Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 103 of 109
Found at i:32819216 original size:21 final size:22
Alignment explanation
Indices: 32819179--32819221 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
32819169 TCTTTGCTGT
*
32819179 TAGGTTTAGGTTA-TTTTGGGC
1 TAGGGTTAGGTTATTTTTGGGC
32819200 TAGGGTTA-GTTATTTTTTGGGC
1 TAGGGTTAGGTTA-TTTTTGGGC
32819222 CTATTTTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 7 0.37
22 8 0.42
ACGTcount: A:0.14, C:0.05, G:0.33, T:0.49
Consensus pattern (22 bp):
TAGGGTTAGGTTATTTTTGGGC
Found at i:32820945 original size:24 final size:24
Alignment explanation
Indices: 32820917--32820968 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
32820907 TTCATAGGTC
* *
32820917 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
32820941 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
32820965 AAAT
1 AAAT
32820969 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:32821774 original size:42 final size:43
Alignment explanation
Indices: 32821727--32821808 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
32821717 AGACTAAGAC
*
32821727 CTTTAGCGGCGCTTTAG-TGGAAGCGCCGCTAAAGATCAGGGT
1 CTTTAGCGGCGCTTTAGCTAGAAGCGCCGCTAAAGATCAGGGT
* * *
32821769 CTTTAGCGGCGTTTTTGCTAGAAGCGCCGGTAAAGATCAG
1 CTTTAGCGGCGCTTTAGCTAGAAGCGCCGCTAAAGATCAG
32821809 ACGCCGCTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
42 15 0.43
43 20 0.57
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTAGCTAGAAGCGCCGCTAAAGATCAGGGT
Found at i:32821864 original size:60 final size:60
Alignment explanation
Indices: 32821750--32821864 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 60
32821740 TTAGTGGAAG
* * * * * **
32821750 CGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTTTGCTAGAAGCGCCGGTAAAGATCAGA
1 CGCCGCTAAAGATCAGGGTCTTTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGATCAGA
*
32821810 CGCCGCTAAAGATTAGGGTCTTTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGA
1 CGCCGCTAAAGATCAGGGTCTTTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGA
32821865 CCCTGATCTC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (60 bp):
CGCCGCTAAAGATCAGGGTCTTTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGATCAGA
Found at i:32821879 original size:43 final size:43
Alignment explanation
Indices: 32821828--32822015 Score: 250
Period size: 43 Copynumber: 4.4 Consensus size: 43
32821818 AAGATTAGGG
*
32821828 TCTTTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGACCCTGA
1 TCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCCTGA
* *** * * *
32821871 TCTCTAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCTAA
1 TCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCCTGA
* *
32821914 TCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCATGA
1 TCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCCTGA
* * *
32821957 TCTTTAGTGGCGCTTTTTCCACAAACGCCGCTAAAGACCCTTA
1 TCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCCTGA
*
32822000 TGTTTAGCGGCGCTTT
1 TCTTTAGCGGCGCTTT
32822016 AGTGGCNNNN
Statistics
Matches: 122, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 122 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (43 bp):
TCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCCTGA
Found at i:32833418 original size:14 final size:14
Alignment explanation
Indices: 32833399--32833466 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
32833389 ATGACCGTTG
32833399 AAACCCTAAATCTC
1 AAACCCTAAATCTC
*
32833413 AAACCCCTAAACCTC
1 AAA-CCCTAAATCTC
*
32833428 TAACCCCTAAAT-T-
1 -AAACCCTAAATCTC
* *
32833441 -AACCTTAAATCCC
1 AAACCCTAAATCTC
*
32833454 AAACCTTAAATCT
1 AAACCCTAAATCT
32833467 ATACCCCGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
11 8 0.19
14 15 0.36
15 17 0.40
16 2 0.05
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACCCTAAATCTC
Found at i:32833422 original size:15 final size:15
Alignment explanation
Indices: 32833402--32833439 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
32833392 ACCGTTGAAA
32833402 CCCTAAATCTCAAAC
1 CCCTAAATCTCAAAC
* *
32833417 CCCTAAACCTCTAAC
1 CCCTAAATCTCAAAC
32833432 CCCTAAAT
1 CCCTAAAT
32833440 TAACCTTAAA
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:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAATCTCAAAC
Found at i:32834014 original size:41 final size:40
Alignment explanation
Indices: 32833950--32834189 Score: 178
Period size: 41 Copynumber: 5.9 Consensus size: 40
32833940 TTTTGTTACT
* **
32833950 ATTAGCGGCGCTTTGGCAAAAACGCCGCTAAAGGTAAATAC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGTAAA-AC
* * * **
32833991 ATTAGCGGCGCTTAGCTACAAACGCCGCTGAAGACAAGAGA-
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGTAA-A-AC
* * * * ** *
32834032 ATTAGTGGCGCTCAGTTAAAAACGCCGCTAAAGATCCGAGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGT-AAAAC
* * * * *
32834073 ATTAGCGGCGCTTATATAAAAACGCCGCCAAAGGCCAGAGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGG-TAAAAC
**** *
32834114 ATTAGCGGCG-TTCAGATAAAAACGCCGCTAAAGACCCGAGC
1 ATTAGCGGCGCTT-AGATAAAAACGCCGCTAAAG-GTAAAAC
32834155 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGT
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGT
32834190 TTAAAAAATT
Statistics
Matches: 161, Mismatches: 31, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
40 2 0.01
41 155 0.96
42 4 0.02
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (40 bp):
ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGTAAAAC
Found at i:32834188 original size:82 final size:82
Alignment explanation
Indices: 32833990--32834188 Score: 290
Period size: 82 Copynumber: 2.4 Consensus size: 82
32833980 AAGGTAAATA
* * * * * *
32833990 CATTAGCGGCGCTTAGCTACAAACGCCGCTGAAGACAAGAGAATTAGTGGCGCTCAGTTAAAAAC
1 CATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCAAGAGAATTAGCGGCGCTCAGATAAAAAC
*
32834055 GCCGCTAAAGATCCGAG
66 GCCGCTAAAGACCCGAG
* * * * *
32834072 CATTAGCGGCGCTTATATAAAAACGCCGCCAAAGGCCAGAGCATTAGCGGCGTTCAGATAAAAAC
1 CATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCAAGAGAATTAGCGGCGCTCAGATAAAAAC
32834137 GCCGCTAAAGACCCGAG
66 GCCGCTAAAGACCCGAG
32834154 CATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGG
1 CATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGG
32834189 TTTAAAAAAT
Statistics
Matches: 103, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
82 103 1.00
ACGTcount: A:0.34, C:0.25, G:0.25, T:0.16
Consensus pattern (82 bp):
CATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCAAGAGAATTAGCGGCGCTCAGATAAAAAC
GCCGCTAAAGACCCGAG
Found at i:32834335 original size:40 final size:40
Alignment explanation
Indices: 32834247--32834343 Score: 101
Period size: 40 Copynumber: 2.5 Consensus size: 40
32834237 CGCTTTATAT
* **
32834247 AAAA-CGCCGCTAATTC-CTATTTTTAGCGGCGCTTCCGG
1 AAAATCGCCGCTAATGCTCTACCTTTAGCGGCGCTTCCGG
* * *
32834285 AAAATTGCCGCTGATGCTCTACCTTTAGCGGCGCTT-TGG
1 AAAATCGCCGCTAATGCTCTACCTTTAGCGGCGCTTCCGG
*
32834324 CTAAATCGCCGCTAATGCTC
1 -AAAATCGCCGCTAATGCTC
32834344 GATTTTTTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
38 4 0.09
39 11 0.23
40 32 0.68
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.29
Consensus pattern (40 bp):
AAAATCGCCGCTAATGCTCTACCTTTAGCGGCGCTTCCGG
Found at i:32838089 original size:22 final size:22
Alignment explanation
Indices: 32838064--32838106 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
32838054 ATGTCTATGC
32838064 TTGATTTGCTTATGAGAAACTG
1 TTGATTTGCTTATGAGAAACTG
32838086 TTGATTTGCTTATGAGAAACT
1 TTGATTTGCTTATGAGAAACT
32838107 TACATCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (22 bp):
TTGATTTGCTTATGAGAAACTG
Found at i:32850441 original size:21 final size:20
Alignment explanation
Indices: 32850417--32850458 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
32850407 ATTAATTAAT
32850417 ATAATAATAAAATTAAATATC
1 ATAATAATAAAATTAAA-ATC
* *
32850438 ATAATGATAAGATTAAAATC
1 ATAATAATAAAATTAAAATC
32850458 A
1 A
32850459 ATTGTGGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.31
Consensus pattern (20 bp):
ATAATAATAAAATTAAAATC
Found at i:32855873 original size:14 final size:15
Alignment explanation
Indices: 32855854--32855885 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
32855844 GTGGTTATAG
32855854 TTAAAATA-ATAAAA
1 TTAAAATAGATAAAA
32855868 TTAAAATAGATAAAA
1 TTAAAATAGATAAAA
32855883 TTA
1 TTA
32855886 TGATGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
TTAAAATAGATAAAA
Found at i:32857697 original size:30 final size:30
Alignment explanation
Indices: 32857663--32857722 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
32857653 AAGAAAAAGT
32857663 TAGAAAATTTAGACTGTAGGGGTCACACGG
1 TAGAAAATTTAGACTGTAGGGGTCACACGG
32857693 TAGAAAATTTAGACTGTAGGGGTCACACGG
1 TAGAAAATTTAGACTGTAGGGGTCACACGG
32857723 CCTTGTGGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.23
Consensus pattern (30 bp):
TAGAAAATTTAGACTGTAGGGGTCACACGG
Found at i:32858716 original size:38 final size:38
Alignment explanation
Indices: 32858660--32858776 Score: 137
Period size: 38 Copynumber: 3.1 Consensus size: 38
32858650 AACTTTTAAT
* * *
32858660 ACACCGGCACTAAACCTGCTGGGCACAAAGCCTGAATA
1 ACACCGGCAATAAGCCTGCTAGGCACAAAGCCTGAATA
* *
32858698 ACACCGGCAATAAGCCTGCTAGGCACGAAGCCAGAATA
1 ACACCGGCAATAAGCCTGCTAGGCACAAAGCCTGAATA
* * * *
32858736 ACACCGGCACA-AAGCCTACTAGGTAGAAAACCTGAATA
1 ACACCGGCA-ATAAGCCTGCTAGGCACAAAGCCTGAATA
32858774 ACA
1 ACA
32858777 ATATAATTTA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
38 66 0.99
39 1 0.01
ACGTcount: A:0.38, C:0.29, G:0.21, T:0.12
Consensus pattern (38 bp):
ACACCGGCAATAAGCCTGCTAGGCACAAAGCCTGAATA
Found at i:32861884 original size:17 final size:17
Alignment explanation
Indices: 32861864--32861902 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
32861854 TTAATTCGTC
32861864 TATTTATTTTTC-TTATT
1 TATTTA-TTTTCATTATT
32861881 TATTTATTTTCATTATT
1 TATTTATTTTCATTATT
32861898 TATTT
1 TATTT
32861903 TTATCTCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (17 bp):
TATTTATTTTCATTATT
Found at i:32861886 original size:30 final size:30
Alignment explanation
Indices: 32861846--32861904 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
32861836 CCTCATTGGT
*
32861846 TTATTGATTTA-ATTCGTCTATTTATTTTTC
1 TTATTGATTTATATTCAT-TATTTATTTTTC
* *
32861876 TTATTTATTTATTTTCATTATTTATTTTT
1 TTATTGATTTATATTCATTATTTATTTTT
32861905 ATCTCAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.69
Consensus pattern (30 bp):
TTATTGATTTATATTCATTATTTATTTTTC
Found at i:32863237 original size:71 final size:71
Alignment explanation
Indices: 32863162--32863378 Score: 168
Period size: 71 Copynumber: 3.1 Consensus size: 71
32863152 TATACAATTA
