Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 206 of 210
Found at i:60840976 original size:15 final size:14
Alignment explanation
Indices: 60840958--60841000 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
60840948 TTATAGAAAT
60840958 AAATATTATTTTAAA
1 AAATATT-TTTTAAA
60840973 AAATTATTTTTTAAA
1 AAA-TATTTTTTAAA
60840988 AAATATGTTTTTA
1 AAATAT-TTTTTA
60841001 GCGGTGTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 3 0.12
15 19 0.73
16 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
AAATATTTTTTAAA
Found at i:60841095 original size:43 final size:42
Alignment explanation
Indices: 60840999--60841348 Score: 298
Period size: 43 Copynumber: 8.3 Consensus size: 42
60840989 AATATGTTTT
* * * * *
60840999 TAGCGGTGTTTGTGTGAAAAGCGCTGTTAAAGGTC-TGATCTT
1 TAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAAGTCATGATCTA
* * * * *
60841041 TCA-CGGCATTTGTGAGAAAAGTGCCGTTAAAAGTGATGATCTG
1 T-AGCGGCGTTTGTG-GAAAAGCGCCGCTAAAAGTCATGATCTA
* * * *
60841084 TAGCGGCATTTGTGGTAAAAGCGTCGTTAAAATTCATGA-CTTA
1 TAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAAGTCATGATC-TA
* * **
60841127 TAGCGTCGTTTGTGGAAAAAGTGTTGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAAGTCATGATCTA
*
60841170 TAGCGGCGTTTGTGGGAAAA--G-CGCTAAAAGTCATGATCTT
1 TAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAAGTCATGATCTA
* * * *
60841210 TAGCGGCGTTTGAGGAAAAGCGCCGTTAAAAGTCTTGTTCTA
1 TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAAGTCATGATCTA
* * *
60841252 TAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCTTGTTCTA
1 TAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAAGTCATGATCTA
* ** * *
60841295 TAGCGGCGTTTGTGTGAAAAACGCCGCTAATGGTCTTGTTCTA
1 TAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAAGTCATGATCTA
60841338 TAGCGGCGTTT
1 TAGCGGCGTTT
60841349 CTTTCTAAAA
Statistics
Matches: 264, Mismatches: 33, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
39 6 0.02
40 29 0.11
41 2 0.01
42 57 0.22
43 167 0.63
44 3 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.31
Consensus pattern (42 bp):
TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAAGTCATGATCTA
Found at i:60841255 original size:125 final size:126
Alignment explanation
Indices: 60840999--60841314 Score: 327
Period size: 125 Copynumber: 2.5 Consensus size: 126
60840989 AATATGTTTT
* * * * * * *
60840999 TAGCGGTGTTTGTGTGAAAAGCGCTGTTAAAGGTC-TGATCTTTCA-CGGCATTTGTGAGAAAAG
1 TAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAAGTCATGATCTAT-AGCGGCGTTTGTGGGAAAA-
* * * * *
60841062 TGCCGTTAAAAGTGATGATCTGTAGCGGCATTTGTGGTAAAAGCGTCGTTAAAATTCATGACTTA
64 -G-CGCTAAAAGTCATGATCTGTAGCGGCATTTGAGGTAAAAGCGCCGTTAAAAGTCATGACTTA
* * **
60841127 TAGCGTCGTTTGTG-GAAAAAGTGTTGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAG
1 TAGCGGCGTTTGTGTG-AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAG
* * * *
60841191 CGCTAAAAGTCATGATCTTTAGCGGCGTTTGAGG-AAAAGCGCCGTTAAAAGTCTTG-TTCTA
65 CGCTAAAAGTCATGATCTGTAGCGGCATTTGAGGTAAAAGCGCCGTTAAAAGTCATGACT-TA
* * * *
60841252 TAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCTTGTTCTATAGCGGCGTTTGTGTGAAAA
1 TAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAA
60841315 ACGCCGCTAA
Statistics
Matches: 157, Mismatches: 26, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
124 1 0.01
125 74 0.47
126 30 0.19
127 2 0.01
128 28 0.18
129 22 0.14
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (126 bp):
TAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGC
GCTAAAAGTCATGATCTGTAGCGGCATTTGAGGTAAAAGCGCCGTTAAAAGTCATGACTTA
Found at i:60841299 original size:168 final size:170
Alignment explanation
Indices: 60840999--60841315 Score: 376
Period size: 168 Copynumber: 1.9 Consensus size: 170
60840989 AATATGTTTT
* * * * *
60840999 TAGCGGTGTTTGTGTGAAAAGCGCTGTTAAAGGTCTGATCTTTCACGGCATTTGTGAGAAAAGTG
1 TAGCGGCGTTTGTGGGAAAAGCGC--TTAAAAGTCTGATCTTTCACGGCATTTGAGAGAAAAGCG
* * * * *
60841064 CCGTTAAAAGTGATGATCTGTAGCGGCATTTGTGGTAAAAGCGTCGTTAAAATTCATGACTTATA
64 CCGTTAAAAGTCATGATCTATAGCGGCATTTGTGGTAAAAGCGCCGCTAAAAGTCATGACTTATA
*
60841129 GCGTCGTTTGTG-GAAAAAGTGTTGCTAAAAGTCATGATCTA
129 GCGGCGTTTGTGTGAAAAAGTGTTGCTAAAAGTCATGATCTA
*
60841170 TAGCGGCGTTTGTGGGAAAAGCGC-TAAAAGTCATGATCTTT-AGCGGCGTTTGAG-GAAAAGCG
1 TAGCGGCGTTTGTGGGAAAAGCGCTTAAAAGTC-TGATCTTTCA-CGGCATTTGAGAGAAAAGCG
* * * * * *
60841232 CCGTTAAAAGTCTTGTTCTATAGCGGCGTTTGT-GTGAAAAGCGCCGCTAAAGGTCTTG-TTCTA
64 CCGTTAAAAGTCATGATCTATAGCGGCATTTGTGGT-AAAAGCGCCGCTAAAAGTCATGACT-TA
60841295 TAGCGGCGTTTGTGTGAAAAA
127 TAGCGGCGTTTGTGTGAAAAA
60841316 CGCCGCTAAT
Statistics
Matches: 123, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
167 3 0.02
168 75 0.61
169 23 0.19
171 22 0.18
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (170 bp):
TAGCGGCGTTTGTGGGAAAAGCGCTTAAAAGTCTGATCTTTCACGGCATTTGAGAGAAAAGCGCC
GTTAAAAGTCATGATCTATAGCGGCATTTGTGGTAAAAGCGCCGCTAAAAGTCATGACTTATAGC
GGCGTTTGTGTGAAAAAGTGTTGCTAAAAGTCATGATCTA
Found at i:60842057 original size:34 final size:34
Alignment explanation
Indices: 60842009--60842076 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
60841999 CTCCCTCTCC
60842009 ATCCATCTTCATATTCAATATCCATTTCATGCAT
1 ATCCATCTTCATATTCAATATCCATTTCATGCAT
* * * *
60842043 ATCCTTCTTCATATTCAGTATTCATTTGATGCAT
1 ATCCATCTTCATATTCAATATCCATTTCATGCAT
60842077 TTCTCGTTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (34 bp):
ATCCATCTTCATATTCAATATCCATTTCATGCAT
Found at i:60858069 original size:72 final size:72
Alignment explanation
Indices: 60857952--60858094 Score: 241
Period size: 72 Copynumber: 2.0 Consensus size: 72
60857942 TCCCGGATTT
* *
60857952 AAAAAAGGGATCATGCCCAGTAAGTTAGGACGCGATCTTTTCTTAATTCCCGAAATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCGTTTAAAA
*
60858017 CTTGAGG
66 CATGAGG
* *
60858024 AAAAAAGGGATCATGCCTAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCGTTTAAAA
60858089 CATGAG
66 CATGAG
60858095 TTTGAAAAGA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (72 bp):
AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCGTTTAAAA
CATGAGG
Found at i:60858564 original size:21 final size:22
Alignment explanation
Indices: 60858540--60858590 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
60858530 ATATGTGAAT
60858540 TATA-AAAAAATATAAAAAATA
1 TATATAAAAAATATAAAAAATA
** *
60858561 TATATTTTAAAATATAAAGAATA
1 TATA-TAAAAAATATAAAAAATA
60858584 TATATAA
1 TATATAA
60858591 GTATGTATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
21 4 0.17
22 1 0.04
23 18 0.78
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
TATATAAAAAATATAAAAAATA
Found at i:60858754 original size:2 final size:2
Alignment explanation
Indices: 60858747--60858777 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
60858737 GTACACATAA
60858747 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
60858778 AAGTTGATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60859943 original size:131 final size:131
Alignment explanation
Indices: 60859770--60860089 Score: 426
Period size: 131 Copynumber: 2.4 Consensus size: 131
60859760 ATACTGCAAC
* * * *
60859770 CTCAGTGAGATAAGACTAGTGGCTTCAATCTGCTTCCCTACTACCTTGAGAAGATAAGATTCATC
1 CTCAGGGAGATAGGA-TGGTGGCTTAAATCTGCTTCCCTACTACCTTGAGAAGATAAGATTCATC
* * * * *
60859835 GTCTTTGATCTGCTCTACTACTGCTTAGGGAGACAAGATCTGCAATCTTGAACCTACTCCACTGC
65 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACCTACTCCACTAC
60859900 TG
130 TG
* *
60859902 CTCAGGGAGATAGGATGGTGGCTTAAATCTACTTCCTTACTACCTT-AGGAAGATAAGATTCATC
1 CTCAGGGAGATAGGATGGTGGCTTAAATCTGCTTCCCTACTACCTTGA-GAAGATAAGATTCATC
* * * *
60859966 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTGCAATTTTCAACCTATTCCACTAT
65 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACCTACTCCACTAC
60860031 TG
130 TG
* * * * *
60860033 CTCAGGGAGACAAGGCTGGTGGCTTAAATCCGCTTCCCTACTACTTTGGGAAGATAA
1 CTCAGGGAGA-TAGGATGGTGGCTTAAATCTGCTTCCCTACTACCTTGAGAAGATAA
60860090 TGTCTGATAC
Statistics
Matches: 163, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
130 1 0.01
131 111 0.68
132 51 0.31
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (131 bp):
CTCAGGGAGATAGGATGGTGGCTTAAATCTGCTTCCCTACTACCTTGAGAAGATAAGATTCATCA
TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACCTACTCCACTACT
G
Found at i:60860204 original size:50 final size:50
Alignment explanation
Indices: 60860142--60860303 Score: 164
Period size: 50 Copynumber: 3.2 Consensus size: 50
60860132 ATCGGCAATT
* * *
60860142 TAGCTTTAATCTATTTAACTGCAATGTCGAGAAAGCAAGATTCACCGTTG
1 TAGCTTCAATCTATTTAACTGCAATGTCGAGGAAGCAAGATTCACTGTTG
* ** * ** * * *
60860192 TAGCTTTAATCTATTCCACTACACCG-CCAGGGAAGTAAGATTCACTGTCG
1 TAGCTTCAATCTATTTAACTGCAATGTCGA-GGAAGCAAGATTCACTGTTG
* * *
60860242 TAGCTTCAATCTATTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTG
1 TAGCTTCAATCTATTTAACTGCAATGTCGAGGAAGCAAGATTCACTGTTG
*
60860292 TATCTTCAATCT
1 TAGCTTCAATCT
60860304 GTTCCACTAT
Statistics
Matches: 87, Mismatches: 23, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
49 2 0.02
50 84 0.97
51 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (50 bp):
TAGCTTCAATCTATTTAACTGCAATGTCGAGGAAGCAAGATTCACTGTTG
Found at i:60860319 original size:100 final size:100
Alignment explanation
Indices: 60860142--60860321 Score: 261
Period size: 100 Copynumber: 1.8 Consensus size: 100
60860132 ATCGGCAATT
* *
60860142 TAGCTTTAATCTATTTAACTGCAATGTCGAGAAAGCAAGATTCACCGTTGTAGCTTTAATCTATT
1 TAGCTTCAATCTATTTAACTGCAATGTCGAGAAAGCAAGATTCACCGTTGTAGCTTCAATCTATT
60860207 CCACTACACCGCCAGGGAAGTAAGATTCACTGTCG
66 CCACTACACCGCCAGGGAAGTAAGATTCACTGTCG
* * * * * * *
60860242 TAGCTTCAATCTATTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTATCTTCAATCTGTT
1 TAGCTTCAATCTATTTAACTGCAATGTCGAGAAAGCAAGATTCACCGTTGTAGCTTCAATCTATT
**
60860307 CCACTATGCCGCCAG
66 CCACTACACCGCCAG
60860322 ATAAAAGATT
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
100 69 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (100 bp):
TAGCTTCAATCTATTTAACTGCAATGTCGAGAAAGCAAGATTCACCGTTGTAGCTTCAATCTATT
CCACTACACCGCCAGGGAAGTAAGATTCACTGTCG
Found at i:60864880 original size:73 final size:73
Alignment explanation
Indices: 60864727--60864867 Score: 212
Period size: 73 Copynumber: 1.9 Consensus size: 73
60864717 TCTTAGATTT
* * * *
60864727 AAAAAAGGGATCATGCCCAGTAAGTTAGGACGCGATCTTTTCTTAATTCCTGAAATCGTTTAAAA
1 AAAAAAGAGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCGTTTAAAA
60864792 CTTGAGGA
66 CTTGAGGA
* *
60864800 AAAAAAGAGATCATGCCTTA-TAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAA
1 AAAAAAGAGATCATGCC-CAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCGTTTAAA
60864864 ACTT
65 ACTT
60864868 TGGTTTGAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
73 60 0.98
74 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (73 bp):
AAAAAAGAGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCGTTTAAAA
CTTGAGGA
Found at i:60865305 original size:19 final size:19
Alignment explanation
Indices: 60865283--60865366 Score: 53
Period size: 19 Copynumber: 4.1 Consensus size: 19
60865273 ATTTATAAAT
60865283 TGTAAAATATAAAAATATA
1 TGTAAAATATAAAAATATA
60865302 TGTATATGTGAATTATAAAAATATA
1 TGTA-A----AA-TATAAAAATATA
* *
60865327 TATAAAATATATATAATAT-
1 TGTAAAATATA-AAAATATA
* *
60865346 TTTTAAATATAAAGAATATA
1 TGTAAAATATAAA-AATATA
60865366 T
1 T
60865367 ATAAGTATGT
Statistics
Matches: 51, Mismatches: 5, Indels: 17
0.70 0.07 0.23
Matches are distributed among these distances:
18 1 0.02
19 22 0.43
20 10 0.20
24 3 0.06
25 15 0.29
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (19 bp):
TGTAAAATATAAAAATATA
Found at i:60868749 original size:18 final size:18
Alignment explanation
Indices: 60868707--60868750 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
60868697 CGAATCCTTC
* *
60868707 TTTTCTATTTTTGCTATT
1 TTTTCTTTTTTTGCTATG
60868725 TTTTCTTTTTGTTGC-ATG
1 TTTTCTTTTT-TTGCTATG
60868743 TTTTCTTT
1 TTTTCTTT
60868751 CCTTTTGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.07, C:0.11, G:0.09, T:0.73
Consensus pattern (18 bp):
TTTTCTTTTTTTGCTATG
Found at i:60870451 original size:46 final size:46
Alignment explanation
Indices: 60870349--60870602 Score: 433
Period size: 46 Copynumber: 5.6 Consensus size: 46
60870339 TACTTATGAT
* * *
60870349 CACTTATCAC-TTGTC-CCTAATCAGATAAGTGTAGCT-AGACTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
60870392 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
60870438 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
