Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 207 of 213
Found at i:61962548 original size:19 final size:19
Alignment explanation
Indices: 61962532--61962568 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
61962522 AATTTTTTAT
61962532 TAAAATTTAATAATTTTTC
1 TAAAATTTAATAATTTTTC
61962551 TAAAATTTAATAATTTTT
1 TAAAATTTAATAATTTTT
61962569 ATAATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TAAAATTTAATAATTTTTC
Found at i:61962735 original size:86 final size:87
Alignment explanation
Indices: 61962590--61962767 Score: 256
Period size: 86 Copynumber: 2.1 Consensus size: 87
61962580 TAATTTTTGC
* * *
61962590 TTTTTTGAAAATTTTTGAGGGTCATTTTAATGCATTTTGAAAGTTCAAGTATCCAATTGAGTGAA
1 TTTTTTGAAAATATTTGAGGGTCATTTTAATGCATTTTGAAACTTCAAGTATCCAATTGAGTAAA
61962655 AAAAAAGTAGGGGCTTAATT-AT
66 AAAAAAG-AGGGGCTTAATTGAT
* *
61962677 TTTTTTGAAGAA-ATTTGAGGGTC-TTTTGATGTATTTTGAAACTTCAAGTGAT-CAATTGAGTA
1 TTTTTTGAA-AATATTTGAGGGTCATTTTAATGCATTTTGAAACTTCAAGT-ATCCAATTGAGTA
61962739 AAAAAAAAGAGGGGCTTAATTGAT
64 AAAAAAAAGAGGGGCTTAATTGAT
61962763 TTTTT
1 TTTTT
61962768 ATTAAAAAGT
Statistics
Matches: 83, Mismatches: 5, Indels: 7
0.87 0.05 0.07
Matches are distributed among these distances:
85 12 0.14
86 48 0.58
87 21 0.25
88 2 0.02
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (87 bp):
TTTTTTGAAAATATTTGAGGGTCATTTTAATGCATTTTGAAACTTCAAGTATCCAATTGAGTAAA
AAAAAAGAGGGGCTTAATTGAT
Found at i:61962789 original size:86 final size:86
Alignment explanation
Indices: 61962590--61962790 Score: 241
Period size: 86 Copynumber: 2.3 Consensus size: 86
61962580 TAATTTTTGC
* * * *
61962590 TTTTTTGAA-AATTTTTGAGGGTCATTTTAATGCATTTTGAAAGTTCAAGTATCCAATTGAGTGA
1 TTTTTTGAAGAA-ATTTGAGGGAC-TTTTAATGCATTTTGAAACTTCAAGTATCCAATTGAGTAA
61962654 AAAAAAAGTAGGGGCTTAATTAT
64 AAAAAAAGTAGGGGCTTAATTAT
* * *
61962677 TTTTTTGAAGAAATTTGAGGGTCTTTTGATGTATTTTGAAACTTCAAGTGAT-CAATTGAGTAAA
1 TTTTTTGAAGAAATTTGAGGGACTTTTAATGCATTTTGAAACTTCAAGT-ATCCAATTGAGTAAA
61962741 AAAAAAG-AGGGGCTTAATTGAT
65 AAAAAAGTAGGGGCTTAATT-AT
*
61962763 TTTTTATTAA-AAAGTTTGA-GGACTTTTA
1 TTTTT-TGAAGAAA-TTTGAGGGACTTTTA
61962791 TAACTTTAAA
Statistics
Matches: 101, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
85 12 0.12
86 58 0.57
87 29 0.29
88 2 0.02
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (86 bp):
TTTTTTGAAGAAATTTGAGGGACTTTTAATGCATTTTGAAACTTCAAGTATCCAATTGAGTAAAA
AAAAAGTAGGGGCTTAATTAT
Found at i:61969961 original size:77 final size:76
Alignment explanation
Indices: 61969814--61969961 Score: 174
Period size: 77 Copynumber: 1.9 Consensus size: 76
61969804 TTCAGCTATA
* * *
61969814 TTTGATGTTATACTTTTTGTGCAAACATTTTCCCTGATTGTTTTGTAAATAAAATGAAAACTTAA
1 TTTGATGTTAGACTTTTTGTGCAAACAATTTCCCTGATTGTTTTGTAAAGAAAATGAAAACTTAA
61969879 ACTCTTCTGTG
66 ACTCTTCTGTG
* ** * *
61969890 TTTGATGTTAGATTTTTTGTGCAAACAAAATTT-CCTGGATTG-TTTGTACGGGAAATGAGAACT
1 TTTGATGTTAGACTTTTTGTGCAAAC--AATTTCCCT-GATTGTTTTGTAAAGAAAATGAAAACT
*
61969953 TGAACTCTT
63 TAAACTCTT
61969962 ATTCTTTTCC
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
76 24 0.40
77 27 0.45
78 9 0.15
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (76 bp):
TTTGATGTTAGACTTTTTGTGCAAACAATTTCCCTGATTGTTTTGTAAAGAAAATGAAAACTTAA
ACTCTTCTGTG
Found at i:61973212 original size:18 final size:18
Alignment explanation
Indices: 61973189--61973223 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
61973179 AGCAGCAGCA
*
61973189 GAACCTGTTAAAGAATCT
1 GAACCTGATAAAGAATCT
*
61973207 GAACCTGATGAAGAATC
1 GAACCTGATAAAGAATC
61973224 AGAGCCTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (18 bp):
GAACCTGATAAAGAATCT
Found at i:61974501 original size:3 final size:3
Alignment explanation
Indices: 61974493--61974532 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
61974483 GTAAGATATA
*
61974493 TGG TGG TGG TGG TGG TGG TGC TGG TGG TGG ATGG -GG TGG T
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG -TGG TGG TGG T
61974533 AGAGGTGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.03, C:0.03, G:0.62, T:0.33
Consensus pattern (3 bp):
TGG
Found at i:61986567 original size:15 final size:15
Alignment explanation
Indices: 61986549--61986578 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
61986539 TAAATTAATC
61986549 AAATTAATACTATTT
1 AAATTAATACTATTT
61986564 AAATTAATACTATTT
1 AAATTAATACTATTT
61986579 GATAAGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATTAATACTATTT
Found at i:61993652 original size:16 final size:19
Alignment explanation
Indices: 61993626--61993663 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
61993616 TTAGACCCAC
61993626 TTTTATTATTTT-TTTA-A
1 TTTTATTATTTTATTTATA
61993643 TTTT-TTATTTTATTTATA
1 TTTTATTATTTTATTTATA
61993661 TTT
1 TTT
61993664 AGTATTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 8 0.42
18 4 0.21
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTATTATTTTATTTATA
Found at i:62002014 original size:30 final size:30
Alignment explanation
Indices: 62001973--62002037 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
62001963 TAGCAAAAAA
*
62001973 CTCTAAAATTTCTCCCTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
*
62002003 CTCTCAAATTTCTCCTTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
62002033 CTCTC
1 CTCTC
62002038 TTTAATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.38
Consensus pattern (30 bp):
CTCTCAAATTTCTCCCTAAATTTCTCAAAG
Found at i:62003814 original size:18 final size:18
Alignment explanation
Indices: 62003791--62003832 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
62003781 GCCAAGTGCA
* *
62003791 TATCCTAGCCCTTATATG
1 TATCCTAACCATTATATG
62003809 TATCCTAACCATTATATG
1 TATCCTAACCATTATATG
*
62003827 TTTCCT
1 TATCCT
62003833 CTTCCCAGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.24, C:0.26, G:0.07, T:0.43
Consensus pattern (18 bp):
TATCCTAACCATTATATG
Found at i:62007491 original size:126 final size:126
Alignment explanation
Indices: 62007267--62007784 Score: 751
Period size: 126 Copynumber: 4.1 Consensus size: 126
62007257 GGCCAAACAT
* *
62007267 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGC-TTTTTCAGTAATTTTGCTGATAATACATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATC
62007331 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAA
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAA
* *
62007392 GAACTACTGTAGAAAAATAGCGTCCACGTGGGAGCTTTTTTCA-TAAATTTTGCTGACAGTGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGT-AATTTTGCTGACAATGCAT
* * * * * *
62007456 CTTGCTTGAAGCGTTTTTGACACTGTTTGTTCAGAAACGTCTTCTCAAAA-AAATTTTT-AG
65 CCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAA
* ** * *
62007516 GAACTATTGTAGAAAAAGAGAATCCACGTGGGAGCTTTTTTCATTAATTTTGCTTACAATGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATC
* * * *
62007581 CTGTTTGAAGCGTTTTTGACACTATTTGTTCAG-AACTGTCTTCTCAAAATTATTTTTTTAG
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAAC-GTCTTCTCAAAATTATTTTTTCAA
* * *
62007642 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAG-TTCTTTTCAGTAATATTGTTGACAGTGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTT-TTTTCAGTAATTTTGCTGACAATGCAT
* *
62007706 CCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTCTCAA
65 CCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAA
62007768 GAACTACTGTAGAAAAA
1 GAACTACTGTAGAAAAA
62007785 AAACCAAAAT
Statistics
Matches: 350, Mismatches: 35, Indels: 15
0.88 0.09 0.04
Matches are distributed among these distances:
123 3 0.01
124 100 0.29
125 50 0.14
126 195 0.56
127 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATC
CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAA
Found at i:62007714 original size:250 final size:251
Alignment explanation
Indices: 62007267--62007784 Score: 776
Period size: 250 Copynumber: 2.1 Consensus size: 251
62007257 GGCCAAACAT
** *
62007267 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTCAGTAATTTTGCTGATAATACATCC
1 GAACTACTGTAGAAAAAGAGAATCCACGTGGGAGCTTTTTCAGTAATTTTGCTGACAATACATCC
62007332 TGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAGAACT
66 TGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAGAACT
* * *
62007397 ACTGTAGAAAAATAGCGTCCACGTGGGAGCTTTTTTCATAAATTTTGCTGACAGTGCATCTTGCT
131 ACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATAAATATTGCTGACAGTGCATCCTGCT
* * *
62007462 TGAAGCGTTTTTGACACTGTTTGTTCAGAAACGTCTTCTCAAAAAAATTTT-T-AG
196 TGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAAAAATTTTCTCAA
* * * *
62007516 GAACTATTGTAGAAAAAGAGAATCCACGTGGGAGCTTTTTTCATTAATTTTGCTTACAATGCATC
1 GAACTACTGTAGAAAAAGAGAATCCACGTGGGAGC-TTTTTCAGTAATTTTGCTGACAATACATC
* * * *
62007581 CTGTTTGAAGCGTTTTTGACACTATTTGTTCAG-AACTGTCTTCTCAAAATTATTTTTTTAGGAA
65 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAAC-GTCTTCTCAAAATTATTTTTTCAAGAA
*
62007645 CTACTGTAGAAAAAGAGCGTCCACGTGGGAG-TTCTTTTCAGT-AATATTGTTGACAGTGCATCC
129 CTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTT-TTTTCA-TAAATATTGCTGACAGTGCATCC
* **
62007708 TGCTTGAAGCATTTTTGACACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTCTCAA
192 TGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAAAAATTTTCTCAA
62007768 GAACTACTGTAGAAAAA
1 GAACTACTGTAGAAAAA
62007785 AAACCAAAAT
Statistics
Matches: 241, Mismatches: 22, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
249 37 0.15
250 185 0.77
251 2 0.01
252 17 0.07
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (251 bp):
GAACTACTGTAGAAAAAGAGAATCCACGTGGGAGCTTTTTCAGTAATTTTGCTGACAATACATCC
TGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAGAACT
ACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATAAATATTGCTGACAGTGCATCCTGCT
TGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAAAAATTTTCTCAA
Found at i:62007888 original size:34 final size:33
Alignment explanation
Indices: 62007846--62007957 Score: 127
Period size: 34 Copynumber: 3.4 Consensus size: 33
62007836 CACAATATTT
*
62007846 TTTTTTAAAAAAACTAAACTCAAATTTAATTAA
1 TTTTTTAAAAAAACTAAACCCAAATTTAATTAA
* * *
62007879 TTTTCTTAAAAACACTAAACCCAAGTTTAATTTA
1 TTTT-TTAAAAAAACTAAACCCAAATTTAATTAA
*** *
62007913 TTTATTTAAAACCCCTAAACCCTAATTTAATTAA
1 TTT-TTTAAAAAAACTAAACCCAAATTTAATTAA
62007947 -TTTTTAAAAAA
1 TTTTTTAAAAAA
62007958 GAACATTAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
32 7 0.11
33 6 0.09
34 52 0.79
35 1 0.02
ACGTcount: A:0.46, C:0.14, G:0.01, T:0.39
Consensus pattern (33 bp):
TTTTTTAAAAAAACTAAACCCAAATTTAATTAA
Found at i:62008032 original size:21 final size:21
Alignment explanation
Indices: 62008007--62008072 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
62007997 CCTAGCACCT
62008007 TAAATTATTTTAACAAAACCC
1 TAAATTATTTTAACAAAACCC
** *** **
62008028 TAAATCCTACAAACCTAACCC
1 TAAATTATTTTAACAAAACCC
*
62008049 TAAATTATTTTAACAAAACAC
1 TAAATTATTTTAACAAAACCC
62008070 TAA
1 TAA
62008073 CCCTAAAAAC
Statistics
Matches: 30, Mismatches: 15, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAATTATTTTAACAAAACCC
Found at i:62008087 original size:15 final size:15
Alignment explanation
Indices: 62008063--62008101 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
62008053 TTATTTTAAC
* * *
62008063 AAAACACTAACCCTA
1 AAAACCCTAAACCAA
62008078 AAAACCCTAAACCAA
1 AAAACCCTAAACCAA
62008093 AAAACCCTA
1 AAAACCCTA
62008102 GGGACTAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.56, C:0.33, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAACCCTAAACCAA
Found at i:62008087 original size:42 final size:42
Alignment explanation
Indices: 62007993--62008083 Score: 121
Period size: 42 Copynumber: 2.1 Consensus size: 42
62007983 AAAAATTCTT
* * *
62007993 AAAACCTAGCACCTTAAATTATTTTAACAAAACCCTAAATCCTA
1 AAAACCTA--ACCCTAAATTATTTTAACAAAACACTAAACCCTA
*
62008037 CAAACCTAACCCTAAATTATTTTAACAAAACACT-AACCCTA
1 AAAACCTAACCCTAAATTATTTTAACAAAACACTAAACCCTA
62008078 AAAACC
1 AAAACC
62008084 CTAAACCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
41 11 0.26
42 24 0.57
44 7 0.17
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.24
Consensus pattern (42 bp):
AAAACCTAACCCTAAATTATTTTAACAAAACACTAAACCCTA
Found at i:62013237 original size:11 final size:11
Alignment explanation
Indices: 62013223--62013251 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
62013213 ATAAAAAATT
62013223 AAAAATTAGAA
1 AAAAATTAGAA
62013234 AAAAATTAGAA
1 AAAAATTAGAA
62013245 AAAAATT
1 AAAAATT
62013252 TATAAAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (11 bp):
AAAAATTAGAA
Found at i:62013275 original size:19 final size:18
Alignment explanation
Indices: 62013245--62013318 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 18
62013235 AAAATTAGAA
62013245 AAAAATTTATAAAAATCGT
1 AAAAA-TTATAAAAATCGT
62013264 AATAAATTATAAAAAAT-GT
1 AA-AAATTAT-AAAAATCGT
* *
62013283 AAAGAAATATAAAATTCGT
1 AAA-AATTATAAAAATCGT
62013302 AAAAAAATTATAAAAAT
1 --AAAAATTATAAAAAT
62013319 TATCTTATCC
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
18 6 0.13
19 17 0.38
20 19 0.42
21 3 0.07
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (18 bp):
AAAAATTATAAAAATCGT
Found at i:62013842 original size:4 final size:4
Alignment explanation
Indices: 62013833--62013878 Score: 83
Period size: 4 Copynumber: 11.5 Consensus size: 4
62013823 TCTGAATTCA
*
62013833 TATG TATG TATG TATG TATG CATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA
62013879 ACACTCCCCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.26, C:0.02, G:0.24, T:0.48
Consensus pattern (4 bp):
TATG
Found at i:62014104 original size:12 final size:11
Alignment explanation
Indices: 62014082--62014126 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
62014072 ATTTTTACTA