32863162 ATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATG
1 ATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATG
32863227 TCTTTT
66 TCTTTT
* * * ** * * **
32863233 ATATTTTG-ATAGAAACTAATTAACATA-ACTGTTTATATTAATAAATCCGGTAA-AATA-T-A-
1 ATATTTTGTAT-GAATCAAATT--CATATATTAATTATATT-CT--TTCC-AAAAGAATATTAAT
* * **
32863292 -TACA--AC--AA
59 TTCCATGTCTTTT
*
32863300 ATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAACATTAATTTCCATG
1 ATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATG
32863365 TCTTTT
66 TCTTTT
32863371 ATATTTTG
1 ATATTTTG
32863379 ACCGAAATTA
Statistics
Matches: 101, Mismatches: 27, Indels: 36
0.62 0.16 0.22
Matches are distributed among these distances:
62 2 0.02
63 6 0.06
64 1 0.01
65 6 0.06
66 9 0.09
67 19 0.19
68 2 0.02
69 2 0.02
70 2 0.02
71 27 0.27
72 9 0.09
73 6 0.06
74 1 0.01
75 7 0.07
76 2 0.02
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (71 bp):
ATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATG
TCTTTT
Found at i:32863303 original size:138 final size:137
Alignment explanation
Indices: 32863053--32863610 Score: 796
Period size: 138 Copynumber: 4.1 Consensus size: 137
32863043 AGTTAAAAAA
* * * *
32863053 AATTATATTCTTTCCAACAGAATATTAATTTTCATATCTTTTATATTTTGATTGAAATTATTTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGA-TGAAATTAATTAA
* *
32863118 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
65 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAACTAATATTTTGTATGAATCAAATT
32863183 CATATATT
130 CATATATT
*
32863191 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGATAGAAACTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGAT-GAAATTAATTAA
* * *
32863256 CATAACTGTTTATATTAATAAATCCGGTAAAATATATACAACAAATATTTTGTATGAATCAAATT
65 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAACTAATATTTTGTATGAATCAAATT
32863321 CATATATT
130 CATATATT
* *
32863329 AATTATATTCTTTCCAAAAGAACATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGA-TGAAATTAATTAA
* ** * * * *
32863394 TATAAATGTTTATATTAATAAATTTAGTAAACTATAT-CAACTAGTATTTTGTATGAATAAAATC
65 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAACTAATATTTTGTATGAATCAAATT
32863458 CATATATT
130 CATATATT
* * * * *
32863466 AATTGTATTTTTTCCAAAAAAATATTAATTTCTATTTCTTTTATATTTTGACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGA-TGAAATTAATTAA
* * * * *
32863531 TATAAC-GTTTTATATTAATAAATTCGATAAAATATATACAATTGATATTTTGTATAAATCAAAC
65 TATAACTG-TTTATATTAATAAATTCGGTAAAATATATACAACTAATATTTTGTATGAATCAAAT
32863595 TCATATATT
129 TCATATATT
32863604 AATTATA
1 AATTATA
32863611 CCTATGTTAT
Statistics
Matches: 373, Mismatches: 43, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
136 1 0.00
137 120 0.32
138 252 0.68
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.45
Consensus pattern (137 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGATGAAATTAATTAAT
ATAACTGTTTATATTAATAAATTCGGTAAAATATATACAACTAATATTTTGTATGAATCAAATTC
ATATATT
Found at i:32863545 original size:275 final size:276
Alignment explanation
Indices: 32863053--32863610 Score: 816
Period size: 275 Copynumber: 2.0 Consensus size: 276
32863043 AGTTAAAAAA
* * * ** *
32863053 AATTATATTCTTTCCAACAGAATATTAATTTTCATATCTTTTATATTTTGATTGAAATTATTTAA
1 AATTATATTCTTTCCAAAAGAACATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAA
* * * * *
32863118 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAAATGTTTATATTAATAAATTCAGTAAAATATATACAACTAATATTTTGTATGAATAAAATC
*
32863183 CATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGATAGAAA
131 CATATATTAATTATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTGATAGAAA
* *
32863248 CTAATTAACATAACTGTTTATATTAATAAATCCGGTAAAATATATACAACAAATATTTTGTATGA
196 CTAATTAACATAACTGTTTATATTAATAAATCCGATAAAATATATACAACAAATATTTTGTATAA
*
32863313 ATCAAATTCATATATT
261 ATCAAACTCATATATT
*
32863329 AATTATATTCTTTCCAAAAGAACATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAACATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAA
* * *
32863394 TATAAATGTTTATATTAATAAATTTAGTAAACTATAT-CAACTAGTATTTTGTATGAATAAAATC
66 TATAAATGTTTATATTAATAAATTCAGTAAAATATATACAACTAATATTTTGTATGAATAAAATC
* * * *
32863458 CATATATTAATTGTATTTTTTCCAAAAAAATATTAATTTCTATTTCTTTTATATTTTGACT-GAA
131 CATATATTAATTATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTGA-TAGAA
* * * ***
32863522 ATTAATTAATATAAC-GTTTTATATTAATAAATTCGATAAAATATATACAATTGATATTTTGTAT
195 ACTAATTAACATAACTG-TTTATATTAATAAATCCGATAAAATATATACAACAAATATTTTGTAT
32863586 AAATCAAACTCATATATT
259 AAATCAAACTCATATATT
32863604 AATTATA
1 AATTATA
32863611 CCTATGTTAT
Statistics
Matches: 251, Mismatches: 29, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
274 1 0.00
275 158 0.63
276 92 0.37
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.45
Consensus pattern (276 bp):
AATTATATTCTTTCCAAAAGAACATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAA
TATAAATGTTTATATTAATAAATTCAGTAAAATATATACAACTAATATTTTGTATGAATAAAATC
CATATATTAATTATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTGATAGAAA
CTAATTAACATAACTGTTTATATTAATAAATCCGATAAAATATATACAACAAATATTTTGTATAA
ATCAAACTCATATATT
Found at i:32867105 original size:24 final size:24
Alignment explanation
Indices: 32867042--32867093 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
32867032 TTTCTAGAAG
* * *
32867042 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
32867066 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
32867090 ATTT
1 ATTT
32867094 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:32871936 original size:810 final size:811
Alignment explanation
Indices: 32870377--32871999 Score: 3230
Period size: 810 Copynumber: 2.0 Consensus size: 811
32870367 GATTTAGGAC
32870377 CAGCAAAGAAGATACTTGGTATGGAGATTCCCAGAGATAGAAAAGCAAGTAAATTGTACCTAAGT
1 CAGCAAAGAAGATACTTGGTATGGAGATTCCCAGAGATAGAAAAGCAAGTAAATTGTACCTAAGT
32870442 CAAAAGGGGTACATTGAGAAAGTTCTTTGCAGGTTCAATATGCAGAGTGCTAAGCCTGTTAGTAC
66 CAAAAGGGGTACATTGAGAAAGTTCTTTGCAGGTTCAATATGCAGAGTGCTAAGCCTGTTAGTAC
32870507 TCCTTTAGTAGCCCATTTTTTACTTTCATCGGTTTTGTCTCCACAATCAAATGATGAGATTGAGT
131 TCCTTTAGTAGCCCATTTTTTACTTTCATCGGTTTTGTCTCCACAATCAAATGATGAGATTGAGT
32870572 ACATGTCACATGTTTCATACTCTAGTGTAGTAGGATCTCTCATGTATGCTATGGTTTGTTCACGT
196 ACATGTCACATGTTTCATACTCTAGTGTAGTAGGATCTCTCATGTATGCTATGGTTTGTTCACGT
32870637 CTAGATTTATCATATGCAGCTAGTGCAGTTAGTAGATACATGGAGAATCCCGGTAAAGAATACTG
261 CTAGATTTATCATATGCAGCTAGTGCAGTTAGTAGATACATGGAGAATCCCGGTAAAGAATACTG
32870702 GAAAGCAGTTCAGTGGATTTTAAGATATTTACGAGGTACTACTGATGTTTGCTTACAGTTTGGAA
326 GAAAGCAGTTCAGTGGATTTTAAGATATTTACGAGGTACTACTGATGTTTGCTTACAGTTTGGAA
32870767 GAACTAGAGATGGATTCATTGGGTATATTGATGTTGATTTTGCTGAAGACCTTGATAGAAGAGGA
391 GAACTAGAGATGGATTCATTGGGTATATTGATGTTGATTTTGCTGAAGACCTTGATAGAAGAGGA
32870832 TATCTCACAGGTTATGTCTTTACAATCGGAGTTTGTGCAATCAATTGCAAAGCCACTTTGCAAAC
456 TATCTCACAGGTTATGTCTTTACAATCGGAGTTTGTGCAATCAATTGCAAAGCCACTTTGCAAAC
32870897 TACAATCGCTTTGTCTACCACTGAAGCTGAGTACATGGCGATTATTGAGGCTTGTAAAAAATCTA
521 TACAATCGCTTTGTCTACCACTGAAGCTGAGTACATGGCGATTATTGAGGCTTGTAAAAAATCTA
32870962 TTTGGTTGAATGGACTCTTTAGTGAACTCAATAAAGACCTTCAAATTAGTATAGTATTTTGTGAC
586 TTTGGTTGAATGGACTCTTTAGTGAACTCAATAAAGACCTTCAAATTAGTATAGTATTTTGTGAC
32871027 AGTCAAAGTGCCATCTTCCTTACAAAAGATCAAATGTTTCATGAGAGAACAAAATATATTGATGT
651 AGTCAAAGTGCCATCTTCCTTACAAAAGATCAAATGTTTCATGAGAGAACAAAATATATTGATGT
32871092 TCAGTATCATTTTGTTCGTGATATTATTGCTCGTGGTGATATTGTTGTGAGCAAAATTAGTACTC
716 TCAGTATCATTTTGTTCGTGATATTATTGCTCGTGGTGATATTGTTGTGAGCAAAATTAGTACTC
32871157 ATGAAAATCCTACAGATATG-GACTAAGTCA
781 ATGAAAATCCTACAGATATGAGACTAAGTCA
32871187 CAGCAAAGAAGATACTTGGTATGGAGATTCCCAGAGATAGAAAAGCAAGTAAATTGTACCTAAGT
1 CAGCAAAGAAGATACTTGGTATGGAGATTCCCAGAGATAGAAAAGCAAGTAAATTGTACCTAAGT
32871252 CAAAAGGGGTACATTGAGAAAGTTCTTTGCAGGTTCAATATGCAGAGTGCTAAGCCTGTTAGTAC
66 CAAAAGGGGTACATTGAGAAAGTTCTTTGCAGGTTCAATATGCAGAGTGCTAAGCCTGTTAGTAC
32871317 TCCTTTAGTAGCCCATTTTTTACTTTCATCGGTTTTGTCTCCACAATCAAATGATGAGATTGAGT
131 TCCTTTAGTAGCCCATTTTTTACTTTCATCGGTTTTGTCTCCACAATCAAATGATGAGATTGAGT
32871382 ACATGTCACATGTTTCATACTCTAGTGTAGTAGGATCTCTCATGTATGCTATGGTTTGTTCACGT
196 ACATGTCACATGTTTCATACTCTAGTGTAGTAGGATCTCTCATGTATGCTATGGTTTGTTCACGT
32871447 CTAGATTTATCATATGCAGCTAGTGCAGTTAGTAGATACATGGAGAATCCCGGTAAAGAATACTG
261 CTAGATTTATCATATGCAGCTAGTGCAGTTAGTAGATACATGGAGAATCCCGGTAAAGAATACTG
32871512 GAAAGCAGTTCAGTGGATTTTAAGATATTTACGAGGTACTACTGATGTTTGCTTACAGTTTGGAA
326 GAAAGCAGTTCAGTGGATTTTAAGATATTTACGAGGTACTACTGATGTTTGCTTACAGTTTGGAA
32871577 GAACTAGAGATGGATTCATTGGGTATATTGATGTTGATTTTGCTGAAGACCTTGATAGAAGAGGA
391 GAACTAGAGATGGATTCATTGGGTATATTGATGTTGATTTTGCTGAAGACCTTGATAGAAGAGGA
32871642 TATCTCACAGGTTATGTCTTTACAATCGGAGTTTGTGCAATCAATTGCAAAGCCACTTTGCAAAC
456 TATCTCACAGGTTATGTCTTTACAATCGGAGTTTGTGCAATCAATTGCAAAGCCACTTTGCAAAC
32871707 TACAATCGCTTTGTCTACCACTGAAGCTGAGTACATGGCGATTATTGAGGCTTGTAAAAAATCTA
521 TACAATCGCTTTGTCTACCACTGAAGCTGAGTACATGGCGATTATTGAGGCTTGTAAAAAATCTA
32871772 TTTGGTTGAATGGACTCTTTAGTGAACTCAATAAAGACCTTCAAATTAGTATAGTATTTTGTGAC
586 TTTGGTTGAATGGACTCTTTAGTGAACTCAATAAAGACCTTCAAATTAGTATAGTATTTTGTGAC
32871837 AGTCAAAGTGCCATCTTCCTTACAAAAGATCAAATGTTTCATGAGAGAACAAAATATATTGATGT
651 AGTCAAAGTGCCATCTTCCTTACAAAAGATCAAATGTTTCATGAGAGAACAAAATATATTGATGT
32871902 TCAGTATCATTTTGTTCGTGATATTATTGCTCGTGGTGATATTGTTGTGAGCAAAATTAGTACTC
716 TCAGTATCATTTTGTTCGTGATATTATTGCTCGTGGTGATATTGTTGTGAGCAAAATTAGTACTC
32871967 ATGAAAATCCTACAGATATGATGACTAAGTCA
781 ATGAAAATCCTACAGATATGA-GACTAAGTCA
32871999 C
1 C
32872000 TTCCTCTAAC
Statistics
Matches: 811, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
810 800 0.99
812 11 0.01
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (811 bp):
CAGCAAAGAAGATACTTGGTATGGAGATTCCCAGAGATAGAAAAGCAAGTAAATTGTACCTAAGT
CAAAAGGGGTACATTGAGAAAGTTCTTTGCAGGTTCAATATGCAGAGTGCTAAGCCTGTTAGTAC
TCCTTTAGTAGCCCATTTTTTACTTTCATCGGTTTTGTCTCCACAATCAAATGATGAGATTGAGT
ACATGTCACATGTTTCATACTCTAGTGTAGTAGGATCTCTCATGTATGCTATGGTTTGTTCACGT
CTAGATTTATCATATGCAGCTAGTGCAGTTAGTAGATACATGGAGAATCCCGGTAAAGAATACTG
GAAAGCAGTTCAGTGGATTTTAAGATATTTACGAGGTACTACTGATGTTTGCTTACAGTTTGGAA
GAACTAGAGATGGATTCATTGGGTATATTGATGTTGATTTTGCTGAAGACCTTGATAGAAGAGGA
TATCTCACAGGTTATGTCTTTACAATCGGAGTTTGTGCAATCAATTGCAAAGCCACTTTGCAAAC
TACAATCGCTTTGTCTACCACTGAAGCTGAGTACATGGCGATTATTGAGGCTTGTAAAAAATCTA
TTTGGTTGAATGGACTCTTTAGTGAACTCAATAAAGACCTTCAAATTAGTATAGTATTTTGTGAC
AGTCAAAGTGCCATCTTCCTTACAAAAGATCAAATGTTTCATGAGAGAACAAAATATATTGATGT
TCAGTATCATTTTGTTCGTGATATTATTGCTCGTGGTGATATTGTTGTGAGCAAAATTAGTACTC
ATGAAAATCCTACAGATATGAGACTAAGTCA
Found at i:32875655 original size:45 final size:45
Alignment explanation
Indices: 32875605--32875835 Score: 383
Period size: 45 Copynumber: 5.1 Consensus size: 45
32875595 TAAGACTACA
32875605 AGCAGTGGGGCTGGTACATTCAGCTCTCAATTCATTCAACTTACG
