTGTTGCAAGATTTTCAGCCTCTAGTTCCAGTTGCCCAA
385 CAACTCCTGATGCAGTGAATTATTCTCTGTGGCAAGATTTTCAGCCTCAAGTTCCAGTTGCCCAA
* *
11140030 GCAATCCAATAAGAACTGAATTCTCAATTATGAACTGCTGATTTTCGTCCAGAGACTTTAGAAGT
450 GCAATCCAATAAGAACTGAATTCTCAATTATGAACTGCTGATTATCATCCAGAGACTTTAGAAGT
* ** * *
11140095 GAATTTTGCATCTTTTGGAGCCTGCCTGATATACAGTCAAGTACTGATTGATCTTGTTTGATTGT
515 GAATTTTGCATCTTTTGGACCCTGCCAAATATACAGTCAAGGACTAATTGATCTTGTTTGATTGT
*
11140160 ATCATCATAACCACGGATACCATCAAAACCAAGAGTCCTCAACATCTGATAGAGCCCCATCCTCA
580 ATCATCATAACCACGGA-ACCATCAAAACCAAGAGTCCTCAACATCTGATAAAGCCCCATCCTCA
* * * *
11140225 GTAAAGTGATTTGATCAGATAAGGATTCTATCTCCACCTGTTTTTGGGAATTTCCAAGCTCCAAC
644 GTAAAGTAATTCGATCAAATAAGGATTCTATCTCCACCTCTTTTTGGGAATTTCCAAGCTCCAAC
* * * * **
11140290 TCAGAGATAAGTTTTTTGGATAATCTGGAGGCTTCCAAGAGTTTGCTACACTCACGCAATAGGGA
709 TCAGAGATAAGTTTTTAGAAAAATCTGGAGGCTTCCAAGAGTTTCCTACACTCAAACAATAGGGA
*
11140355 TAAATTCTTCACTTCGAGATCTTGTGCACATCTCTGCAAAATGAAGGTTTCTACATGAGCATTCA
774 TAAATTCTTCACTTCCAGATCTTGTGCACATCTCTGCAAAATGAAGGTTTCTACATGAGCATTCA
* *
11140420 TGGCCTTGTCCAGTTCCTTCTCGTATTCTTTCTTCCTGCATAGACT
839 TGGCCTTGTCCAGTTCCTTCTCATATTCTTTCTTCCTGCACAGACT
* * * ** *
11140466 TTCTCCTTGTAGAAAATGGATTTGAGATTCCATAGAAGTGACTCGGACTTCATTCGACTTCACAA
1 TTCCCCTTGTAGAAAATGGATCTGAGATTCCATAGAAGTAACTCGGGTTTCATTCAACTTCA-AA
* * *
11140531 ATCTAGCATGTTCTTGCTTTTCCGCATCTAGTGACTTTTGTAGCTCTTCTACTTCACAAAGTGTT
65 AACTAGCATGTTCTTGCTTTTCCACATCTAGTGACTTTTGTAGCTCTTCTACTTCACTAAGTGTT
* * **
11140596 GATTCTCTCACTTTCTCCAGACCCACATATTTTTCCTCTAATCCCTGATATCTTTCCTCCAAATC
130 GATTCTCTCTCTTTCTCCAGACCCACATATTTTTCTTCTAATCCCTGATATCTTTTTTCCAAATC
*
11140661 TTCCAGCCTTTTCTGACTGACATTCAACTCAGATATCAAACCTTCTCTCTGTGTTAGCAGGCCAG
195 TTCCAGCCTTTTCTGACTGACATTCAACTCAGAAATCAAACCTTCTCTCTGTGTTAGCAGGCCAG
* * * ** **
11140726 ACTTCTCTTCACCAAGCAGCAGGCATGAACTTTCTAAGCTCTTAAGTTTCGCTCTTGATATTTCA
260 ACTTCTCATCACCAAGCAGCAGGCATGAAATTTCTAAGCTCTTAACTTTC-C-CTCAATCCTTCA
* * * *
11140791 AGTTCAGCATTTGTATTAAAAAGGGAAGTCTCCAATTCTGAGAACTT-CTCGAACTGAACCTTCA
323 AGTTCAGCATTTGCATCAAAAAGGGAATTCTCCAATTCTGA-AAATTGCTCGAACTGAACCTTCA
* * * * *
11140855 ACTCCTGGTGCAGTGAGTTCTTCTCTGTGGCAAGATTTTCTGCCTCAAGTTTCAGTTGCCCAAGC
387 ACTCCTGATGCAGTGAATTATTCTCTGTGGCAAGATTTTCAGCCTCAAGTTCCAGTTGCCCAAGC
*
11140920 AATCCAATAAGAACTGAATTCTCAATTATGAATTGCTGATTATCATCCAGAGACTTTA-AATGTG
452 AATCCAATAAGAACTGAATTCTCAATTATGAACTGCTGATTATCATCCAGAGACTTTAGAA-GTG
* *
11140984 AGTTCTT-CATCTTTTGGATCCCT-CCAAATATACAGTCAAGGACTAATTGGTCTTGTTTGATCT
516 AATT-TTGCATCTTTTGGA-CCCTGCCAAATATACAGTCAAGGACTAATTGATCTTGTTTGAT-T
* *** * *
11141047 -TATCATCATAACCATGG-A-CATCAATTTCAAGAG-CCTTCAGCATTTGATAAAGCCCCATCCT
578 GTATCATCATAACCACGGAACCATCAAAACCAAGAGTCC-TCAACATCTGATAAAGCCCCATCCT
* * * * **
11141108 CAGTATAGTAATTCGATCAAATAAGGATTTTATCTCCATCTCTTTTTTGGAATTTCTGAGCTCCA
642 CAGTAAAGTAATTCGATCAAATAAGGATTCTATCTCCACCTCTTTTTGGGAATTTCCAAGCTCCA
* *
11141173 ATTCAGAGATAAGTTTTTCAGAAAAAT-TGGAGGCTTCCAGGAGTTTCCTACACTCAAACAATAG
707 ACTCAGAGATAAGTTTTT-AGAAAAATCTGGAGGCTTCCAAGAGTTTCCTACACTCAAACAATAG
* * * *
11141237 GGATAAATTCTTCTCTTCCATATCTTGTGCACATTTCTGCAAGATGAAGGTTTCTACATGAGCAT
771 GGATAAATTCTTCACTTCCAGATCTTGTGCACATCTCTGCAAAATGAAGGTTTCTACATGAGCAT
*
11141302 TCATGGACC-TGTCCAGTTCC-TCTTCATATTCTTTCTTTCTGCACAGACT
836 TCATGG-CCTTGTCCAGTTCCTTC-TCATATTCTTTCTTCCTGCACAGACT
* * *
11141351 TTCCCCTTGTAGAAAACT-GATCTGAGATTCCATAGCAGTAACTCGGGTTTCATTCAACTGCATG
1 TTCCCCTTGTAGAAAA-TGGATCTGAGATTCCATAGAAGTAACTCGGGTTTCATTCAACTTCA-A
* *
11141415 AAACTGGCATATTCTTGCTTTTCCACATCTAGTGACTTTTGTAGCTCTTCTACTTCACTAAGTGT
64 AAACTAGCATGTTCTTGCTTTTCCACATCTAGTGACTTTTGTAGCTCTTCTACTTCACTAAGTGT
* * ** * *
11141480 TAATTCTCTCTCTTTCTCCAGGCCCATGTATTTTTCTTCTAAACCCTGATATCTTTTTTCCGAAT
129 TGATTCTCTCTCTTTCTCCAGACCCACATATTTTTCTTCTAATCCCTGATATCTTTTTTCCAAAT
* * * * * * * * *
11141545 CTTCCAACCTTTCCTGACTGATACTCAACTCAGAAATCAAGCCTTCTCTTTGTCTTATCAGGGCA
194 CTTCCAGCCTTTTCTGACTGACATTCAACTCAGAAATCAAACCTTCTCTCTGTGTTAGCAGGCCA
** * *
11141610 GACTTCTCATCACCAAGCAGCAGGCATGAGTTTTCTAAGCTCATTACCTTTACCCTCAATCCTCC
259 GACTTCTCATCACCAAGCAGCAGGCATGAAATTTCTAAGCTC-TTAACTTT-CCCTCAATCCTTC
*
11141675 AAGTTCAGCATGTGCATCAAAAAGGGAATTCTCCA
322 AAGTTCAGCATTTGCATCAAAAAGGGAATTCTCCA
11141710 GCACGTTATT
Statistics
Matches: 1075, Mismatches: 152, Indels: 37
0.85 0.12 0.03
Matches are distributed among these distances:
884 4 0.00