62014082 TTTTTATAATT
1 TTTTTATAATT
*
62014093 TTTTTATAAAT
1 TTTTTATAATT
* *
62014104 TCTTTACAATT
1 TTTTTATAATT
*
62014115 TTTATATAATT
1 TTTTTATAATT
62014126 T
1 T
62014127 GTGGTTTTTA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:62014205 original size:22 final size:21
Alignment explanation
Indices: 62014162--62014205 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
62014152 TTTTAATAAA
*
62014162 TTTTAAATATTTTTCTAGAAT
1 TTTTAAATATTTTTCTAAAAT
*
62014183 TTTTTAATATTTTTCTACAAAT
1 TTTTAAATATTTTTCTA-AAAT
62014205 T
1 T
62014206 GATTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTAAATATTTTTCTAAAAT
Found at i:62016127 original size:20 final size:21
Alignment explanation
Indices: 62016094--62016132 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
62016084 ATTTAATTTT
*
62016094 TTAATTTATCAAAA-AATACC
1 TTAATTAATCAAAATAATACC
*
62016114 TTAATTAATGAAAATAATA
1 TTAATTAATCAAAATAATA
62016133 ATTAGTTAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.36
Consensus pattern (21 bp):
TTAATTAATCAAAATAATACC
Found at i:62021773 original size:31 final size:31
Alignment explanation
Indices: 62021732--62021797 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 31
62021722 CCCCACTCTC
*
62021732 TTTTTTTTTTATATATAT-TATCAGGGTAAAA
1 TTTTTCTTTTATATATATATATCAGGGT-AAA
*
62021763 TTTTTCTTTTATATATATATATTAGGGTAAA
1 TTTTTCTTTTATATATATATATCAGGGTAAA
62021794 TTTT
1 TTTT
62021798 ATTTATATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 24 0.75
32 8 0.25
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.58
Consensus pattern (31 bp):
TTTTTCTTTTATATATATATATCAGGGTAAA
Found at i:62021802 original size:29 final size:30
Alignment explanation
Indices: 62021733--62021805 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 30
62021723 CCCACTCTCT
62021733 TTTTTTTTTATATATATTATCAGGGTAAAA
1 TTTTTTTTTATATATATTATCAGGGTAAAA
*
62021763 TTTTTCTTTTATATATATATATTAGGGT-AAA
1 TTTTT-TTTTATATATAT-TATCAGGGTAAAA
*
62021794 -TTTTATTTATAT
1 TTTTTTTTTATAT
62021806 GTTTTCAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
29 7 0.18
30 9 0.23
31 15 0.38
32 8 0.21
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.58
Consensus pattern (30 bp):
TTTTTTTTTATATATATTATCAGGGTAAAA
Found at i:62031947 original size:286 final size:285
Alignment explanation
Indices: 62031428--62032005 Score: 1014
Period size: 286 Copynumber: 2.0 Consensus size: 285
62031418 GGTTTTAGTG
*
62031428 GATGCATTACAATAGTGAAATTTATGTTGTTAAAGAAAACACCTAAATAAATTAGTGTTGAAATT
1 GATGCATTACAATAGTGAAATTTATGTTGTTAAAGAAAACACCTAAATAAATTAGTCTTGAAATT
* * *
62031493 TATTTTAACAAATTAGAGTGGTGCAGCGGAAGCGTGGTGGGCCCATAACCCACAGGTCCCAAGAT
66 TATTTTAACAAATCAGAGTGGCGCAGCAGAAGCGTGGTGGGCCCATAACCCACAGGTCCCAAGAT
*
62031558 CAAAACTTGGCTCTGATAATTTTGAGCAAGTTTTTCTTGATTTTTTAAATTCTTATCAAAATGTG
131 CAAAACTTGGCTCTGATAATTTTGAGAAAGTTTTTCTTGATTTTTTAAATTCTTATCAAAATGTG
*
62031623 GGCTGGCTTGATTTTTTAAATCAGAGTTGACAGATAATTAACTTGTGACTATATATATTAATATT
196 AGCTGGCTTGATTTTTTAAATCAGAGTTGACAGATAATTAACTTGTGAC-ATATATATTAATATT
62031688 AATTTGAAAACGAAAAAAAAGTTATA
260 AATTTGAAAACGAAAAAAAAGTTATA
* *
62031714 GATGCATTAGAATAGTGAAATTTATGTTGTTAAAGAAAACACCTAAATAAGTTAGTCTTGAAATT
1 GATGCATTACAATAGTGAAATTTATGTTGTTAAAGAAAACACCTAAATAAATTAGTCTTGAAATT
* *
62031779 TGTTTTAACAAATCAGAGTGGCGCAGTAGAAGCGTGGTGGGCCCATAACCCACAGGTCCCAAGAT
66 TATTTTAACAAATCAGAGTGGCGCAGCAGAAGCGTGGTGGGCCCATAACCCACAGGTCCCAAGAT
* *
62031844 CGAAACTTGGCTCTGATAATTTTGAGAAATTTTTTCTTGATTTTTTAAATTCTTATCAAAATGTG
131 CAAAACTTGGCTCTGATAATTTTGAGAAAGTTTTTCTTGATTTTTTAAATTCTTATCAAAATGTG
**
62031909 AGCTGGCTTGATTTTTTAAATCAGAGTTGATGGATAATTAACTTGTGACATATATATTAATATTA
196 AGCTGGCTTGATTTTTTAAATCAGAGTTGACAGATAATTAACTTGTGACATATATATTAATATTA
62031974 ATTTGAAAACGAAAAAAAAGTTATA
261 ATTTGAAAACGAAAAAAAAGTTATA
62031999 GAT-CATT
1 GATGCATT
62032006 TGGTGAGTAA
Statistics
Matches: 278, Mismatches: 14, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
284 4 0.01
285 44 0.16
286 230 0.83
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (285 bp):
GATGCATTACAATAGTGAAATTTATGTTGTTAAAGAAAACACCTAAATAAATTAGTCTTGAAATT
TATTTTAACAAATCAGAGTGGCGCAGCAGAAGCGTGGTGGGCCCATAACCCACAGGTCCCAAGAT
CAAAACTTGGCTCTGATAATTTTGAGAAAGTTTTTCTTGATTTTTTAAATTCTTATCAAAATGTG
AGCTGGCTTGATTTTTTAAATCAGAGTTGACAGATAATTAACTTGTGACATATATATTAATATTA
ATTTGAAAACGAAAAAAAAGTTATA
Found at i:62032889 original size:249 final size:249
Alignment explanation
Indices: 62032451--62032964 Score: 929
Period size: 249 Copynumber: 2.1 Consensus size: 249
62032441 TGTGGGCTGG
* *
62032451 CTTGATTTTTTAAATCAGAGTTGATGGATAATTAACTTGTGATATATATATTAATATTAATTTGA
1 CTTGATTTTTTAAATTAGAGTTGATGGATAATTAACTTGTGATATATATATGAATATTAATTTGA
*
62032516 AAACGAAAAAAAAGTTATAGATGCATTAGAATAGTGAAATTTATGTTGTTAAAGAAAACACCTAA
66 AAACGAAAAAAAAGTTATAGATGCATTACAATAGTGAAATTTATGTTGTTAAAGAAAACACCTAA
* *
62032581 ATAAGTTAGTCTTGAAATTTATTTTAACAAATCAGAGTGGCGCAGCGGAAGCGTGGTGGGCCCAT
131 ATAAGTTAATCTAGAAATTTATTTTAACAAATCAGAGTGGCGCAGCGGAAGCGTGGTGGGCCCAT
62032646 AACCCACAGGTCCCAAGATCGAAACTTGGCTCTGATAATTTTGAGAAATTTTTT
196 AACCCACAGGTCCCAAGATCGAAACTTGGCTCTGATAATTTTGAGAAATTTTTT
*
62032700 CTTGATTTTTTAAATTAGAGTTGATGGATAATTAACTTGTGATGTATATATGAATATTAATTTGA
1 CTTGATTTTTTAAATTAGAGTTGATGGATAATTAACTTGTGATATATATATGAATATTAATTTGA
*
62032765 AAACGAAAAAAAAGTTATAGATGCATTACAATAGTGAAATTTATGTTGTTAAAGAAAACAGCTAA
66 AAACGAAAAAAAAGTTATAGATGCATTACAATAGTGAAATTTATGTTGTTAAAGAAAACACCTAA
* *
62032830 ATAAGTTAATCTAGAAATTTATTTTAACAGATCAGAGTGGCGCAGCGGAAGCTTGGTGGGCCCAT
131 ATAAGTTAATCTAGAAATTTATTTTAACAAATCAGAGTGGCGCAGCGGAAGCGTGGTGGGCCCAT
* *
62032895 AACCCACAGGTTCCAAGATCGAAACTTGGCTTTGATAATTTTGAGAAATTTTTT
196 AACCCACAGGTCCCAAGATCGAAACTTGGCTCTGATAATTTTGAGAAATTTTTT
62032949 CTTGATTTTTTAAATT
1 CTTGATTTTTTAAATT
62032965 CTTATCAAAA
Statistics
Matches: 254, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
249 254 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (249 bp):
CTTGATTTTTTAAATTAGAGTTGATGGATAATTAACTTGTGATATATATATGAATATTAATTTGA
AAACGAAAAAAAAGTTATAGATGCATTACAATAGTGAAATTTATGTTGTTAAAGAAAACACCTAA
ATAAGTTAATCTAGAAATTTATTTTAACAAATCAGAGTGGCGCAGCGGAAGCGTGGTGGGCCCAT
AACCCACAGGTCCCAAGATCGAAACTTGGCTCTGATAATTTTGAGAAATTTTTT
Found at i:62033397 original size:336 final size:336
Alignment explanation
Indices: 62032784--62033569 Score: 1466
Period size: 336 Copynumber: 2.3 Consensus size: 336
62032774 AAAAGTTATA
* * *
62032784 GATGCATTACAATAGTGAAATTTATGTTGTTAAAGAAAACAGCTAAATAAGTTAATCTAGAAATT
1 GATGCATTACAATAGTGAAATTTATGTTGTTAAAGAAAACACCTAAATAAGTTAGTCTTGAAATT
62032849 TATTTTAACAGATCAGAGTGGCGCAGCGGAAGCTTGGTGGGCCCATAACCCACAGGTTCCAAGAT
66 TATTTTAACAGATCAGAGTGGCGCAGCGGAAGCTTGGTGGGCCCATAACCCACAGGTTCCAAGAT
62032914 CGAAACTTGGCTTTGATAATTTTGAGAAATTTTTTCTTGATTTTTTAAATTCTTATCAAAATGTG
131 CGAAACTTGGCTTTGATAATTTTGAGAAATTTTTTCTTGATTTTTTAAATTCTTATCAAAATGTG
62032979 AGTTGGCTTGATTTTTTAAATCAGAGTTGATGGATAATTAACTTGTGACATATATATTAATATTA
196 AGTTGGCTTGATTTTTTAAATCAGAGTTGATGGATAATTAACTTGTGACATATATATTAATATTA
*
62033044 ATTTGAAAAAGAAAAAAAAGTTATAGATCATTTGGTGAGTAAGAAGGGATGGCAGGTAAGCATCG
261 ATTTGAAAAAGAAAAAAAAGTTATAGATCATTTGGTGAGTAAGAAGGGATGGCAGGTAAACATCG
62033109 AGGTTTTAGTG
326 AGGTTTTAGTG
* *
62033120 GATGCATTACAATAGTGAAATTTATTTTGTTAAAGAAAACACCTAAATAAGTTAGTCTTGAAAAT
1 GATGCATTACAATAGTGAAATTTATGTTGTTAAAGAAAACACCTAAATAAGTTAGTCTTGAAATT
*
62033185 TATTTTAACAGATCAGAGTGGCGCAGCGGAAGCTTGGTGGGCCCATAACCCACAGGTTCTAAGAT
66 TATTTTAACAGATCAGAGTGGCGCAGCGGAAGCTTGGTGGGCCCATAACCCACAGGTTCCAAGAT
62033250 CGAAACTTGGCTTTGATAATTTTGAGAAATTTTTTCTTGATTTTTTAAATTCTTATCAAAATGTG
131 CGAAACTTGGCTTTGATAATTTTGAGAAATTTTTTCTTGATTTTTTAAATTCTTATCAAAATGTG
62033315 AGTTGGCTTGATTTTTTAAATCAGAGTTGATGGATAATTAACTTGTGACATATATATTAATATTA
196 AGTTGGCTTGATTTTTTAAATCAGAGTTGATGGATAATTAACTTGTGACATATATATTAATATTA
62033380 ATTTGAAAAAGAAAAAAAAGTTATAGATCATTTGGTGAGTAAGAAGGGATGGCAGGTAAACATCG
261 ATTTGAAAAAGAAAAAAAAGTTATAGATCATTTGGTGAGTAAGAAGGGATGGCAGGTAAACATCG
62033445 AGGTTTTAGTG
326 AGGTTTTAGTG
*
62033456 GATGCATTACAATAGTGAAATTTATGTTGTTAAAGAAAACACCTAAATAAGTCAGTCTTGAAATT
1 GATGCATTACAATAGTGAAATTTATGTTGTTAAAGAAAACACCTAAATAAGTTAGTCTTGAAATT
* * *
62033521 TATTTTAACAAATCAGAGTGGTGCAGCGGAAGCATGGT-GGCCCATAACC
66 TATTTTAACAGATCAGAGTGGCGCAGCGGAAGCTTGGTGGGCCCATAACC
62033570 TTAAATCAGA
Statistics
Matches: 437, Mismatches: 13, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
335 11 0.03
336 426 0.97
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.33
Consensus pattern (336 bp):
GATGCATTACAATAGTGAAATTTATGTTGTTAAAGAAAACACCTAAATAAGTTAGTCTTGAAATT
TATTTTAACAGATCAGAGTGGCGCAGCGGAAGCTTGGTGGGCCCATAACCCACAGGTTCCAAGAT
CGAAACTTGGCTTTGATAATTTTGAGAAATTTTTTCTTGATTTTTTAAATTCTTATCAAAATGTG
AGTTGGCTTGATTTTTTAAATCAGAGTTGATGGATAATTAACTTGTGACATATATATTAATATTA
ATTTGAAAAAGAAAAAAAAGTTATAGATCATTTGGTGAGTAAGAAGGGATGGCAGGTAAACATCG
AGGTTTTAGTG
Found at i:62034101 original size:278 final size:273
Alignment explanation
Indices: 62033570--62034173 Score: 931
Period size: 278 Copynumber: 2.2 Consensus size: 273
62033560 GCCCATAACC
*
62033570 TTAAATCAGAGTTGATGGATAATTAACTCGTGACATATATATTAATAATAATTTGAAAACGAAAA
1 TTAAATCAGAGTTGATGGATAATTAACTTGTG--A-ATATA-T-AT--TAATTTGAAAACGAAAA
*
62033635 AAAGTTATGCATGACAATAGTGAAATTTATGTTGTTAAAGAAAACACCAAAATAAGTTAGTCTTG
59 AAAGTTATGCATGACAATAGTGAAATTTATGTTGTTAAAGAAAACACCAAAATAAGTTAGTCTTA
* * * * *
62033700 GAATTTATTTTAACAGATCAGAGTGGCGCAGCGGAACCTTGGTGGGCCCATAACCCACAGGTCCC
124 AAATTTATTTTAACAAATCAGAGTGGCACAGCAGAACCGTGGTGGGCCCATAACCCACAGGTCCC
* *
62033765 AAGATCGAAACTTGGCTTTGATAATTTTGAGCAAGTTTTTCTTGATTTTTTAAATTCTTATCAAA
189 AAGATCGAAACTTGGCTCTGATAATTTTGAGAAAGTTTTTCTTGATTTTTTAAATTCTTATCAAA
62033830 ATGTGGGCTGGCTTGATTTT
254 ATGTGGGCTGGCTTGATTTT
62033850 TTAAATCAGAGTTGATGGATAATTAACTTGTG-ATATATATTAATTTGAAAACGAAAAAAAAAGT
1 TTAAATCAGAGTTGATGGATAATTAACTTGTGAATATATATTAATTTGAAAACG--AAAAAAAG-
* * *
62033914 TATAGATGCATTAGAATAGTGAAATTTATGTTGTTAAAGAAAACACCTAAATAAGTTAGTCTTAA
63 T-T--ATGCATGACAATAGTGAAATTTATGTTGTTAAAGAAAACACCAAAATAAGTTAGTCTTAA
*
62033979 AATTTATTTTAACAAATCAGAGTGGCACAGCAGAAGCGTGGTGGGCCCATAACCCACAGGTCCCA
125 AATTTATTTTAACAAATCAGAGTGGCACAGCAGAACCGTGGTGGGCCCATAACCCACAGGTCCCA
* *
62034044 AGATTGAAACTTGGCTCTGATAATTTTGAGAAATTTTTTCTTGATTTTTTAAATTCTTATCAAAA
190 AGATCGAAACTTGGCTCTGATAATTTTGAGAAAGTTTTTCTTGATTTTTTAAATTCTTATCAAAA
62034109 TGTGGGCTGGCTTGATTTT
255 TGTGGGCTGGCTTGATTTT
*
62034128 CTAAATCAGAGTTGATGGATAATTAACTTGTGACATATATATTAAT
1 TTAAATCAGAGTTGATGGATAATTAACTTGTGA-ATATATATTAAT
62034174 ATTAATTTAA
Statistics
Matches: 300, Mismatches: 16, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
272 13 0.04
274 10 0.03
275 2 0.01
276 6 0.02
278 226 0.75
280 43 0.14
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (273 bp):
TTAAATCAGAGTTGATGGATAATTAACTTGTGAATATATATTAATTTGAAAACGAAAAAAAGTTA
TGCATGACAATAGTGAAATTTATGTTGTTAAAGAAAACACCAAAATAAGTTAGTCTTAAAATTTA
TTTTAACAAATCAGAGTGGCACAGCAGAACCGTGGTGGGCCCATAACCCACAGGTCCCAAGATCG
AAACTTGGCTCTGATAATTTTGAGAAAGTTTTTCTTGATTTTTTAAATTCTTATCAAAATGTGGG
CTGGCTTGATTTT
Found at i:62034529 original size:335 final size:335
Alignment explanation
Indices: 62033918--62034629 Score: 1158
Period size: 335 Copynumber: 2.1 Consensus size: 335
62033908 AAAAGTTATA
* *
62033918 GATGCATTAGAATAGTGAAATTTATGTTGTTAAAGAAAACACCTAAATAAGTTAGTCTTAAAATT
1 GATGCATTACAATAGTGAAATTTATGTTGTTAAAGAAAACACCTAAATAAGTTAGACTTAAAATT
* * *
62033983 TATTTTAACAAATCAGAGTGGCACAGCAGAAGCGTGGTGGGCCCATAACCCACAGGTCCCAAGAT
66 TATTTTAACAAATCAGAGCGGCACAGCAAAAGCATGGTGGGCCCATAACCCACAGGTCCCAAGAT
** *
62034048 TGAAACTTGGCTCTGATAATTTTGAGAAATTTTTTCTTGATTTTTTAAATTCTTATCAAAATGTG
131 TGAAACTTGGCTCTGATAATTTTGAGAAAGGTTTTCTTGATTTTTAAAATTCTTATCAAAATGTG
*
62034113 GGCTGGCTTGATTTTCTAAATCAGAGTTGATGGATAATTAACTTGTGACATATATATTAATATTA
196 GGCTGGCTTGATTTTCTAAATCAGAGTTGATGGATAAGTAACTTGTGACATATATATTAATATTA
62034178 ATTTAAAAACGAAAAAAAAATTATAGATCAGTTGGTGAGTAAGAAGGGATGGCAAGTAAGCATCG
261 ATTTAAAAACG-AAAAAAAATTATAGATCAGTTGGTGAGTAAGAAGGGATGGCAAGTAAGCATCG
*
62034243 AGGTTTTAGTG
325 AGGTTTTAGGG
*
62034254 GATGCATTACAATAGTGAAATTTATGTTGTTAAAGAAAACACCTAAATAAGTTAGACTTGAAATT
1 GATGCATTACAATAGTGAAATTTATGTTGTTAAAGAAAACACCTAAATAAGTTAGACTTAAAATT
** *
62034319 TATTTTAACAAATCAGAGCGGCGTTA-CAAAAGCATGGTGGGCCCATAA-CCATAGGTCCCAAGA
66 TATTTTAACAAATCAGAGCGGC-ACAGCAAAAGCATGGTGGGCCCATAACCCACAGGTCCCAAGA
* *
62034382 TTGAAACTTGGCTTTGATAATTTTGAGAAAGGTTTTCTTGATTTTTAAAATTCTTATCCAAATGT
130 TTGAAACTTGGCTCTGATAATTTTGAGAAAGGTTTTCTTGATTTTTAAAATTCTTATCAAAATGT
*
62034447 GGGCTGGCTTGATTTTTTAAATCAGAGTTGATGGATAAGTAACTTGTGACATATATATTAATATT
195 GGGCTGGCTTGATTTTCTAAATCAGAGTTGATGGATAAGTAACTTGTGACATATATATTAATATT
* * * * * *
62034512 AATTTGAAAATGAAAAAAAGTTATAGATCATTTGGTGAGTAAGAAGGGATGGCAGGTGAGCATCG
260 AATTTAAAAACGAAAAAAAATTATAGATCAGTTGGTGAGTAAGAAGGGATGGCAAGTAAGCATCG
62034577 AGGTTTTAGGG
325 AGGTTTTAGGG
* * *
62034588 GATGCATTGCAATAGTGAAATTTATGTTGCTAAAAAAAACAC
1 GATGCATTACAATAGTGAAATTTATGTTGTTAAAGAAAACAC
62034630 GCGCCAACGG
Statistics
Matches: 349, Mismatches: 26, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
334 98 0.28
335 147 0.42
336 103 0.30
337 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.33
Consensus pattern (335 bp):
GATGCATTACAATAGTGAAATTTATGTTGTTAAAGAAAACACCTAAATAAGTTAGACTTAAAATT
TATTTTAACAAATCAGAGCGGCACAGCAAAAGCATGGTGGGCCCATAACCCACAGGTCCCAAGAT
TGAAACTTGGCTCTGATAATTTTGAGAAAGGTTTTCTTGATTTTTAAAATTCTTATCAAAATGTG
GGCTGGCTTGATTTTCTAAATCAGAGTTGATGGATAAGTAACTTGTGACATATATATTAATATTA
ATTTAAAAACGAAAAAAAATTATAGATCAGTTGGTGAGTAAGAAGGGATGGCAAGTAAGCATCGA
GGTTTTAGGG
Found at i:62035296 original size:10 final size:9
Alignment explanation
Indices: 62035260--62035323 Score: 55
Period size: 9 Copynumber: 7.2 Consensus size: 9
