Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 110 of 433
Found at i:33686502 original size:2 final size:2
Alignment explanation
Indices: 33686497--33686530 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
33686487 CCAATTATCA
* *
33686497 AT AT AT AT CT AT AT AT AT AT AT AT AG AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33686531 GAATATCTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:33686781 original size:34 final size:35
Alignment explanation
Indices: 33686742--33686810 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
33686732 TAGATATTGT
*
33686742 CTTGTGGTCC-AAAGTAGAGAAAAATATATGATGA
1 CTTGTGGTCCAAAAATAGAGAAAAATATATGATGA
*
33686776 CTTGTGGTCCAAAAATAGAGTAAAATATATGATGA
1 CTTGTGGTCCAAAAATAGAGAAAAATATATGATGA
33686811 TGACTTCAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 10 0.31
35 22 0.69
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.28
Consensus pattern (35 bp):
CTTGTGGTCCAAAAATAGAGAAAAATATATGATGA
Found at i:33692955 original size:19 final size:19
Alignment explanation
Indices: 33692931--33692975 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
33692921 GAAGTTGACT
33692931 GGAGATCTTCAATCTTGAA
1 GGAGATCTTCAATCTTGAA
33692950 GGAGATCTTCAATCTTGAA
1 GGAGATCTTCAATCTTGAA
33692969 GGAGATC
1 GGAGATC
33692976 CTACTTCTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (19 bp):
GGAGATCTTCAATCTTGAA
Found at i:33695415 original size:6 final size:6
Alignment explanation
Indices: 33695397--33695450 Score: 72
Period size: 6 Copynumber: 8.8 Consensus size: 6
33695387 AAAGTCTAGG
* * *
33695397 AAAATA CAAATA AACATA AAAATA AAAATA AAAACTA AGAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA-TA AAAATA AAAATA
33695446 AAAAT
1 AAAAT
33695451 TAAATTATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
6 36 0.88
7 5 0.12
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:33695441 original size:19 final size:18
Alignment explanation
Indices: 33695397--33695450 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 18
33695387 AAAGTCTAGG
* *
33695397 AAAATACAAATAAACATA
1 AAAATAAAAATAAAAATA
33695415 AAAATAAAAATAAAAACTA
1 AAAATAAAAATAAAAA-TA
*
33695434 AGAATAAAAATAAAAAT
1 AAAATAAAAATAAAAAT
33695451 TAAATTATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
18 15 0.47
19 17 0.53
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.17
Consensus pattern (18 bp):
AAAATAAAAATAAAAATA
Found at i:33697032 original size:18 final size:16
Alignment explanation
Indices: 33696960--33697033 Score: 51
Period size: 18 Copynumber: 4.1 Consensus size: 16
33696950 ACTGAACAAG
33696960 AATAAACAACTTAAGAAAGT
1 AATAAACAA--TAA-AAA-T
*
33696980 AAT-AACAAATAATAAT
1 AATAAAC-AATAAAAAT
33696996 AATAAACAATAAATTAAT
1 AATAAACAATAAA--AAT
33697014 AATAAAGCTAATAAAAAT
1 AATAAA-C-AATAAAAAT
33697032 AA
1 AA
33697034 AACAAGGAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
16 9 0.20
17 5 0.11
18 17 0.37
19 4 0.09
20 11 0.24
ACGTcount: A:0.66, C:0.07, G:0.04, T:0.23
Consensus pattern (16 bp):
AATAAACAATAAAAAT
Found at i:33697085 original size:12 final size:15
Alignment explanation
Indices: 33697051--33697100 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
33697041 AAAATAAAGC
*
33697051 AATAATAA-AGAAAT
1 AATAATAATAGTAAT
*
33697065 AATTAATAAAAAG-AAT
1 AA-TAAT-AATAGTAAT
33697081 AATAATAATAGTAAT
1 AATAATAATAGTAAT
33697096 AATAA
1 AATAA
33697101 GAAGGAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.19
15 16 0.52
16 7 0.23
17 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (15 bp):
AATAATAATAGTAAT
Found at i:33698839 original size:43 final size:43
Alignment explanation
Indices: 33698728--33698875 Score: 165
Period size: 43 Copynumber: 3.4 Consensus size: 43
33698718 TAACGAGATG
* * *
33698728 TGATTATGTGTAAGACCATGACTGGGACATTGGCATCATTATG
1 TGATTACGTGTAAGACCATGACTGGGATATTGGCATCATTATT
* *
33698771 TGGTTACGTGTAAGACCATGTCTGGGATATTGGCATCATTATT
1 TGATTACGTGTAAGACCATGACTGGGATATTGGCATCATTATT
* * * *
33698814 TGATTTCGTGTAAGACCAT-AGCTGGGCTATCGGTATCGA-TATT
1 TGATTACGTGTAAGACCATGA-CTGGGATATTGGCATC-ATTATT
* *
33698857 TGATAACATGTAAGACCAT
1 TGATTACGTGTAAGACCAT
33698876 ATTTGGGATA
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
43 88 0.99
44 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (43 bp):
TGATTACGTGTAAGACCATGACTGGGATATTGGCATCATTATT
Found at i:33701262 original size:43 final size:44
Alignment explanation
Indices: 33701196--33701364 Score: 163
Period size: 43 Copynumber: 3.9 Consensus size: 44
33701186 CTCGTACAAC
*
33701196 GCCAA-TGTCCCAGACGTGGTCTTACATGTAATCACATATCGAT
1 GCCAACTGTCCCAGACGTGGTCTTACACGTAATCACATATCGAT
* * *
33701239 GCC-ACTGTCCCAGACAG-AGTCTTACACG-AA-CTCATATACGAG
1 GCCAACTGTCCCAGAC-GTGGTCTTACACGTAATCACATAT-CGAT
* * * * * *
33701281 GCCGA-TGTCCTAGACATGGTCTTACACGTAAATAACAAATTGAT
1 GCCAACTGTCCCAGACGTGGTCTTACACGT-AATCACATATCGAT
*
33701325 GCCAAC-GTCCCAGACGTGGTCTTACACGAAATCACATATC
1 GCCAACTGTCCCAGACGTGGTCTTACACGTAATCACATATC
33701365 AGAAATCTAT
Statistics
Matches: 98, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
41 6 0.06
42 28 0.29
43 31 0.32
44 29 0.30
45 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (44 bp):
GCCAACTGTCCCAGACGTGGTCTTACACGTAATCACATATCGAT
Found at i:33703817 original size:20 final size:20
Alignment explanation
Indices: 33703772--33703818 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
33703762 TCAGACACAT
33703772 CCGTGTGACCTTCCACACGC
1 CCGTGTGACCTTCCACACGC
**
33703792 TTGTGTGA-CTTCCCACACGC
1 CCGTGTGACCTT-CCACACGC
33703812 CCGTGTG
1 CCGTGTG
33703819 GTATGGCCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.13, C:0.38, G:0.23, T:0.26
Consensus pattern (20 bp):
CCGTGTGACCTTCCACACGC
Found at i:33704302 original size:15 final size:16
Alignment explanation
Indices: 33704273--33704305 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
33704263 TTAATTTTTT
33704273 TAAAAAATACTATGAAA
1 TAAAAAATAC-ATGAAA
33704290 TAAAAAATA-ATGAAA
1 TAAAAAATACATGAAA
33704305 T
1 T
33704306 TAGCAGTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.24
Consensus pattern (16 bp):
TAAAAAATACATGAAA
Found at i:33707417 original size:7 final size:7
Alignment explanation
Indices: 33707391--33707433 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
33707381 AGAAGCAAAT
*
33707391 AAAAGAA
1 AAAATAA
* *
33707398 AAATTAG
1 AAAATAA
33707405 AAAATAA
1 AAAATAA
33707412 AAAATAA
1 AAAATAA
33707419 AAAAT-A
1 AAAATAA
33707425 AAAATAA
1 AAAATAA
33707432 AA
1 AA
33707434 TGTAATAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (7 bp):
AAAATAA
Found at i:33714284 original size:47 final size:43
Alignment explanation
Indices: 33714170--33714297 Score: 132
Period size: 47 Copynumber: 2.8 Consensus size: 43
33714160 TTATTTGTGT
*
33714170 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
1 GCCAGAGTAAGACATGTCTGGGACATGCATCGG---CATTATGAGA
* *
33714216 GCCAGTGTAAGACCATATCTGGGACATGGCATCGGCATTGA-GACGACA
1 GCCAGAGTAAGA-CATGTCTGGGACAT-GCATCGGCATT-ATGA-G--A
*
33714264 GCTAGAGTAAGACATGTCTGGGACATGCATCGGC
1 GCCAGAGTAAGACATGTCTGGGACATGCATCGGC
33714298 TACGAGATGT
Statistics
Matches: 72, Mismatches: 4, Indels: 12
0.82 0.05 0.14
Matches are distributed among these distances:
45 6 0.08
46 22 0.31
47 26 0.36
48 18 0.25
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.20
Consensus pattern (43 bp):
GCCAGAGTAAGACATGTCTGGGACATGCATCGGCATTATGAGA
Found at i:33721787 original size:46 final size:45
Alignment explanation
Indices: 33721737--33721856 Score: 145
Period size: 46 Copynumber: 2.6 Consensus size: 45
33721727 GAGAGTTAGA
* *
33721737 GTAAGATATGTATGGGACATGCATCGGCCT-CGAGATATAAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTACGAGATAT--GCCAGT
* * *
33721783 GTAAGACATGTCTGGGTCATGCATCGG-CTACGAGATGTGTCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTACGAGATATGCCAGT
33721827 GTAAGACCATGTCTGGGACATGGCATCGGC
1 GTAAGA-CATGTCTGGGACAT-GCATCGGC
33721857 ATGTATAGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
44 11 0.17
45 15 0.23
46 38 0.59
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (45 bp):
GTAAGACATGTCTGGGACATGCATCGGCCTACGAGATATGCCAGT
Found at i:33721877 original size:48 final size:47
Alignment explanation
Indices: 33721779--33722046 Score: 163
Period size: 48 Copynumber: 5.6 Consensus size: 47
33721769 AGATATAAGC
* * * *
33721779 CAGTGTAAGA-CATGTCTGGGTCAT-GCATCGGC--TACGAGATGTGT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCAGTA-TAGAGGTGT
*
33721823 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCA-GTATAGAGGTGT
* * * * *
33721871 CAGTGTAAGACCATGTCTAGGACATGACATCGGTACGGATATGTGAGAG-
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCA-GTATA-GAG-GTGT
* * * * ** * *
33721920 CTAGTGTAAGACCATGTCTAGGACATGGCGTCGAC-CTCAAATTCGATAAT
1 C-AGTGTAAGACCATGTCTAGGACATGGCATCGGCAGT-ATA-GAGGT-GT
* * * * * * * *
33721970 CAGTGTAAGATCATATCTAGGACATGGCATCGAC-TTGATGGATGAGC
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCAGT-ATAGAGGTGT
33722017 CAGTGTAAGACCATGTCTAGGACATGGCAT
1 CAGTGTAAGACCATGTCTAGGACATGGCAT
33722047 TGGTACTGCA
Statistics
Matches: 175, Mismatches: 38, Indels: 19
0.75 0.16 0.08
Matches are distributed among these distances:
44 10 0.06
45 13 0.07
46 8 0.05
47 28 0.16
48 43 0.25
49 41 0.23
50 32 0.18
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGGCAGTATAGAGGTGT
Found at i:33723523 original size:40 final size:43
Alignment explanation
Indices: 33723479--33723574 Score: 110
Period size: 40 Copynumber: 2.3 Consensus size: 43
33723469 GCTATAAATA
*
33723479 GCACTAAGTGTGCGG-ATTAGA-ATAGCTTTGGTTA-T-ATAAG
1 GCACTAAGTGTGCGGCA-TAGAGATAGCTTCGGTTAGTGATAAG
* * *
33723519 GCACTAAGTTTGCGGCATCGAGATAGCTTCGGTTAGTTGATATG
1 GCACTAAGTGTGCGGCATAGAGATAGCTTCGGTTAG-TGATAAG
33723563 GCACTAAGTGTG
1 GCACTAAGTGTG
33723575 TGAGATTGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
40 17 0.37
41 13 0.28
43 1 0.02
44 15 0.33
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (43 bp):
GCACTAAGTGTGCGGCATAGAGATAGCTTCGGTTAGTGATAAG
Found at i:33723589 original size:44 final size:44
Alignment explanation
Indices: 33723563--33723668 Score: 169
Period size: 44 Copynumber: 2.4 Consensus size: 44
33723553 AGTTGATATG
*
33723563 GCACTAAGTGTGTGAGATTGTTATAGCTTTGGCTAATCATTAAT
1 GCACTAAGTGTGTGAGATTGTTATAGCTTCGGCTAATCATTAAT
* * *
33723607 GCATTAAGTGTGTGAGATTGTTATAACTTTGGCTAATCATTAAT
1 GCACTAAGTGTGTGAGATTGTTATAGCTTCGGCTAATCATTAAT
33723651 GCACTAAGTGTGTG-GATT
1 GCACTAAGTGTGTGAGATT
33723669 CTTAAAGTTT
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
43 4 0.07
44 55 0.93
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (44 bp):
GCACTAAGTGTGTGAGATTGTTATAGCTTCGGCTAATCATTAAT
Found at i:33734587 original size:136 final size:136
Alignment explanation
Indices: 33734383--33734717 Score: 557
Period size: 136 Copynumber: 2.5 Consensus size: 136
33734373 CATTTATATT
* * *
33734383 AATAAACTCAAATAACCAATTATAAAAAA-ATGCTCA-CACTTTAAATACGAAAAACCGATATAA
1 AATAAACTCAACTAACCAATTATAAAAAATATGCTCATAAC-TTAAATATGAAAAACCGATATAA
* *
33734446 CTTAAATACGAAATAATAAATAAATTAATATAACATACAATTATATTAATAAACACAATTCCCTA
65 CTTAAATACGAAATAATAAATAAATTAATATAACATACAATTACATTAATAAACACAATTCCCAA
33734511 AACATTA
130 AACATTA
* *
33734518 AATAAACTCAACTGACCAATTATAAAAAATATGCTCATAACTTAAATATGAAAAACTGATATAAC
1 AATAAACTCAACTAACCAATTATAAAAAATATGCTCATAACTTAAATATGAAAAACCGATATAAC
33734583 TTAAATACGAAATAATAAATAAATTAATATAACATACAATTACATTAATAAACACAATTCCCAAA
66 TTAAATACGAAATAATAAATAAATTAATATAACATACAATTACATTAATAAACACAATTCCCAAA
33734648 ACATTA
131 ACATTA
* * *
33734654 AATAAACTCAACTAACCAATTATAAAAAATATGCCCATACCTTAAATATGAAAATCCGATATAA
1 AATAAACTCAACTAACCAATTATAAAAAATATGCTCATAACTTAAATATGAAAAACCGATATAA