885 537 0.50
886 20 0.02
887 9 0.01
888 494 0.46
889 11 0.01
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (884 bp):
TTCCCCTTGTAGAAAATGGATCTGAGATTCCATAGAAGTAACTCGGGTTTCATTCAACTTCAAAA
ACTAGCATGTTCTTGCTTTTCCACATCTAGTGACTTTTGTAGCTCTTCTACTTCACTAAGTGTTG
ATTCTCTCTCTTTCTCCAGACCCACATATTTTTCTTCTAATCCCTGATATCTTTTTTCCAAATCT
TCCAGCCTTTTCTGACTGACATTCAACTCAGAAATCAAACCTTCTCTCTGTGTTAGCAGGCCAGA
CTTCTCATCACCAAGCAGCAGGCATGAAATTTCTAAGCTCTTAACTTTCCCTCAATCCTTCAAGT
TCAGCATTTGCATCAAAAAGGGAATTCTCCAATTCTGAAAATTGCTCGAACTGAACCTTCAACTC
CTGATGCAGTGAATTATTCTCTGTGGCAAGATTTTCAGCCTCAAGTTCCAGTTGCCCAAGCAATC
CAATAAGAACTGAATTCTCAATTATGAACTGCTGATTATCATCCAGAGACTTTAGAAGTGAATTT
TGCATCTTTTGGACCCTGCCAAATATACAGTCAAGGACTAATTGATCTTGTTTGATTGTATCATC
ATAACCACGGAACCATCAAAACCAAGAGTCCTCAACATCTGATAAAGCCCCATCCTCAGTAAAGT
AATTCGATCAAATAAGGATTCTATCTCCACCTCTTTTTGGGAATTTCCAAGCTCCAACTCAGAGA
TAAGTTTTTAGAAAAATCTGGAGGCTTCCAAGAGTTTCCTACACTCAAACAATAGGGATAAATTC
TTCACTTCCAGATCTTGTGCACATCTCTGCAAAATGAAGGTTTCTACATGAGCATTCATGGCCTT
GTCCAGTTCCTTCTCATATTCTTTCTTCCTGCACAGACT
Found at i:11147128 original size:37 final size:39
Alignment explanation
Indices: 11147087--11147171 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 39
11147077 GGAATATTTT
*
11147087 TATTTTATCT-TTTAA-TAGTTTATTAGAATAAGGGAAC
1 TATTTTATATATTTAAGTAGTTTATTAGAATAAGGGAAC
*
11147124 TATTTTCTTTTATATTTAAGTAGTTTATTAGAATAAGGGAAC
1 TA--TT-TTATATATTTAAGTAGTTTATTAGAATAAGGGAAC
11147166 TATTTT
1 TATTTT
11147172 CCCAATTAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
37 2 0.05
39 4 0.10
40 6 0.15
41 5 0.12
42 24 0.59
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (39 bp):
TATTTTATATATTTAAGTAGTTTATTAGAATAAGGGAAC
Found at i:11151007 original size:19 final size:18
Alignment explanation
Indices: 11150978--11151017 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
11150968 GTATATATTT
11150978 TAAATTTATTTAGGTAGA
1 TAAATTTATTTAGGTAGA
11150996 TAAATCTTATTTAGGTAGA
1 TAAAT-TTATTTAGGTAGA
11151015 TAA
1 TAA
11151018 GTTTCATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.42
Consensus pattern (18 bp):
TAAATTTATTTAGGTAGA
Found at i:11152810 original size:30 final size:30
Alignment explanation
Indices: 11152776--11152832 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
11152766 AAAATATGTT
*
11152776 ATAAGTTTTTGTATTTTTTATTTATTTTTA
1 ATAAGTTTTTGTATTTTTTATATATTTTTA
11152806 ATAAGTTTTTGTATTTTTTATATATTT
1 ATAAGTTTTTGTATTTTTTATATATTT
11152833 AGAACTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (30 bp):
ATAAGTTTTTGTATTTTTTATATATTTTTA
Found at i:11159040 original size:57 final size:60
Alignment explanation
Indices: 11158976--11159108 Score: 175
Period size: 60 Copynumber: 2.2 Consensus size: 60
11158966 ACATTTTTTT
11158976 TAATTTGGTACCTAAA-TTTTGTTAT-C-CAATTTGGTACTTGAACTTGACACTTT-TTCC
1 TAATTTGGTACCTAAACTTTT-TTATGCTCAATTTGGTACTTGAACTTGACACTTTGTTCC
* * *
11159033 TAATTTGGTACCTAAACTTTTTTTTGGCTCAATTTGGTACTTGAACTTGCCATTTTGTTCC
1 TAATTTGGTACCTAAACTTTTTTAT-GCTCAATTTGGTACTTGAACTTGACACTTTGTTCC
* *
11159094 TAACTTAGTACCTAA
1 TAATTTGGTACCTAA
11159109 GCTGTCGAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
57 19 0.29
58 4 0.06
59 1 0.02
60 25 0.38
61 17 0.26
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (60 bp):
TAATTTGGTACCTAAACTTTTTTATGCTCAATTTGGTACTTGAACTTGACACTTTGTTCC
Found at i:11159785 original size:21 final size:23
Alignment explanation
Indices: 11159738--11159791 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
11159728 CATTCAAGAT
**
11159738 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
11159761 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
11159782 AAAAT-ATATA
1 AAAATAATATA
11159792 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:11160040 original size:17 final size:15
Alignment explanation
Indices: 11160000--11160045 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
11159990 ATATAAATAG
*
11160000 AAATAAAAATATAAC
1 AAATAGAAATATAAC
*
11160015 AAATAGAAATATAAT
1 AAATAGAAATATAAC
11160030 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
11160046 ATAGATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 15 0.56
16 1 0.04
17 11 0.41
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (15 bp):
AAATAGAAATATAAC
Found at i:11160048 original size:44 final size:44
Alignment explanation
Indices: 11159994--11160083 Score: 105
