Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 145 of 240
Found at i:45543615 original size:6 final size:6
Alignment explanation
Indices: 45543604--45543658 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
45543594 TCAAAATCTC
* * *
45543604 TTTCAT TTTCAT TTTCAT TTTC-T GTTC-- TTTCAA TTTCTT TTTCAT
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT
45543649 TTTCAT TTTC
1 TTTCAT TTTC
45543659 TCGCTCACAC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
4 3 0.07
5 4 0.10
6 35 0.83
ACGTcount: A:0.13, C:0.18, G:0.02, T:0.67
Consensus pattern (6 bp):
TTTCAT
Found at i:45544731 original size:11 final size:11
Alignment explanation
Indices: 45544715--45544775 Score: 65
Period size: 10 Copynumber: 5.8 Consensus size: 11
45544705 AAAAATTTTA
45544715 TTTTTTCAAAT
1 TTTTTTCAAAT
45544726 TTTTTTCAAAT
1 TTTTTTCAAAT
**
45544737 TTTTTTTGAA-
1 TTTTTTCAAAT
*
45544747 TTTTTT-GAAT
1 TTTTTTCAAAT
*
45544757 TTTTTT-GAAT
1 TTTTTTCAAAT
45544767 TTTTTTCAA
1 TTTTTTCAA
45544776 TCACTTACTC
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
9 3 0.07
10 22 0.49
11 20 0.44
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (11 bp):
TTTTTTCAAAT
Found at i:45544740 original size:12 final size:12
Alignment explanation
Indices: 45544715--45544752 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
45544705 AAAAATTTTA
45544715 TTTTTTCAAA-T
1 TTTTTTCAAATT
45544726 TTTTTTCAAATT
1 TTTTTTCAAATT
*
45544738 TTTTTT-GAATT
1 TTTTTTCAAATT
45544749 TTTT
1 TTTT
45544753 GAATTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 18 0.72
12 7 0.28
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (12 bp):
TTTTTTCAAATT
Found at i:45544750 original size:9 final size:9
Alignment explanation
Indices: 45544738--45544771 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
45544728 TTTTCAAATT
45544738 TTTTTTGAA
1 TTTTTTGAA
45544747 TTTTTTGAA
1 TTTTTTGAA
45544756 TTTTTTTGAA
1 -TTTTTTGAA
45544766 TTTTTT
1 TTTTTT
45544772 TCAATCACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (9 bp):
TTTTTTGAA
Found at i:45544750 original size:19 final size:19
Alignment explanation
Indices: 45544727--45544770 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
45544717 TTTTCAAATT
45544727 TTTTTCAAATTTTTTTTGAA
1 TTTTTCAAA-TTTTTTTGAA
**
45544747 TTTTTTGAATTTTTTTGAA
1 TTTTTCAAATTTTTTTGAA
45544766 TTTTT
1 TTTTT
45544771 TTCAATCACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.70
Consensus pattern (19 bp):
TTTTTCAAATTTTTTTGAA
Found at i:45558698 original size:20 final size:21
Alignment explanation
Indices: 45558660--45558698 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
45558650 TTTATGGTTT
*
45558660 TAAATAATTTTTGGATAAAAA
1 TAAATAATTTTGGGATAAAAA
*
45558681 TAAAT-ATTTTGGGTTAAA
1 TAAATAATTTTGGGATAAA
45558699 TTGAAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (21 bp):
TAAATAATTTTGGGATAAAAA
Found at i:45560462 original size:22 final size:22
Alignment explanation
Indices: 45560437--45560493 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
45560427 ATGTATTACG
*
45560437 CCAATATAATTTATTGATTATA
1 CCAATATAATTGATTGATTATA
* *
45560459 CCAATATAATTGATTGATTGTG
1 CCAATATAATTGATTGATTATA
*
45560481 TCAATATAATTGA
1 CCAATATAATTGA
45560494 ATGTTTATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.42
Consensus pattern (22 bp):
CCAATATAATTGATTGATTATA
Found at i:45563013 original size:19 final size:21
Alignment explanation
Indices: 45562975--45563029 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
45562965 GCATCCTGGA
*
45562975 TGCATGACAAGGGCACCAAA-G
1 TGCA-GACAGGGGCACCAAATG
*
45562996 TGTAGACAGGGGCA-CAAATG
1 TGCAGACAGGGGCACCAAATG
*
45563016 TGCAAACAGGGGCA
1 TGCAGACAGGGGCA
45563030 TCGTAGTGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 4 0.14
20 22 0.76
21 3 0.10
ACGTcount: A:0.36, C:0.20, G:0.33, T:0.11
Consensus pattern (21 bp):
TGCAGACAGGGGCACCAAATG
Found at i:45563057 original size:20 final size:20
Alignment explanation
Indices: 45563034--45563102 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
45563024 GGGGCATCGT
*
45563034 AGTGCAAATAGAGACACTGA
1 AGTGCAAATAGAGACACCGA
* * * *
45563054 AGTGTATATAGGGGCACCGA
1 AGTGCAAATAGAGACACCGA
*
45563074 AGTGCAAACA-AGAGCACCGA
1 AGTGCAAATAGAGA-CACCGA
45563094 AGTGCAAAT
1 AGTGCAAAT
45563103 CCCGTACAAG
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
19 1 0.03
20 36 0.97
ACGTcount: A:0.41, C:0.17, G:0.28, T:0.14
Consensus pattern (20 bp):
AGTGCAAATAGAGACACCGA
Found at i:45568978 original size:40 final size:40
Alignment explanation
Indices: 45568923--45569007 Score: 170
Period size: 40 Copynumber: 2.1 Consensus size: 40
45568913 ATGATACATC
45568923 CATTACAACCTAACATTTGCACAAACTTATTTAAATATCT
1 CATTACAACCTAACATTTGCACAAACTTATTTAAATATCT
45568963 CATTACAACCTAACATTTGCACAAACTTATTTAAATATCT
1 CATTACAACCTAACATTTGCACAAACTTATTTAAATATCT
45569003 CATTA
1 CATTA
45569008 ACAAATTACT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.40, C:0.22, G:0.02, T:0.35
Consensus pattern (40 bp):
CATTACAACCTAACATTTGCACAAACTTATTTAAATATCT
Found at i:45569465 original size:41 final size:41
Alignment explanation
Indices: 45569278--45569594 Score: 215
Period size: 41 Copynumber: 7.8 Consensus size: 41
45569268 ATTTTTAAAC
* * *
45569278 CTTTAGCGGCGTTTTTA-CTTTAGCGCCGCTAATTCTCCGAT
1 CTTTAGCGGCGTTTTTATC-TAAGCGCCGCTAATTCTCTGTT
* * **
45569319 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGT-TCTGGC
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAAT-TCTCTGTT
* *
45569360 CTTTAGCGGCG--TTTGTCTAAGCGCCGCTAATGCTC-GTAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGT-T
* * * * * *
45569399 CATTAGTGGCGTTATTGTCTGAGCGCCACTAATTCTCTGTT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGTT
* * * *
45569440 CTTTAGTGGCGTTTTTTTCTAAGCGCCGTTAAAGTTC-GTGTT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCT-AA-TTCTCTGTT
* * * * **
45569482 -TTTAGTGGCGTTTTTATCTGAGCGCCACTAATACTCTGGC
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGTT
* * *
45569522 CTTTGGCGGCGTTTTATATGTAAGCGCCGCTAATGCTAC----
1 CTTTAGCGGCGTTTT-TATCTAAGCGCCGCTAATTCT-CTGTT
* *
45569561 CTTTAGCGGCGTTTTTTTTCGAAGCGCCGCTAAT
1 CTTTAGCGGCG-TTTTTATCTAAGCGCCGCTAAT
45569595 AGTAACAAAA
Statistics
Matches: 220, Mismatches: 42, Indels: 30
0.75 0.14 0.10
Matches are distributed among these distances:
38 1 0.00
39 55 0.25
40 8 0.04
41 125 0.57
42 27 0.12
43 4 0.02
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGTT
Found at i:45569536 original size:82 final size:82
Alignment explanation
Indices: 45569277--45569554 Score: 303
Period size: 82 Copynumber: 3.4 Consensus size: 82
45569267 GATTTTTAAA
* ** *
45569277 CCTTTAGCGGCGTTTTTA-CTTTAGCGCCGCTAATTCTCCG-ATCTTTAGCGGCGTTTTTATCTG
1 CCTTTAGCGGCGTTTTTATC-TAAGCGCCGCTAAAGCT-CGTATCTTTAGTGGCGTTTTTATCTG
**
45569340 AGCGCCACTAATGTTCTGG
64 AGCGCCACTAATACTCTGG
* * * * *
45569359 CCTTTAGCGGCG--TTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTATTGTCTGAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAAAGCTCGTATCTTTAGTGGCGTTTTTATCTGAG
* *
45569422 CGCCACTAATTCTCTGT
66 CGCCACTAATACTCTGG
* * * * * * *
45569439 TCTTTAGTGGCGTTTTTTTCTAAGCGCCGTTAAAGTTCGTGTTTTTAGTGGCGTTTTTATCTGAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAAAGCTCGTATCTTTAGTGGCGTTTTTATCTGAG
45569504 CGCCACTAATACTCTGG
66 CGCCACTAATACTCTGG
* *
45569521 CCTTTGGCGGCGTTTTATATGTAAGCGCCGCTAA
1 CCTTTAGCGGCGTTTT-TATCTAAGCGCCGCTAA
45569555 TGCTACCTTT
Statistics
Matches: 162, Mismatches: 29, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
79 2 0.01
80 63 0.39
81 1 0.01
82 82 0.51
83 14 0.09
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (82 bp):
CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAAAGCTCGTATCTTTAGTGGCGTTTTTATCTGAG
CGCCACTAATACTCTGG
Found at i:45570132 original size:15 final size:15
Alignment explanation
Indices: 45570111--45570148 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
45570101 TTTAAGGTTA
45570111 ATTTAGGGGTTAGAG
1 ATTTAGGGGTTAGAG
* *
45570126 GTTTAGGGGTTTGAG
1 ATTTAGGGGTTAGAG
45570141 ATTTAGGG
1 ATTTAGGG
45570149 TTTCAACTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (15 bp):
ATTTAGGGGTTAGAG
Found at i:45570151 original size:14 final size:14
Alignment explanation
Indices: 45570084--45570151 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
45570074 GACTGGGTAT
*
45570084 AGATTTAAGGTTTG
1 AGATTTAGGGTTTG
* *
45570098 GGATTTAAGG-TT-
1 AGATTTAGGGTTTG
*
45570110 A-ATTTAGGGGTTAG
1 AGATTTA-GGGTTTG
*
45570124 AGGTTTAGGGGTTTG
1 AGATTTA-GGGTTTG
45570139 AGATTTAGGGTTT
1 AGATTTAGGGTTT
45570152 CAACTGTGAT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
11 5 0.12
12 2 0.05
13 3 0.07
14 16 0.37
15 17 0.40
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (14 bp):
AGATTTAGGGTTTG
Found at i:45571897 original size:8 final size:10
Alignment explanation
Indices: 45571875--45571911 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
45571865 TATTTTTACT
45571875 TATATATGGA
1 TATATATGGA
*
45571885 TATATATGAA
1 TATATATGGA
45571895 TATATATGGA
1 TATATATGGA
45571905 TATATAT
1 TATATAT
45571912 ATAGTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (10 bp):
TATATATGGA
Found at i:45574700 original size:22 final size:22
Alignment explanation
Indices: 45574667--45574717 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
45574657 TAAATAACTT
45574667 AATTA-ATTAATATTATACATA
1 AATTACATTAATATTATACATA
* *
45574688 ACTTACATTAATATTATATATA
1 AATTACATTAATATTATACATA
45574710 AATTACAT
1 AATTACAT
45574718 AACTTAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (22 bp):
AATTACATTAATATTATACATA
Found at i:45574704 original size:56 final size:56
Alignment explanation
Indices: 45574642--45574763 Score: 217
Period size: 56 Copynumber: 2.2 Consensus size: 56
45574632 GGGTGATGTG
45574642 ATATTATACATAAATTAAATAACTTAATTAATTAATATTATACATAACTTACATTA
1 ATATTATACATAAATTAAATAACTTAATTAATTAATATTATACATAACTTACATTA
* *
45574698 ATATTATATATAAATTACATAACTTAATTAATTAATATTATACATAACTTACATTA
1 ATATTATACATAAATTAAATAACTTAATTAATTAATATTATACATAACTTACATTA
45574754 ATATTGATAC
1 ATATT-ATAC
45574764 GAGTCACAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
56 59 0.95
57 3 0.05
ACGTcount: A:0.48, C:0.09, G:0.01, T:0.42
Consensus pattern (56 bp):
ATATTATACATAAATTAAATAACTTAATTAATTAATATTATACATAACTTACATTA
Found at i:45580173 original size:13 final size:13
Alignment explanation
Indices: 45580155--45580184 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
45580145 TTCCTCTATC
45580155 AAATATTATACAT
1 AAATATTATACAT
45580168 AAATATTATACAT
1 AAATATTATACAT
45580181 AAAT
1 AAAT
45580185 TACATAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
AAATATTATACAT
Found at i:45580263 original size:9 final size:9
Alignment explanation
Indices: 45580249--45580379 Score: 61
Period size: 9 Copynumber: 15.9 Consensus size: 9
45580239 TGCATAATAA
45580249 ATAACTTAC
1 ATAACTTAC
45580258 ATAACTTAC
1 ATAACTTAC
*
45580267 ATAA--TAT
1 ATAACTTAC
*
45580274 ATAACTTAT
1 ATAACTTAC
* *
45580283 ATGACTTAT
1 ATAACTTAC
45580292 ATAACTTAC
1 ATAACTTAC
*
45580301 AT-A---GC
1 ATAACTTAC
* *
45580306 ATAATTTTC
1 ATAACTTAC
45580315 ATAA--TAC
1 ATAACTTAC
*
45580322 ACAACTTAC