62035250 TTCAAATAAA
62035260 TATTAAAA-
1 TATTAAAAT
62035268 TA-TAAAA-
1 TATTAAAAT
*
62035275 TATAAAAAT
1 TATTAAAAT
62035284 TATTAAGAAT
1 TATTAA-AAT
62035294 TA-TAAGCAAT
1 TATTAA--AAT
*
62035304 TATTAAATT
1 TATTAAAAT
62035313 TATTAAAAT
1 TATTAAAAT
62035322 TA
1 TA
62035324 ACAAAAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
7 7 0.15
8 6 0.13
9 20 0.43
10 10 0.22
11 3 0.07
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (9 bp):
TATTAAAAT
Found at i:62036202 original size:12 final size:12
Alignment explanation
Indices: 62036185--62036232 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
62036175 TCATTAATAA
62036185 ATAAACGAGCTT
1 ATAAACGAGCTT
**
62036197 ATAAACGAGCCA
1 ATAAACGAGCTT
62036209 ATAAAC-ATGCTT
1 ATAAACGA-GCTT
*
62036221 TTAAACGAGCTT
1 ATAAACGAGCTT
62036233 GTTCGTGAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
11 1 0.03
12 27 0.93
13 1 0.03
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.25
Consensus pattern (12 bp):
ATAAACGAGCTT
Found at i:62036211 original size:24 final size:24
Alignment explanation
Indices: 62036184--62036230 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
62036174 GTCATTAATA
62036184 AATAAACGA-GCTTATAAACGAGCC
1 AATAAAC-ATGCTTATAAACGAGCC
*
62036208 AATAAACATGCTTTTAAACGAGC
1 AATAAACATGCTTATAAACGAGC
62036231 TTGTTCGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.45, C:0.19, G:0.15, T:0.21
Consensus pattern (24 bp):
AATAAACATGCTTATAAACGAGCC
Found at i:62036343 original size:41 final size:38
Alignment explanation
Indices: 62036298--62036389 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 38
62036288 AGCGGCATTT
*
62036298 TTAGCGGCGTTTGGACAAAAAACGCCACTAAAAATCAAGCA
1 TTAGCGGCGTTT-GA-AAAAAACGCCACTAAAAAT-AAACA
* * *
62036339 TTAGCGGCGCTTTTATAAAAACGCCGCTAAAAATAAACA
1 TTAGCGGCG-TTTGAAAAAAACGCCACTAAAAATAAACA
62036378 TTAGCGGCGTTT
1 TTAGCGGCGTTT
62036390 TTTGAAAAGC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
38 3 0.07
39 13 0.28
40 17 0.37
41 10 0.22
42 3 0.07
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (38 bp):
TTAGCGGCGTTTGAAAAAAACGCCACTAAAAATAAACA
Found at i:62036403 original size:39 final size:40
Alignment explanation
Indices: 62036315--62036409 Score: 124
Period size: 39 Copynumber: 2.4 Consensus size: 40
62036305 CGTTTGGACA
* *
62036315 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTTAT
1 AAAAACGCCGCTAAAAATCAAACATTAGCGGCGCTTTTAT
*
62036355 AAAAACGCCGCTAAAAAT-AAACATTAGCGGCG-TTTTTT
1 AAAAACGCCGCTAAAAATCAAACATTAGCGGCGCTTTTAT
*
62036393 GAAAAGCGCCGC-AAAAA
1 -AAAAACGCCGCTAAAAA
62036410 GCCTAAGCCA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
38 10 0.20
39 23 0.46
40 17 0.34
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATCAAACATTAGCGGCGCTTTTAT
Found at i:62036596 original size:82 final size:82
Alignment explanation
Indices: 62036445--62036603 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 82
62036435 TGAGTTTTTG
* *
62036445 GGGCCTTTAACGGCGTTTTTGAAAAAGCGCCGCTAATGCTACGGCCTTTAGCGGCGTTTTTAAAG
1 GGGCATTTAACGGCGTTTTTGAAAAAGCGCCGCTAATACTACGGCCTTTAGCGGCGTTTTTAAAG
*
62036510 AAGCGCCGCTAATGCTC
66 AAGCGACGCTAATGCTC
* * * *
62036527 GGGCATTTAGCGGCGTTTTT-AAAGAAGCGCCGCTAATACTAGGGGCTTTAGCGGCGTTTTTGGA
1 GGGCATTTAACGGCGTTTTTGAAA-AAGCGCCGCTAATACTACGGCCTTTAGCGGCGTTTTT-AA
62036591 A-AAGCGACGCTAA
64 AGAAGCGACGCTAA
62036604 AAACATTTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
81 3 0.04
82 63 0.93
83 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (82 bp):
GGGCATTTAACGGCGTTTTTGAAAAAGCGCCGCTAATACTACGGCCTTTAGCGGCGTTTTTAAAG
AAGCGACGCTAATGCTC
Found at i:62036603 original size:41 final size:41
Alignment explanation
Indices: 62036449--62036587 Score: 210
Period size: 41 Copynumber: 3.4 Consensus size: 41
62036439 TTTTTGGGGC
* *
62036449 CTTTAACGGCGTTTTTGAAA-AAGCGCCGCTAATGCTACGGC
1 CTTTAGCGGCGTTTTT-AAAGAAGCGCCGCTAATGCTACGGG
62036490 CTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCT-CGGG
1 CTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTACGGG
* *
62036530 CATTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATACTAGGGG
1 C-TTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTACGGG
62036572 CTTTAGCGGCGTTTTT
1 CTTTAGCGGCGTTTTT
62036588 GGAAAAGCGA
Statistics
Matches: 91, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
40 7 0.08
41 80 0.88
42 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTACGGG
Found at i:62037057 original size:22 final size:21
Alignment explanation
Indices: 62036994--62037063 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 21
62036984 TAGGGATTAT
* *
62036994 GGTTTAAGGGTTGAGATTTAA-
1 GGTTTAGGGGTT-AGAGTTAAG
*
62037015 GGTTTAGAGGTTAGAGGGTTAAG
1 GGTTTAGGGGTTAGA--GTTAAG
62037038 GGTTTAGGGGTTAGACGTTAAG
1 GGTTTAGGGGTTAGA-GTTAAG
62037060 GGTT
1 GGTT
62037064 AAAAGAGTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.07
21 10 0.24
22 14 0.34
23 14 0.34
ACGTcount: A:0.24, C:0.01, G:0.40, T:0.34
Consensus pattern (21 bp):
GGTTTAGGGGTTAGAGTTAAG
Found at i:62037062 original size:14 final size:14
Alignment explanation
Indices: 62036997--62037064 Score: 50
Period size: 14 Copynumber: 4.7 Consensus size: 14
62036987 GGATTATGGT
*
62036997 TTAAGGGTT-GAGAT
1 TTAAGGGTTAGAG-G
*
62037011 TTAAGGTTTAGAGG
1 TTAAGGGTTAGAGG
62037025 TTAGAGGGTTA-AGGG
1 TTA-AGGGTTAGA-GG
* *
62037040 TTTAGGGGTTAGACG
1 -TTAAGGGTTAGAGG
62037055 TTAAGGGTTA
1 TTAAGGGTTA
62037065 AAAGAGTTAG
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
14 21 0.49
15 18 0.42
16 4 0.09
ACGTcount: A:0.26, C:0.01, G:0.38, T:0.34
Consensus pattern (14 bp):
TTAAGGGTTAGAGG
Found at i:62037355 original size:23 final size:23
Alignment explanation
Indices: 62037328--62037378 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
62037318 TGGGATTTAA
62037328 GGTTTAGGGGTTAG-ATGGTTAGG
1 GGTTTAGGGGTTAGAAT-GTTAGG
*
62037351 GGTTTGGGGGTTAGACATGTTAGG
1 GGTTTAGGGGTTAGA-ATGTTAGG
62037375 GGTT
1 GGTT
62037379 AAAAGTTAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 13 0.52
24 10 0.40
25 2 0.08
ACGTcount: A:0.16, C:0.02, G:0.47, T:0.35
Consensus pattern (23 bp):
GGTTTAGGGGTTAGAATGTTAGG
Found at i:62037435 original size:299 final size:300
Alignment explanation
Indices: 62036880--62037792 Score: 1047
Period size: 299 Copynumber: 3.0 Consensus size: 300
62036870 TATCACTATA
* * * * * *
62036880 GTTTA-GGGTTTTTGGTTTAGGGTATATAATTTATTTAAGATTTAAGGCCAGTTTAGGAG-TTAC
1 GTTTAGGGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGGTTTAAGAGCTCA-
* * * ** * * *
62036943 TATTTTAAGGTTTAGGGAGTATGGGTTTAGGGATTATAGATTAGGGATTATGGTTTAAGGGTT-G
65 TATGTTAAAGATTAAAGAGTATGGATTTAGGGATTATAGATTAGGGATTATGATTTAAAGGTTAG
* * *
62037007 AGATTTAAGGTTTAGAGGTTAGAGGGTTAAGGGTTTAGGGGTTAGACGTTAAGGGTTAAAAGAGT
130 A-ATTTAAGGTTTAGCGGTTA-A--G---A-GG-TTAGGGGTT--A--TTAGGGGTT--AACAGT
* * ** * * *
62037072 TAGGGATTTAGAGTTTAGGGATTCAAAGGTCGAGTTAGGATTTTGGGCGTTTAGATTAA-T-TTT
180 TAGGGATTAAAAGTTTAGGGATTCAGGGGTCGGGTTAGGGTTTT--GAGTTTAGATTAATTATTT
*
62037135 TTAAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAATTT
243 TTTAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAATTT
* * * *
62037193 GTTTA-GGGTTTTTGGTTTAGGGTATATGATTTATTTAAGATTTAAGGCCGGTTTAAGAGTTTAT
1 GTTTAGGGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGGTTTAAGAGCTCAT
* * * * * *
62037257 ATTTTAAGGTTTAAAGAGTATGGATTTAGGGATTATAGATTAGGGATTATGATTTAAGGGTTGGG
66 ATGTTAAAGATTAAAGAGTATGGATTTAGGGATTATAGATTAGGGATTATGATTTAAAGGTTAGA
* * *
62037322 ATTTAAGGTTTAGGGGTT-AGATGGTTAGGGG-T-TTGGGGGTTAGACATGTTAGGGGTTAAAAG
131 ATTTAAGGTTTAGCGGTTAAGA-GGTTAGGGGTTATTAGGGGTTA-ACA-GTTAGGGATTAAAAG
62037384 -TTAGGGATTCAGGGGTCGGGTTAGGGTTTT-AGGTTTAGATTAATTATTTTTTAATTTATATTT
193 TTTAGGGATTCAGGGGTCGGGTTAGGGTTTTGA-GTTTAGATTAATTATTTTTTAATTTATATTT
*
62037447 TAAATATGTTCTTATATGATTGTAAAAGAGATAATAATAAATTT
257 TAAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAATTT
*
62037491 GTTTAGGGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGGTTTAGGAGCTCAT
1 GTTTAGGGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGGTTTAAGAGCTCAT
** * *
62037556 ATGTTAAAGATTAGGGAGTATGGATTTAGGGATTATGGATTAGGGATTATGGTTTAAAGGTTAGA
66 ATGTTAAAGATTAAAGAGTATGGATTTAGGGATTATAGATTAGGGATTATGATTTAAAGGTTAGA
* * * *
62037621 ATTTAAGGTTTAGCGGTTAAGAGTTTAGGGGTTAGACATTAGGGGTTAATAGTTAGGGATTTAAG
131 ATTTAAGGTTTAGCGGTTAAGAGGTTAGGGGTT----ATTAGGGGTTAACAGTTAGGGATTAAAA
* * *
62037686 GTTTAGGGATTCAGGGGCCAGGTTAAGGTTTTGAGTTTAGATTAATTATTTTTTAATTTATATTT
192 GTTTAGGGATTCAGGGGTCGGGTTAGGGTTTTGAGTTTAGATTAATTATTTTTTAATTTATATTT
*
62037751 TAAATATGTTCTTATATAATTGTAAAATAGATAATAATAAAT
257 TAAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAAT
62037793 CAAATATATT
Statistics
Matches: 533, Mismatches: 50, Indels: 43
0.85 0.08 0.07
Matches are distributed among these distances:
296 11 0.02
297 2 0.00
298 92 0.17
299 153 0.29
300 4 0.01
303 12 0.02
304 101 0.19
305 17 0.03
306 3 0.01
309 1 0.00
311 1 0.00
313 132 0.25
314 4 0.01
ACGTcount: A:0.30, C:0.03, G:0.27, T:0.41
Consensus pattern (300 bp):
GTTTAGGGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGGTTTAAGAGCTCAT
ATGTTAAAGATTAAAGAGTATGGATTTAGGGATTATAGATTAGGGATTATGATTTAAAGGTTAGA
ATTTAAGGTTTAGCGGTTAAGAGGTTAGGGGTTATTAGGGGTTAACAGTTAGGGATTAAAAGTTT
AGGGATTCAGGGGTCGGGTTAGGGTTTTGAGTTTAGATTAATTATTTTTTAATTTATATTTTAAA
TATGTTCTTATATAATTGTAAAAGAGATAATAATAAATTT
Found at i:62037598 original size:14 final size:14
Alignment explanation
Indices: 62037564--62037607 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
62037554 ATATGTTAAA
*
62037564 GATTAGGGAGTATG
1 GATTAGGGATTATG
62037578 GATTTAGGGATTATG
1 GA-TTAGGGATTATG
62037593 GATTAGGGATTATG
1 GATTAGGGATTATG
62037607 G
1 G
62037608 TTTAAAGGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 15 0.54
15 13 0.46
ACGTcount: A:0.27, C:0.00, G:0.39, T:0.34
Consensus pattern (14 bp):
GATTAGGGATTATG
Found at i:62038445 original size:156 final size:149
Alignment explanation
Indices: 62038066--62038584 Score: 731
Period size: 150 Copynumber: 3.4 Consensus size: 149
62038056 ATAAAAAACC
*
62038066 AATTTATAAAAAACAAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATGA
1 AATTTATAAAAAAC-AAA-AAAAAA--TTTAGCATAGTAAAACGGCGTCATTTTGTTCAAAATGA
* *
62038131 AATAATCTTTTGTG-GCGTTTTTTATGAAAAACGCCGCAATAGATAAGCAATAGTGGCG-TTGTT
62 AATAAT-TTTTTTGCGCG-TTTTTATGAAAAACGCCGCAATAGATAAGCAATAGTGGCGTTTTTT
62038194 TAAAAAACGCCGCAAAAAATAAATT
125 TAAAAAACGCCGCAAAAAATAAATT
*
62038219 AATTTATATAAAAACAAAAAAAAATTTAGCATAGTGAAACGGCGTCATTTTGTTCAAAATGAAAT
1 AATTTATA-AAAAACAAAAAAAAATTTAGCATAGTAAAACGGCGTCATTTTGTTCAAAATGAAAT
* * *
62038284 AATTTTTTTGCAGCGTTTTTATGAAAAATGCTGCAATAGATAAGCAATAGTGGCGTTTTTTTTAA
65 AATTTTTTTGC-GCGTTTTTATGAAAAACGCCGCAATAGATAAGCAATAGTGGCGTTTTTTTAAA
*
62038349 AAACGCCACAAAAAAATAAATT
129 AAACGCCGC-AAAAAATAAATT
62038371 AATTTATAAAAAAACAAAATTAAAAATTTTTAGCATAGTAAAACGGCGTCATTTTGTTCAAAATG
1 AATTTAT-AAAAAACAAAA--AAAAA--TTTAGCATAGTAAAACGGCGTCATTTTGTTCAAAATG
*
62038436 AAATAATTTTTTTGCGGCGTTTTTCAT-AAAAACGCCGCAATAGATAAGCAATAGTGGCATTTTT
61 AAATAATTTTTTTGC-GCGTTTTT-ATGAAAAACGCCGCAATAGATAAGCAATAGTGGCGTTTTT
*
62038500 TTAAAAAAACGCCGCAAAAAATAAATC
124 TT-AAAAAACGCCGCAAAAAATAAATT
* * * *
62038527 AATTTATAAAAAA-ATAAAAAAATTTAGCATAGTAAAAAGGCATCATTTTGTTTAAAAT
1 AATTTATAAAAAACAAAAAAAAATTTAGCATAGTAAAACGGCGTCATTTTGTTCAAAAT
62038585 AATTTTTAGC
Statistics
Matches: 334, Mismatches: 20, Indels: 27
0.88 0.05 0.07
Matches are distributed among these distances:
149 6 0.02
150 113 0.34
151 18 0.05
152 40 0.12
153 12 0.04
154 14 0.04
155 6 0.02
156 113 0.34
157 12 0.04
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (149 bp):
AATTTATAAAAAACAAAAAAAAATTTAGCATAGTAAAACGGCGTCATTTTGTTCAAAATGAAATA
ATTTTTTTGCGCGTTTTTATGAAAAACGCCGCAATAGATAAGCAATAGTGGCGTTTTTTTAAAAA
ACGCCGCAAAAAATAAATT
Found at i:62038550 original size:20 final size:20
Alignment explanation
Indices: 62038515--62038552 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
62038505 AAAACGCCGC
**
62038515 AAAAAATAAATCAATTTATA
1 AAAAAATAAAAAAATTTATA
62038535 AAAAAATAAAAAAATTTA
1 AAAAAATAAAAAAATTTA
62038553 GCATAGTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAAATAAAAAAATTTATA
Found at i:62038603 original size:156 final size:149
Alignment explanation
Indices: 62038066--62038584 Score: 729
Period size: 156 Copynumber: 3.4 Consensus size: 149
62038056 ATAAAAAACC
*
62038066 AATTTATAAAAAACAAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATGA
1 AATTTATAAAAAAC-AAA-AAAAAA--TTTAGCATAGTAAAACGGCGTCATTTTGTTCAAAATGA
* * * *
62038131 AATAA-TCTTTTGTGGCGTTTTTTATGAAAAACGCCGCAATAGATAAGCAATAGTGGCGTTGTTT
62 AATAATTTTTTTGCGGCG-TTTTTATGAAAAACGCCGCAATAGATAAGCAATAGTGGCTTTTTTT
62038195 AAAAAACGCCGCAAAAAATAAATT
126 AAAAAACGCCGCAAAAAATAAATT
*
62038219 AATTTATATAAAAACAAAAAAAAATTTAGCATAGTGAAACGGCGTCATTTTGTTCAAAATGAAAT
1 AATTTATA-AAAAACAAAAAAAAATTTAGCATAGTAAAACGGCGTCATTTTGTTCAAAATGAAAT
* * * *
62038284 AATTTTTTTGCAGCGTTTTTATGAAAAATGCTGCAATAGATAAGCAATAGTGGCGTTTTTTTTAA
65 AATTTTTTTGCGGCGTTTTTATGAAAAACGCCGCAATAGATAAGCAATAGTGGC-TTTTTTTAAA
*
62038349 AAACGCCACAAAAAAATAAATT
129 AAACGCCGC-AAAAAATAAATT
62038371 AATTTATAAAAAAACAAAATTAAAAATTTTTAGCATAGTAAAACGGCGTCATTTTGTTCAAAATG
1 AATTTAT-AAAAAACAAAA--AAAAA--TTTAGCATAGTAAAACGGCGTCATTTTGTTCAAAATG
62038436 AAATAATTTTTTTGCGGCGTTTTTCAT-AAAAACGCCGCAATAGATAAGCAATAGTGGCATTTTT
61 AAATAATTTTTTTGCGGCGTTTTT-ATGAAAAACGCCGCAATAGATAAGCAATAGTGGC-TTTTT
*
62038500 TTAAAAAAACGCCGCAAAAAATAAATC
124 TT-AAAAAACGCCGCAAAAAATAAATT
* * * *
62038527 AATTTATAAAAAA-ATAAAAAAATTTAGCATAGTAAAAAGGCATCATTTTGTTTAAAAT
1 AATTTATAAAAAACAAAAAAAAATTTAGCATAGTAAAACGGCGTCATTTTGTTCAAAAT