Period size: 44 Copynumber: 2.0 Consensus size: 44
11159984 ATTAGTATAT
11159994 AAATAGAAATA-A-AAATATAACAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* * *
11160038 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATATTAG
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
11160082 AA
1 AA
11160084 TAACAAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
44 30 0.75
45 5 0.12
46 5 0.12
ACGTcount: A:0.66, C:0.01, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:11160065 original size:15 final size:15
Alignment explanation
Indices: 11160038--11160082 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
11160028 ATAATAGTAG
*
11160038 AAATATAAA-TAGAT
1 AAATAAAAATTAGAT
11160052 AAATAAAAATTAGAT
1 AAATAAAAATTAGAT
11160067 AAATAATAATATTAGA
1 AAATAA-AA-ATTAGA
11160083 ATAACAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 8 0.30
15 11 0.41
16 2 0.07
17 6 0.22
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (15 bp):
AAATAAAAATTAGAT
Found at i:11160660 original size:5 final size:5
Alignment explanation
Indices: 11160652--11160678 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
11160642 ATAATTTAAT
11160652 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
11160679 ATTATATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:11161397 original size:31 final size:31
Alignment explanation
Indices: 11161349--11161420 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
11161339 CAAAGATTAA
* * * *
11161349 GTACCAACTTAAGAAAAAATGTCAAGTTTTG
1 GTACCAAATTAAAAAAAAATGTCAAATTTAG
11161380 GTACCAAATTAAAAAAAAATGTCAAATTTAG
1 GTACCAAATTAAAAAAAAATGTCAAATTTAG
*
11161411 ATACCAAATT
1 GTACCAAATT
11161421 GAACTAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.28
Consensus pattern (31 bp):
GTACCAAATTAAAAAAAAATGTCAAATTTAG
Found at i:11163029 original size:18 final size:19
Alignment explanation
Indices: 11162991--11163031 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
11162981 TTGGTTCATG
11162991 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
11163010 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
11163028 TTTC
1 TTTC
11163032 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:11163591 original size:25 final size:26
Alignment explanation
Indices: 11163557--11163628 Score: 78
Period size: 24 Copynumber: 2.9 Consensus size: 26
11163547 CACATATAAC
11163557 ATATAAATTCAATTCAATTCAATCA-
1 ATATAAATTCAATTCAATTCAATCAT
* *
11163582 ATATAAATTCAA-TAAATTC-ATTAT
1 ATATAAATTCAATTCAATTCAATCAT
* * *
11163606 ATATAAAATCAATCCATTTCAAT
1 ATATAAATTCAATTCAATTCAAT
11163629 TATAAAACAC
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
23 3 0.08
24 17 0.45
25 16 0.42
26 2 0.05
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.38
Consensus pattern (26 bp):
ATATAAATTCAATTCAATTCAATCAT
Found at i:11164352 original size:26 final size:26
Alignment explanation
Indices: 11164321--11164381 Score: 122
Period size: 26 Copynumber: 2.3 Consensus size: 26
11164311 CCTGCTATTC
11164321 TGTTTCTTTCCTTCTTTTTATTCTTT
1 TGTTTCTTTCCTTCTTTTTATTCTTT
11164347 TGTTTCTTTCCTTCTTTTTATTCTTT
1 TGTTTCTTTCCTTCTTTTTATTCTTT
11164373 TGTTTCTTT
1 TGTTTCTTT
11164382 TATATATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.03, C:0.18, G:0.05, T:0.74
Consensus pattern (26 bp):
TGTTTCTTTCCTTCTTTTTATTCTTT
Found at i:11164523 original size:13 final size:12
Alignment explanation
Indices: 11164491--11164524 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
11164481 TTCTTATATA
11164491 TATATAATAACT
1 TATATAATAACT
11164503 TA-ATAATATACT
1 TATATAATA-ACT
11164515 TATATAATAA
1 TATATAATAA
11164525 GTAAACATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATAACT
Found at i:11165156 original size:15 final size:15
Alignment explanation
Indices: 11165124--11165161 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
11165114 CCAATTATCC
11165124 TTAATTAAGTTAAAT
1 TTAATTAAGTTAAAT
*
11165139 TTACTTAA-TTAAATT
1 TTAATTAAGTTAAA-T
11165154 TTAATTAA
1 TTAATTAA
11165162 CCACTCACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (15 bp):
TTAATTAAGTTAAAT
Found at i:11166961 original size:42 final size:43
Alignment explanation
Indices: 11166724--11166993 Score: 213
Period size: 43 Copynumber: 6.3 Consensus size: 43
11166714 ACCCCTCTAT
* * * * * *
11166724 AGAACATAAACTTTAGCGGTGCTTTTTCCACAAACACCGCTAT
