Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 174 of 240
Found at i:53961217 original size:42 final size:41
Alignment explanation
Indices: 53961135--53961258 Score: 140
Period size: 42 Copynumber: 3.0 Consensus size: 41
53961125 GAATGTCAAC
* * * * *
53961135 ACCACACGGCCAGGGACATTGGTGTGTGTTCAGGCTGTGTGA
1 ACCACACGGGCAAGGACATGGGCGTGTGTCCAGGC-GTGTGA
*
53961177 ACCATACGGGCAAGGACATGGGCGTGTGTCCAGGTCGTGTGA
1 ACCACACGGGCAAGGACATGGGCGTGTGTCCAGG-CGTGTGA
* * *
53961219 GCCACACGGGTAAGGACATGGGCGTATGTCCAGGCCGTGT
1 ACCACACGGGCAAGGACATGGGCGTGTGTCCAGG-CGTGT
53961259 TACTCATTGT
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
42 69 0.99
43 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.37, T:0.20
Consensus pattern (41 bp):
ACCACACGGGCAAGGACATGGGCGTGTGTCCAGGCGTGTGA
Found at i:53968207 original size:20 final size:21
Alignment explanation
Indices: 53968182--53968223 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
53968172 AGTGGCAAGT
53968182 TATTTTATT-TAATTCTTTAA
1 TATTTTATTATAATTCTTTAA
*
53968202 TATTTTATTATAATTTTTTAA
1 TATTTTATTATAATTCTTTAA
53968223 T
1 T
53968224 TACTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TATTTTATTATAATTCTTTAA
Found at i:53975220 original size:22 final size:22
Alignment explanation
Indices: 53975192--53975234 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
53975182 GCTTATCAAT
53975192 TCAAAACAAATGAAATAAAGCA
1 TCAAAACAAATGAAATAAAGCA
53975214 TCAAAACAAATGAAATAAAGC
1 TCAAAACAAATGAAATAAAGC
53975235 GTCTATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.63, C:0.14, G:0.09, T:0.14
Consensus pattern (22 bp):
TCAAAACAAATGAAATAAAGCA
Found at i:53978427 original size:14 final size:14
Alignment explanation
Indices: 53978408--53978458 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
53978398 GAAGAGAATG
53978408 GAAAAAAAGAAAAA
1 GAAAAAAAGAAAAA
*
53978422 GAAAAAAAG-GAAA
1 GAAAAAAAGAAAAA
* *
53978435 GTTAAAAAACATAAAA
1 G-AAAAAAAGA-AAAA
53978451 GAAAAAAA
1 GAAAAAAA
53978459 ACTAAATTGC
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
13 4 0.14
14 15 0.52
15 6 0.21
16 4 0.14
ACGTcount: A:0.78, C:0.02, G:0.14, T:0.06
Consensus pattern (14 bp):
GAAAAAAAGAAAAA
Found at i:53981789 original size:93 final size:93
Alignment explanation
Indices: 53981674--53981856 Score: 330
Period size: 93 Copynumber: 2.0 Consensus size: 93
53981664 ATGTAATTAT
*
53981674 TATTTGAATCTCATAAGCAAATAAGAATGCAATTTAATAAGAATGTAAAACTCGAAGATAGGAAA
1 TATTTGAATCTCATAAGCAAATAAGAATGCAATTTAATAAGAATGTAAAACTCGAAGATAAGAAA
*
53981739 CAAAAGATTAGTGCAAATATAGCTCCCA
66 CAAAAGATTAGTGCAAAAATAGCTCCCA
* *
53981767 TATTTGAATCTCGTCAGCAAATAAGAATGCAATTTAATAAGAATGTAAAACTCGAAGATAAGAAA
1 TATTTGAATCTCATAAGCAAATAAGAATGCAATTTAATAAGAATGTAAAACTCGAAGATAAGAAA
53981832 CAAAAGATTAGTGCAAAAATAGCTC
66 CAAAAGATTAGTGCAAAAATAGCTC
53981857 GACGTTGTGG
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 86 1.00
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.25
Consensus pattern (93 bp):
TATTTGAATCTCATAAGCAAATAAGAATGCAATTTAATAAGAATGTAAAACTCGAAGATAAGAAA
CAAAAGATTAGTGCAAAAATAGCTCCCA
Found at i:53981958 original size:17 final size:16
Alignment explanation
Indices: 53981931--53981967 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
53981921 ATTTACCGAG
*
53981931 ATGAAACTTGAAGATA
1 ATGAAACTTGAAGACA
53981947 ATGAAGACTTGAAGACA
1 ATGAA-ACTTGAAGACA
53981964 ATGA
1 ATGA
53981968 CCACACTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.49, C:0.08, G:0.22, T:0.22
Consensus pattern (16 bp):
ATGAAACTTGAAGACA
Found at i:53987947 original size:4 final size:4
Alignment explanation
Indices: 53987932--53988007 Score: 52
Period size: 4 Copynumber: 19.0 Consensus size: 4
53987922 ATAAGTAAAT
* *
53987932 AAAG AAAT AAAG AAAG AAAG ATAG AAACG AAACAG AAAG AAA- AAAG -AAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA-G -AA-AG AAAG AAAG AAAG AAAG
* *
53987981 GAA- AAAG AAA- AAGG AAAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG -AAAG AAAG AAAG
53988008 GAGAAAGATA
Statistics
Matches: 57, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
3 10 0.18
4 37 0.65
5 6 0.11
6 3 0.05
7 1 0.02
ACGTcount: A:0.72, C:0.03, G:0.22, T:0.03
Consensus pattern (4 bp):
AAAG
Found at i:53998026 original size:16 final size:15
Alignment explanation
Indices: 53997994--53998035 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
53997984 TTCTGATGGG
53997994 ATTGTTAAAATATTA
1 ATTGTTAAAATATTA
53998009 ATTGTATAAAACTA-TA
1 ATTGT-TAAAA-TATTA
53998025 ATT-TTAAAATA
1 ATTGTTAAAATA
53998036 AACTTTTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 2 0.08
14 5 0.20
15 6 0.24
16 10 0.40
17 2 0.08
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (15 bp):
ATTGTTAAAATATTA
Found at i:54014758 original size:54 final size:54
Alignment explanation
Indices: 54014673--54014783 Score: 195
Period size: 54 Copynumber: 2.1 Consensus size: 54
54014663 TCTCTTGGTC
* *
54014673 TATGACAATGTATAAATTATAGATTTGTAATAAAAATTATGTAATTTAGTTAAA
1 TATGACAATGTATAAATAATAGATTTATAATAAAAATTATGTAATTTAGTTAAA
*
54014727 TATGACCATGTATAAATAATAGATTTATAATAAAAATTATGTAATTTAGTTAAA
1 TATGACAATGTATAAATAATAGATTTATAATAAAAATTATGTAATTTAGTTAAA
54014781 TAT
1 TAT
54014784 TTAATAGGTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.41
Consensus pattern (54 bp):
TATGACAATGTATAAATAATAGATTTATAATAAAAATTATGTAATTTAGTTAAA
Found at i:54025362 original size:22 final size:22
Alignment explanation
Indices: 54025306--54025403 Score: 80
Period size: 22 Copynumber: 4.5 Consensus size: 22
54025296 AGTGTTTGGG
54025306 TGGCATTCT-A-TTAGCCTTTA
1 TGGCATTCTGATTTAGCCTTTA
*
54025326 TGG-AGTACTCTGATTTTGCCTTTA
1 TGGCA-T--TCTGATTTAGCCTTTA
*
54025350 TGGCATTCTGATTTAGCCTTTG
1 TGGCATTCTGATTTAGCCTTTA
* *
54025372 TGGCATATTCTG--TTAGACTTTG
1 TGGC--ATTCTGATTTAGCCTTTA
54025394 TGGCATTCTG
1 TGGCATTCTG
54025404 TAGCTTTTGT
Statistics
Matches: 66, Mismatches: 4, Indels: 16
0.77 0.05 0.19
Matches are distributed among these distances:
19 1 0.02
20 10 0.15
22 34 0.52
23 1 0.02
24 19 0.29
25 1 0.02
ACGTcount: A:0.16, C:0.17, G:0.21, T:0.45
Consensus pattern (22 bp):
TGGCATTCTGATTTAGCCTTTA
Found at i:54025414 original size:19 final size:19
Alignment explanation
Indices: 54025345--54025418 Score: 69
Period size: 22 Copynumber: 3.6 Consensus size: 19
54025335 CTGATTTTGC
*
54025345 CTTTATGGCATTCTGATTTAG
1 CTTTGTGGCATTCTG--TTAG
54025366 CCTTTGTGGCATATTCTGTTAG
1 -CTTTGTGGC--ATTCTGTTAG
54025388 ACTTTGTGGCATTCTG-TAG
1 -CTTTGTGGCATTCTGTTAG
54025407 CTTTTGTGGCAT
1 C-TTTGTGGCAT
54025419 ATTTTGTATG
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
18 1 0.02
19 13 0.28
20 6 0.13
22 21 0.45
24 6 0.13
ACGTcount: A:0.15, C:0.16, G:0.23, T:0.46
Consensus pattern (19 bp):
CTTTGTGGCATTCTGTTAG
Found at i:54025933 original size:28 final size:28
Alignment explanation
Indices: 54025893--54025952 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
54025883 AATTTGATTT
*
54025893 AGTAAGATCAATATAGGTAT-TCGCCAAA
1 AGTAAGACCAATATAGGTATCT-GCCAAA
*
54025921 AGTAAGACCAATATGGGTATCTGCCAAA
1 AGTAAGACCAATATAGGTATCTGCCAAA
54025949 AGTA
1 AGTA
54025953 TGAACAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (28 bp):
AGTAAGACCAATATAGGTATCTGCCAAA
Found at i:54028611 original size:12 final size:13
Alignment explanation
Indices: 54028587--54028615 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
54028577 GTGCCCAATA
54028587 TTAATTAAAATTT
1 TTAATTAAAATTT
54028600 TTAATT-AAATTT
1 TTAATTAAAATTT
54028612 TTAA
1 TTAA
54028616 AAGATTTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAATTAAAATTT
Found at i:54037082 original size:15 final size:15
Alignment explanation
Indices: 54037037--54037144 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
54037027 CCAATATCTC
54037037 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
54037052 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
54037067 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
54037082 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
54037097 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
54037112 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
54037127 GATACCCATATCTTT
1 GATACCCATATCTTT
54037142 GAT
1 GAT
54037145 TTTCCATAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:54037151 original size:30 final size:30
Alignment explanation
Indices: 54037027--54037150 Score: 212
Period size: 30 Copynumber: 4.1 Consensus size: 30
54037017 TTTTATTATG
*
54037027 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
54037058 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
54037088 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
54037118 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
54037148 CCA
1 CCA
54037151 TAAATATGGA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 83 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.25, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:54041776 original size:15 final size:15
Alignment explanation
Indices: 54041731--54041838 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
54041721 CCAATATCTC
54041731 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
54041746 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
54041761 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
54041776 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
54041791 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
54041806 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
54041821 GATACCCATATCTTT
1 GATACCCATATCTTT
54041836 GAT
1 GAT
54041839 TTTCCATAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:54041845 original size:30 final size:30
Alignment explanation
Indices: 54041721--54041844 Score: 212
Period size: 30 Copynumber: 4.1 Consensus size: 30
54041711 TTTTATTATG
*
54041721 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
54041752 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
54041782 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
54041812 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
54041842 CCA
1 CCA
54041845 TAAATATGGA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 83 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.25, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:54044479 original size:17 final size:18
Alignment explanation
Indices: 54044459--54044503 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
54044449 ACGGTATTAA
54044459 AATTGAATTAAG-AAAA-T
1 AATT-AATTAAGAAAAATT
54044476 AATTTAATT-AGAAAAATT
1 AA-TTAATTAAGAAAAATT
54044494 AATTAATTAA
1 AATTAATTAA
54044504 CTAATTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 2 0.08