62038585 AATTTTTAGC
Statistics
Matches: 332, Mismatches: 23, Indels: 25
0.87 0.06 0.07
Matches are distributed among these distances:
150 111 0.33
151 24 0.07
152 40 0.12
153 12 0.04
154 14 0.04
155 6 0.02
156 113 0.34
157 12 0.04
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (149 bp):
AATTTATAAAAAACAAAAAAAAATTTAGCATAGTAAAACGGCGTCATTTTGTTCAAAATGAAATA
ATTTTTTTGCGGCGTTTTTATGAAAAACGCCGCAATAGATAAGCAATAGTGGCTTTTTTTAAAAA
ACGCCGCAAAAAATAAATT
Found at i:62039838 original size:43 final size:43
Alignment explanation
Indices: 62039775--62040068 Score: 324
Period size: 43 Copynumber: 6.8 Consensus size: 43
62039765 TTTTTACGAG
* * **
62039775 AAGCGTCGCTAAAGGTCTCGAGCTATAGCAACGTTTGTGGGAA
1 AAGCGCCGCTAAAGGCCTCGAGCTATAGCGGCGTTTGTGGGAA
* *
62039818 AAGCGTCGCTAAAGGCCTCGAGCTATAGCGGCTTTTGTGGGAA
1 AAGCGCCGCTAAAGGCCTCGAGCTATAGCGGCGTTTGTGGGAA
**
62039861 AAGCGCCGCTAAAGGCCTCGAGCTATAGCGGCGTTTGTGCAAA
1 AAGCGCCGCTAAAGGCCTCGAGCTATAGCGGCGTTTGTGGGAA
* * * * *
62039904 AAGCGCCGCTAAA-GCTCTTGATCTATAGTGGCGTTTTTGGGAG
1 AAGCGCCGCTAAAGGC-CTCGAGCTATAGCGGCGTTTGTGGGAA
* * * **
62039947 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGCAAA
1 AAGCGCCGCTAAAGGCCTCGAGCTATAGCGGCGTTTGTGGGAA
* * *
62039990 AAGCGCCGTTAAA-GCTCTTGATCTATAGCGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGC-CTCGAGCTATAGCGGCGTTTGTGGGAA
* * *
62040033 AGGCGCCGCTAAAGGTCAT-GATCTATAGCGGCGTTT
1 AAGCGCCGCTAAAGG-CCTCGAGCTATAGCGGCGTTT
62040069 ATTCCTAAAA
Statistics
Matches: 218, Mismatches: 28, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
42 3 0.01
43 211 0.97
44 3 0.01
45 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGCCTCGAGCTATAGCGGCGTTTGTGGGAA
Found at i:62039930 original size:86 final size:86
Alignment explanation
Indices: 62039775--62040068 Score: 369
Period size: 86 Copynumber: 3.4 Consensus size: 86
62039765 TTTTTACGAG
* * ** ** * *
62039775 AAGCGTCGCTAAAGGTCTCGAGCTATAGCAACGTTTGTGGGAAAAGCGTCGCTAAAGGC-CTCGA
1 AAGCGCCGCTAAAGGCCTCGAGCTATAGCGGCGTTTGTGCAAAAAGCGCCGCTAAA-GCTCTTGA
*
62039839 GCTATAGCGGCTTTTGTGGGAA
65 TCTATAGCGGCTTTTGTGGGAA
62039861 AAGCGCCGCTAAAGGCCTCGAGCTATAGCGGCGTTTGTGCAAAAAGCGCCGCTAAAGCTCTTGAT
1 AAGCGCCGCTAAAGGCCTCGAGCTATAGCGGCGTTTGTGCAAAAAGCGCCGCTAAAGCTCTTGAT
* *
62039926 CTATAGTGGCGTTTT-TGGGAG
66 CTATAGCGGC-TTTTGTGGGAA
* * * *
62039947 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGCAAAAAGCGCCGTTAAAGCTCTTGAT
1 AAGCGCCGCTAAAGGCCTCGAGCTATAGCGGCGTTTGTGCAAAAAGCGCCGCTAAAGCTCTTGAT
*
62040012 CTATAGCGGCGTTTGTGGGAA
66 CTATAGCGGCTTTTGTGGGAA
* * *
62040033 AGGCGCCGCTAAAGGTCAT-GATCTATAGCGGCGTTT
1 AAGCGCCGCTAAAGG-CCTCGAGCTATAGCGGCGTTT
62040069 ATTCCTAAAA
Statistics
Matches: 183, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
85 5 0.03
86 173 0.95
87 5 0.03
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (86 bp):
AAGCGCCGCTAAAGGCCTCGAGCTATAGCGGCGTTTGTGCAAAAAGCGCCGCTAAAGCTCTTGAT
CTATAGCGGCTTTTGTGGGAA
Found at i:62040126 original size:12 final size:12
Alignment explanation
Indices: 62040109--62040138 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
62040099 GTCTACAACA
62040109 GCGGCGTTTTTT
1 GCGGCGTTTTTT
62040121 GCGGCGTTTTTT
1 GCGGCGTTTTTT
62040133 GCGGCG
1 GCGGCG
62040139 CTTTAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.20, G:0.40, T:0.40
Consensus pattern (12 bp):
GCGGCGTTTTTT
Found at i:62040468 original size:20 final size:19
Alignment explanation
Indices: 62040443--62040496 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
62040433 TTAAATCAAG
*
62040443 ATTAATTGTTAAATATTTTT
1 ATTAATT-TTAAATATTTTA
62040463 ATTAATTTTTAACA-ATTTTA
1 ATTAA-TTTTAA-ATATTTTA
*
62040483 ATAAATTTTAAATA
1 ATTAATTTTAAATA
62040497 AATTTATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
18 1 0.03
19 7 0.24
20 18 0.62
21 3 0.10
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
ATTAATTTTAAATATTTTA
Found at i:62046094 original size:15 final size:15
Alignment explanation
Indices: 62046074--62046105 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
62046064 CCCAACTCCG
62046074 CAAAGAGAATGGCAA
1 CAAAGAGAATGGCAA
62046089 CAAAGAGAATGGCAA
1 CAAAGAGAATGGCAA
62046104 CA
1 CA
62046106 CGAATATCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.16, G:0.25, T:0.06
Consensus pattern (15 bp):
CAAAGAGAATGGCAA
Found at i:62049389 original size:17 final size:18
Alignment explanation
Indices: 62049357--62049399 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
62049347 TTTCACAGAT
*
62049357 TTAATAGTTTATATTA-AA
1 TTAATA-TTTACATTATAA
*
62049375 TTTATATTTACATTATAA
1 TTAATATTTACATTATAA
62049393 TTAATAT
1 TTAATAT
62049400 AAAAGCAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (18 bp):
TTAATATTTACATTATAA
Found at i:62055419 original size:3 final size:3
Alignment explanation
Indices: 62055411--62055462 Score: 63
Period size: 3 Copynumber: 17.3 Consensus size: 3
62055401 TAAATGAATA
*
62055411 AAT AAT AAT AAT AAT AAT AAT AAT ACAA AACT AAT AAT -AT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA-T AAT AAT AAT AAT AAT
62055456 AAT AAT A
1 AAT AAT A
62055463 TTACAATGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 4 0.09
3 35 0.81
4 4 0.09
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:62058331 original size:42 final size:42
Alignment explanation
Indices: 62058280--62058525 Score: 350
Period size: 42 Copynumber: 5.8 Consensus size: 42
62058270 GTTTACAAAC
*
62058280 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
62058322 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * *
62058364 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGTGTTTGTAAAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-CT-TAGAA
* * * *
62058408 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGGA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
62058450 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AGG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGA-A
* *
62058492 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGC
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
62058526 ATTTTTTTTC
Statistics
Matches: 182, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
42 145 0.80
43 2 0.01
44 35 0.19
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:62058433 original size:128 final size:128
Alignment explanation
Indices: 62058280--62058524 Score: 411
Period size: 128 Copynumber: 1.9 Consensus size: 128
62058270 GTTTACAAAC
* *
62058280 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGT
1 AAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
62058345 TCTTTAGCGGCGCTT-AGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGTGTTTGTAAAA
66 TCTTTAGCGGCGCTTAAG-AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGTGTTTGTAAAA
* *
62058408 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGAACATGT
1 AAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
** *
62058473 TCTTTAGCGGCGCTTAAGGGAAAACGCCGCTAAAGATCATGTTCTTTAGCGG
66 TCTTTAGCGGCGCTTAAGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGG
62058525 CATTTTTTTT
Statistics
Matches: 109, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
128 107 0.98
129 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (128 bp):
AAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
TCTTTAGCGGCGCTTAAGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGTGTTTGTAAAA
Found at i:62058453 original size:86 final size:84
Alignment explanation
Indices: 62058280--62058525 Score: 375
Period size: 86 Copynumber: 2.9 Consensus size: 84
62058270 GTTTACAAAC
* *
62058280 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAAAAAAAACGCCGCTAAAGATCATGT
62058345 TCTTTAGCGGCGCTTAGAA
66 TCTTTAGCGGCGCTTAGAA
* * * * *
62058364 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGTGTTTGTAAAAAAAAATGCCACTAAAGACCAT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-CT-TAAAAAAAAACGCCGCTAAAGATCAT
*
62058429 GTTCTTTAGCGGCGCTTAGGA
64 GTTCTTTAGCGGCGCTTAGAA
***
62058450 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGGGAAAACGCCGCTAAAGATCATGT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAAAAAAAACGCCGCTAAAGATCATGT
62058515 TCTTTAGCGGC
66 TCTTTAGCGGC
62058526 ATTTTTTTTC
Statistics
Matches: 144, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
84 66 0.46
85 2 0.01
86 76 0.53
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (84 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAAAAAAAACGCCGCTAAAGATCATGT
TCTTTAGCGGCGCTTAGAA
Found at i:62058586 original size:41 final size:41
Alignment explanation
Indices: 62058282--62058605 Score: 209
Period size: 42 Copynumber: 7.7 Consensus size: 41
62058272 TTACAAACAA
* * **** *
62058282 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGC-ATTTTTTAC
* * **** *
62058324 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGC-ATTTTTTAC
** ** *
62058366 AAACGCCGCTAAAGAACATGTTCTTTAGCGGTGTTTGTAAAAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCATTT-T--TTAC
* * * * **** *
62058410 AAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGGAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGC-ATTTTTTAC
* ****
62058452 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGGGA-
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGC-ATT-TTTTAC
* *
62058494 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCATTTTTTTTC
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCA-TTTTTTAC
* *
62058536 TAAGCGCCGCTAAAGAACATGTTCTTTAGTGGCATTTTTTAC
1 -AAACGCCGCTAAAGAACATGTTCTTTAGCGGCATTTTTTAC
*
62058578 AAACGCCGCAAAAGAACATGTTCTTTAG
1 AAACGCCGCTAAAGAACATGTTCTTTAG
62058606 TGGCGCTTTT
Statistics
Matches: 243, Mismatches: 31, Indels: 17
0.84 0.11 0.06
Matches are distributed among these distances:
41 28 0.12
42 147 0.60
43 34 0.14
44 32 0.13
45 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (41 bp):
AAACGCCGCTAAAGAACATGTTCTTTAGCGGCATTTTTTAC
Found at i:62058606 original size:41 final size:43
Alignment explanation
Indices: 62058494--62058609 Score: 173
Period size: 41 Copynumber: 2.7 Consensus size: 43
62058484 GCTTAAGGGA
* * *
62058494 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCATTTTTTTTCT
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCATTTTTTTACT
*
62058537 AAGCGCCGCTAAAGAACATGTTCTTTAGTGGCA-TTTTTTAC-
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCATTTTTTTACT
*
62058578 AAACGCCGCAAAAGAACATGTTCTTTAGTGGC
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGC
62058610 GCTTTTATAC
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 30 0.45
42 7 0.10
43 30 0.45
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGTTCTTTAGTGGCATTTTTTTACT
Found at i:62059007 original size:21 final size:21
Alignment explanation
Indices: 62058939--62059009 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
62058929 TTTTGCTCTG
* *
62058939 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
62058960 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
62058981 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
62059002 CTCTGCTT
1 CTCTGCTT
62059010 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:62062034 original size:11 final size:11
Alignment explanation
Indices: 62062018--62062050 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
62062008 GATGATAATA
62062018 CATTAGTTACC
1 CATTAGTTACC
62062029 CATTAGTTACC
1 CATTAGTTACC
*
62062040 CACTAGTTACC
1 CATTAGTTACC
62062051 TATAGTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.33
Consensus pattern (11 bp):
CATTAGTTACC
Found at i:62063363 original size:84 final size:84
Alignment explanation
Indices: 62063256--62063456 Score: 321
Period size: 84 Copynumber: 2.4 Consensus size: 84
62063246 ATTAACACCG
*
62063256 TTTTGTGGCGTTTTTGGTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTT
1 TTTTGTGGCGTTTTTAG-AAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTT
62063321 TCGTGGTCTGGAATTGCATT
65 TCGTGGTCTGGAATTGCATT
*
62063341 TTTTGTGGCGTTTTTAGAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT
1 TTTTGTGGCGTTTTTAGAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTTT
*
62063406 CGTGGTCTGGAATTGTATT
66 CGTGGTCTGGAATTGCATT
* * ***
62063425 ATTTGTGGCATTTTCCTAAAAACGCCACTAAA
1 TTTTGTGGCGTTTTTAGAAAAACGCCACTAAA
62063457 AGTTTAACTA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 92 0.85
85 16 0.15
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (84 bp):
TTTTGTGGCGTTTTTAGAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTTT
CGTGGTCTGGAATTGCATT
Found at i:62064920 original size:20 final size:19
Alignment explanation
Indices: 62064873--62064934 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
62064863 TTTAATTACG
* *
62064873 ATAATAATTTCAAATTTTTA
1 ATAATAATTT-AAAATTTAA
*
62064893 ATATATAAATTAAAACTTTAA
1 ATA-ATAATTTAAAA-TTTAA
62064914 ATAATAATTTAAAATTTAA
1 ATAATAATTTAAAATTTAA
62064933 AT
1 AT
62064935 TATTTTAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 7 0.19
20 16 0.44
21 13 0.36
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAATAATTTAAAATTTAA
Found at i:62065348 original size:113 final size:112
Alignment explanation
Indices: 62065111--62065469 Score: 560
Period size: 112 Copynumber: 3.2 Consensus size: 112
62065101 ACAAAAACGC
* * * *
62065111 CGCTTTACAAAAAACGCCACTAA-TGCCCCCCAAAGGACACAAAACGGCACCGTCTGGGAGTATT
1 CGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATT
* * * * ** *
62065175 ATTTGTGGCATTTTTTTATAAGCGCTGCTAATGTTCACTCTTTAGCGG
66 ATTTGCGGC-GTTATTTATAAACGCCACTAATGCTCACTCTTTAGCGG
*
62065223 CGCTTTA-TATAAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTAT
1 CGCTTTACAAT-AAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTAT
62065287 TATTTGCGGCGTTATTTATAAACGCCACTAATGCTCACTCTTTAGCGG
65 TATTTGCGGCGTTATTTATAAACGCCACTAATGCTCACTCTTTAGCGG
62065335 CGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATT
1 CGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATT
*
62065400 ATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCTTTAGCGG
66 ATTTGCGGCGTTATTTATAAACGCCACTAATGCTCACTCTTTAGCGG
*
62065447 CGCTTTGCAATAAACGCCACTAA
1 CGCTTTACAATAAACGCCACTAA
62065470 TGCTCATTCC
Statistics
Matches: 229, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
111 1 0.00
112 180 0.79
113 48 0.21
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (112 bp):
CGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATT
ATTTGCGGCGTTATTTATAAACGCCACTAATGCTCACTCTTTAGCGG
Found at i:62066169 original size:20 final size:19
Alignment explanation
Indices: 62066122--62066183 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
62066112 TTTAATTACG
* *
62066122 ATAATAATTTCAAATTTTTA
1 ATAATAATTT-AAAATTTAA
*
62066142 ATATATAAATTAAAACTTTAA
1 ATA-ATAATTTAAAA-TTTAA
62066163 ATAATAATTTAAAATTTAA
1 ATAATAATTTAAAATTTAA
62066182 AT
1 AT
62066184 TATTTTAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 7 0.19
20 16 0.44
21 13 0.36
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAATAATTTAAAATTTAA
Found at i:62066600 original size:112 final size:112
Alignment explanation
Indices: 62066360--62067055 Score: 1137
Period size: 112 Copynumber: 6.2 Consensus size: 112
62066350 ACAAAAACGC
* * * *
62066360 CGCTTTACAAAAAACGCCACTAA-TGCCCCCCCAAAGGACACAAAACGGCACCGCCTGGGAGTAT
1 CGCTTTACAATAAACGCCACTAAGT-CCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTAT
* * * * ** *
62066424 TATTTGCGGCATTTTTTTATAAGCGCTGCTAATGTTCACTCTTTAGCGG
65 TATTTGCGGC-GTTATCTATAAACGCCACTAATGCTCACTCTTTAGCGG
*
62066473 CGCTTTA-TATAAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTAT
1 CGCTTTACAAT-AAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTAT
*
62066537 TATTTGCGGCGTTATTTATAAACGCCACTAATGCTCACTCTTTAGCGG
65 TATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCTTTAGCGG
62066585 CGCTTTACAATAAACGCCACTAAGT-CCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATT
1 CGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATT
62066649 ATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCTTTAGCGG
66 ATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCTTTAGCGG
*
62066696 CGCTTTGCAATAAACGCCACTAAGTCCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTAT
1 CGCTTTACAATAAACGCCACTAAGT-CCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTAT
* *
62066761 TATTTGCAGCGTTATCTATAAATGCCACTAATGCTCACTCTTTAGCGG
65 TATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCTTTAGCGG
62066809 CGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATT
1 CGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATT
*
62066874 ATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCTTTAGTGG
66 ATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCTTTAGCGG
* *
62066921 CGCTTTACAATAAATGCCATTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATT
1 CGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATT
62066986 ATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCTTTAGCGG
66 ATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCTTTAGCGG
* **
62067033 CGCTTTTCCTTAAACGCCACTAA
1 CGCTTTACAATAAACGCCACTAA
62067056 TGCTCACTCT
Statistics
Matches: 550, Mismatches: 28, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
111 109 0.20
112 265 0.48
113 175 0.32
114 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (112 bp):
CGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATT
ATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCTTTAGCGG
Found at i:62067048 original size:40 final size:40
Alignment explanation
Indices: 62067003--62067119 Score: 198
Period size: 40 Copynumber: 2.9 Consensus size: 40
62066993 GCGTTATCTA
**
62067003 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
62067043 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
* *
62067083 TAAACGCCGCTAATGCTCACTCTTAAGCGGCGCTTTT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTT
62067120 GCTCCAAACG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (40 bp):
TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
Found at i:62069323 original size:34 final size:35
Alignment explanation
Indices: 62069257--62069323 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
62069247 CAAACACCAG
* *
62069257 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
62069292 AAAACATTTTCCAG-AAATGATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
62069324 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:62073020 original size:34 final size:35
Alignment explanation
Indices: 62072977--62073049 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
62072967 ATGCTTAAAA
* *
62072977 TGGACAACATT-TATACATG-CAAAGCAACCACATT
1 TGGACAACATTATA-ACATGTAAAAACAACCACATT
62073011 TGGACAACATTATAACATGTAAAAACAACCACATT
1 TGGACAACATTATAACATGTAAAAACAACCACATT
62073046 TGGA
1 TGGA
62073050 TATCATTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
34 16 0.46
35 19 0.54
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (35 bp):
TGGACAACATTATAACATGTAAAAACAACCACATT
Found at i:62082465 original size:24 final size:25
Alignment explanation
Indices: 62082433--62082509 Score: 88
Period size: 24 Copynumber: 3.2 Consensus size: 25
62082423 TGGCTCGAAA
* *
62082433 GAGCGTCCCGTTATTAGCT-TTCAT
1 GAGCTTCCCGTTAATAGCTCTTCAT
* *
62082457 GAGCTTCCCGTTAAATGGCTCTT-GT
1 GAGCTTCCCGTT-AATAGCTCTTCAT
62082482 GAGCTTCCCGTTAATAGCTCTTCA-
1 GAGCTTCCCGTTAATAGCTCTTCAT
62082506 GAGC
1 GAGC
62082510 ATCTCAATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
24 24 0.55
25 18 0.41
26 2 0.05
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCGTTAATAGCTCTTCAT
Found at i:62083524 original size:10 final size:10
Alignment explanation
Indices: 62083505--62083544 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
62083495 TTGTACCTTG
62083505 GAAAATTTTT
1 GAAAATTTTT
*
62083515 GAAAAGTTTT
1 GAAAATTTTT
*
62083525 GAAATTTTTT
1 GAAAATTTTT
62083535 GAAAAATTTT
1 G-AAAATTTT
62083545 CTGAGTTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
10 18 0.72
11 7 0.28
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.47
Consensus pattern (10 bp):
GAAAATTTTT
Found at i:62083533 original size:20 final size:20
Alignment explanation
Indices: 62083505--62083544 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
62083495 TTGTACCTTG
*
62083505 GAAAATTTTTGAAAAGTTTT
1 GAAAATTTTTGAAAAATTTT
*
62083525 GAAATTTTTTGAAAAATTTT
1 GAAAATTTTTGAAAAATTTT
62083545 CTGAGTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.47
Consensus pattern (20 bp):
GAAAATTTTTGAAAAATTTT
Found at i:62089325 original size:15 final size:16
Alignment explanation
Indices: 62089297--62089326 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
62089287 AATTAAATAC
62089297 AACAACATTTATTAAT
1 AACAACATTTATTAAT
62089313 AACAACA-TTATTAA
1 AACAACATTTATTAA
62089327 GTTGAAACGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (16 bp):
AACAACATTTATTAAT
Found at i:62089840 original size:21 final size:20
Alignment explanation
Indices: 62089816--62089869 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
62089806 AATAAAAAGG
62089816 ATAAATTTTAAAACAATGTTA
1 ATAAATTTTAAAAC-ATGTTA
* *
62089837 ATAAACTCT-AAACATGTTA
1 ATAAATTTTAAAACATGTTA
62089856 ATAATAATTTTAAA
1 AT-A-AATTTTAAA
62089870 TAATGATGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
19 8 0.31
20 5 0.19
21 11 0.42
22 2 0.08
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (20 bp):
ATAAATTTTAAAACATGTTA
Found at i:62090718 original size:23 final size:24
Alignment explanation
Indices: 62090691--62090736 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
62090681 TTGTATAGCA
62090691 AATAGA-AAGAAGCA-AAGAAAAAT
1 AATAGAGAA-AAGCAGAAGAAAAAT
*
62090714 AATAGAGAAACGCAGAAGAAAAA
1 AATAGAGAAAAGCAGAAGAAAAA
62090737 AAAAACAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.67, C:0.07, G:0.20, T:0.07
Consensus pattern (24 bp):
AATAGAGAAAAGCAGAAGAAAAAT
Found at i:62094801 original size:3 final size:3
Alignment explanation
Indices: 62094793--62094843 Score: 75
Period size: 3 Copynumber: 17.0 Consensus size: 3
62094783 AATATTAAAG
* * *
62094793 AAT AAT AAT AAT GAC AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
62094841 AAT
1 AAT
62094844 CGATTGAGCC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:62099093 original size:60 final size:59
Alignment explanation
Indices: 62099024--62099158 Score: 171
Period size: 59 Copynumber: 2.3 Consensus size: 59
62099014 GACAAAATTG
**
62099024 AATAATTGAGTGACTATTTTATAACTTTTCATAGTTGGATGACCAAAAAAGAAATTTACT
1 AATAATTGAGTGACTATTTTATAA-TTTTCATAAATGGATGACCAAAAAAGAAATTTACT
* * * * * * *
62099084 AGTAGTTGAGTGGCCATTTTGTAATTTTCATAAATGGGTGACCGAAAAAGAAATTTACT
1 AATAATTGAGTGACTATTTTATAATTTTCATAAATGGATGACCAAAAAAGAAATTTACT
*
62099143 AATAATTGATTGACTA
1 AATAATTGAGTGACTA
62099159 CTAATGTAAT
Statistics
Matches: 61, Mismatches: 14, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
59 42 0.69
60 19 0.31
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (59 bp):
AATAATTGAGTGACTATTTTATAATTTTCATAAATGGATGACCAAAAAAGAAATTTACT
Found at i:62104588 original size:16 final size:17
Alignment explanation
Indices: 62104548--62104591 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
62104538 TTCTCGACAT
* *
62104548 AGTTGTTCTCAATTTAG
1 AGTTGTTCTGAATTAAG
62104565 AGGTTGTTCTGAA-TAAG
1 A-GTTGTTCTGAATTAAG
62104582 AGTTGTTCTG
1 AGTTGTTCTG
62104592 CGGTAATGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 9 0.38
17 5 0.21
18 10 0.42
ACGTcount: A:0.23, C:0.09, G:0.25, T:0.43
Consensus pattern (17 bp):
AGTTGTTCTGAATTAAG
Found at i:62104673 original size:16 final size:15
Alignment explanation
Indices: 62104648--62104677 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
62104638 CGGAAAAAAC
62104648 ACAATTGTTCTAAAT
1 ACAATTGTTCTAAAT
62104663 ACAAGTTGTTCTAAA
1 ACAA-TTGTTCTAAA
62104678 CAATGGTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (15 bp):
ACAATTGTTCTAAAT
Found at i:62109439 original size:12 final size:12
Alignment explanation
Indices: 62109422--62109452 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
62109412 GAAATGGAGA
62109422 ATCATCATCACC
1 ATCATCATCACC
*
62109434 ATCATCATCAGC
1 ATCATCATCACC
62109446 ATCATCA
1 ATCATCA
62109453 ATATGGTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.35, G:0.03, T:0.26
Consensus pattern (12 bp):
ATCATCATCACC
Found at i:62113497 original size:26 final size:26
Alignment explanation
Indices: 62113467--62113519 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
62113457 TACTAGCCAT
62113467 TGAGTTTTATTTTGGTATATAATTAA
1 TGAGTTTTATTTTGGTATATAATTAA
62113493 TGAGTTTTATTTTGGTATATAATTAA
1 TGAGTTTTATTTTGGTATATAATTAA
62113519 T
1 T
62113520 ACTATAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (26 bp):
TGAGTTTTATTTTGGTATATAATTAA
Found at i:62113683 original size:18 final size:18
Alignment explanation
Indices: 62113657--62113702 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
62113647 TTTGCATTCA
62113657 ATATATATATGTATATGT
1 ATATATATATGTATATGT
*
62113675 ATATGTATATGTATATGT
1 ATATATATATGTATATGT
62113693 ATATATATAT
1 ATATATATAT
62113703 ATATGACTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (18 bp):
ATATATATATGTATATGT
Found at i:62113706 original size:6 final size:6
Alignment explanation
Indices: 62113657--62113702 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
62113647 TTTGCATTCA
* *
62113657 ATATAT ATATGT ATATGT ATATGT ATATGT ATATGT ATATAT ATAT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATAT
62113703 ATATGACTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:62117205 original size:26 final size:26
Alignment explanation
Indices: 62117142--62117206 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 26
62117132 AACACTATCA
*
62117142 TAAATAAAATAAATATTTTATTATAT
1 TAAATATAATAAATATTTTATTATAT
* *
62117168 TAAAAAACATAATAAATATTTTATTGTAT
1 T---AAATATAATAAATATTTTATTATAT
62117197 TAAATATAAT
1 TAAATATAAT
62117207 TTTTAAAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
26 9 0.28
29 23 0.72
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (26 bp):
TAAATATAATAAATATTTTATTATAT
Found at i:62120793 original size:171 final size:171
Alignment explanation
Indices: 62120501--62120889 Score: 570
Period size: 171 Copynumber: 2.3 Consensus size: 171
62120491 TCAATTGATT
* * * *
62120501 TAAATTCTAAATTCTTTCCTAAATTAAGT-TAATTAAACAGTAATTAAAGAAGGTTTCTCGTTAG
1 TAAATTATAAATTCATTACTAAATTAA-TCTAATTAAACAGTAATTAAAGAAGGTTTCCCGTTAG
* * *
62120565 TAAAAACCTTCAACTCAGATTGATCTAGTTTCAGTGATGTGATCATTGCATAGATTAATGAAACT
65 TAAAAACCTCCAACTCAGATTGATCTAGTTTCAATGATGTGATCATTGCATAGATTAACGAAACT
* *
62120630 AAATCAGATCTAAAAATCAGTGATGTGAATAG-GCCATGAAGC
130 AAATCAAATCTAAAAATCAGTGATGTGAATAGTG-CATAAAGC
62120672 TAAATTATAAATTCATTACTAAATTAATCTAATTAAACAGTAATTAAAGAAGGTTTCCCGTCT-G
1 TAAATTATAAATTCATTACTAAATTAATCTAATTAAACAGTAATTAAAGAAGGTTTCCCGT-TAG
* *
62120736 TAAAAACCTCCAACTCAGATTGATCTAGTTTCAATGATGTGATTATTTCATAGATTAACGAAACT
65 TAAAAACCTCCAACTCAGATTGATCTAGTTTCAATGATGTGATCATTGCATAGATTAACGAAACT
*
62120801 AAATCAAATCTAAAAATCAGTGATGTGATTAGTGCATAAAGC
130 AAATCAAATCTAAAAATCAGTGATGTGAATAGTGCATAAAGC
* * * *
62120843 TAAATTATAAATTCATTGCTCAATTAA-CTTAATCAAACAGTTATTAA
1 TAAATTATAAATTCATTACTAAATTAATC-TAATTAAACAGTAATTAA
62120890 CAAGCTTTGT
Statistics
Matches: 198, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
170 2 0.01
171 194 0.98