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* * * * *
11166767 AGAACATGACTTTTATCGGTGC-TTTACCGCAAACG-CGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* ***** * * **
11166808 AGAACATGACATTTAGTTATACTTTTCTCACAAACACTACTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* * * ***
11166851 ATAACATGGCCTTTAGTGGCGCTTTTTTTACAAACGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
** * *
11166894 AGAACATGACCTTTAATGACGCTTTTCCCACAAACGCCGCTAT
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* * *
11166937 AGAACA-GACCTTTAGCGGCACTTTTCTCACGAACGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
11166979 AGAACATGACCTTTA
1 AGAACATGACCTTTA
11166994 AAAAAATATT
Statistics
Matches: 177, Mismatches: 47, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
41 21 0.12
42 54 0.31
43 102 0.58
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (43 bp):
AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
Found at i:11166984 original size:85 final size:86
Alignment explanation
Indices: 11166744--11166994 Score: 274
Period size: 85 Copynumber: 3.0 Consensus size: 86
11166734 CTTTAGCGGT
* * * * * *
11166744 GCTTTTTCCACAAACACCGCTATAGAACATGACTTTTATCGGTGCTTTAC-CGCAAACG-CGCTA
1 GCTTTTCCCACAAACACCGCTATAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTA
* * * *
11166807 AAGAACATGACATTTAGTTAT
66 AAGAACATGACCTTTAATGAC
* * ** * * * * * *
11166828 ACTTTTCTCACAAACACTACTAAATAACATGGCCTTTAGTGGCGCTTTTTTTACAAACGCCGCTA
1 GCTTTTCCCACAAACACCGCTATAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTA
11166893 AAGAACATGACCTTTAATGAC
66 AAGAACATGACCTTTAATGAC
* * *
11166914 GCTTTTCCCACAAACGCCGCTATAGAACA-GACCTTTAGCGGCACTTTTCTCACGAACGCCGCTA
1 GCTTTTCCCACAAACACCGCTATAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTA
11166978 AAGAACATGACCTTTAA
66 AAGAACATGACCTTTAA
11166995 AAAAATATTT
Statistics
Matches: 132, Mismatches: 33, Indels: 3
0.79 0.20 0.02
Matches are distributed among these distances:
84 36 0.27
85 52 0.39
86 44 0.33
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (86 bp):
GCTTTTCCCACAAACACCGCTATAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTA
AAGAACATGACCTTTAATGAC
Found at i:11167205 original size:12 final size:12
Alignment explanation
Indices: 11167190--11167248 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
11167180 CAAGTTATCT
*
11167190 TAAATATTAAAA
1 TAAAAATTAAAA
*
11167202 TAAAAATAAAAA
1 TAAAAATTAAAA
*
11167214 TAAAAATTTAGAA
1 TAAAAA-TTAAAA
* *
11167227 TCAAAACTAAAA
1 TAAAAATTAAAA
*
11167239 TAAATATTAA
1 TAAAAATTAA
11167249 TAAAATAAGA
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
12 27 0.75
13 9 0.25
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (12 bp):
TAAAAATTAAAA
Found at i:11167254 original size:15 final size:16
Alignment explanation
Indices: 11167234--11167263 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11167224 GAATCAAAAC
11167234 TAAAATAA-ATATTAA
1 TAAAATAAGATATTAA
11167249 TAAAATAAGATATTA
1 TAAAATAAGATATTA
11167264 TAATGAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
TAAAATAAGATATTAA
Found at i:11174390 original size:26 final size:26
Alignment explanation
Indices: 11174335--11174407 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
11174325 TCTCATCCCT
* **
11174335 ATTTTACCCCTAGCAAAATTTTGATG
1 ATTTTACCCCTAGTAAAATTTTGACA
11174361 ATTTTACCCCTAGTAAAATTTTGACA
1 ATTTTACCCCTAGTAAAATTTTGACA
* * *
11174387 ATTTTGCCTCTGGTAAAATTT
1 ATTTTACCCCTAGTAAAATTT
11174408 CGAGAAAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACA
Found at i:11174826 original size:29 final size:30
Alignment explanation
Indices: 11174779--11174846 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
11174769 TGGCCCAAGA
* * *
11174779 GTAAATACTCAAAATTTGAGGGATTAA-AAT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAAT
* *
11174809 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAAT
11174839 GTAAATAT
1 GTAAATAT
11174847 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.47, C:0.04, G:0.19, T:0.29
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAAT
Found at i:11177272 original size:46 final size:46
Alignment explanation
Indices: 11177220--11177630 Score: 520
Period size: 46 Copynumber: 9.0 Consensus size: 46
11177210 GCTTTCTGAA
*
11177220 ATGAAATGTGTAAGACCATGGCTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