33734718 GATTCTTCAA
Statistics
Matches: 186, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
135 27 0.15
136 157 0.84
137 2 0.01
ACGTcount: A:0.54, C:0.16, G:0.04, T:0.27
Consensus pattern (136 bp):
AATAAACTCAACTAACCAATTATAAAAAATATGCTCATAACTTAAATATGAAAAACCGATATAAC
TTAAATACGAAATAATAAATAAATTAATATAACATACAATTACATTAATAAACACAATTCCCAAA
ACATTA
Found at i:33734904 original size:115 final size:114
Alignment explanation
Indices: 33734696--33734919 Score: 254
Period size: 115 Copynumber: 2.0 Consensus size: 114
33734686 GCCCATACCT
* * * ** *
33734696 TAAATATGAAAATCCGATATAAGATTCTTCAAAGACATTAATAAAAAAAATTTAATCAAACCTAA
1 TAAATATGAAAAACCAATATAAGATGCCACAAAAACATTAATAAAAAAAATTTAATCAAACCTAA
* *
33734761 ACAAAAACTTAAAGCTAATAAAACACAACAACAAAAAATAACATTTCAAG
66 ACAAAAACCTAAAACTAATAAAACACAACAA-AAAAAATAACATTTCAAG
* * * * *
33734811 TAAATATGAAAAACTAATATAAGATGCCACAAAAACATTAATAAAACAAA-TTAATCATACTTTC
1 TAAATATGAAAAACCAATATAAGATGCCACAAAAACATTAATAAAAAAAATTTAATCAAAC-CTA
* * * *
33734875 AATACAAACCTAAAACTTAA-AAAAGACAACAAAAAAAATATCATT
65 AACAAAAACCTAAAAC-TAATAAAACACAACAAAAAAAATAACATT
33734920 CCTCTTAAAT
Statistics
Matches: 90, Mismatches: 17, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
114 21 0.23
115 66 0.73
116 3 0.03
ACGTcount: A:0.58, C:0.15, G:0.04, T:0.23
Consensus pattern (114 bp):
TAAATATGAAAAACCAATATAAGATGCCACAAAAACATTAATAAAAAAAATTTAATCAAACCTAA
ACAAAAACCTAAAACTAATAAAACACAACAAAAAAAATAACATTTCAAG
Found at i:33738051 original size:27 final size:28
Alignment explanation
Indices: 33738019--33738080 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
33738009 AAGTAAAATA
* *
33738019 AAAAAAATTCACTAACCCTATTTCATTC
1 AAAAAATTTCACGAACCCTATTTCATTC
* * *
33738047 GAAAAATTTGAGGAACCCTATTTCATTC
1 AAAAAATTTCACGAACCCTATTTCATTC
33738075 AAAAAA
1 AAAAAA
33738081 AATCAGCAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.29
Consensus pattern (28 bp):
AAAAAATTTCACGAACCCTATTTCATTC
Found at i:33738307 original size:15 final size:15
Alignment explanation
Indices: 33738287--33738316 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33738277 CTTGGAACCC
*
33738287 TTGTTTGTCATTTTT
1 TTGTTTGCCATTTTT
33738302 TTGTTTGCCATTTTT
1 TTGTTTGCCATTTTT
33738317 ATTATTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.10, G:0.13, T:0.70
Consensus pattern (15 bp):
TTGTTTGCCATTTTT
Found at i:33738767 original size:23 final size:23
Alignment explanation
Indices: 33738724--33738769 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
33738714 AAAAGGTACC
33738724 ATATTTGTTGTATAATCTAATTT
1 ATATTTGTTGTATAATCTAATTT
33738747 ATATTT-TTGTTACTAAT-TAATTT
1 ATATTTGTTG-TA-TAATCTAATTT
33738770 TTTTTAAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 3 0.14
23 14 0.67
24 4 0.19
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (23 bp):
ATATTTGTTGTATAATCTAATTT
Found at i:33739147 original size:3 final size:3
Alignment explanation
Indices: 33739139--33739164 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
33739129 TAGTAATAAC
33739139 GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GA
33739165 GATAATGAAT
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:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:33739749 original size:52 final size:52
Alignment explanation
Indices: 33739671--33739774 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
33739661 AGAACAAAAT
33739671 AGCAAATTATAAGTTCATAGGGAAACACCTTTTTAGCAAGATCAATACTATC
1 AGCAAATTATAAGTTCATAGGGAAACACCTTTTTAGCAAGATCAATACTATC
33739723 AGCAAATTATAAGTTCATAGGGAAACACCTTTTTAGCAAGATCAATACTATC
1 AGCAAATTATAAGTTCATAGGGAAACACCTTTTTAGCAAGATCAATACTATC
33739775 CCTAGGTTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (52 bp):
AGCAAATTATAAGTTCATAGGGAAACACCTTTTTAGCAAGATCAATACTATC
Found at i:33742113 original size:20 final size:20
Alignment explanation
Indices: 33742075--33742113 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
33742065 AAACATACAT
* *
33742075 TTCACATACAATTTAATCAA
1 TTCAAATACAATTCAATCAA
*
33742095 TTCAAATACAATTCGATCA
1 TTCAAATACAATTCAATCA
33742114 CAACCAATCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.33
Consensus pattern (20 bp):
TTCAAATACAATTCAATCAA
Found at i:33743603 original size:48 final size:48
Alignment explanation
Indices: 33743546--33743718 Score: 195
Period size: 48 Copynumber: 3.6 Consensus size: 48
33743536 CTCAGAGCTA
* * *
33743546 ATATCATGGCCTGAAGCTAAATCAATGAAGCTAACACCCAAAGTGCCG
1 ATATCATGGCCCGAAGCCAAATCAATGAAGCTAGCACCCAAAGTGCCG
* * * *
33743594 ATATCATGGCCCGAAGCCAAATCGATGTAA-CTCGCACCCAAAGTTCCA
1 ATATCATGGCCCGAAGCCAAATCAATG-AAGCTAGCACCCAAAGTGCCG
* ** * * * * *
33743642 ATATCATGACTTGAAGCCAAATCAATAAAGCTTGCACACGAAGTGCTG
1 ATATCATGGCCCGAAGCCAAATCAATGAAGCTAGCACCCAAAGTGCCG
33743690 ATATCATGGCCCGAAGCCAAATCAATGAA
1 ATATCATGGCCCGAAGCCAAATCAATGAA
33743719 TTCCCTAATG
Statistics
Matches: 101, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
47 2 0.02
48 97 0.96
49 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (48 bp):
ATATCATGGCCCGAAGCCAAATCAATGAAGCTAGCACCCAAAGTGCCG
Found at i:33753145 original size:24 final size:23
Alignment explanation
Indices: 33753101--33753146 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
33753091 CATTTTTATT
*
33753101 TTATTTTTTTGGAAATATGAAAA
1 TTATTTTTTGGGAAATATGAAAA
* *
33753124 TTATTTTTATGGGACATTTGAAA
1 TTATTTTT-TGGGAAATATGAAA
33753147 TATACAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (23 bp):
TTATTTTTTGGGAAATATGAAAA
Found at i:33755402 original size:27 final size:27
Alignment explanation
Indices: 33755364--33755533 Score: 205
Period size: 27 Copynumber: 6.3 Consensus size: 27
33755354 GCCACACGGT
* * *
33755364 TTCCATTTCTTAGATAGCTACAAAGGC
1 TTCCATCTCTTAGATCGCCACAAAGGC
* * **
33755391 TTTCATCTCTTAGATCACCATGAAGGC
1 TTCCATCTCTTAGATCGCCACAAAGGC
* *
33755418 TTCCATTTCTTAGATCGCCACAAAGGA
1 TTCCATCTCTTAGATCGCCACAAAGGC
*
33755445 TTTCATCTCTTAGATCGCCACAAAGGC
1 TTCCATCTCTTAGATCGCCACAAAGGC
* **
33755472 TTCCATCTCTTAGATTGTTACAAAGGC
1 TTCCATCTCTTAGATCGCCACAAAGGC
* *
33755499 TTCCATCTCTTAAATCTCCACAAAGGC
1 TTCCATCTCTTAGATCGCCACAAAGGC
33755526 TTCCATCT
1 TTCCATCT
33755534 TTCTGGCATG
Statistics
Matches: 118, Mismatches: 25, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 118 1.00
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (27 bp):
TTCCATCTCTTAGATCGCCACAAAGGC
Found at i:33755422 original size:54 final size:54
Alignment explanation
Indices: 33755364--33755531 Score: 228
Period size: 54 Copynumber: 3.1 Consensus size: 54
33755354 GCCACACGGT
**
33755364 TTCCATTTCTTAGATAGCTACAAAGGCTTTCATCTCTTAGATCACCATGAAGGC
1 TTCCATTTCTTAGATAGCTACAAAGGCTTTCATCTCTTAGATCACCACAAAGGC
* * * *
33755418 TTCCATTTCTTAGATCGCCACAAAGGATTTCATCTCTTAGATCGCCACAAAGGC
1 TTCCATTTCTTAGATAGCTACAAAGGCTTTCATCTCTTAGATCACCACAAAGGC
* * * * * *
33755472 TTCCATCTCTTAGATTGTTACAAAGGCTTCCATCTCTTAAATCTCCACAAAGGC
1 TTCCATTTCTTAGATAGCTACAAAGGCTTTCATCTCTTAGATCACCACAAAGGC
33755526 TTCCAT
1 TTCCAT
33755532 CTTTCTGGCA
Statistics
Matches: 100, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 100 1.00
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (54 bp):
TTCCATTTCTTAGATAGCTACAAAGGCTTTCATCTCTTAGATCACCACAAAGGC
Found at i:33758409 original size:43 final size:43
Alignment explanation
Indices: 33758356--33758455 Score: 146
Period size: 43 Copynumber: 2.3 Consensus size: 43
33758346 CACCCATTCG
* *
33758356 GGCTAGATCCTTTTTATATTGAGATCAACGGATTATCTGTCCA
1 GGCTAAATCCTTTTTATATTGAGATCAACGGATTACCTGTCCA
* * *
33758399 GGCTAAATCCTTTCTATATTGAGATCAACGGGTTACCTGTCCG
1 GGCTAAATCCTTTTTATATTGAGATCAACGGATTACCTGTCCA
*
33758442 GGCTAAATTCTTTT
1 GGCTAAATCCTTTT
33758456 CTGCAACACA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (43 bp):
GGCTAAATCCTTTTTATATTGAGATCAACGGATTACCTGTCCA
Found at i:33758698 original size:17 final size:17
Alignment explanation
Indices: 33758676--33758718 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
33758666 ATTTCAATTA
**
33758676 AAATGTCAATTTCCATC
1 AAATGTCAATTAACATC
*
33758693 AAATGTCCATTAACATC
1 AAATGTCAATTAACATC
33758710 AAAT-TCAAT
1 AAATGTCAAT
33758719 ACAATCATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (17 bp):
AAATGTCAATTAACATC
Found at i:33762302 original size:33 final size:33
Alignment explanation
Indices: 33762260--33762325 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
33762250 CCTCGTAATC
33762260 AAGTTTCGTTCTAATAAAATCGGATTATATTAT
1 AAGTTTCGTTCTAATAAAATCGGATTATATTAT
*
33762293 AAGTTTCGTTCTAATAAAATCTGATTATATTAT
1 AAGTTTCGTTCTAATAAAATCGGATTATATTAT
33762326 CTTAATAATT
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:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (33 bp):
AAGTTTCGTTCTAATAAAATCGGATTATATTAT
Found at i:33765359 original size:16 final size:16
Alignment explanation
Indices: 33765338--33765378 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
33765328 CAGTATTAAT
*
33765338 GTCAATCGAGTTAAAA
1 GTCAATCGAATTAAAA
33765354 GTCAATCGAATTAAAA
1 GTCAATCGAATTAAAA
*
33765370 CTCAATCGA
1 GTCAATCGA
33765379 TTTCTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (16 bp):
GTCAATCGAATTAAAA
Found at i:33767169 original size:16 final size:16
Alignment explanation
Indices: 33767148--33767181 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33767138 ATTTTAACTT
33767148 TTTAAATAATTTCAAG
1 TTTAAATAATTTCAAG
* *
33767164 TTTAAATTATTTCGAG
1 TTTAAATAATTTCAAG
33767180 TT
1 TT
33767182 CGAATTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.50
Consensus pattern (16 bp):
TTTAAATAATTTCAAG
Found at i:33767338 original size:13 final size:13
Alignment explanation
Indices: 33767320--33767349 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
33767310 ACTCACTTTT
33767320 TAATTGAAATTTA
1 TAATTGAAATTTA
33767333 TAATTGAAATTTA
1 TAATTGAAATTTA
33767346 -AATT
1 TAATT
33767350 AATCAAGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (13 bp):
TAATTGAAATTTA
Found at i:33768124 original size:2 final size:2
Alignment explanation
Indices: 33768117--33768144 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
33768107 GGGGGTTTAC
33768117 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33768145 CCTTCCTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33768614 original size:2 final size:2
Alignment explanation
Indices: 33768607--33768638 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
33768597 ATGGTAATAA
33768607 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33768639 CAAGGGGGTT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33769954 original size:14 final size:14
Alignment explanation
Indices: 33769937--33769982 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
33769927 ATCATAACAT
33769937 TTAAATCTATTTAG
1 TTAAATCTATTTAG
*
33769951 TTAAA--T-TTCATG
1 TTAAATCTATTTA-G
33769963 TTAAATCTATTTAG
1 TTAAATCTATTTAG
33769977 TTAAAT
1 TTAAAT
33769983 TTCATTAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
11 3 0.12
12 7 0.27
14 13 0.50
15 3 0.12
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
TTAAATCTATTTAG
Found at i:33769967 original size:26 final size:26
Alignment explanation
Indices: 33769937--33769987 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
33769927 ATCATAACAT
33769937 TTAAATCTATTTAGTTAAATTTCATG
1 TTAAATCTATTTAGTTAAATTTCATG
33769963 TTAAATCTATTTAGTTAAATTTCAT
1 TTAAATCTATTTAGTTAAATTTCAT
33769988 TAGTAGCCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (26 bp):
TTAAATCTATTTAGTTAAATTTCATG
Found at i:33769990 original size:14 final size:14
Alignment explanation
Indices: 33769947--33769991 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
