Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 97 of 143
Found at i:30149337 original size:19 final size:19
Alignment explanation
Indices: 30149310--30149348 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
30149300 GTTTACTATT
30149310 TTTTAACCAACATTTGATA
1 TTTTAACCAACATTTGATA
* **
30149329 TTTTGACCAATGTTTGATA
1 TTTTAACCAACATTTGATA
30149348 T
1 T
30149349 CTTTTCATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (19 bp):
TTTTAACCAACATTTGATA
Found at i:30152127 original size:20 final size:20
Alignment explanation
Indices: 30152091--30152128 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30152081 TCATTAAGCT
*
30152091 TTAATTAACTCTTTTTATCC
1 TTAATTAACTCTATTTATCC
30152111 TTAATTAAAC-CTATTTAT
1 TTAATT-AACTCTATTTAT
30152129 AATTAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAATTAACTCTATTTATCC
Found at i:30152477 original size:50 final size:50
Alignment explanation
Indices: 30152407--30152550 Score: 139
Period size: 51 Copynumber: 2.9 Consensus size: 50
30152397 GTTACACGAG
* * *
30152407 TGAAGTTACAAAACCAAATCCTATATTCCTGAAGTTGCAGTGGATC-GGA
1 TGAAGCTACAAAACCAAATCCTATATTCCTGAAGTTGCAGTGGAGCAAGA
* * * * * *
30152456 TTGAAGCTACGAAAGCGAATCCT-TATCTCTTTGAAGTTGCAATAGAGCAAGA
1 -TGAAGCTACAAAACCAAATCCTATAT-TC-CTGAAGTTGCAGTGGAGCAAGA
* **
30152508 TGAAGCTACAAAACCAAATCTTATACCCCTGAAGTTGCAGTGG
1 TGAAGCTACAAAACCAAATCCTATATTCCTGAAGTTGCAGTGG
30152551 GTTGGATTAA
Statistics
Matches: 72, Mismatches: 18, Indels: 8
0.73 0.18 0.08
Matches are distributed among these distances:
49 3 0.04
50 32 0.44
51 33 0.46
52 4 0.06
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (50 bp):
TGAAGCTACAAAACCAAATCCTATATTCCTGAAGTTGCAGTGGAGCAAGA
Found at i:30152892 original size:14 final size:14
Alignment explanation
Indices: 30152873--30152913 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
30152863 TTATTATGTT
30152873 ATAAATATAAATAA
1 ATAAATATAAATAA
* *
30152887 ATAAATAAAAACAA
1 ATAAATATAAATAA
30152901 AT-AAT-TAAATAA
1 ATAAATATAAATAA
30152913 A
1 A
30152914 CCCATTTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 6 0.26
13 3 0.13
14 14 0.61
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (14 bp):
ATAAATATAAATAA
Found at i:30154105 original size:14 final size:14
Alignment explanation
Indices: 30154086--30154115 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30154076 ATCATTTTGA
30154086 TTGTTTATATTTAT
1 TTGTTTATATTTAT
*
30154100 TTGTTTTTATTTAT
1 TTGTTTATATTTAT
30154114 TT
1 TT
30154116 TATTTCTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (14 bp):
TTGTTTATATTTAT
Found at i:30154117 original size:19 final size:20
Alignment explanation
Indices: 30154089--30154142 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
30154079 ATTTTGATTG
*
30154089 TTTATATTTATTTGTT-TTTA
1 TTTAT-TTTATTTGTTGTTCA
*
30154109 TTTATTTTATTTCTTGTTCA
1 TTTATTTTATTTGTTGTTCA
30154129 TTTA-TTTATTTGTT
1 TTTATTTTATTTGTT
30154143 AATTGTCCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.74
Consensus pattern (20 bp):
TTTATTTTATTTGTTGTTCA
Found at i:30154214 original size:20 final size:21
Alignment explanation
Indices: 30154169--30154217 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
30154159 CCCCGATTAT
*
30154169 TTTTATTGTTTACAATTATTCA
1 TTTTATT-TTAACAATTATTCA
*
30154191 -TTTATTTTAACAATT-TTTA
1 TTTTATTTTAACAATTATTCA
30154210 TTTTATTT
1 TTTTATTT
30154218 ATTATTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 3 0.12
20 15 0.62
21 6 0.25
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTATTTTAACAATTATTCA
Found at i:30157408 original size:25 final size:25
Alignment explanation
Indices: 30157380--30157430 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
30157370 TTCATCGGAG
*
30157380 TTTGTTT-TTTTATTATTTATATTTA
1 TTTGTTTATTTTAGTATTTA-ATTTA
*
30157405 TTTGTTTATTTTGGTATTTAATTTA
1 TTTGTTTATTTTAGTATTTAATTTA
30157430 T
1 T
30157431 AGACTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.73
Consensus pattern (25 bp):
TTTGTTTATTTTAGTATTTAATTTA
Found at i:30157512 original size:21 final size:21
Alignment explanation
Indices: 30157488--30157555 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 21
30157478 CCCAATTACT
30157488 TTTATTGTTTA-TATTTATTTG
1 TTTATT-TTTATTATTTATTTG
** *
30157509 TTTA-TTTTAGCATTTAATT-
1 TTTATTTTTATTATTTATTTG
30157528 TTTATTTTTATTTATTT-TTTG
1 TTTATTTTTA-TTATTTATTTG
30157549 TTTATTT
1 TTTATTT
30157556 ATCTAGTTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
19 8 0.21
20 15 0.39
21 15 0.39
ACGTcount: A:0.19, C:0.01, G:0.06, T:0.74
Consensus pattern (21 bp):
TTTATTTTTATTATTTATTTG
Found at i:30157552 original size:15 final size:15
Alignment explanation
Indices: 30157520--30157575 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
30157510 TTATTTTAGC
*
30157520 ATTTAATTTTTATTTTT
1 ATTT-ATTTTT-TGTTT
30157537 ATTTATTTTTTGTTT
1 ATTTATTTTTTGTTT
**
30157552 ATTTATCTAGTTG-TT
1 ATTTAT-TTTTTGTTT
30157567 ATTTATTTT
1 ATTTATTTT
30157576 CATGTCATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
14 1 0.03
15 18 0.55
16 10 0.30
17 4 0.12
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (15 bp):
ATTTATTTTTTGTTT
Found at i:30157841 original size:4 final size:4
Alignment explanation
Indices: 30157824--30157936 Score: 58
Period size: 4 Copynumber: 27.2 Consensus size: 4
30157814 CCTTCTCGCT
*
30157824 TTTA TTTAA TTTTA TTTA TTGT- TTTA TGTA TTTTA TTTA -TTA TTTA
1 TTTA TTT-A -TTTA TTTA TT-TA TTTA TTTA -TTTA TTTA TTTA TTTA
* *
30157870 -TT- TTTA TGTTA TTTA TATT- TTTA CCTTCA TTTAA TTTTA TTTA TTCA
1 TTTA TTTA T-TTA TTTA T-TTA TTTA --TTTA TTT-A -TTTA TTTA TTTA
*
30157917 TTGA TTT- TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA T
30157937 ATACTATATT
Statistics
Matches: 86, Mismatches: 7, Indels: 32
0.69 0.06 0.26
Matches are distributed among these distances:
3 13 0.15
4 50 0.58
5 14 0.16
6 9 0.10
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:30157858 original size:21 final size:22
Alignment explanation
Indices: 30157823--30157864 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
30157813 ACCTTCTCGC
*
30157823 TTTTATTTAATTTTATTTATTG
1 TTTTATGTAATTTTATTTATTG
30157845 TTTTATGT-ATTTTATTTATT
1 TTTTATGTAATTTTATTTATT
30157865 ATTTATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (22 bp):
TTTTATGTAATTTTATTTATTG
Found at i:30157861 original size:26 final size:25
Alignment explanation
Indices: 30157825--30157890 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 25
30157815 CTTCTCGCTT
*
30157825 TTATTTAATTTTATTTATTGTTTTATG
1 TTATTTTATTTTATTTA-T-TTTTATG
30157852 -TATTTTATTTATTATTTATTTTTATG
1 TTATTTTA-TT-TTATTTATTTTTATG
30157878 TTATTTATATTTT
1 TTATTT-TATTTT
30157891 TACCTTCATT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
26 15 0.44
27 10 0.29
28 9 0.26
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.73
Consensus pattern (25 bp):
TTATTTTATTTTATTTATTTTTATG
Found at i:30157866 original size:28 final size:28
Alignment explanation
Indices: 30157835--30157889 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
30157825 TTATTTAATT
30157835 TTATTTATTGTTTTATG-TATTT-TATTTA
1 TTATTTA-T-TTTTATGTTATTTATATTTA
30157863 TTATTTATTTTTATGTTATTTATATTT
1 TTATTTATTTTTATGTTATTTATATTT
30157890 TTACCTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 7 0.28
27 6 0.24
28 12 0.48
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (28 bp):
TTATTTATTTTTATGTTATTTATATTTA
Found at i:30163229 original size:8 final size:8
Alignment explanation
Indices: 30163210--30163253 Score: 65
Period size: 8 Copynumber: 5.6 Consensus size: 8
30163200 TAAATTTCAT
30163210 AAAAAATC
1 AAAAAATC
30163218 -AAAAATC
1 AAAAAATC
30163225 AAAAAATC
1 AAAAAATC
30163233 AAAAAAATC
1 -AAAAAATC
30163242 AAAAAAT-
1 AAAAAATC
30163249 AAAAA
1 AAAAA
30163254 TCCTCACGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 12 0.35
8 14 0.41
9 8 0.24
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAATC
Found at i:30163238 original size:17 final size:17
Alignment explanation
Indices: 30163210--30163253 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
30163200 TAAATTTCAT
30163210 AAAAAATC--AAAAATC
1 AAAAAATCAAAAAAATC
30163225 AAAAAATCAAAAAAATC
1 AAAAAATCAAAAAAATC
30163242 AAAAAAT-AAAAA
1 AAAAAATCAAAAA
30163254 TCCTCACGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.30
16 5 0.19
17 14 0.52
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (17 bp):
AAAAAATCAAAAAAATC
Found at i:30166946 original size:25 final size:25
Alignment explanation
Indices: 30166911--30166959 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
30166901 GATCAGATAT
*
30166911 AATGCGGGCTTATGACAAAAAGGTG
1 AATGCGAGCTTATGACAAAAAGGTG
30166936 AATGCGAGCTTATGACAAAAAGGT
1 AATGCGAGCTTATGACAAAAAGGT
30166960 TTGCCCTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.29, T:0.20
Consensus pattern (25 bp):
AATGCGAGCTTATGACAAAAAGGTG
Found at i:30168397 original size:50 final size:50
Alignment explanation
Indices: 30168323--30168672 Score: 296
Period size: 50 Copynumber: 7.0 Consensus size: 50
30168313 CTTATAGTTG
* * * * * *
30168323 TAGAGGGGCATATTGAAGCCACGAAGGCGAATCTTATACCCTTAAAGCTG
1 TAGAGAGGCAGATTGAAGCTACGAAAGCGAATCTTATACCCCTAAAGCTA
* * **
30168373 TAGAGAGGCAGATTGAAGTTACGAAAGTGAATCTTATACCGTTAAAGCTA
1 TAGAGAGGCAGATTGAAGCTACGAAAGCGAATCTTATACCCCTAAAGCTA
* * * *
30168423 TATTAG-GGCAGATTGAAGCTACGAAGGTGAATCTTATACCCCTAAAGTTA
1 TA-GAGAGGCAGATTGAAGCTACGAAAGCGAATCTTATACCCCTAAAGCTA
* * * * * * * *
30168473 TACAGAGGCAAATTGAAGTTGCAAAAGTGAATATTATA-CCTTAAAGCTA
1 TAGAGAGGCAGATTGAAGCTACGAAAGCGAATCTTATACCCCTAAAGCTA
* * **
30168522 TAGAGGGGCAGATTGAAGC-AGCGAAGGCGAATCTTATACCCCTAAAATTA
1 TAGAGAGGCAGATTGAAGCTA-CGAAAGCGAATCTTATACCCCTAAAGCTA
* * * * *
30168572 TA-AAAGGGTAGATTGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGCTG
1 TAGAGA-GGCAGATTGAAGCTACGAAAGCGAATCTTATACCCCTAAAGCTA
* * * * * * *
30168622 TAGAGGGGTAG-TTGAAGCTGCAAAAGCAAATCCTATAACCCTAAAGCTA
1 TAGAGAGGCAGATTGAAGCTACGAAAGCGAATCTTATACCCCTAAAGCTA
30168671 TA
1 TA
30168673 CAAGGGCAAA
Statistics
Matches: 243, Mismatches: 50, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
49 76 0.31
50 164 0.67
51 3 0.01
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (50 bp):
TAGAGAGGCAGATTGAAGCTACGAAAGCGAATCTTATACCCCTAAAGCTA
Found at i:30168501 original size:100 final size:97
Alignment explanation
Indices: 30168323--30168639 Score: 377
Period size: 100 Copynumber: 3.2 Consensus size: 97
30168313 CTTATAGTTG
* * * *
30168323 TAGAGGGGCATATTGAAGCCACGAAGGCGAATCTTATACCCTTAAAGCTGTAGAGAGGCAGATTG
1 TAGAGGGGCAGATTGAAG-CACGAAGGCGAATCTTATACCCCTAAAGTTATA-AGAGGCAGATTG
* *
30168388 AAGTTACGAAAGTGAATCTTATACCGTTAAAGCTA
64 AAGTTGCAAAAGTGAATCTTATACC-TTAAAGCTA
* * *
30168423 TATTA-GGGCAGATTGAAGCTACGAAGGTGAATCTTATACCCCTAAAGTTATACAGAGGCAAATT
1 TA-GAGGGGCAGATTGAAGC-ACGAAGGCGAATCTTATACCCCTAAAGTTATA-AGAGGCAGATT
*
30168487 GAAGTTGCAAAAGTGAATATTATACCTTAAAGCTA
63 GAAGTTGCAAAAGTGAATCTTATACCTTAAAGCTA
* * *
30168522 TAGAGGGGCAGATTGAAGCAGCGAAGGCGAATCTTATACCCCTAAAATTATAAAAGGGTAGATTG
1 TAGAGGGGCAGATTGAAGCA-CGAAGGCGAATCTTATACCCCTAAAGTTATAAGA-GGCAGATTG
* * * *
30168587 AAGCTGCAAAAGCGAATCTTATACCCCTAAAGCTG
64 AAGTTGCAAAAGTGAATCTTATA-CCTTAAAGCTA
*
30168622 TAGAGGGGTAG-TTGAAGC
1 TAGAGGGGCAGATTGAAGC
30168640 TGCAAAAGCA
Statistics
Matches: 188, Mismatches: 23, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
98 4 0.02
99 89 0.47
100 94 0.50
101 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.24
Consensus pattern (97 bp):
TAGAGGGGCAGATTGAAGCACGAAGGCGAATCTTATACCCCTAAAGTTATAAGAGGCAGATTGAA
GTTGCAAAAGTGAATCTTATACCTTAAAGCTA
Found at i:30168563 original size:99 final size:99
Alignment explanation
Indices: 30168323--30168682 Score: 372
Period size: 99 Copynumber: 3.6 Consensus size: 99
30168313 CTTATAGTTG
* * * * *
30168323 TAGAGGGGCATATTGAAGCCACGAAGGCGAATCTTATACCCTTAAAGCTGTAGAGA-GGCAGATT
1 TAGAGGGGCAGATTGAAG-CACGAAGGCGAATCTTATACCCCTAAAGCTATACAGAGGGCAAATT
* *
30168387 GAAGTTACGAAAGTGAATCTTATACCGTTAAAGCTA
65 GAAGTTGCAAAAGTGAATCTTATACC-TTAAAGCTA
* * *
30168423 TATTA-GGGCAGATTGAAGCTACGAAGGTGAATCTTATACCCCTAAAGTTATACAGA-GGCAAAT
1 TA-GAGGGGCAGATTGAAGC-ACGAAGGCGAATCTTATACCCCTAAAGCTATACAGAGGGCAAAT
*
30168486 TGAAGTTGCAAAAGTGAATATTATACCTTAAAGCTA
64 TGAAGTTGCAAAAGTGAATCTTATACCTTAAAGCTA
** * * *
30168522 TAGAGGGGCAGATTGAAGCAGCGAAGGCGAATCTTATACCCCTAAAATTATA-AAAGGGTAGATT
1 TAGAGGGGCAGATTGAAGCA-CGAAGGCGAATCTTATACCCCTAAAGCTATACAGAGGGCAAATT
* * * *
30168586 GAAGCTGCAAAAGCGAATCTTATACCCCTAAAGCTG
65 GAAGTTGCAAAAGTGAATCTTATA-CCTTAAAGCTA
* * * * * * *
30168622 TAGAGGGGTAG-TTGAAGCTGCAAAAGCAAATCCTATAACCCTAAAGCTATACA-AGGGCAAA
1 TAGAGGGGCAGATTGAAGC-ACGAAGGCGAATCTTATACCCCTAAAGCTATACAGAGGGCAAA
30168683 GGCGAATCTT
Statistics
Matches: 219, Mismatches: 33, Indels: 17
0.81 0.12 0.06
Matches are distributed among these distances:
98 4 0.02
99 119 0.54
100 95 0.43
101 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (99 bp):