60870484 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
60870530 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
60870576 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
60870603 AGTACTCAAA
Statistics
Matches: 203, Mismatches: 5, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
43 10 0.05
44 5 0.02
45 19 0.09
46 169 0.83
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:60873741 original size:26 final size:26
Alignment explanation
Indices: 60873695--60873746 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
60873685 TATTTTAGCT
*
60873695 ATTTTATTATTAAATTAATTATTTTA
1 ATTTTATTATCAAATTAATTATTTTA
*
60873721 ATTTTATTATCACTATT-ATTATTTTA
1 ATTTTATTATCA-AATTAATTATTTTA
60873747 CCCTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (26 bp):
ATTTTATTATCAAATTAATTATTTTA
Found at i:60876755 original size:9 final size:9
Alignment explanation
Indices: 60876738--60876808 Score: 63
Period size: 9 Copynumber: 7.8 Consensus size: 9
60876728 GTTAAAAAGG
*
60876738 ACCCAAATT
1 ACCCGAATT
60876747 ACCCGAATT
1 ACCCGAATT
60876756 ACCCG-ATT
1 ACCCGAATT
*
60876764 AACCGAATT
1 ACCCGAATT
*
60876773 AACCGAATT
1 ACCCGAATT
**
60876782 ACCTAAAAATT
1 ACC--CGAATT
*
60876793 ACCCGAACT
1 ACCCGAATT
60876802 ACCCGAA
1 ACCCGAA
60876809 AATTACCCAA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
8 7 0.14
9 37 0.73
11 7 0.14
ACGTcount: A:0.41, C:0.31, G:0.08, T:0.20
Consensus pattern (9 bp):
ACCCGAATT
Found at i:60876769 original size:17 final size:17
Alignment explanation
Indices: 60876744--60876778 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
60876734 AAGGACCCAA
* *
60876744 ATTACCCGAATTACCCG
1 ATTAACCGAATTAACCG
60876761 ATTAACCGAATTAACCG
1 ATTAACCGAATTAACCG
60876778 A
1 A
60876779 ATTACCTAAA
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:0.37, C:0.29, G:0.11, T:0.23
Consensus pattern (17 bp):
ATTAACCGAATTAACCG
Found at i:60876798 original size:20 final size:20
Alignment explanation
Indices: 60876769--60876816 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
60876759 CGATTAACCG
* * *
60876769 AATTAACCGAATTACCTAAA
1 AATTACCCGAACTACCCAAA
*
60876789 AATTACCCGAACTACCCGAA
1 AATTACCCGAACTACCCAAA
60876809 AATTACCC
1 AATTACCC
60876817 AAAAAGTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.44, C:0.29, G:0.06, T:0.21
Consensus pattern (20 bp):
AATTACCCGAACTACCCAAA
Found at i:60878032 original size:31 final size:29
Alignment explanation
Indices: 60877963--60878036 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
60877953 ACAAAATAAT
**
60877963 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATGGCA
*
60877992 AACATAAGTGACTAAAATGTAACATGAGGCA
1 AACATAAGTGACTAAAACGTAACAT--GGCA
*
60878023 AACAAAAGTGACTA
1 AACATAAGTGACTA
60878037 CTTTTGTAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATGGCA
Found at i:60880917 original size:13 final size:13
Alignment explanation
Indices: 60880899--60880928 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
60880889 CTCCAAAATA
60880899 CATTAAAACAATT
1 CATTAAAACAATT
60880912 CATTAAAACAATT
1 CATTAAAACAATT
60880925 CATT
1 CATT
60880929 GTAGTCCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (13 bp):
CATTAAAACAATT
Found at i:60888659 original size:41 final size:41
Alignment explanation
Indices: 60888600--60888741 Score: 155
Period size: 41 Copynumber: 3.5 Consensus size: 41
60888590 TGACCTTTCA
* *
60888600 GGGCTTTAGTGGCGTTTTTGAAGAAGCGCCGCTAATGCTCG
1 GGGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCG
*
60888641 GGGCTTTAGTGGCATTTTTGAAGAA--G-CGCTAATGCTCG
1 GGGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCG
* * * * * * *
60888679 GTGCTTTAGCGGCGTTTTTGAAAAAGCTCTGCTAGTTCTCG
1 GGGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCG
* *
60888720 GGCCTTTAGCGGCACTTTTGAA
1 GGGCTTTAGCGGCATTTTTGAA
60888742 AATTCAATTT
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
38 33 0.39
39 1 0.01
41 51 0.60
ACGTcount: A:0.18, C:0.19, G:0.30, T:0.32
Consensus pattern (41 bp):
GGGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCG
Found at i:60888685 original size:38 final size:38
Alignment explanation
Indices: 60888600--60888705 Score: 149
Period size: 38 Copynumber: 2.7 Consensus size: 38
60888590 TGACCTTTCA
60888600 GGGCTTTAGTGGCGTTTTTGAAGAAGCGCCGCTAATGCTCG
1 GGGCTTTAGTGGCGTTTTTGAAGAA--G-CGCTAATGCTCG
*
60888641 GGGCTTTAGTGGCATTTTTGAAGAAGCGCTAATGCTCG
1 GGGCTTTAGTGGCGTTTTTGAAGAAGCGCTAATGCTCG
* * *
60888679 GTGCTTTAGCGGCGTTTTTGAAAAAGC
1 GGGCTTTAGTGGCGTTTTTGAAGAAGC
60888706 TCTGCTAGTT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
38 35 0.58
39 1 0.02
41 24 0.40
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.31
Consensus pattern (38 bp):
GGGCTTTAGTGGCGTTTTTGAAGAAGCGCTAATGCTCG
Found at i:60894580 original size:22 final size:22
Alignment explanation
Indices: 60894519--60894603 Score: 116
Period size: 22 Copynumber: 3.9 Consensus size: 22
60894509 GATGTAATGT
* **
60894519 ATGAGAGCTTAGTACGTGAAAC
1 ATGAGAGCTTAGTACGTTAGCC
60894541 ATGAGAGCTTAGTACGTTAGCC
1 ATGAGAGCTTAGTACGTTAGCC
60894563 ATGAGAGCTTAGTACGTTAGCC
1 ATGAGAGCTTAGTACGTTAGCC
* * *
60894585 ATGAGGGTTTAGTTCGTTA
1 ATGAGAGCTTAGTACGTTA
60894604 AATTTTTCTT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.29
Consensus pattern (22 bp):
ATGAGAGCTTAGTACGTTAGCC
Found at i:60897130 original size:29 final size:29
Alignment explanation
Indices: 60897098--60897153 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
60897088 TCCGCATCCC
60897098 TCTTCATATTCAGTATCCATTTCATGCCT
1 TCTTCATATTCAGTATCCATTTCATGCCT
* * *
60897127 TCTTCATATTTAGTATTCATTTGATGC
1 TCTTCATATTCAGTATCCATTTCATGC
60897154 ATCTCTCGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.48
Consensus pattern (29 bp):
TCTTCATATTCAGTATCCATTTCATGCCT
Found at i:60898564 original size:27 final size:27
Alignment explanation
Indices: 60898533--60898593 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
60898523 ATTATGCCAA
* *
60898533 ATTCTTTGTTAAATTTTTTGGTTTGAT
1 ATTCTTTGTTAAATTTGTTAGTTTGAT
60898560 ATTCTTTGTTAAATTTGTTAGTTTGAT
1 ATTCTTTGTTAAATTTGTTAGTTTGAT
60898587 ATTCTTT
1 ATTCTTT
60898594 CAAAAGTACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.20, C:0.05, G:0.13, T:0.62
Consensus pattern (27 bp):
ATTCTTTGTTAAATTTGTTAGTTTGAT
Found at i:60903379 original size:13 final size:14
Alignment explanation
Indices: 60903349--60903398 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
60903339 TTATTTATGA
60903349 ATTATTATTATATC
1 ATTATTATTATATC
60903363 ATTA-TATTATA-C
1 ATTATTATTATATC
** *
60903375 TATTAGCATTGTATC
1 -ATTATTATTATATC
60903390 ATTATTATT
1 ATTATTATT
60903399 TAAATAAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
12 1 0.03
13 11 0.38
14 16 0.55
15 1 0.03
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (14 bp):
ATTATTATTATATC
Found at i:60903560 original size:28 final size:28
Alignment explanation
Indices: 60903529--60903584 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
60903519 AAGTATACAC
*
60903529 ATACATACAT-TTCTTATAGTATATATAT
1 ATACATACATATT-TTATAATATATATAT
*
60903557 ATACATACATATTTTATAATTTATATAT
1 ATACATACATATTTTATAATATATATAT
60903585 TTATACATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.92
29 2 0.08
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (28 bp):
ATACATACATATTTTATAATATATATAT
Found at i:60903627 original size:22 final size:22
Alignment explanation
Indices: 60903596--60903675 Score: 106
Period size: 22 Copynumber: 3.6 Consensus size: 22
60903586 TATACATTTT
* * *
60903596 TAACGAACTAAACCCTCATGGC
1 TAACGTACTAAGCTCTCATGGC
60903618 TAACGTACTAAGCTCTCATGGC
1 TAACGTACTAAGCTCTCATGGC
**
60903640 TAACGTACTAAGCTCTCATGTT
1 TAACGTACTAAGCTCTCATGGC
*
60903662 TCACGTACTAAGCT
1 TAACGTACTAAGCT
60903676 ATGTATATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (22 bp):
TAACGTACTAAGCTCTCATGGC
Found at i:60903736 original size:23 final size:23
Alignment explanation
Indices: 60903709--60903754 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
60903699 TTTTCATATA
60903709 TTTTAAAATATACATACACACAT
1 TTTTAAAATATACATACACACAT
* *
60903732 TTTTATAATATACATACGCACAT
1 TTTTAAAATATACATACACACAT
60903755 ATATTTTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.37
Consensus pattern (23 bp):
TTTTAAAATATACATACACACAT
Found at i:60904010 original size:20 final size:21
Alignment explanation
Indices: 60903982--60904020 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
60903972 TATACACACA
*
60903982 TTTTTTTTATTTT-TTTATAG
1 TTTTATTTATTTTATTTATAG
60904002 TTTTATTTATTTTATTTAT
1 TTTTATTTATTTTATTTAT
60904021 TGTATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (21 bp):
TTTTATTTATTTTATTTATAG
Found at i:60904032 original size:9 final size:8
Alignment explanation
Indices: 60903983--60904030 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
60903973 ATACACACAT
60903983 TTTTTTTA
1 TTTTTTTA
60903991 TTTTTTTA
1 TTTTTTTA
**
60903999 TAGTTTTA
1 TTTTTTTA
60904007 TTTATTTTA
1 TTT-TTTTA
*
60904016 TTTATTGTA
1 TTT-TTTTA
60904025 TTTTTT
1 TTTTTT
60904031 GTTTTACTCG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
8 17 0.52
9 16 0.48
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (8 bp):
TTTTTTTA
Found at i:60921064 original size:22 final size:19
Alignment explanation
Indices: 60921023--60921083 Score: 68
Period size: 19 Copynumber: 3.0 Consensus size: 19
60921013 AATCCTCGAG
60921023 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
60921042 GATATGCAATCTTATAAGATAT
1 GATATGCAATC-T-T-AGATAT
* *
60921064 GATTTTGTAATCTTAGATAT
1 GA-TATGCAATCTTAGATAT
60921084 TTAATTTGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
19 11 0.31
20 7 0.19
21 2 0.06
22 9 0.25
23 7 0.19
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:60938476 original size:34 final size:34
Alignment explanation
Indices: 60938428--60938495 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
60938418 CTCCCTCTCC
60938428 ATCCATCTTCATATTCAATATTCATTTCATGCAT
1 ATCCATCTTCATATTCAATATTCATTTCATGCAT
* * *
60938462 ATCCTTCTTCATATTCAGTATTCATTTGATGCAT
1 ATCCATCTTCATATTCAATATTCATTTCATGCAT
60938496 TTCTCGTTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.26, C:0.22, G:0.06, T:0.46
Consensus pattern (34 bp):
ATCCATCTTCATATTCAATATTCATTTCATGCAT
Found at i:60943914 original size:109 final size:109
Alignment explanation
Indices: 60943789--60943995 Score: 371
Period size: 109 Copynumber: 1.9 Consensus size: 109
60943779 TATATTTTAA
60943789 AAAGGATATTAAGCCATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCGTG-TTTT
1 AAAGGATATTAAGCCATTTGGTTGAACGAG-AAAATCAACACCCAGCACCTTAGGGCGTGTTTTT
60943853 CTCGAATTTCCAAACGCAAAACATTGCCATATTTTGAAATTTTTT
65 CTCGAATTTCCAAACGCAAAACATTGCCATATTTTGAAATTTTTT
* *
60943898 AAAGGATATTAAGCCATTTGGTTGAATGAGAAAATCGACACCCAGCACCTTAGGGCGTGTTTTTC
1 AAAGGATATTAAGCCATTTGGTTGAACGAGAAAATCAACACCCAGCACCTTAGGGCGTGTTTTTC
*
60943963 TCGAATTTCCAAACGCAAAACATTGCCTTATTT
66 TCGAATTTCCAAACGCAAAACATTGCCATATTT
60943996 AGGAATATTT
Statistics
Matches: 94, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
108 28 0.30
109 66 0.70
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (109 bp):
AAAGGATATTAAGCCATTTGGTTGAACGAGAAAATCAACACCCAGCACCTTAGGGCGTGTTTTTC
TCGAATTTCCAAACGCAAAACATTGCCATATTTTGAAATTTTTT
Found at i:60944303 original size:14 final size:15
Alignment explanation
Indices: 60944272--60944305 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
60944262 AATTATGGAA
*
60944272 ATATAAAAGATGTGT
1 ATATAAAAGATATGT
60944287 ATATAAAAG-TATGT
1 ATATAAAAGATATGT
60944301 ATATA
1 ATATA
60944306 TGTGTATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (15 bp):
ATATAAAAGATATGT
Found at i:60944507 original size:16 final size:16
Alignment explanation
Indices: 60944486--60944518 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
60944476 TGAGAAAAAA
60944486 ATATAAATATACATAT
1 ATATAAATATACATAT
*
60944502 ATATAAATATATATAT
1 ATATAAATATACATAT
60944518 A
1 A
60944519 ATGAGTACTT
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:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATAAATATACATAT
Found at i:60944688 original size:3 final size:3
Alignment explanation
Indices: 60944648--60944702 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
60944638 AAGTATAAAT
* * * * * *
60944648 ATA ATG ATA GTA ATA AGA ATA TTA GTA ATA ATA CTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