1 AGCAGTGGGGCTGGTACATTCAGCTCTCAATTCATTCAACTTACG
*
32875650 AGCAGTGGGGCTGGTACATTCAGCTCTCAATTCATTCAACCTACG
1 AGCAGTGGGGCTGGTACATTCAGCTCTCAATTCATTCAACTTACG
*
32875695 AGCAGTGGGGCCGGTACATTCAGCTCTCAATTCATTCAACTTACG
1 AGCAGTGGGGCTGGTACATTCAGCTCTCAATTCATTCAACTTACG
* *
32875740 AGCAGTGGGGCTGGTACATTCAACTCTCCATTCATTCAACTTACG
1 AGCAGTGGGGCTGGTACATTCAGCTCTCAATTCATTCAACTTACG
* * *
32875785 AGCAGTGGGGCTGGTACATTCACCTCTCATTTCATT-AAGCCTACG
1 AGCAGTGGGGCTGGTACATTCAGCTCTCAATTCATTCAA-CTTACG
32875830 AGCAGT
1 AGCAGT
32875836 AGGACTGCCA
Statistics
Matches: 175, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
44 2 0.01
45 173 0.99
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (45 bp):
AGCAGTGGGGCTGGTACATTCAGCTCTCAATTCATTCAACTTACG
Found at i:32876996 original size:27 final size:27
Alignment explanation
Indices: 32876977--32877050 Score: 139
Period size: 27 Copynumber: 2.7 Consensus size: 27
32876967 AAGAATATAA
*
32876977 GGGGTTTGTTGATGATGAAGGCGGTAG
1 GGGGTTTGGTGATGATGAAGGCGGTAG
32877004 GGGGTTTGGTGATGATGAAGGCGGTAG
1 GGGGTTTGGTGATGATGAAGGCGGTAG
32877031 GGGGTTTGGTGATGATGAAG
1 GGGGTTTGGTGATGATGAAG
32877051 TGTTAGTAGG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.19, C:0.03, G:0.50, T:0.28
Consensus pattern (27 bp):
GGGGTTTGGTGATGATGAAGGCGGTAG
Found at i:32880278 original size:41 final size:40
Alignment explanation
Indices: 32880215--32880304 Score: 112
Period size: 41 Copynumber: 2.2 Consensus size: 40
32880205 TTTTTATACA
*
32880215 TATTA-TTATATGTTATTAAACTTTT-ATATCATTATATAT
1 TATTATTTATATATTATTAAACTTTTCATATCA-TATATAT
* *
32880254 TATTATTTATATTATTATTAAACTTTTCATTTTATATATAT
1 TATTATTTATA-TATTATTAAACTTTTCATATCATATATAT
32880295 TACTTATTTA
1 TA-TTATTTA
32880305 GACTAATATA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
39 5 0.11
40 5 0.11
41 23 0.52
42 11 0.25
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.59
Consensus pattern (40 bp):
TATTATTTATATATTATTAAACTTTTCATATCATATATAT
Found at i:32880296 original size:38 final size:35
Alignment explanation
Indices: 32880206--32880301 Score: 102
Period size: 38 Copynumber: 2.5 Consensus size: 35
32880196 TATTTTGATT
* *
32880206 TTTTATACATATTATTATATGTTATTAAACTTTTA
1 TTTTATATATATTATTATATATTATTAAACTTTTA
32880241 TATCATTATATATTATTATTTATATTATTATTAAACTTTTCA
1 T-T--TTATATA-TATTA-TTATA-TATTATTAAACTTTT-A
32880283 TTTTATATATATTACTTAT
1 TTTTATATATATTA-TTAT
32880302 TTAGACTAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
35 1 0.02
36 1 0.02
38 15 0.29
39 12 0.24
40 5 0.10
41 15 0.29
42 2 0.04
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.58
Consensus pattern (35 bp):
TTTTATATATATTATTATATATTATTAAACTTTTA
Found at i:32884996 original size:3 final size:3
Alignment explanation
Indices: 32884979--32885038 Score: 50
Period size: 3 Copynumber: 20.0 Consensus size: 3
32884969 TAATTACTCA
* * * * *
32884979 ATT ATT -TT CATT ATT ATT GTT ATT ATT ATT AAT GTT ATT ATA ACT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
32885024 ATT AGT ATT ATT ATT
1 ATT ATT ATT ATT ATT
32885039 TATATTAGTT
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
2 2 0.05
3 39 0.91
4 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:32885389 original size:11 final size:11
Alignment explanation
Indices: 32885375--32885432 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 11
32885365 TCTTTAACCG
32885375 TATTTTAAATT
1 TATTTTAAATT
*
32885386 TATTTCAAATTT
1 TATTTTAAA-TT
32885398 TCATTTATATATTATT
1 T-ATTT-TA-A--ATT
32885414 TATTTTAAATT
1 TATTTTAAATT
32885425 TATTTTAA
1 TATTTTAA
32885433 TATATAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
11 19 0.49
12 3 0.08
13 5 0.13
14 3 0.08
15 5 0.13
16 3 0.08
17 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTTTAAATT
Found at i:32885435 original size:28 final size:27
Alignment explanation
Indices: 32885382--32885447 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
32885372 CCGTATTTTA
*
32885382 AATTTATTTCAAATTTTCATTTATATAT
1 AATTTATTTTAAATTTT-ATTTATATAT
*
32885410 TATTTATTTTAAA-TTTATTTTAATATAT
1 AATTTATTTTAAATTTTA-TTT-ATATAT
*
32885438 AATTTCTTTT
1 AATTTATTTT
32885448 CTTTCGTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 1 0.03
27 6 0.19
28 25 0.78
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (27 bp):
AATTTATTTTAAATTTTATTTATATAT
Found at i:32892541 original size:44 final size:44
Alignment explanation
Indices: 32891282--32892528 Score: 1685
Period size: 44 Copynumber: 28.4 Consensus size: 44
32891272 GGTGAAACTA
* * * *
32891282 TAAATCCTAGCTCCCTGAACAGCAGTGGAACAGGTGGAAGA--C
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
* * *
32891324 TAAAGTCCTAGCTCCCTGAACAGCAGTGGCATAGGCAGAAGATTG
1 TAAA-TCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
*
32891369 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGAAAGATTG
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
* * * *
32891413 TAAATACTAGCTCCCTGATCAGCAGTGGAATAGGTGGAAGACTG
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
* * * * *
32891457 -AAAGTTCTAGCTCCCTGAACAGTAGTGGAATACGCAGAAGATTG
1 TAAA-TCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
* * *
32891501 TAAATCCTAACTCCCTGACCAGCAGTGGAATAGGTGGAAGATTA
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
* *
32891545 TAAATCCTAGAC-CTCTGAACAGCAGTGGAATAGGCGGAAGATTG
1 TAAATCCTAG-CTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
* *
32891589 TAAATCCTAGCTCCCTGACTAGCAGTGGAATAGGCAGAAGATTG
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
* * *
32891633 TAAATCCTAGCTCCCTGACC-GACCGTAGAATAGGTGGAAGATTG
1 TAAATCCTAGCTCCCTGACCAG-CAGTGGAATAGGCGGAAGATTG
* * * * **
32891677 TAAGTCCTAGATCCCTGAACACCAGTGGAATAGGTTGAAGATTG
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
** * *
32891721 TATGTCCTAGCTCCCTGAACATCAGTGGAATAGGCGGAAGATTG
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
* *
32891765 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGTGAAAGATTG
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
* *
32891809 TAAATCCTAGCTCCCTGAACAACAGTGGAATAGGCGGAAGATTG
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
*
32891853 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTG
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
* *
32891897 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTG
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
* * *
32891941 CAAGTCCTAGTTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
* * * *
32891985 TAAATCCTAGCTCCCTGACCAGTAGTGAAATAGGTGAAAGATTG
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
* * *
32892029 TAAATCCTAGCTCCCTGAACAACAGTGGAATAGGCGAAAGATTG
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
*
32892073 TAAATCCTAGCTCCTTGACCAGCAGTGGAATAGGCGGAAGATTG
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
32892117 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
* * *
32892161 TAAATCCAAGCTCCCTGACCGGCAGTGGAATAGGTGGAAGATTG
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
* * * **
32892205 TAAGTCCTAGATCCCTGAACAGCAGTGGAATAGGTTGAAGATTG
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
* * * * *
32892249 TAAGTCCTAGCTCTCTGAACAACAGTGGAATAGGTGGAAGATTG
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
* * *
32892293 TAAATCCTAGCGCCCTGACCAGCAGTGGAATAGGTGAAAGATTG
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
* *
32892337 TAAATCCTAGCTCCCTGAACAACAGTGGAATAGGCGGAAGATTG
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
*
32892381 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTG
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
* * * *
32892425 TAAATCCTAGCTCACTGAACAGCAGTGGAATAGGTGGAAGACTG
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
* * *
32892469 TAAGTCCTAGCTCCCTGACCAGTAGTGGAATAGGCAGAAGATTG
1 TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
*
32892513 TAAGTCCTAGCTCCCT
1 TAAATCCTAGCTCCCT
32892529 ATGCAACAGT
Statistics
Matches: 1068, Mismatches: 128, Indels: 16
0.88 0.11 0.01
Matches are distributed among these distances:
42 4 0.00
43 38 0.04
44 1018 0.95
45 8 0.01
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.22
Consensus pattern (44 bp):
TAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGGAAGATTG
Found at i:32892571 original size:44 final size:41
Alignment explanation
Indices: 32892523--32892662 Score: 100
Period size: 44 Copynumber: 3.2 Consensus size: 41
32892513 TAAGTCCTAG
32892523 CTCCCTATGCAACAGTGGAGTATGTTGAAAATTACAGATCTTAT
1 CTCCCTA-GCAACAGTGGAGTA-GTTGAAAATTACAG-TCTTAT
** * * *** * *
32892567 CTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCCCAGCCTTGT
1 CTCCCT-AGCAACAGTGGAGTAG-TTGAAAATTACAGTCTTAT
*
32892610 CTCCCTGAGCAACAGTGGAGTAGGTTAAAAAAATTACAGCTCTTAT
1 CTCCCT-AGCAACAGTGGAGTA-GTT--GAAAATTACAG-TCTTAT
32892656 CTCCCTA
1 CTCCCTA
32892663 AGCAGTAGTG
Statistics
Matches: 70, Mismatches: 20, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
43 25 0.36
44 27 0.39
45 8 0.11
46 10 0.14
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (41 bp):
CTCCCTAGCAACAGTGGAGTAGTTGAAAATTACAGTCTTAT
Found at i:32892627 original size:43 final size:43
Alignment explanation
Indices: 32892566--32892727 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
32892556 ACAGATCTTA
* *
32892566 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCCCAGCCTTG
1 TCTCCCTAAGCAGCAGTGGAGCAGATTGAAGACCACAGCCTTG
* * * * * * ** *
32892609 TCTCCCTGAGCAACAGTGGAGTAGGTTAAAAAAATTACAGCTCTTA
1 TCTCCCTAAGCAGCAGTGGAGCAGATT--GAAGACCACAGC-CTTG
* * *
32892655 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCTCAGCCTTG
1 TCTCCCTAAGCAGCAGTGGAGCAGATTGAAGACCACAGCCTTG
* * * *
32892698 TCTCCGTGAGCAGCAGTGGAGTAGGTTGAA
1 TCTCCCTAAGCAGCAGTGGAGCAGATTGAA
32892728 AATAACAGAT
Statistics
Matches: 87, Mismatches: 29, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
43 49 0.56
44 7 0.08
45 7 0.08
46 24 0.28
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (43 bp):
TCTCCCTAAGCAGCAGTGGAGCAGATTGAAGACCACAGCCTTG
Found at i:32892660 original size:89 final size:88
Alignment explanation
Indices: 32892523--32892740 Score: 316
Period size: 89 Copynumber: 2.5 Consensus size: 88
32892513 TAAGTCCTAG
* *
32892523 CTCCCT-ATGCAACAGTGGAGTATGTT-GAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
1 CTCCCTGA-GCAACAGTGGAGTAGGTTAAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
*
32892586 GCAGATTGAAGACCCCAGCCTTGT
65 GCAGATCGAAGACCCCAGCCTTGT
*
32892610 CTCCCTGAGCAACAGTGGAGTAGGTTAAAAAAATTACAGCTCTTATCTCCCTAAGCAGTAGTGGA
1 CTCCCTGAGCAACAGTGGAGTAGGTT-AAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
*
32892675 GCAGATCGAAGACCTCAGCCTTGT
65 GCAGATCGAAGACCCCAGCCTTGT
* * * *
32892699 CTCCGTGAGCAGCAGTGGAGTAGGTT-GAAAATAACAGATCTT