TAGAGGGGCAGATTGAAGCACGAAGGCGAATCTTATACCCCTAAAGCTATACAGAGGGCAAATTG
AAGTTGCAAAAGTGAATCTTATACCTTAAAGCTA
Found at i:30168701 original size:37 final size:37
Alignment explanation
Indices: 30168641--30168719 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
30168631 AGTTGAAGCT
30168641 GCAAAAGCAAATCCTATAACCCTAAAGCTATACAAGG
1 GCAAAAGCAAATCCTATAACCCTAAAGCTATACAAGG
* * * * * * *
30168678 GCAAAGGCGAATCTTATACCCCTAAAGTTATAGAGGG
1 GCAAAAGCAAATCCTATAACCCTAAAGCTATACAAGG
30168715 GCAAA
1 GCAAA
30168720 TTGATGTCGC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.18
Consensus pattern (37 bp):
GCAAAAGCAAATCCTATAACCCTAAAGCTATACAAGG
Found at i:30168789 original size:136 final size:136
Alignment explanation
Indices: 30168545--30168816 Score: 318
Period size: 136 Copynumber: 2.0 Consensus size: 136
30168535 TGAAGCAGCG
* *
30168545 AAGGCGAATCTTATACCCCTAAAATTATAAAAGGGTAGATTGAAGCTGCAAAAGCGAATCTTATA
1 AAGGCGAATCTTATACCCCTAAAATTATAAAAGGGCAAATTGAAGCTGCAAAAGCGAATCTTATA
* * * * *
30168610 CCCCTAAAGCTGTAGAGGGGTAGTTGAAGCTGCAAAAGCAAATCCTATAAC-CCTAAAGCTATAC
66 CCCCTAAAACTGTAGAGGGGCAGTTAAAGCCGCAAAAGCAAATCCTAT-ACTCCTAAAGCTATAA
30168674 AAGGGCA
130 AAGGGCA
* * * * * * *
30168681 AAGGCGAATCTTATACCCCTAAAGTTATAGAGGGGCAAATTGATG-TCGC-GAAGATGAATTTTA
1 AAGGCGAATCTTATACCCCTAAAATTATAAAAGGGCAAATTGAAGCT-GCAAAAG-CGAATCTTA
* * * *
30168744 TACCCCTAAAACTGTAGA-GGGCAGATTAAAGCCGCGAAGGCAAATCTTATACTTCTAAAGCTAT
64 TACCCCTAAAACTGTAGAGGGGCAG-TTAAAGCCGCAAAAGCAAATCCTATACTCCTAAAGCTAT
30168808 AAAAGGGCA
128 AAAAGGGCA
30168817 GATTGAAGCT
Statistics
Matches: 114, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
135 11 0.10
136 103 0.90
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.22
Consensus pattern (136 bp):
AAGGCGAATCTTATACCCCTAAAATTATAAAAGGGCAAATTGAAGCTGCAAAAGCGAATCTTATA
CCCCTAAAACTGTAGAGGGGCAGTTAAAGCCGCAAAAGCAAATCCTATACTCCTAAAGCTATAAA
AGGGCA
Found at i:30168862 original size:235 final size:236
Alignment explanation
Indices: 30168446--30168902 Score: 632
Period size: 235 Copynumber: 1.9 Consensus size: 236
30168436 TGAAGCTACG
* *
30168446 AAGGTGAATCTTATACCCCTAAAGTTATACAGAGGCAAATTGAAGTTGCAAAAGTGAATATTATA
1 AAGGCGAATCTTATACCCCTAAAGTTATACAGAGGCAAATTGAAGTCGCAAAAGTGAATATTATA
* * * * *
30168511 CCTTAAAGCTATAGAGGGGCAGATTGAAGCAGCGAAGGCGAATCTTATACCCCTAAAATTATAAA
66 CCCTAAAACTATAGAGGGGCAGATTAAAGCAGCGAAGGCAAATCTTATACCCCTAAAACTATAAA
* * * *
30168576 AGGGTAGATTGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGCTGTAGAGGGGTAG-TTGAAGC
131 AGGGCAGATTGAAGCTGCAAAAGCGAATCTTATACCCATAAAGCTGTAGAGGGGGAGATTGAAAC
*
30168640 TGCAAAAGCAAATCCTATAACCCTAAAGCTATACAAGGGCA
196 TACAAAAGCAAATCCTATAACCCTAAAGCTATACAAGGGCA
* * * * *
30168681 AAGGCGAATCTTATACCCCTAAAGTTATAGAGGGGCAAATTGATGTCGC-GAAGATGAATTTTAT
1 AAGGCGAATCTTATACCCCTAAAGTTATACAGAGGCAAATTGAAGTCGCAAAAG-TGAATATTAT
* * ** *
30168745 ACCCCTAAAACTGTAGA-GGGCAGATTAAAGCCGCGAAGGCAAATCTTATACTTCTAAAGCTATA
65 A-CCCTAAAACTATAGAGGGGCAGATTAAAGCAGCGAAGGCAAATCTTATACCCCTAAAACTATA
* *
30168809 AAAGGGCAGATTGAAGCTGTAAAAGCTAATCTTATACCCATAAAGCTGTAGAGGGGGAGATTGAA
129 AAAGGGCAGATTGAAGCTGCAAAAGCGAATCTTATACCCATAAAGCTGTAGAGGGGGAGATTGAA
* * *
30168874 ACTACAAAAGCGAATCTTATACCCCTAAA
194 ACTACAAAAGCAAATCCTATAACCCTAAA
30168903 ATTGTAGAGG
Statistics
Matches: 192, Mismatches: 27, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
234 3 0.02
235 148 0.77
236 41 0.21
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (236 bp):
AAGGCGAATCTTATACCCCTAAAGTTATACAGAGGCAAATTGAAGTCGCAAAAGTGAATATTATA
CCCTAAAACTATAGAGGGGCAGATTAAAGCAGCGAAGGCAAATCTTATACCCCTAAAACTATAAA
AGGGCAGATTGAAGCTGCAAAAGCGAATCTTATACCCATAAAGCTGTAGAGGGGGAGATTGAAAC
TACAAAAGCAAATCCTATAACCCTAAAGCTATACAAGGGCA
Found at i:30168920 original size:50 final size:49
Alignment explanation
Indices: 30168736--30168926 Score: 168
Period size: 50 Copynumber: 3.8 Consensus size: 49
30168726 TCGCGAAGAT
* * * *
30168736 GAATTTTATACCCCTAAAACTGTAGAGGGCAGATT-AAAGCCGCGAAGGC
1 GAATCTTATACCCCTAAAACTGTAGAGGGCAGATTGAAA-CTGCAAAAGC
* ** * * * * *
30168785 AAATCTTATACTTCTAAAGCTATAAAAGGGCAGATTGAAGCTGTAAAAGC
1 GAATCTTATACCCCTAAAACTGT-AGAGGGCAGATTGAAACTGCAAAAGC
* * * * *
30168835 TAATCTTATACCCATAAAGCTGTAGAGGGGGAGATTGAAACTACAAAAGC
1 GAATCTTATACCCCTAAAACTGTAGA-GGGCAGATTGAAACTGCAAAAGC
* *
30168885 GAATCTTATACCCCTAAAATTGTAGAGGGACAGATTAAAACT
1 GAATCTTATACCCCTAAAACTGTAGAGGG-CAGATTGAAACT
30168927 CACAGTAGCA
Statistics
Matches: 110, Mismatches: 28, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
49 22 0.20
50 86 0.78
51 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (49 bp):
GAATCTTATACCCCTAAAACTGTAGAGGGCAGATTGAAACTGCAAAAGC
Found at i:30170069 original size:21 final size:22
Alignment explanation
Indices: 30170031--30170079 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
30170021 ACATTCTCGC
* *
30170031 TTTTATTTAATTTTATTTATTG
1 TTTTATGTAATTTCATTTATTG
*
30170053 TTTTATGT-ATTTCATTTATTT
1 TTTTATGTAATTTCATTTATTG
30170074 TTTTAT
1 TTTTAT
30170080 ACTATTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (22 bp):
TTTTATGTAATTTCATTTATTG
Found at i:30170373 original size:18 final size:17
Alignment explanation
Indices: 30170330--30170393 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
30170320 TTTTATTGTG
* *
30170330 TTATTAATTGTATTTGAT
1 TTATTCATT-TATTTTAT
*
30170348 TATATTCATTTAATTTTTT
1 T-TATTCATTT-ATTTTAT
*
30170367 TTATTCATGTATTTTAT
1 TTATTCATTTATTTTAT
*
30170384 TTATTTATTT
1 TTATTCATTT
30170394 TGTCATTATA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
17 14 0.38
18 10 0.27
19 13 0.35
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.67
Consensus pattern (17 bp):
TTATTCATTTATTTTAT
Found at i:30172367 original size:42 final size:42
Alignment explanation
Indices: 30172317--30172412 Score: 183
Period size: 42 Copynumber: 2.3 Consensus size: 42
30172307 ATGATGTAAT
30172317 ATATATTTTTTACTTAGTCATCCCAAGTATGGTCTTTTTTAA
1 ATATATTTTTTACTTAGTCATCCCAAGTATGGTCTTTTTTAA
*
30172359 ATGTATTTTTTACTTAGTCATCCCAAGTATGGTCTTTTTTAA
1 ATATATTTTTTACTTAGTCATCCCAAGTATGGTCTTTTTTAA
30172401 ATATATTTTTTA
1 ATATATTTTTTA
30172413 ATTTAATTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.26, C:0.12, G:0.09, T:0.52
Consensus pattern (42 bp):
ATATATTTTTTACTTAGTCATCCCAAGTATGGTCTTTTTTAA
Found at i:30174000 original size:19 final size:20
Alignment explanation
Indices: 30173958--30174034 Score: 70
Period size: 19 Copynumber: 3.9 Consensus size: 20
30173948 AAAATTATTA
**
30173958 TTTTAG-ATGTTTTTAAAAAA
1 TTTTAGAAT-TTTTTAAAATT
* *
30173978 TTTTA-ACTTTTTTATATATT
1 TTTTAGAATTTTTTA-AAATT
*
30173998 TTTTATAATTTTTTAAAA-T
1 TTTTAGAATTTTTTAAAATT
30174017 TTTTAGAATTTTTTAAAA
1 TTTTAGAATTTTTTAAAA
30174035 ATATAAATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
19 24 0.51
20 15 0.32
21 8 0.17
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTTAGAATTTTTTAAAATT
Found at i:30174011 original size:10 final size:10
Alignment explanation
Indices: 30173985--30174031 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
30173975 AAATTTTAAC
30173985 TTTTTTATATA
1 TTTTTTATA-A
30173996 TTTTTTATAA
1 TTTTTTATAA
30174006 TTTTTTA-AA
1 TTTTTTATAA
* *
30174015 ATTTTTAGAA
1 TTTTTTATAA
30174025 TTTTTTA
1 TTTTTTA
30174032 AAAATATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
9 8 0.24
10 16 0.48
11 9 0.27
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:30174781 original size:25 final size:25
Alignment explanation
Indices: 30174731--30174779 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
30174721 TATTAAATTT
*
30174731 TTTTTATATAAATTTTTTGAAAATA
1 TTTTTATATAAATTTTTTAAAAATA
*
30174756 TTTTTATAT-AA-TTTTTAAATATA
1 TTTTTATATAAATTTTTTAAAAATA
30174779 T
1 T
30174780 ATAATACATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 11 0.50
24 2 0.09
25 9 0.41
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (25 bp):
TTTTTATATAAATTTTTTAAAAATA
Found at i:30187733 original size:148 final size:148
Alignment explanation
Indices: 30187465--30187760 Score: 538
Period size: 148 Copynumber: 2.0 Consensus size: 148
30187455 TCTTTCCTTG
**
30187465 ATGCTCTTCTTTGCTCATGAGCATACAGGGCATTTATCAACTCTGAAACTAAGATCGCTGAGAGA
1 ATGCTCTTCTTTGCTCATGAGCATACAGGGCATTTATCAACTCTGAAACTAAGATCGCCAAGAGA
30187530 TCCCTTGAGTCTTCAAGTGAGGATATCTTCGATTCATACCTCTTAGGAAAAGTTGTTATGACCTT
66 TCCCTTGAGTCTTCAAGTGAGGATATCTTCGATTCATACCTCTTAGGAAAAGTTGTTATGACCTT
30187595 CTCAACGACTCTACTATC
131 CTCAACGACTCTACTATC
* *
30187613 ATGCTCTTCTTTGCTCATGAGCATATAGGGCATTTATCAACTCTGAAACTAAGATCGCCAAGAGG
1 ATGCTCTTCTTTGCTCATGAGCATACAGGGCATTTATCAACTCTGAAACTAAGATCGCCAAGAGA
*
30187678 TCCCTTGAGTCTTCAAGTGAGGATGTCTTCGATTCATACCTCTTAGGAAAAGTTGTTATGACCTT
66 TCCCTTGAGTCTTCAAGTGAGGATATCTTCGATTCATACCTCTTAGGAAAAGTTGTTATGACCTT
*
30187743 CTCAACGACTTTACTATC
131 CTCAACGACTCTACTATC
30187761 TGCAAACTCC
Statistics
Matches: 142, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
148 142 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.33
Consensus pattern (148 bp):
ATGCTCTTCTTTGCTCATGAGCATACAGGGCATTTATCAACTCTGAAACTAAGATCGCCAAGAGA
TCCCTTGAGTCTTCAAGTGAGGATATCTTCGATTCATACCTCTTAGGAAAAGTTGTTATGACCTT
CTCAACGACTCTACTATC
Found at i:30189545 original size:21 final size:19
Alignment explanation
Indices: 30189505--30189546 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
30189495 ATATCATAAC
*
30189505 CAAATAAGTTAACAAGTTA
1 CAAATAAATTAACAAGTTA
30189524 CAAACTAAATTAACATAGTTA
1 CAAA-TAAATTAACA-AGTTA
30189545 CA
1 CA
30189547 TTGAAAACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 9 0.45
21 7 0.35
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.26
Consensus pattern (19 bp):
CAAATAAATTAACAAGTTA
Found at i:30192512 original size:29 final size:29
Alignment explanation
Indices: 30192470--30192526 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
30192460 TAATTGAAAA
30192470 TATATCAAATGAAAAGATACTCATATATT
1 TATATCAAATGAAAAGATACTCATATATT
*
30192499 TATATCAAATGAAAATATACTCATATAT
1 TATATCAAATGAAAAGATACTCATATAT
30192527 ATTTATAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.35
Consensus pattern (29 bp):
TATATCAAATGAAAAGATACTCATATATT
Found at i:30201313 original size:141 final size:139
Alignment explanation
Indices: 30201067--30201462 Score: 485
Period size: 141 Copynumber: 2.8 Consensus size: 139
30201057 CTTTTTTAAG
* *
30201067 TGTTGGGATAGACTTGTCAACATACGTTTTGACTAACT-TTTTGTATAAAGGTTGGGATATGCAT
1 TGTTGGGATAGACTTGTCAACATACCTTTTG-CTAACTCTTTTGTATAAAAGTTGGGATATGCAT
* * *
30201131 G-ATTAAGACAATGCTTAAATAAGAGTTGGCTTTGTCTAACACTATGCCGACACTTTTCGGG-CG
65 GCA-TAAGGCAACGCTTAAATAAGAGTCGGCTTTGTC-AACACTATGCCGACACTTTT-GGGCCG
* *
30201194 GCACTTTCCTAAA
127 ACAATTTCCTAAA
*
30201207 TGTTGGGATAGACTTGTCAACATACACTTTTGCCAACTCTTTTGTATAAAAGTTGGGATATGCAT
1 TGTTGGGATAGACTTGTCAACATAC-CTTTTGCTAACTCTTTTGTATAAAAGTTGGGATATGCAT
* * * * **
30201272 GCCTAAGGCAACACTTAAATAAGAGTCAGCTTTTTACAACACTATGGTGACACTTTTGGGCCGAC
65 GCATAAGGCAACGCTTAAATAAGAGTCGGCTTTGT-CAACACTATGCCGACACTTTTGGGCCGAC
* *
30201337 AATTTCTTAAG
129 AATTTCCTAAA
** * * * * * *
30201348 TGTTGGGATAGACTTGTTGACATATGCTTTGGCTAACTC-ATTATATAAGAGTTGGAATATGCAT
1 TGTTGGGATAGACTTGTCAACATA-CCTTTTGCTAACTCTTTTGTATAAAAGTTGGGATATGCAT
30201412 GCATAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCAACACTATGCCGACA
65 GCATAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCAACACTATGCCGACA
30201463 GTTTCTTAAG
Statistics
Matches: 219, Mismatches: 31, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
139 14 0.06
140 85 0.39
141 119 0.54
142 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (139 bp):
TGTTGGGATAGACTTGTCAACATACCTTTTGCTAACTCTTTTGTATAAAAGTTGGGATATGCATG
CATAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCAACACTATGCCGACACTTTTGGGCCGACAA
TTTCCTAAA
Found at i:30201804 original size:21 final size:20
Alignment explanation
Indices: 30201780--30201841 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 20
30201770 ACATAAACCT
30201780 TAAATCCATAACCCCAAACTC
1 TAAA-CCATAACCCCAAACTC
* *
30201801 TAAAACCATAAACACTAAACTC
1 T-AAACCAT-AACCCCAAACTC
*
30201823 CAAACTCATAACCCCAAAC
1 TAAAC-CATAACCCCAAAC
30201842 CCTTGAATCT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
21 17 0.52
22 16 0.48
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.16
Consensus pattern (20 bp):
TAAACCATAACCCCAAACTC
Found at i:30202546 original size:71 final size:72
Alignment explanation
Indices: 30202457--30202957 Score: 429
Period size: 71 Copynumber: 7.0 Consensus size: 72
30202447 ACTTTAGACG
* * * *
30202457 GGTCTATCCCAACCTTTTTAAGATTGTCTCAAACAAGGTCTATCCCAATCTTTTTAAGGCTGCCT
1 GGTCTATCCCAACCTTTTTAAGATTGTCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCT
30202522 TAGACAA
66 TAGACAA
* * * * * *
30202529 GGTTTATCTCAA-CTTTTTAAAGGTTGCCTTTGAC-AGGTTTATCCCAACCTTTTTTAAAGGTTG
1 GGTCTATCCCAACCTTTTT-AAGATTGTCTTAGACAAGGTCTATCCCAACC-TTTTT-AAGGTTG
*
30202592 TCTTAGACAA
63 CCTTAGACAA
* * **
30202602 GGCCTACCCCAACCTTTTTAA-AGTT-TCCTTAGACAAAATCTATCCCAACC-TTTTAAGGTTGC