60944696 ATA ATA A
1 ATA ATA A
60944703 AACTACTGAA
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:60946200 original size:84 final size:84
Alignment explanation
Indices: 60946105--60946302 Score: 378
Period size: 84 Copynumber: 2.4 Consensus size: 84
60946095 CTTGCTGTGA
*
60946105 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTACTTAGGGAGA
60946170 TAAGATCTGGTTTCTTTCG
66 TAAGATCTGGTTTCTTTCG
*
60946189 TCTGCTCCACTACTGCTTAGGGAGATAATACTTGATGCGATCTGCTCCACTACTACTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTACTTAGGGAGA
60946254 TAAGATCTGGTTTCTTTCG
66 TAAGATCTGGTTTCTTTCG
60946273 TCTGCTCCACTACTGCTTAGGGAGATAAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA
60946303 TCTGTGGTTT
Statistics
Matches: 111, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 111 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (84 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTACTTAGGGAGA
TAAGATCTGGTTTCTTTCG
Found at i:60946208 original size:44 final size:43
Alignment explanation
Indices: 60946083--60946307 Score: 247
Period size: 40 Copynumber: 5.4 Consensus size: 43
60946073 CTACAACGTC
* *
60946083 AGGGAGATAAGA-CT-TGC-TGTGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCTGTTCATGCGATCTGCTCCACTACTGCTT
*
60946123 AGGGAGATAAGA-C--TTGATGCGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCTGTTCATGCGATCTGCTCCACTACTGCTT
* *
60946163 AGGGAGATAAGATCTGGTTTCTTTCG-TCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCT-G-TTCATGCGATCTGCTCCACTACTGCTT
* * *
60946207 AGGGAGATAATA-C--TTGATGCGATCTGCTCCACTACTACTT
1 AGGGAGATAAGATCTGTTCATGCGATCTGCTCCACTACTGCTT
* *
60946247 AGGGAGATAAGATCTGGTTTCTTTCG-TCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCT-G-TTCATGCGATCTGCTCCACTACTGCTT
60946291 AGGGAGATAAGATCTGT
1 AGGGAGATAAGATCTGT
60946308 GGTTTTAATC
Statistics
Matches: 157, Mismatches: 16, Indels: 22
0.81 0.08 0.11
Matches are distributed among these distances:
39 6 0.04
40 75 0.48
41 2 0.01
42 1 0.01
43 2 0.01
44 61 0.39
45 10 0.06
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (43 bp):
AGGGAGATAAGATCTGTTCATGCGATCTGCTCCACTACTGCTT
Found at i:60946508 original size:174 final size:174
Alignment explanation
Indices: 60946310--60946913 Score: 924
Period size: 174 Copynumber: 3.5 Consensus size: 174
60946300 AGATCTGTGG
* *
60946310 TTTTAATCCGCTCCGCTGTAACTTCAGGGAGATAGGA-TAGTGTCTTCGATCTACTCTGCTGTAA
1 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTA-TGTCTTCGATCTACTCCGCTGTAA
* * * *
60946374 CCTCAGGGGGATAAGATCTGAAATTCTTCGGTCTACTCTACTGTAACCTCAAGGAGATAAGACCT
65 CCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCT
*
60946439 GGTGCGATCTGCTCTATTGTAACTTCAGAGAGATAAGATCCTTTA
130 GGTGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTA
* * * *
60946484 TTTTAATTCGCTCCACTATAACTTCAGGGAGATAGGATTATGTCTTCAATCTGCTCCGCTGTAAC
1 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTACTCCGCTGTAAC
60946549 CTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
66 CTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
60946614 GTGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTA
131 GTGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTA
*
60946658 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAAC
1 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTACTCCGCTGTAAC
60946723 CTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
66 CTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
* * *
60946788 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTGT-
131 GTGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTA
* ** * * * * * * **
60946831 CTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCTACTGT
1 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGAT-T--ATGTCTTCGATCTACTCCGCTGT
60946896 AACCTCAGGGAGATAAGA
63 AACCTCAGGGAGATAAGA
60946914 CCTGGTGTGA
Statistics
Matches: 397, Mismatches: 29, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
173 31 0.08
174 328 0.83
175 2 0.01
176 36 0.09
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (174 bp):
TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTACTCCGCTGTAAC
CTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
GTGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTA
Found at i:60946814 original size:304 final size:304
Alignment explanation
Indices: 60946502--60947215 Score: 1193
Period size: 304 Copynumber: 2.4 Consensus size: 304
60946492 CGCTCCACTA
* *
60946502 TAACTTCAGGGAGATAGGATTATGTCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCT
1 TAACTTCAGAGAGATAAGATTATGTCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCT
60946567 GAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCTACTG
66 GAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCTACTG
60946632 TAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATT
131 TAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATT
60946697 ATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCA
196 ATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCA
60946762 CTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTG
261 CTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTG
** *
60946806 TAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCT
1 TAACTTCAGAGAGATAAGATTATGTCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCT
* *
60946871 GAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGGTGTGATCTGCTCTACTG
66 GAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCTACTG
60946936 TAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATT
131 TAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATT
*
60947001 ATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCTA
196 ATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCA
* *
60947066 CTGTAACCTCAGGGAGATAAGACCTGGTGTGATCTACTCTACTG
261 CTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTG
* * * * * * *
60947110 TAACTTCAGAGAGATAAGATCCTTTAT-TTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGAT
1 TAACTTCAGAGAGATAAGAT--TATGTCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGAT
* * * *
60947174 -T--ATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGA
64 CTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA
60947216 TCTAAAAGTC
Statistics
Matches: 384, Mismatches: 24, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
302 36 0.09
304 315 0.82
305 31 0.08
306 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (304 bp):
TAACTTCAGAGAGATAAGATTATGTCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCT
GAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCTACTG
TAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATT
ATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCA
CTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTG
Found at i:60946954 original size:87 final size:89
Alignment explanation
Indices: 60946542--60947607 Score: 663
Period size: 87 Copynumber: 12.2 Consensus size: 89
60946532 ATCTGCTCCG
* * * * *
60946542 CTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATA
1 CTGTAACCTCAGGGAGATAAGACCTG---GTCGTCGATCTGCTCCACTGTAACCTCAGAGAGATA
* * *
60946607 AGA-CCT---G-GTGCGATCTGCTCTA
63 AGATCCTAAAGTCTTCGATCTACTCTA
* * * ** ** * * * *
60946629 CTGTAACTTCAGAGAGATAAGATCCT-TTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAG
1 CTGTAACCTCAGGGAGATAAGA-CCTGGT-CGTCGATCTGCTCCACTGTAACCTCAGAGAGATAA
* * **
60946693 GAT--T-ATGTCTTCGATCTGCTCCG
64 GATCCTAAAGTCTTCGATCTACTCTA
* * * * *
60946716 CTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATA
1 CTGTAACCTCAGGGAGATAAGACCTG---GTCGTCGATCTGCTCCACTGTAACCTCAGAGAGATA
* *
60946781 AGA-CCT---G-ATGCGATCTACTCTA
63 AGATCCTAAAGTCTTCGATCTACTCTA
* * * * *
60946803 CTGTAACTTCAGAGAGATAAGATCCT-GTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAG
1 CTGTAACCTCAGGGAGATAAGA-CCTGGTCGTCGATCTGCTCCACTGTAACCTCAGAGAGATAAG
*
60946867 AT-CTGAAAGTCTTCGGTCTACTCTA
65 ATCCT-AAAGTCTTCGATCTACTCTA
* *
60946892 CTGTAACCTCAGGGAGATAAGACCTGGT-GT-GATCTGCTCTACTGTAACTTCAGAGAGATAAGA
1 CTGTAACCTCAGGGAGATAAGACCTGGTCGTCGATCTGCTCCACTGTAACCTCAGAGAGATAAGA
** ** ** *
60946955 TCCTTTA-T-TTTAATCCGCTCCA
66 TCCTAAAGTCTTCGATCTACTCTA
* * * * * * *
60946977 CTGTAACTTCAGGGAGATAGGA-TTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAG
1 CTGTAACCTCAGGGAGATAAGACCT-GGTCGTCGATCTGCTCCACTGTAACCTCAGAGAGATAAG
*
60947041 AT-CTGAAAGTCTTCGGTCTACTCTA
65 ATCCT-AAAGTCTTCGATCTACTCTA
* * *
60947066 CTGTAACCTCAGGGAGATAAGACCTGGT-GT-GATCTACTCTACTGTAACTTCAGAGAGATAAGA
1 CTGTAACCTCAGGGAGATAAGACCTGGTCGTCGATCTGCTCCACTGTAACCTCAGAGAGATAAGA
** ** ** *
60947129 TCCTTTA-T-TTTAATCCGCTCCA
66 TCCTAAAGTCTTCGATCTACTCTA
* * * * * * *
60947151 CTGTAACTTCAGGGAGATAGGA-TTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAG
1 CTGTAACCTCAGGGAGATAAGACCT-GGTCGTCGATCTGCTCCACTGTAACCTCAGAGAGATAAG
*
60947215 AT-CTAAAAGTCTTCGGTCTACTCTA
65 ATCCT-AAAGTCTTCGATCTACTCTA
* * *
60947240 TTGTAACCTCAGGGAGATAAGACCTGGT-GT-GATCTGCTCTACTGTAACTTCAGAGAGATAAGA
1 CTGTAACCTCAGGGAGATAAGACCTGGTCGTCGATCTGCTCCACTGTAACCTCAGAGAGATAAGA
** ** ** *
60947303 TCCTTTA-T-TTTAATCCGCTCCA
66 TCCTAAAGTCTTCGATCTACTCTA
* * * * * * * *
60947325 CTGTAACTTCAGAGAGATAGGA-TTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAG
1 CTGTAACCTCAGGGAGATAAGACCT-GGTCGTCGATCTGCTCCACTGTAACCTCAGAGAGATAAG
* *
60947389 AT-CTGAAAGTCTTCGGTCAACTCTTA
65 ATCCT-AAAGTCTTCGATCTACTC-TA
* * * *
60947415 CTGTAACCTCAGGGAGATAAGACCTGAT-G-CGATCTACTCTACTGTAACTTCAGAGAGATAAGA
1 CTGTAACCTCAGGGAGATAAGACCTGGTCGTCGATCTGCTCCACTGTAACCTCAGAGAGATAAGA
** **
60947478 TCCT---GTCTTCGATCTGTTCCG
66 TCCTAAAGTCTTCGATCTACTCTA
* * * * *
60947499 CTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATA
1 CTGTAACCTCAGGGAGATAAGACCTG---GTCGTCGATCTGCTCCACTGTAACCTCAGAGAGATA
* * *
60947564 AGA-CCT---GAC-GCGATCTACTCTG
63 AGATCCTAAAGTCTTCGATCTACTCTA
* *
60947586 CTGTAACTTCAGAGAGATAAGA
1 CTGTAACCTCAGGGAGATAAGA
60947608 TCCTTCATTT
Statistics
Matches: 749, Mismatches: 179, Indels: 102
0.73 0.17 0.10
Matches are distributed among these distances:
84 68 0.09
85 128 0.17
86 15 0.02
87 295 0.39
88 56 0.07
89 161 0.21
90 25 0.03
91 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (89 bp):
CTGTAACCTCAGGGAGATAAGACCTGGTCGTCGATCTGCTCCACTGTAACCTCAGAGAGATAAGA
TCCTAAAGTCTTCGATCTACTCTA
Found at i:60946982 original size:174 final size:174
Alignment explanation
Indices: 60946623--60947571 Score: 1248
Period size: 174 Copynumber: 5.4 Consensus size: 174
60946613 GGTGCGATCT
* * * ** * * *
60946623 GCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAT-TTTAATCCGCTCCACTGTAACTTCAGGG
1 GCTCCACTGTAACTTCAGAGAGATAAGAT--TATGTCTTCGATCTGCTCCGCTGTAACCTCAGGG
* * * * ** * *
60946687 AGATAGGAT-T--ATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCT
64 AGATAAGATCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTG---GT-G
* * * * * *** *
60946749 TCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CC-TGA-TGCGATCT
125 T-GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
* * **
60946797 ACTCTACTGTAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAG
1 GCTCCACTGTAACTTCAGAGAGATAAGATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAG
60946862 ATAAGATCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGGTGTGATCT
66 ATAAGATCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGGTGTGATCT
*
60946927 GCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
131 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
* *
60946971 GCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAG
1 GCTCCACTGTAACTTCAGAGAGATAAGATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAG
60947036 ATAAGATCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGGTGTGATCT
66 ATAAGATCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGGTGTGATCT
60947101 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
131 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
* *
60947145 GCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAG
1 GCTCCACTGTAACTTCAGAGAGATAAGATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAG
* *
60947210 ATAAGATCTAAAAGTCTTCGGTCTACTCTATTGTAACCTCAGGGAGATAAGACCTGGTGTGATCT
66 ATAAGATCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGGTGTGATCT
*
60947275 GCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
131 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
*
60947319 GCTCCACTGTAACTTCAGAGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAG
1 GCTCCACTGTAACTTCAGAGAGATAAGATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAG
* * *
60947384 ATAAGATCTGAAAGTCTTCGGTCAACTCTTACTGTAACCTCAGGGAGATAAGACCTGATGCGATC
66 ATAAGATCTGAAAGTCTTCGGTCTACTC-TACTGTAACCTCAGGGAGATAAGACCTGGTGTGATC
* * ** *
60947449 TACTCTACTGTAACTTCAGAGAGATAAGATCCTGT-CTTCGATCT
130 TACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
* * * * * * * *
60947493 GTTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGG
1 GCTCCACTGTAACTTCAGAGAGATAAGAT-T--ATGTCTTCGATCTGCTCCGCTGTAACCTCAGG
*
60947558 GAGATAAGACCTGA
63 GAGATAAGATCTGA
60947572 CGCGATCTAC
Statistics
Matches: 705, Mismatches: 59, Indels: 19
0.90 0.08 0.02
Matches are distributed among these distances:
171 28 0.04
172 5 0.01
173 35 0.05
174 490 0.70
175 67 0.10
176 39 0.06
177 41 0.06
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (174 bp):
GCTCCACTGTAACTTCAGAGAGATAAGATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAG
ATAAGATCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGGTGTGATCT
ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
Found at i:60946982 original size:348 final size:347
Alignment explanation
Indices: 60946314--60947571 Score: 1332
Period size: 348 Copynumber: 3.6 Consensus size: 347
60946304 CTGTGGTTTT
* * ** *
60946314 AATCCGCTCCGCTGTAACTTCAGGGAGATAGGA--TAGTGTCTTCGATCTACTCTGCTGTAACCT
1 AATCCGCTCCGCTGTAACCTCAGGGAGATAAGATCTAAAGTCTTCGATCTACTCTACTGTAACCT
* * * *
60946377 CAGGGGGATAAGATCTGAAATTCTTCGGTCTACTCTACTGTAACCTCA-AGGAGATAAGA-CCTG
66 CAGGGAGATAAGACCTG--AGT-TTCGATCTACTCTACTGTAACCTCAGA-GAGATAAGATCCTG
* * * * * ** *
60946440 GTGCGATCTGCTCTATTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAT-TCGCTCCACTATA
127 ATGCGATCTGCTCCACTGTAACTTCAGAGAGATAAGATCCTGT-CTTCGATCT-GCTCCACTGTA
* * * ** * ** *
60946504 ACTTCAGGGAGATAGGAT-T--ATGTCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATC
190 ACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACC
* * * * * * ** *** * *
60946566 TGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CC--TGGTGCGATCTGCTCT
255 TG---GT-GT-GATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
* * * *
60946628 ACTGTAACTTCAGAGAGATAAGATCCTTTAT-TTT
315 ACTGTAACTTCAGAGAGATAGGAT--TATGTCTTC
* * * * * **
60946662 AATCCGCTCCACTGTAACTTCAGGGAGATAGGAT-T-ATGTCTTCGATCTGCTCCGCTGTAACCT
1 AATCCGCTCCGCTGTAACCTCAGGGAGATAAGATCTAAAGTCTTCGATCTACTCTACTGTAACCT
* * * *
60946725 CAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTGA
66 CAGGGAGATAAGACCTG--AGT-TTCGATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTGA
* * *
60946789 TGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGCTCCGCTGTAACC
128 TGCGATCTGCTCCACTGTAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGCTCCACTGTAACC
60946854 TCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGG
193 TCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGG
60946919 TGTGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAAC
258 TGTGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAAC
*
60946984 TTCAGGGAGATAGGATTATGTCTTC
323 TTCAGAGAGATAGGATTATGTCTTC
* * *
60947009 GATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCTACTGTAACC
1 AATCCGCTCCGCTGTAACCTCAGGGAGATAAGATCT-AAAGTCTTCGATCTACTCTACTGTAACC
* * *
60947074 TCAGGGAGATAAGACCTG-GTGT-GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAT
65 TCAGGGAGATAAGACCTGAGTTTCGATCTACTCTACTGTAACCTCAGAGAGATAAGATCC-TGA-
*** * * * ** *
60947137 TTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAACC
128 TGCGATCTGCTCCACTGTAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGCTCCACTGTAACC
* *
60947202 TCAGGGAGATAAGATCTAAAAGTCTTCGGTCTACTCTATTGTAACCTCAGGGAGATAAGACCTGG
193 TCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGG
60947267 TGTGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAAC
258 TGTGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAAC
60947332 TTCAGAGAGATAGGATTATGTCTTC
323 TTCAGAGAGATAGGATTATGTCTTC
* * * *
60947357 GATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCAACTCTTACTGTAAC
1 AATCCGCTCCGCTGTAACCTCAGGGAGATAAGATCT-AAAGTCTTCGATCTACTC-TACTGTAAC
* * *
60947422 CTCAGGGAGATAAGACCTGA--TGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTGTC
64 CTCAGGGAGATAAGACCTGAGTTTCGATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTG-A
* * * * * * *
60947485 TTCGATCTGTTCCGCTGTAACCTCAGGGAGATAAGAT-CTGAAAGTCTTCGGTCTACTCCACTGT
128 TGCGATCTGCTCCACTGTAACTTCAGAGAGATAAGATCCT----GTCTTCGATCTGCTCCACTGT
*
60947549 AACCTCAGGGAGATAAGACCTGA
189 AACCTCAGGGAGATAAGATCTGA
60947572 CGCGATCTAC
Statistics
Matches: 794, Mismatches: 92, Indels: 45
0.85 0.10 0.05
Matches are distributed among these distances:
345 57 0.07
346 9 0.01
347 67 0.08
348 480 0.60
349 65 0.08
350 77 0.10
351 39 0.05
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (347 bp):
AATCCGCTCCGCTGTAACCTCAGGGAGATAAGATCTAAAGTCTTCGATCTACTCTACTGTAACCT
CAGGGAGATAAGACCTGAGTTTCGATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTGATGC
GATCTGCTCCACTGTAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGCTCCACTGTAACCTCA
GGGAGATAAGATCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGGTGT
GATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTC
AGAGAGATAGGATTATGTCTTC
Found at i:60947122 original size:478 final size:478
Alignment explanation
Indices: 60946325--60947708 Score: 2026
Period size: 478 Copynumber: 2.9 Consensus size: 478
60946315 ATCCGCTCCG
* * ** * * *
60946325 CTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTACTCTGCTGTAACCTCAGGGGGATAAGA
1 CTGTAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGA
* * *
60946390 TCTGAAATTCTTCGGTCTACTCTACTGTAACCTCAAGGAGATAAGACCTGGTGCGATCTGCTCTA
66 TCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGGTGTGATCTGCTCTA
* * *
60946455 TTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATTCGCTCCACTATAACTTCAGGGAGATAGG
131 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
*
60946520 ATTATGTCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACT
196 ATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACT
*
60946585 CCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCTACTGTAACTTCAGAGAGATAAG
261 CCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAG
60946650 ATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCC
326 ATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCC
60946715 GCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGAT
391 GCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGAT
60946780 AAGACCTGATGCGATCTACTCTA
456 AAGACCTGATGCGATCTACTCTA
60946803 CTGTAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGA
1 CTGTAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGA
60946868 TCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGGTGTGATCTGCTCTA
66 TCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGGTGTGATCTGCTCTA
60946933 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
131 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
60946998 ATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACT
196 ATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACT
* *
60947063 CTACTGTAACCTCAGGGAGATAAGACCTGGTGTGATCTACTCTACTGTAACTTCAGAGAGATAAG
261 CCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAG
60947128 ATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCC
326 ATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCC
* * *
60947193 GCTGTAACCTCAGGGAGATAAGATCTAAAAGTCTTCGGTCTACTCTATTGTAACCTCAGGGAGAT
391 GCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGAT
* * *
60947258 AAGACCTGGTGTGATCTGCTCTA
456 AAGACCTGATGCGATCTACTCTA
* * ** * * * * *
60947281 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGG
1 CTGTAACTTCAGAGAGATAAGATCCTGT-CTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAG
* * * ** * * * *
60947346 AT-T--ATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCA
65 ATCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTG---GT-GT-GATCT
* * * * *** ** * *
60947408 ACTCTTACTGTAACCTCAGGGAGATAAGA-CC-TGA-TGCGATCTACTCTACTGTAACTTCAGAG
125 GCTC-TACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGG
* ** *
60947470 AGATAAGATCCTGTCTTCGATCTGTTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCG
189 AGATAGGATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCG
** *
60947535 GTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAG
254 GTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAG
* * * ** **
60947600 AGATAAGATCCTTCATTTTAATCCACTCCACTATAA-TCTCAGGGAGATAGGATTACTAACTTTA
319 AGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT-TCAGGGAGATAGGATTA-TGTCTTCG
* *
60947664 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTC
382 ATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTC
60947709 AGCCAGCTTC
Statistics
Matches: 826, Mismatches: 71, Indels: 16
0.90 0.08 0.02
Matches are distributed among these distances:
476 39 0.05
478 484 0.59
479 224 0.27
480 49 0.06
481 8 0.01
482 22 0.03
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (478 bp):
CTGTAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGA
TCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGGTGTGATCTGCTCTA
CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
ATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACT
CCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAG
ATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCC
GCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGAT
AAGACCTGATGCGATCTACTCTA
Found at i:60947605 original size:130 final size:130
Alignment explanation
Indices: 60946672--60947611 Score: 929
Period size: 130 Copynumber: 7.2 Consensus size: 130
60946662 AATCCGCTCC
* * **
60946672 ACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAG
1 ACTGTAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAG
60946737 ATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCT
66 ATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCT
60946802 ACTGTAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAG
1 ACTGTAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAG
* * * *
60946867 ATCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGGTGTGATCTGCTCT
66 ATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCT
* * ** * * * *
60946932 ACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAG
1 ACTGTAACTTCAGAGAGATAAGATCCTGT-CTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAA
* * * * * * *
60946997 GAT-T--ATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTC
65 GATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG--A---TGCGATC
60947059 TACTCT
125 TACTCT
* * * * ** * *
60947065 ACTGTAACCTCAGGGAGATAAGA-CCTGGT-GT-GATCTACTCTACTGTAACTTCAGAGAGATAA
1 ACTGTAACTTCAGAGAGATAAGATCCT-GTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAA
** *** ** * * ** * * *
60947127 GATCCT-TTA-T-TTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTG
65 GAT-CTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTG-ATGCGATCTA
*
60947189 CTCC
127 CTCT
* * * * * ***
60947193 GCTGTAACCTCAGGGAGATAAGAT-CTAAAAGTCTTCGGTCTACTCTATTGTAACCTCAGGGAGA
1 ACTGTAACTTCAGAGAGATAAGATCCT----GTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGA
* * * * * * * * ***
60947257 TAAGACCTG---GT-GT-GATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAT
62 TAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CC-TGA-TGCGAT
** *
60947317 CCGCTCC
124 CTACTCT
* **
60947324 ACTGTAACTTCAGAGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAG
1 ACTGTAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAG
* *
60947389 ATCTGAAAGTCTTCGGTCAACTCTTACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTC
66 ATCTGAAAGTCTTCGGTCTACTC-CACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTC
60947454 T
130 T
*
60947455 ACTGTAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGTTCCGCTGTAACCTCAGGGAGATAAG
1 ACTGTAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAG
*
60947520 ATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGACGCGATCTACTCT
66 ATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCT
*
60947585 GCTGTAACTTCAGAGAGATAAGATCCT
1 ACTGTAACTTCAGAGAGATAAGATCCT
60947612 TCATTTTAAT
Statistics
Matches: 678, Mismatches: 104, Indels: 56
0.81 0.12 0.07
Matches are distributed among these distances:
128 110 0.16
130 274 0.40
131 189 0.28
132 15 0.02
133 68 0.10
134 22 0.03
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (130 bp):