17 16 0.67
18 6 0.25
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (18 bp):
AATTAATTAAGAAAAATT
Found at i:54046859 original size:25 final size:26
Alignment explanation
Indices: 54046829--54046879 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
54046819 ATATAAATAT
54046829 GAAAATATTCA-TTAAAAAAATATAG
1 GAAAATATTCATTTAAAAAAATATAG
54046854 GAAAATATTCATTTTAAAAAAATATA
1 GAAAATATTCA-TTTAAAAAAATATA
54046880 TACATGTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 11 0.46
27 13 0.54
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (26 bp):
GAAAATATTCATTTAAAAAAATATAG
Found at i:54047356 original size:9 final size:9
Alignment explanation
Indices: 54047342--54047369 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
54047332 GCGGAGGGGC
54047342 TAAATAAAA
1 TAAATAAAA
54047351 TAAATAAAA
1 TAAATAAAA
54047360 TAAATAAAA
1 TAAATAAAA
54047369 T
1 T
54047370 TCGCAGTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (9 bp):
TAAATAAAA
Found at i:54047664 original size:19 final size:19
Alignment explanation
Indices: 54047640--54047771 Score: 210
Period size: 19 Copynumber: 6.8 Consensus size: 19
54047630 AATCATATAT
54047640 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
54047659 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
54047678 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
54047697 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
54047718 TCTAATATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
54047737 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
54047756 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
54047772 CTCAAAAATT
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
19 85 0.83
21 18 0.17
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:54047733 original size:59 final size:59
Alignment explanation
Indices: 54047633--54047770 Score: 212
Period size: 59 Copynumber: 2.4 Consensus size: 59
54047623 ATTACAAAAT
*
54047633 CATAT-AT-TCTAAGATTGC--ATATCATATCTAAGATTATATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
* * *
54047688 CATATCATATCTAAGATTGCATATATCATATCTAATATTGCATATCATATCTAGGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
54047747 CATATCATATCTAAGATTGCATAT
1 CATATCATATCTAAGATTGCATAT
54047771 CCTCAAAAAT
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
55 5 0.07
56 2 0.03
57 11 0.15
59 57 0.76
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.39
Consensus pattern (59 bp):
CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
Found at i:54048312 original size:217 final size:217
Alignment explanation
Indices: 54047937--54048542 Score: 1023
Period size: 217 Copynumber: 2.8 Consensus size: 217
54047927 TAGGAATTAG
* * * * * *
54047937 TGCCATCTTTAGTCTGCCTCACTGCAACTTTAGGACGATAAGACTTGCTTATTTAGTCTGCTTCA
1 TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
* *
54048002 CTGCAACTTCAGGGAGATAAGACTAGATGCGATTTGCTCTCTGCAACTTCAGAGGGATAAGATCT
66 CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
54048067 AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTACTCCACT
131 AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTACTCCACT
* *
54048132 ATAACTTCAGGGAGATAAGACT
196 ACAACTTCAAGGAGATAAGACT
*
54048154 TGCCATCTTCAGTCTGCCCCACTGTAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
1 TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
* * *
54048219 CTGCAACTTCAGGGAGATAAGATTTGATGCGATCTGCTCTCTGCAACTTCCGAGAGATAAGATCT
66 CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
* *
54048284 AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCTACT
131 AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTACTCCACT
*
54048349 GCAACTTCAAGGAGATAAGACT
196 ACAACTTCAAGGAGATAAGACT
* *
54048371 TGCCATCTTCAGTCTGCCCCACTGCAACTTGAGGAGGATAAGACTTGCTTACTTAGTCTGCTGCA
1 TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
*
54048436 CTGCAACTTCAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
66 CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
*
54048501 AAGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGAT
131 AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGAT
54048543 CTACAATCTT
Statistics
Matches: 364, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
217 364 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (217 bp):
TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTACTCCACT
ACAACTTCAAGGAGATAAGACT
Found at i:54048545 original size:44 final size:43
Alignment explanation
Indices: 54047956--54048544 Score: 325
Period size: 44 Copynumber: 13.6 Consensus size: 43
54047946 TAGTCTGCCT
* * * *
54047956 CACTGCAACTTTA-GGACGATAAGA-CTTGCTTATTTAGTCTGCTT
1 CACTGCAACTTCAGGGA-GATAAGATCTTG-GT-TTTAATCTGCTC
* * *** *
54048000 CACTGCAACTTCAGGGAGATAAGA-C-TAGATGCGATTTGCT-
1 CACTGCAACTTCAGGGAGATAAGATCTTGGTTTTAATCTGCTC
* * *
54048040 CTCTGCAACTTCAGAGG-GATAAGATCTAAGGTTTTAATCCGCTC
1 CACTGCAACTTCAG-GGAGATAAGATCT-TGGTTTTAATCTGCTC
* * *
54048084 CACTGCAACTTCAGGGAGATAGGAT-TATCGGCTTTAATCTACTC
1 CACTGCAACTTCAGGGAGATAAGATCT-T-GGTTTTAATCTGCTC
** * * * *
54048128 CACTATAACTTCAGGGAGATAAGA-CTTGCCATCTTCAGTCTGCCC
1 CACTGCAACTTCAGGGAGATAAGATCTTG--GT-TTTAATCTGCTC
* * *
54048173 CACTGTAACTTCA-GGAGGATAAGA-CTTGCTTACTTAGTCTGCTC
1 CACTGCAACTTCAGGGA-GATAAGATCTTGGTT--TTAATCTGCTC
* ***
54048217 CACTGCAACTTCAGGGAGATAAGAT-TT-GATGCGATCTGCT-
1 CACTGCAACTTCAGGGAGATAAGATCTTGGTTTTAATCTGCTC
* * * * *
54048257 CTCTGCAACTTCCGAGAGATAAGATCTAAGGTTTTAATCCGCTC
1 CACTGCAACTTCAGGGAGATAAGATCT-TGGTTTTAATCTGCTC
* * * *
54048301 CACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTC
1 CACTGCAACTTCAGGGAGATAAGA-TCTTGGTTTTAATCTGCTC
* * * * * *
54048345 TACTGCAACTTCAAGGAGATAAGA-CTTGCCATCTTCAGTCTGCCC
1 CACTGCAACTTCAGGGAGATAAGATCTTG--GT-TTTAATCTGCTC
* * * *
54048390 CACTGCAACTTGA-GGAGGATAAGA-CTTGCTTACTTAGTCTGCTG
1 CACTGCAACTTCAGGGA-GATAAGATCTTGGTT--TTAATCTGCTC
* * **
54048434 CACTGCAACTTCAGGGAGATAAGA-C-TAGATGCAATCTGCT-
1 CACTGCAACTTCAGGGAGATAAGATCTTGGTTTTAATCTGCTC
* * * **
54048474 CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTC
1 CACTGCAACTTCAGGGAGATAAGATCT-TGGTTTTAATCTGCTC
*
54048518 CACTGCAACTTCAGGGAGATAGGATCT
1 CACTGCAACTTCAGGGAGATAAGATCT
54048545 ACAATCTTCA
Statistics
Matches: 415, Mismatches: 97, Indels: 66
0.72 0.17 0.11
Matches are distributed among these distances:
40 64 0.15
41 24 0.06
42 6 0.01
43 34 0.08
44 215 0.52
45 72 0.17
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (43 bp):
CACTGCAACTTCAGGGAGATAAGATCTTGGTTTTAATCTGCTC
Found at i:54048666 original size:132 final size:132
Alignment explanation
Indices: 54048530--54049182 Score: 1189
Period size: 132 Copynumber: 4.9 Consensus size: 132
54048520 CTGCAACTTC
*
54048530 AGGGAGATAGGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
*
54048595 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTATTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGC
54048660 TT
131 TT
54048662 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
*
54048727 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAAATCCGCCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGC
54048792 TT
131 TT
* *
54048794 ATGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
*
54048859 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGC
54048924 TT
131 TT
*
54048926 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTGAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
54048991 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGC
54049056 TT
131 TT
* *
54049058 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
* * * *
54049123 TTAAATCTGCTTCCTACTATCTTGGAAAGATAAGATTCGTCGTCTTTGATCTGCTCCACT
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACT
54049183 GTCAATGCAG
Statistics
Matches: 503, Mismatches: 18, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 503 1.00
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (132 bp):
AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGC
TT
Found at i:54048670 original size:44 final size:44
Alignment explanation
Indices: 54048622--54049072 Score: 208
Period size: 44 Copynumber: 10.2 Consensus size: 44
54048612 TATCTTGGAA
* * *
54048622 AGATAAGATCCGCCGTCTTCGATCTGCTCCACTATTGCTTAGGG
1 AGATAAGATCTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * * * *
54048666 AGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGG
1 AGATAAGATCTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * *
54048710 AGACAAG-GCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATC-TGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* * * *
54048754 AGATAAAATCCGCCGTCTTCGATCTGCTCCACTACTGCTTATGG
1 AGATAAGATCTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * * * *
54048798 AGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGG
1 AGATAAGATCTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * *
54048842 AGACAAG-GCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATC-TGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
*
54048886 AGATAAGAT-TCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATCT-GCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * * *
54048930 AGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTGAGGG
1 AGATAAGATCTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * *
54048974 AGACAAG-GCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATC-TGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* *
54049018 AGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATCTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
54049062 AGATAAGATCT
1 AGATAAGATCT
54049073 ACAATCTTCA
Statistics
Matches: 280, Mismatches: 101, Indels: 52
0.65 0.23 0.12
Matches are distributed among these distances:
42 18 0.06
43 16 0.06
44 219 0.78
45 14 0.05
46 13 0.05
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (44 bp):
AGATAAGATCTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:54050407 original size:11 final size:10
Alignment explanation
Indices: 54050391--54050418 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
54050381 TTATTTTTTA
54050391 TTTTTTTGTT
1 TTTTTTTGTT
54050401 TTTTTTTGTT
1 TTTTTTTGTT
54050411 TTTTTTTG
1 TTTTTTTG
54050419 AATTTGAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:54051316 original size:9 final size:9
Alignment explanation
Indices: 54051302--54051329 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
54051292 GCGGAGGGGC
54051302 TAAATAAAA
1 TAAATAAAA
54051311 TAAATAAAA
1 TAAATAAAA
54051320 TAAATAAAA
1 TAAATAAAA
54051329 T
1 T
54051330 TCGCAGTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (9 bp):