172 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (171 bp):
TAAATTATAAATTCATTACTAAATTAATCTAATTAAACAGTAATTAAAGAAGGTTTCCCGTTAGT
AAAAACCTCCAACTCAGATTGATCTAGTTTCAATGATGTGATCATTGCATAGATTAACGAAACTA
AATCAAATCTAAAAATCAGTGATGTGAATAGTGCATAAAGC
Found at i:62123079 original size:15 final size:14
Alignment explanation
Indices: 62123054--62123084 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
62123044 GAAATAATTT
62123054 ATTTTAAAAATAAA
1 ATTTTAAAAATAAA
62123068 ATTTTGAAAAATAAA
1 ATTTT-AAAAATAAA
62123083 AT
1 AT
62123085 CAATTTAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (14 bp):
ATTTTAAAAATAAA
Found at i:62124943 original size:35 final size:35
Alignment explanation
Indices: 62124894--62124964 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
62124884 ATCCACGTCT
62124894 TTTTGCATTAGAAATAATGCCCATACCAATCAACC
1 TTTTGCATTAGAAATAATGCCCATACCAATCAACC
*
62124929 TTTTGCATTGGAAATAATGCCCATACCAATCAACC
1 TTTTGCATTAGAAATAATGCCCATACCAATCAACC
62124964 T
1 T
62124965 GAGACTCAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (35 bp):
TTTTGCATTAGAAATAATGCCCATACCAATCAACC
Found at i:62127029 original size:87 final size:87
Alignment explanation
Indices: 62126883--62127050 Score: 291
Period size: 87 Copynumber: 1.9 Consensus size: 87
62126873 AGCTAAAATC
* *
62126883 GTACCGGAATCCTTGACTAAAAAGGGAAAAGATAAAGTCGACGTCGAATAGCTTGGAATTCCTGG
1 GTACCGAAATCCTCGACTAAAAAGGGAAAAGATAAAGTCGACGTCGAATAGCTTGGAATTCCTGG
62126948 TTTGTATTTCTATAATAACGTT
66 TTTGTATTTCTATAATAACGTT
* * *
62126970 GTACCGAAATCCTCGACTAAAAGGGGAAAAGATAAAGTCGACTTCGAATAGCTTGGAATTTCTGG
1 GTACCGAAATCCTCGACTAAAAAGGGAAAAGATAAAGTCGACGTCGAATAGCTTGGAATTCCTGG
62127035 TTTGTATTTCTATAAT
66 TTTGTATTTCTATAAT
62127051 CTGAACCTAG
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 76 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.30
Consensus pattern (87 bp):
GTACCGAAATCCTCGACTAAAAAGGGAAAAGATAAAGTCGACGTCGAATAGCTTGGAATTCCTGG
TTTGTATTTCTATAATAACGTT
Found at i:62127271 original size:16 final size:16
Alignment explanation
Indices: 62127246--62127279 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
62127236 ATGAATATAT
* *
62127246 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
62127262 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
62127278 AT
1 AT
62127280 TGGATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:62129872 original size:18 final size:18
Alignment explanation
Indices: 62129846--62129885 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
62129836 TTCCTCTTCA
*
62129846 TTTTCTCTTA-TTTATTT
1 TTTTATCTTATTTTATTT
62129863 GTTTTATCTTATTTTATTT
1 -TTTTATCTTATTTTATTT
62129882 TTTT
1 TTTT
62129886 CTTTTGCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.12, C:0.07, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTATCTTATTTTATTT
Found at i:62130689 original size:7 final size:7
Alignment explanation
Indices: 62130677--62130733 Score: 51
Period size: 7 Copynumber: 7.4 Consensus size: 7
62130667 TTTAACCGAA
62130677 TTTTTAT
1 TTTTTAT
62130684 TTTTTATTT
1 TTTTTA--T
62130693 TTATTTAT
1 TT-TTTAT
*
62130701 TGTTTAT
1 TTTTTAT
62130708 TTTTGTAT
1 TTTT-TAT
62130716 TTTTGTAT
1 TTTT-TAT
*
62130724 TTTATAT
1 TTTTTAT
62130731 TTT
1 TTT
62130734 GTGTCCTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
7 20 0.47
8 16 0.37
9 3 0.07
10 4 0.09
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (7 bp):
TTTTTAT
Found at i:62130694 original size:13 final size:13
Alignment explanation
Indices: 62130676--62130733 Score: 50
Period size: 16 Copynumber: 4.4 Consensus size: 13
62130666 ATTTAACCGA
62130676 ATTTTTATTTTTT
1 ATTTTTATTTTTT
62130689 ATTTTTA---TTT
1 ATTTTTATTTTTT
62130699 ATTGTTTATTTTTGT
1 ATT-TTTATTTTT-T
*
62130714 ATTTTTGTATTTTAT
1 A-TTTT-TATTTTTT
62130729 ATTTT
1 ATTTT
62130734 GTGTCCTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
10 6 0.16
11 4 0.11
13 7 0.19
14 6 0.16
15 6 0.16
16 8 0.22
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (13 bp):
ATTTTTATTTTTT
Found at i:62135385 original size:108 final size:108
Alignment explanation
Indices: 62135196--62135391 Score: 277
Period size: 108 Copynumber: 1.8 Consensus size: 108
62135186 TTTGTATTCT
* **
62135196 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTCTATATT
1 AGCAAAATTTGCTATCCTGATTAATTTGTTCATTTAGAGCTTTAATCTCAACAAATTTCTATATT
62135261 ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
66 ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
* * ** *
62135304 AGCAAAATTTGCTGTCCTGATTGATTTGTTTGTTTAGAGCTTTAATCTCAACAAAATTTC-ATTT
1 AGCAAAATTTGCTATCCTGATTAATTTGTTCATTTAGAGCTTTAATCTCAAC-AAATTTCTATAT
* * *
62135368 TGTCTATTTTGATAATCTTTTTCA
65 TATCCATTGTGATAATCTTTTTCA
62135392 AGCATTTTTC
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
108 69 0.91
109 7 0.09
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (108 bp):
AGCAAAATTTGCTATCCTGATTAATTTGTTCATTTAGAGCTTTAATCTCAACAAATTTCTATATT
ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
Found at i:62135885 original size:44 final size:44
Alignment explanation
Indices: 62135835--62135972 Score: 124
Period size: 44 Copynumber: 3.2 Consensus size: 44
62135825 GAAACAGATC
*
62135835 CTTGCCTCCATCAGTTGCAGTGGAGCTGGTTAAAGACAGCAAAT
1 CTTGCCTCCATCAGTTGCAGTGGAGCTGGTCAAAGACAGCAAAT
* * * * * *
62135879 CTTGCCTTCC-TGCA-TTAACAGCGAAGCAGATCGAAA-ACA--AAAC
1 CTTGCC-TCCAT-CAGTT-GCAGTGGAGCTGGTC-AAAGACAGCAAAT
* *
62135922 CTTGCCTCTATCAGTTGCAGTGGAGCTGGTCAAAGATAGCAAAT
1 CTTGCCTCCATCAGTTGCAGTGGAGCTGGTCAAAGACAGCAAAT
62135966 CTTGCCT
1 CTTGCCT
62135973 TCCTGCATTA
Statistics
Matches: 70, Mismatches: 15, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
41 3 0.04
42 16 0.23
43 12 0.17
44 19 0.27
45 17 0.24
46 3 0.04
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (44 bp):
CTTGCCTCCATCAGTTGCAGTGGAGCTGGTCAAAGACAGCAAAT
Found at i:62136009 original size:42 final size:42
Alignment explanation
Indices: 62135874--62136014 Score: 126
Period size: 42 Copynumber: 3.3 Consensus size: 42
62135864 TTAAAGACAG
62135874 CAAATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAA
1 CAAATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAA
* * * * * * * *
62135916 CAAAACCTTGCC-T-CTATCAGTT-GCAGTGGAGCTGGTCAAAGATA
1 C-AAATCTTGCCTTCCT-GCA-TTAACAGCGAAGCAGATCGAA-A-A
*
62135960 GCAAATCTTGCCTTCCTGCATTAACAGCGAAGCAAATCGAAAA
1 -CAAATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAA
62136003 CAAATCTTGCCT
1 CAAATCTTGCCT
62136015 CTCTCGGGTG
Statistics
Matches: 73, Mismatches: 17, Indels: 18
0.68 0.16 0.17
Matches are distributed among these distances:
41 2 0.03
42 28 0.38
43 13 0.18
44 13 0.18
45 15 0.21
46 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (42 bp):
CAAATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAA
Found at i:62136055 original size:44 final size:43
Alignment explanation
Indices: 62136006--62136322 Score: 123
Period size: 44 Copynumber: 7.2 Consensus size: 43
62135996 TCGAAAACAA
*
62136006 ATCTTGCCTCTCTCGGGTGTAACAGAGCTGGTTGAAGACAGCAG
1 ATCTTGCCTCTCTCGGATGTAACAGAGCTGGTTGAAGACA-CAG
* * * * * *
62136050 ATCTTGCCT-TCTTGTAT-TAACAGCGAAGCAGATCGAAGACACAA
1 ATCTTGCCTCTCTCGGATGTAACA--G-AGCTGGTTGAAGACACAG
* * **** *
62136094 ACCTTGCCTCTCTCGGTTGTGGTGGAGCTGGTTGAAGACAATAG
1 ATCTTGCCTCTCTCGGATGTAACAGAGCTGGTTGAAGAC-ACAG
* * * * *
62136138 ATTTTGCCT-TCCTAC--AT-TGACAGTGAAGCAGGTCGAAGACACAA
1 ATCTTGCCTCT-CT-CGGATGTAACA--G-AGCTGGTTGAAGACACAG
* *
62136182 ACCTTGCCTCTCTCAGG-TGTAGCAGAGCTGGTTGAAGACAGCAG
1 ATCTTGCCTCTCTC-GGATGTAACAGAGCTGGTTGAAGACA-CAG
* * * * *
62136226 ATCTTGCCT-TCTTGCAT-TGACAGCGAAG-TAGGTCGAAGACACAA
1 ATCTTGCCTCTCTCGGATGTAACA--G-AGCT-GGTTGAAGACACAG
* * *** *
62136270 ACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAG
1 ATCTTGCCTCTCTCGGATGTAACAGAGCTGGTTGAAGACA-CAG
62136314 ATCTTGCCT
1 ATCTTGCCT
62136323 TCTTGTATTA
Statistics
Matches: 191, Mismatches: 56, Indels: 52
0.64 0.19 0.17
Matches are distributed among these distances:
42 11 0.06
43 47 0.25
44 79 0.41
45 49 0.26
46 5 0.03
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (43 bp):
ATCTTGCCTCTCTCGGATGTAACAGAGCTGGTTGAAGACACAG
Found at i:62136145 original size:88 final size:88
Alignment explanation
Indices: 62135816--62136492 Score: 735
Period size: 88 Copynumber: 7.8 Consensus size: 88
62135806 CCCCAGAGAA
* * * * * * *
62135816 CAGATCAAAGAAACAGATCCTTGCCTC-CATCAGTTGCAGTGGAGCTGGTTAAAGACAGCAAATC
1 CAGATCGAAGACACA-AACCTTGCCTCTC-TCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATC
62135880 TTGCCTTCCTGCATTAACAGCGAAG
64 TTGCCTTCCTGCATTAACAGCGAAG
* * * * ** * *
62135905 CAGATCGAAAACA-AAACCTTGCCTCTATCAGTTGCAGTGGAGCTGGTCAAAGATAGCAAATCTT
1 CAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTT
62135969 GCCTTCCTGCATTAACAGCGAAG
66 GCCTTCCTGCATTAACAGCGAAG
* * * ***
62135992 CAAATCGAA-A-ACAAATCTTGCCTCTCTCGGGTGTAACAGAGCTGGTTGAAGACAGCAGATCTT
1 CAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTT
* *
62136055 GCCTTCTTGTATTAACAGCGAAG
66 GCCTTCCTGCATTAACAGCGAAG
* ** *
62136078 CAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTGGTGGAGCTGGTTGAAGACAATAGATTTT
1 CAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTT
* * *
62136143 GCCTTCCTACATTGACAGTGAAG
66 GCCTTCCTGCATTAACAGCGAAG
* **
62136166 CAGGTCGAAGACACAAACCTTGCCTCTCTCAGG-TGTAGCAGAGCTGGTTGAAGACAGCAGATCT
1 CAGATCGAAGACACAAACCTTGCCTCTCTC-GGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCT
* *
62136230 TGCCTTCTTGCATTGACAGCGAAG
65 TGCCTTCCTGCATTAACAGCGAAG
* * *
62136254 TAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTT
1 CAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTT
* *
62136319 GCCTTCTTGTATTAACAGCGAAG
66 GCCTTCCTGCATTAACAGCGAAG
* * * * * * *
62136342 CAGATCGAAAACA-AAACCTTACCTC-CATCGGTTGCAGTGGAGCTGGTTAAAAATAGCAAATCT
1 CAGATCGAAGACACAAACCTTGCCTCTC-TCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCT
* * *
62136405 TGCATTCCTGCGTTAACAGTGAAG
65 TGCCTTCCTGCATTAACAGCGAAG
* * * * * *
62136429 TAGATC-AA-AAACAAACCTTGCCTC-CATCAGTTGTAGTGAAGCTGGCTGAAGATAGCAGATCT
1 CAGATCGAAGACACAAACCTTGCCTCTC-TCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCT
62136491 TG
65 TG
62136493 TATTCCTATA
Statistics
Matches: 504, Mismatches: 76, Indels: 19
0.84 0.13 0.03
Matches are distributed among these distances:
85 3 0.01
86 116 0.23
87 146 0.29
88 227 0.45
89 12 0.02
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (88 bp):
CAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTT
GCCTTCCTGCATTAACAGCGAAG
Found at i:62136783 original size:95 final size:95
Alignment explanation
Indices: 62136603--62136798 Score: 252
Period size: 95 Copynumber: 2.1 Consensus size: 95
62136593 CGACAGCGGG
* * * *
62136603 GCAGATCAAATATGGCAGATTTTACCTCCCTGTGACTATAGTGGAGTACGGTGAAGCCGATAATT
1 GCAGATCAAATATGGAAAATTTTACCTCCCTGTGACTACAGTGGAGTACAGTGAAGCCGATAATT
***
62136668 CTATCTCCCTGGTTGGCAGTGGAAAAGATT
66 CTATCTCCCTGGTCAACAGTGGAAAAGATT
* * *
62136698 GCAGATCAAATATGGAAAATTTTACCTCCTTGTGACTACAGTGGAGTACATTGAAGCC-AGTAGT
1 GCAGATCAAATATGGAAAATTTTACCTCCCTGTGACTACAGTGGAGTACAGTGAAGCCGA-TAAT
*
62136762 TCTATCTCCCTGAG-CAACAGTGGAATAGATT
65 TCTATCTCCCTG-GTCAACAGTGGAAAAGATT
*
62136793 GAAGAT
1 GCAGAT
62136799 TACAGATCTT
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
94 1 0.01
95 85 0.98
96 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (95 bp):
GCAGATCAAATATGGAAAATTTTACCTCCCTGTGACTACAGTGGAGTACAGTGAAGCCGATAATT
CTATCTCCCTGGTCAACAGTGGAAAAGATT
Found at i:62136828 original size:44 final size:43
Alignment explanation
Indices: 62136764--62138196 Score: 831
Period size: 40 Copynumber: 33.7 Consensus size: 43
62136754 CCAGTAGTTC
* ** ** *
62136764 TATCTCCCTGAGCAACAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGA-TGAAGATAACAGATCT
* * * *
62136808 TATCTCCTTAAGCAGTAGTGGAGCAGAT-CACATCA-AG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATGAAGATAACAGATCT
* *
62136848 TATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGA-AACCAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATG-AAGATAA-CAGATCT
* * *
62136892 TATCTCCCTAAGCAGTAGTGGAGCAGAT-CACATCA-AG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATGAAGATAACAGATCT
*
62136932 TATCTCCCTAAGCAGTAGTGGAGCAGAAGAAAGA-AACCAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATG-AAGATAA-CAGATCT
* * * *
62136976 TATCTCCCTAAGCAGTAGTGGAGCAGATCAA-ATATGGCAAATTT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATGAAGATA--ACAGATCT
* ** * * * *
62137020 TACCTCCCTGTGACTA-CAGTGGAGTACGGTGAAACCGAT-A-A-TTC-
1 TATCTCCCTAAG-C-AGTAGTGGAGCA-GATG-AA--GATAACAGATCT
** *** * * *
62137064 TATCTCCCTGGTTGGCAGTGGAAAAGATTGCAGATCAA-ATATGGCAGATTT
1 TATCTCCC---TAAGCAGT--AGTGGA--GCAGATGAAGATA--ACAGATCT
* * * ** * * * ** ** *
62137115 TACCTTCTTGTGACTA-CAGTGGAGTACATTGAAGCCAGTAGTTC-
1 TATCTCCCTAAG-C-AGTAGTGGAGCAGA-TGAAGATAACAGATCT
* ** ** *
62137159 TATCTCCCTGAGCAACAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGA-TGAAGATAACAGATCT
* * * *
62137203 TATCTCCTTAAGCAGTAGTGGAGCAGAT-CACATCA-AG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATGAAGATAACAGATCT
* *
62137243 TATCTCCCTAAGTAGTAGTGGAGCAGACGAAAGA-AACCAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATG-AAGATAA-CAGATCT
* * * *
62137287 TATCTCCCTAAGCAATAGTGGAGCAGAT-CACATTA-AG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATGAAGATAACAGATCT
*
62137327 TATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGA-AACCAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATG-AAGATAA-CAGATCT
* * *
62137371 TATCTCCCTAAGCAGTAGTGGAGCAGAT-CACATCA-AG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATGAAGATAACAGATCT
* * *