ACTGTAACTTCAGAGAGATAAGATCCTGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAG
ATCTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCT
Found at i:60947822 original size:44 final size:44
Alignment explanation
Indices: 60947773--60947992 Score: 157
Period size: 44 Copynumber: 5.0 Consensus size: 44
60947763 GTCAATGCAA
60947773 GAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAG
1 GAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAG
* * * * ** *
60947817 GAAGGCAAGGTTTG-TGTCTTCGACCGGCTTCGC-TGTCAA-TGCAG
1 GAAGGCAAGATCTGTTGTCTTCAACCAGC-TC-CATCACAACCG-AG
*
60947861 GAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGA-
1 GAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAG
* * * ** * * * **
60947904 GAGAGGTAAGGTTTG-TGTCTTTGACCTGTTTCGCCGTCA-ATGC-AG
1 GA-AGGCAAGATCTGTTGTCTTCAACCAG---CTCCATCACAACCGAG
*
60947949 GAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAG
1 GAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAG
60947993 AGCGGCAAGG
Statistics
Matches: 125, Mismatches: 37, Indels: 28
0.66 0.19 0.15
Matches are distributed among these distances:
42 6 0.05
43 28 0.22
44 57 0.46
45 28 0.22
46 6 0.05
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (44 bp):
GAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAG
Found at i:60947866 original size:88 final size:87
Alignment explanation
Indices: 60947704--60948231 Score: 558
Period size: 88 Copynumber: 6.1 Consensus size: 87
60947694 GATCTGAAAT
* * * * * *
60947704 TCTTCAGCCAGCTTCA-CTACAACCGAGAGAGGTAAGG-TT-CGTCTTCGACCTGTTTCACTGTC
1 TCTTCAACCAGCTCCATC-ACAACCGAGA-AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTC
*
60947766 AATGCAAGAAGGCAAGATCTGTTG
64 AATGCAGGAAGGCAAGATCTGTTG
*
60947790 TCTTCAACCAGCTCCATCACAACCGAGGAAGGCAAGGTTTGTGTCTTCGACCGGCTTCGCTGTCA
1 TCTTCAACCAGCTCCATCACAACCGA-GAAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCA
*
60947855 ATGCAGGAAGGCAAGATCTTTTG
65 ATGCAGGAAGGCAAGATCTGTTG
* * * *
60947878 TCTTCAACCAGCTCCATCACAACCGAGAGAGGTAAGGTTTGTGTCTTTGACCTGTTTCGCCGTCA
1 TCTTCAACCAGCTCCATCACAACCGAGA-AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCA
*
60947943 ATGCAGGAAGGCAAGATCTTTTG
65 ATGCAGGAAGGCAAGATCTGTTG
* * *
60947966 TCTTCAACCAGCTCCATCACAACCGAGAGCGGCAAGGTTTGTGTCTTTGACCTGCTTCGCCGTCA
1 TCTTCAACCAGCTCCATCACAACCGAGA-AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCA
*
60948031 ATGCAGGAAGGCAAGATCTTTTG
65 ATGCAGGAAGGCAAGATCTGTTG
* * * * *
60948054 TCTTTAACCAGCTCCA-CTGCAACCAATGAAGGCAAGGCTTTGT-T-TTCGATCTGCTTTGCTGT
1 TCTTCAACCAGCTCCATC-ACAACCGA-GAAGGCAAGG-TTTGTGTCTTCGACCTGCTTCGCTGT
* * *
60948116 TAACGCAGGAAGGCAAGATCTGCTTA
63 CAATGCAGGAAGGCAAGATCTG-TTG
** * *
60948142 T-TT-AACCAGCTCCA-CTGTAACCAATGAAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGT
1 TCTTCAACCAGCTCCATC-ACAACCGA-GAAGGCAAGG-TTTGTGTCTTCGACCTGCTTCGCTGT
* * * *
60948202 TAACGCAGGGAGGCAAGATCTGCT-
63 CAATGCAGGAAGGCAAGATCTGTTG
60948226 TCTTCA
1 TCTTCA
60948232 CTGATCTGTT
Statistics
Matches: 398, Mismatches: 33, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
84 1 0.00
85 3 0.01
86 106 0.27
87 43 0.11
88 238 0.60
89 7 0.02
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (87 bp):
TCTTCAACCAGCTCCATCACAACCGAGAAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAA
TGCAGGAAGGCAAGATCTGTTG
Found at i:60948044 original size:44 final size:44
Alignment explanation
Indices: 60947815--60948045 Score: 145
Period size: 44 Copynumber: 5.2 Consensus size: 44
60947805 ATCACAACCG
* *
60947815 AGGAAGGCAAGGTTTGTGTCTTCGACCGGCTTCGCTGTCAATGC
1 AGGAAGGCAAGGTTTGTGTCTTCGACCAGCTTCGCCGTCAATGC
* * * * *
60947859 AGGAAGGCAAGATCTTTTGTCTTCAACCAGC-T--CCATCACA-AC
1 AGGAAGGCAAGGT-TTGTGTCTTCGACCAGCTTCGCCGTCA-ATGC
* * * * *
60947901 CGAGAGAGGTAAGGTTTGTGTCTTTGACCTGTTTCGCCGTCAATGC
1 AG-GA-AGGCAAGGTTTGTGTCTTCGACCAGCTTCGCCGTCAATGC
* * * * *
60947947 AGGAAGGCAAGATCTTTTGTCTTCAACCAGC-T--CCATCACA-AC
1 AGGAAGGCAAGGT-TTGTGTCTTCGACCAGCTTCGCCGTCA-ATGC
* * * *
60947989 CGAGAGCGGCAAGGTTTGTGTCTTTGACCTGCTTCGCCGTCAATGC
1 AG-GA-AGGCAAGGTTTGTGTCTTCGACCAGCTTCGCCGTCAATGC
60948035 AGGAAGGCAAG
1 AGGAAGGCAAG
60948046 ATCTTTTGTC
Statistics
Matches: 133, Mismatches: 38, Indels: 32
0.66 0.19 0.16
Matches are distributed among these distances:
42 13 0.10
43 31 0.23
44 43 0.32
45 32 0.24
46 14 0.11
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.26
Consensus pattern (44 bp):
AGGAAGGCAAGGTTTGTGTCTTCGACCAGCTTCGCCGTCAATGC
Found at i:60948132 original size:43 final size:43
Alignment explanation
Indices: 60948081--60948218 Score: 129
Period size: 43 Copynumber: 3.2 Consensus size: 43
60948071 TGCAACCAAT
*
60948081 GAAGGCAAGGCTTTGTTTTCGATCTGCTTTGCTGTTAACGCAG
1 GAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAG
* * ** * * * * *
60948124 GAAGGCAA-GATCTGCTTATTTAACCAGCTCCACTG-TAAC-CAAT
1 GAAGGCAAGGCTTTG-TT-TTCGATCTGCTTCGCTGTTAACGC-AG
60948167 GAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAG
1 GAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAG
*
60948210 GGAGGCAAG
1 GAAGGCAAG
60948219 ATCTGCTTCT
Statistics
Matches: 69, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
42 16 0.23
43 38 0.55
44 15 0.22
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (43 bp):
GAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAG
Found at i:60950315 original size:6 final size:6
Alignment explanation
Indices: 60950304--60950339 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
60950294 TTGACCTCTC
60950304 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
60950340 TCTATTTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
CTTTTT
Found at i:60950347 original size:8 final size:7
Alignment explanation
Indices: 60950305--60950348 Score: 51
Period size: 6 Copynumber: 6.7 Consensus size: 7
60950295 TGACCTCTCC
60950305 TTTTTC-
1 TTTTTCT
60950311 TTTTTC-
1 TTTTTCT
60950317 TTTTTC-
1 TTTTTCT
60950323 TTTTTC-
1 TTTTTCT
60950329 TTTTTCT
1 TTTTTCT
60950336 TTTTTCT
1 TTTTTCT
60950343 ATTTTT
1 -TTTTT
60950349 GACTTTGATT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 24 0.67
7 7 0.19
8 5 0.14
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTCT
Found at i:60950367 original size:8 final size:8
Alignment explanation
Indices: 60950356--60950413 Score: 55
Period size: 8 Copynumber: 7.0 Consensus size: 8
60950346 TTTGACTTTG
60950356 ATTTTTTT
1 ATTTTTTT
60950364 ATTTTTGTT
1 ATTTTT-TT
60950373 -TTTCTTTT
1 ATTT-TTTT
*
60950381 GATTTTTTG
1 -ATTTTTTT
*
60950390 ATTTTTTG
1 ATTTTTTT
*
60950398 ATTTTTTG
1 ATTTTTTT
60950406 ATTTTTTT
1 ATTTTTTT
60950414 TTTGAGTCTG
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
8 34 0.77
9 7 0.16
10 3 0.07
ACGTcount: A:0.10, C:0.02, G:0.09, T:0.79
Consensus pattern (8 bp):
ATTTTTTT
Found at i:60950396 original size:48 final size:49
Alignment explanation
Indices: 60950311--60950413 Score: 120
Period size: 48 Copynumber: 2.1 Consensus size: 49
60950301 CTCCTTTTTC
* ** *
60950311 TTTTTCTTTTTCTTTTTCTTTTTCTTTTTTCTATTTTTGA-CTTTGATT
1 TTTTTATTTTTCTTTTTCTTTTGATTTTTTATATTTTTGATCTTTGATT
* *
60950359 TTTTTATTTTTGTTTTTCTTTTGATTTTTTGAT-TTTTTGATTTTTTGATT
1 TTTTTATTTTTCTTTTTCTTTTGATTTTTT-ATATTTTTGA-TCTTTGATT
60950409 TTTTT
1 TTTTT
60950414 TTTGAGTCTG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
48 33 0.72
49 1 0.02
50 12 0.26
ACGTcount: A:0.08, C:0.07, G:0.07, T:0.79
Consensus pattern (49 bp):
TTTTTATTTTTCTTTTTCTTTTGATTTTTTATATTTTTGATCTTTGATT
Found at i:60950398 original size:16 final size:16
Alignment explanation
Indices: 60950352--60950412 Score: 77
Period size: 16 Copynumber: 3.7 Consensus size: 16
60950342 TATTTTTGAC
*
60950352 TTTGATTTTTTTATTT
1 TTTGATTTTTTGATTT
**
60950368 TTGTTTTTCTTTTGATTT
1 TT-TGATT-TTTTGATTT
60950386 TTTGATTTTTTGATTT
1 TTTGATTTTTTGATTT
60950402 TTTGATTTTTT
1 TTTGATTTTTT
60950413 TTTTGAGTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
16 22 0.58
17 6 0.16
18 10 0.26
ACGTcount: A:0.10, C:0.02, G:0.10, T:0.79
Consensus pattern (16 bp):
TTTGATTTTTTGATTT
Found at i:60954216 original size:109 final size:109
Alignment explanation
Indices: 60954032--60954238 Score: 369
Period size: 109 Copynumber: 1.9 Consensus size: 109
60954022 TATATTTTAA
*
60954032 AAAGGATATTAAGTCATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCGTGTTTTC
1 AAAGGATATTAAGCCATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCGTGTTTTC
60954097 TCGAATTTCCAAACGCAAAACATTGCCATATTTTGAAATTTTTT
66 TCGAATTTCCAAACGCAAAACATTGCCATATTTTGAAATTTTTT
* *
60954141 AAAGGATATTAAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCGTGTTTTC
1 AAAGGATATTAAGCCATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCGTGTTTTC
* *
60954206 TCGAATTTCCAAACGCAAAATATTGCCTTATTT
66 TCGAATTTCCAAACGCAAAACATTGCCATATTT
60954239 AGGAATATTT
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
109 93 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (109 bp):
AAAGGATATTAAGCCATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCGTGTTTTC
TCGAATTTCCAAACGCAAAACATTGCCATATTTTGAAATTTTTT
Found at i:60954546 original size:14 final size:15
Alignment explanation
Indices: 60954515--60954548 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
60954505 AATTATGGAA
*
60954515 ATATAAAAGATGTGT
1 ATATAAAAGATATGT
60954530 ATATAAAAG-TATGT
1 ATATAAAAGATATGT
60954544 ATATA
1 ATATA
60954549 TGTGTATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (15 bp):
ATATAAAAGATATGT
Found at i:60954927 original size:3 final size:3
Alignment explanation
Indices: 60954887--60954941 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
60954877 AAGTATAAAT
* * * * * *
60954887 ATA ATG ATA GTA ATA AGA ATA TTA GTA ATA ATA CTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
60954935 ATA ATA A
1 ATA ATA A
60954942 AACTACTGAA
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:60954970 original size:25 final size:25
Alignment explanation
Indices: 60954942--60954993 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
60954932 ATAATAATAA
60954942 AACTACTGAAAAAAGGACTAAATCG
1 AACTACTGAAAAAAGGACTAAATCG
60954967 AACTACTGAAAAAAGGACTAAATCG
1 AACTACTGAAAAAAGGACTAAATCG
60954992 AA
1 AA
60954994 ATAAAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (25 bp):
AACTACTGAAAAAAGGACTAAATCG
Found at i:60955004 original size:25 final size:25
Alignment explanation
Indices: 60954950--60955005 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
60954940 AAAACTACTG
* **
60954950 AAAAAAGGACTAAATCGAACTACTG
1 AAAAAAGGACTAAATCGAAATACAA
60954975 AAAAAAGGACTAAATCGAAATA-AA
1 AAAAAAGGACTAAATCGAAATACAA
60954999 ATAAAAA
1 A-AAAAA
60955006 TACTGGGCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.62, C:0.11, G:0.12, T:0.14
Consensus pattern (25 bp):
AAAAAAGGACTAAATCGAAATACAA
Found at i:60963852 original size:18 final size:19
Alignment explanation
Indices: 60963806--60963844 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
60963796 TATAAATGGG
*
60963806 TAAACAATAAAGGCAAATAA
1 TAAA-AATAAAAGCAAATAA
60963826 TAAAAATAAAAGC-AATAA
1 TAAAAATAAAAGCAAATAA
60963844 T
1 T
60963845 GATAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 8 0.44
20 4 0.22
ACGTcount: A:0.67, C:0.08, G:0.08, T:0.18
Consensus pattern (19 bp):
TAAAAATAAAAGCAAATAA
Found at i:60971881 original size:12 final size:12
Alignment explanation
Indices: 60971864--60971888 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60971854 TTCTCACCAA
60971864 AAATGTTAGAAG
1 AAATGTTAGAAG
60971876 AAATGTTAGAAG
1 AAATGTTAGAAG
60971888 A
1 A
60971889 GATACTAATA
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:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (12 bp):
AAATGTTAGAAG
Found at i:60974649 original size:31 final size:30
Alignment explanation
Indices: 60974613--60974684 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 30
60974603 ATTGAAGCAC
* * *
60974613 CAAATTATAAAAAAGTATAAAGTCCAAATCT
1 CAAATT-TAAAAAAGTACAAAGACCAAAACT
* *
60974644 CAAATTTTAACATAGTACAAAGACCAAAACT
1 CAAA-TTTAAAAAAGTACAAAGACCAAAACT
*
60974675 GAAATTTAAA
1 CAAATTTAAA
60974685 TAATCATACA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
30 5 0.15
31 26 0.79
32 2 0.06
ACGTcount: A:0.54, C:0.14, G:0.07, T:0.25
Consensus pattern (30 bp):
CAAATTTAAAAAAGTACAAAGACCAAAACT
Found at i:60980941 original size:14 final size:13
Alignment explanation
Indices: 60980922--60980960 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
60980912 AAAATAAGTC
60980922 TAAAAAATATAAAA
1 TAAAAAAT-TAAAA