TAAATAAAA
Found at i:54051623 original size:19 final size:19
Alignment explanation
Indices: 54051599--54051730 Score: 210
Period size: 19 Copynumber: 6.8 Consensus size: 19
54051589 AATTATATAT
54051599 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
54051618 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
54051637 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
54051656 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
54051677 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
54051696 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
54051715 TCTAAGATTGCTTATC
1 TCTAAGATTGCATATC
54051731 CTCAAAAATT
Statistics
Matches: 104, Mismatches: 7, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
19 85 0.82
21 19 0.18
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:54051683 original size:59 final size:57
Alignment explanation
Indices: 54051599--54051730 Score: 210
Period size: 59 Copynumber: 2.3 Consensus size: 57
54051589 AATTATATAT
*
54051599 TCTAAGATTGCATATCATATCTAAGATTATATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATA
* *
54051656 TCTAAGATTGCATATATCATATCTAAGATTGCATATCATATCTAGGATTGCATATCATA
1 TCTAAGATTGC--ATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATA
*
54051715 TCTAAGATTGCTTATC
1 TCTAAGATTGCATATC
54051731 CTCAAAAATT
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
57 15 0.22
59 54 0.78
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.39
Consensus pattern (57 bp):
TCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:54053137 original size:126 final size:123
Alignment explanation
Indices: 54052889--54053115 Score: 276
Period size: 126 Copynumber: 1.8 Consensus size: 123
54052879 AATAAAATAT
*
54052889 TTTTGGGAGTAAAAGGGGGAGAGAAAGTAAAAAAATTTGAAGGTAAAGGAGATAAAAATTTTGTG
1 TTTTGGGAGTAAAAGGGGGAGAGAAAGTAAAAAAATTTGAAGGTAAAGGAGATAAAAAGTTTGTG
* ** *
54052954 GGGGATTTGATTTTTGGGGGTAAAGAGGGAGAAATAAAATATTTTTGAGGGATTTTGA
66 AGGGATTTGATTTTTGGGGGTAAAGAGGGAGAAATAAAATATTTTCAAGCGATTTTGA
* * *** * * *
54053012 TTTTGGGAGTAAAATTGGGGGAGGGGGAAGTAAAACTTTTTGGAGGTAAGGGGGATAAAAAGTTT
1 TTTTGGGAGTAAAA--GGGGGA-GAGAAAGTAAAAAAATTTGAAGGTAAAGGAGATAAAAAGTTT
*
54053077 GTGAAGGGATTTGA-TTTTGGGGGATAAAGGGGGAGAAAT
63 GTG-AGGGATTTGATTTTTGGGGG-TAAAGAGGGAGAAAT
54053116 TCAAAATTTC
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
123 14 0.16
125 6 0.07
126 45 0.51
127 23 0.26
ACGTcount: A:0.35, C:0.00, G:0.36, T:0.28
Consensus pattern (123 bp):
TTTTGGGAGTAAAAGGGGGAGAGAAAGTAAAAAAATTTGAAGGTAAAGGAGATAAAAAGTTTGTG
AGGGATTTGATTTTTGGGGGTAAAGAGGGAGAAATAAAATATTTTCAAGCGATTTTGA
Found at i:54055694 original size:40 final size:40
Alignment explanation
Indices: 54055646--54055952 Score: 560
Period size: 40 Copynumber: 7.7 Consensus size: 40
54055636 GCAAACACAT
* *
54055646 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
54055686 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
** *
54055726 TTGCCTTCGGGTCACAGCCCGGATATATCAACTCGCATAG
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
54055766 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
54055806 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
54055846 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
54055886 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
54055926 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
54055953 ATCCAATGCT
Statistics
Matches: 257, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 257 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:54063190 original size:16 final size:16
Alignment explanation
Indices: 54063165--54063197 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
54063155 TTATTTATAT
*
54063165 TTATTCATATAATTAA
1 TTATTAATATAATTAA
54063181 TTATTAATATAATTAA
1 TTATTAATATAATTAA
54063197 T
1 T
54063198 ATAATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATTAATATAATTAA
Found at i:54063197 original size:9 final size:9
Alignment explanation
Indices: 54063171--54063203 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
54063161 ATATTTATTC
54063171 ATATAATTA
1 ATATAATTA
54063180 AT-T-ATTA
1 ATATAATTA
54063187 ATATAATTA
1 ATATAATTA
54063196 ATATAATT
1 ATATAATT
54063204 TATTAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 6 0.27
8 2 0.09
9 14 0.64
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
ATATAATTA
Found at i:54063209 original size:22 final size:20
Alignment explanation
Indices: 54063174--54063221 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
54063164 TTTATTCATA
*
54063174 TAATTAATTATTAATATAAT
1 TAATTAATTATTAAAATAAT
54063194 TAATATAATTTATTAAAATAAT
1 TAAT-TAA-TTATTAAAATAAT
*
54063216 AAATTA
1 TAATTA
54063222 TTTAATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 4 0.17
21 5 0.21
22 15 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TAATTAATTATTAAAATAAT
Found at i:54063786 original size:33 final size:33
Alignment explanation
Indices: 54063749--54063824 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 33
54063739 ATGAAACAAA
54063749 AGAAAATATTTTACACAAATTCATCCAAACACC
1 AGAAAATATTTTACACAAATTCATCCAAACACC
* *
54063782 AGAAAATATTTTATACAGATTCATCCAAACACC
1 AGAAAATATTTTACACAAATTCATCCAAACACC
54063815 AGAAAATATT
1 AGAAAATATT
54063825 AGCTTTTCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.49, C:0.20, G:0.05, T:0.26
Consensus pattern (33 bp):
AGAAAATATTTTACACAAATTCATCCAAACACC
Found at i:54064574 original size:40 final size:40
Alignment explanation
Indices: 54064507--54064619 Score: 131
Period size: 40 Copynumber: 2.8 Consensus size: 40
54064497 AAAATAGGTT
*
54064507 TTTAGCGGCG-TTTGGATAAAAAACGCCGCTAAAGATTGAGCA
1 TTTAGCGGCGCTTT--ATGAAAAACGCCGCTAAAGATTGAG-A
* * *
54064549 -TTAGCGGCGCTTTTTGGAAAACGCCGTTAAAGATTGAGA
1 TTTAGCGGCGCTTTATGAAAAACGCCGCTAAAGATTGAGA
**
54064588 TTTAGCGGCGCTTTATGAAAAATACCGCTAAA
1 TTTAGCGGCGCTTTATGAAAAACGCCGCTAAA
54064620 AATAAGCTAG
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
39 1 0.02
40 47 0.78
41 9 0.15
42 3 0.05
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.27
Consensus pattern (40 bp):
TTTAGCGGCGCTTTATGAAAAACGCCGCTAAAGATTGAGA
Found at i:54064755 original size:41 final size:41
Alignment explanation
Indices: 54064689--54064893 Score: 275
Period size: 41 Copynumber: 4.8 Consensus size: 41
54064679 CTTTCGGGGA
* *
54064689 TTTAGCGGCGTTTTTAGGAAGGCGCCGCTAATGCCCAGGGC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCCCAGGGC
54064730 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCCCAGGGC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCCCAGGGC
* *
54064771 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCGCAGGCC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCCCAGGGC
*
54064812 TTTAGCGGCGTTTTTGTGAAAGTTGTGAAAGCGCCGCTAATGCCTAGGGC
1 TTTAGCGGCG-TTTT-T----G--G-GAAAGCGCCGCTAATGCCCAGGGC
*
54064862 TTTAGCGGCGTTTTTGGGAAAGTGCCGCTAAT
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAT
54064894 AATGCTCATG
Statistics
Matches: 147, Mismatches: 8, Indels: 18
0.85 0.05 0.10
Matches are distributed among these distances:
41 102 0.69
42 5 0.03
43 1 0.01
44 1 0.01
47 1 0.01
48 1 0.01
49 5 0.03
50 31 0.21
ACGTcount: A:0.18, C:0.21, G:0.33, T:0.27
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCCCAGGGC
Found at i:54064826 original size:82 final size:87
Alignment explanation
Indices: 54064689--54064893 Score: 285
Period size: 91 Copynumber: 2.4 Consensus size: 87
54064679 CTTTCGGGGA
* * *
54064689 TTTAGCGGCGTTTTTAGGAAGGCGCCGCTAATGCCCAGGGCTTTAGCGGCG-TTTT-T-G-G-GA
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCCCAGGCCTTTAGCGGCGTTTTTGTAGTGTGA
54064749 AAGCGCCGCTAATGCCCAGGGC
66 AAGCGCCGCTAATGCCCAGGGC
*
54064771 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCGCAGGCCTTTAGCGGCGTTTTTGTGAAAGTT
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCCCAGGCCTTTAGCGGCGTTTTTGT---AG-T
*
54064836 GTGAAAGCGCCGCTAATGCCTAGGGC
62 GTGAAAGCGCCGCTAATGCCCAGGGC
*
54064862 TTTAGCGGCGTTTTTGGGAAAGTGCCGCTAAT
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAT
54064894 AATGCTCATG
Statistics
Matches: 108, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
82 47 0.44
83 4 0.04
84 1 0.01
88 1 0.01
90 1 0.01
91 54 0.50
ACGTcount: A:0.18, C:0.21, G:0.33, T:0.27
Consensus pattern (87 bp):
TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCCCAGGCCTTTAGCGGCGTTTTTGTAGTGTGA
AAGCGCCGCTAATGCCCAGGGC
Found at i:54064865 original size:50 final size:50
Alignment explanation
Indices: 54064788--54064884 Score: 160
Period size: 50 Copynumber: 1.9 Consensus size: 50
54064778 GCGTTTTTGG
*
54064788 GAAAGCGCCGCTAATGCGCAGGCCTTTAGCGGCGTTTTTGTGAAAGTTGT
1 GAAAGCGCCGCTAATGCGCAGGCCTTTAGCGGCGTTTTTGGGAAAGTTGT
*
54064838 GAAAGCGCCGCTAATGC-CTAGGGCTTTAGCGGCGTTTTTGGGAAAGT
1 GAAAGCGCCGCTAATGCGC-AGGCCTTTAGCGGCGTTTTTGGGAAAGT
54064885 GCCGCTAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 1 0.02
50 43 0.98
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.27
Consensus pattern (50 bp):
GAAAGCGCCGCTAATGCGCAGGCCTTTAGCGGCGTTTTTGGGAAAGTTGT
Found at i:54065084 original size:66 final size:66
Alignment explanation
Indices: 54065013--54065146 Score: 241
Period size: 66 Copynumber: 2.0 Consensus size: 66
54065003 ATTTATATAT
*
54065013 TAAATAATTTCTTATATAATTGTAAAAGAGATAGCATTAATTTTAAAATATTGAATTAATTATCA
1 TAAATAATTTCTTATATAATCGTAAAAGAGATAGCATTAATTTTAAAATATTGAATTAATTATCA
54065078 C
66 C
* *
54065079 TAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTTAAAATGTTGAATTAATTATCA
1 TAAATAATTTCTTATATAATCGTAAAAGAGATAGCATTAATTTTAAAATATTGAATTAATTATCA
54065144 C
66 C
54065145 TA
1 TA
54065147 TAGTTTAGGG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (66 bp):
TAAATAATTTCTTATATAATCGTAAAAGAGATAGCATTAATTTTAAAATATTGAATTAATTATCA
C
Found at i:54065271 original size:78 final size:74
Alignment explanation
Indices: 54065160--54065307 Score: 224
Period size: 78 Copynumber: 1.9 Consensus size: 74
54065150 TTTAGGGTTT
* *
54065160 TTGGTTTAGGGTATATGGTTTAAATAGGTTTAGGTGTTACCATTTTAAGGTTTATGGATTTTGGG
1 TTGGTTTAGGGTATATGGTTTAAACAGGTTTAGGTGTTACCATTTTAAGGTTTATGGATTATGGG
54065225 TTTAGGTCC
66 TTTAGGTCC
* *
54065234 TTGGTTTAGGGTATATGCATGGTTTAGACAGGTTTAGGTGTTGCCATTTTAAGGTTTATGGATTA
1 TTGGTTTAGGG--TAT--ATGGTTTAAACAGGTTTAGGTGTTACCATTTTAAGGTTTATGGATTA
54065299 TGGGTTTAG
62 TGGGTTTAG
54065308 AGATTATGGG
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
74 11 0.17
76 3 0.05
78 52 0.79
ACGTcount: A:0.20, C:0.05, G:0.30, T:0.45
Consensus pattern (74 bp):
TTGGTTTAGGGTATATGGTTTAAACAGGTTTAGGTGTTACCATTTTAAGGTTTATGGATTATGGG
TTTAGGTCC
Found at i:54065306 original size:15 final size:15
Alignment explanation