11177266 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
11177312 ATAAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
11177358 ATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACATTAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
11177404 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
11177450 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * ** ** * *
11177495 CGGGAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** * * * *
11177541 ATGAAATGAACAAGACCATGGTTGAAAGATACTATGACAACCTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * * *
11177587 A-GAAAATGAGTAAAACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
11177631 TCAAAGATAA
Statistics
Matches: 323, Mismatches: 40, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
45 37 0.11
46 286 0.89
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:11179000 original size:23 final size:23
Alignment explanation
Indices: 11178970--11179016 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
11178960 ACTGTTAAAG
11178970 TTAGTTTCCAACGATACCAAGAA
1 TTAGTTTCCAACGATACCAAGAA
11178993 TTAGTTTCCAACGATACCAAGAA
1 TTAGTTTCCAACGATACCAAGAA
11179016 T
1 T
11179017 GATTAATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (23 bp):
TTAGTTTCCAACGATACCAAGAA
Found at i:11179731 original size:19 final size:19
Alignment explanation
Indices: 11179709--11179745 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
11179699 AACACTGTCA
11179709 CCCACCGTAATCAAATTTG
1 CCCACCGTAATCAAATTTG
11179728 CCCACCGTAATCAAATTT
1 CCCACCGTAATCAAATTT
11179746 TTTATTAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.32, G:0.08, T:0.27
Consensus pattern (19 bp):
CCCACCGTAATCAAATTTG
Found at i:11197530 original size:23 final size:23
Alignment explanation
Indices: 11197503--11197549 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
11197493 TAAGAAGACT
* *
11197503 ATAGGGACTTAGATTATAATTTA
1 ATAGGGACCTAGATCATAATTTA
11197526 ATAGGGACCTAGATCATAATTTA
1 ATAGGGACCTAGATCATAATTTA
11197549 A
1 A
11197550 CCTTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (23 bp):
ATAGGGACCTAGATCATAATTTA
Found at i:11197592 original size:26 final size:26
Alignment explanation
Indices: 11197557--11197608 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
11197547 TAACCTTTTA
11197557 TTTTAATATAGTTTTAACAATCATTT
1 TTTTAATATAGTTTTAACAATCATTT
11197583 TTTTAATATAGTTTTAACAATCATTT
1 TTTTAATATAGTTTTAACAATCATTT
11197609 GTATAATGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.54
Consensus pattern (26 bp):
TTTTAATATAGTTTTAACAATCATTT
Found at i:11197615 original size:26 final size:26
Alignment explanation
Indices: 11197560--11197615 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
11197550 CCTTTTATTT
* *
11197560 TAATATAGTTTTAACAATCATTTTTT
1 TAATATAGTTTTAACAATCATTTGTA
11197586 TAATATAGTTTTAACAATCATTTGTA
1 TAATATAGTTTTAACAATCATTTGTA
11197612 TAAT
1 TAAT
11197616 GACGGAATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (26 bp):
TAATATAGTTTTAACAATCATTTGTA
Found at i:11198982 original size:23 final size:23
Alignment explanation
Indices: 11198952--11198999 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
11198942 GATGATAATG
11198952 TAATAAAAGAAAATTCATGTCTT
1 TAATAAAAGAAAATTCATGTCTT
11198975 TAATAAAAGAAAATTCATGTCTT
1 TAATAAAAGAAAATTCATGTCTT
11198998 TA
1 TA
11199000 GGTTCAGCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.35
Consensus pattern (23 bp):
TAATAAAAGAAAATTCATGTCTT
Found at i:11203228 original size:18 final size:18
Alignment explanation
Indices: 11203205--11203265 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
11203195 TTTGTTTATT
11203205 GTTATTCAATAACAATCA
1 GTTATTCAATAACAATCA
* * * *
11203223 GTTATTTAGTATCAAACA
1 GTTATTCAATAACAATCA
11203241 ---A-TCAATAACAATCA
1 GTTATTCAATAACAATCA
11203255 GTTATTCAATA
1 GTTATTCAATA
11203266 TCAAACAATC
Statistics
Matches: 31, Mismatches: 8, Indels: 8
0.66 0.17 0.17
Matches are distributed among these distances:
14 9 0.29
15 1 0.03
17 1 0.03
18 20 0.65
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (18 bp):
GTTATTCAATAACAATCA
Found at i:11203294 original size:32 final size:32
Alignment explanation
Indices: 11203210--11203286 Score: 136
Period size: 32 Copynumber: 2.4 Consensus size: 32
11203200 TTATTGTTAT
* *
11203210 TCAATAACAATCAGTTATTTAGTATCAAACAA