1 CTCCCTGAGCAACAGTGGAGTAGGTTAAAAAATTACAGATCTT
32892741 GTCTTCCTGT
Statistics
Matches: 118, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
87 36 0.31
88 1 0.01
89 81 0.69
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (88 bp):
CTCCCTGAGCAACAGTGGAGTAGGTTAAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
CAGATCGAAGACCCCAGCCTTGT
Found at i:32894161 original size:3 final size:3
Alignment explanation
Indices: 32894144--32894203 Score: 50
Period size: 3 Copynumber: 20.0 Consensus size: 3
32894134 TAATTACTCA
* * * * *
32894144 ATT ATT -TT CATT ATT ATT GTT ATT ATT ATT AAT GTT ATT ATA ACT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
32894189 ATT AGT ATT ATT ATT
1 ATT ATT ATT ATT ATT
32894204 TATATTAGTT
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
2 2 0.05
3 39 0.91
4 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:32894225 original size:16 final size:18
Alignment explanation
Indices: 32894188--32894225 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
32894178 TTATTATAAC
*
32894188 TATTAGTATTATTATTTA
1 TATTAGTATTATTATGTA
32894206 TATTAGT-TTA-TATGTA
1 TATTAGTATTATTATGTA
32894222 TATT
1 TATT
32894226 TACCTATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 3 0.16
18 7 0.37
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (18 bp):
TATTAGTATTATTATGTA
Found at i:32894600 original size:28 final size:27
Alignment explanation
Indices: 32894546--32894607 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 27
32894536 ACCGTATTTT
32894546 TAATTTATTTCAAATTTTCATTTATATA
1 TAATTTATTTCAAATTTT-ATTTATATA
* *
32894574 TTATTTATTTTAAA-TTTATTTTAATATA
1 TAATTTATTTCAAATTTTA-TTT-ATATA
32894602 TAATTT
1 TAATTT
32894608 CCTTTCTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 1 0.03
27 6 0.21
28 22 0.76
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (27 bp):
TAATTTATTTCAAATTTTATTTATATA
Found at i:32901810 original size:2 final size:2
Alignment explanation
Indices: 32901803--32901829 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32901793 GGGTAACCTA
32901803 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
32901830 GCTTGGATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32903210 original size:17 final size:20
Alignment explanation
Indices: 32903188--32903226 Score: 57
Period size: 17 Copynumber: 2.1 Consensus size: 20
32903178 GCCCTACATC
32903188 AATAATT-GAT-TAGG-TAA
1 AATAATTGGATCTAGGCTAA
32903205 AATAATTGGATCTAGGCTAA
1 AATAATTGGATCTAGGCTAA
32903225 AA
1 AA
32903227 GAACTTGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 3 0.16
19 4 0.21
20 5 0.26
ACGTcount: A:0.46, C:0.05, G:0.18, T:0.31
Consensus pattern (20 bp):
AATAATTGGATCTAGGCTAA
Found at i:32914438 original size:32 final size:32
Alignment explanation
Indices: 32914395--32914465 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
32914385 TTTGATTCGT
*
32914395 TGTAATGGAATAGAGCTGTAATGGAATAGAGG
1 TGTAATAGAATAGAGCTGTAATGGAATAGAGG
*
32914427 TGTAATAGAATATAGCTGTAATGGAATAGAGG
1 TGTAATAGAATAGAGCTGTAATGGAATAGAGG
*
32914459 CGTAATA
1 TGTAATA
32914466 ATATTCTTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.39, C:0.04, G:0.30, T:0.27
Consensus pattern (32 bp):
TGTAATAGAATAGAGCTGTAATGGAATAGAGG
Found at i:32914464 original size:16 final size:16
Alignment explanation
Indices: 32914395--32914457 Score: 99
Period size: 16 Copynumber: 3.9 Consensus size: 16
32914385 TTTGATTCGT
32914395 TGTAATGGAATAGAGC
1 TGTAATGGAATAGAGC
*
32914411 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGC
* *
32914427 TGTAATAGAATATAGC
1 TGTAATGGAATAGAGC
32914443 TGTAATGGAATAGAG
1 TGTAATGGAATAGAG
32914458 GCGTAATAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.40, C:0.03, G:0.30, T:0.27
Consensus pattern (16 bp):
TGTAATGGAATAGAGC
Found at i:32915841 original size:11 final size:11
Alignment explanation
Indices: 32915825--32915849 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32915815 AAGGGGTGGA
32915825 AAAAGAGAAAT
1 AAAAGAGAAAT
32915836 AAAAGAGAAAT
1 AAAAGAGAAAT
32915847 AAA
1 AAA
32915850 CAAAGATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (11 bp):
AAAAGAGAAAT
Found at i:32916327 original size:24 final size:24
Alignment explanation
Indices: 32916299--32916357 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
32916289 TGCTCTTATT
32916299 ATATTACATATTTAAAATTATTT-A
1 ATATTACATATTT-AAATTATTTAA
32916323 ATATTATTC-TA-TTAAATTATTTAA
1 ATATTA--CATATTTAAATTATTTAA
*
32916347 ATATTTCATAT
1 ATATTACATAT
32916358 ATCATTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
22 1 0.03
23 11 0.38
24 14 0.48
25 2 0.07
26 1 0.03
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (24 bp):
ATATTACATATTTAAATTATTTAA
Found at i:32916369 original size:33 final size:31
Alignment explanation
Indices: 32916296--32916381 Score: 93
Period size: 33 Copynumber: 2.7 Consensus size: 31
32916286 AAATGCTCTT
* *
32916296 ATTATATTACA-TATTTAAAATTATTTAATATT
1 ATTATATTAAATTATTT-AAA-TATTTAATATC
*
32916328 ATTCTATTAAATTATTTAAATATTTCATATATC
1 ATTATATTAAATTATTTAAATATTT-A-ATATC
*
32916361 ATTATATTAATTTATTTAAAT
1 ATTATATTAAATTATTTAAAT
32916382 TTATTTATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
31 5 0.11
32 13 0.28
33 28 0.61
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (31 bp):
ATTATATTAAATTATTTAAATATTTAATATC
Found at i:32918469 original size:29 final size:29
Alignment explanation
Indices: 32918427--32918485 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
32918417 AAGCCATAGT
*
32918427 AAACCTCGAACTGGGCCAATAATCACGCC
1 AAACCTCAAACTGGGCCAATAATCACGCC
32918456 AAACCTCAAACTGGGCCAATAATCACGCC
1 AAACCTCAAACTGGGCCAATAATCACGCC
32918485 A
1 A
32918486 TGAGACAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.34, G:0.15, T:0.14
Consensus pattern (29 bp):
AAACCTCAAACTGGGCCAATAATCACGCC
Found at i:32923350 original size:29 final size:28
Alignment explanation
Indices: 32923308--32923368 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 28
32923298 ATTTTTATTT
32923308 TACTTTACTTTCATGTCTGAAGTTGTTAA
1 TACTTTACTTTCATGTCTGAAGTTGTT-A
32923337 TACTTTACTTTCATGTCTGAAGTTGTTA
1 TACTTTACTTTCATGTCTGAAGTTGTTA
32923365 TACT
1 TACT
32923369 GGCTTATGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 5 0.16
29 27 0.84
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.49
Consensus pattern (28 bp):
TACTTTACTTTCATGTCTGAAGTTGTTA
Found at i:32934161 original size:3 final size:3
Alignment explanation
Indices: 32934155--32934200 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
32934145 CTACTACTAT
*
32934155 TGA TGA TGA TGA TGA TGG TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
32934201 AATGGGAAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.30, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:32935416 original size:178 final size:175
Alignment explanation
Indices: 32935100--32935633 Score: 654
Period size: 178 Copynumber: 3.0 Consensus size: 175
32935090 ACAGTAACCC
* * *
32935100 TATGTTCATAGAATTCAGTGTATTGAGAGTCTACTTAGTCAACGGTCGTATTATCATATCATCCA
1 TATGTTCATAGAATTCGGTGTATTGAGAGTCTAC-TATTCAATGGTCGTA-TATCATATCATCCA
*
32935165 TCCATTATGTTTAGAAGGTTTTGTCATTGATATGGTGTGTTTTACCGTTGTTCTAAACCCCAGAG
64 TCCA-TA-GTTTAGAAGGTTTTG---TTGATATGGTGTGTTTTA-CTTTGTTCTAAACCCCAGAG
* *
32935230 TGATAACATATTGTTAAACACGTTGAGTGCTCTTGGCTTATAAGGTCTGTGCA
123 TGATAACATATTGTCAAACATGTTGAGTGCTCTTGGCTTATAAGGTCTGTGCA
* *
32935283 TATGTTCATAGAATTCGGTGTATTGAGAGTCTACTATTTAATGGACGTATCATCATATCATCCAT
1 TATGTTCATAGAATTCGGTGTATTGAGAGTCTACTATTCAATGGTCGTAT-ATCATATCATCCAT
32935348 CCATCACGTTTAGAAGGTTTTGTTGATATGGTGTGTTTTACTTTGTTCTAAACCCCAGAGTGATA
65 CCAT-A-GTTTAGAAGGTTTTGTTGATATGGTGTGTTTTACTTTGTTCTAAACCCCAGAGTGATA
* * * *
32935413 ACATATTGTCAAACATGTTGAGTGTTATTGGCTTAGAAGGTCTGTGTA
128 ACATATTGTCAAACATGTTGAGTGCTCTTGGCTTATAAGGTCTGTGCA
* * * * *
32935461 TATGTTCATAGAATTTGGTGTATTG-G-G---AGTATTCAATTGTCGCATTTCCATATCATCCAT
1 TATGTTCATAGAATTCGGTGTATTGAGAGTCTACTATTCAATGGTCGTATAT-CATATCATCCAT
* * *
32935521 -CAT-GTTTGGAAGGTTTTCTCATTGATATGGTGTGTTTTACTTTGTTCTAAGCCCCAGAGTGAT
65 CCATAGTTTAGAAGG-TTT-T-GTTGATATGGTGTGTTTTACTTTGTTCTAAACCCCAGAGTGAT
* *
32935584 AGCATATTGTCAAA-AGTGTTGA-TCGCTCTTGGCTTATAAGGTCCGTGCA
127 AACATATTGTCAAACA-TGTTGAGT-GCTCTTGGCTTATAAGGTCTGTGCA
32935633 T
1 T
32935634 GTGAACATTG
Statistics
Matches: 314, Mismatches: 29, Indels: 27
0.85 0.08 0.07
Matches are distributed among these distances:
169 9 0.03
170 3 0.01
171 3 0.01
172 85 0.27
173 25 0.08
176 1 0.00
177 1 0.00
178 90 0.29
179 18 0.06
181 2 0.01
182 44 0.14
183 33 0.11
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (175 bp):
TATGTTCATAGAATTCGGTGTATTGAGAGTCTACTATTCAATGGTCGTATATCATATCATCCATC
CATAGTTTAGAAGGTTTTGTTGATATGGTGTGTTTTACTTTGTTCTAAACCCCAGAGTGATAACA
TATTGTCAAACATGTTGAGTGCTCTTGGCTTATAAGGTCTGTGCA
Found at i:32937971 original size:132 final size:132
Alignment explanation
Indices: 32937726--32938367 Score: 760
Period size: 132 Copynumber: 5.0 Consensus size: 132
32937716 AACCCCACCT
* * * *
32937726 GCAGTGGCATTGGCAGCTCCT-CTGTTGGTAGAGCCCCTGTCTTCATCCCATGATGAGCTGCTTT
1 GCAGTGGCATTGGCAGCT-CTGCTGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTT
* ** * * * * * *
32937790 TCGCTGGTGCCACGGTTCCACTTGCATTGCTGAAGGCTTGAGACCGAAGCCCATCTCCAGTGGTA
65 TTGCCAGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAAGCCCATCTGCAGTGGTA
32937855 GTG
130 GTG
* * * *
32937858 GCATTGGCAATAGCAGCTCTGCTGGTGGTAGAGCCCCAGTTTTCATCCCATGCTGGGCTGCTTTT
1 GCAGTGGCATTGGCAGCTCTGCTGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTT
* * * *
32937923 TGCTAGAGCCACAGTTCCACTTGTGTTGCTCAAGGCTTGAGACTGAAGCCCATCTGCGGCGGTAG
66 TGCCAGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAAGCCCATCTGCAGTGGTAG
32937988 TG
131 TG
* * * * * *
32937990 GTAGTGGCATTGGAAGCTCTGCTGGAGGTAGAGCCCCACTCTTCATCCCATTCTGGGTTGCTTTT
1 GCAGTGGCATTGGCAGCTCTGCTGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTT
*
32938055 TG-CAGGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAATCCCATCTGCAGTGGTA
66 TGCCA-GAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAAGCCCATCTGCAGTGGTA
32938119 GTG
130 GTG
* *
32938122 GCA---GC--T--C--CTCTG-T--TGGCAGAGCCCCACTCTTCATCCCATGCTGGGCTGCTTTT
1 GCAGTGGCATTGGCAGCTCTGCTGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTT
* *
32938175 TGCCAGAGCCACAGTTCCACTTGCGTTGCTCAAAGCTTGAGACTGAATCCCATCTGCAGTGGTAG
66 TGCCAGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAAGCCCATCTGCAGTGGTAG
32938240 TG
131 TG
* * *
32938242 GCAGTGGCATTGGCAGCTCCT-CT-GTGGGCAGAGCCCCAGGCTTCATCCCACGCTGGGCTGCTT
1 GCAGTGGCATTGGCAGCT-CTGCTGGT-GGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTT
* ** **
32938305 TTTGCCGGAGCCACAGTTCCACTTGAATTGCTCAACACTTGAGACTGAAGCCCAT-TGGCAGTG