Indices: 54065286--54065334 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
54065276 GCCATTTTAA
54065286 GGTTTATGGATTATG
1 GGTTTATGGATTATG
54065301 GGTTTA-GAGATTATG
1 GGTTTATG-GATTATG
*
54065316 GG-TTATGGTTTAT-
1 GGTTTATGGATTATG
54065329 GGTTTA
1 GGTTTA
54065335 AAGGTTGGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 2 0.07
14 12 0.40
15 16 0.53
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:54065340 original size:21 final size:21
Alignment explanation
Indices: 54065316--54065363 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
54065306 AGAGATTATG
*
54065316 GGTTATGGTTTATGGTTTAAA
1 GGTTATGGTTTAAGGTTTAAA
** *
54065337 GGTTGGGGTTTAAGGTTTAGA
1 GGTTATGGTTTAAGGTTTAAA
54065358 GGTTAT
1 GGTTAT
54065364 ATGTTAAGGG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (21 bp):
GGTTATGGTTTAAGGTTTAAA
Found at i:54065411 original size:21 final size:20
Alignment explanation
Indices: 54065382--54065420 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
54065372 GGTTTATGGT
54065382 TTTAAGGTTTTAGGGTTTAAA
1 TTTAAGG-TTTAGGGTTTAAA
*
54065403 TTTATGGTTTAGGGTTTA
1 TTTAAGGTTTAGGGTTTA
54065421 GATTAACTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (20 bp):
TTTAAGGTTTAGGGTTTAAA
Found at i:54068900 original size:21 final size:21
Alignment explanation
Indices: 54068874--54068916 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
54068864 GACAATGTTT
54068874 GGATATATGCCGATTGGAGCA
1 GGATATATGCCGATTGGAGCA
54068895 GGATATATGCCGATTGGAGCA
1 GGATATATGCCGATTGGAGCA
54068916 G
1 G
54068917 TCATGGTGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (21 bp):
GGATATATGCCGATTGGAGCA
Found at i:54069854 original size:35 final size:35
Alignment explanation
Indices: 54069788--54069854 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
54069778 TAATTATATT
*
54069788 ATTAATTTATTATTTTAAATTCTAAATTTAAATTC
1 ATTAATTTATTATTTTAAATTCTAAAGTTAAATTC
* * *
54069823 ATTAATTTTTTATATTT-AGTTTTAAAGTTAAA
1 ATTAATTTATTAT-TTTAAATTCTAAAGTTAAA
54069855 ATTTTCGTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 24 0.89
36 3 0.11
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (35 bp):
ATTAATTTATTATTTTAAATTCTAAAGTTAAATTC
Found at i:54070033 original size:42 final size:42
Alignment explanation
Indices: 54069972--54070225 Score: 312
Period size: 42 Copynumber: 6.0 Consensus size: 42
54069962 GATATGTTTT
* * * *
54069972 TAGCGGCGGTTGTGTGAAAAGCGCTGCTAAAGGTCTGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTGATCTA
*
54070014 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTGCTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTGATCTA
* * *
54070056 TAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCTGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTGATCTA
* * * *
54070098 TAGTGGCGTTTGTGGGGAAAGCACCGCGAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC-TGATCTA
* * * * *
54070141 TAGTGGCGTTTGTGGGGAAAGCTCCGCTAAAGATCTTGAGCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC-TGATCTA
*
54070184 TAGCGACGTTTGTGGG-AAAGCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGT-CTGATCTA
54070226 AACGCATTTT
Statistics
Matches: 189, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
42 129 0.68
43 60 0.32
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (42 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTGATCTA
Found at i:54070541 original size:124 final size:124
Alignment explanation
Indices: 54070318--54070667 Score: 628
Period size: 124 Copynumber: 2.8 Consensus size: 124
54070308 TTATTTCGAG
* *
54070318 TTGACGTTTCTGATCAAATAGTATAAAATCGCCTCTACCAGGATTCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
54070383 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
*
54070442 TTTACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
54070507 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
* * *
54070566 TTGACGTTTTTGAGCAAATAGTATAAAATCACCTCTACCAGGATGCTATTTGGGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* *
54070631 AAATCACGCCCTCGTGGATGCGATTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
54070668 CAAGTTTGGG
Statistics
Matches: 217, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
124 217 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
Found at i:54073850 original size:65 final size:65
Alignment explanation
Indices: 54073774--54073919 Score: 190
Period size: 65 Copynumber: 2.2 Consensus size: 65
54073764 CAAATCTAAC
* * ** *
54073774 ATTATGCAAAATTATGTAAAATTATTAAGTCC-CAA-AATTTTGTTAATGGTTA-GTAAAATTAT
1 ATTATGTAAAATTATGTAAAATTATTAAG-CCAAAACAATTTAATTAA--ATTAGGTAAAATTAT
54073836 CAA
63 CAA
54073839 ATTATGTAAAATTATGTAAAATTATTAAGCCAAAAACAATTTAATTAAATTAGGTAAAATTATCA
1 ATTATGTAAAATTATGTAAAATTATTAAGCC-AAAACAATTTAATTAAATTAGGTAAAATTATCA
54073904 A
65 A
54073905 ATTATGTAAAATTAT
1 ATTATGTAAAATTAT
54073920 TATGTCCAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
64 2 0.03
65 31 0.43
66 30 0.42
67 9 0.12
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (65 bp):
ATTATGTAAAATTATGTAAAATTATTAAGCCAAAACAATTTAATTAAATTAGGTAAAATTATCAA
Found at i:54073852 original size:10 final size:10
Alignment explanation
Indices: 54073837--54073863 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
54073827 TAAAATTATC
54073837 AAATTATGTA
1 AAATTATGTA
54073847 AAATTATGTA
1 AAATTATGTA
54073857 AAATTAT
1 AAATTAT
54073864 TAAGCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
AAATTATGTA
Found at i:54073908 original size:18 final size:18
Alignment explanation
Indices: 54073885--54073919 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
54073875 CAATTTAATT
54073885 AAATTAGGTAAAATTATC
1 AAATTAGGTAAAATTATC
*
54073903 AAATTATGTAAAATTAT
1 AAATTAGGTAAAATTAT
54073920 TATGTCCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (18 bp):
AAATTAGGTAAAATTATC
Found at i:54073941 original size:121 final size:121
Alignment explanation
Indices: 54073782--54074095 Score: 574
Period size: 121 Copynumber: 2.6 Consensus size: 121
54073772 ACATTATGCA
* *
54073782 AAATTATGTAAAATTATTAAGTCCCAAAATTTTGTTAATGGTTAGTAAAATTATCAAATTATGTA
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
*
54073847 AAATTATGTAAAATTATTAAGCCAAAAACAATTTAATTAAATTAGGTAAAATTATC
66 AAATTATGTAAAATTATTAAGCCAAAAAAAATTTAATTAAATTAGGTAAAATTATC
*
54073903 AAATTATGTAAAATTATTATGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
54073968 AAATTATGTAAAATTATTAAGCCAAAAAAAATTTAATTAAATTAGGTAAAATTATC
66 AAATTATGTAAAATTATTAAGCCAAAAAAAATTTAATTAAATTAGGTAAAATTATC
* *
54074024 AAATTAGGTAAAATTATTAAGTCCAACAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
54074089 AAATTAT
66 AAATTAT
54074096 TAAGTCCAAC
Statistics
Matches: 186, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 186 1.00
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (121 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
AAATTATGTAAAATTATTAAGCCAAAAAAAATTTAATTAAATTAGGTAAAATTATC
Found at i:54073973 original size:10 final size:10
Alignment explanation
Indices: 54073958--54073984 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
54073948 TAAAATTATC
54073958 AAATTATGTA
1 AAATTATGTA
54073968 AAATTATGTA
1 AAATTATGTA
54073978 AAATTAT
1 AAATTAT
54073985 TAAGCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
AAATTATGTA
Found at i:54074029 original size:18 final size:18
Alignment explanation
Indices: 54074006--54074040 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
54073996 AAATTTAATT
54074006 AAATTAGGTAAAATTATC
1 AAATTAGGTAAAATTATC
54074024 AAATTAGGTAAAATTAT
1 AAATTAGGTAAAATTAT
54074041 TAAGTCCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.34
Consensus pattern (18 bp):
AAATTAGGTAAAATTATC
Found at i:54074090 original size:55 final size:55
Alignment explanation
Indices: 54074013--54074149 Score: 256
Period size: 55 Copynumber: 2.5 Consensus size: 55
54074003 ATTAAATTAG
* *
54074013 GTAAAATTATCAAATTAGGTAAAATTATTAAGTCCAACAATTGTGTTAATGGTTA
1 GTAAAATTATCAAATTATGTAAAATTATTAAGTCCAACAATTGTGTTAATGGTGA
54074068 GTAAAATTATCAAATTATGTAAAATTATTAAGTCCAACAATTGTGTTAATGGTGA
1 GTAAAATTATCAAATTATGTAAAATTATTAAGTCCAACAATTGTGTTAATGGTGA
54074123 GTAAAATTATCAAATTATGTAAAATTA
1 GTAAAATTATCAAATTATGTAAAATTA
54074150 GGTTACAGTT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 80 1.00
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (55 bp):
GTAAAATTATCAAATTATGTAAAATTATTAAGTCCAACAATTGTGTTAATGGTGA
Found at i:54074179 original size:18 final size:18
Alignment explanation
Indices: 54074156--54074197 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
54074146 ATTAGGTTAC
54074156 AGTTAGAGTTTTTAATTA
1 AGTTAGAGTTTTTAATTA
*
54074174 AGTTAGGGTTTTTAATTA
1 AGTTAGAGTTTTTAATTA
*
54074192 AATTAG
1 AGTTAG
54074198 GTTAGGGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (18 bp):
AGTTAGAGTTTTTAATTA
Found at i:54074207 original size:29 final size:29
Alignment explanation
Indices: 54074175--54074256 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
54074165 TTTTAATTAA
54074175 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
**
54074204 GTTAGACTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
*
54074233 GTTAGGGTTTTTAATTAAGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGG
54074257 GTTTTTAATT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.45
Consensus pattern (29 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGG
Found at i:54074215 original size:47 final size:48
Alignment explanation
Indices: 54074144--54074520 Score: 227
Period size: 47 Copynumber: 7.5 Consensus size: 48
54074134 AAATTATGTA
**
54074144 AAATTAGGTTACAGTTAGAGTTTTTAATTA-AGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGAGTTTTTAATTAGAGTTAGGGTTTTTAATT
* *
54074191 AAATTAGGTTAGGGTTAGACTTTTTAATTAAATTAGGTTAGGGTTAGGGTTT--TT
1 AAATTAGGTTAGGGTTAGAGTTTTTAATT--A-GA-GTTAGGGTT----TTTAATT
* ** * * *
54074245 -AATTAAGTTAGGGTTTTTAATTAAGTTAGATTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGG-TTAGAGTT--TTTA-ATTAGAGTTAGGGTTTTTAATT
* * * * *
54074296 AAGTTAGGGTT---TTTA-A-TTAAGTTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTA-GGTTAGGGTTAGAGTT--TTTA-ATTAGAGTTAGGGTTTTTAATT
*
54074343 AAATTAGGTTAGGGTAAGAGTTTTTAATTA-AGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGAGTTTTTAATTAGAGTTAGGGTTTTTAATT
* * *
54074390 AAGTTATGTTAGGGTTAGGGTTTTTAATTAGGTTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGAGTTTTT-A--A--TTA-G--A--GTTAGGGTTTTTAATT
** *
54074448 AGGTTAGGTTAGGGTTAGGGTTTTTAATTA-AGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGAGTTTTTAATTAGAGTTAGGGTTTTTAATT
* *
54074495 AAGTTAGGTTAGGGTTAGGGTTTTTA
1 AAATTAGGTTAGGGTTAGAGTTTTTA