33769937 TTAAATCTAT
33769947 TTAGTTAAATTTCA
1 TTAGTTAAATTTCA
*
33769961 -T-GTTAAATCT-A
1 TTAGTTAAATTTCA
33769972 TTTAGTTAAATTTCA
1 -TTAGTTAAATTTCA
33769987 TTAGT
1 TTAGT
33769992 AGCCCTTGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
11 1 0.04
12 8 0.32
13 2 0.08
14 13 0.52
15 1 0.04
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (14 bp):
TTAGTTAAATTTCA
Found at i:33778254 original size:2 final size:2
Alignment explanation
Indices: 33778247--33778281 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
33778237 TCATTCAAGA
33778247 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33778282 TCCTTAGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:33780196 original size:6 final size:6
Alignment explanation
Indices: 33780185--33780209 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
33780175 AATTTTTAAT
33780185 AATATA AATATA AATATA AATATA A
1 AATATA AATATA AATATA AATATA A
33780210 GTTTTGAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATATA
Found at i:33787688 original size:3 final size:3
Alignment explanation
Indices: 33787673--33787741 Score: 122
Period size: 3 Copynumber: 23.0 Consensus size: 3
33787663 GTTATTTTCA
33787673 TAT TAT TGA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
33787718 TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
33787742 GTATATTAGT
Statistics
Matches: 64, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 1 0.02
3 62 0.97
4 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:33788366 original size:25 final size:22
Alignment explanation
Indices: 33788335--33788392 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 22
33788325 ATTATATGTG
33788335 TATATATTATGTAAAATGTTTTAA
1 TATATATTATGT-AAATGTTTT-A
* *
33788359 TATTATATTATATATATGTTTTA
1 TA-TATATTATGTAAATGTTTTA
33788382 TATATATTATG
1 TATATATTATG
33788393 AACATGTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 8 0.27
23 3 0.10
24 10 0.33
25 9 0.30
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (22 bp):
TATATATTATGTAAATGTTTTA
Found at i:33788399 original size:22 final size:23
Alignment explanation
Indices: 33788335--33788399 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 23
33788325 ATTATATGTG
33788335 TATATATTATGTAAAATGTTTTAA
1 TATATATTATG-AAAATGTTTTAA
*
33788359 TATTATATTAT-ATATATGTTTT-A
1 TA-TATATTATGA-AAATGTTTTAA
*
33788382 TATATATTATGAACATGT
1 TATATATTATGAAAATGT
33788400 ATTTTCAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
22 13 0.36
23 5 0.14
24 10 0.28
25 8 0.22
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (23 bp):
TATATATTATGAAAATGTTTTAA
Found at i:33788415 original size:47 final size:46
Alignment explanation
Indices: 33788335--33788436 Score: 104
Period size: 47 Copynumber: 2.2 Consensus size: 46
33788325 ATTATATGTG
*
33788335 TATATATTATGTAAAATGTTTTAATATTATATTA-TATATATGTTTTA
1 TATATATTATGTAAAATGTTTTAATATTATATTAGT-TAAAT-TTTTA
* *
33788382 TATATATTATG-AACATGTATTTTCAATA-T-TATTAGTTAAATTTTTG
1 TATATATTATGTAAAATG--TTTT-AATATTATATTAGTTAAATTTTTA
33788428 TATATATTA
1 TATATATTA
33788437 CCCTATGTAC
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
46 18 0.38
47 20 0.42
48 6 0.12
49 4 0.08
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (46 bp):
TATATATTATGTAAAATGTTTTAATATTATATTAGTTAAATTTTTA
Found at i:33792306 original size:56 final size:56
Alignment explanation
Indices: 33792220--33792329 Score: 166
Period size: 56 Copynumber: 2.0 Consensus size: 56
33792210 CTCATACGGC
*
33792220 CATGTGGCCCACACAGCCCATAATGACCTTGGCCGTGAGTATTATACAACCTAGGT
1 CATGTGGCCCACACAGCCCATAATGACCTTGGCCATGAGTATTATACAACCTAGGT
** * * *
33792276 CATGTGGCCCACATGGGCCATAATGACCTTGGCCATGATTATTATACAGCCTAG
1 CATGTGGCCCACACAGCCCATAATGACCTTGGCCATGAGTATTATACAACCTAG
33792330 CCCAATAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (56 bp):
CATGTGGCCCACACAGCCCATAATGACCTTGGCCATGAGTATTATACAACCTAGGT
Found at i:33794488 original size:55 final size:56
Alignment explanation
Indices: 33794423--33794537 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
33794413 AGCATGGCTG
* *
33794423 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
33794479 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
33794534 CCAG
1 CCAG
33794538 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:33794500 original size:27 final size:27
Alignment explanation
Indices: 33794448--33794537 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
33794438 GTGACAGAGT
33794448 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
33794477 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
33794504 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
33794532 CACCAG
1 CACCAG
33794538 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:33794690 original size:28 final size:28
Alignment explanation
Indices: 33794643--33794707 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
33794633 AAATTAACCC
*
33794643 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
33794671 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
33794699 TAGGGGTAT
1 TAGGGGTAT
33794708 TCTAGCAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:33796894 original size:20 final size:20
Alignment explanation
Indices: 33796869--33796906 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33796859 GTTTATTCGC
*
33796869 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
33796889 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
33796907 TTTGTATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:33797883 original size:54 final size:53
Alignment explanation
Indices: 33797825--33797963 Score: 138
Period size: 54 Copynumber: 2.6 Consensus size: 53
33797815 ATTACAGTTT
33797825 TACCCTCAATT-TACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTGTA-A-AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * * *
33797879 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAA
1 TA-CCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
** * *
33797933 TACCCAT-GTTTGAAAAATTACTAAAATACCC
1 TACCC-TCAATTGTAAAATTACCAAAATACCC
33797964 CTGTAGGGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
53 26 0.35
54 40 0.53
55 7 0.09
56 2 0.03
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:33797949 original size:26 final size:27
Alignment explanation
Indices: 33797841--33797963 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
33797831 CAATTTACAG
33797841 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
33797868 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
33797895 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
33797922 AATTACCAAAATACCCAT-GTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
33797948 AATTACTAAAATACCC
1 AATTACCAAAATACCC
33797964 CTGTAGGGTA
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
26 21 0.25
27 63 0.75
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:33797976 original size:53 final size:54
Alignment explanation
Indices: 33797841--33797990 Score: 153
Period size: 53 Copynumber: 2.8 Consensus size: 54
33797831 CAATTTACAG
* ** * * *
33797841 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
33797895 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCAT-GTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
33797948 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACCC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACCC
33797991 TTGTGGGGTA
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
52 3 0.04
53 40 0.48
54 40 0.48
55 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
Found at i:33797981 original size:27 final size:26
Alignment explanation
Indices: 33797841--33797990 Score: 147
Period size: 27 Copynumber: 5.6 Consensus size: 26
33797831 CAATTTACAG
* * *
33797841 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACTAAAATACCCCT-GTTTGTAA
* *
33797868 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCCT-GTTTGTAA
* *
33797895 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACTAAAATACCC-CTGTTTGTAA
* * *
33797922 AATTACCAAAATACCCATGTTTGAAA
1 AATTACTAAAATACCCCTGTTTGTAA
**
33797948 AATTACTAAAATACCCCTGTAGGGTAA
1 AATTACTAAAATACCCCTGT-TTGTAA
*
33797975 AATTACTGAAATACCC
1 AATTACTAAAATACCC
33797991 TTGTGGGGTA
Statistics
Matches: 104, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 25 0.24
27 78 0.75
28 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (26 bp):
AATTACTAAAATACCCCTGTTTGTAA
Found at i:33797999 original size:27 final size:27
Alignment explanation
Indices: 33797865--33798007 Score: 103
Period size: 27 Copynumber: 5.3 Consensus size: 27
33797855 CCTTGGTTTA
* * **
33797865 TAAAATCACCAAAATACCCCTGGT-TTG
1 TAAAATTACTAAAATACCCCT-GTAGGG
* ***
33797892 TAAAATTACTAAAATACCCTTTGT-TTA
1 TAAAATTACTAAAATACCC-CTGTAGGG
* * **
33797919 TAAAATTACCAAAATACCCATGT-TTG
1 TAAAATTACTAAAATACCCCTGTAGGG
*
33797945 AAAAATTACTAAAATACCCCTGTAGGG
1 TAAAATTACTAAAATACCCCTGTAGGG
* * *
33797972 TAAAATTACTGAAATACCCTTGTGGGG
1 TAAAATTACTAAAATACCCCTGTAGGG
33797999 TAAAATTAC
1 TAAAATTAC
33798008 CATTTTGCCC
Statistics
Matches: 98, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 25 0.26
27 72 0.73
28 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (27 bp):
TAAAATTACTAAAATACCCCTGTAGGG
Found at i:33798003 original size:80 final size:81
Alignment explanation
Indices: 33797841--33798009 Score: 202
Period size: 80 Copynumber: 2.1 Consensus size: 81
33797831 CAATTTACAG
* **
33797841 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
**
33797906 TACCCTTTGTTTATAA
66 TACCCTTTGTGGATAA
* * *
33797922 AATTACCAAAATACCCAT-GTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTGA
1 AATTACCAAAATACCCATGGTTT-ATAAAATCACCAAAATACCCCTGGT-GGGTAAAATTACTAA
*
33797984 AATACCC-TTGTGGGGTAA
64 AATACCCTTTGT-GGATAA
33798002 AATTACCA
1 AATTACCA
33798010 TTTTGCCCCT
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
79 6 0.08
80 52 0.68
81 18 0.24
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (81 bp):
AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
TACCCTTTGTGGATAA
Found at i:33798660 original size:28 final size:28
Alignment explanation
Indices: 33798628--33798724 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
33798618 GCATAGATCA
33798628 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
33798656 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
33798684 CGAAATTACCCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
33798712 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
33798725 GGGTTTAAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
26 3 0.05
27 8 0.12
28 54 0.83
ACGTcount: A:0.45, C:0.26, G:0.08, T:0.21
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:33802004 original size:27 final size:27
Alignment explanation
Indices: 33801936--33802033 Score: 81
Period size: 27 Copynumber: 3.6 Consensus size: 27
33801926 CGACTTGTAA
*
33801936 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCGATTTACAG
**** *
33801963 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCGATTTACAG
* * * *
33801990 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTCGATTTACAG
*
33802017 AATCACCAAAATACCCT
1 AATTACCAAAATACCCT
33802034 TGGTTCATAA
Statistics
Matches: 55, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.38, C:0.26, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCGATTTACAG
Found at i:33809706 original size:13 final size:13
Alignment explanation
Indices: 33809688--33809712 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33809678 TGAGTATTCC
33809688 AATTTAAACAAAT
1 AATTTAAACAAAT
33809701 AATTTAAACAAA
1 AATTTAAACAAA
33809713 CAACAGTTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTTAAACAAAT
Found at i:33811762 original size:47 final size:46
Alignment explanation
Indices: 33811711--33811816 Score: 140
Period size: 47 Copynumber: 2.3 Consensus size: 46
33811701 AGTAGTATTT
* * *
33811711 GGCCAAAGCTAAATCGATTAAGAGAGGGAGAGAAGAAGAAGAGAATC
1 GGCCAAAGCAAAACCAATTAAGAGAGGGAGAGAAGAA-AAGAGAATC
* *
33811758 GGCCAAAGCAAAACCAATTGAGAGAGGGAGAGAAGCAAAGAGAATC
1 GGCCAAAGCAAAACCAATTAAGAGAGGGAGAGAAGAAAAGAGAATC
* *
33811804 GACCAAAACAAAA
1 GGCCAAAGCAAAA
33811817 AGATGAAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
46 20 0.38
47 32 0.62
ACGTcount: A:0.50, C:0.14, G:0.28, T:0.08
Consensus pattern (46 bp):
GGCCAAAGCAAAACCAATTAAGAGAGGGAGAGAAGAAAAGAGAATC
Found at i:33814419 original size:2 final size:2
Alignment explanation
Indices: 33814414--33814447 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
33814404 GAGCAAAAGA
33814414 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33814448 TGCCATTCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33815861 original size:20 final size:20
Alignment explanation
Indices: 33815836--33815874 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33815826 GTTAAAAAAT
33815836 TTAGTAAAAAATATATAATG
1 TTAGTAAAAAATATATAATG
* *
33815856 TTAGTAAAATATATTTAAT
1 TTAGTAAAAAATATATAAT
33815875 TACTAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (20 bp):
TTAGTAAAAAATATATAATG
Found at i:33815896 original size:22 final size:22
Alignment explanation
Indices: 33815871--33815915 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
33815861 AAAATATATT
33815871 TAATTACTAAAATT-AATAAAAA
1 TAATTA-TAAAATTAAATAAAAA
**
33815893 TAATTATATTATTAAATAAAAA
1 TAATTATAAAATTAAATAAAAA
33815915 T
1 T
33815916 GAATATGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
TAATTATAAAATTAAATAAAAA
Found at i:33816195 original size:17 final size:17
Alignment explanation
Indices: 33816160--33816193 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
33816150 TAAAAAAATA
33816160 TAAATATAAATTAATTT
1 TAAATATAAATTAATTT
*
33816177 TAAATATATA-TAATTT
1 TAAATATAAATTAATTT
33816193 T
1 T
33816194 TAGGCAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATATAAATTAATTT
Found at i:33819638 original size:206 final size:206
Alignment explanation
Indices: 33819284--33819908 Score: 1196
Period size: 206 Copynumber: 3.0 Consensus size: 206
33819274 CACTCTGCGC
*
33819284 AAAGAACTTTCTCAATGTACCCCTTCTGAATTAGGTACAATTTACTTGCTTTTCTATCTCTGAGA
1 AAAGAACTTTCTCAATGTACCCCTTCTGACTTAGGTACAATTTACTTGCTTTTCTATCTCTGAGA
* *
33819349 ATCTCCATACCAAATATCTTCTTTACTGGTCCTAAATCTTTCATCTCAAATTCTTCACTTAGTTG
66 ATCTCCATACCAAGTATCTTCTTTGCTGGTCCTAAATCTTTCATCTCAAATTCTTCACTTAGTTG
33819414 GGCTTTAACCTTTCTTATCTCTCCTTTATCTTTTGCTGCTATCAACATGTCATCAACATAAAGAA
131 GGCTTTAACCTTTCTTATCTCTCCTTTATCTTTTGCTGCTATCAACATGTCATCAACATAAAGAA
33819479 GTAGATACACA
196 GTAGATACACA
33819490 AAAGAACTTTCTCAATGTACCCCTTCTGACTTAGGTACAATTTACTTGCTTTTCTATCTCTGAGA
1 AAAGAACTTTCTCAATGTACCCCTTCTGACTTAGGTACAATTTACTTGCTTTTCTATCTCTGAGA
*
33819555 ATCTCCATACCAAGTATCTTTTTTGCTGGTCCTAAATCTTTCATCTCAAATTCTTCACTTAGTTG
66 ATCTCCATACCAAGTATCTTCTTTGCTGGTCCTAAATCTTTCATCTCAAATTCTTCACTTAGTTG
33819620 GGCTTTAACCTTTCTTATCTCTCCTTTATCTTTTGCTGCTATCAACATGTCATCAACATAAAGAA
131 GGCTTTAACCTTTCTTATCTCTCCTTTATCTTTTGCTGCTATCAACATGTCATCAACATAAAGAA
33819685 GTAGATACACA
196 GTAGATACACA
33819696 AAAGAACTTTCTCAATGTACCCCTTCTGACTTAGGTACAATTTACTTGCTTTTCTATCTCTGAGA
1 AAAGAACTTTCTCAATGTACCCCTTCTGACTTAGGTACAATTTACTTGCTTTTCTATCTCTGAGA
* *
33819761 ATCTCCATACCAAGTATCTTCTTTGCTGGTCCTAAATCTTTCATCTCAAATTATTCGCTTAGTTG
66 ATCTCCATACCAAGTATCTTCTTTGCTGGTCCTAAATCTTTCATCTCAAATTCTTCACTTAGTTG
33819826 GGCTTTAACCTTTCTTATCTCTCCTTTATCTTTTGCTGCTATCAACATGTCATCAACATAAAGAA
131 GGCTTTAACCTTTCTTATCTCTCCTTTATCTTTTGCTGCTATCAACATGTCATCAACATAAAGAA
33819891 GTAGATACACA
196 GTAGATACACA
33819902 AAAGAAC
1 AAAGAAC
33819909 CATCACTGTT
Statistics
Matches: 412, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
206 412 1.00
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.39
Consensus pattern (206 bp):
AAAGAACTTTCTCAATGTACCCCTTCTGACTTAGGTACAATTTACTTGCTTTTCTATCTCTGAGA
ATCTCCATACCAAGTATCTTCTTTGCTGGTCCTAAATCTTTCATCTCAAATTCTTCACTTAGTTG
GGCTTTAACCTTTCTTATCTCTCCTTTATCTTTTGCTGCTATCAACATGTCATCAACATAAAGAA
GTAGATACACA
Found at i:33824197 original size:25 final size:27
Alignment explanation
Indices: 33824148--33824198 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
33824138 ACATTATTTT
33824148 AATGTAATAGAATAATAATGTATAAAAA
1 AATGTAATAGAATAAT-ATGTATAAAAA
*
33824176 AATGTGATAGAATAAT-TG-ATAAA
1 AATGTAATAGAATAATATGTATAAA
33824199 TTTATTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 5 0.23
26 2 0.09
28 15 0.68
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (27 bp):
AATGTAATAGAATAATATGTATAAAAA
Found at i:33825395 original size:69 final size:68
Alignment explanation
Indices: 33825295--33825459 Score: 161
Period size: 69 Copynumber: 2.4 Consensus size: 68
33825285 TCACTAAAGT
* * * * * * * * * * ** * *
33825295 AGTTAACGAGAGTAAAGCTCCTAGCTATAAAATTAAGGTTCACAGGTGAAGAGTCGTGACCTCTA
1 AGTTAGCGAGAGCAAAGCTCCCAACTGTAAAATCAAAGTTCACAAGTGAAAAGCCACGACCCCCA
33825360 ACA
66 ACA
*
33825363 CAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAATCAAAGTTCGCAAGTGAAAAGCCACGACCCCC
1 -AGTTAGCGAGAGCAAAGCTCCCAACTGTAAAATCAAAGTTCACAAGTGAAAAGCCACGACCCCC
33825428 AACA
65 AACA
* *
33825432 A-TTAGTGAGAGCAAAGCTCCCATCTGTA
1 AGTTAGCGAGAGCAAAGCTCCCAACTGTA
33825460 GAGCCAAGGT
Statistics
Matches: 79, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
67 25 0.32
68 1 0.01
69 53 0.67
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (68 bp):
AGTTAGCGAGAGCAAAGCTCCCAACTGTAAAATCAAAGTTCACAAGTGAAAAGCCACGACCCCCA
ACA
Found at i:33827792 original size:43 final size:43
Alignment explanation
Indices: 33827739--33827852 Score: 151
Period size: 43 Copynumber: 2.7 Consensus size: 43
33827729 TGATTACATT
33827739 TAAGACCATGTCTGGGACATTGGCATTGTATTGATATTATGTG
1 TAAGACCATGTCTGGGACATTGGCATTGTATTGATATTATGTG
* * *
33827782 TAAGATCATGTCTGGGACATTGGCATCGTTAATCGAT-TT-TGTG
1 TAAGACCATGTCTGGGACATTGGCATTG-T-ATTGATATTATGTG
* *
33827825 TAAGACCCTGTCTGGGACAGTGGCATTG
1 TAAGACCATGTCTGGGACATTGGCATTG
33827853 ATATGTAATA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
43 54 0.87
44 3 0.05
45 5 0.08
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACATTGGCATTGTATTGATATTATGTG
Found at i:33836967 original size:46 final size:46
Alignment explanation
Indices: 33836895--33837214 Score: 417
Period size: 46 Copynumber: 7.0 Consensus size: 46
33836885 GGTTTCTGAA
* **
33836895 ATGAAATGTGTAAGACCATTGTTGAAAGATATAATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
33836941 ATGATATGTGTAAGACAATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
33836987 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
33837033 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * ** *
33837079 ATGAAAAGTGTAAAACCATGGTTGAAAGATACCATGGCAATGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * * * *
33837125 ATGAAATGAATAAGACCATGGTTGAAATATATCACGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
33837171 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
33837215 TCGAAGATAA
Statistics
Matches: 240, Mismatches: 33, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 1 0.00
46 239 1.00
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.24
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:33837318 original size:13 final size:13
Alignment explanation
Indices: 33837298--33837340 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
33837288 CCAGATGGCG
33837298 AATGGTTATATGA
1 AATGGTTATATGA
* **
33837311 ATTGGTTATACAA
1 AATGGTTATATGA
*
33837324 AATGGTTGTATGA
1 AATGGTTATATGA
33837337 AATG
1 AATG
33837341 TTTACAAGAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.37
Consensus pattern (13 bp):
AATGGTTATATGA
Found at i:33837355 original size:26 final size:26
Alignment explanation
Indices: 33837298--33837392 Score: 70
Period size: 26 Copynumber: 3.6 Consensus size: 26
33837288 CCAGATGGCG
*
33837298 AATGGTTATATGAATTGGTTATACAA
1 AATGGTTATATGAAATGGTTATACAA
*
33837324 AATGGTTGTATGAAAT-GTT-TACAA
1 AATGGTTATATGAAATGGTTATACAA
* * *
33837348 GAATTGGTCATATGGAAAT-ATATTTACAA
1 -AA-TGGTTATAT-GAAATGGT-TATACAA
* *
33837377 AATAGTTGTATGAAAT
1 AATGGTTATATGAAAT
33837393 AATTAAGAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
24 5 0.09
25 5 0.09
26 26 0.46
27 12 0.21
28 3 0.05
29 5 0.09
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.37
Consensus pattern (26 bp):
AATGGTTATATGAAATGGTTATACAA
Found at i:33840474 original size:69 final size:69
Alignment explanation
Indices: 33840357--33840711 Score: 388
Period size: 69 Copynumber: 5.1 Consensus size: 69
33840347 ATTTATCGTT
* * * * * * * *
33840357 TGTAAAATTAAGGTTTGCAGGCGAAGTGCCGCAACCTCTAATACAGTTAGTTAGAGCAAAGCTCC
1 TGTAAAATCAAGGTTCGCAGGTGAAGAGTCGCGACCTCTAACACAGTTAGTGAGAGCAAAGCTCC
33840422 CAGA
66 CAGA
* * * * * * *
33840426 TGTAAAATCAAGGCTCGCAGGCGAAGAGCCGTGACCTCTAACATAGTTAGCGAGAGTAAAGCTCC
1 TGTAAAATCAAGGTTCGCAGGTGAAGAGTCGCGACCTCTAACACAGTTAGTGAGAGCAAAGCTCC
* *
33840491 TAGC
66 CAGA
* * * * * **
33840495 TGTAAAATCAAGGCTCACAGGTAAAGAGTCACGACCTTTAACACAGTTAGCAAGAGCAAAGCTCC
1 TGTAAAATCAAGGTTCGCAGGTGAAGAGTCGCGACCTCTAACACAGTTAGTGAGAGCAAAGCTCC
33840560 CA-A
66 CAGA
* * *
33840563 CTGTAAAATCAAGGTTCGCAGGTGAAGAGTCGCGAACACTAACACAGTTAGTGAGAACAAAGCTC
1 -TGTAAAATCAAGGTTCGCAGGTGAAGAGTCGCGACCTCTAACACAGTTAGTGAGAGCAAAGCTC
*
33840628 CTAGA
65 CCAGA
* * * * *
33840633 TGTAAAATCAAGGTTCGTAGGTGAAAAGTCGCGACCTCTAACACAGTTAATGAGAGCAAAGTTTC
1 TGTAAAATCAAGGTTCGCAGGTGAAGAGTCGCGACCTCTAACACAGTTAGTGAGAGCAAAGCTCC
*
33840698 CAGT
66 CAGA
33840702 TGTAAAATCA
1 TGTAAAATCA
33840712 TAGTTCGTAA
Statistics
Matches: 238, Mismatches: 46, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
69 237 1.00
70 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (69 bp):
TGTAAAATCAAGGTTCGCAGGTGAAGAGTCGCGACCTCTAACACAGTTAGTGAGAGCAAAGCTCC
CAGA
Found at i:33840873 original size:69 final size:69
Alignment explanation
Indices: 33840738--33840888 Score: 160
Period size: 69 Copynumber: 2.2 Consensus size: 69
33840728 AGTCGCAACA
** * * * * *
33840738 CAATTAGTAAGAGCAAAACAACTAGCTGTAAAATCAAAGTTTGAAAGTGAAAAGCTGTGACCACT
1 CAATTAGCGAGAGCAAAACAACTAGCTATAAAATCAAAGGTTCAAAGCGAAAAGCTGCGACCACT
33840803 AAAG
66 AAAG
* * * * * *
33840807 CAGTTAGCGAGAGCAAAACACCTAGCTATAAAATC-AAGGTTCACAGGCGAAGAGTTGCGACTAC
1 CAATTAGCGAGAGCAAAACAACTAGCTATAAAATCAAAGGTTCA-AAGCGAAAAGCTGCGACCAC
33840871 TAAAG
65 TAAAG
*
33840876 TAATTAGCGAGAG
1 CAATTAGCGAGAG
33840889 TAAAGCTCCC
Statistics
Matches: 66, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
68 6 0.09
69 60 0.91
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.19
Consensus pattern (69 bp):
CAATTAGCGAGAGCAAAACAACTAGCTATAAAATCAAAGGTTCAAAGCGAAAAGCTGCGACCACT
AAAG
Found at i:33842458 original size:295 final size:295
Alignment explanation
Indices: 33841928--33842518 Score: 1182
Period size: 295 Copynumber: 2.0 Consensus size: 295
33841918 ACCACTGGAG
33841928 AGTTCTCACGAGTAGGGGAAGGGGGAGTGTCCTCAAAAATAGTAATGAGGGAGCTCGTTTGGGCA
1 AGTTCTCACGAGTAGGGGAAGGGGGAGTGTCCTCAAAAATAGTAATGAGGGAGCTCGTTTGGGCA
33841993 ATGGTTGGCAAGTTCGTGAAAAGAGAAGAGTGGATGGGGGTGACCGCAATAGCAGGGCCTCCACA
66 ATGGTTGGCAAGTTCGTGAAAAGAGAAGAGTGGATGGGGGTGACCGCAATAGCAGGGCCTCCACA
33842058 ATCAGCTCCACTCTTCTGTCAATGCTATAGTTGGTAACCACTCCCTTTCTCCTTGCTAGAAGCAT
131 ATCAGCTCCACTCTTCTGTCAATGCTATAGTTGGTAACCACTCCCTTTCTCCTTGCTAGAAGCAT
33842123 TGACACGTGTGGCCCCAGCTGAAGTCCTGCACCTCTTGCGACCACTATTTATTAAAACATCAATG