1 GGTCTATCCCAACCTTTTTAAGA-TTGT-CTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGC
*
30202664 CTTAGA-TA
64 CTTAGACAA
* * * * * *
30202672 GGTCTATCCCAACCTTTTTAAAGGTTGTCTTAGACAATGCCTACCCCAACCTTTTTAAAGTTGTC
1 GGTCTATCCCAACCTTTTT-AAGATTGTCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCC
30202737 TTAGACAA
65 TTAGACAA
* * * * **
30202745 GGTCTAT-CCAAACTTTTTTA-A--GCCTTAGATAA-GTCTATCCCAACCTTTTTAAAATTGCCT
1 GGTCTATCCCAACCTTTTTAAGATTGTCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCT
30202805 TAGACAA
66 TAGACAA
* * * * * *
30202812 AGTGTACCCCAACCTTTTTAA-AGTTG-CTTTAGAC-GGGTTTATCCCAACCTTTTTAAGGTTAC
1 GGTCTATCCCAACCTTTTTAAGA-TTGTC-TTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGC
30202874 CTTAGACAA
64 CTTAGACAA
* * * ** * *
30202883 GGTTTATCTCAACCTTTTTAAGGTTACCTTAGAC-AGATCTATCTCAACCTTTTTTAAAGGTTGC
1 GGTCTATCCCAACCTTTTTAAGATTGTCTTAGACAAGGTCTATCCCAACC-TTTTT-AAGGTTGC
*
30202947 CTTAGATAA
64 CTTAGACAA
30202956 GG
1 GG
30202958 CATAATTCAA
Statistics
Matches: 342, Mismatches: 65, Indels: 43
0.76 0.14 0.10
Matches are distributed among these distances:
67 35 0.10
68 21 0.06
70 19 0.06
71 129 0.38
72 62 0.18
73 58 0.17
74 18 0.05
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.36
Consensus pattern (72 bp):
GGTCTATCCCAACCTTTTTAAGATTGTCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCT
TAGACAA
Found at i:30202567 original size:35 final size:37
Alignment explanation
Indices: 30202457--30202989 Score: 502
Period size: 36 Copynumber: 14.9 Consensus size: 37
30202447 ACTTTAGACG
* * * *
30202457 GGTCTATCCCAACCTTTTT-AAGATTGTCTCAAACAA
1 GGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAA
* *
30202493 GGTCTATCCCAATCTTTTT-AAGGCTGCCTTAGACAA
1 GGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAA
* * *
30202529 GGTTTATCTCAA-CTTTTTAAAGGTTGCCTTTGAC-A
1 GGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAA
* *
30202564 GGTTTATCCCAACCTTTTTTAAAGGTTGTCTTAGACAA
1 GGTCTATCCCAACC-TTTTTAAAGGTTGCCTTAGACAA
* * *
30202602 GGCCTACCCCAACCTTTTTAAA-GTTTCCTTAGACAA
1 GGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAA
** *
30202638 AATCTATCCCAACC-TTTT-AAGGTTGCCTTAGA-TA
1 GGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAA
*
30202672 GGTCTATCCCAACCTTTTTAAAGGTTGTCTTAGACAA
1 GGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAA
* * * *
30202709 TGCCTACCCCAACCTTTTTAAA-GTTGTCTTAGACAA
1 GGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAA
* * *
30202745 GGTCTAT-CCAAACTTTTTTAA----GCCTTAGATAA
1 GGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAA
*
30202777 -GTCTATCCCAACCTTTTTAAA-ATTGCCTTAGACAA
1 GGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAA
* * * * *
30202812 AGTGTACCCCAACCTTTTTAAA-GTTGCTTTAGAC-G
1 GGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAA
* *
30202847 GGTTTATCCCAACCTTTTT-AAGGTTACCTTAGACAA
1 GGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAA
* * *
30202883 GGTTTATCTCAACCTTTTT-AAGGTTACCTTAGAC-A
1 GGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAA
* * *
30202918 GATCTATCTCAACCTTTTTTAAAGGTTGCCTTAGATAA
1 GGTCTATCCCAACC-TTTTTAAAGGTTGCCTTAGACAA
*
30202956 GG-CATAAT-TCAACCTTTTTAAA-GTTGCCTTAGAC
1 GGTC-T-ATCCCAACCTTTTTAAAGGTTGCCTTAGAC
30202990 TAGTTTATCA
Statistics
Matches: 418, Mismatches: 59, Indels: 40
0.81 0.11 0.08
Matches are distributed among these distances:
31 6 0.01
32 21 0.05
34 17 0.04
35 97 0.23
36 185 0.44
37 69 0.17
38 21 0.05
39 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.36
Consensus pattern (37 bp):
GGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAA
Found at i:30202715 original size:107 final size:107
Alignment explanation
Indices: 30202457--30202988 Score: 510
Period size: 107 Copynumber: 5.0 Consensus size: 107
30202447 ACTTTAGACG
* * * * * * * *
30202457 GGTCTATCCCAACCTTTTT-AAGATTGTCTCAAACAAGGTCTATCCCAATCTTTTTAAGGCTGCC
1 GGTCTATCCCAACCTTTTTAAAGGTTGTCTTAGACAAGGCCTACCCCAACCTTTTTAAAGTTGCC
* * * * *
30202521 TTAGACAAGGTTTATCTCAACTTTTTAAAGGTTGCCTTTGACA
66 TTAGACAAGGTCTATCCCAACCTTTT-AAGGTTGCCTTAGATA
* *
30202564 GGTTTATCCCAACCTTTTTTAAAGGTTGTCTTAGACAAGGCCTACCCCAACCTTTTTAAAGTTTC
1 GGTCTATCCCAACC-TTTTTAAAGGTTGTCTTAGACAAGGCCTACCCCAACCTTTTTAAAGTTGC
**
30202629 CTTAGACAAAATCTATCCCAACCTTTTAAGGTTGCCTTAGATA
65 CTTAGACAAGGTCTATCCCAACCTTTTAAGGTTGCCTTAGATA
* *
30202672 GGTCTATCCCAACCTTTTTAAAGGTTGTCTTAGACAATGCCTACCCCAACCTTTTTAAAGTTGTC
1 GGTCTATCCCAACCTTTTTAAAGGTTGTCTTAGACAAGGCCTACCCCAACCTTTTTAAAGTTGCC
* *
30202737 TTAGACAAGGTCTATCCAAACTTTTTTAA----GCCTTAGATA
66 TTAGACAAGGTCTATCCCAAC-CTTTTAAGGTTGCCTTAGATA
* * * * ** *
30202776 AGTCTATCCCAACCTTTTTAAA-ATTGCCTTAGACAAAGTGTACCCCAACCTTTTTAAAGTTGCT
1 GGTCTATCCCAACCTTTTTAAAGGTTGTCTTAGACAAGGCCTACCCCAACCTTTTTAAAGTTGCC
* * * *
30202840 TTAGAC-GGGTTTATCCCAACCTTTTTAAGGTTACCTTAGACAA
66 TTAGACAAGGTCTATCCCAACC-TTTTAAGGTTGCCTTAGA-TA
* * ** ** * *
30202883 GGTTTATCTCAACCTTTTT-AAGGTTACCTTAGAC-AGATCTATCTCAACCTTTTTTAAAGGTTG
1 GGTCTATCCCAACCTTTTTAAAGGTTGTCTTAGACAAGGCCTACCCCAACC-TTTTTAAA-GTTG
* * *
30202946 CCTTAGATAAGG-CATAAT-TCAACCTTTTTAAAGTTGCCTTAGA
64 CCTTAGACAAGGTC-T-ATCCCAACC-TTTTAAGGTTGCCTTAGA
30202989 CTAGTTTATC
Statistics
Matches: 354, Mismatches: 56, Indels: 28
0.81 0.13 0.06
Matches are distributed among these distances:
102 17 0.05
103 41 0.12
104 31 0.09
106 19 0.05
107 114 0.32
108 48 0.14
109 82 0.23
110 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (107 bp):
GGTCTATCCCAACCTTTTTAAAGGTTGTCTTAGACAAGGCCTACCCCAACCTTTTTAAAGTTGCC
TTAGACAAGGTCTATCCCAACCTTTTAAGGTTGCCTTAGATA
Found at i:30204137 original size:15 final size:15
Alignment explanation
Indices: 30204119--30204152 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
30204109 CTAAATGATT
*
30204119 AAAATTTGTAAAA-A
1 AAAAATTGTAAAAGA
30204133 AAAAATTGTAAAAGA
1 AAAAATTGTAAAAGA
30204148 AAAAA
1 AAAAA
30204153 AATGTTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (15 bp):
AAAAATTGTAAAAGA
Found at i:30204440 original size:78 final size:79
Alignment explanation
Indices: 30204311--30204479 Score: 304
Period size: 78 Copynumber: 2.2 Consensus size: 79
30204301 CATGAAATTT
* * *
30204311 TAATATTATGCTATGTCCTCAATTAAAAATTTTGAAATATATAATCT-AAAAAAGATAAAAAAAA
1 TAATATTGTGCTATATCCTCAATTAAAAATTTTAAAATATATAATCTAAAAAAAGATAAAAAAAA
30204375 ATTATATAAAAAAC
66 ATTATATAAAAAAC
30204389 TAATATTGTGCTATATCCTCAATTAAAAATTTTAAAATATATAATCTAAAAAAAGATAAAAAAAA
1 TAATATTGTGCTATATCCTCAATTAAAAATTTTAAAATATATAATCTAAAAAAAGATAAAAAAAA
30204454 ATTATATAAAAAAC
66 ATTATATAAAAAAC
30204468 TAATATTGTGCT
1 TAATATTGTGCT
30204480 TTGTCATCAA
Statistics
Matches: 87, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
78 44 0.51
79 43 0.49
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (79 bp):
TAATATTGTGCTATATCCTCAATTAAAAATTTTAAAATATATAATCTAAAAAAAGATAAAAAAAA
ATTATATAAAAAAC
Found at i:30204521 original size:79 final size:78
Alignment explanation
Indices: 30204311--30204494 Score: 269
Period size: 79 Copynumber: 2.3 Consensus size: 78
30204301 CATGAAATTT
* * * * *
30204311 TAATATTATGCTATGTCCTCAATTAAAAATTTTGAAATATATAATCTAAAAAAGATAAAAAAAAA
1 TAATATTGTGCTATATCATCAATTAAAAAGTTTAAAATATATAATCTAAAAAAGATAAAAAAAAA
30204376 TTATATAAAAAAC
66 TTATATAAAAAAC
* *
30204389 TAATATTGTGCTATATCCTCAATTAAAAATTTTAAAATATATAATCTAAAAAAAGATAAAAAAAA
1 TAATATTGTGCTATATCATCAATTAAAAAGTTTAAAATATATAATCT-AAAAAAGATAAAAAAAA
30204454 ATTATATAAAAAAC
65 ATTATATAAAAAAC
* *
30204468 TAATATTGTGCTTTGTCATCAACTTAA
1 TAATATTGTGCTATATCATCAA-TTAA
30204495 TTCAAGTTTA
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
78 44 0.45
79 50 0.51
80 4 0.04
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (78 bp):
TAATATTGTGCTATATCATCAATTAAAAAGTTTAAAATATATAATCTAAAAAAGATAAAAAAAAA
TTATATAAAAAAC
Found at i:30204675 original size:13 final size:13
Alignment explanation
Indices: 30204657--30204694 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
30204647 AAGGTAGTTT
*
30204657 TTCCTTTACCTTG
1 TTCCTTTTCCTTG
30204670 TTCCTTTTCCTTG
1 TTCCTTTTCCTTG
30204683 TTCCTTTTCCTT
1 TTCCTTTTCCTT
30204695 TACCTCCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.03, C:0.32, G:0.05, T:0.61
Consensus pattern (13 bp):
TTCCTTTTCCTTG
Found at i:30204679 original size:19 final size:19
Alignment explanation
Indices: 30204655--30204695 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
30204645 TAAAGGTAGT
30204655 TTTTCCTT-TACCTTGTTCC
1 TTTTCCTTGTACCTT-TTCC
*
30204674 TTTTCCTTGTTCCTTTTCC
1 TTTTCCTTGTACCTTTTCC
30204693 TTT
1 TTT
30204696 ACCTCCTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.02, C:0.29, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTTCCTTGTACCTTTTCC
Found at i:30204686 original size:7 final size:6
Alignment explanation
Indices: 30204655--30204695 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
30204645 TAAAGGTAGT
*
30204655 TTTTCC TTTACC TTGTTCC TTTTCC TTGTTCC TTTTCC TTT
1 TTTTCC TTTTCC TT-TTCC TTTTCC TT-TTCC TTTTCC TTT
30204696 ACCTCCTTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 20 0.65
7 11 0.35
ACGTcount: A:0.02, C:0.29, G:0.05, T:0.63
Consensus pattern (6 bp):
TTTTCC
Found at i:30204771 original size:19 final size:18
Alignment explanation
Indices: 30204739--30204780 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
30204729 CCAATAATTC
30204739 TAAAAAGTACTTTTCACT
1 TAAAAAGTACTTTTCACT
*
30204757 GTAAAAA-TACTTTTTGACT
1 -TAAAAAGTAC-TTTTCACT
30204776 TAAAA
1 TAAAA
30204781 TAGTGTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (18 bp):
TAAAAAGTACTTTTCACT
Found at i:30206451 original size:17 final size:17
Alignment explanation
Indices: 30206429--30206517 Score: 133
Period size: 17 Copynumber: 5.2 Consensus size: 17
30206419 ACCCATTTTA
*
30206429 AAATTTATTTTAAGTTT
1 AAATTTATTTTAAATTT
30206446 AAATTTATTTTAAATTT
1 AAATTTATTTTAAATTT
* * *
30206463 AAACTTATCTTAAGTTT
1 AAATTTATTTTAAATTT
30206480 AAATTTATTTTTAAATTT
1 AAATTTA-TTTTAAATTT
30206498 AAATTTATTTTAAATTT
1 AAATTTATTTTAAATTT
30206515 AAA
1 AAA
30206518 ATATCAATGT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
17 49 0.77
18 15 0.23
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
AAATTTATTTTAAATTT
Found at i:30206452 original size:6 final size:6
Alignment explanation
Indices: 30206437--30206517 Score: 62
Period size: 6 Copynumber: 14.0 Consensus size: 6
30206427 TAAAATTTAT
* * * *
30206437 TTTAAG TTTAAA TTT-AT TTTAAA TTTAAA CTT--A TCTTAAG TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA
** *
30206483 TTTATT TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
30206518 ATATCAATGT
Statistics
Matches: 57, Mismatches: 13, Indels: 10
0.71 0.16 0.12
Matches are distributed among these distances:
4 1 0.02
5 10 0.18
6 45 0.79
7 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:30206540 original size:21 final size:20
Alignment explanation
Indices: 30206512--30206550 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
30206502 TTATTTTAAA
*
30206512 TTTAAAATATCAATGTCCCT
1 TTTAAAATATCAAAGTCCCT
*
30206532 TTTACAAATTTCAAAGTCC
1 TTTA-AAATATCAAAGTCC
30206551 AATTCAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (20 bp):
TTTAAAATATCAAAGTCCCT
Found at i:30207188 original size:20 final size:20
Alignment explanation
Indices: 30207160--30207197 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30207150 CTCAAAACGT
30207160 TTTAATATATATAAATATTA
1 TTTAATATATATAAATATTA
* *
30207180 TTTATTATATATTAATAT
1 TTTAATATATATAAATAT
30207198 ATTCATTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTAATATATATAAATATTA
Found at i:30208378 original size:30 final size:29
Alignment explanation
Indices: 30208344--30208481 Score: 154
Period size: 30 Copynumber: 4.7 Consensus size: 29
30208334 TTAAAAATCC
*
30208344 CATTTTGATTCCCAAACTTCT-TCAAAATTG
1 CATTTTGA-CCCCAAACTTCTCT-AAAATTG
30208374 CA-TTTGACCCTCAAACTTCTCTAAAATTG
1 CATTTTGACCC-CAAACTTCTCTAAAATTG
*
30208403 TATTTTGACCCCTAAACTTCTCTAAAATTG
1 CATTTTGACCCC-AAACTTCTCTAAAATTG
* ** *
30208433 CATTTTAACCCTTAACTTCTCTAAAATTA
1 CATTTTGACCCCAAACTTCTCTAAAATTG
*
30208462 CATTTTTGCCCCCAAACTTC
1 CA-TTTTGACCCCAAACTTC
30208482 CAAAAAATCA
Statistics
Matches: 92, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
28 2 0.02
29 40 0.43
30 50 0.54
ACGTcount: A:0.30, C:0.27, G:0.05, T:0.38
Consensus pattern (29 bp):
CATTTTGACCCCAAACTTCTCTAAAATTG
Found at i:30208467 original size:59 final size:58
Alignment explanation
Indices: 30208344--30208481 Score: 163
Period size: 59 Copynumber: 2.3 Consensus size: 58
30208334 TTAAAAATCC
* * *
30208344 CATTTTGATTCCCAAACTTCTTCAAAATTGCATTTGACCCTCAAACTTCTCTAAAATTG
1 CATTTTGA-CCCCAAACTTCTTCAAAATTGCATTTAACCCTCAAACTTCTCTAAAATTA
* *
30208403 TATTTTGACCCCTAAACTTC-TCTAAAATTGCATTTTAACCCT-TAACTTCTCTAAAATTA
1 CATTTTGACCCC-AAACTTCTTC-AAAATTGCA-TTTAACCCTCAAACTTCTCTAAAATTA
*
30208462 CATTTTTGCCCCCAAACTTC
1 CA-TTTTGACCCCAAACTTC
30208482 CAAAAAATCA
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