54074521 CTTAAATTAG
Statistics
Matches: 269, Mismatches: 28, Indels: 66
0.74 0.08 0.18
Matches are distributed among these distances:
46 4 0.01
47 139 0.52
48 5 0.02
49 12 0.04
50 2 0.01
51 5 0.02
52 16 0.06
53 27 0.10
54 7 0.03
55 2 0.01
56 7 0.03
57 4 0.01
58 39 0.14
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.46
Consensus pattern (48 bp):
AAATTAGGTTAGGGTTAGAGTTTTTAATTAGAGTTAGGGTTTTTAATT
Found at i:54074229 original size:76 final size:76
Alignment explanation
Indices: 54074147--54074607 Score: 522
Period size: 76 Copynumber: 6.1 Consensus size: 76
54074137 TTATGTAAAA
* * **
54074147 TTAGGTTACAGTTAGAGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGACT
1 TTAGGTTAGAGTTAGAGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGT
*
54074212 TTTTAATTAAA
66 TTTTAATTAAG
* * *
54074223 TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTAGATTAGGGTTAGGGT
1 TTAGGTTAGAGTTAGAGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGT
54074288 TTTTAATTAAG
66 TTTTAATTAAG
** * * * * *
54074299 TTAGGGTTTTTAATTA-AG---TTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTAA
1 TTA-GG-TTAGAGTTAGAGTTTTTA-ATTA-AGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTA
*
54074360 GAGTTTTTAATTAAG
62 GGGTTTTTAATTAAG
** * * * * *
54074375 TTAGGGTTTTTAATTA-AG-TTAT-GTTAGGGTTAGGGTTTTTAATTAGGTTAGGTTAGGGTTAG
1 TTA-GG-TTAGAGTTAGAGTTTTTAATTA-AGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAG
*
54074437 GGTTTTTAATTAGG
63 GGTTTTTAATTAAG
* *
54074451 TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGT
1 TTAGGTTAGAGTTAGAGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGT
* *
54074516 TTTTACTTAAA
66 TTTTAATTAAG
* * * *
54074527 TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGTGTTTTTAATTAGGTTAGGTTAGGGTTAGGGT
1 TTAGGTTAGAGTTAGAGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGT
54074592 TTTTAATTAAG
66 TTTTAATTAAG
54074603 TTAGG
1 TTAGG
54074608 GTTTTTAAAA
Statistics
Matches: 335, Mismatches: 41, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
74 8 0.02
75 6 0.02
76 309 0.92
77 6 0.02
78 6 0.02
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.46
Consensus pattern (76 bp):
TTAGGTTAGAGTTAGAGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGT
TTTTAATTAAG
Found at i:54074256 original size:18 final size:18
Alignment explanation
Indices: 54074233--54074321 Score: 104
Period size: 18 Copynumber: 5.3 Consensus size: 18
54074223 TTAGGTTAGG
54074233 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
54074251 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
54074269 GTTA--G------ATTAGG
1 GTTAGGGTTTTTAATTA-A
54074280 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
54074298 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
54074316 GTTAGG
1 GTTAGG
54074322 TTAGGGTTAG
Statistics
Matches: 60, Mismatches: 2, Indels: 18
0.75 0.03 0.22
Matches are distributed among these distances:
10 4 0.07
11 4 0.07
13 1 0.02
16 1 0.02
18 46 0.77
19 4 0.07
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.47
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:54074504 original size:17 final size:18
Alignment explanation
Indices: 54074461--54074502 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
54074451 TTAGGTTAGG
54074461 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
54074479 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
54074497 GTTAGG
1 GTTAGG
54074503 TTAGGGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:54074531 original size:47 final size:47
Alignment explanation
Indices: 54074328--54074531 Score: 237
Period size: 47 Copynumber: 4.1 Consensus size: 47
54074318 TAGGTTAGGG
* * * *
54074328 TTAGGGTTTTTAATTAAATTAGGTTAGGGTAAGAGTTTTTAATTAAG
1 TTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAA
*
54074375 TTAGGGTTTTTAATTAAGTTATGTTAGGGTTAGGGTTTTTAATTAGGTTAGGTTA
1 TTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTA----A----A
* *
54074430 GGGTTAGGGTTTTTAATTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAAG
1 ---TTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAA
*
54074480 TTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTACTTAAA
1 TTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAA
54074527 TTAGG
1 TTAGG
54074532 TTAGGGTTAG
Statistics
Matches: 135, Mismatches: 11, Indels: 22
0.80 0.07 0.13
Matches are distributed among these distances:
47 90 0.67
51 1 0.01
54 1 0.01
58 43 0.32
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.46
Consensus pattern (47 bp):
TTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAA
Found at i:54074559 original size:29 final size:29
Alignment explanation
Indices: 54074298--54074484 Score: 179
Period size: 29 Copynumber: 6.8 Consensus size: 29
54074288 TTTTAATTAA
54074298 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
*
54074327 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
* *
54074356 GTAAGAGTTTTTAATT-A---A-GTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
*
54074380 GTT----TTTAATTAAGTTATGTTAGGGTTA--
1 GTTAGGGTTT--TTAA-TTAAGTTA-GGTTAGG
*
54074407 G----GGTTTTTAATTAGGTTAGGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
*
54074432 GTTAGGGTTTTTAATTAGGTTAGGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
54074461 GTTAGGGTTTTTAATTAAGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGG
54074485 GTTTTTAATT
Statistics
Matches: 134, Mismatches: 7, Indels: 34
0.77 0.04 0.19
Matches are distributed among these distances:
20 3 0.02
22 4 0.03
23 7 0.05
24 15 0.11
25 6 0.04
27 5 0.04
28 1 0.01
29 93 0.69
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.45
Consensus pattern (29 bp):
GTTAGGGTTTTTAATTAAGTTAGGTTAGG
Found at i:54074559 original size:47 final size:47
Alignment explanation
Indices: 54074508--54074625 Score: 182
Period size: 47 Copynumber: 2.5 Consensus size: 47
54074498 TTAGGTTAGG
*
54074508 GTTAGGGTTTTTACTTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
* **
54074555 GTTAGTGTTTTTAATTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
**
54074602 GTTAGGGTTTTTAAAAAAATTAGG
1 GTTAGGGTTTTTAATTAAATTAGG
54074626 GTTTTTATTA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 62 1.00
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.46
Consensus pattern (47 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
Found at i:54074564 original size:18 final size:18
Alignment explanation
Indices: 54074537--54074632 Score: 80
Period size: 18 Copynumber: 5.7 Consensus size: 18
54074527 TTAGGTTAGG
54074537 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
* *
54074555 GTTAGTGTTTTTAATTAG
1 GTTAGGGTTTTTAATTAA
**
54074573 GTTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
54074584 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
**
54074602 GTTAGGGTTTTTAAAAAA
1 GTTAGGGTTTTTAATTAA
*
54074620 ATTAGGGTTTTTA
1 GTTAGGGTTTTTA
54074633 TTACATCAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
11 5 0.08
12 2 0.03
13 1 0.02
14 2 0.03
15 2 0.03
16 1 0.02
17 1 0.02
18 48 0.77
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:54074696 original size:25 final size:25
Alignment explanation
Indices: 54074628--54074696 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
54074618 AAATTAGGGT
* *
54074628 TTTTATTACATCAAATTGAACTTCTA
1 TTTTATTACATCAAA-TAAAATTCTA
* *
54074654 TTTTATTATATTAAATAAAATTCTA
1 TTTTATTACATCAAATAAAATTCTA
*
54074679 TTTTATTACATCAGATAA
1 TTTTATTACATCAAATAA
54074697 TAAATTTAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 23 0.64
26 13 0.36
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.48
Consensus pattern (25 bp):
TTTTATTACATCAAATAAAATTCTA
Found at i:54075127 original size:18 final size:18
Alignment explanation
Indices: 54075100--54075134 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
54075090 CGGAAAAGGA
* *
54075100 TACATGTAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
54075118 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
54075135 AAACACACCT
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:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:54076926 original size:30 final size:30
Alignment explanation
Indices: 54076899--54076960 Score: 99
Period size: 31 Copynumber: 2.1 Consensus size: 30
54076889 ATGAAAATAT
*
54076899 AAAAAATTTAAAATTATTTTTAAAAAATAGA
1 AAAAAAATTAAAATTA-TTTTAAAAAATAGA
54076930 AAAAAAATTAAAATTATTTTAAAAAAT-GA
1 AAAAAAATTAAAATTATTTTAAAAAATAGA
54076959 AA
1 AA
54076961 TTGAGGGGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 4 0.13
30 11 0.37
31 15 0.50
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (30 bp):
AAAAAAATTAAAATTATTTTAAAAAATAGA
Found at i:54077012 original size:51 final size:51
Alignment explanation
Indices: 54076957--54077069 Score: 199
Period size: 51 Copynumber: 2.2 Consensus size: 51
54076947 TTTAAAAAAT
* *
54076957 GAAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTTGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
*
54077008 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
54077059 GAAATTGAGAG
1 GAAATTGAGAG
54077070 AATTTTTGAA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
Found at i:54077066 original size:22 final size:22
Alignment explanation
Indices: 54077041--54077091 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
54077031 AAATATGGGT
54077041 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
*
54077063 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
54077085 TTGAGAG
1 TTGAGAG
54077092 GATTAGAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:54078419 original size:15 final size:14
Alignment explanation
Indices: 54078401--54078430 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
54078391 TTAGCAGTTA
54078401 AGGGATTATGTGTTT
1 AGGGATTATG-GTTT
54078416 AGGGATTATGGTTT
1 AGGGATTATGGTTT
54078430 A
1 A
54078431 TTGTTTAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.43
Consensus pattern (14 bp):
AGGGATTATGGTTT
Found at i:54078457 original size:14 final size:15
Alignment explanation
Indices: 54078440--54078476 Score: 67
Period size: 14 Copynumber: 2.5 Consensus size: 15
54078430 ATTGTTTAGT
54078440 GTTTAAGGGTT-GGG
1 GTTTAAGGGTTAGGG
54078454 GTTTAAGGGTTAGGG
1 GTTTAAGGGTTAGGG
54078469 GTTTAAGG
1 GTTTAAGG
54078477 TTTATAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.19, C:0.00, G:0.46, T:0.35
Consensus pattern (15 bp):
GTTTAAGGGTTAGGG
Found at i:54078480 original size:50 final size:50
Alignment explanation
Indices: 54078425--54078530 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
54078415 TAGGGATTAT
* * * * * *