*
60980936 TAAAAAATTAATA
1 TAAAAAATTAAAA
60980949 TGAAAAAATTAA
1 T-AAAAAATTAA
60980961 CAACTCTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (13 bp):
TAAAAAATTAAAA
Found at i:60983312 original size:7 final size:7
Alignment explanation
Indices: 60983302--60983330 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
60983292 AAAAAGAAGA
60983302 GAAAATT
1 GAAAATT
60983309 GAAAATT
1 GAAAATT
60983316 GAAAATT
1 GAAAATT
60983323 GAAAATT
1 GAAAATT
60983330 G
1 G
60983331 GAAGAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.17, T:0.28
Consensus pattern (7 bp):
GAAAATT
Found at i:60984827 original size:29 final size:29
Alignment explanation
Indices: 60984795--60984850 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
60984785 TCCGCATCCC
60984795 TCTTCATATTCAGTATCCATTTCATGCCT
1 TCTTCATATTCAGTATCCATTTCATGCCT
* * *
60984824 TCTTCATATTTAGTATTCATTTGATGC
1 TCTTCATATTCAGTATCCATTTCATGC
60984851 ATCTCTCGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.48
Consensus pattern (29 bp):
TCTTCATATTCAGTATCCATTTCATGCCT
Found at i:60988541 original size:7 final size:8
Alignment explanation
Indices: 60988514--60988538 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
60988504 AATACATTTT
60988514 CCATTTCC
1 CCATTTCC
60988522 CCATTTCC
1 CCATTTCC
60988530 CCATTTCC
1 CCATTTCC
60988538 C
1 C
60988539 ATTAGACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.52, G:0.00, T:0.36
Consensus pattern (8 bp):
CCATTTCC
Found at i:60992130 original size:29 final size:29
Alignment explanation
Indices: 60992098--60992153 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
60992088 TCCACATCCC
60992098 TCTTCATATTCAGTATCCATTTCATGCCT
1 TCTTCATATTCAGTATCCATTTCATGCCT
* * *
60992127 TCTTCATATTTAGTATTCATTTGATGC
1 TCTTCATATTCAGTATCCATTTCATGC
60992154 ATCTCTCGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.48
Consensus pattern (29 bp):
TCTTCATATTCAGTATCCATTTCATGCCT
Found at i:60994704 original size:35 final size:35
Alignment explanation
Indices: 60994656--60994746 Score: 91
Period size: 35 Copynumber: 2.6 Consensus size: 35
60994646 TACTATTAGG
* *
60994656 TTCTATTGTTTTTTTTTATTTTTTATTTA-GTT-T
1 TTCTATTATTTTTTTTTATTTTTTATATAGGTTAT
*
60994689 TTACCTATTATTTTTTCTTT-TTATTTATATAGGTTAT
1 TT--CTATTATTTTTT-TTTATTTTTTATATAGGTTAT
*
60994726 TTCT-TTATTTTATTTTATTTT
1 TTCTATTATTTTTTTTTATTTT
60994747 CGTCCTTACT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
33 5 0.11
34 11 0.23
35 22 0.47
36 6 0.13
37 3 0.06
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.74
Consensus pattern (35 bp):
TTCTATTATTTTTTTTTATTTTTTATATAGGTTAT
Found at i:60996863 original size:27 final size:27
Alignment explanation
Indices: 60996825--60996885 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
60996815 ATTATGCCAA
60996825 ATTCTTTGTTAAATTTGTTGGTTTGAT
1 ATTCTTTGTTAAATTTGTTGGTTTGAT
*
60996852 ATTCTTTGTTAAATTTTTTGGTTTGAT
1 ATTCTTTGTTAAATTTGTTGGTTTGAT
60996879 ATTCTTT
1 ATTCTTT
60996886 CAAAAGTACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.18, C:0.05, G:0.15, T:0.62
Consensus pattern (27 bp):
ATTCTTTGTTAAATTTGTTGGTTTGAT
Found at i:61008167 original size:29 final size:29
Alignment explanation
Indices: 61008135--61008190 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
61008125 TCCACATCCC
61008135 TCTTCATATTCAGTATCCATTTCATGCCT
1 TCTTCATATTCAGTATCCATTTCATGCCT
* * *
61008164 TCTTCATATTTAGTATTCATTTGATGC
1 TCTTCATATTCAGTATCCATTTCATGC
61008191 ATCTCTCGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.48
Consensus pattern (29 bp):
TCTTCATATTCAGTATCCATTTCATGCCT
Found at i:61016569 original size:19 final size:19
Alignment explanation
Indices: 61016522--61016571 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
61016512 TTTTTCGTTT
*
61016522 TTTTAAATAAAAGTCGACCA
1 TTTTAAA-AAAAGTCAACCA
*
61016542 TTTTCAAAAAAGGTCAACCA
1 TTTT-AAAAAAAGTCAACCA
61016562 -TTTAAAAAAA
1 TTTTAAAAAAA
61016572 ATGACTTCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 6 0.23
19 3 0.12
20 14 0.54
21 3 0.12
ACGTcount: A:0.50, C:0.14, G:0.08, T:0.28
Consensus pattern (19 bp):
TTTTAAAAAAAGTCAACCA
Found at i:61017260 original size:26 final size:26
Alignment explanation
Indices: 61017218--61017269 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
61017208 TTGAGTCGAG
* *
61017218 ATGGGTCGAAGGTCCCTTGCGTTTGA
1 ATGGGTCGAAGGACCCTTGAGTTTGA
61017244 ATGGGTCTG-AGGACCCTTGAGTTTGA
1 ATGGGTC-GAAGGACCCTTGAGTTTGA
61017270 GTTAGTCGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.17, C:0.17, G:0.35, T:0.31
Consensus pattern (26 bp):
ATGGGTCGAAGGACCCTTGAGTTTGA
Found at i:61017281 original size:26 final size:26
Alignment explanation
Indices: 61017252--61017310 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
61017242 GAATGGGTCT
*
61017252 GAGGACCCTTGAGTTTGAGTTAGTCG
1 GAGGACCCTTGAGGTTGAGTTAGTCG
* * *
61017278 GAGGTCCCTTGAGGTTGGGTTGGTCG
1 GAGGACCCTTGAGGTTGAGTTAGTCG
61017304 GAGGACC
1 GAGGACC
61017311 ATAAGCAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.15, C:0.17, G:0.41, T:0.27
Consensus pattern (26 bp):
GAGGACCCTTGAGGTTGAGTTAGTCG
Found at i:61021098 original size:2 final size:2
Alignment explanation
Indices: 61021087--61021120 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
61021077 AAGTTAAATT
61021087 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
61021121 TACCTACCCG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:61024069 original size:40 final size:39
Alignment explanation
Indices: 61024028--61024153 Score: 130
Period size: 37 Copynumber: 3.2 Consensus size: 39
61024018 TGGCACTCAG
* * *
61024028 TGCCTCATCGGATAATTCAAAGTAATAAATTGACACCCAG
1 TGCCTCATCGGATAATCCGAAGT-ATAAATTGACACCCAA
* * * *
61024068 TGTCTCATCGGCTAAACCGAAG--TAAATTGGCACCCAA
1 TGCCTCATCGGATAATCCGAAGTATAAATTGACACCCAA
*
61024105 TGCCTCATCGAATTAATCCGAAGTAGTAAATTGACACCCAA
1 TGCCTCATCGGA-TAATCCGAAGTA-TAAATTGACACCCAA
*
61024146 TGTCTCAT
1 TGCCTCAT
61024154 TGACCCGAAG
Statistics
Matches: 69, Mismatches: 13, Indels: 7
0.78 0.15 0.08
Matches are distributed among these distances:
37 22 0.32
38 9 0.13
40 17 0.25
41 21 0.30
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (39 bp):
TGCCTCATCGGATAATCCGAAGTATAAATTGACACCCAA
Found at i:61024143 original size:41 final size:39
Alignment explanation
Indices: 61024028--61024153 Score: 114
Period size: 41 Copynumber: 3.2 Consensus size: 39
61024018 TGGCACTCAG
* * * *
61024028 TGCCTCATCGGATAATTCAAAGTAATAAATTGACACCCAG
1 TGCCTCATC-GATAATCCGAAGTAGTAAATTGACACCCAA
* * * *
61024068 TGTCTCATCGGCTAAACCG-A--AGTAAATTGGCACCCAA
1 TGCCTCATC-GATAATCCGAAGTAGTAAATTGACACCCAA
61024105 TGCCTCATCGAATTAATCCGAAGTAGTAAATTGACACCCAA
1 TGCCTCATCG-A-TAATCCGAAGTAGTAAATTGACACCCAA
*
61024146 TGTCTCAT
1 TGCCTCAT
61024154 TGACCCGAAG
Statistics
Matches: 68, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
36 1 0.01
37 22 0.32
38 6 0.09
39 2 0.03
40 14 0.21
41 23 0.34
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (39 bp):
TGCCTCATCGATAATCCGAAGTAGTAAATTGACACCCAA
Found at i:61024334 original size:15 final size:15
Alignment explanation
Indices: 61024287--61024336 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
61024277 CAATTCAAAT
*
61024287 AATCAATATATATTC
1 AATCAATATAAATTC
61024302 AAT-ATATATACCAATTC
1 AATCA-ATATA--AATTC
61024319 AATCAATATAAATTC
1 AATCAATATAAATTC
61024334 AAT
1 AAT
61024337 AAATTTATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 1 0.03
15 16 0.53
17 12 0.40
18 1 0.03
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (15 bp):
AATCAATATAAATTC
Found at i:61028363 original size:22 final size:22
Alignment explanation
Indices: 61028333--61028375 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
61028323 ACAACAAAAC
61028333 AGGCATTTAGCGGCGCTTTTTT
1 AGGCATTTAGCGGCGCTTTTTT
*
61028355 AGGCCTTTAGCGGCGCTTTTT
1 AGGCATTTAGCGGCGCTTTTT
61028376 AGCGCCGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.12, C:0.21, G:0.28, T:0.40
Consensus pattern (22 bp):
AGGCATTTAGCGGCGCTTTTTT
Found at i:61028523 original size:43 final size:43
Alignment explanation
Indices: 61028469--61028696 Score: 312
Period size: 43 Copynumber: 5.3 Consensus size: 43
61028459 TTTTATAACT
*
61028469 AAACGTCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* *** *
61028512 AAACGCCGCTAAAGACTATGACCTTTAAAAGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
61028555 AAATGCCGCTAAAGACCATGACCTTTAACGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* *
61028598 AAACGTCGCTGAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * **
61028641 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
*
61028684 AAATGCCGCTAAA
1 AAACGCCGCTAAA
61028697 AGTACAATTC
Statistics
Matches: 161, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 161 1.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:61031867 original size:24 final size:24
Alignment explanation
Indices: 61031835--61031894 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
61031825 CGTTGAAGGC
61031835 AGAAATAGATAACTTAAACAAATT
1 AGAAATAGATAACTTAAACAAATT
* *
61031859 AGAAATAGATAAATTAAACAACTT
1 AGAAATAGATAACTTAAACAAATT
61031883 AG-AATAGATAAC
1 AGAAATAGATAAC
61031895 AGTAGTCTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 9 0.27
24 24 0.73
ACGTcount: A:0.58, C:0.08, G:0.10, T:0.23
Consensus pattern (24 bp):
AGAAATAGATAACTTAAACAAATT
Found at i:61033149 original size:21 final size:21
Alignment explanation
Indices: 61033124--61033170 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
61033114 GTTTCAAGGG
61033124 GGGAAA-TTAGGGATTTTAGGA
1 GGGAAAGTTAGGGATTTT-GGA
* *
61033145 GGGAAAGTTGGGGATTTTGGG
1 GGGAAAGTTAGGGATTTTGGA
61033166 GGGAA
1 GGGAA
61033171 GGGATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.28, C:0.00, G:0.47, T:0.26
Consensus pattern (21 bp):
GGGAAAGTTAGGGATTTTGGA
Found at i:61033308 original size:60 final size:60
Alignment explanation
Indices: 61033244--61033363 Score: 213
Period size: 60 Copynumber: 2.0 Consensus size: 60
61033234 AACGTCGCTA
* *
61033244 AATGTTTTGTTATATAAAATAGTTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTT
1 AATGTTTTGCTATATAAAATAGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTT
*
61033304 AATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTT
1 AATGTTTTGCTATATAAAATAGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTT
61033364 TATAAAAACG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.53
Consensus pattern (60 bp):
AATGTTTTGCTATATAAAATAGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTT
Found at i:61033379 original size:136 final size:135
Alignment explanation
Indices: 61033190--61033435 Score: 415
Period size: 136 Copynumber: 1.8 Consensus size: 135
61033180 TAAAAATGGC
* * *
61033190 GCTATTTTTTTATAAAATTATTTTTTTGTGGCGTTTTTTATAAAAACGTCGCTAAATGTTTTGTT
1 GCTATTTTTTAATAAAATTATTTTTTTGTGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCT
*
61033255 ATATAAAATAG-TTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTAATGTTTTGCTATAT
66 ATATAAAAT-GCCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTAATGTTTTGCTATAT
61033319 AAAATG
130 AAAATG
61033325 GCTATTTTTTAAAGTAAAATTA-TTTTTTGTGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTG
1 GCTATTTTTT-AA-TAAAATTATTTTTTTGTGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTG
61033389 CTATATAAAATGCCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGT
64 CTATATAAAATGCCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGT
61033436 GATTATTTTT
Statistics
Matches: 104, Mismatches: 4, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
135 11 0.11
136 85 0.82
137 8 0.08
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.50
Consensus pattern (135 bp):
GCTATTTTTTAATAAAATTATTTTTTTGTGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCT
ATATAAAATGCCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTAATGTTTTGCTATATA
AAATG
Found at i:61033426 original size:18 final size:18
Alignment explanation
Indices: 61033403--61033463 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
61033393 ATAAAATGCC
61033403 TATTTTTTAAAGTAAAAT
1 TATTTTTTAAAGTAAAAT
*** ****
61033421 TATTTTTTGTGGCGTGAT
1 TATTTTTTAAAGTAAAAT
61033439 TATTTTTTAAAGTAAAAT
1 TATTTTTTAAAGTAAAAT
61033457 TATTTTT
1 TATTTTT
61033464 GTGGCGTTTT
Statistics
Matches: 29, Mismatches: 14, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (18 bp):
TATTTTTTAAAGTAAAAT
Found at i:61033463 original size:35 final size:36