1 ATAACTTAC
** *
45580331 ATAGTTTTC
1 ATAACTTAC
*
45580340 ATAA--TAA
1 ATAACTTAC
45580347 ATAACTTAC
1 ATAACTTAC
45580356 ATAA--TAC
1 ATAACTTAC
45580363 ATAACTTAC
1 ATAACTTAC
*
45580372 ATAGCTTA
1 ATAACTTA
45580380 ATTATACTTA
Statistics
Matches: 93, Mismatches: 17, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
5 3 0.03
6 1 0.01
7 23 0.25
8 1 0.01
9 65 0.70
ACGTcount: A:0.44, C:0.16, G:0.03, T:0.37
Consensus pattern (9 bp):
ATAACTTAC
Found at i:45580270 original size:25 final size:25
Alignment explanation
Indices: 45580241--45580366 Score: 91
Period size: 25 Copynumber: 5.2 Consensus size: 25
45580231 TAACAATTTG
45580241 CATAATAAATAACTTACATAACTTA
1 CATAATAAATAACTTACATAACTTA
* * *
45580266 CATAATATATAACTTATATGACTT-
1 CATAATAAATAACTTACATAACTTA
* * * * *
45580290 -AT-ATAACTTACATAGCATAATTTT
1 CATAATAAATAACTTA-CATAACTTA
* * ** *
45580314 CATAATACACAACTTACATAGTTTT
1 CATAATAAATAACTTACATAACTTA
45580339 CATAATAAATAACTTACATAA--TA
1 CATAATAAATAACTTACATAACTTA
45580362 CATAA
1 CATAA
45580367 CTTACATAGC
Statistics
Matches: 77, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
22 8 0.10
23 13 0.17
25 49 0.64
26 7 0.09
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (25 bp):
CATAATAAATAACTTACATAACTTA
Found at i:45580360 original size:16 final size:16
Alignment explanation
Indices: 45580339--45580374 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
45580329 ACATAGTTTT
45580339 CATAATAAATAACTTA
1 CATAATAAATAACTTA
*
45580355 CATAATACATAACTTA
1 CATAATAAATAACTTA
45580371 CATA
1 CATA
45580375 GCTTAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.31
Consensus pattern (16 bp):
CATAATAAATAACTTA
Found at i:45585942 original size:66 final size:65
Alignment explanation
Indices: 45585824--45585947 Score: 171
Period size: 66 Copynumber: 1.9 Consensus size: 65
45585814 AGGCAACATC
*
45585824 GAGAGAAGCTGAGGTTCAAAAAGATATGAAGAACTCCAGCTACAACTGAAAGCAGATGTAGCAGT
1 GAGAGAAGCTGAGATTCAAAAAGATATGAAGAACTCCAGCTACAACTGAAAGCAGATGTAGCAGT
* * *
45585889 GAGAGAAGCTTAGATTCAACGAAAG-TATGAAGAACTCCAGC-AGCAGCTTAAAGCAGATG
1 GAGAGAAGCTGAGATTCAA--AAAGATATGAAGAACTCCAGCTA-CAACTGAAAGCAGATG
45585948 CGGCAGCAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
65 18 0.35
66 30 0.58
67 4 0.08
ACGTcount: A:0.41, C:0.16, G:0.26, T:0.17
Consensus pattern (65 bp):
GAGAGAAGCTGAGATTCAAAAAGATATGAAGAACTCCAGCTACAACTGAAAGCAGATGTAGCAGT
Found at i:45585960 original size:66 final size:65
Alignment explanation
Indices: 45585825--45585963 Score: 165
Period size: 66 Copynumber: 2.1 Consensus size: 65
45585815 GGCAACATCG
* * **
45585825 AGAGAAGCTGAGGTTCAAAAAGATATGAAGAACTCCAGCTACAACTGAAAGCAGATGTAGCAGTG
1 AGAGAAGCTGAGATTCAAAAAGATATGAAGAACTCCAGCTACAACTGAAAGCAGATGCAGCAGCA
* * * *
45585890 AGAGAAGCTTAGATTCAACGAAAG-TATGAAGAACTCCAGC-AGCAGCTTAAAGCAGATGCGGCA
1 AGAGAAGCTGAGATTCAA--AAAGATATGAAGAACTCCAGCTA-CAACTGAAAGCAGATGCAGCA
45585953 GCA
63 GCA
45585956 AGAGAAGC
1 AGAGAAGC
45585964 AGAGGCGGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
65 17 0.27
66 42 0.67
67 4 0.06
ACGTcount: A:0.41, C:0.17, G:0.27, T:0.15
Consensus pattern (65 bp):
AGAGAAGCTGAGATTCAAAAAGATATGAAGAACTCCAGCTACAACTGAAAGCAGATGCAGCAGCA
Found at i:45585965 original size:21 final size:21
Alignment explanation
Indices: 45585939--45586030 Score: 103
Period size: 21 Copynumber: 4.4 Consensus size: 21
45585929 CAGCAGCTTA
* *
45585939 AAGCAGATGCGGCAGCAAGAG
1 AAGCAGAGGCGGCAGCGAGAG
*
45585960 AAGCAGAGGCGGCAGCTAGAG
1 AAGCAGAGGCGGCAGCGAGAG
* * * *
45585981 AAGTACAGGCTGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
* *
45586002 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
45586023 AAGCAGAG
1 AAGCAGAG
45586031 CAGCGTCAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.34, C:0.18, G:0.42, T:0.05
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGAG
Found at i:45586421 original size:43 final size:43
Alignment explanation
Indices: 45586374--45586591 Score: 215
Period size: 43 Copynumber: 5.0 Consensus size: 43
45586364 AGGTGTTGGC
* *
45586374 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGT
1 CTTTAGTGGCGTTTTTGGGCAAAGCGCCGCTAAAGATCAGGGT
* ** * *
45586417 CTTTAGTGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGGT
1 CTTTAGTGGCGTTTTTGGGCAAAGCGCCGCTAAAGATCAGGGT
* * * * *
45586460 CTTTAGCGGCGTTTTTGGGGAAAGCGCTGCTAAAGATTAGGTT
1 CTTTAGTGGCGTTTTTGGGCAAAGCGCCGCTAAAGATCAGGGT
* * *
45586503 CTTTAGTGACGTTTTGTGGTCGAAA-CGCCGCTATAGATCAGGGT
1 CTTTAGTGGCGTTTT-TGGGC-AAAGCGCCGCTAAAGATCAGGGT
* * * * *
45586547 CTATT-GCGGCGTTTTAGGGGAAAGCGTCGCTATAGATCAGGGT
1 CT-TTAGTGGCGTTTTTGGGCAAAGCGCCGCTAAAGATCAGGGT
45586590 CT
1 CT
45586592 ATTGCGGCGT
Statistics
Matches: 142, Mismatches: 29, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
42 3 0.02
43 106 0.75
44 28 0.20
45 5 0.04
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (43 bp):
CTTTAGTGGCGTTTTTGGGCAAAGCGCCGCTAAAGATCAGGGT
Found at i:45586567 original size:87 final size:86
Alignment explanation
Indices: 45586374--45586591 Score: 242
Period size: 87 Copynumber: 2.5 Consensus size: 86
45586364 AGGTGTTGGC
* * ** *
45586374 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGTGGCGTTTGTGGAAAA
1 CTTTAGCGGCGTTTTAGGGGAAAGCGCCGCTAAAGATAAGGGTCTTTAGTGACGTTTGTGGAAAA
*
45586439 AGCGCCACTAAAGATCATGGT
66 AGCGCCACTAAAGATCAGGGT
* * * * **
45586460 CTTTAGCGGCGTTTTTGGGGAAAGCGCTGCTAAAGATTAGGTTCTTTAGTGACGTTTTGTGGTCG
1 CTTTAGCGGCGTTTTAGGGGAAAGCGCCGCTAAAGATAAGGGTCTTTAGTGACG-TTTGTGG-AA
* *
45586525 AAA-CGCCGCTATAGATCAGGGT
64 AAAGCGCCACTAAAGATCAGGGT
* * *
45586547 CTATT-GCGGCGTTTTAGGGGAAAGCGTCGCTATAGATCAGGGTCT
1 CT-TTAGCGGCGTTTTAGGGGAAAGCGCCGCTAAAGATAAGGGTCT
45586592 ATTGCGGCGT
Statistics
Matches: 111, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
86 47 0.42
87 59 0.53
88 5 0.05
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (86 bp):
CTTTAGCGGCGTTTTAGGGGAAAGCGCCGCTAAAGATAAGGGTCTTTAGTGACGTTTGTGGAAAA
AGCGCCACTAAAGATCAGGGT
Found at i:45586603 original size:87 final size:86
Alignment explanation
Indices: 45586333--45586624 Score: 240
Period size: 86 Copynumber: 3.4 Consensus size: 86
45586323 ATCTGCAAAA
* * * *** * * * **
45586333 TTTAGTGGCGTTTT-T-AAAAAAACGCCACTAAAGGTGTTGGCCTTTAGTGGCGTTTTTGGTCAA
1 TTTAGTGGCGTTTTGTGGAAAAAGCGCCACTAAAGATCAGGGTCTTTAGCGGCGTTTTAGGGGAA
45586396 AGCGCCGCTAAAGATAAGGGTC
66 AGCG-CGCTAAAGATAAGGGTC
* *
45586418 TTTAGTGGCG-TTTGTGGAAAAAGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTTTGGGGAA
1 TTTAGTGGCGTTTTGTGGAAAAAGCGCCACTAAAGATCAGGGTCTTTAGCGGCGTTTTAGGGGAA
* *
45586482 AGCGCTGCTAAAGATTAGGTTC
66 AGCGC-GCTAAAGATAAGGGTC
* ** * *
45586504 TTTAGTGACGTTTTGTGGTCGAAA-CGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTTAGGGG
1 TTTAGTGGCGTTTTGTGG-AAAAAGCGCCACTAAAGATCAGGGTCT-TTAGCGGCGTTTTAGGGG
* *
45586567 AAAGCGTCGCTATAGATCAGGGTC
64 AAAGCG-CGCTAAAGATAAGGGTC
* * * *
45586591 TATT-GCGGCG-TTTG-AGAAAAAACGCCGCTAAAGA
1 T-TTAGTGGCGTTTTGTGGAAAAAGCGCCACTAAAGA
45586625 CCCTGATCTA
Statistics
Matches: 171, Mismatches: 27, Indels: 18
0.79 0.12 0.08
Matches are distributed among these distances:
84 6 0.04
85 24 0.14
86 70 0.41
87 63 0.37
88 8 0.05
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (86 bp):
TTTAGTGGCGTTTTGTGGAAAAAGCGCCACTAAAGATCAGGGTCTTTAGCGGCGTTTTAGGGGAA
AGCGCGCTAAAGATAAGGGTC
Found at i:45586686 original size:43 final size:43
Alignment explanation
Indices: 45586393--45586771 Score: 134
Period size: 43 Copynumber: 8.8 Consensus size: 43
45586383 CGTTTTTGGT
* * * * *
45586393 CAAAGCGCCGCTAAAGATAAGGGTCTTTAGTGGCGTTTGT-GGA
1 CAAA-CGCCGCTAAAGATCAGGGTCTTTAGCGGCGCTTCTAGCA
* * * * * * *
45586436 AAAAGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTTTGGGGA
1 CAAA-CGCCGCTAAAGATCAGGGTCTTTAGCGGCGCTTCT-AGCA
* * * * * * * * *
45586481 -AAGCGCTGCTAAAGATTAGGTTCTTTAGTGACGTTTTGTGGTC-
1 CAAACGCCGCTAAAGATCAGGGTCTTTAGCGGCG-CTTCTAG-CA
* * * **
45586524 GAAACGCCGCTATAGATCAGGGTCTATT-GCGGCG-TTTTAGGG
1 CAAACGCCGCTAAAGATCAGGGTCT-TTAGCGGCGCTTCTAGCA
* * * *
45586566 GAAAGCGTCGCTATAGATCAGGGTCTATT-GCGGCG-TT-TGAGAA
1 CAAA-CGCCGCTAAAGATCAGGGTCT-TTAGCGGCGCTTCT-AGCA
* * ** * * *
45586609 AAAACGCCGCTAAAGACCCTGATCTATAGTGGCGCTTCTAGCA
1 CAAACGCCGCTAAAGATCAGGGTCTTTAGCGGCGCTTCTAGCA
*
45586652 CAAACGCCGCTAAAGATCAAGGTCTTTAGCGGCGCTTC---CA
1 CAAACGCCGCTAAAGATCAGGGTCTTTAGCGGCGCTTCTAGCA
* *** * * *
45586692 CTAAAGCGCCGCTAAAGGTCTTAGTCTTCAGCGGCGTTTGT-GCTA
1 C-AAA-CGCCGCTAAAGATCAGGGTCTTTAGCGGCGCTTCTAGC-A
* * *
45586737 GAAGCGCCGCTATAGATCAGGGTCTTTAGCGGCGC
1 CAAACGCCGCTAAAGATCAGGGTCTTTAGCGGCGC
45586772 ATTCATTAGC
Statistics
Matches: 257, Mismatches: 62, Indels: 34
0.73 0.18 0.10
Matches are distributed among these distances:
40 3 0.01
41 4 0.02
42 56 0.22
43 155 0.60
44 33 0.13
45 6 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (43 bp):
CAAACGCCGCTAAAGATCAGGGTCTTTAGCGGCGCTTCTAGCA
Found at i:45586856 original size:21 final size:21
Alignment explanation
Indices: 45586830--45586873 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
45586820 ATCTGCGACG
*
45586830 CTAAAAAGCGCCGCTAAAGGC
1 CTAAAAAGCGCCGCTAAAAGC
*
45586851 CTAAAAAGCGCTGCTAAAAGC
1 CTAAAAAGCGCCGCTAAAAGC
45586872 CT
1 CT
45586874 GTTTTGGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.27, G:0.20, T:0.14
Consensus pattern (21 bp):
CTAAAAAGCGCCGCTAAAAGC
Found at i:45591959 original size:17 final size:17
Alignment explanation
Indices: 45591933--45591967 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
45591923 ATACTTAATC
*
45591933 TATTATAGCTTTTACAT
1 TATTACAGCTTTTACAT
45591950 TATTACAGCTTTTACAT
1 TATTACAGCTTTTACAT
45591967 T
1 T
45591968 CTTTTTGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.14, G:0.06, T:0.51
Consensus pattern (17 bp):
TATTACAGCTTTTACAT
Found at i:45597380 original size:85 final size:85
Alignment explanation
Indices: 45597237--45597415 Score: 358
Period size: 85 Copynumber: 2.1 Consensus size: 85
45597227 GGCCGGCCAT
45597237 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
45597302 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
45597322 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
45597387 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
45597407 GAGCATGGG
1 GAGCATGGG
45597416 CAATAAAATA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:45598662 original size:40 final size:39
Alignment explanation
Indices: 45598578--45598762 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
45598568 TCGAATGATG
* * * *
45598578 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
45598618 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
45598658 TCCGGGCTAAGCCCGAAGGCATTGGTCCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
45598697 TCCGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTC-CGAAGGCATTTGTGCGAGTTACTA-AA
*
45598738 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
45598763 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 35 0.28
40 77 0.63
41 11 0.09
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:45598795 original size:79 final size:79
Alignment explanation
Indices: 45598632--45598785 Score: 206
Period size: 79 Copynumber: 1.9 Consensus size: 79
45598622 GACTAAGATC
* **