54078425 GGTTTATTGTTTAGTGTTTAAGGGTT-GGGGTTTAAGGGTTAGGGGTTTAA
1 GGTTTATAGTTTA-TGTTTAAGGATTCAGGGTTTAAGGGATAAGGGTTAAA
* *
54078475 GGTTTATAGTTTATGTTTTATGATTCAGGGTTTAAGGGATAAGGGTTAAA
1 GGTTTATAGTTTATGTTTAAGGATTCAGGGTTTAAGGGATAAGGGTTAAA
54078525 GGTTTA
1 GGTTTA
54078531 GGGATTATAG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 9 0.19
50 38 0.81
ACGTcount: A:0.23, C:0.01, G:0.33, T:0.43
Consensus pattern (50 bp):
GGTTTATAGTTTATGTTTAAGGATTCAGGGTTTAAGGGATAAGGGTTAAA
Found at i:54078599 original size:22 final size:21
Alignment explanation
Indices: 54078574--54078622 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
54078564 TGGGGTTTAA
54078574 GGTTTAGGTGTTAG-GGATTAGG
1 GGTTTAGG-GTTAGAGGATTA-G
* *
54078596 GGTTAAGGGTTAGAGGTTTAG
1 GGTTTAGGGTTAGAGGATTAG
54078617 GGTTTA
1 GGTTTA
54078623 TAATTTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (21 bp):
GGTTTAGGGTTAGAGGATTAG
Found at i:54078616 original size:8 final size:7
Alignment explanation
Indices: 54078412--54078622 Score: 54
Period size: 7 Copynumber: 29.7 Consensus size: 7
54078402 GGGATTATGT
54078412 GTTTAGG
1 GTTTAGG
* *
54078419 GATTATG
1 GTTTAGG
**
54078426 GTTTATT
1 GTTTAGG
*
54078433 GTTTAGT
1 GTTTAGG
54078440 GTTTAAGG
1 GTTT-AGG
*
54078448 G-TTGGG
1 GTTTAGG
54078454 GTTTAAGG
1 GTTT-AGG
54078462 G-TTAGGG
1 GTTTA-GG
*
54078469 GTTTAAG
1 GTTTAGG
**
54078476 GTTTATA
1 GTTTAGG
*
54078483 GTTTATG
1 GTTTAGG
* *
54078490 TTTTATG
1 GTTTAGG
* *
54078497 ATTCAGG
1 GTTTAGG
54078504 GTTTAAGG
1 GTTT-AGG
* *
54078512 GATAAGG
1 GTTTAGG
* *
54078519 GTTAAAG
1 GTTTAGG
54078526 GTTTAGG
1 GTTTAGG
* **
54078533 GATTATA
1 GTTTAGG
*
54078540 GTTTATG
1 GTTTAGG
*
54078547 GATTATGG
1 GTTTA-GG
* *
54078555 TTTTAAG
1 GTTTAGG
*
54078562 G-TTGGG
1 GTTTAGG
*
54078568 GTTTAAG
1 GTTTAGG
54078575 GTTTA-G
1 GTTTAGG
54078581 GTGTTAGG
1 GT-TTAGG
*
54078589 GATTAGGG
1 GTTTA-GG
*
54078597 GTTAAGG
1 GTTTAGG
54078604 G-TTAGAG
1 GTTTAG-G
54078611 GTTTAGG
1 GTTTAGG
54078618 GTTTA
1 GTTTA
54078623 TAATTTATAT
Statistics
Matches: 148, Mismatches: 43, Indels: 26
0.68 0.20 0.12
Matches are distributed among these distances:
6 14 0.09
7 105 0.71
8 29 0.20
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:54078676 original size:21 final size:21
Alignment explanation
Indices: 54078641--54078738 Score: 67
Period size: 21 Copynumber: 4.6 Consensus size: 21
54078631 ATTTTATGAT
*
54078641 TTAATGTTTAAGGGA-TAAGGG
1 TTAAGGTTT-AGGGATTAAGGG
* *
54078662 TTAGAGGTTTAGGGATTATGGT
1 TTA-AGGTTTAGGGATTAAGGG
* * *
54078684 TTAAGGGTTGGGGATTAAGGT
1 TTAAGGTTTAGGGATTAAGGG
*
54078705 TTAA-GTGTTAGGG-GTAAGGG
1 TTAAGGT-TTAGGGATTAAGGG
*
54078725 TTATGGGTTTAGGG
1 TTA-AGGTTTAGGG
54078739 TTTATAGTTC
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
20 9 0.15
21 38 0.62
22 14 0.23
ACGTcount: A:0.24, C:0.00, G:0.40, T:0.36
Consensus pattern (21 bp):
TTAAGGTTTAGGGATTAAGGG
Found at i:54078739 original size:120 final size:122
Alignment explanation
Indices: 54078591--54078809 Score: 304
Period size: 120 Copynumber: 1.8 Consensus size: 122
54078581 GTGTTAGGGA
* * *
54078591 TTAGGGGTTAAGGGTTAGAGGTTTAGGGTTTATAATTTATATTTTATGATTTAATGTTTAAGGGA
1 TTAGGGGTTAAGGGTTAGAGGTTTAGGGTTTATAATTCATATTTTACGATTTAATGTTTAAAGGA
54078656 TAAGG-GTTAGAGGTTT-AGGGATTAT-GGTTTAAGGGTTGGGGATTAAGGTTTAAGTG
66 T-AGGTGTTAGAGGTTTAAGGG-TTATAGGTTTAAGGGTTGGGGATTAAGGTTTAAGTG
* * *
54078712 TTAGGGG-TAAGGGTTATG-GGTTTAGGGTTTATAGTTCATGTTTTACGATTTAGTGTTTAAAGG
1 TTAGGGGTTAAGGGTTA-GAGGTTTAGGGTTTATAATTCATATTTTACGATTTAATGTTTAAAGG
*
54078775 ATAGGTGTTAGGGGTTTAAGGGTTATAAGGTTTAA
65 ATAGGTGTTAGAGGTTTAAGGGTTAT-AGGTTTAA
54078810 AGGACAGGGT
Statistics
Matches: 86, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
119 3 0.03
120 64 0.74
121 12 0.14
122 7 0.08
ACGTcount: A:0.26, C:0.01, G:0.33, T:0.41
Consensus pattern (122 bp):
TTAGGGGTTAAGGGTTAGAGGTTTAGGGTTTATAATTCATATTTTACGATTTAATGTTTAAAGGA
TAGGTGTTAGAGGTTTAAGGGTTATAGGTTTAAGGGTTGGGGATTAAGGTTTAAGTG
Found at i:54078835 original size:15 final size:15
Alignment explanation
Indices: 54078815--54078862 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
54078805 TTTAAAGGAC
54078815 AGGGTTTAAGGTTTT
1 AGGGTTTAAGGTTTT
*
54078830 AGGGTTT-AGGGTTT
1 AGGGTTTAAGGTTTT
*
54078844 AGGGTTTATGGTTTT
1 AGGGTTTAAGGTTTT
54078859 AGGG
1 AGGG
54078863 ATAATGATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 13 0.45
15 16 0.55
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.44
Consensus pattern (15 bp):
AGGGTTTAAGGTTTT
Found at i:54078837 original size:7 final size:7
Alignment explanation
Indices: 54078815--54078862 Score: 60
Period size: 7 Copynumber: 6.6 Consensus size: 7
54078805 TTTAAAGGAC
54078815 AGGGTTT
1 AGGGTTT
*
54078822 AAGGTTTT
1 -AGGGTTT
54078830 AGGGTTT
1 AGGGTTT
54078837 AGGGTTT
1 AGGGTTT
54078844 AGGGTTT
1 AGGGTTT
*
54078851 ATGGTTTT
1 A-GGGTTT
54078859 AGGG
1 AGGG
54078863 ATAATGATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
7 23 0.66
8 12 0.34
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.44
Consensus pattern (7 bp):
AGGGTTT
Found at i:54079333 original size:124 final size:125
Alignment explanation
Indices: 54079165--54079405 Score: 362
Period size: 124 Copynumber: 1.9 Consensus size: 125
54079155 AATGGCGCCG
* * *
54079165 TTTCGCTTCAGGAATATAATTTTAAGTGGCGTTTTTTGTAAAACGCCACAAATGTTATGCAATTA
1 TTTCACTTCAGGAACATAATTTTAAGTGGCATTTTTTGTAAAACGCCACAAATGTTATGCAATTA
* *
54079230 CTGGC-TTTTTTATAAAACGCCGCAAATATTGAAATTTCAATTTGACTTAAACGGTGCCA
66 CTGGCGTTTATTATAAAACGCCGCAAATACTGAAATTTCAATTTGACTTAAACGGTGCCA
**
54079289 TTTCACTTCAGGAACATAATTTTTAA-TGGCATTTTGTT-TAAAACGCTGCAAATGTTATGCAAT
1 TTTCACTTCAGGAACATAA-TTTTAAGTGGCATTTT-TTGTAAAACGCCACAAATGTTATGCAAT
* *
54079352 TAGTGGCGTTTATTGTAAAACGCCGCAAATACTGAAATTTCAATTTGACTTAAA
64 TACTGGCGTTTATTATAAAACGCCGCAAATACTGAAATTTCAATTTGACTTAAA
54079406 TGCCGTCGTG
Statistics
Matches: 105, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
124 54 0.51
125 51 0.49
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (125 bp):
TTTCACTTCAGGAACATAATTTTAAGTGGCATTTTTTGTAAAACGCCACAAATGTTATGCAATTA
CTGGCGTTTATTATAAAACGCCGCAAATACTGAAATTTCAATTTGACTTAAACGGTGCCA
Found at i:54082221 original size:43 final size:43
Alignment explanation
Indices: 54082147--54082349 Score: 196
Period size: 43 Copynumber: 4.8 Consensus size: 43
54082137 CAGCGTTAAA
* ** * * *
54082147 AGAAAGGCGCCGCTAAAGAACATG-ACATTTAGCGGTGTTTATG
1 AGAAAAGCGCCGCTAAAGGTCATGTTC-TTTAGCGGCGTTTGTG
* * * *
54082190 ACAAAAGCGCCGCTAAATGTCATGTTCTTTAGCAGCATTTGTG
1 AGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTG
* * ** *
54082233 AGAAAAGTGTCGCTAAAGGTCATGTT-TTTAGCATCGTTTCTG
1 AGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTG
* * * *
54082275 ATAAAAACGCCGCTAAAGGTAATGTTCTTCAGCGGCGTTTGTG
1 AGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTG
*
54082318 AGAAAA-TGCCGCTAAAGGTCATGTTCTTTAGC
1 AGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
54082350 AAGCGCCGCT
Statistics
Matches: 128, Mismatches: 30, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
42 57 0.45
43 70 0.55
44 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (43 bp):
AGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTG
Found at i:54082289 original size:42 final size:42
Alignment explanation
Indices: 54082174--54082350 Score: 176
Period size: 42 Copynumber: 4.2 Consensus size: 42
54082164 GAACATGACA
* * * * *
54082174 TTTAGCGGTGTTTATGACAAAAGCGCCGCTAAATGTCATGTTC
1 TTTAGCAGCGTTTGTGA-AAAAACGCCGCTAAAGGTCATGTTC
* ** *
54082217 TTTAGCAGCATTTGTGAGAAAAGTGTCGCTAAAGGTCATGTT-
1 TTTAGCAGCGTTTGTGA-AAAAACGCCGCTAAAGGTCATGTTC
* * *
54082259 TTTAGCATCGTTTCTGATAAAAACGCCGCTAAAGGTAATGTTC
1 TTTAGCAGCGTTTGTGA-AAAAACGCCGCTAAAGGTCATGTTC
* * * *
54082302 TTCAGCGGCGTTTGTGAGAAAATGCCGCTAAAGGTCATGTTC
1 TTTAGCAGCGTTTGTGAAAAAACGCCGCTAAAGGTCATGTTC
54082344 TTTAGCA
1 TTTAGCA
54082351 AGCGCCGCTA
Statistics
Matches: 108, Mismatches: 25, Indels: 3
0.79 0.18 0.02
Matches are distributed among these distances:
42 61 0.56
43 47 0.44
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (42 bp):
TTTAGCAGCGTTTGTGAAAAAACGCCGCTAAAGGTCATGTTC
Found at i:54082291 original size:85 final size:85
Alignment explanation
Indices: 54082183--54082350 Score: 239
Period size: 85 Copynumber: 2.0 Consensus size: 85
54082173 ATTTAGCGGT
* * * * *
54082183 GTTTATGACAAAAGCGCCGCTAAATGTCATGTTCTTTAGCAGCATTTGTGAGAAAAGTGTCGCTA
1 GTTTATGACAAAAACGCCGCTAAAGGTAATGTTCTTCAGCAGCATTTGTGAGAAAA-TGCCGCTA
54082248 AAGGTCATGTT-TTTAGCATC
65 AAGGTCATGTTCTTTAGCATC
* * * *
54082268 GTTTCTGATAAAAACGCCGCTAAAGGTAATGTTCTTCAGCGGCGTTTGTGAGAAAATGCCGCTAA
1 GTTTATGACAAAAACGCCGCTAAAGGTAATGTTCTTCAGCAGCATTTGTGAGAAAATGCCGCTAA
54082333 AGGTCATGTTCTTTAGCA
66 AGGTCATGTTCTTTAGCA
54082351 AGCGCCGCTA
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
84 18 0.25
85 55 0.75
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (85 bp):
GTTTATGACAAAAACGCCGCTAAAGGTAATGTTCTTCAGCAGCATTTGTGAGAAAATGCCGCTAA
AGGTCATGTTCTTTAGCATC
Found at i:54082419 original size:21 final size:21
Alignment explanation
Indices: 54082379--54082419 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
54082369 AGCGGCGCTT
* * *
54082379 AAAAGCGCCACTATAGGCCTA
1 AAAAACGCCACTAAAAGCCTA
54082400 AAAAACGCCACTAAAAGCCT
1 AAAAACGCCACTAAAAGCCT
54082420 GTTTTGCTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.29, G:0.15, T:0.12
Consensus pattern (21 bp):
AAAAACGCCACTAAAAGCCTA
Found at i:54099013 original size:46 final size:45
Alignment explanation
Indices: 54098946--54099271 Score: 388
Period size: 46 Copynumber: 7.6 Consensus size: 45
54098936 TTTGAGTACT
*
54098946 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
54098992 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
54099038 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
54099074 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
54099120 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
54099156 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
54099202 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCTTAGCTACACTTA
54099247 TCTGATC-AG-G-GACAAGTGATAAGTG
1 TCTGATCAAGTGAGA-AAGTGATAAGTG
54099272 ATCATATGTA
Statistics
Matches: 247, Mismatches: 12, Indels: 45
0.81 0.04 0.15
Matches are distributed among these distances:
36 58 0.23
37 2 0.01
38 1 0.00
39 2 0.01
40 5 0.02
41 1 0.00
42 7 0.03
43 15 0.06
44 3 0.01
45 21 0.09
46 132 0.53
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:54099069 original size:36 final size:36
Alignment explanation
Indices: 54099028--54099182 Score: 184
Period size: 36 Copynumber: 4.0 Consensus size: 36
54099018 GGTAGCATTA