58 5 0.07
59 46 0.68
60 17 0.25
ACGTcount: A:0.30, C:0.27, G:0.05, T:0.38
Consensus pattern (58 bp):
CATTTTGACCCCAAACTTCTTCAAAATTGCATTTAACCCTCAAACTTCTCTAAAATTA
Found at i:30208487 original size:29 final size:29
Alignment explanation
Indices: 30208446--30208936 Score: 386
Period size: 29 Copynumber: 16.8 Consensus size: 29
30208436 TTTAACCCTT
* * * *
30208446 AACTTCTCTAAAATTACATTTTTGCCCCCA
1 AACTTC-CAAAAATCACATTTTTGCCCTCG
* *
30208476 AACTTCCAAAAAATCATATTTTTGCCCTCA
1 AACTTCC-AAAAATCACATTTTTGCCCTCG
* *
30208506 AACTTCTAAAAATCACATTTTTGCCCCCG
1 AACTTCCAAAAATCACATTTTTGCCCTCG
* * *
30208535 AACTTTCAAAAATCATATTTTTTCCCTTC-
1 AACTTCCAAAAATCACATTTTTGCCC-TCG
* * *
30208564 AATTTCCAAAAATCATATTTTT-ACCTCG
1 AACTTCCAAAAATCACATTTTTGCCCTCG
* *
30208592 AACTTCTCAAAAATTACATTTTTGCCC-CTA
1 AACTTC-CAAAAATCACATTTTTGCCCTC-G
*
30208622 AACTTCCAAAAATCACATTTTTACCCTCG
1 AACTTCCAAAAATCACATTTTTGCCCTCG
* * * * **
30208651 AACTTTCAAAAGTCACATTTTCGACCTTA
1 AACTTCCAAAAATCACATTTTTGCCCTCG
* * *** *** *
30208680 AATTTTCCAAAAGTTTGATTTTAATCC-CA
1 AA-CTTCCAAAAATCACATTTTTGCCCTCG
* *
30208709 AATTTTCCAAAAACTTTA-ATTTTAT-CCCTCG
1 AA-CTTCCAAAAA--TCACATTTT-TGCCCTCG
* *
30208740 AACTTCCAAAAAATCATATTTTTGCCCTCA
1 AACTTCC-AAAAATCACATTTTTGCCCTCG
*
30208770 AACTTCCAAAAATTACATTTTTGCCCTCG
1 AACTTCCAAAAATCACATTTTTGCCCTCG
*
30208799 AACTTCCAATAAATCACATTTTTCCCCT-G
1 AACTTCCAA-AAATCACATTTTTGCCCTCG
* * *
30208828 AATTTCCAAAAATCATATTTTTACCC-CG
1 AACTTCCAAAAATCACATTTTTGCCCTCG
* * * *
30208856 AACTTCTCAAAAATTATATTTTTGCCCCCA
1 AACTTC-CAAAAATCACATTTTTGCCCTCG
*
30208886 AACTTCCAAAAATCACATTTTTACCCTCG
1 AACTTCCAAAAATCACATTTTTGCCCTCG
*
30208915 AACTTCCAAAAGTCACATTTTT
1 AACTTCCAAAAATCACATTTTT
30208937 AACCTCAAAT
Statistics
Matches: 376, Mismatches: 66, Indels: 39
0.78 0.14 0.08
Matches are distributed among these distances:
27 2 0.01
28 28 0.07
29 229 0.61
30 107 0.28
31 10 0.03
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (29 bp):
AACTTCCAAAAATCACATTTTTGCCCTCG
Found at i:30208489 original size:59 final size:60
Alignment explanation
Indices: 30208367--30208546 Score: 172
Period size: 59 Copynumber: 3.0 Consensus size: 60
30208357 AAACTTCTTC
* ** * *
30208367 AAAATTGCA-TTTGACCCTCAAACTTCTCTAAAATTGTA-TTTTGACCCCTAAACTTCTC-T
1 AAAATTGCATTTTAACCCTCAAACTTCTCTAAAATTACATTTTTG-CCCCCAAACTTC-CAA
*
30208426 AAAATTGCATTTTAACCCT-TAACTTCTCTAAAATTACATTTTTGCCCCCAAACTTCCAA
1 AAAATTGCATTTTAACCCTCAAACTTCTCTAAAATTACATTTTTGCCCCCAAACTTCCAA
*** ** * * * *
30208485 AAAATCATATTTTTGCCCTCAAACTTCT-AAAAATCACATTTTTGCCCCCGAACTTTCAA
1 AAAATTGCATTTTAACCCTCAAACTTCTCTAAAATTACATTTTTGCCCCCAAACTTCCAA
30208544 AAA
1 AAA
30208547 TCATATTTTT
Statistics
Matches: 101, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
58 1 0.01
59 80 0.79
60 20 0.20
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (60 bp):
AAAATTGCATTTTAACCCTCAAACTTCTCTAAAATTACATTTTTGCCCCCAAACTTCCAA
Found at i:30208834 original size:264 final size:264
Alignment explanation
Indices: 30208476--30208984 Score: 867
Period size: 264 Copynumber: 1.9 Consensus size: 264
30208466 TTTGCCCCCA
* *
30208476 AACTTCCAAAAAATCATATTTTTGCCCTCAAACTTCTAAAAATCACATTTTTGCCCCCGAACTTT
1 AACTTCCAAAAAATCATATTTTTGCCCTCAAACTTCCAAAAATCACATTTTTGCCCCCGAACTTC
* * *
30208541 CAAAAATCATATTTTTTCCCTTCAATTTCCAAAAATCATATTTTTACCTCGAACTTCTCAAAAAT
66 CAAAAATCACATTTTTTCCCCTCAATTTCCAAAAATCATATTTTTACCCCGAACTTCTCAAAAAT
* *
30208606 TACATTTTTGCCCCTAAACTTCCAAAAATCACATTTTTACCCTCGAACTTTCAAAAGTCACATTT
131 TACATTTTTGCCCCCAAACTTCCAAAAATCACATTTTTACCCTCGAACTTCCAAAAGTCACATTT
* *
30208671 TCGACCTTAAATTTTCCAAAAGTTTGATTTTAATCCCAAATTTTCCAAAAACTTTAATTTTATCC
196 TCAACCTCAAATTTTCCAAAAGTTTGATTTTAATCCCAAATTTTCCAAAAACTTTAATTTTATCC
30208736 CTCG
261 CTCG
* *
30208740 AACTTCCAAAAAATCATATTTTTGCCCTCAAACTTCCAAAAATTACATTTTTGCCCTCGAACTTC
1 AACTTCCAAAAAATCATATTTTTGCCCTCAAACTTCCAAAAATCACATTTTTGCCCCCGAACTTC
*
30208805 CAATAAATCACA-TTTTTCCCCTGAATTTCCAAAAATCATATTTTTACCCCGAACTTCTCAAAAA
66 CAA-AAATCACATTTTTTCCCCTCAATTTCCAAAAATCATATTTTTACCCCGAACTTCTCAAAAA
*
30208869 TTATATTTTTGCCCCCAAACTTCCAAAAATCACATTTTTACCCTCGAACTTCCAAAAGTCACATT
130 TTACATTTTTGCCCCCAAACTTCCAAAAATCACATTTTTACCCTCGAACTTCCAAAAGTCACATT
* *
30208934 TTTAACCTCAAATTTTCCAAAAGTTTGATTTTAATCCTAAATTTTCCAAAA
195 TTCAACCTCAAATTTTCCAAAAGTTTGATTTTAATCCCAAATTTTCCAAAA
30208985 TATTCAATTT
Statistics
Matches: 229, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
264 222 0.97
265 7 0.03
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.36
Consensus pattern (264 bp):
AACTTCCAAAAAATCATATTTTTGCCCTCAAACTTCCAAAAATCACATTTTTGCCCCCGAACTTC
CAAAAATCACATTTTTTCCCCTCAATTTCCAAAAATCATATTTTTACCCCGAACTTCTCAAAAAT
TACATTTTTGCCCCCAAACTTCCAAAAATCACATTTTTACCCTCGAACTTCCAAAAGTCACATTT
TCAACCTCAAATTTTCCAAAAGTTTGATTTTAATCCCAAATTTTCCAAAAACTTTAATTTTATCC
CTCG
Found at i:30208937 original size:29 final size:29
Alignment explanation
Indices: 30208380--30208955 Score: 364
Period size: 29 Copynumber: 19.6 Consensus size: 29
30208370 ATTGCATTTG
* *** *
30208380 ACCCTCAAACTTCTCTAAAATTGTATTTTG
1 ACCCTCAAACTTC-CAAAAATCACATTTTT
* ** *
30208410 ACCC-CTAAACTTCTCTAAAATTGCATTTTA
1 ACCCTC-AAACTTC-CAAAAATCACATTTTT
* * *
30208440 ACCCT-TAACTTCTCTAAAATTACATTTTT
1 ACCCTCAAACTTC-CAAAAATCACATTTTT
* * *
30208469 GCCCCCAAACTTCCAAAAAATCATATTTTT
1 ACCCTCAAACTTCC-AAAAATCACATTTTT
* *
30208499 GCCCTCAAACTTCTAAAAATCACATTTTT
1 ACCCTCAAACTTCCAAAAATCACATTTTT
* * * * *
30208528 GCCCCCGAACTTTCAAAAATCATATTTTT
1 ACCCTCAAACTTCCAAAAATCACATTTTT
* * *
30208557 TCCCTTC-AATTTCCAAAAATCATATTTTT
1 ACCC-TCAAACTTCCAAAAATCACATTTTT
* *
30208586 A-CCTCGAACTTCTCAAAAATTACATTTTT
1 ACCCTCAAACTTC-CAAAAATCACATTTTT
*
30208615 GCCC-CTAAACTTCCAAAAATCACATTTTT
1 ACCCTC-AAACTTCCAAAAATCACATTTTT
* * * *
30208644 ACCCTCGAACTTTCAAAAGTCACATTTTCG
1 ACCCTCAAACTTCCAAAAATCACATTTT-T
* * * *** *
30208674 A-CCTTAAATTTTCCAAAAGTTTGATTTTA
1 ACCCTCAAA-CTTCCAAAAATCACATTTTT
* * *
30208703 ATCC-CAAATTTTCCAAAAACTTTA-A-TTTT
1 ACCCTCAAA-CTTCCAAAAA--TCACATTTTT
* *
30208732 ATCCCTCGAACTTCCAAAAAATCATATTTTT
1 A-CCCTCAAACTTCC-AAAAATCACATTTTT
* *
30208763 GCCCTCAAACTTCCAAAAATTACATTTTT
1 ACCCTCAAACTTCCAAAAATCACATTTTT
* *
30208792 GCCCTCGAACTTCCAATAAATCACATTTTT
1 ACCCTCAAACTTCCAA-AAATCACATTTTT
* * * *
30208822 CCCCT-GAATTTCCAAAAATCATATTTTT
1 ACCCTCAAACTTCCAAAAATCACATTTTT
* * *
30208850 ACCC-CGAACTTCTCAAAAATTATATTTTT
1 ACCCTCAAACTTC-CAAAAATCACATTTTT
* *
30208879 GCCCCCAAACTTCCAAAAATCACATTTTT
1 ACCCTCAAACTTCCAAAAATCACATTTTT
* *
30208908 ACCCTCGAACTTCCAAAAGTCACATTTTT
1 ACCCTCAAACTTCCAAAAATCACATTTTT
* *
30208937 AACCTCAAATTTTCCAAAA
1 ACCCTCAAA-CTTCCAAAA
30208956 GTTTGATTTT
Statistics
Matches: 447, Mismatches: 74, Indels: 50
0.78 0.13 0.09
Matches are distributed among these distances:
27 2 0.00
28 28 0.06
29 265 0.59
30 138 0.31
31 14 0.03
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (29 bp):
ACCCTCAAACTTCCAAAAATCACATTTTT
Found at i:30208954 original size:30 final size:30
Alignment explanation
Indices: 30208889--30208984 Score: 99
Period size: 29 Copynumber: 3.3 Consensus size: 30
30208879 GCCCCCAAAC
* * * *
30208889 TTCCAAAAATCACATTTTTACCCTCGAA-C
1 TTCCAAAAGTCACATTTTTAACCTCAAATT
30208918 TTCCAAAAGTCACATTTTTAACCTCAAATT
1 TTCCAAAAGTCACATTTTTAACCTCAAATT
***
30208948 TTCCAAAAGTTTGA-TTTTAATCCT-AAATT
1 TTCCAAAAGTCACATTTTTAA-CCTCAAATT
30208977 TTCCAAAA
1 TTCCAAAA
30208985 TATTCAATTT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
29 44 0.76
30 14 0.24
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.36
Consensus pattern (30 bp):
TTCCAAAAGTCACATTTTTAACCTCAAATT
Found at i:30209001 original size:30 final size:30
Alignment explanation
Indices: 30208933--30209007 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 30
30208923 AAAGTCACAT
*
30208933 TTTTAA-CCTCAAATTTTCCAAAAGTTTGA
1 TTTTAATCCTCAAATTTTCCAAAAGTTTAA
30208962 TTTTAATCCT-AAATTTTCCAAAA-TATTCAA
1 TTTTAATCCTCAAATTTTCCAAAAGT-TT-AA
*
30208992 TTTTGATCCTCAAATT
1 TTTTAATCCTCAAATT
30209008 CCTCGAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
28 1 0.03
29 21 0.52
30 13 0.32
31 5 0.12
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.44
Consensus pattern (30 bp):
TTTTAATCCTCAAATTTTCCAAAAGTTTAA
Found at i:30211736 original size:13 final size:14
Alignment explanation
Indices: 30211718--30211746 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
30211708 ATTTAGATTG
30211718 TTAAGTAG-TTTAA
1 TTAAGTAGATTTAA
30211731 TTAAGTAGATTTAA
1 TTAAGTAGATTTAA
30211745 TT
1 TT
30211747 TTTAGGAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (14 bp):
TTAAGTAGATTTAA
Found at i:30213679 original size:24 final size:22
Alignment explanation
Indices: 30213635--30213679 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
30213625 AATTATTTTT
30213635 ATATTATTATTAAAATATTATA
1 ATATTATTATTAAAATATTATA
*
30213657 ATATTAATTAATTTAAATATTAT
1 ATATT-ATT-ATTAAAATATTAT
30213680 TTAAATGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 3 0.15
24 12 0.60
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATTATTATTAAAATATTATA
Found at i:30213939 original size:7 final size:7
Alignment explanation
Indices: 30213927--30213958 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
30213917 CATCAAACCC
30213927 AATTTTA
1 AATTTTA
30213934 AATTTTA
1 AATTTTA
30213941 AATTTTA
1 AATTTTA
30213948 AATTTTA
1 AATTTTA
30213955 AATT
1 AATT
30213959 ATTTTAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTTA
Found at i:30213964 original size:17 final size:17
Alignment explanation
Indices: 30213928--30214047 Score: 99
Period size: 17 Copynumber: 7.2 Consensus size: 17
30213918 ATCAAACCCA
30213928 ATTTTAAATTTT-AA--
1 ATTTTAAATTTTAAATT
30213942 ATTTTAAATTTTAAATT
1 ATTTTAAATTTTAAATT
** *
30213959 ATTTTAAATTCGAATTT
1 ATTTTAAATTTTAAATT
30213976 ATTTTAAA-TTTAAATT
1 ATTTTAAATTTTAAATT
**
30213992 CATTTTGGA-TTTAAATTT
1 -ATTTTAAATTTTAAA-TT
30214010 ATTTTAAA-TTTAAATTT
1 ATTTTAAATTTTAAA-TT
* **
30214027 ATTTTGAATTAAAAATT
1 ATTTTAAATTTTAAATT
30214044 ATTT
1 ATTT
30214048 AATATTAAAA
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
14 12 0.14
15 2 0.02
16 5 0.06
17 62 0.71
18 6 0.07
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTTAAATTTTAAATT
Found at i:30213985 original size:34 final size:33
Alignment explanation
Indices: 30213942--30214047 Score: 131
Period size: 34 Copynumber: 3.1 Consensus size: 33
30213932 TAAATTTTAA
* *
30213942 ATTTTAAATTTTAAATTATTTTAAATTCGAATTT
1 ATTTTAAA-TTTAAATTATTTTGAATTCAAATTT
* *
30213976 ATTTTAAATTTAAATTCATTTTGGATTTAAATTT
1 ATTTTAAATTTAAATT-ATTTTGAATTCAAATTT
* *
30214010 ATTTTAAATTTAAATTTATTTTGAATTAAAAATT
1 ATTTTAAATTTAAA-TTATTTTGAATTCAAATTT
30214044 ATTT
1 ATTT
30214048 AATATTAAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
33 8 0.13
34 53 0.84
35 2 0.03
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (33 bp):
ATTTTAAATTTAAATTATTTTGAATTCAAATTT
Found at i:30213987 original size:6 final size:6
Alignment explanation
Indices: 30213930--30214027 Score: 53
Period size: 6 Copynumber: 16.7 Consensus size: 6
30213920 CAAACCCAAT
* ** *
30213930 TTTAAA TTTTAAA TTTTAAA TTTTAAA -TT-AT TTTAAA TTCGAA TTT-AT
1 TTTAAA -TTTAAA -TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * ** *
30213978 TTTAAA TTTAAA -TTCAT TTTGGA TTTAAA TTT-AT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
30214024 TTTA
1 TTTA
30214028 TTTTGAATTA
Statistics
Matches: 70, Mismatches: 16, Indels: 11
0.72 0.16 0.11
Matches are distributed among these distances:
4 1 0.01
5 15 0.21
6 34 0.49
7 20 0.29
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:30214813 original size:13 final size:12
Alignment explanation
Indices: 30214762--30214815 Score: 63
Period size: 12 Copynumber: 4.3 Consensus size: 12
30214752 ATGTAAAAAT
* *
30214762 TAATTATATTAT
1 TAATAATATTAA
30214774 TAATAATATTAA
1 TAATAATATTAA
*
30214786 TGATAATAATTAA
1 TAATAAT-ATTAA
30214799 TAATAATATTAAA
1 TAATAATATT-AA
30214812 TAAT
1 TAAT
30214816 TGTTTAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
12 19 0.53
13 17 0.47
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (12 bp):
TAATAATATTAA
Found at i:30214870 original size:30 final size:30
Alignment explanation
Indices: 30214831--30215059 Score: 188
Period size: 29 Copynumber: 7.8 Consensus size: 30
30214821 AATATAAAAT
* * * *
30214831 AATTTTATTTTTGATCTCGAAATTTTTAAA
1 AATTATATTTTTGACCTCGAAACTTTCAAA
30214861 AATTATATTTTT-ACCCTC-AAACTTTCAAA
1 AATTATATTTTTGA-CCTCGAAACTTTCAAA
* *
30214890 AATTATA-TTTTAATCC-CCAAAC-TTCTAAA
1 AATTATATTTTTGA-CCTCGAAACTTTC-AAA
* * *
30214919 AATTATATTTTT-ACCCCTAAACTTCCAAA
1 AATTATATTTTTGACCTCGAAACTTTCAAA
*
30214948 AATTTTATTTTTGACCTCGAAACTTTCAAA
1 AATTATATTTTTGACCTCGAAACTTTCAAA
* * * *
30214978 AATTACATTTTTG-CCTCTAAATTTTGAAA
1 AATTATATTTTTGACCTCGAAACTTTCAAA
* *
30215007 AATT-TCATTTTTGACCTCG-AACTTCCGAA
1 AATTAT-ATTTTTGACCTCGAAACTTTCAAA
** *
30215036 AATTCCATTTTTGACCCCGAAACT
1 AATTATATTTTTGACCTCGAAACT