45598632 CGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTCCGAGTTACTAAA
1 CGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
45598697 TCCGGGTTAAGTCT
66 TCCGGGTTAAGTCT
* *
45598711 CGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 CGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CT
*
45598774 ATATCC-GGTTAA
63 AAATCCGGGTTAA
45598786 ATTCTGAAGG
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.61
80 24 0.36
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
CGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
TCCGGGTTAAGTCT
Found at i:45602677 original size:11 final size:12
Alignment explanation
Indices: 45602662--45602709 Score: 50
Period size: 11 Copynumber: 4.3 Consensus size: 12
45602652 CTTAATCACT
45602662 TTAATATTAAT-
1 TTAATATTAATA
*
45602673 TTAAT-CTAATA
1 TTAATATTAATA
*
45602684 TTTATATT-ATA
1 TTAATATTAATA
45602695 TTAAT-TTAATA
1 TTAATATTAATA
45602706 TTAA
1 TTAA
45602710 ATCATATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
10 6 0.20
11 23 0.77
12 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (12 bp):
TTAATATTAATA
Found at i:45602692 original size:22 final size:22
Alignment explanation
Indices: 45602665--45602707 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
45602655 AATCACTTTA
45602665 ATATTA-ATTTAATCTAATATTT
1 ATATTATA-TTAATCTAATATTT
*
45602687 ATATTATATTAATTTAATATT
1 ATATTATATTAATCTAATATT
45602708 AAATCATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
ATATTATATTAATCTAATATTT
Found at i:45602703 original size:5 final size:6
Alignment explanation
Indices: 45602662--45602709 Score: 50
Period size: 5 Copynumber: 8.7 Consensus size: 6
45602652 CTTAATCACT
* *
45602662 TTAATA TTAAT- TTAAT- CTAATA TTTATA TT-ATA TTAAT- TTAATA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA
45602706 TTAA
1 TTAA
45602710 ATCATATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
5 19 0.53
6 17 0.47
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (6 bp):
TTAATA
Found at i:45602855 original size:19 final size:18
Alignment explanation
Indices: 45602831--45602869 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
45602821 TAATTAATTT
45602831 TAATATTAAAATATGAAAA
1 TAATATTAAAATAT-AAAA
45602850 TAATATTAAAATATAAAA
1 TAATATTAAAATATAAAA
45602868 TA
1 TA
45602870 CTAATAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
TAATATTAAAATATAAAA
Found at i:45606504 original size:24 final size:24
Alignment explanation
Indices: 45606472--45606519 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
45606462 TCAAGTACTC
45606472 AATTTCATTAACGATAATGCATAT
1 AATTTCATTAACGATAATGCATAT
45606496 AATTTCATTAACGATAATGCATAT
1 AATTTCATTAACGATAATGCATAT
45606520 CAAATCAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (24 bp):
AATTTCATTAACGATAATGCATAT
Found at i:45610131 original size:27 final size:27
Alignment explanation
Indices: 45610098--45610262 Score: 192
Period size: 27 Copynumber: 6.1 Consensus size: 27
45610088 ATAGAAACAC
45610098 CCCT-GAAGGGTAAAATGATCGAAATA
1 CCCTCGAAGGGTAAAATGATCGAAATA
* *
45610124 CCCTTGAAGGGTAAAATGACCGAAATA
1 CCCTCGAAGGGTAAAATGATCGAAATA
* * * *
45610151 CCTTCGATA-GATAAAAT-AACTAAAATA
1 CCCTCGA-AGGGTAAAATGATC-GAAATA
*
45610178 CCCTCGATGGGTAAAATGATCGAAATA
1 CCCTCGAAGGGTAAAATGATCGAAATA
* *
45610205 CCCACGATGGGTAAAATGATCGAAATA
1 CCCTCGAAGGGTAAAATGATCGAAATA
*
45610232 CCCTCGATGGGGTAAAATGATCGAAATA
1 CCCTCGA-AGGGTAAAATGATCGAAATA
45610260 CCC
1 CCC
45610263 CTATAGGGTA
Statistics
Matches: 119, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.05
27 88 0.74
28 25 0.21
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.21
Consensus pattern (27 bp):
CCCTCGAAGGGTAAAATGATCGAAATA
Found at i:45610285 original size:54 final size:55
Alignment explanation
Indices: 45610091--45610383 Score: 215
Period size: 54 Copynumber: 5.4 Consensus size: 55
45610081 TATCTAGATA
* * * * *
45610091 GAAACACCCCTGA-AGGGTAAAATGATCGAAATACCCTTGA-AGGGTAAAATGACC
1 GAAATACCCCT-ATAGGGTAAAATAACCAAAATACCCTCGATAGGGTAAAATGACC
* * * * *
45610145 GAAATACCTTCGATA-GATAAAATAACTAAAATACCCTCGAT-GGGTAAAATGATC
1 GAAATACC-CCTATAGGGTAAAATAACCAAAATACCCTCGATAGGGTAAAATGACC
* * * * * *
45610199 GAAATACCCACGAT-GGGTAAAATGATCGAAATACCCTCGATGGGGTAAAATGATC
1 GAAATACCC-CTATAGGGTAAAATAACCAAAATACCCTCGATAGGGTAAAATGACC
* * * *
45610254 GAAATACCCCTATAGGGTAGAAT-ACCAAAATA-TCTCAATAGGGTAAAATGACT
1 GAAATACCCCTATAGGGTAAAATAACCAAAATACCCTCGATAGGGTAAAATGACC
* * * ** * * * *
45610307 GTAATACCCCTATAAGGTAAAATCACCGTAATGCCC-CTATGGGGTAAAATAACC
1 GAAATACCCCTATAGGGTAAAATAACCAAAATACCCTCGATAGGGTAAAATGACC
* * *
45610361 GTAACACCCCTGTAGGGTAAAAT
1 GAAATACCCCTATAGGGTAAAAT
45610384 GACTATAATG
Statistics
Matches: 191, Mismatches: 39, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
53 36 0.19
54 122 0.64
55 33 0.17
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (55 bp):
GAAATACCCCTATAGGGTAAAATAACCAAAATACCCTCGATAGGGTAAAATGACC
Found at i:45610325 original size:27 final size:27
Alignment explanation
Indices: 45610096--45610386 Score: 171
Period size: 27 Copynumber: 10.8 Consensus size: 27
45610086 AGATAGAAAC
* *
45610096 ACCCCTGA-AGGGTAAAATGATCGAAAT
1 ACCCCT-ATAGGGTAAAATGACCGTAAT
* *
45610123 ACCCTTGA-AGGGTAAAATGACCGAAAT
1 ACCCCT-ATAGGGTAAAATGACCGTAAT
* * * * ***
45610150 ACCTTCGATA-GATAAAATAACTAAAAT
1 ACC-CCTATAGGGTAAAATGACCGTAAT
* * *
45610177 ACCCTCGAT-GGGTAAAATGATCGAAAT
1 ACCC-CTATAGGGTAAAATGACCGTAAT
* * *
45610204 ACCCACGAT-GGGTAAAATGATCGAAAT
1 ACCC-CTATAGGGTAAAATGACCGTAAT
* * * *
45610231 ACCCTCGATGGGGTAAAATGATCGAAAT
1 ACCC-CTATAGGGTAAAATGACCGTAAT
* **
45610259 ACCCCTATAGGGTAGAAT-ACCAAAAT
1 ACCCCTATAGGGTAAAATGACCGTAAT
* * * *
45610285 ATCTCAATAGGGTAAAATGACTGTAAT
1 ACCCCTATAGGGTAAAATGACCGTAAT
* *
45610312 ACCCCTATAAGGTAAAATCACCGTAAT
1 ACCCCTATAGGGTAAAATGACCGTAAT
* * * *
45610339 GCCCCTATGGGGTAAAATAACCGTAAC
1 ACCCCTATAGGGTAAAATGACCGTAAT
*
45610366 ACCCCTGTAGGGTAAAATGAC
1 ACCCCTATAGGGTAAAATGAC
45610387 TATAATGCCC
Statistics
Matches: 214, Mismatches: 44, Indels: 12
0.79 0.16 0.04
Matches are distributed among these distances:
26 20 0.09
27 171 0.80
28 23 0.11
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (27 bp):
ACCCCTATAGGGTAAAATGACCGTAAT
Found at i:45610508 original size:24 final size:23
Alignment explanation
Indices: 45610442--45610514 Score: 65
Period size: 24 Copynumber: 3.1 Consensus size: 23
45610432 AAATTATTGT
* *
45610442 TTTGTATGTGGTTAAATGACTGA
1 TTTGTATGTGTTTGAATGACTGA
* * * *
45610465 TTTTTCTTTGTTTGGTATGACTGA
1 TTTGTATGTGTTT-GAATGACTGA
*
45610489 TTTGTATGTGATTTGAATGATTGA
1 TTTGTATGTG-TTTGAATGACTGA
45610513 TT
1 TT
45610515 CTGAGCATGG
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
23 9 0.24
24 25 0.68
25 3 0.08
ACGTcount: A:0.21, C:0.04, G:0.23, T:0.52
Consensus pattern (23 bp):
TTTGTATGTGTTTGAATGACTGA
Found at i:45610628 original size:27 final size:27
Alignment explanation
Indices: 45610579--45610642 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
45610569 TGGAGGAACG
*
45610579 ACTG-TACTGGTGGCTCTGTCACA-AT
1 ACTGTTACTGGTGGCTCTGCCACATAT
45610604 CACTGTTACTGGTGGCT-TGGCCACATAT
1 -ACTGTTACTGGTGGCTCT-GCCACATAT
*
45610632 ACTATTACTGG
1 ACTGTTACTGG
45610643 CAGCTTTGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 5 0.15
27 26 0.79
28 2 0.06
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (27 bp):
ACTGTTACTGGTGGCTCTGCCACATAT
Found at i:45610695 original size:26 final size:26
Alignment explanation
Indices: 45610640--45610695 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
45610630 ATACTATTAC
* * ** *
45610640 TGGCAGCTTTGCTGCGGTATTGTTGC
1 TGGCAGCTTTGCTGCGATACTACTGA
45610666 TGGCAGCTTTGCTGCGATACTACTGA
1 TGGCAGCTTTGCTGCGATACTACTGA
45610692 TGGC
1 TGGC
45610696 TTTGTGCCAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.12, C:0.21, G:0.32, T:0.34
Consensus pattern (26 bp):
TGGCAGCTTTGCTGCGATACTACTGA
Found at i:45610727 original size:32 final size:32
Alignment explanation
Indices: 45610686--45610764 Score: 131
Period size: 32 Copynumber: 2.5 Consensus size: 32
45610676 GCTGCGATAC
*
45610686 TACTGATGGCTTTGTGCCAGTCATAGTACCGT
1 TACTGATGGCTTTGTGCCAGTCATAGTACCAT
* *
45610718 TACTGATGGCTTTGTGTCGGTCATAGTACCAT
1 TACTGATGGCTTTGTGCCAGTCATAGTACCAT
45610750 TACTGATGGCTTTGT
1 TACTGATGGCTTTGT
45610765 ATCAATTATA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCAGTCATAGTACCAT
Found at i:45610833 original size:32 final size:32
Alignment explanation
Indices: 45610787--45610951 Score: 161
Period size: 32 Copynumber: 5.2 Consensus size: 32
45610777 ACCGATACCA
* * * *
45610787 ATGGTTGTGTGCCGATCATTTCACTGTTATTG
1 ATGGCTGTGTGCCGATCATATCACTGCTACTG
45610819 ATGGCTGTGTGCCGATCATATCACTGCTACTG
1 ATGGCTGTGTGCCGATCATATCACTGCTACTG
* * * * * *
45610851 ATGGCTTTGTGTCGATCATGTTACTGTTACTA
1 ATGGCTGTGTGCCGATCATATCACTGCTACTG
* * *
45610883 ATGGCTATGTACCGATCATATCACTACTACTG
1 ATGGCTGTGTGCCGATCATATCACTGCTACTG
* * * * *
45610915 ATGGCTTTGTGCCAATCACATTACTG-TACTT
1 ATGGCTGTGTGCCGATCATATCACTGCTACTG
45610946 ATGGCT
1 ATGGCT
45610952 TATAGTCATT
Statistics
Matches: 108, Mismatches: 25, Indels: 1
0.81 0.19 0.01
Matches are distributed among these distances:
31 10 0.09
32 98 0.91
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (32 bp):
ATGGCTGTGTGCCGATCATATCACTGCTACTG
Found at i:45610869 original size:64 final size:64
Alignment explanation
Indices: 45610794--45610951 Score: 203
Period size: 64 Copynumber: 2.5 Consensus size: 64
45610784 CCAATGGTTG
* * * * *
45610794 TGTGCCGATCAT-TTCACTGTTATTGATGGCTGTGTGCCGATCATATCACTGCTACTGATGGCTT
1 TGTGCCGATCATGTT-ACTGTTACTAATGGCTATGTACCGATCATATCACTACTACTGATGGCTT
*
45610858 TGTGTCGATCATGTTACTGTTACTAATGGCTATGTACCGATCATATCACTACTACTGATGGCTT
1 TGTGCCGATCATGTTACTGTTACTAATGGCTATGTACCGATCATATCACTACTACTGATGGCTT
* ** *
45610922 TGTGCCAATCACATTACTG-TACTTATGGCT
1 TGTGCCGATCATGTTACTGTTACTAATGGCT
45610952 TATAGTCATT
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
63 10 0.12
64 70 0.85
65 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (64 bp):
TGTGCCGATCATGTTACTGTTACTAATGGCTATGTACCGATCATATCACTACTACTGATGGCTT
Found at i:45610886 original size:96 final size:95
Alignment explanation
Indices: 45610750--45610952 Score: 226
Period size: 96 Copynumber: 2.1 Consensus size: 95
45610740 ATAGTACCAT
* * * * * **
45610750 TACTGATGGCTTTGTATCAATTATATTACCGATACCAATGGTTGTGTGCCGATCATTTCACTGTT
1 TACTGATGGCTTTGTATCAATCATATTACCGATACCAATGGCTATGTACCGATCATATCACTACT
* * *
45610815 ATTGATGGCTGTGTGCCGATCATATCACTG
66 ACTGATGGCTGTGTGCCAATCACATCACTG
* * * * * *
45610845 CTACTGATGGCTTTGTGTCGATCATGTTACTGTTACTAATGGCTATGTACCGATCATATCACTAC
1 -TACTGATGGCTTTGTATCAATCATATTACCGATACCAATGGCTATGTACCGATCATATCACTAC
* *
45610910 TACTGATGGCTTTGTGCCAATCACATTACTG
65 TACTGATGGCTGTGTGCCAATCACATCACTG
*
45610941 TACTTATGGCTT
1 TACTGATGGCTT
45610953 ATAGTCATTC
Statistics
Matches: 88, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
95 11 0.12
96 77 0.88
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (95 bp):
TACTGATGGCTTTGTATCAATCATATTACCGATACCAATGGCTATGTACCGATCATATCACTACT
ACTGATGGCTGTGTGCCAATCACATCACTG
Found at i:45612599 original size:29 final size:30
Alignment explanation
Indices: 45612435--45612626 Score: 191
Period size: 29 Copynumber: 6.6 Consensus size: 30