62137411 TATCTCTCTAAGCAGTAGTGGAGCAAACGAAAGA-AACCAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATG-AAGATAA-CAGATCT
* * * *
62137455 TATCTCCCTAAGAAGTAGTGGAGCAGAT-CACATCA-AG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATGAAGATAACAGATCT
* *
62137495 TATCTCCCTAAGTAGTAGTGGAGCAGACGAAAGA-AACCAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATG-AAGATAA-CAGATCT
* * * *
62137539 TATCTCCCTAAGCAATAGTGGAGCAGAT-CACATCA-AG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATGAAGATAACAGATCT
* * * *
62137579 TATCTCCTTAAGCAGTAGTAGAGTAGACGAAAGA-AACCAG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATG-AAGATAA-CAGATCT
* * * *
62137622 TATCTCCCTAGGCAGTAGTGGAGCAGAT-CACATCA-AG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATGAAGATAACAGATCT
* * * *
62137662 TATCTCCCTAAGCAGTAGTGGAGCATAT-CACATCA-AG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATGAAGATAACAGATCT
* *
62137702 TATCTCCCTAAGTAGTAGTGGAGCAGACGAAAGA-AACCAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATG-AAGATAA-CAGATCT
* * * * *
62137746 TATCTCCCTAAGAAATAGTGGAGCAGAT-CACATTA-AG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATGAAGATAACAGATCT
* *
62137786 TATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGA-AACCAAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATG-AAGATAA-CAGATCT
* * * * *
62137830 TATCTCTCTAAGCAGTAGTCGAGCAGAT-CACATCA-AG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATGAAGATAACAGATCT
*
62137870 TATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGA-AACCAG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATG-AAGATAA-CAGATCT
* *
62137913 TATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGA-AACCATATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATG-AAGATAA-CAGATCT
* * *
62137957 TATCTCCCTAAGCAGTAGTGGAGCAGAT-CACA-ACCAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATGAAGATAACAGATCT
* * *
62137998 TATCTCCCTAAGCAGTAGTGGAGCAGAT-CACATCA-AG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATGAAGATAACAGATCT
**
62138038 TATCTCCCTAAGCAGTAGTGGAGCAGACAATAGA-AACCAG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATGA-AGATAA-CAGATCT
* * *
62138081 TATCTCCATAAGCAGTAATGGAGCAGACGAAAGA-AACCAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATG-AAGATAA-CAGATCT
* * *
62138125 TATCTCCCTAAGCAGTAGTGAAGCAGATCG--CATCA-AG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGAT-GAAGATAACAGATCT
*
62138165 TATCTCCCTAAGCAGTAGTGGAGCAGACGAAG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATGAAG
62138197 GAAACCAATC
Statistics
Matches: 1082, Mismatches: 209, Indels: 199
0.73 0.14 0.13
Matches are distributed among these distances:
39 1 0.00
40 381 0.35
41 72 0.07
42 51 0.05
43 161 0.15
44 357 0.33
45 21 0.02
46 8 0.01
47 8 0.01
48 7 0.01
49 4 0.00
50 6 0.01
51 5 0.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (43 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATGAAGATAACAGATCT
Found at i:62136860 original size:40 final size:42
Alignment explanation
Indices: 62136802--62137005 Score: 238
Period size: 44 Copynumber: 4.9 Consensus size: 42
62136792 TGAAGATTAC
* * *
62136802 AGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCA-CATCA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAGAAACA
* *
62136843 AG-TCTTATCTCCCTAAGCAGTAGTGGAGTAGA-CGAAAGAAACC
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---AGAAACA
* *
62136886 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA-CATCA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAGAAACA
** *
62136927 AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGAAGAAAGAAACC
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAG-A-TCAGAAACA
62136970 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
62137006 AATATGGCAA
Statistics
Matches: 137, Mismatches: 16, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
39 1 0.01
40 57 0.42
41 7 0.05
42 4 0.03
43 9 0.07
44 58 0.42
45 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (42 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAGAAACA
Found at i:62136889 original size:84 final size:81
Alignment explanation
Indices: 62136805--62138191 Score: 806
Period size: 84 Copynumber: 16.4 Consensus size: 81
62136795 AGATTACAGA
* *
62136805 TCTTATCTCCTTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAGTCTTATCTCCCTAAGCAGTAGTGGA
*
62136870 GTAGACGAAAGAAACCAG
66 GCAGAC--AAGAAACCAG
*
62136888 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAGTCTTATCTCCCTAAGCAGTAGTGG
*
62136953 AGCAGAAGAAAGAAACCAG
65 AGCAG-A-CAAGAAACCAG
* * * **
62136972 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATATGGCAAATTTTACCTCCCTGTGACTA-
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AA-AT--CAAGTCTTATCTCCCTAAG-C-AG
* * **
62137036 CAGTGGAG--TACGGTGAAACC-G
59 TAGTGGAGCAGAC-AAGAAACCAG
* ** *** * * *
62137057 ATAATTCTATCTCCCTGGTTGGCAGTGGAAAAGATTGCAGATCAAAT-ATGGCAGATTTTACCTT
1 -T--CT-TATCTCCC---TAAGCAGT--AGTGGA--GCAGATCAAATCA----AG-TCTTATCTC
* ** * * * *
62137121 CTTGTGACTA-CAGTGGAG--TACATTGAAGCCAG
50 CCTAAG-C-AGTAGTGGAGCAGACA-AGAAACCAG
* * ** ** * * *
62137153 TAGTTCTATCTCCCTGAGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCTTAAGCAG
1 T--CT-TATCTCCCTAAGCAGTAGTGGAGCAGA-TCAA-ATCA-AG-TCTTATCTCCCTAAGCAG
* * *
62137218 TAGTGGAGCAGATC-A-CATCAAG
59 TAGTGGAGCAGA-CAAGAAACCAG
* * * *
62137240 TCTTATCTCCCTAAGTAGTAGTGGAGCAGA-CGAAAGAAACCAGATCTTATCTCCCTAAGCAATA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-AATCAAG-TCTTATCTCCCTAAGCAGTA
**
62137304 GTGGAGCAGATCACA-TTA--AG
61 GTGGAGCAGA-CA-AGAAACCAG
* *
62137324 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAGATCTTATCTCCCTAAGCAGTA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-AATCAAG-TCTTATCTCCCTAAGCAGTA
* * *
62137388 GTGGAGCAGATC-A-CATCAAG
61 GTGGAGCAGA-CAAGAAACCAG
* * * * *
62137408 TCTTATCTCTCTAAGCAGTAGTGGAGCAAACGA-AAGAAACCAGATCTTATCTCCCTAAGAAGTA
1 TCTTATCTCCCTAAGCAGTAGTGGAGC--A-GATCA-AATCAAG-TCTTATCTCCCTAAGCAGTA
* * *
62137472 GTGGAGCAGATC-A-CATCAAG
61 GTGGAGCAGA-CAAGAAACCAG
* * * *
62137492 TCTTATCTCCCTAAGTAGTAGTGGAGCAGA-CGAAAGAAACCAGATCTTATCTCCCTAAGCAATA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-AATCAAG-TCTTATCTCCCTAAGCAGTA
* * *
62137556 GTGGAGCAGATC-A-CATCAAG
61 GTGGAGCAGA-CAAGAAACCAG
* * * * * *
62137576 TCTTATCTCCTTAAGCAGTAGTAGAGTAGA-CGAAAGAAACCAGTCTTATCTCCCTAGGCAGTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-AATCAAGTCTTATCTCCCTAAGCAGTAG
* * *
62137640 TGGAGCAGATC-A-CATCAAG
62 TGGAGCAGA-CAAGAAACCAG
* * *
62137659 TCTTATCTCCCTAAGCAGTAGTGGAGCATATCACATCAAGTCTTATCTCCCTAAGTAGTAGTGGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAGTCTTATCTCCCTAAGCAGTAGTGGA
62137724 GCAGACGAAAGAAACCAG
66 GCAGAC--AAGAAACCAG
* * * *
62137742 ATCTTATCTCCCTAAGAAATAGTGGAGCAGATCACATTAAGTCTTATCTCCCTAAGCAGTAGTGG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAGTCTTATCTCCCTAAGCAGTAGTGG
*
62137807 AGCAGACGAAAGAAACCAAA
65 AGCAGAC--AAGAAACC-AG
* * *
62137827 TCTTATCTCTCTAAGCAGTAGTCGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAGTCTTATCTCCCTAAGCAGTAGTGGA
62137892 GCAGACGAAAGAAACCAG
66 GCAGAC--AAGAAACCAG
*
62137910 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCATA-TCTTATCTCCCTAAGCAGT
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-----AAATCA-AGTCTTATCTCCCTAAGCAGT
*
62137973 AGTGGAGCAGATC-A-CAACCAG
60 AGTGGAGCAGA-CAAGAAACCAG
*
62137994 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAGTCTTATCTCCCTAAGCAGTAGTGG
62138059 AGCAGACAATAGAAACCAG
65 AGCAGAC-A-AGAAACCAG
* * * *
62138078 TCTTATCTCCATAAGCAGTAATGGAGCAGA-CGAAAGAAACCAGATCTTATCTCCCTAAGCAGTA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-AATCAAG-TCTTATCTCCCTAAGCAGTA
* * * *
62138142 GTGAAGCAGATC--GCATCAAG
61 GTGGAGCAGA-CAAGAAACCAG
62138162 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
62138192 CGAAGGAAAC
Statistics
Matches: 1104, Mismatches: 125, Indels: 148
0.80 0.09 0.11
Matches are distributed among these distances:
79 1 0.00
80 34 0.03
81 37 0.03
82 5 0.00
83 126 0.11
84 627 0.57
85 41 0.04
86 18 0.02
87 79 0.07
88 42 0.04
89 12 0.01
90 8 0.01
91 7 0.01
92 4 0.00
93 5 0.00
94 3 0.00
95 54 0.05
96 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (81 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAGTCTTATCTCCCTAAGCAGTAGTGGA
GCAGACAAGAAACCAG
Found at i:62137178 original size:95 final size:95
Alignment explanation
Indices: 62136998--62137193 Score: 252
Period size: 95 Copynumber: 2.1 Consensus size: 95
62136988 CAGTAGTGGA
*
62136998 GCAGATCAAATATGGCAAATTTTACCTCCCTGTGACTACAGTGGAGTACGGTGAAACCGATAATT
1 GCAGATCAAATATGGCAAATTTTACCTCCCTGTGACTACAGTGGAGTACAGTGAAACCGATAATT
***
62137063 CTATCTCCCTGGTTGGCAGTGGAAAAGATT
66 CTATCTCCCTGGTCAACAGTGGAAAAGATT
* * * * * *
62137093 GCAGATCAAATATGGCAGATTTTACCTTCTTGTGACTACAGTGGAGTACATTGAAGCC-AGTAGT
1 GCAGATCAAATATGGCAAATTTTACCTCCCTGTGACTACAGTGGAGTACAGTGAAACCGA-TAAT
*
62137157 TCTATCTCCCTGAG-CAACAGTGGAATAGATT
65 TCTATCTCCCTG-GTCAACAGTGGAAAAGATT
*
62137188 GAAGAT
1 GCAGAT
62137194 TACAGATCTT
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
94 1 0.01
95 85 0.98
96 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (95 bp):
GCAGATCAAATATGGCAAATTTTACCTCCCTGTGACTACAGTGGAGTACAGTGAAACCGATAATT
CTATCTCCCTGGTCAACAGTGGAAAAGATT
Found at i:62137333 original size:395 final size:395
Alignment explanation
Indices: 62136603--62137400 Score: 1497
Period size: 395 Copynumber: 2.0 Consensus size: 395
62136593 CGACAGCGGG
* * *
62136603 GCAGATCAAATATGGCAGATTTTACCTCCCTGTGACTATAGTGGAGTACGGTGAAGCCGATAATT
1 GCAGATCAAATATGGCAAATTTTACCTCCCTGTGACTACAGTGGAGTACGGTGAAACCGATAATT
62136668 CTATCTCCCTGGTTGGCAGTGGAAAAGATTGCAGATCAAATATGGAAAATTTTACCTCCTTGTGA
66 CTATCTCCCTGGTTGGCAGTGGAAAAGATTGCAGATCAAATATGGAAAATTTTACCTCCTTGTGA
62136733 CTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGAGCAACAGTGGAATAGATTGAAGA
131 CTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGAGCAACAGTGGAATAGATTGAAGA
62136798 TTACAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAG
196 TTACAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAG
* *
62136863 TAGTGGAGTAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAA
261 TAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCACATCAA
62136928 GTCTTATCTCCCTAAGCAGTAGTGGAGCAGAAGAAAGAAACCAGATCTTATCTCCCTAAGCAGTA
326 GTCTTATCTCCCTAAGCAGTAGTGGAGCAGAAGAAAGAAACCAGATCTTATCTCCCTAAGCAGTA
62136993 GTGGA
391 GTGGA
62136998 GCAGATCAAATATGGCAAATTTTACCTCCCTGTGACTACAGTGGAGTACGGTGAAACCGATAATT
1 GCAGATCAAATATGGCAAATTTTACCTCCCTGTGACTACAGTGGAGTACGGTGAAACCGATAATT
* * *
62137063 CTATCTCCCTGGTTGGCAGTGGAAAAGATTGCAGATCAAATATGGCAGATTTTACCTTCTTGTGA
66 CTATCTCCCTGGTTGGCAGTGGAAAAGATTGCAGATCAAATATGGAAAATTTTACCTCCTTGTGA
62137128 CTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGAGCAACAGTGGAATAGATTGAAGA
131 CTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGAGCAACAGTGGAATAGATTGAAGA
*
62137193 TTACAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGTAG
196 TTACAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAG
*
62137258 TAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCACATTAA
261 TAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCACATCAA
*
62137323 GTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTA
326 GTCTTATCTCCCTAAGCAGTAGTGGAGCAGAAGAAAGAAACCAGATCTTATCTCCCTAAGCAGTA
62137388 GTGGA
391 GTGGA
62137393 GCAGATCA
1 GCAGATCA
62137401 CATCAAGTCT
Statistics
Matches: 392, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
395 392 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (395 bp):
GCAGATCAAATATGGCAAATTTTACCTCCCTGTGACTACAGTGGAGTACGGTGAAACCGATAATT
CTATCTCCCTGGTTGGCAGTGGAAAAGATTGCAGATCAAATATGGAAAATTTTACCTCCTTGTGA
CTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGAGCAACAGTGGAATAGATTGAAGA
TTACAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAG
TAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCACATCAA
GTCTTATCTCCCTAAGCAGTAGTGGAGCAGAAGAAAGAAACCAGATCTTATCTCCCTAAGCAGTA
GTGGA
Found at i:62137755 original size:291 final size:291
Alignment explanation
Indices: 62137200--62138214 Score: 1285
Period size: 291 Copynumber: 3.5 Consensus size: 291
62137190 AGATTACAGA
* * * * *
62137200 TCTTATCTCCTTAAGCAGTAGTGGAGCAGATC---A-CATCAAG-TCTTATCTCCCTAAGTAGTA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAGATCTTATCTCCCTAAGCAGTA
* * * * * **
62137260 GTGGAGCAGA-CGAAAGAAACCAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATC-ACA-TTA
65 GTGGAGCAGATC---A-CATCAAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAA
*
62137322 --AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCA
124 CCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAC--AA-AAACAAG-TCTTATCTCCCTAAGCA
* *
62137385 GTAGTGGAGCAGATCACATCAAGTCTTATCTCTCTAAGCAGTAGTGGAGCAAACGAAAGAAACCA
185 GTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCA
62137450 GATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCACATCAAG
250 GATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCACATCAAG
* *
62137492 TCTTATCTCCCTAAGTAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAATAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAG
* * *
62137557 TGGAGCAGATCACATCAAGTCTTATCTCCTTAAGCAGTAGTAGAGTAGACGAAAGAAACCAGTCT
66 TGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGTCT
* * *
62137622 TATCTCCCTAGGCAGTAGTGGAGCAGATC-ACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGC
131 TATCTCCCTAAGCAGTAGTGGAGCAGA-CAAAAACAAGTCTTATCTCCCTAAGCAGTAGTGGAGC
* *
62137686 ATATCACATCAAGTCTTATCTCCCTAAGTAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCT
195 AGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCT
* *
62137751 CCCTAAGAAATAGTGGAGCAGATCACATTAAG