196 TGACACGTGTGGCCCCAGCTGAAGTCCTGCACCTCTTGCGACCACTATTTATTAAAACATCAATG
33842188 TTCATGGCTTTGTTAAGCTCGTATGAGATGCTGTC
261 TTCATGGCTTTGTTAAGCTCGTATGAGATGCTGTC
33842223 AGTTCTCACGAGTAGGGGAAGGGGGAGTGTCCTCAAAAATAGTAATGAGGGAGCTCGTTTGGGCA
1 AGTTCTCACGAGTAGGGGAAGGGGGAGTGTCCTCAAAAATAGTAATGAGGGAGCTCGTTTGGGCA
33842288 ATGGTTGGCAAGTTCGTGAAAAGAGAAGAGTGGATGGGGGTGACCGCAATAGCAGGGCCTCCACA
66 ATGGTTGGCAAGTTCGTGAAAAGAGAAGAGTGGATGGGGGTGACCGCAATAGCAGGGCCTCCACA
33842353 ATCAGCTCCACTCTTCTGTCAATGCTATAGTTGGTAACCACTCCCTTTCTCCTTGCTAGAAGCAT
131 ATCAGCTCCACTCTTCTGTCAATGCTATAGTTGGTAACCACTCCCTTTCTCCTTGCTAGAAGCAT
33842418 TGACACGTGTGGCCCCAGCTGAAGTCCTGCACCTCTTGCGACCACTATTTATTAAAACATCAATG
196 TGACACGTGTGGCCCCAGCTGAAGTCCTGCACCTCTTGCGACCACTATTTATTAAAACATCAATG
33842483 TTCATGGCTTTGTTAAGCTCGTATGAGATGCTGTC
261 TTCATGGCTTTGTTAAGCTCGTATGAGATGCTGTC
33842518 A
1 A
33842519 CTATCGCTTG
Statistics
Matches: 296, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
295 296 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (295 bp):
AGTTCTCACGAGTAGGGGAAGGGGGAGTGTCCTCAAAAATAGTAATGAGGGAGCTCGTTTGGGCA
ATGGTTGGCAAGTTCGTGAAAAGAGAAGAGTGGATGGGGGTGACCGCAATAGCAGGGCCTCCACA
ATCAGCTCCACTCTTCTGTCAATGCTATAGTTGGTAACCACTCCCTTTCTCCTTGCTAGAAGCAT
TGACACGTGTGGCCCCAGCTGAAGTCCTGCACCTCTTGCGACCACTATTTATTAAAACATCAATG
TTCATGGCTTTGTTAAGCTCGTATGAGATGCTGTC
Found at i:33857271 original size:68 final size:67
Alignment explanation
Indices: 33857166--33857303 Score: 240
Period size: 68 Copynumber: 2.0 Consensus size: 67
33857156 AACCCAAATT
* * *
33857166 TAATATTAAAAATGATTTAATCTATTTTTAATAAATTAATTATGTATTTTTATGTATAATAAAAT
1 TAATATTAAAAATAATATAATCTATTTTTAATAAATTAATTATGTATTTTTATATATAATAAAAT
33857231 AA
66 AA
33857233 TAATATTAAAAATAATAATAATCTATTTTTAATAAATTAATTATGTATTTTTATATATAATAAAA
1 TAATATTAAAAATAAT-ATAATCTATTTTTAATAAATTAATTATGTATTTTTATATATAATAAAA
33857298 TAA
65 TAA
33857301 TAA
1 TAA
33857304 ATTTTGAGGA
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
67 15 0.22
68 52 0.78
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (67 bp):
TAATATTAAAAATAATATAATCTATTTTTAATAAATTAATTATGTATTTTTATATATAATAAAAT
AA
Found at i:33859377 original size:18 final size:18
Alignment explanation
Indices: 33859354--33859407 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
33859344 CCACCACCAA
33859354 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
33859372 CTCCACT----AC-C-TA
1 CTCCACTAGCCACACTTG
33859384 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
33859402 CTCCAC
1 CTCCAC
33859408 CACCACTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 8 0.29
13 1 0.04
14 2 0.07
16 2 0.07
17 1 0.04
18 14 0.50
ACGTcount: A:0.22, C:0.48, G:0.07, T:0.22
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:33859387 original size:30 final size:30
Alignment explanation
Indices: 33859344--33859412 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
33859334 CTAGCCTTTG
33859344 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
33859374 CCACTACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
33859404 CCACCACCA
1 CCACCACCA
33859413 CTTGTACTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.26, C:0.51, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:33859969 original size:25 final size:25
Alignment explanation
Indices: 33859941--33860010 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
33859931 ATTCTAAATT
33859941 CTATATTACGTATATATATATT-ATA
1 CTATATTA-GTATATATATATTAATA
* *
33859966 CTATTTTATGTATATATCT-TTAATA
1 CTATATTA-GTATATATATATTAATA
*
33859991 CTATATTATTATATATATAT
1 CTATATTAGTATATATATAT
33860011 ATTTTTTTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
24 10 0.27
25 27 0.73
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (25 bp):
CTATATTAGTATATATATATTAATA
Found at i:33860056 original size:22 final size:23
Alignment explanation
Indices: 33860026--33860092 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 23
33860016 TTTCTACATG
*
33860026 TTATCTTATGTATATATTTTA-A
1 TTATATTATGTATATATTTTACA
*
33860048 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTACA
* *
33860073 CTATATTATGTACATATTTT
1 TTATATTATGTATATATTTT
33860093 TTTATATCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 11 0.30
23 6 0.16
24 8 0.22
25 12 0.32
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (23 bp):
TTATATTATGTATATATTTTACA
Found at i:33860182 original size:25 final size:24
Alignment explanation
Indices: 33860154--33860209 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
33860144 GTTATATTTT
*
33860154 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
33860179 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
33860202 CACTATTA
1 CACTATTA
33860210 CTATTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:33862994 original size:26 final size:26
Alignment explanation
Indices: 33862958--33863011 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
33862948 CACACAACCG
33862958 ATAGAGGAGCATTTACGGGTCATCCC
1 ATAGAGGAGCATTTACGGGTCATCCC
33862984 ATAGAGGAGCATTTACGGGTCATCCC
1 ATAGAGGAGCATTTACGGGTCATCCC
33863010 AT
1 AT
33863012 CCGAGTTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (26 bp):
ATAGAGGAGCATTTACGGGTCATCCC
Found at i:33868891 original size:13 final size:13
Alignment explanation
Indices: 33868847--33868891 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
33868837 CGCCGAGGTA
*
33868847 TTTTTAATTTTTG
1 TTTTTAATTTCTG
33868860 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
*
33868874 CTTTTAATTTCTG
1 TTTTTAATTTCTG
33868887 TTTTT
1 TTTTT
33868892 CAAAAATCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.13, C:0.09, G:0.07, T:0.71
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:33868956 original size:100 final size:98
Alignment explanation
Indices: 33868759--33869155 Score: 433
Period size: 100 Copynumber: 4.1 Consensus size: 98
33868749 CGCTGAGGTA
33868759 TTTTCAATTTTCATTTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
1 TTTTCAATTTTC---TTTT-AATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
* * * *
33868824 GAGCCTCGGGGCACGCCGAGGTATTTTTAATTTTTGT
62 GAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
* *
33868861 TTTTCAATTTCTGCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTT-T-CTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* *
33868926 GCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGT
64 GCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
** * * *
33868961 TTTTCAATTTTTACCTTACAAATTCTGCTTTTC--AAATCAATTCATATTGCGAGAGGTGAGTTG
1 TTTTCAA-TTTT--CTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
*
33869024 AGCCTCAGGATACGCTGAGGTATTTTCAA-------
63 AGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
* * *
33869053 TTTTC--GTTT-TTTTAATTTATG-TTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
1 TTTTCAATTTTCTTTTAATTTATGCTTT-T-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
33869114 GCCTCAGGACACGCTGAGGTAATTTCAATTTTTGT
64 GCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
*
33869149 TTGTCAA
1 TTTTCAA
33869156 AACTCAACTC
Statistics
Matches: 253, Mismatches: 25, Indels: 38
0.80 0.08 0.12
Matches are distributed among these distances:
85 3 0.01
86 9 0.04
89 58 0.23
92 5 0.02
96 4 0.02
99 56 0.22
100 84 0.33
101 22 0.09
102 10 0.04
103 1 0.00
104 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (98 bp):
TTTTCAATTTTCTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
CTCAGGACACGCTGAGGTATTTTCAATTTTTGT
Found at i:33869259 original size:150 final size:146
Alignment explanation
Indices: 33869061--33869786 Score: 857
Period size: 150 Copynumber: 4.9 Consensus size: 146
33869051 AATTTTCGTT
* * * *
33869061 TTTTTAATTTATGTTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTCTGTTTGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* * * * *
33869126 GCTGAGGTAATTTCAATTTTTGTTTGTC-AAAACTCAACTCATATTGTGAAAGGTGAGTTGAGCC
66 GCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCC
33869190 TCAAGACACATTGAGGTA
131 TCAAGACAC--TGAGGTA
* *
33869208 TTTTCAATTTCTGTCTT-TAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAG
1 TTTTCAATTTCTGT-TTGT---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* * *
33869272 ACACGTTGAGGTATTTTCAATTTCTGTTTTTTAAAAAAATCAACTCATATTGCGATAGGTGAGTT
62 ACACGCTGAGGTATTTTCAATTTCTG-TTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTT
* *
33869337 GAACCTCAAGACGCTGAGGTA
126 GAGCCTCAAGACACTGAGGTA
* * * * *
33869358 ATTTCAATTTTTGTTTGT-CAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCTGTTTGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* * * * *
33869422 GTTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAAC
66 GCTGAGGTATTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGC
* * * *
33869487 CTTAAGACGCTAAGGTG
130 CTCAAGACACTGAGGTA
* * *
33869504 TTTTCAATTTCTATTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGTCA
1 TTTTCAATTTCTGTTTGT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
* * * *
33869569 CACGCTGAGGTGTTTTCAACTTCTGTTTTTCAAAAAAATCAACTCATGTTGCGAGAGGTGAGTTG
63 CACGCTGAGGTATTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAAAGGTGAGTTG
*
33869634 AGCCTCAGGACACGTTGAGGTA
127 AGCCTCAAGACAC--TGAGGTA
* ** * *
33869656 GTTTT-AATTTCTATTCATCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
1 -TTTTCAATTTCTGTTTGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
* *
33869720 CACGCTGAGGTGTTTTCAATTTATGTTTTTCAAAAGAATCAACTCATATTGCGAAAGGTGAGTTG
63 CACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAA-AATCAACTCATATTGCGAAAGGTGAGTTG
33869785 AG
127 AG
33869787 TCTCGGACCA
Statistics
Matches: 508, Mismatches: 55, Indels: 28
0.86 0.09 0.05
Matches are distributed among these distances:
145 4 0.01
146 128 0.25
147 13 0.03
148 39 0.08
149 2 0.00
150 156 0.31
151 106 0.21
152 56 0.11
153 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Consensus pattern (146 bp):
TTTTCAATTTCTGTTTGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCC
TCAAGACACTGAGGTA
Found at i:33869269 original size:77 final size:74
Alignment explanation
Indices: 33869061--33869786 Score: 826
Period size: 73 Copynumber: 9.7 Consensus size: 74
33869051 AATTTTCGTT
* * * *
33869061 TTTTTAATTTATG-TTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
33869125 CGCTGAGGTA
65 CGTTGAGGTA
* * * * *
33869135 ATTTCAATTTTTGTTTGTC--AAAACTCAACTCATATTGTGAAAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
33869198 CATTGAGGTA
65 CGTTGAGGTA
* *
33869208 TTTTCAATTTCTGTCTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGA
1 TTTTCAATTTCTGT-TTT--CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
33869273 CACGTTGAGGTA
63 CACGTTGAGGTA
* * *
33869285 TTTTCAATTTCTGTTTTTTAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAG--A
1 TTTTCAATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
33869348 CGCTGAGGTA
65 CGTTGAGGTA
* * *
33869358 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
33869421 CGTTGAGGTA
65 CGTTGAGGTA
* * *
33869431 TTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTTAAG--A
1 TTTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * *
33869494 CGCTAAGGTG
65 CGTTGAGGTA
* * **
33869504 TTTTCAATTTCTATTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGTCA
1 TTTTCAATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--A
* *
33869569 CACGCTGAGGTG
63 CACGTTGAGGTA
* * *
33869581 TTTTCAACTTCTGTTTTTCAAAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
33869646 CGTTGAGGTA
65 CGTTGAGGTA
* * **
33869656 GTTTT-AATTTCTATTCATC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
1 -TTTTCAATTTCTGTT-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--
* *
33869719 ACACGCTGAGGTG
62 ACACGTTGAGGTA
* * *