45612425 ATTTCCTTAG
* * *
45612435 AAGGAAGCCTTTCTGG-TGATCTCTATTAT
1 AAGGAAGCCTTTGTGGCTGATCTCTGTTAA
45612464 AAGGAAGCCTTTGTGG-TGATCTCTGTTAA
1 AAGGAAGCCTTTGTGGCTGATCTCTGTTAA
* *
45612493 AAGGAAGCCTTTATGGCTGATATCTGTTATA
1 AAGGAAGCCTTTGTGGCTGATCTCTGTTA-A
* * *
45612524 AA-GAAGCCTTTGTGGC-AATCTTTGTTAT
1 AAGGAAGCCTTTGTGGCTGATCTCTGTTAA
* * * *
45612552 AAGAAATCTTTTGTTGCT-ATCTCTGTTAA
1 AAGGAAGCCTTTGTGGCTGATCTCTGTTAA
* *
45612581 AAGGAAGCCTTTGTGGCT-AACTTTGTTAA
1 AAGGAAGCCTTTGTGGCTGATCTCTGTTAA
45612610 AA-GAACGCCTTTGTGGC
1 AAGGAA-GCCTTTGTGGC
45612627 AAGACTCTAA
Statistics
Matches: 136, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
28 5 0.04
29 104 0.76
30 24 0.18
31 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.36
Consensus pattern (30 bp):
AAGGAAGCCTTTGTGGCTGATCTCTGTTAA
Found at i:45623432 original size:25 final size:24
Alignment explanation
Indices: 45623377--45623433 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
45623367 TTTAATTAGT
45623377 ATAAAATATTAATAATTCAATAAA
1 ATAAAATATTAATAATTCAATAAA
*
45623401 TTGAAAA-ATTAAATAATTCAATAAAA
1 AT-AAAATATT-AATAATTCAAT-AAA
45623427 ATAAAAT
1 ATAAAAT
45623434 TTAGGAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
24 4 0.15
25 19 0.70
26 4 0.15
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.32
Consensus pattern (24 bp):
ATAAAATATTAATAATTCAATAAA
Found at i:45624193 original size:22 final size:19
Alignment explanation
Indices: 45624154--45624195 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
45624144 TGCAAAGTTG
45624154 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
45624173 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
45624195 A
1 A
45624196 ATGATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:45628684 original size:27 final size:27
Alignment explanation
Indices: 45628645--45628895 Score: 278
Period size: 27 Copynumber: 9.3 Consensus size: 27
45628635 ATTTATGAGC
45628645 AAATGACTGAAATACCCTCAAAGGGTA
1 AAATGACTGAAATACCCTCAAAGGGTA
* * * * *
45628672 AAATAACTAAAATTCCCTCGAAGGATA
1 AAATGACTGAAATACCCTCAAAGGGTA
*
45628699 AAATGACTGAAATACCCTCAAAGGATA
1 AAATGACTGAAATACCCTCAAAGGGTA
* *
45628726 AAATGACCGAAATACCCTCAAAAGGTA
1 AAATGACTGAAATACCCTCAAAGGGTA
**
45628753 AAATGA-TCGAAATACCCTTGAAGGGTA
1 AAATGACT-GAAATACCCTCAAAGGGTA
*
45628780 AAATGATTGAAATACCC-CTAAAGGGTA
1 AAATGACTGAAATACCCTC-AAAGGGTA
*
45628807 AAATGACTAAAATACCCTCGAAA-GGTA
1 AAATGACTGAAATACCCTC-AAAGGGTA
*
45628834 AAATGA-TCGAAATACCCTCGAAGGGTA
1 AAATGACT-GAAATACCCTCAAAGGGTA
* * * *
45628861 AAATGACCG-GATACCCCCATAGGGTA
1 AAATGACTGAAATACCCTCAAAGGGTA
45628887 AAATGACTG
1 AAATGACTG
45628896 TTATACCCCT
Statistics
Matches: 188, Mismatches: 29, Indels: 15
0.81 0.12 0.06
Matches are distributed among these distances:
26 24 0.13
27 159 0.85
28 5 0.03
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (27 bp):
AAATGACTGAAATACCCTCAAAGGGTA
Found at i:45628782 original size:81 final size:80
Alignment explanation
Indices: 45628645--45628895 Score: 326
Period size: 81 Copynumber: 3.1 Consensus size: 80
45628635 ATTTATGAGC
* * * * *
45628645 AAATGACTGAAATACCCTCAAAGGGTAAAAT-AACTAAAATTCCCTCGAAGGATAAAATGACTGA
1 AAATGACTGAAATACCCTCAAAAGGTAAAATGATC-GAAATACCCTCGAAGGGTAAAATGACTGA
*
45628709 AATACCCTCAAAGGATA
65 AATACCC-CAAAGGGTA
* * *
45628726 AAATGACCGAAATACCCTCAAAAGGTAAAATGATCGAAATACCCTTGAAGGGTAAAATGATTGAA
1 AAATGACTGAAATACCCTCAAAAGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGACTGAA
45628791 ATACCCCTAAAGGGTA
66 ATACCCC-AAAGGGTA
* * * *
45628807 AAATGACTAAAATACCCTCGAAAGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCG-G
1 AAATGACTGAAATACCCTCAAAAGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGACTGAA
*
45628871 ATACCCCCATAGGGTA
66 ATA-CCCCAAAGGGTA
45628887 AAATGACTG
1 AAATGACTG
45628896 TTATACCCCT
Statistics
Matches: 149, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
80 19 0.13
81 128 0.86
82 2 0.01
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (80 bp):
AAATGACTGAAATACCCTCAAAAGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGACTGAA
ATACCCCAAAGGGTA
Found at i:45629070 original size:28 final size:28
Alignment explanation
Indices: 45629038--45629156 Score: 150
Period size: 28 Copynumber: 4.3 Consensus size: 28
45629028 CACTATACTG
45629038 GTTACTATATTAGGCTAAGGCCCACACT
1 GTTACTATATTAGGCTAAGGCCCACACT
* * *
45629066 GTTACTGTATTGGGCTAAGGCCCATACT
1 GTTACTATATTAGGCTAAGGCCCACACT
* * * *
45629094 ATTACTGTATTAGGCTAAGTCCGACACT
1 GTTACTATATTAGGCTAAGGCCCACACT
* *
45629122 ATTACTATATCAGGCTAAGGCCCACACT
1 GTTACTATATTAGGCTAAGGCCCACACT
45629150 G-TACTAT
1 GTTACTAT
45629157 TACTGAATAA
Statistics
Matches: 78, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 6 0.08
28 72 0.92
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (28 bp):
GTTACTATATTAGGCTAAGGCCCACACT
Found at i:45629184 original size:33 final size:33
Alignment explanation
Indices: 45629119--45629184 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
45629109 TAAGTCCGAC
* *
45629119 ACTATTACTATATCAGGCTAAGGCCCACACTGT
1 ACTATTACTATATAAGGCTAAGGCCCAAACTGT
* *
45629152 ACTATTACTGA-ATAAGGCTCAGGCCTAAACTGT
1 ACTATTACT-ATATAAGGCTAAGGCCCAAACTGT
45629185 TACTGCATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (33 bp):
ACTATTACTATATAAGGCTAAGGCCCAAACTGT
Found at i:45629982 original size:17 final size:17
Alignment explanation
Indices: 45629960--45629996 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
45629950 ATGCACTAAC
* *
45629960 ATGAAAATGTATTGACA
1 ATGAAAATGCAATGACA
45629977 ATGAAAATGCAATGACA
1 ATGAAAATGCAATGACA
45629994 ATG
1 ATG
45629997 TATATTTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.08, G:0.19, T:0.24
Consensus pattern (17 bp):
ATGAAAATGCAATGACA
Found at i:45638576 original size:27 final size:27
Alignment explanation
Indices: 45638340--45638842 Score: 431
Period size: 27 Copynumber: 18.6 Consensus size: 27
45638330 TATCCTATAG
* * * *
45638340 GGGTATTTTGGTTATTTTACCCTTCGG
1 GGGTATTTCGGTAATTTTACCCATCGA
* * *
45638367 GGGTATTTCGTTAATTTTACCCTTTGA
1 GGGTATTTCGGTAATTTTACCCATCGA
** * * **
45638394 GGGTATTTTAGTCATTTTAACTTTCGA
1 GGGTATTTCGGTAATTTTACCCATCGA
* * * *
45638421 TGGTAATTT-GGTCATTTTACCCTTCGG
1 GGGT-ATTTCGGTAATTTTACCCATCGA
* *
45638448 GGGTAATTT-GGTCATTTTACCCTATAG-
1 GGGT-ATTTCGGTAATTTTACCC-ATCGA
* * * **
45638475 GGGTATTTTGGTCATTTTA-CCTTTTA
1 GGGTATTTCGGTAATTTTACCCATCGA
* * *
45638501 GGGGTATTTCAGTCATTTTACCCTTCGA
1 -GGGTATTTCGGTAATTTTACCCATCGA
* *
45638529 GGGTAATTCGGTCATTTTA-CCATTCGA
1 GGGTATTTCGGTAATTTTACCCA-TCGA
** * *
45638556 GGGTATTTCAATAATTATACCCATCAA
1 GGGTATTTCGGTAATTTTACCCATCGA
* *
45638583 GGGTATTTCGATAATTTTATCCATCGA
1 GGGTATTTCGGTAATTTTACCCATCGA
** **
45638610 GGGTATTTCAATAATTTTACCCATTAA
1 GGGTATTTCGGTAATTTTACCCATCGA
* *
45638637 GGGTATTTCAGTAATTTTACCTATCGA
1 GGGTATTTCGGTAATTTTACCCATCGA
*
45638664 GGGTATTTTGGTAATTTTACCCATCGA
1 GGGTATTTCGGTAATTTTACCCATCGA
* * *
45638691 GGGTATTTTGGTAATTATACCCATTGA
1 GGGTATTTCGGTAATTTTACCCATCGA
* * *
45638718 CGGTATTTTGATAATTTTACCCATCGA
1 GGGTATTTCGGTAATTTTACCCATCGA
*
45638745 GGGTATTTCGGTAGTTTTACCCATCGA
1 GGGTATTTCGGTAATTTTACCCATCGA
* ** *
45638772 GGGTATCTCATTAATTTTACTCATCGA
1 GGGTATTTCGGTAATTTTACCCATCGA
* *
45638799 GGGTATTTAGGTAATTTTACCCATCGG
1 GGGTATTTCGGTAATTTTACCCATCGA
45638826 GGGTATTTCGGTAATTT
1 GGGTATTTCGGTAATTT
45638843 AGGCCCATTA
Statistics
Matches: 395, Mismatches: 73, Indels: 16
0.82 0.15 0.03
Matches are distributed among these distances:
25 1 0.00
26 8 0.02
27 372 0.94
28 14 0.04
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACCCATCGA
Found at i:45640806 original size:44 final size:42
Alignment explanation
Indices: 45640756--45640870 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 42
45640746 TGAGTATTTG
*
45640756 TGTAAGACCACGTCTGGGATGTTAGCATCG-ATTTGAGGTTTACA
1 TGTAAGACCACGTCTGGGATGTTGGCATCGAATTTGA---TTACA
**
45640800 TGTAAGACCTTGTCTGGGATAG-TGGCATCGACATTTGATTACA
1 TGTAAGACCACGTCTGGGAT-GTTGGCATCGA-ATTTGATTACA
* *
45640843 TGTAAGACCACGTTTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGATGTTGGCAT
45640871 TGTACGAGCT
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
42 1 0.02
43 27 0.45
44 25 0.42
45 1 0.02
46 6 0.10
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGATGTTGGCATCGAATTTGATTACA
Found at i:45646635 original size:16 final size:16
Alignment explanation
Indices: 45646616--45646670 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
45646606 AATAAATTAA
45646616 AATTAATTATATTATG
1 AATTAATTATATTATG
* * *
45646632 AATTAACACTAAATTA-A
1 AATT-A-ATTATATTATG
45646649 AATTAATTATATTATG
1 AATTAATTATATTATG
45646665 AATTAA
1 AATTAA
45646671 CACACATTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
15 7 0.23
16 11 0.37
17 5 0.17
18 7 0.23
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (16 bp):
AATTAATTATATTATG
Found at i:45646650 original size:33 final size:33
Alignment explanation
Indices: 45646608--45646673 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
45646598 AAATTGAGAA
45646608 TAAATTAAAATTAATTATATTATGAATTAACAC
1 TAAATTAAAATTAATTATATTATGAATTAACAC
45646641 TAAATTAAAATTAATTATATTATGAATTAACAC
1 TAAATTAAAATTAATTATATTATGAATTAACAC
45646674 ACATTTTTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (33 bp):
TAAATTAAAATTAATTATATTATGAATTAACAC
Found at i:45646896 original size:18 final size:18
Alignment explanation
Indices: 45646853--45646896 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
45646843 TCATGTTCAT
45646853 ATTTTTTTACATAATTTA
1 ATTTTTTTACATAATTTA
* *
45646871 ATTATTTTATAGT-ATTTA
1 ATTTTTTTACA-TAATTTA
45646889 ATTTTTTT
1 ATTTTTTT
45646897 TCGACAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
ATTTTTTTACATAATTTA
Found at i:45659634 original size:25 final size:25
Alignment explanation
Indices: 45659606--45659659 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
45659596 GTACATGTAT
*
45659606 GCTCATACGAGCTGTA-AATCAGTAA
1 GCTCATACGAGCT-AAGAATCAGTAA
* *
45659631 GCTCCTATGAGCTAAGAATCAGTAA
1 GCTCATACGAGCTAAGAATCAGTAA
45659656 GCTC
1 GCTC
45659660 TCATGAGCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTAAGAATCAGTAA
Found at i:45671641 original size:20 final size:19
Alignment explanation
Indices: 45671610--45671647 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
45671600 GAGCTAATAC
45671610 GAGCTCAATGAGCTGAATT
1 GAGCTCAATGAGCTGAATT
45671629 GAGCTCGAATGAGCTGAAT
1 GAGCTC-AATGAGCTGAAT
45671648 CAAAAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.24
Consensus pattern (19 bp):
GAGCTCAATGAGCTGAATT
Found at i:45673838 original size:50 final size:50
Alignment explanation
Indices: 45673763--45673955 Score: 269
Period size: 50 Copynumber: 3.8 Consensus size: 50
45673753 ATTTGGGTAA
* *
45673763 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGAATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
* * *
45673813 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGACACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
** * *
45673863 AGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
** *
45673913 AGTACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
45673956 TGTTATTATC
Statistics
