Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 168 of 213
Found at i:50389843 original size:26 final size:26
Alignment explanation
Indices: 50389807--50389856 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
50389797 CTAAGCGCCG
50389807 TCATTACTAGCGTCAACACTGGTGGC
1 TCATTACTAGCGTCAACACTGGTGGC
*
50389833 TCATTACTAGCGTCGACACTGGTG
1 TCATTACTAGCGTCAACACTGGTG
50389857 ACTTCATCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (26 bp):
TCATTACTAGCGTCAACACTGGTGGC
Found at i:50390450 original size:19 final size:19
Alignment explanation
Indices: 50390430--50390464 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
50390420 CAAACAAATT
50390430 TTTTTG-TTC-ATTTTCAA
1 TTTTTGTTTCAATTTTCAA
50390447 TTTTTGTTTCAATTTTCA
1 TTTTTGTTTCAATTTTCA
50390465 TTCATCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.66
Consensus pattern (19 bp):
TTTTTGTTTCAATTTTCAA
Found at i:50394270 original size:22 final size:21
Alignment explanation
Indices: 50394235--50394318 Score: 68
Period size: 19 Copynumber: 4.1 Consensus size: 21
50394225 AAATGGTATC
* *
50394235 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
50394256 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
50394279 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
50394298 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
50394317 TA
1 TA
50394319 TATATTATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
19 27 0.49
21 3 0.05
22 15 0.27
23 10 0.18
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:50394278 original size:23 final size:22
Alignment explanation
Indices: 50394235--50394292 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
50394225 AAATGGTATC
* *
50394235 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
50394256 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
50394279 TGCATATCATATCT
1 TACAAATCATATCT
50394293 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:50394295 original size:19 final size:19
Alignment explanation
Indices: 50394248--50394343 Score: 102
Period size: 19 Copynumber: 4.8 Consensus size: 19
50394238 AAATTAAATC
*
50394248 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
*
50394268 TCTTCTAAGATTGCATATCATA
1 ---TCTAAGATTACATATCATA
*
50394290 TCTAAGATTATATATCATA
1 TCTAAGATTACATATCATA
* *
50394309 TCTAAGATTATATATTATA
1 TCTAAGATTACATATCATA
*
50394328 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
50394344 CCTGAAGATT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
19 48 0.74
22 7 0.11
23 10 0.15
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.40
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:50394984 original size:44 final size:44
Alignment explanation
Indices: 50394869--50394984 Score: 160
Period size: 44 Copynumber: 2.6 Consensus size: 44
50394859 TTTGTTTACT
* * *
50394869 TTCAACCTATTCCATTGCTGACCAAGGAGATAGGATTCTCAATC
1 TTCAACCTATTCCAATGCTGACCAGGGAGATAGGATTCACAATC
* *
50394913 TTCAACCTATTCCAATACTGACAAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCAATGCTGACCAGGGAGATAGGATTCACAATC
* * *
50394957 TTCAATCTATTCCACTGCTGCCCAGGGA
1 TTCAACCTATTCCAATGCTGACCAGGGA
50394985 AGTAGAATTA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 62 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (44 bp):
TTCAACCTATTCCAATGCTGACCAGGGAGATAGGATTCACAATC
Found at i:50395311 original size:132 final size:132
Alignment explanation
Indices: 50394936--50395303 Score: 549
Period size: 132 Copynumber: 2.8 Consensus size: 132
50394926 AATACTGACA
* * * * *
50394936 AGGGAGATAGGAT-TCACAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGA
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGC
* * * * *
50395000 TTTAATGTACTCCGCTGTAACCACAGGGAGGTAAAATGCACCATCTTCGATCTGTTCCACTACTG
65 TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTG
50395065 CTT
130 CTT
* * * * *
50395068 TGGGAGATAAGACCTGAAATCTTCAATATATTCCACTGTTGTCCAGGAAAATAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
* *
50395133 TCAATGTACTCCACTATAACCACAAGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
50395198 TT
131 TT
* *
50395200 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTTCAGGGACGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
50395265 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCG
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCG
50395304 TTATCTTCAA
Statistics
Matches: 209, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
132 207 0.99
133 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
TT
Found at i:50401478 original size:19 final size:18
Alignment explanation
Indices: 50401456--50401498 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
50401446 TACATAAGTT
50401456 TTAAAA-AATTAATATAATA
1 TTAAAATAATTAA-ATAA-A