64 TTTGCCAGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAAGCCCATCT-GCAGTG
32938368 ACAGCATGTT
Statistics
Matches: 443, Mismatches: 50, Indels: 34
0.84 0.09 0.06
Matches are distributed among these distances:
120 102 0.23
121 2 0.00
122 1 0.00
123 7 0.02
125 1 0.00
127 2 0.00
129 4 0.01
130 3 0.01
131 5 0.01
132 316 0.71
ACGTcount: A:0.17, C:0.28, G:0.27, T:0.27
Consensus pattern (132 bp):
GCAGTGGCATTGGCAGCTCTGCTGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTT
TGCCAGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAAGCCCATCTGCAGTGGTAG
TG
Found at i:32938191 original size:252 final size:252
Alignment explanation
Indices: 32937870--32938367 Score: 716
Period size: 252 Copynumber: 2.0 Consensus size: 252
32937860 ATTGGCAATA
* * * *
32937870 GCAGCTCTGCTGGTGGTAGAGCCCCAGTTTTCATCCCATGCTGGGCTGCTTTTTGCTAGAGCCAC
1 GCAGCTCTGCTGGTGGCAGAGCCCCACTCTTCATCCCATGCTGGGCTGCTTTTTGCCAGAGCCAC
* * * *
32937935 AGTTCCACTTGTGTTGCTCAAGGCTTGAGACTGAAGCCCATCTGCGGCGGTAGTGGTAGTGGCAT
66 AGTTCCACTTGCGTTGCTCAAAGCTTGAGACTGAAGCCCATCTGCAGCGGTAGTGGCAGTGGCAT
* * ** *
32938000 TGGAAGCT-CTGCTG-GAGGTAGAGCCCCACTCTTCATCCCATTCTGGGTTGCTTTTTGCAGGAG
131 TGGAAGCTCCT-CTGTG-GGCAGAGCCCCACGCTTCATCCCACGCTGGGCTGCTTTTTGCAGGAG
** ** *
32938063 CCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAATCCCATCT-GCAGTGGTAGTG
194 CCACAGTTCCACTTGAATTGCTCAACACTTGAGACTGAAGCCCAT-TGGCAGTGGTAGTG
*
32938122 GCAGCTCCT-CTGTTGGCAGAGCCCCACTCTTCATCCCATGCTGGGCTGCTTTTTGCCAGAGCCA
1 GCAGCT-CTGCTGGTGGCAGAGCCCCACTCTTCATCCCATGCTGGGCTGCTTTTTGCCAGAGCCA
* *
32938186 CAGTTCCACTTGCGTTGCTCAAAGCTTGAGACTGAATCCCATCTGCAGTGGTAGTGGCAGTGGCA
65 CAGTTCCACTTGCGTTGCTCAAAGCTTGAGACTGAAGCCCATCTGCAGCGGTAGTGGCAGTGGCA
* * *
32938251 TTGGCAGCTCCTCTGTGGGCAGAGCCCCAGGCTTCATCCCACGCTGGGCTGCTTTTTGCCGGAGC
130 TTGGAAGCTCCTCTGTGGGCAGAGCCCCACGCTTCATCCCACGCTGGGCTGCTTTTTGCAGGAGC
32938316 CACAGTTCCACTTGAATTGCTCAACACTTGAGACTGAAGCCCATTGGCAGTG
195 CACAGTTCCACTTGAATTGCTCAACACTTGAGACTGAAGCCCATTGGCAGTG
32938368 ACAGCATGTT
Statistics
Matches: 218, Mismatches: 24, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
251 1 0.00
252 212 0.97
253 5 0.02
ACGTcount: A:0.17, C:0.28, G:0.27, T:0.27
Consensus pattern (252 bp):
GCAGCTCTGCTGGTGGCAGAGCCCCACTCTTCATCCCATGCTGGGCTGCTTTTTGCCAGAGCCAC
AGTTCCACTTGCGTTGCTCAAAGCTTGAGACTGAAGCCCATCTGCAGCGGTAGTGGCAGTGGCAT
TGGAAGCTCCTCTGTGGGCAGAGCCCCACGCTTCATCCCACGCTGGGCTGCTTTTTGCAGGAGCC
ACAGTTCCACTTGAATTGCTCAACACTTGAGACTGAAGCCCATTGGCAGTGGTAGTG
Found at i:32938318 original size:384 final size:384
Alignment explanation
Indices: 32937665--32938359 Score: 1025
Period size: 384 Copynumber: 1.8 Consensus size: 384
32937655 ATGCTGAGCA
* * *
32937665 GCTTTTTGCTGGAGCCGCAGTTTCACTTGCATTGCTCAAGGCTTGAGACTGAACCCCACCTGCAG
1 GCTTTTTGCAGGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAACCCCACCTGCAG
* * ** *
32937730 TGGCATTGGCAGCTCCTCTGTTGGTAGAGCCCCTGTCTTCATCCCATGATGAGCTGCTTTTCGCT
66 TGGCAGTGGCAGCTCCTCTGTTGGCAGAGCCCCACTCTTCATCCCATGATGAGCTGCTTTTCGCC
* * * * *
32937795 GGTGCCACGGTTCCACTTGCATTGCTGAAGGCTTGAGACCGAAGCCCATCTCCAGTGGTAGTGGC
131 AGAGCCACAGTTCCACTTGCATTGCTCAAAGCTTGAGACCGAAGCCCATCTCCAGTGGTAGTGGC
* * ** *
32937860 ATTGGCAATAGCAGCTCTGCTGGTGGTAGAGCCCCAGTTTTCATCCCATGCTGGGCTGCTTTTTG
196 AGTGGCAATAGCAGCTCTGCTGGTGGCAGAGCCCCAGGCTTCATCCCACGCTGGGCTGCTTTTTG
* ** **
32937925 CTAGAGCCACAGTTCCACTTGTGTTGCTCAAGGCTTGAGACTGAAGCCCATCTGCGGCGGTAGTG
261 CCAGAGCCACAGTTCCACTTGAATTGCTCAACACTTGAGACTGAAGCCCATCTGCGGCGGTAGTG
32937990 GTAGTGGCATTGGAAGCTCTGCTGGAGGTAGAGCCCCACTCTTCATCCCATTCTGGGTT
326 GTAGTGGCATTGGAAGCTCTGCTGGAGGTAGAGCCCCACTCTTCATCCCATTCTGGGTT
* * *
32938049 GCTTTTTGCAGGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAATCCCATCTGCAG
1 GCTTTTTGCAGGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAACCCCACCTGCAG
* * * *
32938114 TGGTAGTGGCAGCTCCTCTGTTGGCAGAGCCCCACTCTTCATCCCATGCTGGGCTGCTTTTTGCC
66 TGGCAGTGGCAGCTCCTCTGTTGGCAGAGCCCCACTCTTCATCCCATGATGAGCTGCTTTTCGCC
* * * *
32938179 AGAGCCACAGTTCCACTTGCGTTGCTCAAAGCTTGAGACTGAATCCCATCTGCAGTGGTAGTGGC
131 AGAGCCACAGTTCCACTTGCATTGCTCAAAGCTTGAGACCGAAGCCCATCTCCAGTGGTAGTGGC
* *
32938244 AGTGGCATTGGCAGCTCCT-CT-GTGGGCAGAGCCCCAGGCTTCATCCCACGCTGGGCTGCTTTT
196 AGTGGCAATAGCAGCT-CTGCTGGT-GGCAGAGCCCCAGGCTTCATCCCACGCTGGGCTGCTTTT
*
32938307 TGCCGGAGCCACAGTTCCACTTGAATTGCTCAACACTTGAGACTGAAGCCCAT
259 TGCCAGAGCCACAGTTCCACTTGAATTGCTCAACACTTGAGACTGAAGCCCAT
32938360 TGGCAGTGAC
Statistics
Matches: 272, Mismatches: 37, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
383 2 0.01
384 268 0.99
385 2 0.01
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.27
Consensus pattern (384 bp):
GCTTTTTGCAGGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAACCCCACCTGCAG
TGGCAGTGGCAGCTCCTCTGTTGGCAGAGCCCCACTCTTCATCCCATGATGAGCTGCTTTTCGCC
AGAGCCACAGTTCCACTTGCATTGCTCAAAGCTTGAGACCGAAGCCCATCTCCAGTGGTAGTGGC
AGTGGCAATAGCAGCTCTGCTGGTGGCAGAGCCCCAGGCTTCATCCCACGCTGGGCTGCTTTTTG
CCAGAGCCACAGTTCCACTTGAATTGCTCAACACTTGAGACTGAAGCCCATCTGCGGCGGTAGTG
GTAGTGGCATTGGAAGCTCTGCTGGAGGTAGAGCCCCACTCTTCATCCCATTCTGGGTT
Found at i:32942938 original size:21 final size:21
Alignment explanation
Indices: 32942912--32942957 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
32942902 CTATGATGGG
32942912 TGTCAAAACTGTCTAGTCTTA
1 TGTCAAAACTGTCTAGTCTTA
32942933 TGTCAAAACTGTCTAGTCTTA
1 TGTCAAAACTGTCTAGTCTTA
32942954 TGTC
1 TGTC
32942958 TTGACCCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (21 bp):
TGTCAAAACTGTCTAGTCTTA
Found at i:32948246 original size:2 final size:2
Alignment explanation
Indices: 32948239--32948281 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
32948229 CAATCCCACC
32948239 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C- CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
32948280 CT
1 CT
32948282 GTTTTCTGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:32948930 original size:31 final size:31
Alignment explanation
Indices: 32948895--32948961 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
32948885 GTCCAATCTT
* * *
32948895 GTTCAAAGATCAAAATGGATCTAGTTGCTAA
1 GTTCAAAGACCAAAATAGATCTAGTTGCCAA
*
32948926 GTTCAATGACCAAAATAGATCTAGTTGCCAA
1 GTTCAAAGACCAAAATAGATCTAGTTGCCAA
32948957 GTTCA
1 GTTCA
32948962 TGGGCAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.28
Consensus pattern (31 bp):
GTTCAAAGACCAAAATAGATCTAGTTGCCAA
Found at i:32956422 original size:26 final size:30
Alignment explanation
Indices: 32956392--32956445 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
32956382 TCATCCCCAC
32956392 TTTTAC-TTT-TT-TTTAAT-TTTTATATA
1 TTTTACTTTTATTATTTAATATTTTATATA
32956418 TTTTACTTTTATTATTTAATATTTTATA
1 TTTTACTTTTATTATTTAATATTTTATA
32956446 GTTTTTGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 6 0.25
27 3 0.12
28 2 0.08
29 6 0.25
30 7 0.29
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (30 bp):
TTTTACTTTTATTATTTAATATTTTATATA
Found at i:32956441 original size:21 final size:22
Alignment explanation
Indices: 32956402--32956443 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
32956392 TTTTACTTTT
32956402 TTTTAATTTTTATATATTTTAC
1 TTTTAATTTTTATATATTTTAC
32956424 TTTT-ATTATTTA-ATATTTTA
1 TTTTAATT-TTTATATATTTTA
32956444 TAGTTTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTAATTTTTATATATTTTAC
Found at i:32956526 original size:24 final size:26
Alignment explanation
Indices: 32956492--32956546 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
32956482 TTGAGTGTTT
*
32956492 TATTTCTATAA-TATTAA-TTTTTCAA
1 TATTTCTATAATTATAAACTTTTT-AA
32956517 TATTT-TATAATTATAAACTTTTTAA
1 TATTTCTATAATTATAAACTTTTTAA
32956542 TATTT
1 TATTT
32956547 AGAATAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 5 0.19
25 17 0.63
26 5 0.19
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.58
Consensus pattern (26 bp):
TATTTCTATAATTATAAACTTTTTAA
Found at i:32959095 original size:19 final size:19
Alignment explanation
Indices: 32959071--32959109 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
32959061 CAAACCTAAA
32959071 TGAACCCTAATTTAATTAT
1 TGAACCCTAATTTAATTAT
32959090 TGAACCCTAATTTAATTAT
1 TGAACCCTAATTTAATTAT
32959109 T
1 T
32959110 AAGTTTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.15, G:0.05, T:0.44
Consensus pattern (19 bp):
TGAACCCTAATTTAATTAT
Found at i:32970009 original size:31 final size:31
Alignment explanation
Indices: 32969971--32970031 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
32969961 TGATGAAATA
*
32969971 CAAGTTCAAAGACCAAAATGAACCTAATTGT
1 CAAGTTCAAAGAACAAAATGAACCTAATTGT
* * *
32970002 CAAGTTCAGATAACAAAGTGAACCTAATTG
1 CAAGTTCAAAGAACAAAATGAACCTAATTG
32970032 CCATAAATGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.23
Consensus pattern (31 bp):
CAAGTTCAAAGAACAAAATGAACCTAATTGT
Found at i:32970159 original size:191 final size:188
Alignment explanation
Indices: 32969812--32970190 Score: 521
Period size: 191 Copynumber: 2.0 Consensus size: 188
32969802 TGATGAAATA
* *
32969812 CAAGTTCAAAGAACAAAAAGAACCTAATTGCCATAAACTTGACAACTAAATCCATTTTGATCGTA
1 CAAGTTCAAAGAACAAAAAGAACCTAATTGCCATAAAC-TGACAACTAAATCCATTTTGACCCTA
32969877 GAAATTGACAATGTAAACGTTCAATGACGTAACACTATAAGATTGTACCCAGTCATCACCTTTAG
65 GAAATTGACAATGTAAAC-TTCAATGACGTAACACTATAAGATTGTACCCAGTCATCACCTTTAG
* * *
32969942 GTGTCACATTATCAAACTTTGATGAAATACAAGTTCAAAGACCAAAATGAACCTAATTGT
129 GAGTCACATTATCAAACTTTGATGAAATACAAGTTCAAAAACCAAAATGAACATAATTGT
* * **
32970002 CAAGTTCAGATAACAAAGTGAACCTAATTGCCATAAA-TGCAACAACTAAATCCATTTTGACCCT
1 CAAGTTCAAAGAACAAAAAGAACCTAATTGCCATAAACTG--ACAACTAAATCCATTTTGACCCT
* * * * *
32970066 TGAAATTGACAAATGCATAAA-TTTAATGATGTGACACTATAAGATTGTA-CCACTTCATCACCT
64 AGAAATTGAC-AATG--TAAACTTCAATGACGTAACACTATAAGATTGTACCCA-GTCATCACCT
* *
32970129 TTAGGAGTCACATTATCAAATTTTGATGAAATTCAAGTTCAAAAACCAAAATGAACATAATT
125 TTAGGAGTCACATTATCAAACTTTGATGAAATACAAGTTCAAAAACCAAAATGAACATAATT
32970191 ACCATAAACT
Statistics
Matches: 167, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
188 2 0.01
190 66 0.40
191 95 0.57
193 4 0.02
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.28
Consensus pattern (188 bp):
CAAGTTCAAAGAACAAAAAGAACCTAATTGCCATAAACTGACAACTAAATCCATTTTGACCCTAG
AAATTGACAATGTAAACTTCAATGACGTAACACTATAAGATTGTACCCAGTCATCACCTTTAGGA
GTCACATTATCAAACTTTGATGAAATACAAGTTCAAAAACCAAAATGAACATAATTGT
Found at i:32973263 original size:17 final size:16
Alignment explanation
Indices: 32973230--32973260 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32973220 TTTAAAGTAA
32973230 AAAAATCATTAAAAAT
1 AAAAATCATTAAAAAT
*
32973246 AAAAATTATTAAAAA
1 AAAAATCATTAAAAA
32973261 ATATATAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAATCATTAAAAAT
Found at i:32973650 original size:31 final size:30