Matches: 124, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
50 91 0.73
51 33 0.27
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
Found at i:45681178 original size:13 final size:13
Alignment explanation
Indices: 45681160--45681189 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
45681150 TCAAGCAACT
45681160 ATGAATTTATTTC
1 ATGAATTTATTTC
*
45681173 ATGAATTTATTTG
1 ATGAATTTATTTC
45681186 ATGA
1 ATGA
45681190 TGATCCAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:45681359 original size:50 final size:50
Alignment explanation
Indices: 45681284--45681575 Score: 433
Period size: 50 Copynumber: 5.8 Consensus size: 50
45681274 ATTTGGGTAA
*
45681284 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGGGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
45681334 AGAGGTCCCATGTAAGACCATGTCTGGGATAT-GCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
45681383 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
45681433 AGAGGTCCTATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * ** *
45681483 AGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCAAGGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
45681533 AGTACATCCCATCTAAGACCATGTCTGGTACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
45681576 TGTTATTATC
Statistics
Matches: 217, Mismatches: 23, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
49 47 0.22
50 140 0.65
51 30 0.14
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:45681455 original size:99 final size:100
Alignment explanation
Indices: 45681284--45681575 Score: 433
Period size: 99 Copynumber: 2.9 Consensus size: 100
45681274 ATTTGGGTAA
*
45681284 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGGGATGAGAGGTCCCATGTAA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAA
*
45681349 GACCATGTCTGGGATAT-GCATTGGCACCGAGATG
66 GACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
45681383 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTATTGGCACCGAGATGAGAGGTCCTATGTAA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAA
45681448 GACCATGTCTGGGACATGGCATTGGCACCGAGATG
66 GACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * ** * ** *
45681483 AGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCAAGGGCACCGACATGAGTACATCCCATCTA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG-AGGTCCCATGTA
* *
45681548 AGACCATGTCTGGTACATGGCTTTGGCA
65 AGACCATGTCTGGGACATGGCATTGGCA
45681576 TGTTATTATC
Statistics
Matches: 174, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
99 78 0.45
100 62 0.36
101 34 0.20
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (100 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAA
GACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:45686147 original size:18 final size:18
Alignment explanation
Indices: 45686124--45686180 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
45686114 TCTCAATTAA
45686124 TAATTTCATTCAATATAT
1 TAATTTCATTCAATATAT
**
45686142 TAATTT-AGACAATA-A-
1 TAATTTCATTCAATATAT
*
45686157 AAATTTCATTCAATATAT
1 TAATTTCATTCAATATAT
45686175 TAATTT
1 TAATTT
45686181 AGACAATAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
15 5 0.17
16 7 0.23
17 7 0.23
18 11 0.37
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.46
Consensus pattern (18 bp):
TAATTTCATTCAATATAT
Found at i:45686154 original size:17 final size:17
Alignment explanation
Indices: 45686134--45686188 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
45686124 TAATTTCATT
45686134 CAATATATTAATTTAGA
1 CAATATATTAATTTAGA
* **
45686151 CAATA-A-AAATTTCATT
1 CAATATATTAATTT-AGA
45686167 CAATATATTAATTTAGA
1 CAATATATTAATTTAGA
45686184 CAATA
1 CAATA
45686189 AAAATTTCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
15 5 0.17
16 7 0.24
17 12 0.41
18 5 0.17
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (17 bp):
CAATATATTAATTTAGA
Found at i:45686162 original size:33 final size:33
Alignment explanation
Indices: 45686125--45686199 Score: 150
Period size: 33 Copynumber: 2.3 Consensus size: 33
45686115 CTCAATTAAT
45686125 AATTTCATTCAATATATTAATTTAGACAATAAA
1 AATTTCATTCAATATATTAATTTAGACAATAAA
45686158 AATTTCATTCAATATATTAATTTAGACAATAAA
1 AATTTCATTCAATATATTAATTTAGACAATAAA
45686191 AATTTCATT
1 AATTTCATT
45686200 TTATGCAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (33 bp):
AATTTCATTCAATATATTAATTTAGACAATAAA
Found at i:45687594 original size:23 final size:23
Alignment explanation
Indices: 45687566--45687612 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
45687556 TTCTTGATAG
*
45687566 TTGAAACCACACGAAAATAGTTA
1 TTGAAACCACACGAAAATAATTA
45687589 TTGAAACCACACGAAAATAATTA
1 TTGAAACCACACGAAAATAATTA
45687612 T
1 T
45687613 CCAACTCATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.17, G:0.11, T:0.23
Consensus pattern (23 bp):
TTGAAACCACACGAAAATAATTA
Found at i:45695497 original size:43 final size:43
Alignment explanation
Indices: 45695450--45695573 Score: 130
Period size: 43 Copynumber: 2.9 Consensus size: 43
45695440 ATTTCTGAGA
45695450 TGTGTTATCGTGTAAGACCATGTCTGGGACATTGGCATC-TAC
1 TGTGTTATCGTGTAAGACCATGTCTGGGACATTGGCATCATAC
* *
45695492 TTGTGTT-TACGTGTAAGACCCTGTCTGGGACAGTGGCATCGATAC
1 -TGTGTTAT-CGTGTAAGACCATGTCTGGGACATTGGCATC-ATAC
* * * *
45695537 -GTGATTA-CATGTAAGACCACGTCTAGGACGTTGGCAT
1 TGTG-TTATCGTGTAAGACCATGTCTGGGACATTGGCAT
45695574 TGTACGAGTT
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
42 1 0.01
43 62 0.91
44 2 0.03
45 3 0.04
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTGTTATCGTGTAAGACCATGTCTGGGACATTGGCATCATAC
Found at i:45696458 original size:24 final size:24
Alignment explanation
Indices: 45696431--45696562 Score: 90
Period size: 24 Copynumber: 5.6 Consensus size: 24
45696421 TGTTACATAT
*
45696431 ATGCAGTTCAATTTTGATGCTTAA
1 ATGCAGTCCAATTTTGATGCTTAA
* * * * * *
45696455 ATGCCGCCCAA-TTTGTTACATAT
1 ATGCAGTCCAATTTTGATGCTTAA
*
45696478 ATGCTGTCCAATTTTGATGCTTAA
1 ATGCAGTCCAATTTTGATGCTTAA
* * * * * *
45696502 ATGCTGCCCAA-TTTGTTACATAT
1 ATGCAGTCCAATTTTGATGCTTAA
45696525 ATGCTA-TCCAATTTTGATGCTTAA
1 ATGC-AGTCCAATTTTGATGCTTAA
* *
45696549 ATGCTGCCCAATTT
1 ATGCAGTCCAATTT
45696563 GTTACATATA
Statistics
Matches: 78, Mismatches: 26, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
23 33 0.42
24 45 0.58
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (24 bp):
ATGCAGTCCAATTTTGATGCTTAA
Found at i:45696469 original size:47 final size:47
Alignment explanation
Indices: 45696415--45696585 Score: 283
Period size: 47 Copynumber: 3.6 Consensus size: 47
45696405 ATGAGTTGAA
* *
45696415 CCAATTTGTTACATATATGCAGTTCAATTTTGATGCTTAAATGCCGC
1 CCAATTTGTTACATATATGCAGTCCAATTTTGATGCTTAAATGCTGC
*
45696462 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
1 CCAATTTGTTACATATATGCAGTCCAATTTTGATGCTTAAATGCTGC
45696509 CCAATTTGTTACATATATGCTA-TCCAATTTTGATGCTTAAATGCTGC
1 CCAATTTGTTACATATATGC-AGTCCAATTTTGATGCTTAAATGCTGC
45696556 CCAATTTGTTACATATATGCTA-TCCAATTT
1 CCAATTTGTTACATATATGC-AGTCCAATTT
45696586 GTTGCATATA
Statistics
Matches: 119, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
47 119 1.00
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (47 bp):
CCAATTTGTTACATATATGCAGTCCAATTTTGATGCTTAAATGCTGC
Found at i:45696604 original size:23 final size:23
Alignment explanation
Indices: 45696415--45696604 Score: 155
Period size: 23 Copynumber: 8.1 Consensus size: 23
45696405 ATGAGTTGAA
*
45696415 CCAATTTGTTACATATATGCAGT
1 CCAATTTGTTACATATATGCTGT
* * * * * * *
45696438 TCAATTTTGATGCTTAAATGCCGC
1 CCAA-TTTGTTACATATATGCTGT
45696462 CCAATTTGTTACATATATGCTGT
1 CCAATTTGTTACATATATGCTGT
* * * * *
45696485 CCAATTTTGATGCTTAAATGCTGC
1 CCAA-TTTGTTACATATATGCTGT
*
45696509 CCAATTTGTTACATATATGCTAT
1 CCAATTTGTTACATATATGCTGT
* * * * *
45696532 CCAATTTTGATGCTTAAATGCTGC
1 CCAA-TTTGTTACATATATGCTGT
*
45696556 CCAATTTGTTACATATATGCTAT
1 CCAATTTGTTACATATATGCTGT
* *
45696579 CCAATTTGTTGCATATATGTTGT
1 CCAATTTGTTACATATATGCTGT
45696602 CCA
1 CCA
45696605 GTTTTAGTGT
Statistics
Matches: 124, Mismatches: 40, Indels: 6
0.73 0.24 0.04
Matches are distributed among these distances:
23 73 0.59
24 51 0.41
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (23 bp):
CCAATTTGTTACATATATGCTGT
Found at i:45703531 original size:43 final size:42
Alignment explanation
Indices: 45703469--45703591 Score: 126
Period size: 43 Copynumber: 2.9 Consensus size: 42
45703459 GATTTTTGAG
*
45703469 ATGTGTTATCGTGTAAGACCACATCTGGGACGTTGGCATCGACT
1 ATGTGTTA-CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-T
*
45703513 -TGTGTTTACGTGTAAGACC-CTGTCTGGGATAG-TGGCATCGAT
1 ATGTG-TTACGTGTAAGACCAC-GTCTGGGA-CGTTGGCATCGAT
* * *
45703555 ACGTGATTACATGTAAGACCACGTCTAGGACGTTGGC
1 ATGTG-TTACGTGTAAGACCACGTCTGGGACGTTGGC
45703592 TTTGTACGAG
Statistics
Matches: 66, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
42 3 0.05
43 58 0.88
44 5 0.08
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (42 bp):
ATGTGTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
Found at i:45704462 original size:23 final size:23
Alignment explanation
Indices: 45704434--45704647 Score: 160
Period size: 23 Copynumber: 9.1 Consensus size: 23
45704424 ATGAGTTGAA
*
45704434 CCAATTTGTTACATATATGCAGT
1 CCAATTTGTTACATATATGCTGT
* * * * * *
45704457 TCAATTTTGATGCTTAAATGCTGC
1 CCAA-TTTGTTACATATATGCTGT
45704481 CCAATTTGTTACATATATGCTGT
1 CCAATTTGTTACATATATGCTGT
* * * * *
45704504 CCAATTTTGATGCTTAAATGCTGC
1 CCAA-TTTGTTACATATATGCTGT
*
45704528 CCAATTTGTTACATATATGCTAT
1 CCAATTTGTTACATATATGCTGT
* * *
45704551 CCAATTTTGATACTTAAATGCTG-
1 CCAA-TTTGTTACATATATGCTGT
45704574 CCTAATTTGTTACATATATGCTGT
1 CC-AATTTGTTACATATATGCTGT
* * * * **
45704598 CCAATTTTGATGCTTAAATGCTAC
1 CCAA-TTTGTTACATATATGCTGT
* *
45704622 CCAATTTGTTGCATATATGCTAT
1 CCAATTTGTTACATATATGCTGT
45704645 CCA
1 CCA
45704648 GTTTTAGTGT
Statistics
Matches: 144, Mismatches: 41, Indels: 12
0.73 0.21 0.06
Matches are distributed among these distances:
23 75 0.52
24 69 0.48
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.41
Consensus pattern (23 bp):
CCAATTTGTTACATATATGCTGT
Found at i:45704477 original size:24 final size:24
Alignment explanation
Indices: 45704458--45704628 Score: 143
Period size: 24 Copynumber: 7.2 Consensus size: 24
45704448 ATATGCAGTT
*
45704458 CAATTTTGATGCTTAAATGCTGCC
1 CAATTTTGATGCTTAAATGCTGTC
* * * *
45704482 CAA-TTTGTTACATATATGCTGTC
1 CAATTTTGATGCTTAAATGCTGTC
*
45704505 CAATTTTGATGCTTAAATGCTGCC
1 CAATTTTGATGCTTAAATGCTGTC
* * * * *
45704529 CAA-TTTGTTACATATATGCTATC
1 CAATTTTGATGCTTAAATGCTGTC
*
45704552 CAATTTTGATACTTAAATGCTG-C
1 CAATTTTGATGCTTAAATGCTGTC
* * * *
45704575 CTAA-TTTGTTACATATATGCTGTC
1 C-AATTTTGATGCTTAAATGCTGTC
**
45704599 CAATTTTGATGCTTAAATGCTACC
1 CAATTTTGATGCTTAAATGCTGTC
45704623 CAATTT
1 CAATTT
45704629 GTTGCATATA
Statistics
Matches: 113, Mismatches: 29, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
23 54 0.48
24 59 0.52
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (24 bp):
CAATTTTGATGCTTAAATGCTGTC
Found at i:45704642 original size:47 final size:47
Alignment explanation
Indices: 45704434--45704652 Score: 357
Period size: 47 Copynumber: 4.7 Consensus size: 47
45704424 ATGAGTTGAA
* *
45704434 CCAATTTGTTACATATATGCAGTTCAATTTTGATGCTTAAATGCTGC