33869732 TTTTCAATTTATGTTTTTCAAAAGAATCAACTCATATTGCGAAAGGTGAGTTGAG
1 TTTTCAATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
33869787 TCTCGGACCA
Statistics
Matches: 561, Mismatches: 64, Indels: 51
0.83 0.09 0.08
Matches are distributed among these distances:
71 38 0.07
72 5 0.01
73 166 0.30
74 56 0.10
75 104 0.19
76 25 0.04
77 163 0.29
78 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Consensus pattern (74 bp):
TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
GTTGAGGTA
Found at i:33869792 original size:77 final size:75
Alignment explanation
Indices: 33869061--33869826 Score: 854
Period size: 77 Copynumber: 10.2 Consensus size: 75
33869051 AATTTTCGTT
* * * *
33869061 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
33869125 CGCTGAGGTA
66 CGCTGAGGTA
* * * * * * *
33869135 ATTTCAATTTTTGTTTGTC--AAAACTCAACTCATATTGTGAAAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
**
33869198 CATTGAGGTA
66 CGCTGAGGTA
** * *
33869208 TTTTCAATTTCTGTCTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGA
1 TTTTCAATTTCTGT-TTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
*
33869273 CACGTTGAGGTA
64 CACGCTGAGGTA
* * * *
33869285 TTTTCAATTTCTGTTTTTTAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCA--AGA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
33869348 CGCTGAGGTA
66 CGCTGAGGTA
* * * * *
33869358 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
33869421 CGTTGAGGTA
66 CGCTGAGGTA
* * * * *
33869431 TTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTTA--AGA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
33869494 CGCTAAGGTG
66 CGCTGAGGTA
* * * *
33869504 TTTTCAATTTCTATTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGTCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
*
33869569 CACGCTGAGGTG
64 CACGCTGAGGTA
* *
33869581 TTTTCAACTTCTGTTTTTCAAAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
33869646 CGTTGAGGTA
66 CGCTGAGGTA
* ** *
33869656 GTTTT-AATTTCTATTCATC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
1 -TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
*
33869719 ACACGCTGAGGTG
63 ACACGCTGAGGTA
* * * *
33869732 TTTTCAATTTATGTTTTTCAAAAGAATCAACTCATATTGCGAAAGGTGAGTTGAGTCTC-GGACC
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-C
* *
33869796 ACACGTCGAGGTC
65 ACGC-T-GAGGTA
* *
33869809 CTTTCAAATTCTGTTTTT
1 TTTTCAATTTCTGTTTTT
33869827 AATTTCTTTT
Statistics
Matches: 586, Mismatches: 85, Indels: 39
0.83 0.12 0.05
Matches are distributed among these distances:
71 36 0.06
73 172 0.29
74 57 0.10
75 104 0.18
76 31 0.05
77 186 0.32
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTA
Found at i:33869933 original size:13 final size:13
Alignment explanation
Indices: 33869911--33869944 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
33869901 GGCTGAGGTG
*
33869911 TTTTCCATTTCTA
1 TTTTCAATTTCTA
33869924 TTTTCAATTTCTA
1 TTTTCAATTTCTA
33869937 TTTT-AATT
1 TTTTCAATT
33869945 CAAAAAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTTCAATTTCTA
Found at i:33870026 original size:71 final size:71
Alignment explanation
Indices: 33869944--33870081 Score: 240
Period size: 71 Copynumber: 1.9 Consensus size: 71
33869934 CTATTTTAAT
*
33869944 TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGTCACATTGAGGTATTTTCAAT
1 TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACATTGAGGTATTTTCAAT
33870009 TTATCA
66 TTATCA
* * *
33870015 TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACCCGTTGAGGTATTTTCAAT
1 TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACATTGAGGTATTTTCAAT
33870080 TT
66 TT
33870082 CTGCTCAATT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (71 bp):
TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACATTGAGGTATTTTCAAT
TTATCA
Found at i:33870179 original size:155 final size:154
Alignment explanation
Indices: 33869838--33870604 Score: 635
Period size: 155 Copynumber: 4.9 Consensus size: 154
33869828 ATTTCTTTTT
* * * *
33869838 TTTTTAATTTATGTGTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--A
1 TTTTCAATTTATGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * ** *
33869901 GGCTGAGGTGTTTTCCATTTCTATTTTCAATTTCTATTTTAATTCAAAAAATCAACTCATATTGC
65 CGCTGAGGTATTTTCAATTTC--TGCTCAA-TT-TATGTT--TTC-AAAAATCAACTCATATTGC
* ** *
33869966 GAGAGGTGAGTTGAACCTCAAGTCACATTGAGGTA
123 GAGAGGTGAGTTGAGCCTC-A--CACGCTGAGGTG
** *
33870001 TTTTCAATTTA---TCATCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACCC
1 TTTTCAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
*
33870063 GTTGAGGTATTTTCAATTTCTGCTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGT
66 GCTGAGGTATTTTCAATTTCTGCTCAATTTATG-TTTTCAAAAATCAACTCATATTGCGAGAGGT
*
33870128 GAGTTGAGCCTCACATGCTGAGGTG
130 GAGTTGAGCCTCACACGCTGAGGTG
* * * **
33870153 TTTTCAATTTCTGTTTTTCAAAAAATCAACTTATATTGCGGGAGGTGAGTTGAGCCTTGGC-TTA
1 TTTTCAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--CAAGA
****
33870217 CACGCTGAGGTATTTTTCAATTTCTG------TT-TGTAAAAAAAAATCAACTCATATTGCGAGA
63 CACGCTGAGGTA-TTTTCAATTTCTGCTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGA
33870275 GGTGAGTTGAGCCTCGGGTCACACGCTGAGGTG
127 GGTGAGTTGAG-C-C---TCACACGCTGAGGTG
* * * * *
33870308 TTTTCAACTTCTTTTTTTCAAAAAAATCAATTCATGTTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTATGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * ** *
33870373 CGTTGAGGTAGTTTT-AA-TT-T-CT--A-TT-CG--TAAAAAAATCAACTCATATTGCAAGAGG
65 CGCTGAGGTA-TTTTCAATTTCTGCTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGG
33870428 TGAGTTGAGCCTCGGGTCACACGCTGAGGTG
129 TGAGTTGAG-C-C---TCACACGCTGAGGTG
* ** *
33870459 TTTTCAATTTATGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
1 TTTTCAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
* ** * *
33870524 GCTGAGGTATTTTCAATTAATGTTTTTTCAATTTATGCTTTTCAAGAATCAACTCATATTACGAG
66 GCTGAGGTATTTTCAA-T--T-TCTGCTCAATTTATG-TTTTCAAAAATCAACTCATATTGCGAG
**
33870589 AAATGAGTTGAGCCTC
126 AGGTGAGTTGAGCCTC
33870605 GGGTCACATA
Statistics
Matches: 504, Mismatches: 65, Indels: 74
0.78 0.10 0.12
Matches are distributed among these distances:
149 4 0.01
150 86 0.17
151 76 0.15
152 23 0.05
153 6 0.01
154 18 0.04
155 108 0.21
156 38 0.08
157 15 0.03
158 18 0.04
159 48 0.10
160 4 0.01
161 18 0.04
162 1 0.00
163 11 0.02
164 30 0.06
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (154 bp):
TTTTCAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
GCTGAGGTATTTTCAATTTCTGCTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTG
AGTTGAGCCTCACACGCTGAGGTG
Found at i:33870327 original size:727 final size:712
Alignment explanation
Indices: 33869206--33870518 Score: 2017
Period size: 727 Copynumber: 1.8 Consensus size: 712
33869196 CACATTGAGG
*
33869206 TATTTTCAATTTCTGTCTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAA
1 TATTTTCAATTTCTATCTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAA
* * ** *
33869271 GACACGTTGAGGTATTTTCAATTTCTGTTTTTTAAAAAAATCAACTCATATTGCGATAGGTGAGT
66 GACACATTGAGGTATTTTCAA-TTCTGTATCATAAAAAAATCAACTCATATTGCGAGAGGTGAGT
*
33869336 TGAACCTCAAGACGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCAAATTGCGAGAG
130 TGAACCTCAAGACGCTGAGGTAATTTCAATTTATGTTTGTCAAAAATCAACTCAAATTGCGAGAG
* *
33869401 GTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCAT
195 GTGAGTTGAGCCTC-A-ACACGCTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCAT
* *
33869466 ATTGCGAGAGGTGAGTTGAACCTTAAGACGCTAAGGTGTTTTCAATTTCTATTTGTCAAAAAAAT
258 ATTGCGAGAGGTGAGTTGAACCTTAACACGCTAAGGTGTTTTCAATTTCTATTTGTAAAAAAAAT
33869531 CAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGTCACACGCTGAGGTGTTTTCAACTTCTGTT
323 CAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGTCACACGCTGAGGTGTTTTCAACTTCTGTT
*
33869596 TTTCAAAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAGTTTT
388 TTTCAAAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAGTTTT
* *
33869661 AATTTCTATTCATCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCT
453 AATTTCTATTCATAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACACGCT
* *
33869726 GAGGTGTTTTCAATTTATGTTTTTCAAAAGAATCAACTCATATTGCGAAAGGTGAGTTGAGTCTC
518 GAGGTGTTTTCAATTTATGTTTTT-AAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTC
33869791 GGACCACACGTCGAGGTCCTTTCAAATTCTGTTTTTAATTTCTTTTTTTTTTAATTTATGTGTTT
582 GGACCACACGTCGAGGTCCTTTCAAATTCTGTTTTTAATTTCTTTTTTTTTTAATTTATGTGTTT
33869856 CAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAGGCTGAGGTGTTTTCCATTT
647 CAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAGGCTGAGGTGTTTTCCATTT
33869921 C
712 C
**
33869922 TATTTTCAATTTCTAT-TTTAATTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA
1 TATTTTCAATTTCTATCTTTAA-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA
* *
33869986 AGTCACATTGAGGTATTTTCAA-T-T-TATCATCAAAAAATCAACTCATATTGCGAGAGGTGAGT
65 AGACACATTGAGGTATTTTCAATTCTGTATCATAAAAAAATCAACTCATATTGCGAGAGGTGAGT
* * *
33870048 TGAGCCTCAAGACCCGTTGAGGTATTTTCAATTTCTGCTCAATTTATGTTTTTCAAAAATCAACT
130 TGAACCTCAAGA--CGCTGAGG-----T-AA--T-T--TCAATTTATGTTTGTCAAAAATCAACT
* * * *
33870113 CATATTGCGAGAGGTGAGTTGAGCCTC-ACATGCTGAGGTGTTTTCAATTTCTGTTTTTC-AAAA
182 CAAATTGCGAGAGGTGAGTTGAGCCTCAACACGCTGAGGTATTTTCAATTTCTGTCTTTCAAAAA
* * * * * *
33870176 AATCAACTTATATTGCGGGAGGTGAGTTGAGCCTTGGCTTACACGCTGAGGTATTTTTCAATTTC
247 AATCAACTCATATTGCGAGAGGTGAGTTGAACC-T---TAACACGCTAAGGT-GTTTTCAATTTC
* *
33870241 TGTTTGTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGG
307 TATTTGT-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGTCACACGCTGAGG
* *
33870306 TGTTTTCAACTTCTTTTTTTCAAAAAAATCAATTCATGTTGCGAGAGGTGAGTTGAGCCTCAAGA
371 TGTTTTCAACTTCTGTTTTTCAAAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCTCAAGA
*
33870371 CACGTTGAGGTAGTTTTAATTTCTATTCGTAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGA
436 CACGTTGAGGTAGTTTTAATTTCTATTCATAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGA
*
33870436 GCCTCGGGTCACACGCTGAGGTGTTTTCAATTTATGTTTTTAAAAAAATCAACTCATATTGCGAG
501 GCCTCGGGTCACACGCTGAGGTGTTTTCAATTTATGTTTTTAAAAAAATCAACTCATATTGCGAA
33870501 AGGTGAGTTGAGCCTCGG
566 AGGTGAGTTGAGCCTCGG
33870519 GGCACGCTGA
Statistics
Matches: 538, Mismatches: 39, Indels: 30
0.89 0.06 0.05
Matches are distributed among these distances:
712 44 0.08
713 1 0.00
714 8 0.01
715 5 0.01
716 75 0.14
719 1 0.00
720 2 0.00
721 33 0.06
722 30 0.06
723 1 0.00
725 62 0.12
726 56 0.10
727 220 0.41
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (712 bp):
TATTTTCAATTTCTATCTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAA
GACACATTGAGGTATTTTCAATTCTGTATCATAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
GAACCTCAAGACGCTGAGGTAATTTCAATTTATGTTTGTCAAAAATCAACTCAAATTGCGAGAGG
TGAGTTGAGCCTCAACACGCTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATT
GCGAGAGGTGAGTTGAACCTTAACACGCTAAGGTGTTTTCAATTTCTATTTGTAAAAAAAATCAA
CTCATATTGCGAGAGGTGAGTTGAGCATCGGGTCACACGCTGAGGTGTTTTCAACTTCTGTTTTT
CAAAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAGTTTTAAT
TTCTATTCATAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAG
GTGTTTTCAATTTATGTTTTTAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGAC
CACACGTCGAGGTCCTTTCAAATTCTGTTTTTAATTTCTTTTTTTTTTAATTTATGTGTTTCAAA
AAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAGGCTGAGGTGTTTTCCATTTC
Found at i:33870439 original size:151 final size:152
Alignment explanation
Indices: 33870102--33870541 Score: 596
Period size: 150 Copynumber: 2.9 Consensus size: 152
33870092 TATGTTTTTC
*
33870102 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-C-C---TCACATGCTGAGGTGTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAATT
* **