Alignment explanation
Indices: 32973605--32973683 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 30
32973595 ATTAAAATTG
*
32973605 TATTTTAA-TATTCAAAAATGAA-AAAA-AA
1 TATTTTAATTTTTCAAAAAT-AATAAAATAA
32973633 TCA-TTTAACCTTTTTCAAAAATAATAAAATAA
1 T-ATTTTAA--TTTTTCAAAAATAATAAAATAA
32973665 TATTTTAATTTTTCAAAAA
1 TATTTTAATTTTTCAAAAA
32973684 ATTTATAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
28 6 0.14
29 1 0.02
30 13 0.30
31 15 0.35
32 8 0.19
ACGTcount: A:0.52, C:0.08, G:0.01, T:0.39
Consensus pattern (30 bp):
TATTTTAATTTTTCAAAAATAATAAAATAA
Found at i:32974529 original size:12 final size:12
Alignment explanation
Indices: 32974500--32974536 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
32974490 TCGTAATATA
32974500 AATTTAATATTAT
1 AATTTAATATT-T
32974513 AATTTAATATTT
1 AATTTAATATTT
*
32974525 AATTTATTATTT
1 AATTTAATATTT
32974537 TGATACTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
AATTTAATATTT
Found at i:32980350 original size:14 final size:14
Alignment explanation
Indices: 32980331--32980382 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
32980321 AGAAAACACC
32980331 ATATATATGTATGTAT
1 ATATATATGTATG--T
*
32980347 ATATATATGTACGT
1 ATATATATGTATGT
32980361 ATATATATGTATGT
1 ATATATATGTATGT
*
32980375 ATGTATAT
1 ATATATAT
32980383 ATATAAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
14 21 0.64
16 12 0.36
ACGTcount: A:0.37, C:0.02, G:0.13, T:0.48
Consensus pattern (14 bp):
ATATATATGTATGT
Found at i:32980352 original size:16 final size:16
Alignment explanation
Indices: 32980331--32980387 Score: 87
Period size: 16 Copynumber: 3.4 Consensus size: 16
32980321 AGAAAACACC
32980331 ATATATATGTATGTAT
1 ATATATATGTATGTAT
*
32980347 ATATATATGTACGTAT
1 ATATATATGTATGTAT
32980363 ATATATGTATGTATGTAT
1 ATATA--TATGTATGTAT
32980381 ATATATA
1 ATATATA
32980388 AAATGTATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
16 22 0.59
18 15 0.41
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (16 bp):
ATATATATGTATGTAT
Found at i:32983902 original size:9 final size:9
Alignment explanation
Indices: 32983882--32983930 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
32983872 GTAGTGATTC
*
32983882 AATTCTGTT
1 AATTCGGTT
*
32983891 AATTCGGGT
1 AATTCGGTT
*
32983900 AATTAGGTT
1 AATTCGGTT
*
32983909 AATTCAGTT
1 AATTCGGTT
32983918 AATTCGGTT
1 AATTCGGTT
32983927 AATT
1 AATT
32983931 TTTAACAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:32989960 original size:16 final size:16
Alignment explanation
Indices: 32989939--32989980 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
32989929 AATTTGTATC
*
32989939 CGAAATAATCTAAACT
1 CGAAATAATCTAAAAT
*
32989955 CGAAATAATTTAAAAT
1 CGAAATAATCTAAAAT
*
32989971 CGAAACAATC
1 CGAAATAATC
32989981 CAATCTCAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.24
Consensus pattern (16 bp):
CGAAATAATCTAAAAT
Found at i:32992648 original size:2 final size:2
Alignment explanation
Indices: 32992643--32992679 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
32992633 TGAATTGGGA
32992643 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32992680 AAATAAAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:33010280 original size:2 final size:2
Alignment explanation
Indices: 33010275--33010313 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
33010265 TGAGATTGTA
33010275 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
33010314 AATTAATTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:33011042 original size:46 final size:46
Alignment explanation
Indices: 33010975--33011067 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
33010965 ATCTAGCCTT
33010975 TGTACATAATCCAATTTAACTGAAGCCCTTAGAGTGACTTCCACTA
1 TGTACATAATCCAATTTAACTGAAGCCCTTAGAGTGACTTCCACTA
33011021 TGTACATAATCCAATTTAACTGAAGCCCTTAGAGTGACTTCCACTA
1 TGTACATAATCCAATTTAACTGAAGCCCTTAGAGTGACTTCCACTA
33011067 T
1 T
33011068 AAAAGTCTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (46 bp):
TGTACATAATCCAATTTAACTGAAGCCCTTAGAGTGACTTCCACTA
Found at i:33022480 original size:29 final size:30
Alignment explanation
Indices: 33022421--33022480 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
33022411 CAGCCCCCAA
* *
33022421 TTTAAAAGTAAATTAAAAAAAGTATTCATT
1 TTTAAAAGTAAATTAAAAAAAGTACTAATT
**
33022451 TTTAAAA-TAAATTTTAAAAAGTACTAATT
1 TTTAAAAGTAAATTAAAAAAAGTACTAATT
33022480 T
1 T
33022481 GAAAAAAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (30 bp):
TTTAAAAGTAAATTAAAAAAAGTACTAATT
Found at i:33022486 original size:29 final size:28
Alignment explanation
Indices: 33022419--33022486 Score: 64
Period size: 29 Copynumber: 2.4 Consensus size: 28
33022409 CCCAGCCCCC
* *
33022419 AATTTAAAAGTAAATTAAAAAAAGTATT
1 AATTTAAAAATAAATTAAAAAAAGTACT
* * **
33022447 CATTTTTAAAATAAATTTTAAAAAGTACT
1 -AATTTAAAAATAAATTAAAAAAAGTACT
33022476 AATTTGAAAAA
1 AATTT-AAAAA
33022487 AAGTTGTGAT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
28 4 0.13
29 26 0.87
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (28 bp):
AATTTAAAAATAAATTAAAAAAAGTACT
Found at i:33026845 original size:57 final size:57
Alignment explanation
Indices: 33026753--33026867 Score: 167
Period size: 57 Copynumber: 2.0 Consensus size: 57
33026743 ATTGTTGTCG
* * *
33026753 GGCAATTCGGGATGGCTGAATAAACAGTTCAGACAATTACTAAAACCATCTTTGCCA
1 GGCAATCCGGGATGGCTGAATAAACAGTTCAGACAATTACTAAAACAATCGTTGCCA
* * **
33026810 GGCAATCCGGGATGGTTGAATAAATAGTTTGGACAATTACTAAAACAATCGTTGCCA
1 GGCAATCCGGGATGGCTGAATAAACAGTTCAGACAATTACTAAAACAATCGTTGCCA
33026867 G
1 G
33026868 TCAACTCAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (57 bp):
GGCAATCCGGGATGGCTGAATAAACAGTTCAGACAATTACTAAAACAATCGTTGCCA
Found at i:33027777 original size:24 final size:24
Alignment explanation
Indices: 33027750--33027801 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
33027740 AATCAAAGTC
* * *
33027750 AAATATATTATGCTAATAAATGCT
1 AAATACATTATACTAATAAATACT
*
33027774 AAATACATTATACTCATAAATACT
1 AAATACATTATACTAATAAATACT
33027798 AAAT
1 AAAT
33027802 CTTTTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATACATTATACTAATAAATACT
Found at i:33032187 original size:24 final size:24
Alignment explanation
Indices: 33032160--33032216 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
33032150 AAACCTAATT
33032160 CTAATCAAA-GTCAAATATATTATG
1 CTAAT-AAATGTCAAATATATTATG
* *
33032184 CTAATAAATGTTAAATATATTATA
1 CTAATAAATGTCAAATATATTATG
*
33032208 CTCATAAAT
1 CTAATAAAT
33032217 ACTAAATCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 3 0.10
24 26 0.90
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (24 bp):
CTAATAAATGTCAAATATATTATG
Found at i:33032222 original size:24 final size:24
Alignment explanation
Indices: 33032172--33032223 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
33032162 AATCAAAGTC
* **
33032172 AAATATATTATGCTAATAAATGTT
1 AAATATATTATACTAATAAATACT
*
33032196 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
33032220 AAAT
1 AAAT
33032224 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:33039938 original size:30 final size:27
Alignment explanation
Indices: 33039871--33039931 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
33039861 TTTTTGGAGG
* *
33039871 TTAAACTATAATATTGCTATTATTAGT
1 TTAAAATATAATATTACTATTATTAGT
33039898 TTAAAATATAATATTACTATTATTAGT
1 TTAAAATATAATATTACTATTATTAGT
33039925 TTAAAAT
1 TTAAAAT
33039932 TTTATAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (27 bp):
TTAAAATATAATATTACTATTATTAGT
Found at i:33039946 original size:27 final size:27
Alignment explanation
Indices: 33039889--33039947 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
33039879 TAATATTGCT
** **
33039889 ATTATTAGTTTAAAATATAATATTACT
1 ATTATTAGTTTAAAATATAATAAAAAA
* *
33039916 ATTATTAGTTTAAAATTTTATAAAAAA
1 ATTATTAGTTTAAAATATAATAAAAAA
33039943 ATTAT
1 ATTAT
33039948 ATTTTAAGGG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (27 bp):
ATTATTAGTTTAAAATATAATAAAAAA
Found at i:33051892 original size:14 final size:14
Alignment explanation
Indices: 33051873--33051899 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33051863 TTATTTCGAC
33051873 TTTTTGACCCCATA
1 TTTTTGACCCCATA
33051887 TTTTTGACCCCAT
1 TTTTTGACCCCAT
33051900 GTTGTAGGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.30, G:0.07, T:0.44
Consensus pattern (14 bp):
TTTTTGACCCCATA
Found at i:33059226 original size:21 final size:22
Alignment explanation
Indices: 33059179--33059228 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
33059169 AAACTGTAAT
*
33059179 ACAT-AAAAAAATGTATTTAAA
1 ACATGAAATAAATGTATTTAAA
*
33059200 ATATGAAATAAAT-TATTTAAA
1 ACATGAAATAAATGTATTTAAA
*
33059221 GCATGAAA
1 ACATGAAA
33059229 GAGTTTTAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (22 bp):
ACATGAAATAAATGTATTTAAA
Found at i:33068411 original size:29 final size:29
Alignment explanation
Indices: 33068369--33068438 Score: 140
Period size: 29 Copynumber: 2.4 Consensus size: 29
33068359 TATAAAAAAT
33068369 TTATAATTTTTTAAGGGGCCAGATTTGAA
1 TTATAATTTTTTAAGGGGCCAGATTTGAA
33068398 TTATAATTTTTTAAGGGGCCAGATTTGAA
1 TTATAATTTTTTAAGGGGCCAGATTTGAA
33068427 TTATAATTTTTT
1 TTATAATTTTTT
33068439 TTGTGATGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.30, C:0.06, G:0.17, T:0.47
Consensus pattern (29 bp):
TTATAATTTTTTAAGGGGCCAGATTTGAA
Found at i:33069371 original size:3 final size:3
Alignment explanation
Indices: 33069332--33069357 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
33069322 TTTTATACAA
33069332 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
33069358 ACTCTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:33069378 original size:13 final size:14
Alignment explanation
Indices: 33069351--33069379 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33069341 AATAATAATA
33069351 ATAATAAACTCTTT
1 ATAATAAACTCTTT
33069365 ATAATAAA-TCTTT
1 ATAATAAACTCTTT
33069378 AT
1 AT
33069380 TTTGTAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAATAAACTCTTT
Found at i:33082561 original size:3 final size:3
Alignment explanation
Indices: 33082535--33082581 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
33082525 TGTGAAAATA
* * *
33082535 TTC TGC TTC TTTC TTC GTC GTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
33082581 T
1 T
33082582 CTTGCCTGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.00, C:0.32, G:0.06, T:0.62
Consensus pattern (3 bp):
TTC
Found at i:33084792 original size:32 final size:34
Alignment explanation
Indices: 33084742--33084804 Score: 96
Period size: 32 Copynumber: 1.9 Consensus size: 34
33084732 NNNNNTATAA
33084742 TAAATATATATTTTTTA-TTTTTATTCTTTAATTT
1 TAAATATATATTTTTTATTTTTTATT-TTTAATTT