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
45704481 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
* *
45704528 CCAATTTGTTACATATATGCTATCCAATTTTGATACTTAAATGCTGC
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
* *
45704575 CTAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTAC
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
* * *
45704622 CCAATTTGTTGCATATATGCTATCCAGTTTT
1 CCAATTTGTTACATATATGCTGTCCAATTTT
45704653 AGTGTAAAAA
Statistics
Matches: 160, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 160 1.00
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (47 bp):
CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
Found at i:45704685 original size:94 final size:93
Alignment explanation
Indices: 45704434--45704695 Score: 305
Period size: 94 Copynumber: 2.8 Consensus size: 93
45704424 ATGAGTTGAA
* * * * **
45704434 CCAATTTGTTACATATATGC-AGTTCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATA
1 CCAATTTGTTACATATATGCTA-TCCAATTTTGATAC-AAAATGCTGCCTAAACTGTTACATATA
*
45704498 TGCTGTCCAATTTTGATGCTTAAATGCTGC
64 TGCTGTCCAATTTTGATGCTTAAATGCTAC
* **
45704528 CCAATTTGTTACATATATGCTATCCAATTTTGATACTTAAATGCTGCCTAATTTGTTACATATAT
1 CCAATTTGTTACATATATGCTATCCAATTTTGATAC-AAAATGCTGCCTAAACTGTTACATATAT
45704593 GCTGTCCAATTTTGATGCTTAAATGCTAC
65 GCTGTCCAATTTTGATGCTTAAATGCTAC
* * * **
45704622 CCAATTTGTTGCATATATGCTATCCAGTTTTAGTGTA-AAAATGCTG-CTCAAACTGTTGTATAT
1 CCAATTTGTTACATATATGCTATCCAATTTT-G-ATACAAAATGCTGCCT-AAACTGTTACATAT
*
45704685 ATGCTGCCCAA
63 ATGCTGTCCAA
45704696 ATTGTTGTTT
Statistics
Matches: 151, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
93 2 0.01
94 145 0.96
95 2 0.01
96 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (93 bp):
CCAATTTGTTACATATATGCTATCCAATTTTGATACAAAATGCTGCCTAAACTGTTACATATATG
CTGTCCAATTTTGATGCTTAAATGCTAC
Found at i:45704688 original size:23 final size:23
Alignment explanation
Indices: 45704662--45704712 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
45704652 TAGTGTAAAA
*
45704662 ATGCTGCTCAAACTGTTGTATAT
1 ATGCTGCCCAAACTGTTGTATAT
* * *
45704685 ATGCTGCCCAAATTGTTGTTTTT
1 ATGCTGCCCAAACTGTTGTATAT
45704708 ATGCT
1 ATGCT
45704713 ATCCAAATTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.43
Consensus pattern (23 bp):
ATGCTGCCCAAACTGTTGTATAT
Found at i:45714393 original size:26 final size:26
Alignment explanation
Indices: 45714313--45714395 Score: 66
Period size: 26 Copynumber: 3.3 Consensus size: 26
45714303 TGATGGTCAC
45714313 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
* ** ** *
45714339 ACGTGTACCAGAATGAT--AGG-T-CGC
1 ATGTGTAGTACTATG-TGCAGGCTAC-T
45714363 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
45714389 ATGTGTA
1 ATGTGTA
45714396 CCGAATAGCT
Statistics
Matches: 39, Mismatches: 12, Indels: 12
0.62 0.19 0.19
Matches are distributed among these distances:
23 2 0.05
24 11 0.28
25 6 0.15
26 18 0.46
27 2 0.05
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAGGCTACT
Found at i:45714439 original size:51 final size:49
Alignment explanation
Indices: 45714306--45714500 Score: 248
Period size: 51 Copynumber: 3.9 Consensus size: 49
45714296 GTGAAACTGA
45714306 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAT-GAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATAG-T
* * *
45714356 AGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATAGCT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAG-T
* * * *
45714406 TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAAAAGT
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGT
* *
45714456 GATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 --TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
45714501 GTATCACTGA
Statistics
Matches: 125, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
49 4 0.03
50 42 0.34
51 78 0.62
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGT
Found at i:45714495 original size:102 final size:101
Alignment explanation
Indices: 45714309--45714500 Score: 314
Period size: 102 Copynumber: 1.9 Consensus size: 101
45714299 AAACTGATGG
* *
45714309 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAATGATAGGTCACATGTGTAGTAC
*
45714374 TATGTGCAGGCTACTATGTGTACCGAATAGCTTCGA
66 TATGTGCAGGCTACTATGTGAACCGAATAGCTTCGA
* *
45714410 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAAAAGTGAT-GGTCACATGTGTAGT
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CCAAAA-TGATAGGTCACATGTGTAGT
45714474 ACTATGTGCAGGCTACTATGTGAACCG
64 ACTATGTGCAGGCTACTATGTGAACCG
45714501 GTATCACTGA
Statistics
Matches: 84, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
101 36 0.43
102 44 0.52
103 4 0.05
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (101 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGTGAACCGAATAGCTTCGA
Found at i:45714611 original size:41 final size:41
Alignment explanation
Indices: 45714501--45714791 Score: 312
Period size: 41 Copynumber: 7.0 Consensus size: 41
45714491 ATGTGAACCG
* *
45714501 GTATCACTGAATATAAGGTGGTTGCTAAGTACTGATCTCGCC
1 GTATCACTGAATATAAGGTGGTTGCTAAGTGCTGAT-TCCCC
* *
45714543 GTATC-CTTG-ATAGTGAAAGG-GGTTGCTATGTGTTGATTCCCC
1 GTATCAC-TGAATA-T--AAGGTGGTTGCTAAGTGCTGATTCCCC
*
45714585 GTATCACTAAATATAAGGTGGTTGCTAAGTGCTGATTCCACC
1 GTATCACTGAATATAAGGTGGTTGCTAAGTGCTGATTCC-CC
*
45714627 GTATC-CTTG-ATAGTGAAAGG-GGTTGCTATGTGCTGATTCCCC
1 GTATCAC-TGAATA-T--AAGGTGGTTGCTAAGTGCTGATTCCCC
45714669 GTATCACTGAATATAAGGTGGTTGCTAAGTGCTGATTCCACC
1 GTATCACTGAATATAAGGTGGTTGCTAAGTGCTGATTCC-CC
* *
45714711 GTATC-CTTG-ATAGTGAAAGG-GGTTGCTATGTGTTGATTCCCC
1 GTATCAC-TGAATA-T--AAGGTGGTTGCTAAGTGCTGATTCCCC
45714753 GTATCACTGAATATAAGGTGGTTGCTAAGTGCTGATTCC
1 GTATCACTGAATATAAGGTGGTTGCTAAGTGCTGATTCC
45714792 ATCGAGTAAC
Statistics
Matches: 212, Mismatches: 14, Indels: 47
0.78 0.05 0.17
Matches are distributed among these distances:
40 12 0.06
41 67 0.32
42 58 0.27
43 63 0.30
44 12 0.06
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (41 bp):
GTATCACTGAATATAAGGTGGTTGCTAAGTGCTGATTCCCC
Found at i:45714642 original size:84 final size:84
Alignment explanation
Indices: 45714501--45714792 Score: 532
Period size: 84 Copynumber: 3.5 Consensus size: 84
45714491 ATGTGAACCG
* *
45714501 GTATCACTGAATATAAGGTGGTTGCTAAGTACTGA-TCTCGCCGTATCCTTGATAGTGAAAGGGG
1 GTATCACTGAATATAAGGTGGTTGCTAAGTGCTGATTC-CACCGTATCCTTGATAGTGAAAGGGG
45714565 TTGCTATGTGTTGATTCCCC
65 TTGCTATGTGTTGATTCCCC
*
45714585 GTATCACTAAATATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATAGTGAAAGGGGT
1 GTATCACTGAATATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATAGTGAAAGGGGT
*
45714650 TGCTATGTGCTGATTCCCC
66 TGCTATGTGTTGATTCCCC
45714669 GTATCACTGAATATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATAGTGAAAGGGGT
1 GTATCACTGAATATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATAGTGAAAGGGGT
45714734 TGCTATGTGTTGATTCCCC
66 TGCTATGTGTTGATTCCCC
45714753 GTATCACTGAATATAAGGTGGTTGCTAAGTGCTGATTCCA
1 GTATCACTGAATATAAGGTGGTTGCTAAGTGCTGATTCCA
45714793 TCGAGTAACG
Statistics
Matches: 201, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
84 199 0.99
85 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.33
Consensus pattern (84 bp):
GTATCACTGAATATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATAGTGAAAGGGGT
TGCTATGTGTTGATTCCCC
Found at i:45728765 original size:14 final size:14
Alignment explanation
Indices: 45728746--45728773 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45728736 CCAATTTATT
45728746 AATGAATTATTAAA
1 AATGAATTATTAAA
45728760 AATGAATTATTAAA
1 AATGAATTATTAAA
45728774 TATAACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:45729988 original size:43 final size:43
Alignment explanation
Indices: 45729918--45730143 Score: 317
Period size: 43 Copynumber: 5.3 Consensus size: 43
45729908 TTATAGAAAT
* * *
45729918 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCACTTTTCCCGC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
* * * * * *
45729961 ACATGCTGCTAAAGGCCATGTTTTTTAGCGGTGCTTCTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
*
45730004 AAACGCCGCTAAAAGCCATGTTCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
* * * **
45730047 AAACGCAGTTAAAAGTTATGTTCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
45730090 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
45730133 AAACGCCGCTA
1 AAACGCCGCTA
45730144 TTGTTTGGTG
Statistics
Matches: 158, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 158 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
Found at i:45730700 original size:25 final size:24
Alignment explanation
Indices: 45730649--45730709 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 24
45730639 TTTTACAATG
*
45730649 ATTAAGTTATGTAAATAATATGAGTT
1 ATTAAGTTA--TAAATAATATAAGTT
*
45730675 ATTAAGTTATACATATATATAAGTT
1 ATTAAGTTATAAATA-ATATAAGTT
45730700 ATTAAGTTAT
1 ATTAAGTTAT
45730710 GTAAGTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 5 0.16
25 18 0.56
26 9 0.28
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.44
Consensus pattern (24 bp):
ATTAAGTTATAAATAATATAAGTT
Found at i:45730714 original size:17 final size:17
Alignment explanation
Indices: 45730649--45730720 Score: 60
Period size: 17 Copynumber: 4.2 Consensus size: 17
45730639 TTTTACAATG
* *
45730649 ATTAAGTTATGTAAATA
1 ATTAAGTTATGTAAGTT
*
45730666 ATATGAGTTAT-TAAGTT
1 AT-TAAGTTATGTAAGTT
*
45730683 A-TACA-TATATATAAGTT
1 ATTA-AGT-TATGTAAGTT
45730700 ATTAAGTTATGTAAGTT
1 ATTAAGTTATGTAAGTT
45730717 ATTA
1 ATTA
45730721 TGTGAGTAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
15 2 0.05
16 4 0.09
17 28 0.64
18 10 0.23
ACGTcount: A:0.42, C:0.01, G:0.12, T:0.44
Consensus pattern (17 bp):
ATTAAGTTATGTAAGTT
Found at i:45730716 original size:9 final size:8
Alignment explanation
Indices: 45730671--45730720 Score: 50
Period size: 8 Copynumber: 6.0 Consensus size: 8
45730661 AAATAATATG
45730671 AGTTATTA
1 AGTTATTA
45730679 AGTTA-TA
1 AGTTATTA
45730686 CA-TATATATA
1 -AGT-TAT-TA
45730696 AGTTATTA
1 AGTTATTA
45730704 AGTTATGTA
1 AGTTAT-TA
45730713 AGTTATTA
1 AGTTATTA
45730721 TGTGAGTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
7 3 0.08
8 18 0.50
9 12 0.33
10 3 0.08
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (8 bp):
AGTTATTA
Found at i:45730835 original size:17 final size:17
Alignment explanation
Indices: 45730813--45730872 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
45730803 ATATATTTTA
45730813 AAATTATTAAGTTATGT
1 AAATTATTAAGTTATGT
* *
45730830 AAATTATGTGAGTTGT-T
1 AAATTAT-TAAGTTATGT
*
45730847 AAGTTATTAAGTTATGT
1 AAATTATTAAGTTATGT
*
45730864 AAGTTATTA
1 AAATTATTA
45730873 TGTGAATTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 6 0.17
17 24 0.67
18 6 0.17
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.47
Consensus pattern (17 bp):
AAATTATTAAGTTATGT
Found at i:45730858 original size:34 final size:36
Alignment explanation
Indices: 45730816--45730899 Score: 118
Period size: 34 Copynumber: 2.3 Consensus size: 36
45730806 TATTTTAAAA
* *
45730816 TTATTAAGTTATGTAA-ATTATGTGAGTTGT-TAAG
1 TTATTAAGTTATGTAATATTATGTGAATTATATAAG
45730850 TTATTAAGTTATGTAAGTTATTATGTGAATTATATAAG