1 TCAATAACAATCAGTTATTCAATATCAAACAA
11203242 TCAATAACAATCAGTTATTCAATATCAAACAA
1 TCAATAACAATCAGTTATTCAATATCAAACAA
11203274 TCAATAACAATCA
1 TCAATAACAATCA
11203287 ATAATTCAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.49, C:0.18, G:0.04, T:0.29
Consensus pattern (32 bp):
TCAATAACAATCAGTTATTCAATATCAAACAA
Found at i:11203570 original size:44 final size:44
Alignment explanation
Indices: 11203470--11203570 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 44
11203460 CGGATTAAAC
11203470 CGAAGT-AATAGTAACAGTACAACACACATGATGCCTCATCGACT
1 CGAAGTCAA-AGTAACAGTACAACACACATGATGCCTCATCGACT
* * ** *
11203514 CGAAGTCGAAGTAACAGTACGACACTTAT-AGTGCCTCATTGACT
1 CGAAGTCAAAGTAACAGTACAACACACATGA-TGCCTCATCGACT
11203558 C-AAGGTCAAAGTA
1 CGAA-GTCAAAGTA
11203571 TCACTAAACA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
43 3 0.06
44 44 0.92
45 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.22
Consensus pattern (44 bp):
CGAAGTCAAAGTAACAGTACAACACACATGATGCCTCATCGACT
Found at i:11206035 original size:5 final size:5
Alignment explanation
Indices: 11206025--11206052 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
11206015 TATATATATA
11206025 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
11206053 CTTAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:11208870 original size:40 final size:40
Alignment explanation
Indices: 11208803--11209089 Score: 373
Period size: 40 Copynumber: 7.2 Consensus size: 40
11208793 CCTTCGGAGT
** * *
11208803 TTAG-CCGGATATAGCCACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
11208842 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
11208882 TTAGCCCGG-TATAATAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
11208921 TTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
11208961 TTAGCCCGGATAAAGTAGCTCGCACGAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
11209001 TTAGCCCGGATATAGTAGCTCGCACGAATGCCTTCGGGGC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
** * *
11209041 TTAGCCCGGA-ATTAGCCACTAGCACAAATGCTTTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
11209081 TTAGCCCGG
1 TTAGCCCGG
11209090 TTATCATCCG
Statistics
Matches: 224, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 43 0.19
40 181 0.81
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:11216120 original size:20 final size:20
Alignment explanation
Indices: 11216097--11216159 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
11216087 TTAATTTATT
*
11216097 TTTAATAATAATAATCATAA
1 TTTAATAATAATAATAATAA
*
11216117 TTTAATAA-AATAAATTATAA
1 TTTAATAATAAT-AATAATAA
*
11216137 TTTGATAGAATAATAATAATAA
1 TTT-A-ATAATAATAATAATAA
11216159 T
1 T
11216160 GATAAATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 3 0.08
20 18 0.50
21 1 0.03
22 11 0.31
23 3 0.08
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.40
Consensus pattern (20 bp):
TTTAATAATAATAATAATAA
Found at i:11220813 original size:25 final size:24
Alignment explanation
Indices: 11220740--11220814 Score: 60
Period size: 25 Copynumber: 3.0 Consensus size: 24
11220730 TTAAATAGTC
*
11220740 GTGGATGGTTCCGTGCGAAGGTACA
1 GTGGATGGTTCTGTG-GAAGGTACA
* * * **
11220765 ATGGATGGTATTTGTGGGAGGGTATT
1 GTGGATGGT-TCTGT-GGAAGGTACA
11220791 GTGGATGGTTCTGTGGAAAGGTAC
1 GTGGATGGTTCTGTGG-AAGGTAC
11220815 CGTAGGAGTG
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
24 2 0.05
25 17 0.46
26 17 0.46
27 1 0.03
ACGTcount: A:0.20, C:0.08, G:0.41, T:0.31
Consensus pattern (24 bp):
GTGGATGGTTCTGTGGAAGGTACA
Found at i:11222246 original size:36 final size:36
Alignment explanation
Indices: 11222161--11222249 Score: 106
Period size: 36 Copynumber: 2.5 Consensus size: 36
11222151 AAAATCGTTC
* *
11222161 ATTGATGATATAAAATGGAAGAAGTGTAGACTATCT
1 ATTGATGATATAAAATGGAAGAAGTATAAACTATCT
* * * * *
11222197 GTTAACGAGATAAAATGGAAGAAGTATAAACTATTT
1 ATTGATGATATAAAATGGAAGAAGTATAAACTATCT
*
11222233 ATTGGTGATATAAAATG
1 ATTGATGATATAAAATG
11222250 TAAGCAATGC
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.44, C:0.04, G:0.21, T:0.30
Consensus pattern (36 bp):
ATTGATGATATAAAATGGAAGAAGTATAAACTATCT
Found at i:11223396 original size:80 final size:78
Alignment explanation
Indices: 11223271--11223501 Score: 268
Period size: 80 Copynumber: 2.9 Consensus size: 78
11223261 CTATGGGAAC
* * * *
11223271 CCTTCACGAGCTCTCTTTGCCTCACAATATTCATTATGCGGATATACAAACATGTAAAGGGGCAT