Alignment explanation
Indices: 61033403--61033470 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
61033393 ATAAAATGCC
61033403 TATTTTTTAAAGTAAAATTATTTTTTGTGGCGTGAT
1 TATTTTTTAAAGTAAAATTATTTTTTGTGGCGTGAT
61033439 TATTTTTTAAAGTAAAATTA-TTTTTGTGGCGT
1 TATTTTTTAAAGTAAAATTATTTTTTGTGGCGT
61033471 TTTTTATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 12 0.38
36 20 0.62
ACGTcount: A:0.28, C:0.03, G:0.16, T:0.53
Consensus pattern (36 bp):
TATTTTTTAAAGTAAAATTATTTTTTGTGGCGTGAT
Found at i:61034778 original size:7 final size:7
Alignment explanation
Indices: 61034757--61034821 Score: 51
Period size: 7 Copynumber: 9.3 Consensus size: 7
61034747 CGAATCTATA
*
61034757 AACCCTA
1 AACCCTT
*
61034764 AATCCTT
1 AACCCTT
*
61034771 AACTCTT
1 AACCCTT
61034778 AA-CCTCT
1 AACCCT-T
61034785 AACCCTT
1 AACCCTT
*
61034792 AACCCCT
1 AACCCTT
*
61034799 AACTCTT
1 AACCCTT
*
61034806 AACCCAT
1 AACCCTT
*
61034813 AAACCTT
1 AACCCTT
61034820 AA
1 AA
61034822 ATCACAACCG
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
6 2 0.05
7 39 0.89
8 3 0.07
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (7 bp):
AACCCTT
Found at i:61034810 original size:14 final size:14
Alignment explanation
Indices: 61034770--61034810 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
61034760 CCTAAATCCT
*
61034770 TAACTCTTAACCTC
1 TAACTCTTAACCCC
*
61034784 TAACCCTTAACCCC
1 TAACTCTTAACCCC
61034798 TAACTCTTAACCC
1 TAACTCTTAACCC
61034811 ATAAACCTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.29, C:0.41, G:0.00, T:0.29
Consensus pattern (14 bp):
TAACTCTTAACCCC
Found at i:61034862 original size:14 final size:15
Alignment explanation
Indices: 61034843--61034873 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
61034833 TAAATCAGAG
61034843 TCCCTAA-TCCATAA
1 TCCCTAATTCCATAA
61034857 TCCCTAATTCCATAA
1 TCCCTAATTCCATAA
61034872 TC
1 TC
61034874 TATAAACCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (15 bp):
TCCCTAATTCCATAA
Found at i:61035307 original size:41 final size:41
Alignment explanation
Indices: 61035249--61035446 Score: 274
Period size: 41 Copynumber: 4.9 Consensus size: 41
61035239 AAATGTTTTT
* ** *
61035249 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
*
61035290 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGTATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
* *
61035331 GCGCCGCTTTTTTAAAAACGCCGCTAAAGATCTAAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
* *
61035372 GTGGCGCTTTTTCAAAAACGCCGCTAAAGA--TGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
* *
61035411 GCGGCACTTTTTTTAAAAGCGCCGCTAAAGATCTGA
1 GCGGCGC-TTTTTTAAAAACGCCGCTAAAGATCTGA
61035447 AAGGTAGAAA
Statistics
Matches: 138, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 13 0.09
40 21 0.15
41 101 0.73
42 3 0.02
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (41 bp):
GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:61039411 original size:43 final size:43
Alignment explanation
Indices: 61039351--61039441 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
61039341 CTTTGAGTTC
* * * *
61039351 ATTA-CAAGATTTCCTTGATTAAGTAGATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* *
61039393 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATTTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
61039436 ATTACC
1 ATTACC
61039442 TTGCAATGTG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 4 0.10
43 38 0.90
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:61039849 original size:43 final size:42
Alignment explanation
Indices: 61039787--61039979 Score: 185
Period size: 43 Copynumber: 4.5 Consensus size: 42
61039777 ATAATTTTTT
* * * * *
61039787 TAAAGGTTATG-TTTTTAGCGGCGTTTTTGCGAGAAGTGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTG-GAAAAGCGCCGC
*
61039829 TAAAGGTCATGATCTTTAGCGGCGTCTGTGGATAAAGCGCC-C
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGGA-AAAGCGCCGC
* * * *
61039871 TCGAAAGGTCAAGATCTTTAGGGGCATTTGTGATAAAAAG-GCCGC
1 T--AAAGGTCATGATCTTTAGCGGCGTTTGTG--GAAAAGCGCCGC
* * *
61039916 GAAAGGTCAAGATCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTG-GAAAAGCGCCGC
61039959 TAAAGGTCATGATCTTTAGCG
1 TAAAGGTCATGATCTTTAGCG
61039980 ACGGTTTTTC
Statistics
Matches: 125, Mismatches: 18, Indels: 15
0.79 0.11 0.09
Matches are distributed among these distances:
42 19 0.15
43 72 0.58
44 28 0.22
45 5 0.04
46 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (42 bp):
TAAAGGTCATGATCTTTAGCGGCGTTTGTGGAAAAGCGCCGC
Found at i:61040002 original size:87 final size:86
Alignment explanation
Indices: 61039823--61039981 Score: 205
Period size: 87 Copynumber: 1.8 Consensus size: 86
61039813 TTGCGAGAAG
* *
61039823 TGCCGCTAAAGGTCATGATCTTTAGCGGCGTCTGTGGATAAAGCGCCCTCGAAAGGTCAAGATCT
1 TGCCGCGAAAGGTCAAGATCTTTAGCGGCGTCTGTGGATAAAGCGCCCTC-AAAGGTCAAGATCT
* * *
61039888 TTAGGGGCATTTGTGATAAAAA
65 TTAGCGACATTTGTCATAAAAA
* * *
61039910 GGCCGCGAAAGGTCAAGATCTTTAGCGGCGTTTGT-GATAAAAGCGCCGCT-AAAGGTCATGATC
1 TGCCGCGAAAGGTCAAGATCTTTAGCGGCGTCTGTGGAT-AAAGCGCC-CTCAAAGGTCAAGATC
61039973 TTTAGCGAC
64 TTTAGCGAC
61039982 GGTTTTTCAA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
86 22 0.35
87 39 0.62
88 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (86 bp):
TGCCGCGAAAGGTCAAGATCTTTAGCGGCGTCTGTGGATAAAGCGCCCTCAAAGGTCAAGATCTT
TAGCGACATTTGTCATAAAAA
Found at i:61040301 original size:14 final size:15
Alignment explanation
Indices: 61040282--61040314 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
61040272 TTAATACAGT
*
61040282 AAAAAAT-TTCTTTA
1 AAAAAATATTCATTA
61040296 AAAAAATATTCATTA
1 AAAAAATATTCATTA
61040311 AAAA
1 AAAA
61040315 TGTACAGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAAAATATTCATTA
Found at i:61041958 original size:16 final size:17
Alignment explanation
Indices: 61041920--61041961 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
61041910 TAAGTTTATA
61041920 ATATTTTATATTATGTT
1 ATATTTTATATTATGTT
*
61041937 AT-TTTTATA-TATTTT
1 ATATTTTATATTATGTT
*
61041952 GTATTTTATA
1 ATATTTTATA
61041962 ATAAATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 6 0.27
16 14 0.64
17 2 0.09
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (17 bp):
ATATTTTATATTATGTT
Found at i:61068071 original size:31 final size:31
Alignment explanation
Indices: 61068026--61068087 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
61068016 ACAGTCCTTA
*
61068026 AACTATTCTAAAG-TTTTCGTTTAAGTTATTG
1 AACTATTCTAAAGTTTTTC-TTTAAGTCATTG
61068057 AACTATT-TAGAAGTTTTTCTTTAAGTCATTG
1 AACTATTCTA-AAGTTTTTCTTTAAGTCATTG
61068088 GGTTGTTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 2 0.07
31 21 0.75
32 5 0.18
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (31 bp):
AACTATTCTAAAGTTTTTCTTTAAGTCATTG
Found at i:61077196 original size:29 final size:30
Alignment explanation
Indices: 61077154--61077233 Score: 90
Period size: 29 Copynumber: 2.6 Consensus size: 30
61077144 TGATTGAATC
*
61077154 AAATCAAAATTTCATGTATAAAATTGCACA-
1 AAATC-AAAGTTCATGTATAAAATTGCACAT
* *
61077184 AAATCAAAGTTCATGCATACAATTGCACATT
1 AAATCAAAGTTCATGTATAAAATTGCACA-T
* *
61077215 AAACCATAGTTCATGTATA
1 AAATCAAAGTTCATGTATA
61077234 GTTTTGAGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 21 0.50
30 5 0.12
31 16 0.38
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (30 bp):
AAATCAAAGTTCATGTATAAAATTGCACAT
Found at i:61077388 original size:18 final size:18
Alignment explanation
Indices: 61077361--61077404 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
61077351 AATACCAAAC
* *
61077361 AAATTAAAAATTATAAAG
1 AAATTTAAAATTATAAAA
*
61077379 AAATTTAAAATTTTAAAA
1 AAATTTAAAATTATAAAA
61077397 AAATTTAA
1 AAATTTAA
61077405 GTGATGACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
AAATTTAAAATTATAAAA
Found at i:61081667 original size:21 final size:21
Alignment explanation
Indices: 61081643--61081683 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
61081633 TTTTTAAAAA
61081643 AATATTT-TATTGTTTTATTTT
1 AATATTTATATT-TTTTATTTT
61081664 AATATTTAATATTTTTTATT
1 AATATTT-ATATTTTTTATT
61081684 GAAATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 7 0.39
23 4 0.22
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (21 bp):
AATATTTATATTTTTTATTTT
Found at i:61082294 original size:24 final size:25
Alignment explanation
Indices: 61082262--61082316 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
61082252 ACATTTTCAA
61082262 TTTTTTTTAAAAA-AAATTGTACAT
1 TTTTTTTTAAAAACAAATTGTACAT
61082286 TTTTTTTTAAAAACAAATTGTACAT
1 TTTTTTTTAAAAACAAATTGTACAT
61082311 TTTTTT
1 TTTTTT
61082317 ACAAGTCTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 13 0.43
25 17 0.57
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (25 bp):
TTTTTTTTAAAAACAAATTGTACAT
Found at i:61089653 original size:31 final size:31
Alignment explanation
Indices: 61089617--61089692 Score: 152
Period size: 31 Copynumber: 2.5 Consensus size: 31
61089607 GAGCTAAACC
61089617 GATAATCAAAATAGAGTGTAGGGACCAAGTT
1 GATAATCAAAATAGAGTGTAGGGACCAAGTT
61089648 GATAATCAAAATAGAGTGTAGGGACCAAGTT
1 GATAATCAAAATAGAGTGTAGGGACCAAGTT
61089679 GATAATCAAAATAG
1 GATAATCAAAATAG
61089693 TACATGTATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.22
Consensus pattern (31 bp):
GATAATCAAAATAGAGTGTAGGGACCAAGTT
Found at i:61091990 original size:203 final size:202
Alignment explanation
Indices: 61091445--61092061 Score: 787
Period size: 203 Copynumber: 3.0 Consensus size: 202
61091435 ATTCGAGTTG
* * * *
61091445 AATCTTTATATGGTTCTTCGAATC-AGAGATAATCCATGCAGAGCCTTGTGTGTGTTCGTAATGC
1 AATCTTTATATGGTTCTTCGGATCGA-AGATAATCTATGCAGAGCCTTGT-TGTGTTTGTGATGC
* * * * * *
61091509 TGTTTTTATATGAGGCAATTCTAGTTAGTAGGTATACGGTATT-CCTGGTCGAGTGTCGAGCAAG
64 TG--TTTATATGGGGCAATTCTAGTTAGTAGGCACACGATATTCCCAGCT-GAGTGTCGAGCAAG
* * *
61091573 TCCCGAAGATTTCAGGTACAAGAAAGGAAATGTATGTTGTTGTTGTGCATTTGTTTTGTATGTAT
126 TCCCGAAGATTTCAGGTACGAGAAAGGCAATGTATTTTGTTGTTGTGCATTTGTTTTGTATGTAT
*
61091638 AGCCTGCGATGC
191 AGCCTGCAATGC
*
61091650 AATCTTTATATGGTTCTTCGG-GCTGAA-ATAATCTATGCAGAGCCTTGTTTGTGTTTGTGATGC
1 AATCTTTATATGGTTCTTCGGATC-GAAGATAATCTATGCAGAGCCTTG-TTGTGTTTGTGATGC
* * * * * *
61091713 TGTTTATGTTGGGCAATTCTAGTTAGTAGGCACAC-AGTGTTCACGGTTGAGTGTCGAGCAAGTC
64 TGTTTATATGGGGCAATTCTAGTTAGTAGGCACACGA-TATTCCCAGCTGAGTGTCGAGCAAGTC
* * * *
61091777 CCAAAGATTTCAGGTTCGAGAAAGGCAATGTATTTTGTTGTTGTGCATGTGTTTTCTATGTATAG
128 CCGAAGATTTCAGGTACGAGAAAGGCAATGTATTTTGTTGTTGTGCATTTGTTTTGTATGTATAG
61091842 CCTGCAATGC
193 CCTGCAATGC
* * *
61091852 AATCTTTATATGGTTCTTTGGATCGAAGATAATCTATGCAGAGCCTTGTTCGTGTTTGGGATACT
1 AATCTTTATATGGTTCTTCGGATCGAAGATAATCTATGCAGAGCCTTGTT-GTGTTTGTGATGCT
* ** *
61091917 GTTTATATGGGGCAATTCTAGTTGGTAGGCACACGATATTCCCAGCTGAGTGTTAAGCAGGTCCC
65 GTTTATATGGGGCAATTCTAGTTAGTAGGCACACGATATTCCCAGCTGAGTGTCGAGCAAGTCCC
* * **
61091982 GAAGATTTCAGGTACGAGAAAGGCGATATATTTTGTTGTTGTTTATTTGTTTTGTATGTATAGCC
130 GAAGATTTCAGGTACGAGAAAGGCAATGTATTTTGTTGTTGTGCATTTGTTTTGTATGTATAGCC
61092047 TGCAATGC
195 TGCAATGC
61092055 AAT-TTTA
1 AATCTTTA
61092062 CTCTTTGCTT
Statistics
Matches: 358, Mismatches: 45, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
202 143 0.40
203 157 0.44
204 35 0.10
205 22 0.06
206 1 0.00
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.37
Consensus pattern (202 bp):
AATCTTTATATGGTTCTTCGGATCGAAGATAATCTATGCAGAGCCTTGTTGTGTTTGTGATGCTG
TTTATATGGGGCAATTCTAGTTAGTAGGCACACGATATTCCCAGCTGAGTGTCGAGCAAGTCCCG
AAGATTTCAGGTACGAGAAAGGCAATGTATTTTGTTGTTGTGCATTTGTTTTGTATGTATAGCCT
GCAATGC
Found at i:61111603 original size:13 final size:13
Alignment explanation
Indices: 61111585--61111622 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
61111575 GATCATTTGG
*
61111585 GTTTTTCAGTCAT
1 GTTTTTAAGTCAT
*
61111598 GTTTTTGAGTCAT
1 GTTTTTAAGTCAT
61111611 -TTTTTAAGTCAT
1 GTTTTTAAGTCAT
61111623 TTCTAGTGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.18, C:0.11, G:0.16, T:0.55
Consensus pattern (13 bp):
GTTTTTAAGTCAT
Found at i:61111614 original size:12 final size:12
Alignment explanation
Indices: 61111586--61111624 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
61111576 ATCATTTGGG
*
61111586 TTTTTCAGTCAT
1 TTTTTAAGTCAT
*
61111598 GTTTTTGAGTCAT
1 -TTTTTAAGTCAT
61111611 TTTTTAAGTCAT
1 TTTTTAAGTCAT
61111623 TT
1 TT
61111625 CTAGTGCTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.18, C:0.10, G:0.13, T:0.59
Consensus pattern (12 bp):
TTTTTAAGTCAT