33870162 TCTGTTTTTC-AAAAAATCAACTT-ATATTGCGGGAGGTGAGTTGAGCCTTGGCTTACACGCTGA
66 TCTGTTTTTCAAAAAAATCAA-TTCATATTGCGAGAGGTGAGTTGAGCC-T--CAGACACGCTGA
* * *
33870225 GGTATTTTTCAATTTCTGTTTGTAAAA
127 GGTAGTTTTCAATTTCTATTCGT-AAA
*
33870252 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAACT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAATT
* * *
33870317 TCTTTTTTTCAAAAAAATCAATTCATGTTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
66 TCTGTTTTTCAAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACGCTGAGGT
33870382 AGTTTT-AATTTCTATTCGT-AA
130 AGTTTTCAATTTCTATTCGTAAA
*
33870403 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAATT
* * * *
33870468 TATGTTTTT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGT
66 TCTGTTTTTCAAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACGCTGAGGT
33870532 A-TTTTCAATT
130 AGTTTTCAATT
33870542 AATGTTTTTT
Statistics
Matches: 260, Mismatches: 21, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
149 4 0.02
150 88 0.34
151 73 0.28
152 1 0.00
153 12 0.05
154 16 0.06
155 34 0.13
156 32 0.12
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (152 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAATT
TCTGTTTTTCAAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGTA
GTTTTCAATTTCTATTCGTAAA
Found at i:33870481 original size:76 final size:76
Alignment explanation
Indices: 33870086--33870550 Score: 565
Period size: 76 Copynumber: 6.2 Consensus size: 76
33870076 CAATTTCTGC
* * *
33870086 TCAATTTATGTTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-C-C---TCACATG
1 TCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACG
33870145 CTGAGGTGTTT
66 CTGAGGTGTTT
* * * * * *
33870156 TCAATTTCTGTTTTTCAAAAAATCAACTTATATTGCGGGAGGTGAGTTGAGCCTTGGCTTACACG
1 TCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACG
*
33870221 CTGAGGTATTTT
66 CTGAGGT-GTTT
*
33870233 TCAATTTCTGTTTGTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
1 TCAATTTCTGTTT-T-TAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
33870298 CGCTGAGGTGTTT
64 CGCTGAGGTGTTT
* * * * **
33870311 TCAACTTCTTTTTTTCAAAAAAATCAATTCATGTTGCGAGAGGTGAGTTGAGCCTCAAG--ACAC
1 TCAATTTCTGTTTTT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAC
*
33870374 GTTGAGGTAGTTT
65 GCTGAGGT-GTTT
* ** *
33870387 T-AATTTCTATTCGTAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACACG
1 TCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACG
33870451 CTGAGGTGTTT
66 CTGAGGTGTTT
* *
33870462 TCAATTTATGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--GCACG
1 TCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACG
*
33870525 CTGAGGTATTT
66 CTGAGGTGTTT
**
33870536 TCAATTAATGTTTTT
1 TCAATTTCTGTTTTT
33870551 TCAATTTATG
Statistics
Matches: 339, Mismatches: 42, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
70 14 0.04
71 32 0.09
72 1 0.00
74 66 0.19
75 25 0.07
76 79 0.23
77 56 0.17
78 15 0.04
79 51 0.15
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (76 bp):
TCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACG
CTGAGGTGTTT
Found at i:33870497 original size:227 final size:225
Alignment explanation
Indices: 33870102--33870539 Score: 623
Period size: 227 Copynumber: 1.9 Consensus size: 225
33870092 TATGTTTTTC
* *
33870102 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACATGCTGAGGTGTTTTCAATTTCTGT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACACGCTGAGGTGTTTTCAATTTCTAT
** * * ** * * *
33870167 TTTTCAAAAAATCAACTTATATTGCGGGAGGTGAGTTGAGCCTTGGCTTACACGCTGAGGTATTT
66 TCGTAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTAGTT
*
33870232 TTCAATTTCTGTTTGTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
131 TTCAATTTATGTTTGTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--AC
*
33870297 ACGCTGAGGTGTTTTCAACTTCTTTTTTTCAA
194 ACGCTGAGGTATTTTCAACTTCTTTTTTTCAA
* * *
33870329 AAAAATCAATTCATGTTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAGTTTT-AATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC---ACACGCTGAGGT-GTTTTCAATTT
*
33870393 CTATTCGTAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGT
62 CTATTCGTAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGT
*
33870458 -GTTTTCAATTTATGTTT-T-TAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
127 AGTTTTCAATTTATGTTTGTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
*
33870520 GCACGCTGAGGTATTTTCAA
192 ACACGCTGAGGTATTTTCAA
33870540 TTAATGTTTT
Statistics
Matches: 188, Mismatches: 19, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
225 18 0.10
227 79 0.42
228 1 0.01
229 15 0.08
230 70 0.37
231 5 0.03
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.32
Consensus pattern (225 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACACGCTGAGGTGTTTTCAATTTCTAT
TCGTAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTAGTT
TTCAATTTATGTTTGTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC
GCTGAGGTATTTTCAACTTCTTTTTTTCAA
Found at i:33870683 original size:87 final size:85
Alignment explanation
Indices: 33870457--33870794 Score: 313
Period size: 88 Copynumber: 3.8 Consensus size: 85
33870447 CACGCTGAGG
** *
33870457 TGTTTTCAATTTATGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGC
1 TGTTTTCAATTT-TG-TTTT--AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGTC
* * *
33870522 AC--GCTGAGGTATTTTCAATTAATG
62 ACATACCGAGGTATTTTCAA--AATC
* * *
33870546 TTTTTTCAATTTATGCTTTTCAAGAATCAACTCATATTACGAGAAATGAGTTGAGCCTCGGGTCA
1 TGTTTTCAATTT-TG-TTTT-AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGTCA
33870611 CATACCGAGGTATTTTCAAAATC
63 CATACCGAGGTATTTTCAAAATC
* * *
33870634 TGTTTTACAAATTTTGTTTTAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCAC
1 TGTTTT-C-AATTTTGTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGTCAC
* * * * **
33870699 GTGCTGAGCTATTTTCAATTTC
64 ATACCGAGGTATTTTCAAAATC
* * * * *
33870721 TGTTTTTAATGTCTAGTTTTAAAGAGTCAATTCATATTGCGAGAAATGAGTTGAG-CTCAGGATC
1 TGTTTTCAAT-T-TTGTTTTAAA-AATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-GGGTC
33870785 ACATACCGAG
62 ACATACCGAG
33870795 TAAAGAATCA
Statistics
Matches: 208, Mismatches: 33, Indels: 17
0.81 0.13 0.07
Matches are distributed among these distances:
85 3 0.01
86 1 0.00
87 73 0.35
88 91 0.44
89 21 0.10
90 19 0.09
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (85 bp):
TGTTTTCAATTTTGTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGTCACAT
ACCGAGGTATTTTCAAAATC
Found at i:33870766 original size:175 final size:175
Alignment explanation
Indices: 33870479--33870794 Score: 444
Period size: 175 Copynumber: 1.8 Consensus size: 175
33870469 ATGTTTTTAA
* * *
33870479 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTAA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCGCACGCTGAGCTATTTTCAATTAA
* *
33870544 TGTTTTTTCAATTTATGCTTTTCAAGAATCAACTCATATTACGAGAAATGAGTTGAGCCTC-GGG
66 TGTTTTTTCAATTTATGCTTTTAAAGAATCAACTCATATTACGAGAAATGAGTTGAG-CTCAGGA
33870608 TCACATACCGAGGTATTTTCAAAATCTGTTTTACAAATTTTGTTTT
130 TCACATACCGAGGTATTTTCAAAATCTGTTTTACAAATTTTGTTTT
* *
33870654 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCGCAC--GCTGAGCTATTTTCAATT
** * * *
33870719 TCTG-TTTTT-AATGTCTA-G-TTTTAAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGCTCA
64 AATGTTTTTTCAAT-T-TATGCTTTTAAAGAATCAACTCATATTACGAGAAATGAGTTGAGCTCA
33870780 GGATCACATACCGAG
127 GGATCACATACCGAG
33870795 TAAAGAATCA
Statistics
Matches: 124, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
174 3 0.02
175 93 0.75
176 7 0.06
177 21 0.17
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (175 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCGCACGCTGAGCTATTTTCAATTAA
TGTTTTTTCAATTTATGCTTTTAAAGAATCAACTCATATTACGAGAAATGAGTTGAGCTCAGGAT
CACATACCGAGGTATTTTCAAAATCTGTTTTACAAATTTTGTTTT
Found at i:33871456 original size:18 final size:18
Alignment explanation
Indices: 33871433--33871486 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
33871423 CCACCACCAA
33871433 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
33871451 CTCCACCA-CCA-A----
1 CTCCACTAGCCACACTTG
33871463 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
33871481 CTCCAC
1 CTCCAC
33871487 CACCACTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 7 0.25
13 3 0.11
14 1 0.04
16 1 0.04
17 3 0.11
18 13 0.46
ACGTcount: A:0.24, C:0.50, G:0.07, T:0.19
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:33871459 original size:30 final size:30
Alignment explanation
Indices: 33871423--33871491 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
33871413 CAAGCCTTTG
33871423 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
33871453 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
33871483 CCACCACCA
1 CCACCACCA
33871492 CTTGTACCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.28, C:0.52, G:0.06, T:0.14
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:33871990 original size:23 final size:23
Alignment explanation
Indices: 33871953--33872082 Score: 86
Period size: 25 Copynumber: 5.5 Consensus size: 23
33871943 CTTTTTTTGT
*
33871953 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATACTA
* *
33871976 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATACTA
** * *
33871998 TATTAGGTATATTCTAAATTCTA
1 TATTATATATATTCTTAATACTA
*
33872021 TATTACGTATATATATATT-ATACTA
1 TATTA--TATATAT-TCTTAATACTA
* *
33872046 TTTTATGTATATATCTTTAATACTA
1 TATTATATATAT-TC-TTAATACTA
*
33872071 TATTATTTATAT
1 TATTATATATAT
33872083 ATATATATTT
Statistics
Matches: 82, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
22 17 0.21
23 27 0.33
24 6 0.07
25 30 0.37
26 2 0.02
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (23 bp):
TATTATATATATTCTTAATACTA
Found at i:33872046 original size:25 final size:26
Alignment explanation
Indices: 33872018--33872088 Score: 92
Period size: 25 Copynumber: 2.8 Consensus size: 26
33872008 ATTCTAAATT
*
33872018 CTATATTACGTATATATATATT-ATA
1 CTATATTATGTATATATATATTAATA
* *
33872043 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATTAATA
*
33872068 CTATATTATTTATATATATAT
1 CTATATTATGTATATATATAT
33872089 ATTTTTTTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
24 2 0.05
25 35 0.92
26 1 0.03
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.54
Consensus pattern (26 bp):
CTATATTATGTATATATATATTAATA
Found at i:33872091 original size:14 final size:14
Alignment explanation
Indices: 33872028--33872092 Score: 55
Period size: 14 Copynumber: 4.6 Consensus size: 14
33872018 CTATATTACG
*
33872028 TATATATATAT-TA
1 TATATATTTATATA
*
33872041 TACTAT-TTTATGTA
1 TA-TATATTTATATA
*
33872055 TATATCTTTA-ATA
1 TATATATTTATATA
33872068 CTATATTATTTATATA
1 -TATA-TATTTATATA
33872084 TATATATTT
1 TATATATTT
33872093 TTTTCTACAT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
13 11 0.26
14 20 0.47
15 9 0.21
16 3 0.07
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.57
Consensus pattern (14 bp):
TATATATTTATATA
Found at i:33872134 original size:22 final size:23
Alignment explanation
Indices: 33872104--33872170 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 23
33872094 TTTCTACATG
*
33872104 TTATCTTATGTATATATTTTA-A
1 TTATATTATGTATATATTTTACA
*
33872126 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTACA
* *
33872151 CTATATTATGTACATATTTT
1 TTATATTATGTATATATTTT
33872171 TTTATATCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 11 0.30
23 6 0.16
24 8 0.22
25 12 0.32
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (23 bp):
TTATATTATGTATATATTTTACA
Found at i:33872181 original size:27 final size:25
Alignment explanation
Indices: 33872115--33872186 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
33872105 TATCTTATGT