1 TTATTAAGTTATGTAA--TATTATGTGAATTATATAAG
45730888 TTATTAAGTTAT
1 TTATTAAGTTAT
45730900 ATGGTATGAC
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
34 16 0.36
37 12 0.27
38 16 0.36
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.49
Consensus pattern (36 bp):
TTATTAAGTTATGTAATATTATGTGAATTATATAAG
Found at i:45730868 original size:9 final size:8
Alignment explanation
Indices: 45730816--45730872 Score: 60
Period size: 9 Copynumber: 6.8 Consensus size: 8
45730806 TATTTTAAAA
45730816 TTATTAAG
1 TTATTAAG
*
45730824 TTATGTAAA
1 TTAT-TAAG
*
45730833 TTATGTGAG
1 TTAT-TAAG
*
45730842 TTGTTAAG
1 TTATTAAG
45730850 TTATTAAG
1 TTATTAAG
45730858 TTATGTAAG
1 TTAT-TAAG
45730867 TTATTA
1 TTATTA
45730873 TGTGAATTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 20 0.49
9 21 0.51
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (8 bp):
TTATTAAG
Found at i:45730895 original size:46 final size:46
Alignment explanation
Indices: 45730824--45730991 Score: 131
Period size: 46 Copynumber: 3.5 Consensus size: 46
45730814 AATTATTAAG
* * *
45730824 TTATGTAAATTATGTGAGTTGTTAAGTTATTAAGTTATGTAAGTTA
1 TTATGTAAATTATATAAGTTATTAAGTTATTAAGTTATGTAAGTTA
* * * *
45730870 TTATGTGAATTATATAAGTTATTAAGTTA-TATGGTATGACATATATATATGTA
1 TTATGTAAATTATATAAGTTATTAAGTTATTA-AGT-T---ATGTA-A-GT-TA
* * * * * *
45730923 TTATATAAATTATGTGAGTTGTTAAGTTGTTAAGTTATGCAAGTTA
1 TTATGTAAATTATATAAGTTATTAAGTTATTAAGTTATGTAAGTTA
*
45730969 TTATGTGAATTATATAAGTTATT
1 TTATGTAAATTATATAAGTTATT
45730992 TGGACATTTT
Statistics
Matches: 91, Mismatches: 22, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
45 2 0.02
46 47 0.52
47 2 0.02
48 1 0.01
49 3 0.03
50 4 0.04
51 1 0.01
52 2 0.02
53 27 0.30
54 2 0.02
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.47
Consensus pattern (46 bp):
TTATGTAAATTATATAAGTTATTAAGTTATTAAGTTATGTAAGTTA
Found at i:45730901 original size:17 final size:17
Alignment explanation
Indices: 45730816--45730901 Score: 66
Period size: 17 Copynumber: 4.8 Consensus size: 17
45730806 TATTTTAAAA
* *
45730816 TTATTAAGTTATGTAAA
1 TTATTAAGTTATATAAG
* *
45730833 TTATGTGAGTTGT-TAAG
1 TTAT-TAAGTTATATAAG
*
45730850 TTATTAAGTTATGTAAG
1 TTATTAAGTTATATAAG
*
45730867 TTATTATGTGAATTATATAAG
1 TTATTA----AGTTATATAAG
45730888 TTATTAAGTTATAT
1 TTATTAAGTTATAT
45730902 GGTATGACAT
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
16 6 0.11
17 28 0.51
18 6 0.11
21 15 0.27
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (17 bp):
TTATTAAGTTATATAAG
Found at i:45731755 original size:16 final size:16
Alignment explanation
Indices: 45731734--45731767 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
45731724 CAATGTTCAA
45731734 CCCAAA-CATATTAAAT
1 CCCAAACCAT-TTAAAT
45731750 CCCAAACCATTTAAAT
1 CCCAAACCATTTAAAT
45731766 CC
1 CC
45731768 ATTATTGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (16 bp):
CCCAAACCATTTAAAT
Found at i:45734910 original size:23 final size:23
Alignment explanation
Indices: 45734884--45734936 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
45734874 ATGACACCGT
*
45734884 TTTTTTATTCTAAAAATT-TTTTA
1 TTTTTT-TTCTAAAAATTGATTTA
* *
45734907 TTTTGTTTTTTATAAATTGATTTA
1 TTTT-TTTTCTAAAAATTGATTTA
45734931 TTTTTT
1 TTTTTT
45734937 GTGGCGTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (23 bp):
TTTTTTTTCTAAAAATTGATTTA
Found at i:45735051 original size:105 final size:107
Alignment explanation
Indices: 45734858--45735071 Score: 315
Period size: 106 Copynumber: 2.0 Consensus size: 107
45734848 CGCATAAATT
* * ** * *
45734858 TTTCATTTTGAACTAAATGACACCGTTTTTTTATTCTAAAAATTTTTTATTTTGTTTTTTATAAA
1 TTTCATTTTCAACAAAATGACACCGTTTTGCTATGCTAAAAATTTTTTATTTTGTTATTTATAAA
* * *
45734923 TTGATTTATTTTTTGTGGCGTTTTTATA-AAAAATGCCGCTA
66 TTGATTTATTTTTTGCGGCGTTTTTATATAAAAACGCCACTA
*
45734964 TTTCATTTTCAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTT-TTATTTATAAA
1 TTTCATTTTCAACAAAATGACACCGTTTTGCTATGCTAAAAATTTTTTATTTTGTTATTTATAAA
*
45735028 TTGATTTATTTTTTGCGGCGTTTTTTTATAAAAACGCCACTA
66 TTGATTTATTTTTTGCGGCGTTTTTATATAAAAACGCCACTA
45735070 TT
1 TT
45735072 GCTTACCTCT
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
105 36 0.38
106 60 0.62
ACGTcount: A:0.28, C:0.11, G:0.10, T:0.51
Consensus pattern (107 bp):
TTTCATTTTCAACAAAATGACACCGTTTTGCTATGCTAAAAATTTTTTATTTTGTTATTTATAAA
TTGATTTATTTTTTGCGGCGTTTTTATATAAAAACGCCACTA
Found at i:45735981 original size:21 final size:21
Alignment explanation
Indices: 45735957--45735996 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
45735947 ACCTTAAATC
* *
45735957 TCTAACTCTTAACCCCTAACA
1 TCTAACCCCTAACCCCTAACA
45735978 TCTAACCCCTAACCCCTAA
1 TCTAACCCCTAACCCCTAA
45735997 ACCTTAAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.42, G:0.00, T:0.25
Consensus pattern (21 bp):
TCTAACCCCTAACCCCTAACA
Found at i:45736280 original size:14 final size:14
Alignment explanation
Indices: 45736246--45736346 Score: 60
Period size: 14 Copynumber: 7.0 Consensus size: 14
45736236 CCCTAACTTT
*
45736246 TAACCCCTAACACGTC
1 TAACCCCTAA-AC-CC
45736262 TAACCCCTAAACCC
1 TAACCCCTAAACCC
*
45736276 TAACCCTCTAACCCC
1 TAACCC-CTAAACCC
* * *
45736291 TAAACCTTAAA-TC
1 TAACCCCTAAACCC
* *
45736304 TCAACCCCTAATCCA
1 T-AACCCCTAAACCC
* * *
45736319 TAATCCCTAATCCA
1 TAACCCCTAAACCC
*
45736333 TAATCCCTAAACCC
1 TAACCCCTAAACCC
45736347 ATACTTCCCT
Statistics
Matches: 68, Mismatches: 14, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
13 2 0.03
14 41 0.60
15 15 0.22
16 10 0.15
ACGTcount: A:0.35, C:0.43, G:0.01, T:0.22
Consensus pattern (14 bp):
TAACCCCTAAACCC
Found at i:45736288 original size:22 final size:22
Alignment explanation
Indices: 45736250--45736314 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
45736240 AACTTTTAAC
*
45736250 CCCTAACACGTCTAACCCCTAAA
1 CCCTAAC-CCTCTAACCCCTAAA
45736273 CCCTAACCCTCTAACCCCTAAA
1 CCCTAACCCTCTAACCCCTAAA
* **
45736295 CCTTAAATCTC-AACCCCTAA
1 CCCTAACCCTCTAACCCCTAA
45736315 TCCATAATCC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.24
22 22 0.58
23 7 0.18
ACGTcount: A:0.34, C:0.45, G:0.02, T:0.20
Consensus pattern (22 bp):
CCCTAACCCTCTAACCCCTAAA
Found at i:45736296 original size:8 final size:7
Alignment explanation
Indices: 45736246--45736293 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
45736236 CCCTAACTTT
45736246 TAACCCC
1 TAACCCC
*
45736253 TAACACGTC
1 TAAC-C-CC
45736262 TAACCCC
1 TAACCCC
*
45736269 TAAACCC
1 TAACCCC
45736276 TAACCCTC
1 TAACCC-C
45736284 TAACCCC
1 TAACCCC
45736291 TAA
1 TAA
45736294 ACCTTAAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
7 20 0.59
8 9 0.26
9 5 0.15
ACGTcount: A:0.33, C:0.46, G:0.02, T:0.19
Consensus pattern (7 bp):
TAACCCC
Found at i:45736446 original size:298 final size:296
Alignment explanation
Indices: 45735841--45736461 Score: 951
Period size: 298 Copynumber: 2.1 Consensus size: 296
45735831 AATATATTTG
45735841 ATTTATTATTATCTATTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATAATT
1 ATTTATTATTATCTATTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATAATT
* * * * * * *
45735906 AATCTAAACTCAAAACCTTAACTCGACCCCTGAATCTCGAAACCTTAAATCTCTAACTCTTAACC
66 AATCTAAACCCAAAACCCTAACTCGACCCCTAAATCTCCAAACCTTAAACCCCTAACACTTAACC
* * *
45735971 CCTAACATCTAACCCCTAACCCCTAAACCTTAAATCTCAACCCTTAAACCATAATCCCTAATTCA
131 CCTAACACCTAACCCCTAACCCCTAAACCTTAAATCTCAACCCCTAAACCATAATCCCTAATCCA
* * * * *
45736036 TAATTCCTAAATCCGTACTCCTTAAACCTTAAAATATGAACTCTTAAACCGGCCTTAAATCTTAA
196 TAATCCCTAAACCCATACTCCCTAAACCTTAAAATATGAACTCCTAAACCGGCCTTAAATCTTAA
* * *
45736101 ATTAATCATATACCCTAAACTAAAAACCTTAAACAA
261 ATAAATCATATACCCTAAACCAAAAACCCTAAACAA
*
45736137 ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATT-AAAAAATAATT
1 ATTTATTATTATCTATTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATAATT
* * *
45736201 AATCTAAACCCAAAACCCTAACTCGACCCCTAAATC-CCTAACTTTTAACCCCTAACACGTCTAA
66 AATCTAAACCCAAAACCCTAACTCGACCCCTAAATCTCCAAACCTTAAACCCCTAACAC-T-TAA
*
45736265 CCCCTAA-ACCCTAACCCTCTAACCCCTAAACCTTAAATCTCAACCCCTAATCCATAATCCCTAA
129 CCCCTAACA-CCTAACCC-CTAACCCCTAAACCTTAAATCTCAACCCCTAAACCATAATCCCTAA
*
45736329 TCCATAATCCCTAAACCCATACTTCCCTAAACCTTAAAATATGAACTCCTAAACTGGCCTTAAAT
192 TCCATAATCCCTAAACCCATAC-TCCCTAAACCTTAAAATATGAACTCCTAAACCGGCCTTAAAT
*
45736394 TTTAAATAAATCATATACCCTAAACCAAAAACCCTAAACAA
256 CTTAAATAAATCATATACCCTAAACCAAAAACCCTAAACAA
45736435 ATTTATTATTATCTATTTTACAATTAT
1 ATTTATTATTATCTATTTTACAATTAT
45736462 TTTAAATAAT
Statistics
Matches: 294, Mismatches: 26, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
294 15 0.05
295 46 0.16
296 69 0.23
297 62 0.21
298 102 0.35
ACGTcount: A:0.41, C:0.26, G:0.02, T:0.31
Consensus pattern (296 bp):
ATTTATTATTATCTATTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATAATT
AATCTAAACCCAAAACCCTAACTCGACCCCTAAATCTCCAAACCTTAAACCCCTAACACTTAACC
CCTAACACCTAACCCCTAACCCCTAAACCTTAAATCTCAACCCCTAAACCATAATCCCTAATCCA
TAATCCCTAAACCCATACTCCCTAAACCTTAAAATATGAACTCCTAAACCGGCCTTAAATCTTAA
ATAAATCATATACCCTAAACCAAAAACCCTAAACAA
Found at i:45736781 original size:73 final size:73
Alignment explanation
Indices: 45736658--45736794 Score: 186
Period size: 73 Copynumber: 1.9 Consensus size: 73
45736648 CATTTTTGGT
* * * *
45736658 CGCTAAATCCTCGAAAGCTTAGAAAACGGCGTTGTTGGGCTTATA-ATTTTTTGCGGCACTTTCT
1 CGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGATATTTTTTGCGGCACTTTCT
45736722 AAAAAACC
66 AAAAAACC
* * * *
45736730 CGCTAAATCCCCCGAAAGCTCAGAAAACGGTGTCGTTGGGCTTAGGTTTTTTTTGCGGCGCTTTC
1 CGCTAAAT-CCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGATATTTTTTGCGGCACTTTC
45736795 CCAAAAGCGC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
72 8 0.15
73 31 0.56
74 16 0.29
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (73 bp):
CGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGATATTTTTTGCGGCACTTTCT
AAAAAACC
Found at i:45736953 original size:114 final size:114
Alignment explanation
Indices: 45736710--45737153 Score: 588
Period size: 114 Copynumber: 3.9 Consensus size: 114
45736700 ATAATTTTTT
* * * * *
45736710 GCGGCACTTTCTAAAAAAC-CCGCTAAATCCCCCGAAAGCTCAGAAAACGGTGTCGTTGGGCTTA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAAT-CCCTGAAAGCTCACAAAACGGCGTCGTTGGGCTTA
* **
45736774 GGTTTTTTTTGCGGCGCTTTCCCAAAAGCGCCGCTAAAGCCCAAAGCATTA
65 GG-TTTTTTTGCGGCGCTTTCTCAAAAGCGCCGCTAAAGCCCTGAGCATTA
* * * *
45736825 GCGGCCCTTTCTTAAAAACGCCGCTAAGTCCCTAAAAGCTCACAAAACAGCGTCGTTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCACAAAACGGCGTCGTTGGGCTTAG
** * *
45736890 GTTTTTTTGCGGCG-TTTCTGGGAAAGCACCGCTAATGCCCTGAGCATTA
66 GTTTTTTTGCGGCGCTTTCT-CAAAAGCGCCGCTAAAGCCCTGAGCATTA
* * **
45736939 GCGGCGCTTCCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGATGTCGTTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCACAAAACGGCGTCGTTGGGCTTAG
* *
45737004 GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGTTAAAGCCCTGAGCATTA
66 GTTTTTTTGCGGCGCTTTCTCAAAAGCGCCGCTAAAGCCCTGAGCATTA
* * * *
45737053 GCGGTGCTTTCTTAAAAATGCCGCTAAATCCCTGAAAGCTCACAAAACGGCATCGTTGGGCTTAT
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCACAAAACGGCGTCGTTGGGCTTAG
*
45737118 GTTTTTTTGTGGCGCTTTCTCAGAAA-CGCCGCTAAA
66 GTTTTTTTGCGGCGCTTTCTCA-AAAGCGCCGCTAAA
45737154 TCCCCAAAAG
Statistics
Matches: 286, Mismatches: 39, Indels: 9