1 CCTTCAC-AGCTCTCTTTGTCTCACAATATTCATTATACGGATATACAAACATGCAAA-GGGTAT
*
11223336 AACCAGTCGC-GGAA-AT
64 AACCA--C-CAGCAAGAT
* * *
11223352 CCTTCACAGCTCTCTTTGTCTCACAATATTCGTTATACGAATATACAAACATGCAAAAAGGTATA
1 CCTTCACAGCTCTCTTTGTCTCACAATATTCATTATACGGATATACAAACATGC-AAAGGGTATA
11223417 ACCACCAGCAAGGAT
65 ACCACCAGCAA-GAT
* * * *
11223432 CCTTCATAGGATCCCTTTGTCTCACAATATTCATTATATGGATATACAAACATGCAAAGGGTATA
1 CCTTCACA-GCTCTCTTTGTCTCACAATATTCATTATACGGATATACAAACATGCAAAGGGTATA
11223497 ACCAC
65 ACCAC
11223502 TCACGGGAAC
Statistics
Matches: 130, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
77 1 0.01
78 4 0.03
80 74 0.57
81 51 0.39
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (78 bp):
CCTTCACAGCTCTCTTTGTCTCACAATATTCATTATACGGATATACAAACATGCAAAGGGTATAA
CCACCAGCAAGAT
Found at i:11225631 original size:16 final size:16
Alignment explanation
Indices: 11225610--11225641 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11225600 TTTCGAACCT
11225610 TGATTTATTTTATTTA
1 TGATTTATTTTATTTA
11225626 TGATTTATTTTATTTA
1 TGATTTATTTTATTTA
11225642 CGTCCTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (16 bp):
TGATTTATTTTATTTA
Found at i:11226624 original size:2 final size:2
Alignment explanation
Indices: 11226617--11226648 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11226607 AGATATAATG
11226617 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
11226649 CCCGTTGCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:11229428 original size:17 final size:17
Alignment explanation
Indices: 11229406--11229440 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11229396 ATAATAAGGT
11229406 TAAATTTTACTATTAGA
1 TAAATTTTACTATTAGA
*
11229423 TAAATTTTATTATTAGA
1 TAAATTTTACTATTAGA
11229440 T
1 T
11229441 TCTGTACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (17 bp):
TAAATTTTACTATTAGA
Found at i:11231172 original size:16 final size:16
Alignment explanation
Indices: 11231151--11231182 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11231141 CCAAAGTTAT
11231151 TAAACCTTTGCTAACA
1 TAAACCTTTGCTAACA
11231167 TAAACCTTTGCTAACA
1 TAAACCTTTGCTAACA
11231183 CAATGAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (16 bp):
TAAACCTTTGCTAACA
Found at i:11232579 original size:2 final size:2
Alignment explanation
Indices: 11232572--11232604 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11232562 GGTCTTATAA
11232572 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
11232605 AGAAGAAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11232610 original size:3 final size:3
Alignment explanation
Indices: 11232602--11232641 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
11232592 AGAGAGAGAG
11232602 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
11232642 ATCCAAGCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:11243434 original size:28 final size:28
Alignment explanation
Indices: 11243377--11243438 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
11243367 TTGATCTTAT
* *
11243377 TTGATTCTTTAATAGTACAGATACTAAA
1 TTGATTCTTTAATAGTAAAGAGACTAAA
*
11243405 TTGATTCATTTAATAGTAGAAG-GACTAAT
1 TTGATTC-TTTAATAGTA-AAGAGACTAAA
11243434 TTGAT
1 TTGAT
11243439 AAAATCCCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 7 0.24
29 20 0.69
30 2 0.07
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (28 bp):
TTGATTCTTTAATAGTAAAGAGACTAAA
Found at i:11245273 original size:18 final size:18
Alignment explanation
Indices: 11245250--11245291 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11245240 CTTAAAAGAT
*
11245250 TTACAATATTCTCTAAAA
1 TTACAATATCCTCTAAAA
* *
11245268 TTACAATATCCTTTAAGA
1 TTACAATATCCTCTAAAA
11245286 TTACAA
1 TTACAA
11245292 AATATTTACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (18 bp):
TTACAATATCCTCTAAAA
Found at i:11246913 original size:29 final size:30
Alignment explanation
Indices: 11246857--11246926 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 30
11246847 ATCCCAAAAT
11246857 TATACATGAACTATGATTTAATATGCAATTG
1 TATACATGAACTATGATTT-ATATGCAATTG
* *
11246888 TATACATGAACGT-TGATTT-TGTGCAATTT
1 TATACATGAAC-TATGATTTATATGCAATTG
*
11246917 TATATATGAA
1 TATACATGAA
11246927 ATTTTGATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 17 0.49
31 17 0.49
32 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (30 bp):