* *
33872115 ATATATTTTAAT-TATATTATGTAT
1 ATATTTTTTAATCTATATTATGTAC
*
33872139 GTATTTTTTACA-CTATATTATGTAC
1 ATATTTTTTA-ATCTATATTATGTAC
*
33872164 ATATTTTTTTATATCTATTTTAT
1 ATA-TTTTTTA-ATCTATATTAT
33872187 ACATATGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 8 0.21
25 14 0.37
26 8 0.21
27 8 0.21
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (25 bp):
ATATTTTTTAATCTATATTATGTAC
Found at i:33872261 original size:25 final size:24
Alignment explanation
Indices: 33872233--33872288 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
33872223 GTTATATTTT
*
33872233 CACTATTTTA-AGTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
33872258 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
33872281 CACTATTA
1 CACTATTA
33872289 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 5 0.19
25 12 0.44
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:33875081 original size:24 final size:24
Alignment explanation
Indices: 33875049--33875099 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
33875039 TCGAATGATT
33875049 GTATGTTATACTGGGGCGATGCTA
1 GTATGTTATACTGGGGCGATGCTA
33875073 GTATGTTATACTGGGGCGATGCTA
1 GTATGTTATACTGGGGCGATGCTA
33875097 GTA
1 GTA
33875100 AAAATGTCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.12, G:0.33, T:0.33
Consensus pattern (24 bp):
GTATGTTATACTGGGGCGATGCTA
Found at i:33878703 original size:16 final size:16
Alignment explanation
Indices: 33878682--33878714 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
33878672 AATAACATTT
33878682 TTTTATTAATTTTTAA
1 TTTTATTAATTTTTAA
33878698 TTTTATTAATTTTTAA
1 TTTTATTAATTTTTAA
33878714 T
1 T
33878715 ACTATATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTATTAATTTTTAA
Found at i:33880918 original size:48 final size:48
Alignment explanation
Indices: 33880865--33880960 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
33880855 AAATAACAAA
* *
33880865 CCTCCAAAATTTATGTAAGATAAGTATATTGAACCGGGACTACGTCTT
1 CCTCCAAAATTTATGTAAGATAAGTATACTGAACCGGGACTAAGTCTT
*
33880913 CCTCCAAAATTTATGTGAGATAAGTATACTGAACCGGGACTAAGTCTT
1 CCTCCAAAATTTATGTAAGATAAGTATACTGAACCGGGACTAAGTCTT
33880961 GTTTTTTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (48 bp):
CCTCCAAAATTTATGTAAGATAAGTATACTGAACCGGGACTAAGTCTT
Found at i:33883917 original size:34 final size:35
Alignment explanation
Indices: 33883871--33883958 Score: 115
Period size: 34 Copynumber: 2.5 Consensus size: 35
33883861 CTGTTTAGTG
*
33883871 TGTTTCGATTGGACTAGCTCTTATAAGCACT-ACA
1 TGTTTCGGTTGGACTAGCTCTTATAAGCACTGACA
* * * *
33883905 TGTTTCGGTTGGACTAGCTCTTATGAGCATTGGCG
1 TGTTTCGGTTGGACTAGCTCTTATAAGCACTGACA
*
33883940 TGTTTTGGTTGGACTAGCT
1 TGTTTCGGTTGGACTAGCT
33883959 TTTGTGAGCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
34 28 0.60
35 19 0.40
ACGTcount: A:0.18, C:0.17, G:0.26, T:0.39
Consensus pattern (35 bp):
TGTTTCGGTTGGACTAGCTCTTATAAGCACTGACA
Found at i:33883951 original size:35 final size:36
Alignment explanation
Indices: 33883870--33884026 Score: 149
Period size: 36 Copynumber: 4.4 Consensus size: 36
33883860 TCTGTTTAGT
* * * * *
33883870 GTGTTTCGATTGGACTAGCTCTTATAAGCA-CT-AC
1 GTGTTTTGGTTGGACTAGCTCTTATGAGCATTTGGC
* *
33883904 ATGTTTCGGTTGGACTAGCTCTTATGAGCA-TTGGC
1 GTGTTTTGGTTGGACTAGCTCTTATGAGCATTTGGC
* * *
33883939 GTGTTTTGGTTGGACTAGCTTTTGTGAGCATTTGGT
1 GTGTTTTGGTTGGACTAGCTCTTATGAGCATTTGGC
** * * *
33883975 GTGTTTTGGAGGGATTGGCTCATATGAGCATTTGGC
1 GTGTTTTGGTTGGACTAGCTCTTATGAGCATTTGGC
*
33884011 GTGTTATGGTTGGACT
1 GTGTTTTGGTTGGACT
33884027 GACAATGTAC
Statistics
Matches: 99, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
34 28 0.28
35 27 0.27
36 44 0.44
ACGTcount: A:0.17, C:0.13, G:0.31, T:0.39
Consensus pattern (36 bp):
GTGTTTTGGTTGGACTAGCTCTTATGAGCATTTGGC
Found at i:33886377 original size:75 final size:75
Alignment explanation
Indices: 33886292--33886444 Score: 234
Period size: 75 Copynumber: 2.0 Consensus size: 75
33886282 CAGTTGTCCC
* * *
33886292 ATAATTTTTTGATGTCATGGGAAACATGTTGACAAAATGTTTGCAACATGTTGACTGCTTCTATT
1 ATAATTTTTTGATGTCATGGGAAACAAGTTGACAAAATGTTCGCAACATGTTGACTACTTCTATT
33886357 AGGATTTTAT
66 AGGATTTTAT
** * *
33886367 ATAATTTTTTGATGTCATGTTAAACAAGTTGACAACATGTTCGCAACTTGTTGACTACTTCTATT
1 ATAATTTTTTGATGTCATGGGAAACAAGTTGACAAAATGTTCGCAACATGTTGACTACTTCTATT
*
33886432 AGGATTTTGT
66 AGGATTTTAT
33886442 ATA
1 ATA
33886445 TAAATTACTA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (75 bp):
ATAATTTTTTGATGTCATGGGAAACAAGTTGACAAAATGTTCGCAACATGTTGACTACTTCTATT
AGGATTTTAT
Found at i:33886858 original size:38 final size:38
Alignment explanation
Indices: 33886683--33887156 Score: 420
Period size: 38 Copynumber: 13.0 Consensus size: 38
33886673 TACCTTTTCC
*
33886683 TTTTT-AAGGTTGCCTTAGAC--GGATTTATCCCAA-CT
1 TTTTTAAAGGTTGCCTTAGACAAGG-TCTATCCCAACCT
* * * * *
33886718 TTTTTTAA-GTTGTCTTGGAAAAGGTCTATCACAACC-
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCT
* * * * *
33886754 TTTTTACAA--CTG-TTTAAAC-ATGTCTATCCCAA-CA
1 TTTTTA-AAGGTTGCCTTAGACAAGGTCTATCCCAACCT
* * *
33886788 TTTTT-AAGGTTGTCTTAGAC-GGGTCAATCCCAACCT
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCT
* *
33886824 TTTTTAAAAGTTACCTTAGACAAGGTCTATCCCAACC-
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCT
* * * *
33886861 TTTCT-AAGGTTACCTTAGACGA-GTCTATCCTAACC-
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCT
* *
33886896 TTTTT-AAGGTTGCTTTAGACAA-GTCTATCTCAA-CT
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCT
**
33886931 TTTTTAAAAGGTTGCCTTAGA-TTGGTCTATCCCAACCT
1 TTTTT-AAAGGTTGCCTTAGACAAGGTCTATCCCAACCT
* *
33886969 TTTTTAAAGGTTGCCTTAGACAAGGTCTAACCTAA-CT
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCT
* *
33887006 TTTTTAAAAGGTTGCTTTAGAC-TGGTCTATCCCAACCT
1 TTTTT-AAAGGTTGCCTTAGACAAGGTCTATCCCAACCT
*
33887044 GTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCT
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCT
* *
33887082 CTTTTAAAGGTTGCCTTAGACAAGGTCTATCCTAACCT
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCT
* * * *
33887120 TTTTCAAAGGTTGGCCTT-TACTAGGTCTTTCCCAACC
1 TTTTTAAAGGTT-GCCTTAGACAAGGTCTATCCCAACC
33887157 CTTCAATAAG
Statistics
Matches: 359, Mismatches: 58, Indels: 41
0.78 0.13 0.09
Matches are distributed among these distances:
32 2 0.01
33 1 0.00
34 19 0.05
35 76 0.21
36 38 0.11
37 91 0.25
38 127 0.35
39 5 0.01
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (38 bp):
TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCT
Found at i:33887020 original size:75 final size:74
Alignment explanation
Indices: 33886775--33887137 Score: 414
Period size: 75 Copynumber: 4.9 Consensus size: 74
33886765 GTTTAAACAT
* * * * * * *
33886775 GTCTATCCCAACATTTTT-AAGGTTGTCTTAGACGGGTCAATCCCAACCTTTTTTAAAAGTTACC
1 GTCTAACCCAACTTTTTTAAAGGTTGCCTTAGACTGGTCTATCCCAACCTTTTTTAAAGGTTGCC
33886839 TTAGACAAG
66 TTAGACAAG
* * * * *
33886848 GTCTATCCCAACCTTTCT-AAGGTTACCTTAGAC-GAGTCTATCCTAACC-TTTTT-AAGGTTGC
1 GTCTAACCCAACTTTTTTAAAGGTTGCCTTAGACTG-GTCTATCCCAACCTTTTTTAAAGGTTGC
*
33886909 TTTAGACAA-
65 CTTAGACAAG
* * *
33886918 GTCTATCTCAACTTTTTTAAAAGGTTGCCTTAGATTGGTCTATCCCAACCTTTTTTAAAGGTTGC
1 GTCTAACCCAACTTTTTT-AAAGGTTGCCTTAGACTGGTCTATCCCAACCTTTTTTAAAGGTTGC
33886983 CTTAGACAAG
65 CTTAGACAAG
* * *
33886993 GTCTAACCTAACTTTTTTAAAAGGTTGCTTTAGACTGGTCTATCCCAACCTGTTTTAAAGGTTGC
1 GTCTAACCCAACTTTTTT-AAAGGTTGCCTTAGACTGGTCTATCCCAACCTTTTTTAAAGGTTGC
33887058 CTTAGACAAG
65 CTTAGACAAG
* * * * *
33887068 GTCTATCCCAACCTCTTTTAAAGGTTGCCTTAGACAAGGTCTATCCTAACCTTTTTCAAAGGTTG
1 GTCTAACCCAA-CTTTTTTAAAGGTTGCCTTAGAC-TGGTCTATCCCAACCTTTTTTAAAGGTT-
33887133 GCCTT
63 GCCTT
33887138 TACTAGGTCT
Statistics
Matches: 250, Mismatches: 30, Indels: 16
0.84 0.10 0.05
Matches are distributed among these distances:
70 15 0.06
71 14 0.06
72 31 0.12
73 46 0.18
74 16 0.06
75 93 0.37
76 30 0.12
77 5 0.02
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (74 bp):
GTCTAACCCAACTTTTTTAAAGGTTGCCTTAGACTGGTCTATCCCAACCTTTTTTAAAGGTTGCC
TTAGACAAG
Found at i:33887361 original size:15 final size:15
Alignment explanation
Indices: 33887343--33887388 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
33887333 ATTTTATTGT
33887343 AATATAATTTATATA
1 AATATAATTTATATA
33887358 AATA-AATTTTATTATA
1 AATATAA-TTTA-TATA
33887374 AA-ATAATTTAATATA
1 AATATAATTT-ATATA
33887389 TTTTAGTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
14 2 0.07
15 16 0.59
16 9 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATAATTTATATA
Found at i:33887375 original size:16 final size:17
Alignment explanation
Indices: 33887333--33887382 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 17
33887323 TGATAGACTT
*
33887333 ATTTTATTGT-AATATA
1 ATTTTATTATAAATATA
33887349 A-TTTA-TATAAATA-A
1 ATTTTATTATAAATATA
33887363 ATTTTATTATAAA-ATA
1 ATTTTATTATAAATATA
33887379 ATTT
1 ATTT
33887383 AATATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
14 4 0.14
15 13 0.45
16 12 0.41
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
ATTTTATTATAAATATA
Found at i:33888872 original size:12 final size:12
Alignment explanation
Indices: 33888851--33888883 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
33888841 CTCTTCTAGT
33888851 TCATCATCATCC
1 TCATCATCATCC
*
33888863 TCATCCTCATCC
1 TCATCATCATCC
33888875 TCATCATCA
1 TCATCATCA
33888884 ACCCCACGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.42, G:0.00, T:0.33
Consensus pattern (12 bp):
TCATCATCATCC
Found at i:33896790 original size:16 final size:17
Alignment explanation
Indices: 33896769--33896801 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
33896759 AAAATAACCT
*
33896769 ATAATTTGAA-TTAAAA
1 ATAATTTAAACTTAAAA
33896785 ATAATTTAAACTTAAAA
1 ATAATTTAAACTTAAAA
33896802 TAGCTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (17 bp):
ATAATTTAAACTTAAAA
Found at i:33902030 original size:16 final size:16
Alignment explanation
Indices: 33901985--33902031 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
33901975 CAAAGATGAA
*
33901985 ATTAATTTAGTTTA-T
1 ATTATTTTAGTTTATT
* *
33902000 ATTTATTTGAATTTATT
1 A-TTATTTTAGTTTATT
33902017 ATTATTTTAGTTTAT
1 ATTATTTTAGTTTAT
33902032 ATTTGAAGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 1 0.04
16 22 0.88
17 2 0.08
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (16 bp):
ATTATTTTAGTTTATT
Found at i:33902048 original size:20 final size:20
Alignment explanation
Indices: 33902020--33902059 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
33902010 ATTTATTATT
*
33902020 ATTTTAGTTTATATTTGAAG
1 ATTTCAGTTTATATTTGAAG
33902040 ATTTCAGTTTATATTTGAAG
1 ATTTCAGTTTATATTTGAAG
33902060 TTCTAAGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.53
Consensus pattern (20 bp):
ATTTCAGTTTATATTTGAAG
Found at i:33902441 original size:21 final size:21
Alignment explanation
Indices: 33902411--33902452 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
33902401 AGAAGTTGGG
*
33902411 ATTGATACATTCTTAACAAAT
1 ATTGACACATTCTTAACAAAT
33902432 ATTGACACATTCTTAACAAAT
1 ATTGACACATTCTTAACAAAT
33902453 CTAACTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.36
Consensus pattern (21 bp):
ATTGACACATTCTTAACAAAT
Found at i:33902533 original size:16 final size:16
Alignment explanation
Indices: 33902504--33902552 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
33902494 TAGATATAAC
*
33902504 AACACAAAAGAAAAAAA
1 AACA-AAAACAAAAAAA
*
33902521 AACAAAAACAAAAAAC
1 AACAAAAACAAAAAAA
*
33902537 AACAACAACAATAAAA
1 AACAAAAACAA-AAAA
33902553 GGAATCAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 20 0.71
17 8 0.29
ACGTcount: A:0.80, C:0.16, G:0.02, T:0.02
Consensus pattern (16 bp):
AACAAAAACAAAAAAA
Done.