Found at i:61120819 original size:177 final size:182
Alignment explanation
Indices: 61120588--61120915 Score: 468
Period size: 177 Copynumber: 1.8 Consensus size: 182
61120578 TGTTGAATGT
* * * *
61120588 ATGCATGCATGCATATATACATACATGTACATGAAAATCAAGATGAGAGGAACTTT-A-AA-GCA
1 ATGCATACATACATAGATACATACATATACATGAAAATCAAGATGAGAGGAACTTTAACAAGGCA
* * *
61120650 AACATCAAAAGTACATCAACATGTTGTATCACGCAAGC-A-AAGCAAGGGTTGTTTTACAAACTC
66 AACATCAAAAGTACATCAACACGATGTATCACGCAAGCAACAAGCAAGGGATGTTTTACAAACTC
*
61120713 TAGTTTGGAGAATGCATATCCTCATCCATCTATGCATGCATGATACATGCAC
131 TAATTTGGAGAATGCATATCCTCATCCATCTATGCATGCATGATACATGCAC
* * * *
61120765 ATGCATACATACATAGATCCATACATATACATGAAAATGAGGATTAGAGGAACTTTAAAGCAAGG
1 ATGCATACATACATAGATACATACATATACATGAAAATCAAGATGAGAGGAACTTT-AA-CAAGG
*
61120830 CAAACATCAAAAGTACATCAACACGATGTATCATGCAAGCAAGCAAGCAAGGGATGTTTTACAAA
64 CAAACATCAAAAGTACATCAACACGATGTATCACGCAAGCAA-CAAGCAAGGGATGTTTTACAAA
*
61120895 TTCTAATTTGGAGAATGCATA
128 CTCTAATTTGGAGAATGCATA
61120916 CATACATGCA
Statistics
Matches: 129, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
177 48 0.37
179 1 0.01
181 2 0.02
182 38 0.29
183 1 0.01
185 39 0.30
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (182 bp):
ATGCATACATACATAGATACATACATATACATGAAAATCAAGATGAGAGGAACTTTAACAAGGCA
AACATCAAAAGTACATCAACACGATGTATCACGCAAGCAACAAGCAAGGGATGTTTTACAAACTC
TAATTTGGAGAATGCATATCCTCATCCATCTATGCATGCATGATACATGCAC
Found at i:61121096 original size:152 final size:150
Alignment explanation
Indices: 61120784--61121075 Score: 403
Period size: 152 Copynumber: 1.9 Consensus size: 150
61120774 TACATAGATC
* *
61120784 CATACATATACATGAAAATGAGGATTAGAGGAACTTTAAAGCAAGGCAAACATCAAAAGTACATC
1 CATACATATACATGAAAATGAAGATGAGAGGAACTTTAAAGCAAGGCAAACATCAAAAGTACATC
* *
61120849 AACACGATGTATCATGCAAGCAAGCAAGCAAGGGATGTTTTACAAATTCTAATTTGGAGAATGCA
66 AACACGATGTACCATGCAAACAA-CAAGCAAGGGATGTTTTACAAATTCTAATTTGGAGAATGCA
* *
61120914 TACATACATGCATGCATAGATA
130 TA-ATACATCCATGCATAAATA
* *
61120936 CATACATATACATGGAAATGAAGATGAGAGGAACTTTAAAGCAAGGCAAACATCGAAAGTACATC
1 CATACATATACATGAAAATGAAGATGAGAGGAACTTTAAAGCAAGGCAAACATCAAAAGTACATC
* * *
61121001 AACATG-TGGTACCATGCAAAC-A-AAGCAAGGGTTTTTTTTTACAAATTCTAATTTGGAGAATG
66 AACACGAT-GTACCATGCAAACAACAAGCAAGGG--ATGTTTTACAAATTCTAATTTGGAGAATG
*
61121063 CAT-ATCCATCCAT
128 CATAATACATCCAT
61121076 CAATAAAATG
Statistics
Matches: 126, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
149 17 0.13
151 32 0.25
152 77 0.61
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.24
Consensus pattern (150 bp):
CATACATATACATGAAAATGAAGATGAGAGGAACTTTAAAGCAAGGCAAACATCAAAAGTACATC
AACACGATGTACCATGCAAACAACAAGCAAGGGATGTTTTACAAATTCTAATTTGGAGAATGCAT
AATACATCCATGCATAAATA
Found at i:61122758 original size:145 final size:145
Alignment explanation
Indices: 61122419--61123013 Score: 623
Period size: 145 Copynumber: 4.1 Consensus size: 145
61122409 GTTATGTTAG
* * *
61122419 AACCCGAAAAACTTCGTTACATACACCGAAAC--AGTTCATCAACCAAATCTATTATGTGAAA-A
1 AACCCG-AAAACTTCATTACATACACC-AAACAAAGTTCATCAACCAAATCTATCACGT-AAACA
* * ** * * *
61122481 ACTCGTGTTCACAGAGGCTAGAACAATCGTGTTTGGGTTAAAGCAAA-ATTTGATTACACAGTCT
63 ACTCTTGTTCAAAGAACCTAGAACGATCGTGTTCGAGTTAAAG-AAACATTTGATTACACAGTCT
*
61122545 ----AAGAGCTATTGAACT
127 AACCAAGAGCTACTGAACT
* * *
61122560 AACCCAAAAACTTCATTACATACACCAAACAGAGTTCATCAACCAAATCTATCACGTGAACAACT
1 AACCCGAAAACTTCATTACATACACCAAACAAAGTTCATCAACCAAATCTATCACGTAAACAACT
* * * *
61122625 CTTGTTCAAAGAACCTAGAATGACCATGTTCGAGTTAAAGAAACATTTGATAACACAGTCTAACC
66 CTTGTTCAAAGAACCTAGAACGATCGTGTTCGAGTTAAAGAAACATTTGATTACACAGTCTAACC
* *
61122690 AAAAGCTACTTAACT
131 AAGAGCTACTGAACT
*** * **
61122705 AACCCGAAAACTTCATTACATACACCAAACAAAGTTCATCAACTGGATGTATCACACAAACAACT
1 AACCCGAAAACTTCATTACATACACCAAACAAAGTTCATCAACCAAATCTATCACGTAAACAACT
* * * * * *
61122770 CTTTTTCATACAGCCTAGAACGATTGTGTTCGAGTTAAAGCAACATTTGATTACACAGTCTAACC
66 CTTGTTCAAAGAACCTAGAACGATCGTGTTCGAGTTAAAGAAACATTTGATTACACAGTCTAACC
61122835 AAGAGCTACTGAACT
131 AAGAGCTACTGAACT
* *** *
61122850 AACCCCG-AAACTTCATTACATACACCAAACAAAGTTCATTAATTGAATCTATCACGTAAACAAG
1 AA-CCCGAAAACTTCATTACATACACCAAACAAAGTTCATCAACCAAATCTATCACGTAAACAAC
* * * * * *
61122914 TCCTGTTCGAAGAACCTAGAATGATCGTGTTTGAGTTACTGCTTTGAGAAACATTTGATTACAGA
65 TCTTGTTCAAAGAACCTAGAACGATCGTGTTCGAGTTA-------AAGAAACATTTGATTACACA
*
61122979 GTCTAACCAAGAGCTAATGAACT
123 GTCTAACCAAGAGCTACTGAACT
61123002 AACCCGAAAACT
1 AACCCGAAAACT
61123014 ATTAACTAAA
Statistics
Matches: 377, Mismatches: 60, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
139 4 0.01
140 24 0.06
141 78 0.21
145 217 0.58
146 4 0.01
151 4 0.01
152 46 0.12
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.25
Consensus pattern (145 bp):
AACCCGAAAACTTCATTACATACACCAAACAAAGTTCATCAACCAAATCTATCACGTAAACAACT
CTTGTTCAAAGAACCTAGAACGATCGTGTTCGAGTTAAAGAAACATTTGATTACACAGTCTAACC
AAGAGCTACTGAACT
Found at i:61134151 original size:4 final size:4
Alignment explanation
Indices: 61134144--61134205 Score: 97
Period size: 4 Copynumber: 15.5 Consensus size: 4
61134134 CTAAGGTAGG
* * *
61134144 TACA TACA TACA TACA TACA TGCA TGCA TGCA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
61134192 TACA TACA TACA TA
1 TACA TACA TACA TA
61134206 TCCATGTATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 56 1.00
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:61136596 original size:60 final size:60
Alignment explanation
Indices: 61136530--61136650 Score: 163
Period size: 60 Copynumber: 2.0 Consensus size: 60
61136520 TTTGGGGATG
** * *
61136530 TATTTAGAATGTTTTAAAGTTT-GAGAATCAATTTAGAATGATGATATTAGTTTAGAGATA
1 TATTTAGAACATTTTAAAGTTTGGA-AATCAATTTAGAATCATGATATTAATTTAGAGATA
* * *
61136590 TATTTAGAACATTTTAAAGTTTGGAAATCAATTTGGACTCATGATATTAATTTAGGGATA
1 TATTTAGAACATTTTAAAGTTTGGAAATCAATTTAGAATCATGATATTAATTTAGAGATA
61136650 T
1 T
61136651 CTAATGTAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
60 51 0.96
61 2 0.04
ACGTcount: A:0.37, C:0.04, G:0.17, T:0.41
Consensus pattern (60 bp):
TATTTAGAACATTTTAAAGTTTGGAAATCAATTTAGAATCATGATATTAATTTAGAGATA
Found at i:61137949 original size:19 final size:19
Alignment explanation
Indices: 61137925--61137962 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
61137915 TTTATTCTAG
* *
61137925 AATTATTAAAAACATAAAA
1 AATTATAAAAAAAATAAAA
61137944 AATTATAAAAAAAATAAAA
1 AATTATAAAAAAAATAAAA
61137963 GTTGTCTAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (19 bp):
AATTATAAAAAAAATAAAA
Found at i:61150214 original size:3 final size:3
Alignment explanation
Indices: 61150198--61150242 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
61150188 CTTTATTTAG
* *
61150198 CTT CTT C-T CAT CTT CTT CTT CTT CGT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
61150243 ACTTTATTGC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.02, C:0.36, G:0.02, T:0.60
Consensus pattern (3 bp):
CTT
Found at i:61152053 original size:134 final size:133
Alignment explanation
Indices: 61151862--61152122 Score: 378
Period size: 134 Copynumber: 2.0 Consensus size: 133
61151852 ATACCCGACG
* ** * * ** * *
61151862 TTTAGCCTACTGGTCATAGGTGCTGTCCTCATAATTCATGTTGTAGATTCGAGTTATGATGTGTG
1 TTTAGCCTACTGATCATAGGTGCTACCCTCATAATCCACGTCCTAAATTCAAGTTATGATGTGTG
* * *
61151927 TGTGACAGTGGTTTGTTTCTATCAAGGGTATGTGAATTATACCATATATATATATATATATATAG
66 TGTGACAGTGATTTGTTTCTATCAAAGATATGTGAATTATACC-TATATATATATATATATATAG
61151992 AACA
130 AACA
*
61151996 TTTAGTCTACTGATCATAGGTGCTACCCTCATAATCCACGTCCTAAATTCAAGTTATGATGTGTG
1 TTTAGCCTACTGATCATAGGTGCTACCCTCATAATCCACGTCCTAAATTCAAGTTATGATGTGTG
* *
61152061 TGTGACAGTGATTTGTTTCTATCAAAGATGTGTGAATTGTACCTATATATATATATATATAT
66 TGTGACAGTGATTTGTTTCTATCAAAGATATGTGAATTATACCTATATATATATATATATAT
61152123 GACTATTAGG
Statistics
Matches: 112, Mismatches: 15, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
133 19 0.17
134 93 0.83
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.39
Consensus pattern (133 bp):
TTTAGCCTACTGATCATAGGTGCTACCCTCATAATCCACGTCCTAAATTCAAGTTATGATGTGTG
TGTGACAGTGATTTGTTTCTATCAAAGATATGTGAATTATACCTATATATATATATATATATAGA
ACA
Found at i:61154226 original size:27 final size:26
Alignment explanation
Indices: 61154165--61154226 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
61154155 CATTTTGGAT
61154165 TTTTTAATTAATTTTATATAAAAATA
1 TTTTTAATTAATTTTATATAAAAATA
* *
61154191 TTATATAATTTATTTTATA-AAAGAATGA
1 TT-TTTAATTAATTTTATATAAA-AAT-A
61154219 TTTTTAAT
1 TTTTTAAT
61154227 CATTACTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 5 0.17
27 22 0.73
28 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (26 bp):
TTTTTAATTAATTTTATATAAAAATA
Found at i:61156106 original size:160 final size:159
Alignment explanation
Indices: 61155723--61156146 Score: 593
Period size: 156 Copynumber: 2.7 Consensus size: 159
61155713 AAAATTCAGT
* *
61155723 TTAAAATTCTGGGTTTTTCTTATTTTTCATGTTGGTGATTGTTTGATTGATGAAATTTTAGCTTA
1 TTAAAATTGTGGGTTTTTCTTATTTTTCATGTTGGTGATTGTCTGATTGATGAAATTTTAGCTTA
** * * *
61155788 GAATTACTTTAATCAGGTTTATTGTGTTGCAAGTAAACTT-CAGGTAAAAAATTTTCTTCAATGT
66 GGGTTACTTTAATCAGGTTTCTTGTGTTGCAAGTAAACTTGTAGGTAAAAAATTTTCTTCAATAT
** * *
61155852 TTAACAATGGTTGCTTTGATGAATTTTGT
131 CAAACAATGGTTGCTTTGATGAATTTAGA
* * *
61155881 TTGAAATTG-GGG-TTTTCTTATTTTTCATGTTGGTGATTGTCTGATTGATGAACTTTTAACTTA
1 TTAAAATTGTGGGTTTTTCTTATTTTTCATGTTGGTGATTGTCTGATTGATGAAATTTTAGCTTA
*** *
61155944 GGGTTACTTTAATCAGGTTTCTTGTGTTGCAAGTAAACTTGTAGGTAAATTTTTTTTCTTTAATA
66 GGGTTACTTTAATCAGGTTTCTTGTGTTGCAAGTAAACTTGTAGGTAAA-AAATTTTCTTCAATA
61156009 TCAAACAATGGTTGCTTTGATGAATTTAGA
130 TCAAACAATGGTTGCTTTGATGAATTTAGA
* * * *
61156039 TTAAAATTGTGGGTTTTTCTTATCTTTCATGTTGGTCATTGTCTGATTGATGAAATATTGGCTTA
1 TTAAAATTGTGGGTTTTTCTTATTTTTCATGTTGGTGATTGTCTGATTGATGAAATTTTAGCTTA
* * *
61156104 GGGTTACTCTAATTAGGTTTCTTGTTTTGCAAGTAAACTTGTA
66 GGGTTACTTTAATCAGGTTTCTTGTGTTGCAAGTAAACTTGTA
61156147 CTAAAAATGG
Statistics
Matches: 234, Mismatches: 28, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
156 85 0.36
157 10 0.04
158 51 0.22
159 3 0.01
160 85 0.36
ACGTcount: A:0.25, C:0.09, G:0.19, T:0.47
Consensus pattern (159 bp):
TTAAAATTGTGGGTTTTTCTTATTTTTCATGTTGGTGATTGTCTGATTGATGAAATTTTAGCTTA
GGGTTACTTTAATCAGGTTTCTTGTGTTGCAAGTAAACTTGTAGGTAAAAAATTTTCTTCAATAT
CAAACAATGGTTGCTTTGATGAATTTAGA
Found at i:61161966 original size:30 final size:31
Alignment explanation
Indices: 61161930--61161991 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
61161920 AAATTGAACT
*
61161930 TGAATTTTAAAATCT-AAAAATTAGAGGGAC
1 TGAATTTTAAAATCTCAAAAAGTAGAGGGAC
* *
61161960 TGAATTTTAAAATTTCAAAAAGTATAGGGAC
1 TGAATTTTAAAATCTCAAAAAGTAGAGGGAC
61161991 T
1 T
61161992 TATGGTATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 14 0.50
31 14 0.50
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.32
Consensus pattern (31 bp):
TGAATTTTAAAATCTCAAAAAGTAGAGGGAC
Found at i:61164280 original size:20 final size:21
Alignment explanation
Indices: 61164251--61164290 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
61164241 TATATTTTAT
*
61164251 TTTATATAAT-ATAATAAATA
1 TTTATATAATCATAAAAAATA
*
61164271 TTTATTTAATCATAAAAAAT
1 TTTATATAATCATAAAAAAT
61164291 TATATATTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTATATAATCATAAAAAATA
Found at i:61164297 original size:26 final size:26
Alignment explanation
Indices: 61164238--61164298 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
61164228 AGTAATAATG
* *
61164238 TTATATATTTTATTTTATATAATATAA
1 TTATATA-TTTATTTAATATAATAAAA
*
61164265 -TAAATATTTATTTAATCATAA-AAAA
1 TTATATATTTATTTAAT-ATAATAAAA
61164290 TTATATATT
1 TTATATATT
61164299 GAAATGGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
25 12 0.43
26 16 0.57
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
TTATATATTTATTTAATATAATAAAA
Found at i:61173418 original size:2 final size:2
Alignment explanation
Indices: 61173407--61173439 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
61173397 ATTTTTAATT
*
61173407 TA TA -A TA TA TA TT TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
61173440 AAGAATAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:61175289 original size:12 final size:13
Alignment explanation
Indices: 61175264--61175293 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
61175254 ATAACAATTC
61175264 AATGTTATTAATA
1 AATGTTATTAATA
61175277 AATGTTA-TAATA
1 AATGTTATTAATA
61175289 AATGT
1 AATGT
61175294 CGATAATGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (13 bp):
AATGTTATTAATA
Done.