33084776 TAAA-ATAT-TTTTTTATTTTTTATTTTTAA
1 TAAATATATATTTTTTATTTTTTATTTTTAA
33084805 AATAATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 12 0.43
33 12 0.43
34 4 0.14
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (34 bp):
TAAATATATATTTTTTATTTTTTATTTTTAATTT
Found at i:33084832 original size:25 final size:25
Alignment explanation
Indices: 33084757--33084830 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 25
33084747 ATATATTTTT
33084757 TATTTTTATTCTTTAATTTTAAAATA
1 TATTTTTATTCTTT-ATTTTAAAATA
* *
33084783 TTTTTTTATTTTTTATTTTTAAAATA
1 TATTTTTATTCTTTA-TTTTAAAATA
* *
33084809 -ATTTTTAATGTTTATTTTAAAA
1 TATTTTTATTCTTTATTTTAAAA
33084831 ATGGGCCGGG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 8 0.19
25 12 0.29
26 22 0.52
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (25 bp):
TATTTTTATTCTTTATTTTAAAATA
Found at i:33091631 original size:223 final size:223
Alignment explanation
Indices: 33091205--33091754 Score: 913
Period size: 223 Copynumber: 2.5 Consensus size: 223
33091195 AACATTTAGA
* *
33091205 TATGAAGAAGAAAATGAGAAATCATCATCATTGTCAAAGTCATCCAAAAATACAATAATTCAAGA
1 TATGAAGAAGAAAATGAGAAATCATCATCATCGTCAAAGTCCTCCAAAAATACAATAATTCAAGA
* * * * * *
33091270 TGCACAATATCCAAATGAAATTGGTTCTTAAA-TCAAAAAATGGATTGAGTCCCTTTCTCAATCC
66 TGCACAACATCCAAATGAAATTGGTTCTCAAATTAAAAAAATGGACTAAGTCCCTCTCTCAATCC
* * *
33091334 TCAGAAGTAGCATTGGCCTTTTCACAAATGAAAGAGGAACCATCCAAAACCCAAATTTTCTCAAA
131 CCAAAAGTAGCATTGGCCTTTTCACAAATGAAAGAGGAACCATCCAAAACCCAAATTTCCTCAAA
* *
33091399 ACCAATTAAGTAATGGTATGAAATTTGC
196 ACAAATTAAGTAATGGTATAAAATTTGC
33091427 TATGAAGAAGAAAATGAGAAATCATCATCATCGTCAAAGTCCTCCAAAAATACAATAATTCAAGA
1 TATGAAGAAGAAAATGAGAAATCATCATCATCGTCAAAGTCCTCCAAAAATACAATAATTCAAGA
* *
33091492 TGCACAACATCCAAATGAAATTAGTTCTCAAATTAAAAAAATGGACTAAGTCCCTCTCTTAATCC
66 TGCACAACATCCAAATGAAATTGGTTCTCAAATTAAAAAAATGGACTAAGTCCCTCTCTCAATCC
33091557 CCAAAAGTAGCATTGGCCTTTTCACAAATGAAAGAGGAACCATCCAAAACCCAAATTTCCTCAAA
131 CCAAAAGTAGCATTGGCCTTTTCACAAATGAAAGAGGAACCATCCAAAACCCAAATTTCCTCAAA
*
33091622 ACAAATTAAGTCATGGTATAAAATTTGC
196 ACAAATTAAGTAATGGTATAAAATTTGC
*
33091650 CATGAAGAAGAAAATGAGAAATCATCATCATCGTCAAAGTCCTCCAAAAATACAATAATTCAAGA
1 TATGAAGAAGAAAATGAGAAATCATCATCATCGTCAAAGTCCTCCAAAAATACAATAATTCAAGA
* * *
33091715 TACACAAGATCCAAATGAAATTGGTTCTCAAATCAAAAAA
66 TGCACAACATCCAAATGAAATTGGTTCTCAAATTAAAAAA
33091755 TGGGATAAAA
Statistics
Matches: 306, Mismatches: 21, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
222 92 0.30
223 214 0.70
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (223 bp):
TATGAAGAAGAAAATGAGAAATCATCATCATCGTCAAAGTCCTCCAAAAATACAATAATTCAAGA
TGCACAACATCCAAATGAAATTGGTTCTCAAATTAAAAAAATGGACTAAGTCCCTCTCTCAATCC
CCAAAAGTAGCATTGGCCTTTTCACAAATGAAAGAGGAACCATCCAAAACCCAAATTTCCTCAAA
ACAAATTAAGTAATGGTATAAAATTTGC
Found at i:33094563 original size:16 final size:16
Alignment explanation
Indices: 33094542--33094575 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
33094532 TAGTCTCTAT
33094542 ATTTTAATTTATCATA
1 ATTTTAATTTATCATA
33094558 ATTTTAATTTATCATA
1 ATTTTAATTTATCATA
33094574 AT
1 AT
33094576 AATAGTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTTAATTTATCATA
Found at i:33107218 original size:31 final size:29
Alignment explanation
Indices: 33107172--33107273 Score: 87
Period size: 30 Copynumber: 3.4 Consensus size: 29
33107162 TTAAAATTTT
* *
33107172 ATTTAAAAAAATTTGAGGGATCTAATTAAA
1 ATTTTAAAAATTTTGAGGGAT-TAATTAAA
** **
33107202 ATTTCTAAAAATTTTGAGAAAATTAATGGAA
1 ATTT-TAAAAATTTTGAG-GGATTAATTAAA
* * *
33107233 ATTTTGAAAATTTTAAAGGATTTAATTAAA
1 ATTTTAAAAATTTTGAGGGA-TTAATTAAA
33107263 ATTTTAAAAAT
1 ATTTTAAAAAT
33107274 ATAAAGAGCT
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
29 1 0.02
30 31 0.56
31 21 0.38
32 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (29 bp):
ATTTTAAAAATTTTGAGGGATTAATTAAA
Found at i:33116105 original size:36 final size:36
Alignment explanation
Indices: 33116063--33116137 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
33116053 AATGAAAGTT
* *
33116063 AAAAGAACATAATAGAATTAAATTGCTCAAAATGAA
1 AAAAGAACATAAAAGAATTAAATTGCTCAAAACGAA
33116099 AAAAGAACATAAAAGAATTAAATTGCTCAAAACGAA
1 AAAAGAACATAAAAGAATTAAATTGCTCAAAACGAA
33116135 AAA
1 AAA
33116138 TTATGGGGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.19
Consensus pattern (36 bp):
AAAAGAACATAAAAGAATTAAATTGCTCAAAACGAA
Found at i:33121581 original size:1 final size:1
Alignment explanation
Indices: 33121575--33121601 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
33121565 TTGAAGGGTC
33121575 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
33121602 GAGCTTTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:33130603 original size:13 final size:13
Alignment explanation
Indices: 33130585--33130609 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33130575 ATAAGTAACA
33130585 TTAATTAATTAAT
1 TTAATTAATTAAT
33130598 TTAATTAATTAA
1 TTAATTAATTAA
33130610 AATTTGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTAATTAATTAAT
Found at i:33132214 original size:20 final size:19
Alignment explanation
Indices: 33132168--33132219 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
33132158 TTTAAAATTA
33132168 ATTTGTTAGT-AA-TTTAGG
1 ATTTGTTA-TAAATTTTAGG
33132186 ATTTGTTATAAATTTTAGG
1 ATTTGTTATAAATTTTAGG
33132205 ATTATGTTATAAATT
1 ATT-TGTTATAAATT
33132220 GTTGTGTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.03
18 10 0.32
19 9 0.29
20 11 0.35
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (19 bp):
ATTTGTTATAAATTTTAGG
Found at i:33132709 original size:102 final size:100
Alignment explanation
Indices: 33132483--33132770 Score: 388
Period size: 103 Copynumber: 2.8 Consensus size: 100
33132473 TTATAGTTAT
* *
33132483 TTATTTTATTAGTAATTTATGGGATTAGGT-TACAAATTGTTAGT-TTTTAGTATAGGGTTTTGT
1 TTATTTTGTTAGTAATTTAT--GATTAGGTATA-AAATTGTTAGTGTTTT-GTATAGTGTTTTGT
*
33132546 GGTTTTTTAGTAATGTAACTTTTTTTAAATAATTTTATAG
62 GATTTTTTAGTAATGTAA-TTTTTTTAAATAATTTTATAG
*
33132586 TTATTCTGTTAGTAATTTATGATTAGGTGATATAAATTGTTAGTGTTTTGTGAT-GTGTTTTGTG
1 TTATTTTGTTAGTAATTTATGATTAGGT-ATA-AAATTGTTAGTGTTTTGT-ATAGTGTTTTGTG
*
33132650 ATTTTTTAGTAATGTATTTTTTTTAAATAATTTTATAG
63 ATTTTTTAGTAATGTAATTTTTTTAAATAATTTTATAG
* * *
33132688 TTATTTTGTTAGTAATTTATGATTAGGTTATAAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGCT
1 TTATTTTGTTAGTAATTTATGATTAGG-TATAAAATTGTTAGTGTTTTGTATAGTGTTTTGTGAT
33132753 TTTTT--TAATGTAATTTTT
65 TTTTTAGTAATGTAATTTTT
33132771 ATATAATGTA
Statistics
Matches: 168, Mismatches: 11, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
99 12 0.07
100 1 0.01
101 41 0.24
102 50 0.30
103 58 0.35
104 6 0.04
ACGTcount: A:0.25, C:0.01, G:0.17, T:0.56
Consensus pattern (100 bp):
TTATTTTGTTAGTAATTTATGATTAGGTATAAAATTGTTAGTGTTTTGTATAGTGTTTTGTGATT
TTTTAGTAATGTAATTTTTTTAAATAATTTTATAG
Found at i:33137634 original size:20 final size:20
Alignment explanation
Indices: 33137609--33137646 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
33137599 TTATAATATC
*
33137609 AACTCAATCCAATAACCCTA
1 AACTCAACCCAATAACCCTA
33137629 AACTCAACCCAATAACCC
1 AACTCAACCCAATAACCC
33137647 AATATCAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (20 bp):
AACTCAACCCAATAACCCTA
Found at i:33146100 original size:31 final size:31
Alignment explanation
Indices: 33146015--33146089 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 31
33146005 TACAATTTGA
* * * *
33146015 TCATTTAATTATTTGAATGTTTTTATTTAAG
1 TCATTGAACTATTTAAAAGTTTTTATTTAAG
33146046 TCATTGAACTATTTAAAAGTTTTTATTTAAG
1 TCATTGAACTATTTAAAAGTTTTTATTTAAG
33146077 TCATTTG-ACTATT
1 TCA-TTGAACTATT
33146090 AAGTTTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 36 0.92
32 3 0.08
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.53
Consensus pattern (31 bp):
TCATTGAACTATTTAAAAGTTTTTATTTAAG
Found at i:33147489 original size:29 final size:30
Alignment explanation
Indices: 33147456--33147525 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
33147446 TTAAAATTTT
* *
33147456 AGAATTTAGTTTATGTATTTTT-AT-TTTCA
1 AGAATTTAGTTT-TCTATTTTTCATATTACA
33147485 AGAATTTAGTCTTTCTATTTTTCATATTACA
1 AGAATTTAGT-TTTCTATTTTTCATATTACA
33147516 A-AATTTAGTT
1 AGAATTTAGTT
33147526 CCAATTGTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
29 19 0.53
30 12 0.33
31 5 0.14
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.54
Consensus pattern (30 bp):
AGAATTTAGTTTTCTATTTTTCATATTACA
Found at i:33147725 original size:30 final size:30
Alignment explanation
Indices: 33147672--33147743 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 30
33147662 AATAACAGCC
* *
33147672 GGACTTAAATT-TTGAAATTTAAAAAGTA-GA
1 GGAC-TAAATTCTTGAAATAT-AAAAGTACAA
33147702 GAGACTAAATTCTTGAAA-ATAAAAGTACAA
1 G-GACTAAATTCTTGAAATATAAAAGTACAA
33147732 GGACTAAATTCT
1 GGACTAAATTCT
33147744 AAATTTTTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
29 18 0.49
30 10 0.27
31 9 0.24
ACGTcount: A:0.47, C:0.08, G:0.15, T:0.29
Consensus pattern (30 bp):
GGACTAAATTCTTGAAATATAAAAGTACAA
Found at i:33156762 original size:3 final size:3
Alignment explanation
Indices: 33156754--33156790 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
33156744 TTAAAAACCG
33156754 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
33156791 TTTTCTTTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:33159601 original size:13 final size:13
Alignment explanation
Indices: 33159583--33159610 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
33159573 ACATAAAAAT
33159583 AATAAAAGGGGTA
1 AATAAAAGGGGTA
33159596 AATAAAAGGGGTA
1 AATAAAAGGGGTA
33159609 AA
1 AA
33159611 AATATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.29, T:0.14
Consensus pattern (13 bp):
AATAAAAGGGGTA
Found at i:33160651 original size:12 final size:12
Alignment explanation
Indices: 33160636--33160660 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33160626 TATTACAGAA
33160636 TATTCATTTTTG
1 TATTCATTTTTG
33160648 TATTCATTTTTG
1 TATTCATTTTTG
33160660 T
1 T
33160661 TGTTTCTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (12 bp):
TATTCATTTTTG
Found at i:33165025 original size:14 final size:15
Alignment explanation
Indices: 33164982--33165027 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
33164972 ATTATATTTG
*
33164982 ATTTTAATTTAAGTAA
1 ATTTTAATTT-ATTAA
*
33164998 A-TTTAATTTTTTAA
1 ATTTTAATTTATTAA
33165012 ATTTTAA-TTATTAA
1 ATTTTAATTTATTAA
33165026 AT
1 AT
33165028 CAAATCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 12 0.46
15 13 0.50
16 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
ATTTTAATTTATTAA
Found at i:33166534 original size:25 final size:25
Alignment explanation
Indices: 33166487--33166571 Score: 81