30215060 CTCGTAATTA
Statistics
Matches: 163, Mismatches: 24, Indels: 24
0.77 0.11 0.11
Matches are distributed among these distances:
28 10 0.06
29 100 0.61
30 53 0.33
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.41
Consensus pattern (30 bp):
AATTATATTTTTGACCTCGAAACTTTCAAA
Found at i:30214998 original size:59 final size:58
Alignment explanation
Indices: 30214831--30215052 Score: 218
Period size: 58 Copynumber: 3.8 Consensus size: 58
30214821 AATATAAAAT
* * * *
30214831 AATTTTATTTTTGATCTCGAAATTTTTAAAAATTATATTTTTACCCTCAAACTTTCAAA
1 AATTTTATTTTTGACCTCGAAACTTTCAAAAATTACATTTTTACCCT-AAACTTTCAAA
* * * * *
30214890 AATTATA-TTTTAATCC-CCAAAC-TTCTAAAAATTATATTTTTACCCCTAAACTTCCAAA
1 AATTTTATTTTTGA-CCTCGAAACTTTC-AAAAATTACATTTTTA-CCCTAAACTTTCAAA
* * *
30214948 AATTTTATTTTTGACCTCGAAACTTTCAAAAATTACATTTTTGCCTCTAAATTTTGAAA
1 AATTTTATTTTTGACCTCGAAACTTTCAAAAATTACATTTTTACC-CTAAACTTTCAAA
* * * *
30215007 AATTTCATTTTTGACCTCG-AACTTCCGAAAATTCCATTTTTGACCC
1 AATTTTATTTTTGACCTCGAAACTTTCAAAAATTACATTTTT-ACCC
30215053 CGAAACTCTC
Statistics
Matches: 135, Mismatches: 20, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
57 2 0.01
58 65 0.48
59 65 0.48
60 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.42
Consensus pattern (58 bp):
AATTTTATTTTTGACCTCGAAACTTTCAAAAATTACATTTTTACCCTAAACTTTCAAA
Found at i:30215008 original size:88 final size:87
Alignment explanation
Indices: 30214858--30215059 Score: 209
Period size: 88 Copynumber: 2.3 Consensus size: 87
30214848 CGAAATTTTT
*
30214858 AAAAATTATATTTTT-ACCCTC-AAACTTTCAAAAATTATATTTTAATCCCCAAACTTCTAAAAA
1 AAAAATTATATTTTTGA-CCTCGAAACTTTCAAAAATTACATTTT-ATCCCCAAACTTCTAAAAA
30214921 TTAT-ATTTTT-ACCCCTAAACTTCC
64 TT-TCATTTTTGACCCC-AAACTTCC
* * *
30214945 AAAAATTTTATTTTTGACCTCGAAACTTTCAAAAATTACATTTT-TGCCTCTAAA-TTTTGAAAA
1 AAAAATTATATTTTTGACCTCGAAACTTTCAAAAATTACATTTTAT-CC-CCAAACTTCT-AAAA
* *
30215008 ATTTCATTTTTGACCTCGAACTTCC
63 ATTTCATTTTTGACCCCAAACTTCC
* ** *
30215033 GAAAATTCCATTTTTGACCCCGAAACT
1 AAAAATTATATTTTTGACCTCGAAACT
30215060 CTCGTAATTA
Statistics
Matches: 98, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
86 1 0.01
87 24 0.24
88 69 0.70
89 4 0.04
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.39
Consensus pattern (87 bp):
AAAAATTATATTTTTGACCTCGAAACTTTCAAAAATTACATTTTATCCCCAAACTTCTAAAAATT
TCATTTTTGACCCCAAACTTCC
Found at i:30215251 original size:145 final size:145
Alignment explanation
Indices: 30215065--30215359 Score: 382
Period size: 145 Copynumber: 2.0 Consensus size: 145
30215055 AAACTCTCGT
* * ** ** *
30215065 AATTACCATTTTACCTCCAGATGTCCAAAAATCCCATTTTTGATCCCGATTTTTTTAAAAATTAT
1 AATTACCATTTTACCTCCAGACGTCCAAAAATCCCAGTTTTGATCCCGATCCTTCCAAAAATTAC
* * *
30215130 CATTTTACCCTCGATTATCTAGAATGTCATTTTTAACCCCAAATTTTCCCAAAATTA-TCATTTT
66 CATTTTACCCTCGATCATCTAAAATGTCATTTCTAACCCCAAATTTTCCCAAAATTACT-ATTTT
30215194 G-CCCTCGAGAGTCCAA
130 GCCCCT-GAGAGTCCAA
* * *
30215210 AATTACCATTTTACC-CTCAGGCGTCCAAAAAGTTCC-GTTTTGATCCCGATCCTTCCGAAAATT
1 AATTACCATTTTACCTC-CAGACGTCCAAAAA-TCCCAGTTTTGATCCCGATCCTTCCAAAAATT
* *
30215273 ACCGTTTTACCCTCGATCATCTAAAATGTCATTTCTAACCCCAAATTTTCCTAAAATTACTATTT
64 ACCATTTTACCCTCGATCATCTAAAATGTCATTTCTAACCCCAAATTTTCCCAAAATTACTATTT
*
30215338 TGCCCCTGAGAGTCGAA
129 TGCCCCTGAGAGTCCAA
30215355 AATTA
1 AATTA
30215360 TTATTTTGCT
Statistics
Matches: 130, Mismatches: 16, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
144 1 0.01
145 121 0.93
146 8 0.06
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.36
Consensus pattern (145 bp):
AATTACCATTTTACCTCCAGACGTCCAAAAATCCCAGTTTTGATCCCGATCCTTCCAAAAATTAC
CATTTTACCCTCGATCATCTAAAATGTCATTTCTAACCCCAAATTTTCCCAAAATTACTATTTTG
CCCCTGAGAGTCCAA
Found at i:30215290 original size:30 final size:30
Alignment explanation
Indices: 30215204--30215290 Score: 74
Period size: 30 Copynumber: 3.0 Consensus size: 30
30215194 GCCCTCGAGA
* **
30215204 GTCC-AAAATTACCATTTTACCCTC-AGGC
1 GTCCAAAAATTACCGTTTTACCCTCGATCC
*
30215232 GTCCAAAAAGTT-CCGTTTTGATCC-CGATCC
1 GTCCAAAAA-TTACCGTTTT-ACCCTCGATCC
* *
30215262 TTCCGAAAATTACCGTTTTACCCTCGATC
1 GTCCAAAAATTACCGTTTTACCCTCGATC
30215291 ATCTAAAATG
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
28 4 0.09
29 16 0.35
30 26 0.57
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (30 bp):
GTCCAAAAATTACCGTTTTACCCTCGATCC
Found at i:30222362 original size:44 final size:46
Alignment explanation
Indices: 30222276--30222364 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 46
30222266 TGTGTAATAA
* *
30222276 AATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGATTGGAATGG
1 AATAGAGCTGTAATCAATAATTCAATTGTTTGGTTGAATGGAATGG
*
30222322 AATAGAGCTGTAAT-AAT-ATTC-TTATGTTTGGTTGAATGGAATG
1 AATAGAGCTGTAATCAATAATTCAAT-TGTTTGGTTGAATGGAATG
30222365 ATGCTGTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
43 1 0.03
44 22 0.56
45 2 0.05
46 14 0.36
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (46 bp):
AATAGAGCTGTAATCAATAATTCAATTGTTTGGTTGAATGGAATGG
Found at i:30222528 original size:58 final size:60
Alignment explanation
Indices: 30222459--30222610 Score: 215
Period size: 58 Copynumber: 2.6 Consensus size: 60
30222449 AATTTTAATG
*
30222459 ATTATTATTAAATATAATTTAATAAAAATAATAAT-TAATTTAATTATA-TTTTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATAATAATGTAATTTAATAATATTTTTAACATA
*
30222517 ATTATTATTAAATATAATTTAAT-AAAATAAT-ATGTAATTTAATAATATTTTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAATAATGTAATTTAATAATATTTTTAACATA
* *
30222575 ATTATTATTAAAATATGAA-TTAGTAAAAATTATAAT
1 ATTATTATT-AAATAT-AATTTAATAAAAATAATAAT
30222611 ATATAATTTT
Statistics
Matches: 84, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
56 2 0.02
57 20 0.24
58 41 0.49
59 10 0.12
60 9 0.11
61 2 0.02
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (60 bp):
ATTATTATTAAATATAATTTAATAAAAATAATAATGTAATTTAATAATATTTTTAACATA
Found at i:30222535 original size:32 final size:27
Alignment explanation
Indices: 30222459--30222607 Score: 88
Period size: 28 Copynumber: 5.2 Consensus size: 27
30222449 AATTTTAATG
30222459 ATTATTATTAAATATAATTTAATAAAA
1 ATTATTATTAAATATAATTTAATAAAA
* * * *
30222486 ATAATAATTAATTTAATTATATTTTAA-CATA
1 AT--T-ATT-A-TTAAATATAATTTAATAAAA
30222517 ATTATTATTAAATATAATTTAATAAAA
1 ATTATTATTAAATATAATTTAATAAAA
* * * *
30222544 TAATATGTAATTTAATAATATTTTTAAT-ATA
1 -ATTAT-T-ATTAAAT-ATA-ATTTAATAAAA
*
30222575 ATTATTATTAAAATATGAA-TTAGTAAAA
1 ATTATTATT-AAATAT-AATTTAATAAAA
30222603 ATTAT
1 ATTAT
30222608 AATATATAAT
Statistics
Matches: 91, Mismatches: 17, Indels: 27
0.67 0.13 0.20
Matches are distributed among these distances:
26 13 0.14
27 9 0.10
28 19 0.21
29 8 0.09
30 13 0.14
31 10 0.11
32 19 0.21
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (27 bp):
ATTATTATTAAATATAATTTAATAAAA
Found at i:30227516 original size:7 final size:7
Alignment explanation
Indices: 30227504--30227537 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
30227494 CAGGGACACT
30227504 CAAGATG
1 CAAGATG
30227511 CAAGATG
1 CAAGATG
30227518 CAAGATG
1 CAAGATG
30227525 CAAGATG
1 CAAGATG
30227532 CAAGAT
1 CAAGAT
30227538 CTAAACAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.26, T:0.15
Consensus pattern (7 bp):
CAAGATG
Found at i:30238630 original size:18 final size:18
Alignment explanation
Indices: 30238609--30238649 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
30238599 CAAAACATTT
*
30238609 AAAAGTAAAAAAAGCAAG
1 AAAAGTAAAAAAAGAAAG
*
30238627 AAAAGTAAATAAAGAAAG
1 AAAAGTAAAAAAAGAAAG
30238645 AAAAG
1 AAAAG
30238650 GAGCTTGAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.73, C:0.02, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGTAAAAAAAGAAAG
Found at i:30244460 original size:11 final size:9
Alignment explanation
Indices: 30244433--30244484 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
30244423 GTTATAAACT
*
30244433 AAAATTAAA
1 AAAAATAAA
*
30244442 ACAAATAAA
1 AAAAATAAA
30244451 GAAAAGATAAA
1 -AAAA-ATAAA
*
30244462 AGAAAAAAAA
1 A-AAAATAAA
30244472 AAAAATAAA
1 AAAAATAAA
30244481 AAAA
1 AAAA
30244485 GGAAAATTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
9 18 0.51
10 9 0.26
11 8 0.23
ACGTcount: A:0.83, C:0.02, G:0.06, T:0.10
Consensus pattern (9 bp):
AAAAATAAA
Found at i:30244461 original size:20 final size:19
Alignment explanation
Indices: 30244433--30244481 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
30244423 GTTATAAACT
* *
30244433 AAAATTAAAACAAATAAAGA
1 AAAAATAAAACAAA-AAAAA
* *
30244453 AAAGATAAAAGAAAAAAAA
1 AAAAATAAAACAAAAAAAA
30244472 AAAAATAAAA
1 AAAAATAAAA
30244482 AAAGGAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.82, C:0.02, G:0.06, T:0.10
Consensus pattern (19 bp):
AAAAATAAAACAAAAAAAA
Found at i:30245908 original size:25 final size:25
Alignment explanation
Indices: 30245879--30245936 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
30245869 GATTAGAACT
* * *
30245879 TTAGCTCATGCGTGCTCAAATAGAG
1 TTAGCTCATACGAGCTCAAACAGAG
**
30245904 TTAGCTCATACGAGCTCGGACAGAG
1 TTAGCTCATACGAGCTCAAACAGAG
30245929 TTAGCTCA
1 TTAGCTCA
30245937 AAGGAAGTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (25 bp):
TTAGCTCATACGAGCTCAAACAGAG
Found at i:30251708 original size:25 final size:25
Alignment explanation
Indices: 30251638--30251714 Score: 91
Period size: 25 Copynumber: 3.1 Consensus size: 25
30251628 TTCCAAAATT
* *
30251638 TTAGCTAATTCGAGCCCAAATAGAG
1 TTAGCTAATACGAGCCCAGATAGAG
* *
30251663 TTAGCTTATACGAGCCGAGATAGAG
1 TTAGCTAATACGAGCCCAGATAGAG
* * *
30251688 TTAGCTCATACGAGCCTAGATATAG
1 TTAGCTAATACGAGCCCAGATAGAG
30251713 TT
1 TT
30251715 TCACCAGTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (25 bp):
TTAGCTAATACGAGCCCAGATAGAG
Found at i:30258739 original size:17 final size:17
Alignment explanation
Indices: 30258719--30258757 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
30258709 ACTACAATGC
*
30258719 AAATGCACTGACAAATA
1 AAATGCACAGACAAATA
* *
30258736 AAATGCAGAGACAATTA
1 AAATGCACAGACAAATA
30258753 AAATG
1 AAATG
30258758 TAATGACAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.13, G:0.15, T:0.18
Consensus pattern (17 bp):
AAATGCACAGACAAATA
Found at i:30259224 original size:24 final size:23
Alignment explanation
Indices: 30259180--30259224 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
30259170 AGTCTTCTGC
*
30259180 TTTTTCTTTTTCTCTTGCTTCTT
1 TTTTTCTTTTTCTCCTGCTTCTT
30259203 TTTTCTCTTTTTCCTCCT-CTTC
1 TTTT-TCTTTTT-CTCCTGCTTC
30259225 CACAAAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 11 0.58
25 4 0.21
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.69
Consensus pattern (23 bp):
TTTTTCTTTTTCTCCTGCTTCTT
Found at i:30261125 original size:21 final size:20
Alignment explanation
Indices: 30261087--30261125 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
30261077 CTGAGGTAGT
* *
30261087 ACTTTAATTGTTGGCCATTC
1 ACTTTAATTGGTGCCCATTC
30261107 ACTTTGAATTGGTGCCCAT
1 ACTTT-AATTGGTGCCCAT
30261126 CGTGTAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.41
Consensus pattern (20 bp):
ACTTTAATTGGTGCCCATTC
Found at i:30265277 original size:18 final size:19
Alignment explanation
Indices: 30265254--30265298 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
30265244 CAGTATGATA
30265254 TGGTTGCATTC-GAGCATG
1 TGGTTGCATTCTGAGCATG
**
30265272 TGGTTGCA-TCTGATTATG
1 TGGTTGCATTCTGAGCATG
30265290 TGGTTGCAT
1 TGGTTGCAT
30265299 CAGATTAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.16, C:0.13, G:0.31, T:0.40
Consensus pattern (19 bp):
TGGTTGCATTCTGAGCATG
Found at i:30265312 original size:21 final size:18
Alignment explanation
Indices: 30265269--30265305 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
30265259 GCATTCGAGC
*
30265269 ATGTGGTTGCATCTGATT
1 ATGTGGTTGCATCAGATT
30265287 ATGTGGTTGCATCAGATT
1 ATGTGGTTGCATCAGATT
30265305 A
1 A
30265306 GTATGTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.27, T:0.41
Consensus pattern (18 bp):
ATGTGGTTGCATCAGATT
Found at i:30274976 original size:17 final size:17
Alignment explanation
Indices: 30274956--30275016 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
30274946 TTAATATGAT
30274956 TAAATAATTCAATAATA
1 TAAATAATTCAATAATA
* * *
30274973 TAAATAATAC-ACAATG
1 TAAATAATTCAATAATA
*
30274989 TGAAATTTAATTTAATAATA
1 T-AAA--TAATTCAATAATA
30275009 TAAATAAT
1 TAAATAAT
30275017 ATATATAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
16 5 0.15
17 16 0.48
19 7 0.21
20 5 0.15
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (17 bp):
TAAATAATTCAATAATA
Found at i:30275466 original size:175 final size:175
Alignment explanation
Indices: 30275162--30275494 Score: 394
Period size: 175 Copynumber: 1.9 Consensus size: 175
30275152 AATTTGGGGG
* * *
30275162 AAAGTAAATGGAAAAGTAAAATTTTGGAGGGAAAATATTAAAAAAATTGGGGGGAGGAATAAGTT
1 AAAGTAAATGGAAAAGTAAAATTTTGGAAGGAAAATATTAAAAAAAATGGGAGGA-GAATAAGTT
* *
30275227 TGGGATAGATGAGCGGTGGGATTGAAAGGGAGTAAAAGTTTTATGGGAAAGTGAGAGAAAGTAAA