54099028 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
54099064 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
54099109 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
54099146 GCTATACTTATCTGATCAAGTGAGAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
54099182 G
1 G
54099183 GTAGCCTTAG
Statistics
Matches: 103, Mismatches: 6, Indels: 20
0.80 0.05 0.16
Matches are distributed among these distances:
36 65 0.63
37 2 0.02
40 2 0.02
42 2 0.02
45 2 0.02
46 30 0.29
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:54099075 original size:82 final size:82
Alignment explanation
Indices: 54098982--54099228 Score: 431
Period size: 82 Copynumber: 3.0 Consensus size: 82
54098972 GGTAGCATTA
54098982 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
54099047 GTGAAAAAGTGATAAGT
66 GTGAAAAAGTGATAAGT
* * *
54099064 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
54099129 GTGAAAAAGTGATAAGT
66 GTGAAAAAGTGATAAGT
* * *
54099146 GCTATACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
*
54099211 GTGACAAAGTGATAAGT
66 GTGAAAAAGTGATAAGT
54099228 G
1 G
54099229 GTAGCCTAGC
Statistics
Matches: 156, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 156 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (82 bp):
GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
GTGAAAAAGTGATAAGT
Found at i:54100111 original size:84 final size:85
Alignment explanation
Indices: 54099982--54100137 Score: 210
Period size: 84 Copynumber: 1.8 Consensus size: 85
54099972 CCAATGATCC
* * * *
54099982 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACCACATATCTTATCTCTCTGAAGTTGCAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACCACATATCTTATCTCCCTGAAGTTGCAGAG
54100047 -AGCAGATCGCATCTAATCT
66 AAGCAGATCGCATCTAATCT
* *
54100066 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA-A-GTCTTATCTCCCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAA--AACCACATATCTTATCTCCCTGAAGTTGCAG
*
54100129 TGAAGCAGA
64 AGAAGCAGA
54100138 CTGAAGACGG
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
84 51 0.82
85 7 0.11
86 4 0.06
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (85 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACCACATATCTTATCTCCCTGAAGTTGCAGAG
AAGCAGATCGCATCTAATCT
Found at i:54100172 original size:45 final size:44
Alignment explanation
Indices: 54099982--54100354 Score: 252
Period size: 44 Copynumber: 8.6 Consensus size: 44
54099972 CCAATGATCC
* * * * *
54099982 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACCA-CATATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGA-CAGCAAATCT
* * * * *
54100026 TATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CG-CATCTAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGACAGCAAATCT
*
54100066 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA-AGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-ACAGCAAATCT
* *
54100110 TATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGACGGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGACAGCAAATCT
* ** * * * *
54100155 TATCTCCCTGAAATTGCAG-AAAGCAGA-T-CG-CATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGACAGCAAATCT
* * ** *
54100195 TATCTCCCTGAAGTTGCAGTGGGGTAGACTGAAGATGGCAAACCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGACAGCAAATCT
** * * *
54100240 TATCTCCCTGAAGTTGCAGTGGAGCAGGTTAA-AGCCG-ACAGTCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGA-CAGCA-AATCT
* * * * *
54100284 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATCA-CAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGA-CAGCAAATCT
* *
54100328 TATCTCTCTGAAGTTGCAG-AGAGCAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA
54100355 TCGAATCTAG
Statistics
Matches: 255, Mismatches: 57, Indels: 35
0.73 0.16 0.10
Matches are distributed among these distances:
39 2 0.01
40 47 0.18
41 12 0.05
42 3 0.01
43 16 0.06
44 114 0.45
45 61 0.24
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGACAGCAAATCT
Found at i:54100206 original size:85 final size:85
Alignment explanation
Indices: 54100061--54100391 Score: 294
Period size: 85 Copynumber: 3.8 Consensus size: 85
54100051 GATCGCATCT
* * * * *
54100061 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAG-AGAGCAGA-T-CG-CATCTAGTCTTATCTCCCTGAAGTTG
*
54100126 CAGTGAAGCAGACTGAAGACGGCA
62 CAGTGGAGCAGACTGAAGACGGCA
* *
54100150 AATCTTATCTCCCTGAAATTGCAGAAAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGT
1 AATCTTATCTCCCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGT
* * *
54100215 GGGGTAGACTGAAGATGGCA
66 GGAGCAGACTGAAGACGGCA
* * ** * *
54100235 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCGA-C-AGTCCTATCTCCTTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAG-AGAGCA-G--ATCG-C-ATCTAGTCTTATCTCCCTGAAGT
* * * *
54100298 TGCAGTGGAGCGGA-TTAAAATC-ACA
60 TGCAGTGGAGCAGACTGAAGA-CGGCA
* * * *
54100323 GATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGAATCTAGTCTTATCTCCCT-AACATTGCAG
1 AATCTTATCTCCCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAA-GTTGCAG
54100387 TGGAG
65 TGGAG
54100392 TAAACTGCAG
Statistics
Matches: 196, Mismatches: 36, Indels: 25
0.76 0.14 0.10
Matches are distributed among these distances:
82 1 0.01
83 3 0.02
84 25 0.13
85 65 0.33
86 6 0.03
87 7 0.04
88 33 0.17
89 53 0.27
90 2 0.01
91 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (85 bp):
AATCTTATCTCCCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGT
GGAGCAGACTGAAGACGGCA
Found at i:54100288 original size:129 final size:128
Alignment explanation
Indices: 54099982--54100302 Score: 396
Period size: 129 Copynumber: 2.5 Consensus size: 128
54099972 CCAATGATCC
* * *
54099982 TATCTCCTTGAAGTTGCAGTGGAGC-GGATTAAAACC-ACATATCTTATCTCTCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGG-TTAAAGCCGACA-ATCTTATCTCCCTGAAGTTGCAG
* **
54100045 AGAGCAGATCGCATCTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCT
64 AAAGCAGATCGCATCTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAACCT
* ** * * * *
54100110 TATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGACGGCAAATCTTATCTCCCTGAAATTGCAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCGAC-AATCTTATCTCCCTGAAGTTGCAGA
* * * *
54100175 AAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGGGTAGACTGAAG-ATGGCAAACC
65 AAGCAGATCGCATCTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTA-AGCAAACC
54100239 T
128 T
* * *
54100240 TATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCGACAGTCCTATCTCCTTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCGACAATCTTATCTCCCTGAAGTTGCAG
54100303 TGGAGCGGAT
Statistics
Matches: 161, Mismatches: 27, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
128 27 0.17
129 91 0.57
130 43 0.27
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (128 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCGACAATCTTATCTCCCTGAAGTTGCAGAA
AGCAGATCGCATCTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAACCT
Found at i:54100387 original size:173 final size:173
Alignment explanation
Indices: 54100064--54100398 Score: 428
Period size: 173 Copynumber: 1.9 Consensus size: 173
54100054 CGCATCTAAT
*
54100064 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCCTATCTCCCTGAAGTTGCAG
* * *
54100129 TGAAGCAGACTGAAGACGGCAAATCTTATCTCCCTGAAATTGCAGAAAGCAGATCGCATCTAGTC
65 TGAAGCAGACTGAAAACGACAAATCTTATCTCCCTGAAATTGCAGAAAGCAGATCGAATCTAGTC
* * *
54100194 TTATCTCCCTGAAGTTGCAGTGGGGTAGACTGAAGATGGCAAAC
130 TTATCTCCCTGAAATTGCAGTGGAGTAAACTGAAGATGGCAAAC
* * *
54100238 CTTATCTCCCTGAAGTTGCAGTGGAGCAG-GTTA-AAGCCGACAGTCCTATCTCCTTGAAGTTGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTCCTATCTCCCTGAAGTTGC
* * * * * * *
54100301 AGTGGAGCGGA-TTAAAATC-ACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGAATCTA
63 AGTGAAGCAGACTGAAAA-CGACAAATCTTATCTCCCTGAAATTGCAGAAAGCAGATCGAATCTA
54100364 GTCTTATCTCCCT-AACATTGCAGTGGAGTAAACTG
127 GTCTTATCTCCCTGAA-ATTGCAGTGGAGTAAACTG
54100399 CAGCACTAGT
Statistics
Matches: 139, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
171 3 0.02
172 3 0.02
173 74 0.53
174 59 0.42
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (173 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCCTATCTCCCTGAAGTTGCAGT
GAAGCAGACTGAAAACGACAAATCTTATCTCCCTGAAATTGCAGAAAGCAGATCGAATCTAGTCT
TATCTCCCTGAAATTGCAGTGGAGTAAACTGAAGATGGCAAAC
Found at i:54102177 original size:20 final size:18
Alignment explanation
Indices: 54102142--54102178 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
54102132 GTACCTTTTA
54102142 TTCTTTATTTTTTATTAG
1 TTCTTTATTTTTTATTAG
54102160 TTCTTTCATTTGTTTATTA
1 TTCTTT-ATTT-TTTATTA
54102179 ATTGGTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.16, C:0.08, G:0.05, T:0.70
Consensus pattern (18 bp):
TTCTTTATTTTTTATTAG
Found at i:54107573 original size:54 final size:53
Alignment explanation
Indices: 54107513--54107644 Score: 194
Period size: 54 Copynumber: 2.4 Consensus size: 53
54107503 GGGTGTGGCT
* *
54107513 GTGTGGGTCACACGGTGTAGGCCAAGTTTGGG-TGTGTGGGTTTTGGGATAGGCC
1 GTGTGGGCCACACGG-GTAGGCCAAGTTTGGGCT-TGTGGGTTTTGGGACAGGCC
*
54107567 GTGTGGGCCACACGGGATAGGCCAAGTTTGGGCTTGTGGGTTTTGGGCCAGGCC
1 GTGTGGGCCACACGGG-TAGGCCAAGTTTGGGCTTGTGGGTTTTGGGACAGGCC
54107621 GTGTGGGCCACACGGGTAAGGCCA
1 GTGTGGGCCACACGGGT-AGGCCA
54107645 GTCCGGGCAT
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
53 2 0.03
54 69 0.96
55 1 0.01
ACGTcount: A:0.14, C:0.18, G:0.43, T:0.24
Consensus pattern (53 bp):
GTGTGGGCCACACGGGTAGGCCAAGTTTGGGCTTGTGGGTTTTGGGACAGGCC
Found at i:54108303 original size:20 final size:19
Alignment explanation
Indices: 54108274--54108317 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
54108264 GTTCATAGAC
*
54108274 TTTTTAAAATTATAGTTATTA
1 TTTTTAAAATTA-AG-AATTA
54108295 TTTTT-AAATTAAGAATTA
1 TTTTTAAAATTAAGAATTA
54108313 TTTTT
1 TTTTT
54108318 TGAATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 9 0.41
19 2 0.09
20 6 0.27
21 5 0.23
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTTAAAATTAAGAATTA
Found at i:54115128 original size:12 final size:12
Alignment explanation
Indices: 54115111--54115135 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54115101 AATTTTGTAA
54115111 TAATTGGACTCT
1 TAATTGGACTCT
54115123 TAATTGGACTCT
1 TAATTGGACTCT
54115135 T
1 T
54115136 CGGACTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (12 bp):
TAATTGGACTCT
Found at i:54119358 original size:65 final size:65
Alignment explanation
Indices: 54119267--54119396 Score: 217
Period size: 65 Copynumber: 2.0 Consensus size: 65
54119257 TCCTCTTTGA
*
54119267 AGGGATTTTTTCACGTTAAATTTGTGTGTTCAATTTCTCAATTTCTTCCGCTATTTTTTACTTGT