Period size: 25 Copynumber: 3.6 Consensus size: 25
33166477 ATTTATTTAT
33166487 TTATTTATTTTAAA--CTT-TA-TA
1 TTATTTATTTTAAATTCTTCTATTA
*
33166508 TTATTTATTTTAAATTGTTCTATTA
1 TTATTTATTTTAAATTCTTCTATTA
* *
33166533 TTATTTATTTTAAGTTTTTC-ATATA
1 TTATTTATTTTAAATTCTTCTAT-TA
**
33166558 TTATCCATTTTAAA
1 TTATTTATTTTAAA
33166572 CTATTATATG
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.26
23 2 0.04
24 4 0.08
25 33 0.62
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (25 bp):
TTATTTATTTTAAATTCTTCTATTA
Found at i:33168546 original size:21 final size:21
Alignment explanation
Indices: 33168521--33168566 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 21
33168511 CTTTTTAATT
33168521 AAAATTTA-TAAAAATTATACA
1 AAAATTTAGTAAAAATTATA-A
33168542 AAAATTTAGTTAAAAATTATAA
1 AAAATTTAG-TAAAAATTATAA
33168564 AAA
1 AAA
33168567 TAAAAAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.35
22 4 0.17
23 11 0.48
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAATTTAGTAAAAATTATAA
Found at i:33169848 original size:14 final size:14
Alignment explanation
Indices: 33169812--33169845 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
33169802 TCATCATTTA
33169812 CCTATAACCAAAAC
1 CCTATAACCAAAAC
33169826 CCTATAACCAAAAC
1 CCTATAACCAAAAC
33169840 CC-ATAA
1 CCTATAA
33169846 ACCCATACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (14 bp):
CCTATAACCAAAAC
Found at i:33172914 original size:94 final size:95
Alignment explanation
Indices: 33172753--33172941 Score: 371
Period size: 94 Copynumber: 2.0 Consensus size: 95
33172743 ATATCTCACA
33172753 TAAAATTTTTCAATTTAAGAAATTCTAAATAGCTTATGTAAATAGTGAAAAAAATGGACACTTAT
1 TAAAATTTTTCAATTTAAGAAATTCTAAATAGCTTATGTAAATAGTGAAAAAAATGGACACTTAT
33172818 TTATACTTTATAGTGTAAG-GATTCGCTTT
66 TTATACTTTATAGTGTAAGTGATTCGCTTT
33172847 TAAAATTTTTCAATTTAAGAAATTCTAAATAGCTTATGTAAATAGTGAAAAAAATGGACACTTAT
1 TAAAATTTTTCAATTTAAGAAATTCTAAATAGCTTATGTAAATAGTGAAAAAAATGGACACTTAT
33172912 TTATACTTTATAGTGTAAGTGATTCGCTTT
66 TTATACTTTATAGTGTAAGTGATTCGCTTT
33172942 CATATCATAT
Statistics
Matches: 94, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
94 84 0.89
95 10 0.11
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (95 bp):
TAAAATTTTTCAATTTAAGAAATTCTAAATAGCTTATGTAAATAGTGAAAAAAATGGACACTTAT
TTATACTTTATAGTGTAAGTGATTCGCTTT
Found at i:33181725 original size:21 final size:20
Alignment explanation
Indices: 33181701--33181756 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
33181691 ATAAAGTCGT
33181701 AAGAAAGTTATAAAAAGTGTA
1 AAGAAA-TTATAAAAAGTGTA
**
33181722 AAGAAA-TATAAAATTTGTA
1 AAGAAATTATAAAAAGTGTA
*
33181741 TAAAAAATTATAAAAA
1 -AAGAAATTATAAAAA
33181757 CTATTGTACC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 11 0.38
20 5 0.17
21 13 0.45
ACGTcount: A:0.62, C:0.00, G:0.11, T:0.27
Consensus pattern (20 bp):
AAGAAATTATAAAAAGTGTA
Found at i:33182066 original size:19 final size:21
Alignment explanation
Indices: 33182025--33182074 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
33182015 TACATATTTC
*
33182025 TAATTTTTAATAAAATTTAAA
1 TAATTTTTATTAAAATTTAAA
33182046 T-ATTTTTATTAAAATTT-AA
1 TAATTTTTATTAAAATTTAAA
33182065 TAATTTTTAT
1 TAATTTTTAT
33182075 AACTTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 3 0.11
20 23 0.85
21 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TAATTTTTATTAAAATTTAAA
Found at i:33182448 original size:4 final size:4
Alignment explanation
Indices: 33182441--33182466 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
33182431 GAAGGGAGGG
33182441 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
33182467 ACTTTGGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:33191181 original size:45 final size:45
Alignment explanation
Indices: 33191125--33191275 Score: 214
Period size: 45 Copynumber: 3.3 Consensus size: 45
33191115 CCAGTATACA
* *
33191125 GTAATCAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCT
1 GTAA-CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAACCT
**
33191171 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG-AGTT
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAACCT
* * *
33191215 GGTAACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCA
1 -GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAACCT
33191261 GTAACAGTAACAGTA
1 GTAACAGTAACAGTA
33191276 GTCGGCACAT
Statistics
Matches: 94, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
44 2 0.02
45 87 0.93
46 5 0.05
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.20
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAACCT
Found at i:33191299 original size:38 final size:39
Alignment explanation
Indices: 33191127--33191302 Score: 140
Period size: 45 Copynumber: 4.2 Consensus size: 39
33191117 AGTATACAGT
* * *
33191127 AATCAGTAACAGTAACAGTATTCAACACACAAAGTGCTG
1 AATCAGTAACAGTAACAGTAGTCGACACACAAAGTGCCG
*
33191166 AACCTGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 AA----T--CAGTAACAGTAACAGTAGTCGACACACAAAGTGCCG
* * *
33191211 AGTTGGTAACGGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 A------ATCAGTAACAGTAACAGTAGTCGACACACAAAGTGCCG
* *
33191256 AATCAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTG
1 AATCAGTAACAGTAACAGTAGTCGACACACAAAGTGCC-G
33191295 -ATCAGTAA
1 AATCAGTAA
33191303 GCCGGCAAAT
Statistics
Matches: 115, Mismatches: 9, Indels: 27
0.76 0.06 0.18
Matches are distributed among these distances:
38 15 0.13
39 27 0.23
43 1 0.01
45 71 0.62
51 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (39 bp):
AATCAGTAACAGTAACAGTAGTCGACACACAAAGTGCCG
Found at i:33191563 original size:39 final size:40
Alignment explanation
Indices: 33191477--33191564 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 40
33191467 AATTCTTTAC
* *
33191477 TTCAGTAATTTCACAATTCAATGCATTATGCATAACAATA
1 TTCAGTATTTTCACAATTCAATGCATAATGCATAACAATA
*
33191517 TTCAGTATTTTCACAATTCACT-CAGTAAT-CA-AGACAATA
1 TTCAGTATTTTCACAATTCAATGCA-TAATGCATA-ACAATA
33191556 TTCAGTATT
1 TTCAGTATT
33191565 CCATAATTCG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 1 0.02
39 19 0.44
40 23 0.53
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (40 bp):
TTCAGTATTTTCACAATTCAATGCATAATGCATAACAATA
Found at i:33192299 original size:11 final size:11
Alignment explanation
Indices: 33192285--33192310 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33192275 CTTTTTCTTC
33192285 TTTCTCCCCTG
1 TTTCTCCCCTG
33192296 TTTCTCCCCTG
1 TTTCTCCCCTG
33192307 TTTC
1 TTTC
33192311 GTCTCTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:33203603 original size:31 final size:30
Alignment explanation
Indices: 33203568--33203666 Score: 89
Period size: 31 Copynumber: 3.3 Consensus size: 30
33203558 TTAATATACC
*
33203568 ATTTGGTACCTGAGTTTGGCTTCAATATTCA
1 ATTTGGTACCTGAATTT-GCTTCAATATTCA
* * * *
33203599 ATTTGGTACATGAATTT--TT--TTGTCCCA
1 ATTTGGTACCTGAATTTGCTTCAATAT-TCA
*
33203626 ATTTAGTACCTGAATTTAGCTTCAATATTCA
1 ATTTGGTACCTGAATTT-GCTTCAATATTCA
33203657 ATTTGGTACC
1 ATTTGGTACC
33203667 CAGACTAAAC
Statistics
Matches: 51, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
26 2 0.04
27 17 0.33
28 2 0.04
30 2 0.04
31 26 0.51
32 2 0.04
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.43
Consensus pattern (30 bp):
ATTTGGTACCTGAATTTGCTTCAATATTCA
Found at i:33209928 original size:28 final size:28
Alignment explanation
Indices: 33209874--33209958 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 28
33209864 ATTAAATGCA
*
33209874 TAAATTGGTATTTAAATTATATTTTTTT
1 TAAATTGATATTTAAATTATATTTTTTT
* *
33209902 TAAATTGATATTT-AATTTTTTTCTTTTT
1 TAAATTGATATTTAAATTATATT-TTTTT
*
33209930 TACATAAGTGATATTTAAATTAT-TTTTTT
1 T--A-AATTGATATTTAAATTATATTTTTT
33209959 CCTAAGTTGG
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
27 7 0.15
28 18 0.38
30 5 0.11
31 12 0.26
32 5 0.11
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (28 bp):
TAAATTGATATTTAAATTATATTTTTTT
Found at i:33212144 original size:3 final size:3
Alignment explanation
Indices: 33212136--33212167 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
33212126 CATGTGATGT
*
33212136 TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
33212168 GGTTGAGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:33212483 original size:17 final size:17
Alignment explanation
Indices: 33212450--33212483 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33212440 TATAAGGACT
**
33212450 AATTTTTAACATTATGA
1 AATTTTTAACAAAATGA
33212467 AATTTTTAACAAAATGA
1 AATTTTTAACAAAATGA
33212484 CCCATTTAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (17 bp):
AATTTTTAACAAAATGA
Found at i:33219668 original size:43 final size:43
Alignment explanation
Indices: 33219607--33219695 Score: 160
Period size: 43 Copynumber: 2.1 Consensus size: 43
33219597 ACATGACTAC
*
33219607 CAAGTAAATTTTTTTTTTCAAAATGTCAGACCAATAAATTTAA
1 CAAGTAAATTTTTTTTTTCAAAATGTCAGACCAACAAATTTAA
*
33219650 CAAGTAAGTTTTTTTTTTCAAAATGTCAGACCAACAAATTTAA
1 CAAGTAAATTTTTTTTTTCAAAATGTCAGACCAACAAATTTAA
33219693 CAA
1 CAA
33219696 AAAAATACTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (43 bp):
CAAGTAAATTTTTTTTTTCAAAATGTCAGACCAACAAATTTAA
Found at i:33219906 original size:14 final size:16
Alignment explanation
Indices: 33219887--33219922 Score: 58
Period size: 14 Copynumber: 2.4 Consensus size: 16
33219877 ATAACAAGGC
33219887 AATATATATGG-AA-A
1 AATATATATGGTAACA
33219901 AATATATATGGTAACA
1 AATATATATGGTAACA
33219917 AATATA
1 AATATA
33219923 GGGTAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.55
15 2 0.10
16 7 0.35
ACGTcount: A:0.56, C:0.03, G:0.11, T:0.31
Consensus pattern (16 bp):
AATATATATGGTAACA
Found at i:33219944 original size:17 final size:17
Alignment explanation
Indices: 33219918--33219952 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
33219908 ATGGTAACAA
*
33219918 ATATAGGGTAAAATATT
1 ATATAAGGTAAAATATT
*
33219935 ATATAAGGTAATATATT
1 ATATAAGGTAAAATATT
33219952 A
1 A
33219953 GAATATATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (17 bp):
ATATAAGGTAAAATATT
Found at i:33219971 original size:14 final size:14
Alignment explanation
Indices: 33219887--33219974 Score: 53
Period size: 14 Copynumber: 6.5 Consensus size: 14
33219877 ATAACAAGGC
33219887 AATATATATGGA-AA
1 AATATATAT-GATAA
*
33219901 AATATATATGGTAA
1 AATATATATGATAA
* *
33219915 CAA-ATATAGGGTAA
1 -AATATATATGATAA
33219929 AATAT-TAT-ATAA
1 AATATATATGATAA
** *
33219941 GGTA-ATAT-ATTAG
1 AATATATATGA-TAA
33219954 AATATATATGATAA
1 AATATATATGATAA
33219968 AATATAT
1 AATATAT
33219975 TTATCATTTA
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
12 9 0.16
13 9 0.16
14 36 0.63
15 3 0.05
ACGTcount: A:0.52, C:0.01, G:0.12, T:0.34
Consensus pattern (14 bp):
AATATATATGATAA
Done.