65 TGGGATAGATGAGCGGTGAGATTGAAA-GGAGTAAAAGTTTTATGGGAAAGTGAAAGAAAGTAAA
*
30275292 AGTTTTG-GGGAAA-ATAAAAAGTTTTGAGGATTTTTGGAGAATAAA
129 AGTTTTGAGGGAAATATAAAAAGGTTTGAGGATTTTTGGAGAATAAA
* * **
30275337 AAAGTAATTGGAGAAAGTAAAATTTTGGAATGAAAATATTCAAAAAAAGAT-GGAGGA-AATGGG
1 AAAGTAAATGGA-AAAGTAAAATTTTGGAAGGAAAATATT-AAAAAAA-ATGGGAGGAGAATAAG
* * *
30275400 TTTGGGGTAGAT-AGGGGTGAGATTTGAGAA-GAGTAAATGTTTTCGA-GGGAAAGTGGAAAG-A
63 TTTGGGATAGATGAGCGGTGAGA-TTGA-AAGGAGTAAAAGTTTT--ATGGGAAAGT-GAAAGAA
*
30275461 AGTAAAAGTTTTGAGGGAAATGTAAAAAGGTTTG
123 AGTAAAAGTTTTGAGGGAAATATAAAAAGGTTTG
30275495 GAGGTTTGGG
Statistics
Matches: 134, Mismatches: 14, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
174 20 0.15
175 52 0.39
176 38 0.28
177 23 0.17
178 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.32, T:0.25
Consensus pattern (175 bp):
AAAGTAAATGGAAAAGTAAAATTTTGGAAGGAAAATATTAAAAAAAATGGGAGGAGAATAAGTTT
GGGATAGATGAGCGGTGAGATTGAAAGGAGTAAAAGTTTTATGGGAAAGTGAAAGAAAGTAAAAG
TTTTGAGGGAAATATAAAAAGGTTTGAGGATTTTTGGAGAATAAA
Found at i:30276179 original size:19 final size:19
Alignment explanation
Indices: 30276149--30276197 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
30276139 TAAACTCTTT
*
30276149 AAAATTTAAAAAATA-AAA
1 AAAATTTTAAAAATATAAA
30276167 AATAATTTTAAAAATATAAA
1 AA-AATTTTAAAAATATAAA
30276187 AAAA-TTTAAAA
1 AAAATTTTAAAA
30276198 TTCTTACAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 9 0.32
19 14 0.50
20 5 0.18
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATTTTAAAAATATAAA
Found at i:30281120 original size:14 final size:15
Alignment explanation
Indices: 30281101--30281133 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
30281091 TAATACATAC
30281101 ACATACA-TATATAT
1 ACATACACTATATAT
30281115 ACATACACGTATATAT
1 ACATACAC-TATATAT
30281131 ACA
1 ACA
30281134 ATTTTTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
16 10 0.59
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.30
Consensus pattern (15 bp):
ACATACACTATATAT
Found at i:30281999 original size:28 final size:28
Alignment explanation
Indices: 30281875--30282113 Score: 170
Period size: 28 Copynumber: 8.1 Consensus size: 28
30281865 TTAAAAACTA
*
30281875 TATTTTAACCCCTAAAC-TTTCCAAAAAT
1 TATTTTAACCCTTAAACTTTTCC-AAAAT
* *
30281903 TACATTTCAA-CCTCTAAATTATTTCCAAAAT
1 T--ATTTTAACCCT-TAAACT-TTTCCAAAAT
* * *
30281934 TACATTTTGACCCCCT-AAC-TTTCTAGAAAT
1 T--ATTTT-AACCCTTAAACTTTTCCA-AAAT
*
30281964 TACATTTTGACCCTTAAACTTTTCCAAAAT
1 T--ATTTTAACCCTTAAACTTTTCCAAAAT
30281994 TATTTTTAACCC-TAAACTTTTCCAAAAT
1 TA-TTTTAACCCTTAAACTTTTCCAAAAT
30282022 TACATTTTAACCC-T-AACTTTTCCAAAAT
1 T--ATTTTAACCCTTAAACTTTTCCAAAAT
30282050 TACATTTTAACCCTTAAAAC-TTTCCAAAAAT
1 T--ATTTTAACCCTT-AAACTTTTCC-AAAAT
*
30282081 CATATTTTAACCCTTAAATTTTTCCAAAAT
1 --TATTTTAACCCTTAAACTTTTCCAAAAT
30282111 TAT
1 TAT
30282114 ATTTTGACCT
Statistics
Matches: 177, Mismatches: 14, Indels: 40
0.77 0.06 0.17
Matches are distributed among these distances:
28 49 0.28
29 30 0.17
30 44 0.25
31 44 0.25
32 7 0.04
33 3 0.02
ACGTcount: A:0.36, C:0.23, G:0.01, T:0.39
Consensus pattern (28 bp):
TATTTTAACCCTTAAACTTTTCCAAAAT
Found at i:30282029 original size:29 final size:29
Alignment explanation
Indices: 30281876--30282177 Score: 278
Period size: 30 Copynumber: 10.2 Consensus size: 29
30281866 TAAAAACTAT
30281876 ATTTTAACCCCTAAAC-TTTCCAAAAATTAC
1 ATTTTAA-CCCTAAACTTTTCC-AAAATTAC
* *
30281906 ATTTCAACCTCTAAATTATTTCCAAAATTAC
1 ATTTTAACC-CTAAACT-TTTCCAAAATTAC
* *
30281937 ATTTTGACCCCCT-AAC-TTTCTAGAAATTAC
1 ATTTT-A-ACCCTAAACTTTTCCA-AAATTAC
*
30281967 ATTTTGACCCTTAAACTTTTCCAAAATTA-
1 ATTTTAACCC-TAAACTTTTCCAAAATTAC
*
30281996 TTTTTAACCCTAAACTTTTCCAAAATTAC
1 ATTTTAACCCTAAACTTTTCCAAAATTAC
30282025 ATTTTAACCCT-AACTTTTCCAAAATTAC
1 ATTTTAACCCTAAACTTTTCCAAAATTAC
* *
30282053 ATTTTAACCCTTAAAAC-TTTCCAAAAATCAT
1 ATTTTAACCC-T-AAACTTTTCC-AAAATTAC
* *
30282084 ATTTTAACCCTTAAATTTTTCCAAAATTAT
1 ATTTTAACCC-TAAACTTTTCCAAAATTAC
* * *
30282114 ATTTTGACCTCTAAAC-TTTCTAAAATCAC
1 ATTTTAACC-CTAAACTTTTCCAAAATTAC
* *
30282143 ATTTTAACCCCTAAAATTCTCCAAAACTT-C
1 ATTTTAA-CCCTAAACTTTTCCAAAA-TTAC
30282173 ATTTT
1 ATTTT
30282178 TGACCCCTTC
Statistics
Matches: 227, Mismatches: 26, Indels: 38
0.78 0.09 0.13
Matches are distributed among these distances:
28 48 0.21
29 48 0.21
30 74 0.33
31 47 0.21
32 8 0.04
33 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.01, T:0.39
Consensus pattern (29 bp):
ATTTTAACCCTAAACTTTTCCAAAATTAC
Found at i:30286906 original size:58 final size:56
Alignment explanation
Indices: 30286843--30287002 Score: 166
Period size: 55 Copynumber: 2.8 Consensus size: 56
30286833 ATTGGTGTCA
* * *
30286843 CCATGCTATGACCGACACCCACTTT-T-TTATATTTAAAAAATATTTTTTTGAGTGTCGT
1 CCATGCCATGACCGACACCCACTTTATCTGATA---AAAAAATATTTTTTT-AGTGTCGC
*
30286901 CCATGCCATGACCGACACCCTCTTTATCTGATAAAAAAATATTTTTTTAGTGTCGC
1 CCATGCCATGACCGACACCCACTTTATCTGATAAAAAAATATTTTTTTAGTGTCGC
* * * * *
30286957 CCATGTCATTG-TCAATA-CCACTTTATCAGATAAAAAAATATTTTTT
1 CCATGCCA-TGACCGACACCCACTTTATCTGATAAAAAAATATTTTTT
30287003 GGATGCTTGC
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
55 27 0.30
56 17 0.19
57 17 0.19
58 23 0.26
59 1 0.01
60 4 0.04
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.38
Consensus pattern (56 bp):
CCATGCCATGACCGACACCCACTTTATCTGATAAAAAAATATTTTTTTAGTGTCGC
Found at i:30287045 original size:110 final size:112
Alignment explanation
Indices: 30286922--30287160 Score: 251
Period size: 110 Copynumber: 2.2 Consensus size: 112
30286912 CCGACACCCT
** * *
30286922 CTTTATCTGATAAAAAAATATTTTTTTA-GTG-TCGCCCATGTCATTGTCAAT-ACC-ACTTTAT
1 CTTTATCAAATAAAAAAATA-TTTTTTAGGTGCTCG-CCAAGTCATAG-CAATCACCTACTTTAT
* * *
30286983 CAGATAAAAAAATATTTTTTG-GATGCTTGCCAAG-TCATGGGCATCACCTC
63 CAGATAAAAAAATATTTTTTGAG-TGATGGCCAAGCT-ATGGCCATCACCTC
* * * * *
30287033 CTTT-TCAAAT-AAAAAATATTTTTTAGGTGCTTGTCAAGTCATAGCCATCACCTTCTTTTTCAG
1 CTTTATCAAATAAAAAAATATTTTTTAGGTGCTCGCCAAGTCATAGCAATCACCTACTTTATCAG
* *
30287096 ATAAAAAACTATTTTTTGAGTGATGGCTAAGCTATGGCCATCACCTC
66 ATAAAAAAATATTTTTTGAGTGATGGCCAAGCTATGGCCATCACCTC
30287143 CTTTATCAAATAAAAAAA
1 CTTTATCAAATAAAAAAA
30287161 ATTCTAGGTG
Statistics
Matches: 106, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
108 10 0.09
109 22 0.21
110 56 0.53
111 12 0.11
112 6 0.06
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (112 bp):
CTTTATCAAATAAAAAAATATTTTTTAGGTGCTCGCCAAGTCATAGCAATCACCTACTTTATCAG
ATAAAAAAATATTTTTTGAGTGATGGCCAAGCTATGGCCATCACCTC
Found at i:30287052 original size:54 final size:54
Alignment explanation
Indices: 30286989--30287364 Score: 201
Period size: 54 Copynumber: 6.8 Consensus size: 54
30286979 TTATCAGATA
*
30286989 AAAAAATATTTTTTGGATGCTTGCCAAGTCATGGGCATCACCTCCTTTTCAAAT
1 AAAAAATATTTTTTGGATGCTTGCCAAGTCATGGCCATCACCTCCTTTTCAAAT
* * * *
30287043 AAAAAATATTTTTTAGG-TGCTTGTCAAGTCATAGCCATCACCTTCTTTTTCAGAT
1 AAAAAATATTTTTT-GGATGCTTGCCAAGTCATGGCCATCACC-TCCTTTTCAAAT
* * *
30287098 AAAAAACTATTTTTT-GAGTGATGGCTAAG-CTATGGCCATCACCTCCTTTATCAAAT
1 AAAAAA-TATTTTTTGGA-TGCTTGCCAAGTC-ATGGCCATCACCTCCTTT-TCAAAT
* * * * * ** * * * *
30287154 AAAAAA-AATTCTAGG-TGATGGCCAAACCATGACTAT-ACCCTCTTTTTCAGAT
1 AAAAAATATTTTTTGGATGCTTGCCAAGTCATGGCCATCA-CCTCCTTTTCAAAT
** * * * * * *
30287206 AAAAAAATATAATATTTTTTATGTGCTTGTCAAGTCATGACCATCACCTCTTTTTTTAGAC
1 -AAAAAATAT--T-TTTTGGA--TGCTTGCCAAGTCATGGCCATCACCTC-CTTTTCAAAT
* * * * ** *
30287267 AAAAAATATTTTTAGG-TGCTTGCCAAGCCATAGTCATCACCTTTTTTTTCAGAT
1 AAAAAATATTTTTTGGATGCTTGCCAAGTCATGGCCATCACC-TCCTTTTCAAAT
* * *
30287321 AAAAATAATATTTTTTGGATG-ATGCTCAAGTCATAGTCATCACC
1 -AAAA-AATATTTTTTGGATGCTTGC-CAAGTCATGGCCATCACC
30287365 CAAAAAATAT
Statistics
Matches: 249, Mismatches: 48, Indels: 47
0.72 0.14 0.14
Matches are distributed among these distances:
52 6 0.02
53 28 0.11
54 71 0.29
55 30 0.12
56 52 0.21
57 24 0.10
58 1 0.00
60 28 0.11
61 9 0.04
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (54 bp):
AAAAAATATTTTTTGGATGCTTGCCAAGTCATGGCCATCACCTCCTTTTCAAAT
Found at i:30287136 original size:56 final size:55
Alignment explanation
Indices: 30286977--30287159 Score: 187
Period size: 56 Copynumber: 3.3 Consensus size: 55
30286967 GTCAATACCA
* * * *
30286977 CTTTATCAGATAAAAAAATATTTTTTG-GATGCTTGCCAAGTCATGGGCATCACCTC
1 CTTTATCAAAT-AAAAAATATTTTTTGAG-TGCTTGCTAAGTCATGGCCATCACCTT
*
30287033 CTTT-TCAAATAAAAAATATTTTTT-AGGTGCTTG-TCAAGTCATAGCCATCACCTT
1 CTTTATCAAATAAAAAATATTTTTTGA-GTGCTTGCT-AAGTCATGGCCATCACCTT
* * * * *
30287087 CTTTTTCAGATAAAAAACTATTTTTTGAGTGATGGCTAAG-CTATGGCCATCACCTC
1 CTTTATCAAATAAAAAA-TATTTTTTGAGTGCTTGCTAAGTC-ATGGCCATCACCTT
30287143 CTTTATCAAATAAAAAA
1 CTTTATCAAATAAAAAA
30287160 AATTCTAGGT
Statistics
Matches: 107, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
54 40 0.37
55 18 0.17
56 47 0.44
57 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.36
Consensus pattern (55 bp):
CTTTATCAAATAAAAAATATTTTTTGAGTGCTTGCTAAGTCATGGCCATCACCTT
Found at i:30287362 original size:111 final size:108
Alignment explanation
Indices: 30286977--30287364 Score: 349
Period size: 110 Copynumber: 3.5 Consensus size: 108
30286967 GTCAATACCA
* * * *
30286977 CTTTATCAGATAAAAAAATATTTTTTGGATGCTTGC-CAAGTCATGGGCATCACCTCCTTTTCAA
1 CTTTTTCAGATAAAAAAATATTTTTT-GATG-ATGCTCAAGTCATGGCCATCACCTCTTTTTCAA
* * *
30287041 ATAAAAAATATTTTTTAGGTGCTTGTCAAGTCATAGCCATCACCTT
64 ATAAAAAATA-TTTTTAGGTGCTTGCCAAGCCATAGACATCACCTT
* *
30287087 CTTTTTCAGATAAAAAACTATTTTTTGAGTGATGGCT-AAG-CTATGGCCATCACCTCCTTTATC
1 CTTTTTCAGATAAAAAAATATTTTTTGA-TGAT-GCTCAAGTC-ATGGCCATCACCT-CTTTTTC
* * * * * *
30287150 AAATAAAAAA-AATTCTAGGTGATGGCCAAACCAT-GACTAT-ACCCT
62 AAATAAAAAATATTTTTAGGTGCTTGCCAAGCCATAGAC-ATCACCTT
* *
30287195 CTTTTTCAGATAAAAAAATATAATATTTTTTATG-TGCTTGTCAAGTCATGACCATCACCTCTTT
1 CTTTTTCAGAT-AAAAAA-AT-AT-TTTTTGATGATGC---TCAAGTCATGGCCATCACCTC-TT
* * * *
30287259 TTTTAGACAAAAAATATTTTTAGGTGCTTGCCAAGCCATAGTCATCACCTT
58 TTTCAAATAAAAAATATTTTTAGGTGCTTGCCAAGCCATAGACATCACCTT
* * *
30287310 TTTTTTCAGATAAAAATAATATTTTTTGGATGATGCTCAAGTCATAGTCATCACC
1 CTTTTTCAGATAAAAA-AATATTTTTT-GATGATGCTCAAGTCATGGCCATCACC
30287365 CAAAAAATAT
Statistics
Matches: 222, Mismatches: 34, Indels: 43
0.74 0.11 0.14
Matches are distributed among these distances:
108 17 0.08
109 30 0.14
110 46 0.21
111 35 0.16
112 13 0.06
113 32 0.14
114 32 0.14
115 17 0.08
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (108 bp):
CTTTTTCAGATAAAAAAATATTTTTTGATGATGCTCAAGTCATGGCCATCACCTCTTTTTCAAAT
AAAAAATATTTTTAGGTGCTTGCCAAGCCATAGACATCACCTT
Found at i:30289655 original size:27 final size:27
Alignment explanation
Indices: 30289604--30289655 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
30289594 AACTTCAAAA
*
30289604 TTTAATTTTATTTATTATAATATATAT
1 TTTAATTTTATTTATTATAAGATATAT
30289631 TTTAATTTTATGTTATTA-AAGATAT
1 TTTAATTTTAT-TTATTATAAGATAT
30289656 TTATAATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (27 bp):
TTTAATTTTATTTATTATAAGATATAT
Found at i:30289861 original size:18 final size:16
Alignment explanation
Indices: 30289808--30289870 Score: 72
Period size: 17 Copynumber: 3.8 Consensus size: 16
30289798 AATTAAAATT
* *
30289808 TTTTAAAATACTAACA
1 TTTTAAAATTCTAAAA
30289824 TTTTAAAATATCTAAAA
1 TTTTAAAAT-TCTAAAA
30289841 TTTTAAAATTCATATAAA
1 TTTTAAAATTC-TA-AAA
*
30289859 TTTTGAAATTCT
1 TTTTAAAATTCT
30289871 TTATTATGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
16 11 0.27
17 17 0.41
18 13 0.32
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (16 bp):
TTTTAAAATTCTAAAA
Found at i:30297349 original size:98 final size:98
Alignment explanation
Indices: 30297152--30297346 Score: 218
Period size: 97 Copynumber: 2.0 Consensus size: 98
30297142 TACTTCTGAA
* * * *
30297152 AAGGATGTTCGATTATCTCGATTTAAAGAAAAAGTCGCACATAGTAAGTTTAGGTACAAATTTTC
1 AAGGATATTCGATTATCTCGATTTAAAGAAAAAGTCGCACATAATAAGTTAAGATACAAATTTTC
* * *
30297217 AGAATCAGAGATAAAGAAACATTGCCTTGATTT
66 AAAATCAGAAATAAAGAAACATTGCCTCGATTT
* ** * *
30297250 AAGGATATTCGATTAT-TCCGATTTGAAGAAAAA-TCGTGCCTAATAGGTTAAGATACAAATTTT
1 AAGGATATTCGATTATCT-CGATTTAAAGAAAAAGTCGCACATAATAAGTTAAGATACAAATTTT
*
30297313 CAAAACTCA-AAATAAA-AGAATATTGCCTCGATTT
65 CAAAA-TCAGAAATAAAGA-AACATTGCCTCGATTT
30297347 TAAAGTTTTT
Statistics
Matches: 81, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
96 1 0.01
97 48 0.59
98 32 0.40
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (98 bp):
AAGGATATTCGATTATCTCGATTTAAAGAAAAAGTCGCACATAATAAGTTAAGATACAAATTTTC
AAAATCAGAAATAAAGAAACATTGCCTCGATTT
Found at i:30297644 original size:59 final size:60
Alignment explanation
Indices: 30297579--30297746 Score: 207
Period size: 61 Copynumber: 2.8 Consensus size: 60
30297569 GCTCGGGGAT
* * **
30297579 AAAATGGTAA-TTTTGGACACTTGGGGGCAAAATGGTAA-TTTTGAAAGGTTCGAGG-TCGA
1 AAAATGG-AATTTTTAGACA-TTGGGGGTAAAATGGTAATTTTTGAAAGGTTCGAGGTTAAA
* *
30297638 AAAATGGAATTTTTAGACATTCGGGGGTAAAATGGTAATTTTTGGAAGGTTCGGGGTTAAA
1 AAAATGGAATTTTTAGACATT-GGGGGTAAAATGGTAATTTTTGAAAGGTTCGAGGTTAAA