0.86 0.12 0.03
Matches are distributed among these distances:
113 4 0.01
114 217 0.76
115 57 0.20
116 8 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (114 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCACAAAACGGCGTCGTTGGGCTTAG
GTTTTTTTGCGGCGCTTTCTCAAAAGCGCCGCTAAAGCCCTGAGCATTA
Found at i:45737151 original size:73 final size:72
Alignment explanation
Indices: 45737053--45737224 Score: 200
Period size: 73 Copynumber: 2.4 Consensus size: 72
45737043 CTGAGCATTA
* * * ** *
45737053 GCGGTGCTTTCTTAAAAATGCCGCTAAATCCCTGAAAGCTCACAAAACGGCATCGTTGGGCTTAT
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGACATCGTTGGGCTTA-
* *
45737118 GTTTTTTT
65 GATCTTTT
* * **** *
45737126 GTGGCGCTTTCTCAGAAACGCCGCTAAATCCCCAAAAGCTTGGGAAACGACGTCGTTGGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGACATCGTTGGGCTTAG
45737191 ATCTTTT
66 ATCTTTT
45737198 GCGGCGCTTTCTCAAAAACGCCGCTAA
1 GCGGCGCTTTCTCAAAAACGCCGCTAA
45737225 TGCTTATTTT
Statistics
Matches: 82, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
72 31 0.38
73 51 0.62
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (72 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGACATCGTTGGGCTTAG
ATCTTTT
Found at i:45737152 original size:228 final size:229
Alignment explanation
Indices: 45736723--45737152 Score: 650
Period size: 228 Copynumber: 1.9 Consensus size: 229
45736713 GCACTTTCTA
* *
45736723 AAAAACCCGCTAAATCCCCCGAAAGCTCAGAAAACGGTGTCGTTGGGCTTAGGTTTTTTTTGCGG
1 AAAAACCCGCTAAATCCCCCGAAAGCTCACAAAACGATGTCGTTGGGCTTAGGTTTTTTTTGCGG
* *
45736788 CGCTTTCCCAAAAGCGCCGCTAAAGCCCAAAGCATTAGCGGCCCTTTCTTAAAAACGCCGCTAAG
66 CGCTTTCCCAAAAACGCCGCTAAAGCCCAAAGCATTAGCGGCCCTTTCTTAAAAACGCCGCTAAA
* **
45736853 TCCCTAAAAGCTCACAAAACAGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGTTTCTGGGAAAGCA
131 TCCCTAAAAGCTCACAAAACAGCATCGTTGGGCTTAGGTTTTTTTGCGGCGTTTCTCAGAAAGCA
45736918 CCGCTAATGCCCTGAGCATTAGCGGCGCTTCCTT
196 CCGCTAATGCCCTGAGCATTAGCGGCGCTTCCTT
45736952 AAAAACGCCGCTAAAT-CCCCGAAAGCTCACAAAACGATGTCGTTGGGCTTAGG-TTTTTTTGCG
1 AAAAAC-CCGCTAAATCCCCCGAAAGCTCACAAAACGATGTCGTTGGGCTTAGGTTTTTTTTGCG
* * ** ** *
45737015 GCGCTTTCTCAAAAACGCCGTTAAAGCCCTGAGCATTAGCGGTGCTTTCTTAAAAATGCCGCTAA
65 GCGCTTTCCCAAAAACGCCGCTAAAGCCCAAAGCATTAGCGGCCCTTTCTTAAAAACGCCGCTAA
* * * *
45737080 ATCCCTGAAAGCTCACAAAACGGCATCGTTGGGCTTATGTTTTTTTGTGGCGCTTTCTCAGAAA-
130 ATCCCTAAAAGCTCACAAAACAGCATCGTTGGGCTTAGGTTTTTTTGCGGCG-TTTCTCAGAAAG
*
45737144 CGCCGCTAA
194 CACCGCTAA
45737153 ATCCCCAAAA
Statistics
Matches: 180, Mismatches: 19, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
228 121 0.67
229 50 0.28
230 9 0.05
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (229 bp):
AAAAACCCGCTAAATCCCCCGAAAGCTCACAAAACGATGTCGTTGGGCTTAGGTTTTTTTTGCGG
CGCTTTCCCAAAAACGCCGCTAAAGCCCAAAGCATTAGCGGCCCTTTCTTAAAAACGCCGCTAAA
TCCCTAAAAGCTCACAAAACAGCATCGTTGGGCTTAGGTTTTTTTGCGGCGTTTCTCAGAAAGCA
CCGCTAATGCCCTGAGCATTAGCGGCGCTTCCTT
Found at i:45747213 original size:14 final size:15
Alignment explanation
Indices: 45747194--45747223 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
45747184 AACAGGCATA
45747194 AAATGACCAA-TTCC
1 AAATGACCAAGTTCC
45747208 AAATGACCAAGTTCC
1 AAATGACCAAGTTCC
45747223 A
1 A
45747224 TTCAACCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.43, C:0.27, G:0.10, T:0.20
Consensus pattern (15 bp):
AAATGACCAAGTTCC
Found at i:45749250 original size:17 final size:17
Alignment explanation
Indices: 45749228--45749271 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
45749218 TTTTTGGTAC
45749228 TTTTCCACTCTCCTCAA
1 TTTTCCACTCTCCTCAA
*
45749245 TTTTCCACTCTCCTCGA
1 TTTTCCACTCTCCTCAA
45749262 TTTTCCACTC
1 TTTTCCACTC
45749272 GATCTTGATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.14, C:0.41, G:0.02, T:0.43
Consensus pattern (17 bp):
TTTTCCACTCTCCTCAA
Found at i:45755234 original size:33 final size:32
Alignment explanation
Indices: 45755165--45755273 Score: 156
Period size: 33 Copynumber: 3.5 Consensus size: 32
45755155 TATAAAAGGG
*
45755165 GGTTGCTAAGTGCTGATTCCCC----CAAGG-
1 GGTTGCTAAGTGCTGATTCCCCGAATCACGGT
45755192 GGTTGCTAAGTGCTGATTCCCCGAATCAGCGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCA-CGGT
45755225 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCAC-GGT
45755258 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
45755274 ATCCACCAAA
Statistics
Matches: 74, Mismatches: 1, Indels: 8
0.89 0.01 0.10
Matches are distributed among these distances:
27 22 0.30
31 2 0.03
32 3 0.04
33 47 0.64
ACGTcount: A:0.18, C:0.23, G:0.30, T:0.28
Consensus pattern (32 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCACGGT
Found at i:45760638 original size:16 final size:17
Alignment explanation
Indices: 45760617--45760649 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
45760607 TTGGATCGAG
45760617 AAAATT-ATTTAATTAA
1 AAAATTAATTTAATTAA
*
45760633 AAAATTAATTTAGTTAA
1 AAAATTAATTTAATTAA
45760650 TTTATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
AAAATTAATTTAATTAA
Found at i:45761480 original size:27 final size:28
Alignment explanation
Indices: 45761427--45761492 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
45761417 ACATGAACAT
45761427 ATTAAAAACATGTAATAGACTAAGACAA
1 ATTAAAAACATGTAATAGACTAAGACAA
* * *
45761455 ATTAAAAACATGTACTAG-CTATGACAT
1 ATTAAAAACATGTAATAGACTAAGACAA
45761482 ATT-AAAACATG
1 ATTAAAAACATG
45761493 CATTAAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
26 8 0.23
27 10 0.29
28 17 0.49
ACGTcount: A:0.52, C:0.12, G:0.11, T:0.26
Consensus pattern (28 bp):
ATTAAAAACATGTAATAGACTAAGACAA
Found at i:45765752 original size:3 final size:3
Alignment explanation
Indices: 45765744--45765776 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
45765734 GGGAACTGAG
45765744 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
45765777 CAACAACAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:45773069 original size:30 final size:30
Alignment explanation
Indices: 45773035--45773097 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
45773025 GTATAATAGG
45773035 ATAAGTGATGGTCGATGCAAATTGCAATGA
1 ATAAGTGATGGTCGATGCAAATTGCAATGA
* *
45773065 ATAAGTGATTGTTGATGCAAATTGCAATGA
1 ATAAGTGATGGTCGATGCAAATTGCAATGA
45773095 ATA
1 ATA
45773098 TCCTATCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (30 bp):
ATAAGTGATGGTCGATGCAAATTGCAATGA
Found at i:45777055 original size:18 final size:19
Alignment explanation
Indices: 45777032--45777072 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
45777022 TTCTTGTCGA
*
45777032 AAAATATTTAAA-TATTAT
1 AAAATAATTAAATTATTAT
*
45777050 AAAATAATTAAATTATTCT
1 AAAATAATTAAATTATTAT
45777069 AAAA
1 AAAA
45777073 ATATGAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATAATTAAATTATTAT
Found at i:45781406 original size:20 final size:20
Alignment explanation
Indices: 45781383--45781566 Score: 117
Period size: 20 Copynumber: 9.2 Consensus size: 20
45781373 TACTTCAATA
45781383 CCCCTGAATGCACATACGTG
1 CCCCTGAATGCACATACGTG
** * * *
45781403 CCCCTGTTTGTAC-TTCAGTA
1 CCCCTGAATGCACATAC-GTG
45781423 CCCCTGAATGCA-ATACGTG
1 CCCCTGAATGCACATACGTG
** * * *
45781442 CCCCTGTTTGTAC-TTCAGTA
1 CCCCTGAATGCACATAC-GTG
45781462 CCCCTGAATGCACATACGTG
1 CCCCTGAATGCACATACGTG
* ** * * *
45781482 CCCTTGTTTGTAC-TTCGATA
1 CCCCTGAATGCACATACG-TG
45781502 CCCCTGAATGCACATACGTG
1 CCCCTGAATGCACATACGTG
* * * *
45781522 CCACTGATTGTAC-TTCGGTG
1 CCCCTGAATGCACATAC-GTG
45781542 CCCCTGAATGCACATACGTG
1 CCCCTGAATGCACATACGTG
45781562 CCCCT
1 CCCCT
45781567 ATTTGTACTT
Statistics
Matches: 115, Mismatches: 40, Indels: 18
0.66 0.23 0.10
Matches are distributed among these distances:
19 20 0.17
20 88 0.77
21 7 0.06
ACGTcount: A:0.20, C:0.33, G:0.18, T:0.29
Consensus pattern (20 bp):
CCCCTGAATGCACATACGTG
Found at i:45781629 original size:119 final size:120
Alignment explanation
Indices: 45781304--45781611 Score: 465
Period size: 119 Copynumber: 2.6 Consensus size: 120
45781294 AAAGATATGT
* * * * *
45781304 CCCTGAATGCACGTACATGCCCCTATTTGTACTTCAGTACTCTTGAATGCACATACATGCCCCTA
1 CCCTGAATGCACATACGTGCCCCTATTTGTACTTCAGTACCCTTGAATGCACATACGTGCCCCTG
* * * *
45781369 TTAGTACTTCAATACCCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAGTAC
66 TTTGTACTTCGATACCCCTGAATGCACATACGTGCCACTGATTGTACTTCAGTAC
* * *
45781424 CCCTGAATGCA-ATACGTGCCCCTGTTTGTACTTCAGTACCCCTGAATGCACATACGTGCCCTTG
1 CCCTGAATGCACATACGTGCCCCTATTTGTACTTCAGTACCCTTGAATGCACATACGTGCCCCTG
* *
45781488 TTTGTACTTCGATACCCCTGAATGCACATACGTGCCACTGATTGTACTTCGGTGC
66 TTTGTACTTCGATACCCCTGAATGCACATACGTGCCACTGATTGTACTTCAGTAC
* *
45781543 CCCTGAATGCACATACGTGCCCCTATTTGTACTTTAGTACCCTTAAATGCACATACGTGCCCCTG
1 CCCTGAATGCACATACGTGCCCCTATTTGTACTTCAGTACCCTTGAATGCACATACGTGCCCCTG
45781608 TTTG
66 TTTG
45781612 GTCTTTGGCA
Statistics
Matches: 168, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
119 105 0.62
120 63 0.38
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.31
Consensus pattern (120 bp):
CCCTGAATGCACATACGTGCCCCTATTTGTACTTCAGTACCCTTGAATGCACATACGTGCCCCTG
TTTGTACTTCGATACCCCTGAATGCACATACGTGCCACTGATTGTACTTCAGTAC
Found at i:45781638 original size:40 final size:40
Alignment explanation
Indices: 45781304--45781611 Score: 431
Period size: 40 Copynumber: 7.7 Consensus size: 40
45781294 AAAGATATGT
* * *
45781304 CCCTGAATGCACGTACATGCCCCTATTTGTACTTCAGTAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAGTAC
* * * * * *
45781344 TCTTGAATGCACATACATGCCCCTATTAGTACTTCAATAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAGTAC
45781384 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAGTAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAGTAC
45781424 CCCTGAATGCA-ATACGTGCCCCTGTTTGTACTTCAGTAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAGTAC
*
45781463 CCCTGAATGCACATACGTGCCCTTGTTTGTACTTC-GATAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAG-TAC
* * * *
45781503 CCCTGAATGCACATACGTGCCACTGATTGTACTTCGGTGC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAGTAC
* *
45781543 CCCTGAATGCACATACGTGCCCCTATTTGTACTTTAGTAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAGTAC
* *
45781583 CCTTAAATGCACATACGTGCCCCTGTTTG
1 CCCTGAATGCACATACGTGCCCCTGTTTG
45781612 GTCTTTGGCA
Statistics
Matches: 240, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
39 40 0.17
40 199 0.83
41 1 0.00
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.31
Consensus pattern (40 bp):
CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAGTAC
Found at i:45784318 original size:50 final size:50
Alignment explanation
Indices: 45784260--45784453 Score: 203
Period size: 50 Copynumber: 3.9 Consensus size: 50
45784250 CATTGATATT
* * * *
45784260 ATGAGAGGTCCCATGTAATACCATGTTTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
** * *
45784310 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
** * * *
45784360 ATGAGAACTCCCATGTAAGACCATATCTAGGATATGGCATTGGCA--GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AC
* * ** *
45784409 AAGAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
45784454 TGTTATTATC
Statistics
Matches: 119, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
48 1 0.01
49 38 0.32
50 80 0.67
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
Done.