TATACATGAACTATGATTTATATGCAATTG
Found at i:11247115 original size:31 final size:30
Alignment explanation
Indices: 11247070--11247163 Score: 91
Period size: 31 Copynumber: 3.1 Consensus size: 30
11247060 AATGTGTATG
*
11247070 ATTAAATCAAAATTAAAGTTTCAAGTATACA
1 ATTAAA-CCAAATTAAAGTTTCAAGTATACA
* * * ** *
11247101 TTTGAACCACAATTAAAGTGTCCCGTATATA
1 ATTAAACCA-AATTAAAGTTTCAAGTATACA
*
11247132 ATTAAACCAAATTAAAG-TTCATGTATACA
1 ATTAAACCAAATTAAAGTTTCAAGTATACA
11247161 ATT
1 ATT
11247164 GCACATTAAA
Statistics
Matches: 49, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
29 11 0.22
30 10 0.20
31 28 0.57
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.33
Consensus pattern (30 bp):
ATTAAACCAAATTAAAGTTTCAAGTATACA
Found at i:11251779 original size:42 final size:43
Alignment explanation
Indices: 11251719--11251802 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 43
11251709 TATAAGTCCA
* *
11251719 TGTCTGGGACATAAGCATCG-TATCTG-ATTTCGTGTAAGACCC
1 TGTCTGGGACATAAGCATCGATAT-TGAATTACATGTAAGACCC
11251761 TGTCTGGGACA-AATGCATCGATATTGAATTACATGTAAGACC
1 TGTCTGGGACATAA-GCATCGATATTGAATTACATGTAAGACC
11251803 ACGTCCGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
41 2 0.05
42 19 0.51
43 16 0.43
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.30
Consensus pattern (43 bp):
TGTCTGGGACATAAGCATCGATATTGAATTACATGTAAGACCC
Found at i:11255189 original size:19 final size:18
Alignment explanation
Indices: 11255152--11255189 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11255142 TAATTTACTG
*
11255152 TAAGGTAGTCAATTATCA
1 TAAGGTAGTCAAATATCA
11255170 TAAGGTAGTCAACATATCA
1 TAAGGTAGTCAA-ATATCA
11255189 T
1 T
11255190 TCAAGTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (18 bp):
TAAGGTAGTCAAATATCA
Found at i:11266422 original size:6 final size:6
Alignment explanation
Indices: 11266389--11266418 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
11266379 CCCAAGTTCT
*
11266389 GGGGTC GGGGTC GGGGTC GGGGTC TGGGTC
1 GGGGTC GGGGTC GGGGTC GGGGTC GGGGTC
11266419 TGGGCCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.63, T:0.20
Consensus pattern (6 bp):
GGGGTC
Found at i:11275900 original size:7 final size:8
Alignment explanation
Indices: 11275885--11275911 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
11275875 ATGTGTATTC
11275885 TTTATTTT
1 TTTATTTT
11275893 TTTATTTT
1 TTTATTTT
11275901 TTTATTTT
1 TTTATTTT
11275909 TTT
1 TTT
11275912 TTCAAATTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTATTTT
Found at i:11278652 original size:33 final size:33
Alignment explanation
Indices: 11278610--11278675 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
11278600 TTTTTGCATA
11278610 GAGAACTTGAGGAGGATATTTACATGCAACAAC
1 GAGAACTTGAGGAGGATATTTACATGCAACAAC
*
11278643 GAGAACTTGATGAGGATATTTACATGCAACAAC
1 GAGAACTTGAGGAGGATATTTACATGCAACAAC
11278676 CAGAGGGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (33 bp):
GAGAACTTGAGGAGGATATTTACATGCAACAAC
Found at i:11288718 original size:50 final size:51
Alignment explanation
Indices: 11288641--11288763 Score: 196
Period size: 50 Copynumber: 2.4 Consensus size: 51
11288631 GACCATGGCA
11288641 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
11288692 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* *
11288742 ACAAGTGAAAAGTGGTAGCTTC
1 ACAAGTGATAAGTGATAGCTTC
11288764 AACTACCTAA
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
50 45 0.67
51 22 0.33
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:11288783 original size:31 final size:31
Alignment explanation
Indices: 11288745--11288924 Score: 254
Period size: 31 Copynumber: 5.8 Consensus size: 31
11288735 ACAAATGACA
* *
11288745 AGTGAAAAGTGGTAGCTTCAACTACCTAATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
*
11288776 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
11288807 AGTGAAAAGTGGTAG-TTCAGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCA-GCTACCTGATC
* *
11288838 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* * *
11288869 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
11288900 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCAGCTAC
11288925 AAGTGACAAG
Statistics
Matches: 137, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
30 3 0.02
31 132 0.96
32 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
Done.