* *
30297699 AAAATGGAATTTTTAGACATTTGAGGGTAAAATAGTAATTTTTGAAAG
1 AAAATGGAATTTTTAGACA-TTGGGGGTAAAATGGTAATTTTTGAAAG
30297747 TTTTAAGGTC
Statistics
Matches: 95, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
58 4 0.04
59 30 0.32
60 15 0.16
61 44 0.46
62 2 0.02
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.32
Consensus pattern (60 bp):
AAAATGGAATTTTTAGACATTGGGGGTAAAATGGTAATTTTTGAAAGGTTCGAGGTTAAA
Found at i:30297881 original size:118 final size:119
Alignment explanation
Indices: 30297628--30298101 Score: 418
Period size: 118 Copynumber: 4.0 Consensus size: 119
30297618 TTTGAAAGGT
* ***
30297628 TCGAGGTCGAAAAATGGAATTTTTAGACA-TTCGGGGGTAAAATGGTAATTTTTGGAAGGTTCGG
1 TCGAGGTC-AAAAATGGAA-TTTTAGAAAGTTCGGGGGTAAAATGGTAATTTTTGGAAAAATCGG
* * **
30297692 GGTTAAAAAAATGGAATTTTTAGACA-TTTGA-GGGTAAAATAGTAATTTTT-GAAAGTT
64 GG-T-CAAAAATGGAA-TTTTAGAAAGTTTGAGGGGTAAAATAGTAATTTTTGGAAA-AA
** * * *
30297749 TTAAGGTC-AGAATGGAATTTTAGACA-TTCGAGGGTAAAAAT-GTAATTTTTGGAAAAATCGGG
1 TCGAGGTCAAAAATGGAATTTTAGAAAGTTCGGGGGT-AAAATGGTAATTTTTGGAAAAATCGGG
*
30297811 GTCAAAAATGGAATTTTGGAAAGTTTGAGGGGTAAAA-ATGTAATTTTTGGAAAAA
65 GTCAAAAATGGAATTTTAGAAAGTTTGAGGGGTAAAATA-GTAATTTTTGGAAAAA
* * * * * * **
30297866 TCGAGGTCAAAAATGGAACTTTGGAAAGTTTGGGAGTAAAAAT-GCAATTTTTGGGAAAATTAGG
1 TCGAGGTCAAAAATGGAATTTTAGAAAGTTCGGGGGT-AAAATGGTAATTTTTGGAAAAATCGGG
* * * * *
30297930 GTCAAAAATGGAATTTTGGAATGTTCG-GGGGTAAAATGGTAATTTTTGGAGAAA
65 GTCAAAAATGGAATTTTAGAAAGTTTGAGGGGTAAAATAGTAATTTTTGGAAAAA
* * * * * * *
30297984 T-TAGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGT-AAATGGTAATTTTGGGAGAAATTGAG
1 TCGA-GGTCAAAAATGGAATTTTAGAAAGTTCGGGGGTAAAATGGTAATTTTTGGAAAAATCGGG
* * *
30298047 GTTAAAAATGAAATTTTAGAAAG-TTCAGGGGTAAAA-ATGTAATTTTTGGAAAAA
65 GTCAAAAATGGAATTTTAGAAAGTTTGAGGGGTAAAATA-GTAATTTTTGGAAAAA
30298101 T
1 T
30298102 TCAGGGTCAA
Statistics
Matches: 293, Mismatches: 48, Indels: 28
0.79 0.13 0.08
Matches are distributed among these distances:
115 7 0.02
116 21 0.07
117 84 0.29
118 108 0.37
119 67 0.23
121 6 0.02
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.32
Consensus pattern (119 bp):
TCGAGGTCAAAAATGGAATTTTAGAAAGTTCGGGGGTAAAATGGTAATTTTTGGAAAAATCGGGG
TCAAAAATGGAATTTTAGAAAGTTTGAGGGGTAAAATAGTAATTTTTGGAAAAA
Found at i:30297934 original size:59 final size:59
Alignment explanation
Indices: 30297759--30298113 Score: 402
Period size: 59 Copynumber: 6.0 Consensus size: 59
30297749 TTAAGGTCAG
* * * * **
30297759 AATGGAATTTTAGACA-TTCGAGGGTAAAAATGTAATTTTTGGAAAAATCGGGGTCAAA
1 AATGGAATTTTGGAAAGTTCGGGGGTAAAAATGTAATTTTTGGGAAAATTAGGGTCAAA
* * *
30297817 AATGGAATTTTGGAAAGTTTGAGGGGTAAAAATGTAATTTTT-GGAAAAATCGAGGTCAAA
1 AATGGAATTTTGGAAAGTTCG-GGGGTAAAAATGTAATTTTTGGGAAAATTAG-GGTCAAA
* * * *
30297877 AATGGAACTTTGGAAAGTTTGGGAGTAAAAATGCAATTTTTGGGAAAATTAGGGTCAAA
1 AATGGAATTTTGGAAAGTTCGGGGGTAAAAATGTAATTTTTGGGAAAATTAGGGTCAAA
* *
30297936 AATGGAATTTTGGAATGTTCGGGGGT-AAAATGGTAATTTTT-GGAGAAATTAGGGTTAAA
1 AATGGAATTTTGGAAAGTTCGGGGGTAAAAAT-GTAATTTTTGGGA-AAATTAGGGTCAAA
*
30297995 AATGGAATTTTGGAAAGTTCGGGGGT--AAATGGTAA-TTTTGGGAGAAATT-GAGGTTAAA
1 AATGGAATTTTGGAAAGTTCGGGGGTAAAAAT-GTAATTTTTGGGA-AAATTAG-GGTCAAA
* * * *
30298053 AATGAAATTTTAGAAAGTTCAGGGGTAAAAATGTAATTTTTGGAAAAATTCAGGGTCAAA
1 AATGGAATTTTGGAAAGTTCGGGGGTAAAAATGTAATTTTTGGGAAAATT-AGGGTCAAA
30298113 A
1 A
30298114 TATAATTTCT
Statistics
Matches: 259, Mismatches: 25, Indels: 24
0.84 0.08 0.08
Matches are distributed among these distances:
57 5 0.02
58 70 0.27
59 111 0.43
60 72 0.28
61 1 0.00
ACGTcount: A:0.39, C:0.04, G:0.27, T:0.30
Consensus pattern (59 bp):
AATGGAATTTTGGAAAGTTCGGGGGTAAAAATGTAATTTTTGGGAAAATTAGGGTCAAA
Found at i:30297965 original size:28 final size:29
Alignment explanation
Indices: 30297571--30298098 Score: 191
Period size: 29 Copynumber: 17.9 Consensus size: 29
30297561 TTTTAGATGC
* * *
30297571 TCGGGGATAAAATGGTAATTTTGGACACT
1 TCGGGGGTAAAATGGTAATTTTGGAAAGT
*
30297600 T-GGGGGCAAAATGGTAATTTT-GAAAGGT
1 TCGGGGGTAAAATGGTAATTTTGGAAA-GT
* * * *
30297628 TCGAGGTCGAAAAATGG-AATTTTTAGACA-T
1 TCG-GG-GGTAAAATGGTAA-TTTTGGAAAGT
*
30297658 TCGGGGGTAAAATGGTAATTTTTGGAAGGT
1 TCGGGGGTAAAATGGTAA-TTTTGGAAAGT
* * *
30297688 TCGGGGTTAAAAAAATGG-AATTTTTAGACA-T
1 TCGGGGGT---AAAATGGTAA-TTTTGGAAAGT
* * * *
30297719 TTGAGGGTAAAATAGTAATTTTTGAAAGT
1 TCGGGGGTAAAATGGTAATTTTGGAAAGT
**** * * *
30297748 TTTAAGGTCAGAATGG-AATTTTAGACA-T
1 TCGGGGGT-AAAATGGTAATTTTGGAAAGT
* **
30297776 TCGAGGGTAAAAAT-GTAATTTTTGGAAAAA
1 TCGGGGGT-AAAATGGTAA-TTTTGGAAAGT
30297806 TC-GGGGTCAAAAATGG-AATTTTGGAAAGT
1 TCGGGGGT--AAAATGGTAATTTTGGAAAGT
* **
30297835 TTGAGGGGTAAAAAT-GTAATTTTTGGAAAAA
1 TCG-GGGGT-AAAATGGTAA-TTTTGGAAAGT
* *
30297866 TC-GAGGTCAAAAATGG-AACTTTGGAAAGT
1 TCGGGGGT--AAAATGGTAATTTTGGAAAGT
* * * *
30297895 TTGGGAGTAAAAAT-GCAATTTTTGGGAAAAT
1 TCGGGGGT-AAAATGGTAA-TTTT-GGAAAGT
* *** *
30297926 TAGGGTCAAAAATGG-AATTTTGGAATGT
1 TCGGGGGTAAAATGGTAATTTTGGAAAGT
*
30297954 TCGGGGGTAAAATGGTAATTTTTGGAGAAAT
1 TCGGGGGTAAAATGGTAA-TTTTGGA-AAGT
* *
30297985 T-AGGGTTAAAAATGG-AATTTTGGAAAGT
1 TCGGGGGT-AAAATGGTAATTTTGGAAAGT
*
30298013 TCGGGGGT-AAATGGTAATTTTGGGAGAAAT
1 TCGGGGGTAAAATGGTAATTTT-GGA-AAGT
* * * *
30298043 T-GAGGTTAAAAAT-GAAATTTTAGAAAGT
1 TCGGGGGT-AAAATGGTAATTTTGGAAAGT
*
30298071 TCAGGGGTAAAAAT-GTAATTTTTGGAAA
1 TCGGGGGT-AAAATGGTAA-TTTTGGAAA
30298099 AATTCAGGGT
Statistics
Matches: 377, Mismatches: 80, Indels: 83
0.70 0.15 0.15
Matches are distributed among these distances:
27 10 0.03
28 84 0.22
29 112 0.30
30 92 0.24
31 60 0.16
32 12 0.03
33 7 0.02
ACGTcount: A:0.37, C:0.04, G:0.28, T:0.31
Consensus pattern (29 bp):
TCGGGGGTAAAATGGTAATTTTGGAAAGT
Found at i:30300660 original size:205 final size:206
Alignment explanation
Indices: 30300307--30300974 Score: 934
Period size: 201 Copynumber: 3.3 Consensus size: 206
30300297 TCTGGTTTCA
* * * ** *
30300307 TTGATTTGGCCTTCTTCTCAGTATCTCATCAGGAAGATGACCACATCACTTATTTTGATCCACTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
* * *** * * *
30300372 CTCTGTGTTTCATTGGGAAGACTAATTTGGTCCACTTCTCAGTATCTAATCAGGAAGTTAACCAT
66 CTCTGTATCTCATCAAGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
*
30300437 TTTATTACTTCAACCTGCTTCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTTGCTCACAT
131 TTTATTACTTCAACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACAT
30300502 CGAGCGTGGGT
196 CGAGCGTGGGT
*
30300513 TTGATTTGGTCTTCTTCTCAGT-TCTCATCAGGAAGATGACCGCATCGCTTGTTTCAATCCGCTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
*
30300577 CTCTGTATCTCATCAAGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGAAAGCTAACCAT
66 CTCTGTATCTCATCAAGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
* **
30300642 TTTATTGCTTTGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACAT
131 TTTATTACTTCAACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACAT
*
30300707 TGAGC-----T
196 CGAGCGTGGGT
* ** * * ** * * * *
30300713 TCGAGCTGGTATACTTCTTTGTATCTCTTCAGGAAGATTACCGCCTCACTTGTTTCAATTCGCTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
*
30300778 CTCTGTACCTCATCAAGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
66 CTCTGTATCTCATCAAGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
* * *
30300843 TTTATTACTTCAACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGATCAAAAATTTGCTCACAT
131 TTTATTACTTCAACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACAT
30300908 CGAGCGTGGGT
196 CGAGCGTGGGT
* * **
30300919 TTGATTTGGTCTTCTTCTCAGTATCTCATCTGGAAGATGACTGCATCGTTTGTTTC
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTC
30300975 GAATAACTAC
Statistics
Matches: 400, Mismatches: 56, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
200 16 0.04
201 163 0.41
205 157 0.39
206 64 0.16
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (206 bp):
TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
CTCTGTATCTCATCAAGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
TTTATTACTTCAACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACAT
CGAGCGTGGGT
Found at i:30301132 original size:78 final size:78
Alignment explanation
Indices: 30300984--30301169 Score: 264
Period size: 78 Copynumber: 2.4 Consensus size: 78
30300974 CGAATAACTA
* ** * * *
30300984 CAATCTGCCCCTAGGCTTGGGGTAGGAGATTGGTTGATGATGATCTGCCCCAAGCTTAGGGTAAA
1 CAATCTACCCCT-GGCTCAGGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGCTCAAGGTAAA
30301049 AGATCAAATGGCTG
65 AGATCAAATGGCTG
* ** *
30301063 CAATTTGTCCCTGGCTCAGGGTAAGAGATTGGTTGATGATGATCTGGCCCAAGCTCAAGGTAAAA
1 CAATCTACCCCTGGCTCAGGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGCTCAAGGTAAAA
*
30301128 GATCAAATGGCTT
66 GATCAAATGGCTG
30301141 CAATCTACCCCTGGCTCAGGGTAAGAGAT
1 CAATCTACCCCTGGCTCAGGGTAAGAGAT
30301170 CAGAATCTTC
Statistics
Matches: 95, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
78 85 0.89
79 10 0.11
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (78 bp):
CAATCTACCCCTGGCTCAGGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGCTCAAGGTAAAA
GATCAAATGGCTG
Found at i:30301506 original size:49 final size:49
Alignment explanation
Indices: 30301432--30301701 Score: 337
Period size: 49 Copynumber: 5.5 Consensus size: 49
30301422 CGACTTAAAC
* *
30301432 CTTTCCCTTCAAT-TCTTTGTGGTACTGGATCCACCGTCGCGGCTTAGAT
1 CTTTCCCTTC-ATGTCTTCGTGGTACTGGATCCACCGTTGCGGCTTAGAT
* * * *
30301481 CTTTCCCTTCATGTCTTCGTAGTACTGGATCCACTGTCGCGACTTAGAT
1 CTTTCCCTTCATGTCTTCGTGGTACTGGATCCACCGTTGCGGCTTAGAT
* *
30301530 CTTTCCCTTCATGTCTTCGTGGTACTAGATCCGCCGTTGCGG-TCTAGAT
1 CTTTCCCTTCATGTCTTCGTGGTACTGGATCCACCGTTGCGGCT-TAGAT
*
30301579 CTTTCCCTTCATGTCTTCGTGGTATTGGATCCACCGTTGCGGTCTTAGAT
1 CTTTCCCTTCATGTCTTCGTGGTACTGGATCCACCGTTGCGG-CTTAGAT
* * * * * * *
30301629 CTTTCTCGTCGTGTTTTCGTGGTACTGGATCCGCCATTGCGACTTAGAT
1 CTTTCCCTTCATGTCTTCGTGGTACTGGATCCACCGTTGCGGCTTAGAT
* *
30301678 CTTTCCTTTCATGTCTTCGAGGTA
1 CTTTCCCTTCATGTCTTCGTGGTA
30301702 TAAGGTTTGC
Statistics
Matches: 190, Mismatches: 27, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
48 3 0.02
49 147 0.77
50 39 0.21
51 1 0.01
ACGTcount: A:0.13, C:0.27, G:0.21, T:0.39
Consensus pattern (49 bp):
CTTTCCCTTCATGTCTTCGTGGTACTGGATCCACCGTTGCGGCTTAGAT
Found at i:30301715 original size:99 final size:97
Alignment explanation
Indices: 30301419--30301808 Score: 308
Period size: 99 Copynumber: 4.0 Consensus size: 97
30301409 GGGTTTGTCA
* * * * *
30301419 TTGCGACTTAAACCTTTCCCTTCAAT-TCTTT-GTGGTACTGGATCCACCGTCGCGGCTTAGATC
1 TTGCGACTTAGATCTTTCCCTTC-GTGT-TTTCGTGGTACTGGATCCGCCGTTGC-GCTTAGATC
* ** *
30301482 TTTCCCTTCATGTCTTCGTA-GTACT--GGATCCACTG
63 TTTCCTTTCATGTCTTCG-AGGTA-TAAGG-TTTACCG
* * * * *
30301517 TCGCGACTTAGATCTTTCCCTTCATGTCTTCGTGGTACTAGATCCGCCGTTGCGGTCTAGATCTT
1 TTGCGACTTAGATCTTTCCCTTCGTGTTTTCGTGGTACTGGATCCGCCGTTGCGCT-TAGATCTT
* * * **
30301582 TCCCTTCATGTCTTCGTGGTAT-TGGATCCACCG
65 TCCTTTCATGTCTTCGAGGTATAAGG-TTTACCG
* * * *
30301615 TTGCGGTCTTAGATCTTTCTCGTCGTGTTTTCGTGGTACTGGATCCGCCATTGCGACTTAGATCT
1 TTGC-GACTTAGATCTTTCCCTTCGTGTTTTCGTGGTACTGGATCCGCCGTTGCG-CTTAGATCT
*
30301680 TTCCTTTCATGTCTTCGAGGTATAAGGTTTGCCG
64 TTCCTTTCATGTCTTCGAGGTATAAGGTTTACCG
* * * * * * * * * *
30301714 TTGCGACTGAAACCTTTCCCTTTGTATCTTT-GCGGTAATGAATCTGCCGTTGTGGTCTTAGATC
1 TTGCGACTTAGATCTTTCCCTTCGTGT-TTTCGTGGTACTGGATCCGCCGTTG-CG-CTTAGATC
30301778 TTTCCTTTCATGTCTTCGAGGTATAAGGTTT
63 TTTCCTTTCATGTCTTCGAGGTATAAGGTTT
30301809 TGTATGGTAC
Statistics
Matches: 242, Mismatches: 40, Indels: 19
0.80 0.13 0.06
Matches are distributed among these distances:
97 7 0.03
98 110 0.45
99 122 0.50
100 3 0.01
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (97 bp):
TTGCGACTTAGATCTTTCCCTTCGTGTTTTCGTGGTACTGGATCCGCCGTTGCGCTTAGATCTTT
CCTTTCATGTCTTCGAGGTATAAGGTTTACCG
Found at i:30301718 original size:49 final size:48
Alignment explanation
Indices: 30301419--30301802 Score: 217
Period size: 49 Copynumber: 7.8 Consensus size: 48
30301409 GGGTTTGTCA
* * * * *
30301419 TTGCGACTTAAACCTTTCCCTTCAAT-TCTTTGTGGTACT-GGATCCACCG
1 TTGCGACTTAGATCTTTCCTTTC-ATGTCTTCGTGGTA-TAGG-TCCGCCG
* * * * * *
30301468 TCGCGGCTTAGATCTTTCCCTTCATGTCTTCGTAGTACT-GGATCCACTG
1 TTGCGACTTAGATCTTTCCTTTCATGTCTTCGTGGTA-TAGG-TCCGCCG
* * *
30301517 TCGCGACTTAGATCTTTCCCTTCATGTCTTCGTGGTACTAGATCCGCCG
1 TTGCGACTTAGATCTTTCCTTTCATGTCTTCGTGGTA-TAGGTCCGCCG
* * * *
30301566 TTGCG-GTCTAGATCTTTCCCTTCATGTCTTCGTGGTATTGGATCCACCG
1 TTGCGACT-TAGATCTTTCCTTTCATGTCTTCGTGGTATAGG-TCCGCCG
* * * * *
30301615 TTGCGGTCTTAGATCTTT-CTCGTCGTGTTTTCGTGGTACT-GGATCCGCCA
1 TTGC-GACTTAGATCTTTCCT-TTCATGTCTTCGTGGTA-TAGG-TCCGCCG
* **
30301665 TTGCGACTTAGATCTTTCCTTTCATGTCTTCGAGGTATAAGGTTTGCCG
1 TTGCGACTTAGATCTTTCCTTTCATGTCTTCGTGGTAT-AGGTCCGCCG
* * * * * * * * *
30301714 TTGCGACTGAAACCTTTCCCTTT-GTATCTTTGCGGTA-ATGAATCTGCCG
1 TTGCGACTTAGATCTTT-CCTTTCATGTCTTCGTGGTATA-G-GTCCGCCG
* * *
30301763 TTGTGGTCTTAGATCTTTCCTTTCATGTCTTCGAGGTATA
1 TTG-CGACTTAGATCTTTCCTTTCATGTCTTCGTGGTATA
30301803 AGGTTTTGTA
Statistics
Matches: 268, Mismatches: 50, Indels: 32