1 AGGGATTTTTTCACGTTAAATTTGTGTGTTCAATTTCTCAATTT-TTCCGCTATATTTTACTTGT
54119332 T
65 T
* *
54119333 AGGGATTTTTT-ATGTTAAATTTGTGTGTTCAATTTCTCAATTTTTTCGCTATATTTTACTTGTT
1 AGGGATTTTTTCACGTTAAATTTGTGTGTTCAATTTCTCAATTTTTCCGCTATATTTTACTTGTT
54119397 GCTTAATCAG
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 19 0.31
65 31 0.51
66 11 0.18
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.55
Consensus pattern (65 bp):
AGGGATTTTTTCACGTTAAATTTGTGTGTTCAATTTCTCAATTTTTCCGCTATATTTTACTTGTT
Found at i:54119443 original size:13 final size:13
Alignment explanation
Indices: 54119425--54119450 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
54119415 CTAACAGTTA
54119425 ACTTATATATTCT
1 ACTTATATATTCT
54119438 ACTTATATATTCT
1 ACTTATATATTCT
54119451 TAATTTTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (13 bp):
ACTTATATATTCT
Found at i:54121679 original size:12 final size:12
Alignment explanation
Indices: 54121660--54121699 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
54121650 TTTAACCTTG
54121660 TATTATTCTTAT
1 TATTATTCTTAT
*
54121672 TCTTATTCTTAT
1 TATTATTCTTAT
*
54121684 TATTATTATTAT
1 TATTATTCTTAT
54121696 TATT
1 TATT
54121700 TACTCATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTATTCTTAT
Found at i:54121688 original size:3 final size:3
Alignment explanation
Indices: 54121660--54121699 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
54121650 TTTAACCTTG
* * *
54121660 TAT TAT TCT TAT TCT TAT TCT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
54121700 TACTCATTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:54123639 original size:15 final size:16
Alignment explanation
Indices: 54123619--54123658 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
54123609 TAATTTTTAA
*
54123619 AAGTTATAAAA-ATAT
1 AAGTTATAAAATAAAT
54123634 AAGTTATTAAAATAAAT
1 AAGTTA-TAAAATAAAT
54123651 AAGTTATA
1 AAGTTATA
54123659 TTTTTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 6 0.27
16 7 0.32
17 9 0.41
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (16 bp):
AAGTTATAAAATAAAT
Found at i:54128316 original size:24 final size:24
Alignment explanation
Indices: 54128265--54128316 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
54128255 TTCGTAGGTC
* *
54128265 AAATAAATTATGCTAATAAATGCA
1 AAATAAATTATACTAATAAATACA
* *
54128289 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACA
54128313 AAAT
1 AAAT
54128317 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACA
Found at i:54133197 original size:6 final size:6
Alignment explanation
Indices: 54133186--54133212 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
54133176 ATTATTGTCG
54133186 TTGCCA TTGCCA TTGCCA TTGCCA TTG
1 TTGCCA TTGCCA TTGCCA TTGCCA TTG
54133213 TCATCATCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.30, G:0.19, T:0.37
Consensus pattern (6 bp):
TTGCCA
Found at i:54141050 original size:25 final size:25
Alignment explanation
Indices: 54140973--54141052 Score: 106
Period size: 25 Copynumber: 3.2 Consensus size: 25
54140963 GACACACCAT
* * *
54140973 AGCTCTTATGAGCTTACCGCTTCTT
1 AGCTCATATGAGCTTACCGATTCTC
*
54140998 AGCTCGTATGAGCTTACCGATTCTC
1 AGCTCATATGAGCTTACCGATTCTC
* *
54141023 AGCTTATATGAGCTTACCGATTCAC
1 AGCTCATATGAGCTTACCGATTCTC
54141048 AGCTC
1 AGCTC
54141053 GCGAGAGTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (25 bp):
AGCTCATATGAGCTTACCGATTCTC
Found at i:54146871 original size:26 final size:26
Alignment explanation
Indices: 54146835--54146893 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
54146825 GTAAGTGTTT
54146835 TGAAACTGATACATGCTATGATATTC
1 TGAAACTGATACATGCTATGATATTC
* *
54146861 TGAAACTGATATATGTTATGATATTC
1 TGAAACTGATACATGCTATGATATTC
*
54146887 TAAAACT
1 TGAAACT
54146894 ACTGTAGGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (26 bp):
TGAAACTGATACATGCTATGATATTC
Found at i:54155035 original size:18 final size:19
Alignment explanation
Indices: 54155012--54155047 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
54155002 TGTATTAGAG
54155012 TATAAAAAA-ATTCGAAAT
1 TATAAAAAAGATTCGAAAT
54155030 TATAAAAAAGATTCGAAA
1 TATAAAAAAGATTCGAAA
54155048 AAAAAGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.61, C:0.06, G:0.08, T:0.25
Consensus pattern (19 bp):
TATAAAAAAGATTCGAAAT
Found at i:54155110 original size:13 final size:13
Alignment explanation
Indices: 54155094--54155137 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
54155084 ATTGAAGTTC
54155094 AAAAAAAATTCAA
1 AAAAAAAATTCAA
*
54155107 AAAAGAAATTC-A
1 AAAAAAAATTCAA
54155119 AAAAAAAATTCAA
1 AAAAAAAATTCAA
54155132 AAAAAA
1 AAAAAA
54155138 GTGAGAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.77, C:0.07, G:0.02, T:0.14
Consensus pattern (13 bp):
AAAAAAAATTCAA
Found at i:54156143 original size:12 final size:12
Alignment explanation
Indices: 54156126--54156229 Score: 68
Period size: 12 Copynumber: 8.4 Consensus size: 12
54156116 AAAATGAGTT
54156126 AGAAAAAGAAAGA
1 AGAAAAAGAAA-A
54156139 A-AAAAAGAAAA
1 AGAAAAAGAAAA
*
54156150 AGAAAAAGAAAT
1 AGAAAAAGAAAA
* *
54156162 TGCAAAAGAAAA
1 AGAAAAAGAAAA
*
54156174 AGAAATCA-AAAA
1 AGAAA-AAGAAAA
** *
54156186 AGTGAGAGAAAA
1 AGAAAAAGAAAA
*
54156198 AGAAAATGAAGAAA
1 AGAAAAAG-A-AAA
*
54156212 AGAAAATTGAAAA
1 AGAAAA-AGAAAA
54156225 AGAAA
1 AGAAA
54156230 TTGAGATTGA
Statistics
Matches: 71, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
11 3 0.04
12 45 0.63
13 11 0.15
14 10 0.14
15 2 0.03
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.07
Consensus pattern (12 bp):
AGAAAAAGAAAA
Found at i:54156186 original size:18 final size:18
Alignment explanation
Indices: 54156146--54156187 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
54156136 AGAAAAAAAG
**
54156146 AAAAAGAAAAAGAAATTG
1 AAAAAGAAAAAGAAATCA
*
54156164 CAAAAGAAAAAGAAATCA
1 AAAAAGAAAAAGAAATCA
54156182 AAAAAG
1 AAAAAG
54156188 TGAGAGAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.74, C:0.05, G:0.14, T:0.07
Consensus pattern (18 bp):
AAAAAGAAAAAGAAATCA
Found at i:54163070 original size:18 final size:18
Alignment explanation
Indices: 54163047--54163093 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
54163037 GCCCTGCCTT
54163047 AGATTTTGAAACTGTTAA
1 AGATTTTGAAACTGTTAA
54163065 AGATTTTGAAACTGTTAA
1 AGATTTTGAAACTGTTAA
54163083 AGATTTTGAAA
1 AGATTTTGAAA
54163094 GCTGCCATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.04, G:0.17, T:0.38
Consensus pattern (18 bp):
AGATTTTGAAACTGTTAA
Found at i:54163827 original size:25 final size:25
Alignment explanation
Indices: 54163790--54163905 Score: 135
Period size: 25 Copynumber: 4.6 Consensus size: 25
54163780 GCGGACACAC
*
54163790 CACAGCTCTTATGAGCTTACCGATT
1 CACAGCTCGTATGAGCTTACCGATT
**
54163815 CTTAGCTCGTATGAGCTTACCGATT
1 CACAGCTCGTATGAGCTTACCGATT
* *
54163840 CTCAGCTCGTATAAGCTTACCGATT
1 CACAGCTCGTATGAGCTTACCGATT
* * *
54163865 CACAGCTCGCGA-GAGCATATCGATT
1 CACAGCTCG-TATGAGCTTACCGATT
*
54163890 CATAGCTCGTATGAGC
1 CACAGCTCGTATGAGC
54163906 ATACATGTAC
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
24 1 0.01
25 75 0.97
26 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (25 bp):
CACAGCTCGTATGAGCTTACCGATT
Found at i:54183370 original size:11 final size:12
Alignment explanation
Indices: 54183354--54183389 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
54183344 GAAAAAAAAA
54183354 GAAGAGAG-AGG
1 GAAGAGAGAAGG
54183365 GAAGAGAGAAGG
1 GAAGAGAGAAGG
54183377 G-AGAGAGAAGG
1 GAAGAGAGAAGG
54183388 GA
1 GA
54183390 GGGGGGAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:54183520 original size:17 final size:17
Alignment explanation
Indices: 54183494--54183528 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
54183484 AAGGTAAAAA
*
54183494 TTTATATTTTTTTATTT
1 TTTATATTTTCTTATTT
*
54183511 TTTATTTTTTCTTATTT
1 TTTATATTTTCTTATTT
54183528 T
1 T
54183529 CTTTTATGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTATATTTTCTTATTT
Found at i:54184218 original size:13 final size:13
Alignment explanation
Indices: 54184202--54184227 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
54184192 TTTATTTGGT
54184202 TTATTGGGTTTTG
1 TTATTGGGTTTTG
54184215 TTATTGGGTTTTG
1 TTATTGGGTTTTG
54184228 GGGGTGGCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (13 bp):
TTATTGGGTTTTG
Found at i:54185248 original size:13 final size:15
Alignment explanation
Indices: 54185217--54185245 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
54185207 ACTTTTCCTT
54185217 TTAGCAAATATTATA
1 TTAGCAAATATTATA
54185232 TTAGCAAATATTAT
1 TTAGCAAATATTAT
54185246 TAGTATGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (15 bp):
TTAGCAAATATTATA
Found at i:54188951 original size:17 final size:17
Alignment explanation
Indices: 54188929--54188961 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
54188919 TAATTATACT
54188929 TGTTAATGCAATTACAG
1 TGTTAATGCAATTACAG
*
54188946 TGTTAATGCTATTACA
1 TGTTAATGCAATTACA
54188962 TATATTGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (17 bp):
TGTTAATGCAATTACAG
Found at i:54189413 original size:6 final size:6
Alignment explanation
Indices: 54189402--54189437 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
54189392 ATTATAATAA
*
54189402 TTAATT TTAATT TTAATT TTAATT TTAATG TTAATT
1 TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT
54189438 ATTTGAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (6 bp):
TTAATT
Found at i:54190823 original size:25 final size:24
Alignment explanation
Indices: 54190795--54190856 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 24
54190785 ACGAATACTC
* *
54190795 AGCTCGTATGAGCTTATTGTTATTT
1 AGCTCGTATGAGCTTACTGTT-TAT
* *
54190820 AGCTCGGAAGAGCTTACTGTTTAT
1 AGCTCGTATGAGCTTACTGTTTAT
54190844 AGCTCGTATGAGC
1 AGCTCGTATGAGC
54190857 ATACATGTGC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
24 13 0.42
25 18 0.58
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (24 bp):
AGCTCGTATGAGCTTACTGTTTAT
Found at i:54193073 original size:58 final size:58
Alignment explanation
Indices: 54192978--54193094 Score: 216
Period size: 58 Copynumber: 2.0 Consensus size: 58
54192968 AAGAAGATGG
*
54192978 TCCCTTAACCCTTTTTGTTTTCCTTATTTTATTACTTTAACATTTTTATTAATAAATT
1 TCCCCTAACCCTTTTTGTTTTCCTTATTTTATTACTTTAACATTTTTATTAATAAATT
*
54193036 TCCCCTAACCCTTTTTGTTTTTCTTATTTTATTACTTTAACATTTTTATTAATAAATT
1 TCCCCTAACCCTTTTTGTTTTCCTTATTTTATTACTTTAACATTTTTATTAATAAATT
54193094 T
1 T
54193095 ACTACAAAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.24, C:0.17, G:0.02, T:0.57
Consensus pattern (58 bp):
TCCCCTAACCCTTTTTGTTTTCCTTATTTTATTACTTTAACATTTTTATTAATAAATT
Done.