260 CCCTAAGAAGTAGTGGAGCAGATCACATCAAG
* *
62137783 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAAATCTTATCTCTCTAAGCAGTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAG
*
62137848 TCGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGTCT
66 TGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGTCT
62137913 TATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCATA-TCTTATCTCCCTAAGCAGTAGTG
131 TATCTCCCTAAGCAGTAGTGGAGCAGAC--AA-AAA-CA-AGTCTTATCTCCCTAAGCAGTAGTG
* * * * *
62137977 GAGCAGATCACAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCAAG-TC
191 GAGCAGATCACATCAAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAGATC
* *
62138037 TTATCTCCCTAAGCAGTAGTGGAGCAGA-CA-ATAGAAACCAG
254 TTATCTCCCTAAGAAGTAGTGGAGCAGATCACAT-----CAAG
* *
62138078 TCTTATCTCCATAAGCAGTAATGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAG
* * * * *
62138143 TGAAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAGGAAACCAATCC
66 TGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGTCT
62138208 TATCTCC
131 TATCTCC
62138215 TTTAAGTTGC
Statistics
Matches: 640, Mismatches: 59, Indels: 45
0.86 0.08 0.06
Matches are distributed among these distances:
290 3 0.00
291 270 0.42
292 88 0.14
293 11 0.02
294 4 0.01
295 203 0.32
296 59 0.09
297 2 0.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (291 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGTCT
TATCTCCCTAAGCAGTAGTGGAGCAGACAAAAACAAGTCTTATCTCCCTAAGCAGTAGTGGAGCA
GATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTC
CCTAAGAAGTAGTGGAGCAGATCACATCAAG
Found at i:62138192 original size:84 final size:84
Alignment explanation
Indices: 62137196--62138214 Score: 1183
Period size: 84 Copynumber: 12.2 Consensus size: 84
62137186 TTGAAGATTA
* *
62137196 CAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGTAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
62137261 TGGAGCAGACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
* *
62137280 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCACATTAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
62137345 TGGAGCAGACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
*
62137364 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCTCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
*
62137429 TGGAGCAAACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
* *
62137448 CAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGTAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
62137513 TGGAGCAGACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
* *
62137532 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCACATCAAGTCTTATCTCCTTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
* *
62137597 TAGAGTAGACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
*
62137616 CAG-TCTTATCTCCCTAGGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
* * *
62137680 TGGAGCATATC---A-CATC
66 TGGAGCAGA-CGAAAGAAAC
* * * * * *
62137696 AAG-TCTTATCTCCCTAAGTAGTAGTGGAGCAGA-CGAAAGAAACCAGATCTTATCTCCCTAAGA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCAAG-TCTTATCTCCCTAAGC
* * **
62137759 AATAGTGGAGCAGATC-ACA-TTA-
61 AGTAGTGGAGCAGA-CGAAAGAAAC
* * * *
62137781 -AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAAATCTTATCTCTCTAAGC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-----ACATCAAGTCTTATCTCCCTAAGC
* * *
62137843 AGTAGTCGAGCAGATC---A-CATC
61 AGTAGTGGAGCAGA-CGAAAGAAAC
* * * *
62137864 AAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAGTCTTATCTCCCTAAGCA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCAAGTCTTATCTCCCTAAGCA
62137927 GTAGTGGAGCAGACGAAAGAAAC
62 GTAGTGGAGCAGACGAAAGAAAC
* * *
62137950 CATATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACAACCAGATCTTATCTCCCTAAGCAGTA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG-TCTTATCTCCCTAAGCAGTA
* *
62138015 GTGGAGCAGATC---A-CATC
65 GTGGAGCAGA-CGAAAGAAAC
* * *
62138032 AAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CA-ATAGAAACCAGTCTTATCTCCATAAGC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACAT-----CAAGTCTTATCTCCCTAAGC
*
62138094 AGTAATGGAGCAGACGAAAGAAAC
61 AGTAGTGGAGCAGACGAAAGAAAC
* *
62138118 CAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
*
62138183 TGGAGCAGACGAAGGAAAC
66 TGGAGCAGACGAAAGAAAC
*
62138202 CA-ATCCTATCTCC
1 CAGATCTTATCTCC
62138215 TTTAAGTTGC
Statistics
Matches: 822, Mismatches: 80, Indels: 67
0.85 0.08 0.07
Matches are distributed among these distances:
79 2 0.00
80 34 0.04
81 31 0.04
82 9 0.01
83 139 0.17
84 496 0.60
85 37 0.05
86 11 0.01
87 59 0.07
88 2 0.00
89 2 0.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (84 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
TGGAGCAGACGAAAGAAAC
Found at i:62138923 original size:18 final size:18
Alignment explanation
Indices: 62138897--62138936 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
62138887 TTCCTCTTCA
*
62138897 TTTTCTCTTA-TTTATTT
1 TTTTATCTTATTTTATTT
62138914 GTTTTATCTTATTTTATTT
1 -TTTTATCTTATTTTATTT
62138933 TTTT
1 TTTT
62138937 CTTTTTCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.12, C:0.07, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTATCTTATTTTATTT
Found at i:62139740 original size:8 final size:8
Alignment explanation
Indices: 62139727--62139786 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
62139717 TTTAACCGAA
62139727 TTTTTATT
1 TTTTTATT
62139735 TTTTTATT
1 TTTTTATT
62139743 TTTATT-TAT
1 TTT-TTAT-T
*
62139752 TGTTTATT
1 TTTTTATT
*
62139760 TTTGTATT
1 TTTTTATT
*
62139768 TTTGTA-T
1 TTTTTATT
*
62139775 TTTATATT
1 TTTTTATT
62139783 TTTT
1 TTTT
62139787 GTCCTTTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
7 6 0.14
8 31 0.72
9 6 0.14
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (8 bp):
TTTTTATT
Found at i:62141050 original size:28 final size:27
Alignment explanation
Indices: 62141000--62141061 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 27
62140990 ATGCATATTG
62141000 TATAAAAGAATGCCTATATATATATAT
1 TATAAAAGAATGCCTATATATATATAT
* * * *
62141027 TATAAAAGCCATGCGTATGTATATGTAT
1 TATAAAAG-AATGCCTATATATATATAT
*
62141055 CATAAAA
1 TATAAAA
62141062 AACAATGCCT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 8 0.28
28 21 0.72
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (27 bp):
TATAAAAGAATGCCTATATATATATAT
Found at i:62141815 original size:5 final size:5
Alignment explanation
Indices: 62141800--62141832 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
62141790 TTTGTTTTTG
*
62141800 ATAAA AGAAA ATAAA ATAAA ATAAA ATAAA ATA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATA
62141833 GGCTAAGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (5 bp):
ATAAA
Found at i:62150423 original size:5 final size:5
Alignment explanation
Indices: 62150408--62150445 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
62150398 TTTGTTTTTG
*
62150408 ATAAA AGAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATA
62150446 GGCTAAGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (5 bp):
ATAAA
Found at i:62154411 original size:3 final size:3
Alignment explanation
Indices: 62154403--62154430 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
62154393 GGGCTTGGAT
62154403 TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA T
62154431 ATGTTGAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:62157051 original size:15 final size:15
Alignment explanation
Indices: 62157031--62157060 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
62157021 TAGCGGTAGC
62157031 GGTAAGATTAAATAT
1 GGTAAGATTAAATAT
62157046 GGTAAGATTAAATAT
1 GGTAAGATTAAATAT
62157061 TATAGCGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (15 bp):
GGTAAGATTAAATAT
Found at i:62157672 original size:19 final size:18
Alignment explanation
Indices: 62157639--62157675 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
62157629 GTTGAACCGG
*
62157639 TTTAATATTTTTTTAATT
1 TTTAATATTTATTTAATT
62157657 TTTAATTATTTATTTAATT
1 TTTAA-TATTTATTTAATT
62157676 ATTGTTGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTAATATTTATTTAATT
Found at i:62160022 original size:3 final size:3
Alignment explanation
Indices: 62160009--62160323 Score: 354
Period size: 3 Copynumber: 105.0 Consensus size: 3
62159999 TTTCCATTTC
*
62160009 TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
62160057 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* * * * * * *** *
62160105 TCC TCT TCT TCT TCT TCT TCT AT-T TAGT TGGT ACA TCG GAA TC- ACAGT
1 TCT TCT TCT TCT TCT TCT TCT -TCT T-CT T-CT TCT TCT TCT TCT TC--T
*** * * * *
62160153 GGG TAT T-T CCA T-T TC- TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
62160198 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
62160246 TCT TCT TCT TCT TCT TCT TCT TAT TCT TCT TCT TCT TCT TCCT T-T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T-CT TCT
*
62160291 TCT TCT TCT TCT TCC TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
62160324 ATTTAGTTGG
Statistics
Matches: 269, Mismatches: 32, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
2 8 0.03
3 253 0.94
4 8 0.03
ACGTcount: A:0.03, C:0.31, G:0.03, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:62161142 original size:19 final size:19
Alignment explanation
Indices: 62161106--62161142 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
62161096 TACGTATTCG
**
62161106 TATATTTATATATTTTTTT
1 TATATTTATATAAATTTTT
62161125 TATATTTATATAAATTTT
1 TATATTTATATAAATTTT
62161143 AATATATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TATATTTATATAAATTTTT
Found at i:62173988 original size:13 final size:13
Alignment explanation
Indices: 62173972--62174003 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
62173962 CAAATGAATA
62173972 AAATTTTCAACAG
1 AAATTTTCAACAG
*
62173985 AAATTTTTAACAG
1 AAATTTTCAACAG
62173998 AAATTT
1 AAATTT
62174004 AGGGGCCTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (13 bp):
AAATTTTCAACAG
Found at i:62191935 original size:24 final size:24
Alignment explanation
Indices: 62191908--62191955 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
62191898 AAAAGACGAC
*
62191908 GATAGTAGTGATGAGGATGAAGAG
1 GATAGTACTGATGAGGATGAAGAG
* *
62191932 GATAGTTCTGCTGAGGATGAAGAG
1 GATAGTACTGATGAGGATGAAGAG
62191956 TCCAGTGAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.04, G:0.40, T:0.23
Consensus pattern (24 bp):
GATAGTACTGATGAGGATGAAGAG
Found at i:62192430 original size:15 final size:15
Alignment explanation
Indices: 62192387--62192431 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
62192377 TGGTTAATGG
*
62192387 TGAGAATGATAGTGA
1 TGAGGATGATAGTGA
* * *
62192402 TGATGCTGACAGTGA
1 TGAGGATGATAGTGA
62192417 TGAGGATGATAGTGA
1 TGAGGATGATAGTGA
62192432 AGAAGACAGT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.33, C:0.04, G:0.36, T:0.27
Consensus pattern (15 bp):
TGAGGATGATAGTGA
Found at i:62192877 original size:3 final size:3
Alignment explanation
Indices: 62192869--62192894 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
62192859 GAAAACATCA
62192869 GCT GCT GCT GCT GCT GCT GCT GCT GC
1 GCT GCT GCT GCT GCT GCT GCT GCT GC
62192895 ACAGGTGAAG
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:0.00, C:0.35, G:0.35, T:0.31
Consensus pattern (3 bp):
GCT
Found at i:62201945 original size:16 final size:17
Alignment explanation
Indices: 62201924--62201959 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
62201914 GGTAAAGTAC
*
62201924 AATTTTATTAA-TATAA
1 AATTTTATAAATTATAA
62201940 AATTTTATAAATTATAA
1 AATTTTATAAATTATAA
62201957 AAT
1 AAT
62201960 AGCCTAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTTTATAAATTATAA
Found at i:62202643 original size:15 final size:15
Alignment explanation
Indices: 62202619--62202665 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
62202609 ATAACTTAAA
62202619 TTCAACACTTAATTT
1 TTCAACACTTAATTT
* **
62202634 TTCAATACTTGTTTT
1 TTCAACACTTAATTT
62202649 TTCAACACTTAATTT
1 TTCAACACTTAATTT
62202664 TT
1 TT
62202666 TTTTAACTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.28, C:0.17, G:0.02, T:0.53
Consensus pattern (15 bp):
TTCAACACTTAATTT
Found at i:62217585 original size:4 final size:4
Alignment explanation
Indices: 62217578--62217602 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
62217568 AATTAATTAA
62217578 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
62217603 GGGTGGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:62224071 original size:101 final size:101
Alignment explanation
Indices: 62223891--62224159 Score: 378
Period size: 101 Copynumber: 2.7 Consensus size: 101
62223881 TATTCATAGT
* * * * *
62223891 CCTTAAATAGGAGGATCATATGCTTCAACGCACTCGAACCCATGTCCTCCTGCATTGGCAACAAA
1 CCTTAAATAGGAGGATAATATGCTTCAACGCACTTGAACCCACGTCCTCCTGCATTGACAACAAT
* **
62223956 GCTCATGCCCAGAACTACTCATAGTCCCTCTTCAAC
66 GCTCATGCCCAGAACTACCCATAGTCCCTCCCCAAC
* * *
62223992 TCTTAAATAGGAGGATAATGTGCTTCAACGCACTTGAACCCACGTCCTCTTGCATTGACAACAAT
1 CCTTAAATAGGAGGATAATATGCTTCAACGCACTTGAACCCACGTCCTCCTGCATTGACAACAAT
*
62224057 GCTCATGCCTAGAACTACCCATAGTCCCTCCCCAAC
66 GCTCATGCCCAGAACTACCCATAGTCCCTCCCCAAC
* * * *
62224093 CCTTAAATAGGAGGATAATACGCTTCATCGCA-TTCGAACCCACGTCCTCCTACACTGACAACAA
1 CCTTAAATAGGAGGATAATATGCTTCAACGCACTT-GAACCCACGTCCTCCTGCATTGACAACAA
62224157 TGC
65 TGC
62224160 CAATACTGAT
Statistics
Matches: 148, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
100 2 0.01
101 146 0.99
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (101 bp):
CCTTAAATAGGAGGATAATATGCTTCAACGCACTTGAACCCACGTCCTCCTGCATTGACAACAAT
GCTCATGCCCAGAACTACCCATAGTCCCTCCCCAAC
Done.