0.77 0.14 0.09
Matches are distributed among these distances:
47 1 0.00
48 7 0.03
49 192 0.72
50 65 0.24
51 3 0.01
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (48 bp):
TTGCGACTTAGATCTTTCCTTTCATGTCTTCGTGGTATAGGTCCGCCG
Found at i:30301731 original size:148 final size:146
Alignment explanation
Indices: 30301410--30301795 Score: 407
Period size: 148 Copynumber: 2.6 Consensus size: 146
30301400 TAAGGTATCG
* * * *
30301410 GGTTTGTCATTGCGACTTAAACCTTTCCCTTCAATTCTTTGTGGTACTGGATCCACCGTCGCGG-
1 GGTTTGCCGTTGCGAC-TAAACCTTTCCCTTC-ATTCTTTGTGGTAATGGATCCACCGTTGCGGT
* **
30301474 CTTAGATCTTTCCCTTCATGTCTTCGTAGTACTGGATCCACTGTCGCGACTTAGATCTTTCCCTT
64 CTTAGATCTTTCCCGTCATGTCTTCGTAGTACTGGATCCACCATCGCGACTTAGATCTTTCCCTT
*
30301539 CATGTCTTCGTGGTACTA
129 CATGTCTTCGAGGTACTA
* ** * * * * *
30301557 GATCCGCCGTTGCGGTCTAGATCTTTCCCTTCATGTCTTCGTGGTATTGGATCCACCGTTGCGGT
1 GGTTTGCCGTTGC-GACTAAACCTTTCCCTTCAT-TCTTTGTGGTAATGGATCCACCGTTGCGGT
* * * * * * *
30301622 CTTAGATCTTTCTCGTCGTGTTTTCGTGGTACTGGATCCGCCATTGCGACTTAGATCTTTCCTTT
64 CTTAGATCTTTCCCGTCATGTCTTCGTAGTACTGGATCCACCATCGCGACTTAGATCTTTCCCTT
30301687 CATGTCTTCGAGGTA-TAA
129 CATGTCTTCGAGGTACT-A
** * * ** *
30301705 GGTTTGCCGTTGCGACTGAAACCTTTCCCTTTGTATCTTTGCGGTAATGAATCTGCCGTTGTGGT
1 GGTTTGCCGTTGCGACT-AAACCTTTCCCTTCAT-TCTTTGTGGTAATGGATCCACCGTTGCGGT
**
30301770 CTTAGATCTTTCCTTTCATGTCTTCG
64 CTTAGATCTTTCCCGTCATGTCTTCG
30301796 AGGTATAAGG
Statistics
Matches: 191, Mismatches: 43, Indels: 9
0.79 0.18 0.04
Matches are distributed among these distances:
146 2 0.01
147 51 0.27
148 138 0.72
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.39
Consensus pattern (146 bp):
GGTTTGCCGTTGCGACTAAACCTTTCCCTTCATTCTTTGTGGTAATGGATCCACCGTTGCGGTCT
TAGATCTTTCCCGTCATGTCTTCGTAGTACTGGATCCACCATCGCGACTTAGATCTTTCCCTTCA
TGTCTTCGAGGTACTA
Found at i:30303034 original size:1 final size:1
Alignment explanation
Indices: 30303019--30303124 Score: 68
Period size: 1 Copynumber: 106.0 Consensus size: 1
30303009 CGACCTCTCC
* * * * * ** * * *
30303019 TTTTCTTTTTCTTTTTCTTTTTTTTTGTTTTTTTTTGTTTTTTTGCTTTTTTGTTTTTTATGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * *
30303084 TTTTTGTTTTTTCTTTTTCTTTTTCTTTTTTATTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
30303125 ATTTATTGAA
Statistics
Matches: 74, Mismatches: 31, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 74 1.00
ACGTcount: A:0.02, C:0.08, G:0.06, T:0.85
Consensus pattern (1 bp):
T
Found at i:30303049 original size:9 final size:9
Alignment explanation
Indices: 30303037--30303114 Score: 81
Period size: 9 Copynumber: 8.7 Consensus size: 9
30303027 TTCTTTTTCT
30303037 TTTTTTTTG
1 TTTTTTTTG
30303046 TTTTTTTT-
1 TTTTTTTTG
30303054 TGTTTTTTTG
1 T-TTTTTTTG
*
30303064 -CTTTTTTG
1 TTTTTTTTG
*
30303072 TTTTTTATG
1 TTTTTTTTG
30303081 TTTTTTTTG
1 TTTTTTTTG
30303090 TTTTTTCTT-
1 TTTTTT-TTG
*
30303099 TTTCTTTTTC
1 TTT-TTTTTG
30303109 TTTTTT
1 TTTTTT
30303115 ATTTTCTTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
8 8 0.14
9 43 0.73
10 8 0.14
ACGTcount: A:0.01, C:0.05, G:0.08, T:0.86
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:30303119 original size:18 final size:17
Alignment explanation
Indices: 30303018--30303124 Score: 89
Period size: 17 Copynumber: 6.3 Consensus size: 17
30303008 TCGACCTCTC
*
30303018 CTTTTCTTTTTCTTTTT
1 CTTTTTTTTTTCTTTTT
30303035 CTTTTTTTTTGT-TTTTT
1 CTTTTTTTTT-TCTTTTT
30303052 -TTTGTTTTTTTGCTTTTT
1 CTTT-TTTTTTT-CTTTTT
* * *
30303070 -TGTTTTTTATGTTTTT
1 CTTTTTTTTTTCTTTTT
*
30303086 -TTTGTTTTTTCTTTTT
1 CTTTTTTTTTTCTTTTT
30303102 CTTTTTCTTTTT-TATTTT
1 CTTTTT-TTTTTCT-TTTT
30303120 CTTTT
1 CTTTT
30303125 ATTTATTGAA
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
16 21 0.28
17 31 0.42
18 22 0.30
ACGTcount: A:0.02, C:0.08, G:0.06, T:0.84
Consensus pattern (17 bp):
CTTTTTTTTTTCTTTTT
Found at i:30303876 original size:12 final size:12
Alignment explanation
Indices: 30303861--30303901 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
30303851 TTTTCTCTTC
30303861 TTTTTT-TTGAT
1 TTTTTTATTGAT
30303872 TTTTTTATTGA-
1 TTTTTTATTGAT
*
30303883 TTTTTT-TCGAT
1 TTTTTTATTGAT
30303894 TTTTTTAT
1 TTTTTTAT
30303902 AACATGTCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
10 3 0.12
11 18 0.69
12 5 0.19
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.78
Consensus pattern (12 bp):
TTTTTTATTGAT
Found at i:30308308 original size:98 final size:98
Alignment explanation
Indices: 30308128--30308304 Score: 225
Period size: 97 Copynumber: 1.8 Consensus size: 98
30308118 TACTTTTGAA
* * **
30308128 AAGGATGTTCGATTATCTCGATTTAAAGAAAAAGTCACACCTAGTAAGTTTAGGTACAAATTTTC
1 AAGGATATTCGATTATCTCGATTTAAAGAAAAAGTCACACCTAGTAAGTTAAGACACAAATTTTC
* *
30308193 AGAATCAGAGATAAAGAAACATTGTCTTGATTT
66 AAAATCAGAAATAAAGAAACATTGTCTTGATTT
* ***
30308226 AAGGATATTCGATTAT-TCCGATTTGAAGAAAAA-TCGTGCCTAGTAAGTTAAGACACAAATTTT
1 AAGGATATTCGATTATCT-CGATTTAAAGAAAAAGTCACACCTAGTAAGTTAAGACACAAATTTT
30308289 CAAAACTC-GAAATAAA
65 CAAAA-TCAGAAATAAA
30308305 AGAATATTGC
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
97 36 0.54
98 31 0.46
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (98 bp):
AAGGATATTCGATTATCTCGATTTAAAGAAAAAGTCACACCTAGTAAGTTAAGACACAAATTTTC
AAAATCAGAAATAAAGAAACATTGTCTTGATTT
Found at i:30308324 original size:98 final size:98
Alignment explanation
Indices: 30308128--30308325 Score: 215
Period size: 97 Copynumber: 2.0 Consensus size: 98
30308118 TACTTTTGAA
* * **
30308128 AAGGATGTTCGATTATCTCGATTTAAAGAAAAAGTCACACCTAGTAAGTTTAGGTACAAATTTTC
1 AAGGATATTCGATTATCTCGATTTAAAGAAAAAGTCACACCTAGTAAGTTAAGACACAAATTTTC
* * * *
30308193 AGAATCAGAGATAAAGAAACATTGTCTTGATTT
66 AAAATCAGAAATAAAGAAACATTGCCTCGATTT
* ***
30308226 AAGGATATTCGATTAT-TCCGATTTGAAGAAAAA-TCGTGCCTAGTAAGTTAAGACACAAATTTT
1 AAGGATATTCGATTATCT-CGATTTAAAGAAAAAGTCACACCTAGTAAGTTAAGACACAAATTTT
*
30308289 CAAAACTC-GAAATAAA-AGAATATTGCCTCGAATTT
65 CAAAA-TCAGAAATAAAGA-AACATTGCCTCG-ATTT
30308324 AA
1 AA
30308326 AGTTTTTTAT
Statistics
Matches: 83, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
96 1 0.01
97 45 0.54
98 37 0.45
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (98 bp):
AAGGATATTCGATTATCTCGATTTAAAGAAAAAGTCACACCTAGTAAGTTAAGACACAAATTTTC
AAAATCAGAAATAAAGAAACATTGCCTCGATTT
Found at i:30308651 original size:59 final size:57
Alignment explanation
Indices: 30308556--30308714 Score: 158
Period size: 59 Copynumber: 2.7 Consensus size: 57
30308546 GCTCGAGGAT
* * * * * *
30308556 AAAATGGTAATTTTGGACACTCGAGGGCAAATTGGTAATTTTAAAAGGTTTGGGGTCAA
1 AAAATGG-AATTTTAGACATTCAAGGGTAAAATGGTAATTTTAAAAGGTTCGGGGT-AA
** *
30308615 AAAATGGAATTTTTAGACA-TCTAAGGGTAAAATGGTAATTTTTGGAAGGTTCGGGGTTA
1 AAAATGGAA-TTTTAGACATTC-AAGGGTAAAATGGTAA-TTTTAAAAGGTTCGGGGTAA
* **
30308674 AAAATGGAATTTTAGACATTCGAGGGTAAAAAAGTAATTTT
1 AAAATGGAATTTTAGACATTCAAGGGTAAAATGGTAATTTT
30308715 TAGAAAAATC
Statistics
Matches: 85, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
57 4 0.05
58 26 0.31
59 40 0.47
60 15 0.18
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.32
Consensus pattern (57 bp):
AAAATGGAATTTTAGACATTCAAGGGTAAAATGGTAATTTTAAAAGGTTCGGGGTAA
Found at i:30308711 original size:58 final size:58
Alignment explanation
Indices: 30308556--30308775 Score: 183
Period size: 58 Copynumber: 3.7 Consensus size: 58
30308546 GCTCGAGGAT
* * * ** * *
30308556 AAAATGGTAATTTTGGACACTCGAGGGCAAATTGGTAA-TTTTAAAAGGTTTGGGGTCAA
1 AAAATGG-AATTTTAGACATTCGAGGGTAAAAAGGTAATTTTTAGAAGGTTCGGGGT-AA
* * * *
30308615 AAAATGGAATTTTTAGACA-TCTAAGGGTAAAATGGTAATTTTTGGAAGGTTCGGGGTTA
1 AAAATGGAA-TTTTAGACATTC-GAGGGTAAAAAGGTAATTTTTAGAAGGTTCGGGGTAA
* *** * **
30308674 AAAATGGAATTTTAGACATTCGAGGGTAAAAAAGTAATTTTTAGAAAAATCGAGGTCG
1 AAAATGGAATTTTAGACATTCGAGGGTAAAAAGGTAATTTTTAGAAGGTTCGGGGTAA
* * *
30308732 AAAATGGAATTTTGGAAAGTTCGAGAGGTAAAAATGTAATTTTT
1 AAAATGGAATTTTAGACA-TTCGAG-GGTAAAAAGGTAATTTTT
30308776 GGAAAAATCA
Statistics
Matches: 134, Mismatches: 21, Indels: 11
0.81 0.13 0.07
Matches are distributed among these distances:
58 56 0.42
59 46 0.34
60 32 0.24
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (58 bp):
AAAATGGAATTTTAGACATTCGAGGGTAAAAAGGTAATTTTTAGAAGGTTCGGGGTAA
Found at i:30308965 original size:29 final size:28
Alignment explanation
Indices: 30308639--30308978 Score: 188
Period size: 29 Copynumber: 11.6 Consensus size: 28
30308629 AGACATCTAA
**
30308639 GGGT-AAAATGGTAATTTTTGGAAGGTTCG
1 GGGTAAAAAT-GTAA-TTTTGGAAAATTCG
* * *
30308668 GGGTTAAAAATGGAATTTTAG-ACATTCG
1 GGG-TAAAAATGTAATTTTGGAAAATTCG
* * *
30308696 AGGGTAAAAAAGTAATTTTTAGAAAAATCG
1 -GGGTAAAAATGTAA-TTTTGGAAAATTCG
* * * *
30308726 AGGTCGAAAATGGAATTTTGGAAAGTTCG
1 GGGT-AAAAATGTAATTTTGGAAAATTCG
* *
30308755 AGAGGTAAAAATGTAATTTTTGGAAAAATCA
1 -G-GGTAAAAATGTAA-TTTTGGAAAATTCG
* * * *
30308786 AGGTAAAAAATGGAACTTTGGAAAATTTG
1 GGGT-AAAAATGTAATTTTGGAAAATTCG
*
30308815 GGAGTAAAAATGTAATTTTTGGGAAAATT-A
1 GG-GTAAAAATGTAA-TTTT-GGAAAATTCG
* *
30308845 GGGTCAAAAATGGAATTTTGGAAAGTTCG
1 GGGT-AAAAATGTAATTTTGGAAAATTCG
30308874 GGAGT-AAAATGGTAATTTTGGGAGAAA-TCG
1 GG-GTAAAAAT-GTAATTTT-GGA-AAATTCG
* * * * *
30308904 AGGTCAAAAATGAAATTTTAGAAAGTTCA
1 GGGT-AAAAATGTAATTTTGGAAAATTCG
*
30308933 GGGT-AAAATGTAACTTTTGAGAAAATTTG
1 GGGTAAAAATGTAA-TTTTG-GAAAATTCG
* *
30308962 GGGTCAAAATATAATTT
1 GGGTAAAAATGTAATTT
30308979 CTTGACAGTT
Statistics
Matches: 238, Mismatches: 48, Indels: 50
0.71 0.14 0.15
Matches are distributed among these distances:
27 8 0.03
28 32 0.13
29 91 0.38
30 73 0.31
31 34 0.14
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.30
Consensus pattern (28 bp):
GGGTAAAAATGTAATTTTGGAAAATTCG
Found at i:30308967 original size:58 final size:58
Alignment explanation
Indices: 30308607--30308970 Score: 301
Period size: 59 Copynumber: 6.2 Consensus size: 58
30308597 TAAAAGGTTT
* * **
30308607 GGGGTCAAAAAATGGAATTTTTAGACA-TCTAAGGGT-AAAATGGTAATTTTTGGAAGGTTC
1 GGGGTC-AAAAATGGAA-TTTTAGAAAGT-TCAGGGTAAAAAT-GTAATTTTTGGAAAATTC
* * * * *
30308667 GGGGTTAAAAATGGAATTTTAGACA-TTCGAGGGTAAAAAAGTAATTTTTAGAAAAATC
1 GGGGTCAAAAATGGAATTTTAGAAAGTTC-AGGGTAAAAATGTAATTTTTGGAAAATTC
* * * *
30308725 GAGGTCGAAAATGGAATTTTGGAAAGTTCGAGAGGTAAAAATGTAATTTTTGGAAAAATC
1 GGGGTCAAAAATGGAATTTTAGAAAGTTC-AG-GGTAAAAATGTAATTTTTGGAAAATTC
** * * * * **
30308785 AAGGTAAAAAATGGAACTTTGGAAAATTTGGGAGTAAAAATGTAATTTTTGGGAAAATT-
1 GGGGTCAAAAATGGAATTTTAGAAAGTTCAGG-GTAAAAATGTAATTTTT-GGAAAATTC
* * * *
30308844 AGGGTCAAAAATGGAATTTTGGAAAGTTCGGGAGT-AAAATGGTAATTTTGGGAGAAA-TC
1 GGGGTCAAAAATGGAATTTTAGAAAGTTCAGG-GTAAAAAT-GTAATTTTTGGA-AAATTC
* * * *
30308903 GAGGTCAAAAATGAAATTTTAGAAAGTTCAGGGT-AAAATGTAACTTTTGAGAAAATTT
1 GGGGTCAAAAATGGAATTTTAGAAAGTTCAGGGTAAAAATGTAATTTTTG-GAAAATTC
30308961 GGGGTCAAAA
1 GGGGTCAAAA
30308971 TATAATTTCT
Statistics
Matches: 256, Mismatches: 37, Indels: 24
0.81 0.12 0.08
Matches are distributed among these distances:
57 12 0.05
58 78 0.30
59 106 0.41
60 60 0.23
ACGTcount: A:0.40, C:0.05, G:0.26, T:0.29
Consensus pattern (58 bp):
GGGGTCAAAAATGGAATTTTAGAAAGTTCAGGGTAAAAATGTAATTTTTGGAAAATTC
Found at i:30310714 original size:12 final size:11
Alignment explanation
Indices: 30310697--30310752 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
30310687 ATAATAATTT
30310697 TAAATTTGAAAA
1 TAAATTT-AAAA
*
30310709 TAAATTTAAAC
1 TAAATTTAAAA
*
30310720 TCAAA-TTAAATT
1 T-AAATTTAAA-A
30310732 TAAATTTAAAA
1 TAAATTTAAAA
30310743 TAAATTTAAA
1 TAAATTTAAA
30310753 TTTTAAAACA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
11 22 0.58
12 16 0.42
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:30310716 original size:18 final size:17
Alignment explanation
Indices: 30310677--30310787 Score: 116
Period size: 17 Copynumber: 6.4 Consensus size: 17
30310667 ACATTTATTC
*
30310677 ATTTAAATTTATAATAA
1 ATTTAAATTTAAAATAA
*
30310694 TTTTAAATTTGAAAATAA
1 ATTTAAATTT-AAAATAA
* * *
30310712 ATTTAAACTCAAATTAA
1 ATTTAAATTTAAAATAA
30310729 ATTTAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
*
30310746 ATTTAAATTTTAAAACAA
1 ATTTAAA-TTTAAAATAA
**
30310764 ATTT-AATCTTAACGTAA
1 ATTTAAAT-TTAAAATAA
30310781 ATTTAAA
1 ATTTAAA
30310788 ATGGGTTTGA
Statistics
Matches: 77, Mismatches: 13, Indels: 7
0.79 0.13 0.07
Matches are distributed among these distances:
16 1 0.01
17 48 0.62
18 28 0.36
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:30310734 original size:6 final size:6
Alignment explanation
Indices: 30310677--30310755 Score: 60
Period size: 6 Copynumber: 13.7 Consensus size: 6
30310667 ACATTTATTC
* * * *
30310677 ATTTAA ATTTATA A--TAA TTTTAA ATTTGAA A-ATAA ATTTAA ACTCAA
1 ATTTAA ATTTA-A ATTTAA ATTTAA ATTT-AA ATTTAA ATTTAA ATTTAA
*
30310724 A-TTAA ATTTAA ATTTAA A-ATAA ATTTAA ATTT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTT
30310756 TAAAACAAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
4 1 0.02
5 13 0.23
6 38 0.67
7 5 0.09
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (6 bp):
ATTTAA
Done.