50401475 TTAAAATTAATTAAATAAA
1 TTAAAA-TAATTAAATAAA
50401494 TTAAA
1 TTAAA
50401499 CATGTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 12 0.55
20 4 0.18
21 6 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAAAATAATTAAATAAA
Found at i:50402163 original size:22 final size:21
Alignment explanation
Indices: 50402128--50402192 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 21
50402118 AAAGTGTATC
* *
50402128 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
50402149 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
50402172 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
50402191 TA
1 TA
50402193 TATATCTAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
19 9 0.24
21 3 0.08
22 15 0.41
23 10 0.27
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.35
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:50402171 original size:23 final size:22
Alignment explanation
Indices: 50402128--50402185 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
50402118 AAAGTGTATC
* *
50402128 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
50402149 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
50402172 TGCATATCATATCT
1 TACAAATCATATCT
50402186 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:50402188 original size:19 final size:19
Alignment explanation
Indices: 50402164--50402284 Score: 153
Period size: 19 Copynumber: 6.6 Consensus size: 19
50402154 AATCATATCT
50402164 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
50402183 TCTAAGA-T---TAT-ATA
1 TCTAAGATTGCATATCATA
**
50402197 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
50402216 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
50402235 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
*
50402254 TATAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
50402273 TCTAAGATTGCA
1 TCTAAGATTGCA
50402285 AATCCCTGAA
Statistics
Matches: 87, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
14 10 0.11
15 4 0.05
18 4 0.05
19 69 0.79
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:50402249 original size:14 final size:14
Alignment explanation
Indices: 50402180--50402212 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
50402170 ATTGCATATC
50402180 ATATCTAAGATTAT
1 ATATCTAAGATTAT
50402194 ATATCTAAGATTAT
1 ATATCTAAGATTAT
50402208 ATATC
1 ATATC
50402213 ATATCTAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (14 bp):
ATATCTAAGATTAT
Found at i:50402268 original size:52 final size:52
Alignment explanation
Indices: 50402164--50402284 Score: 154
Period size: 52 Copynumber: 2.2 Consensus size: 52
50402154 AATCATATCT
* *
50402164 TCTAAGATTGCATATCATATCTAAGATTATATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCTAAGATAAGATATCATA
*
50402216 TCTAAGATTGCATATCATATCTAAGATTATATAT-TATATATAAGATTGCATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCTA-AGAT-A-A--G-ATATCATA
50402273 TCTAAGATTGCA
1 TCTAAGATTGCA
50402285 AATCCCTGAA
Statistics
Matches: 60, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
51 2 0.03
52 37 0.62
54 1 0.02
57 20 0.33
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.40
Consensus pattern (52 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCTAAGATAAGATATCATA
Found at i:50403386 original size:21 final size:20
Alignment explanation
Indices: 50403362--50403404 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
50403352 TCAATTAAAA
*
50403362 ATAATAAGAATTTAATTTATT
1 ATAAAAAGAATTTAA-TTATT
* *
50403383 ATAAAAATATTTTAATTATT
1 ATAAAAAGAATTTAATTATT
50403403 AT
1 AT
50403405 TAAATTATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
ATAAAAAGAATTTAATTATT
Found at i:50409935 original size:24 final size:24
Alignment explanation
Indices: 50409890--50409935 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
50409880 TTGATCATAT
*
50409890 TTATGTAATTCACTTGTACATACA
1 TTATGTAATTCACTTATACATACA
*
50409914 TTATG-AATTCCACTTATGCATA
1 TTATGTAATT-CACTTATACATA
50409936 ATGATGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (24 bp):
TTATGTAATTCACTTATACATACA
Found at i:50420401 original size:68 final size:68
Alignment explanation
Indices: 50420255--50420391 Score: 204
Period size: 68 Copynumber: 2.0 Consensus size: 68
50420245 TTGGTCTGCC
* *
50420255 TACTGGACCTTGTAGCCCCCCACATGCGAGCTCCTTGGTATACGAGAACTGGGACCACGAACTTC
1 TACTGGACCTCGTAGCCCCCCACATGCAAGCTCCTTGGTATACGAGAACTGGGACCACGAACTTC
50420320 CCT
66 CCT
* * * *
50420323 TACTGGACCTCGTAGCCCCCCACATGCAAGTTCCTTGGTGTACGCA-AATTGGGACCGCGAACTT
1 TACTGGACCTCGTAGCCCCCCACATGCAAGCTCCTTGGTATACG-AGAACTGGGACCACGAACTT
50420387 CCCT
65 CCCT
50420391 T
1 T
50420392 GCGAGACCTC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
68 61 0.98
69 1 0.02
ACGTcount: A:0.21, C:0.34, G:0.22, T:0.23
Consensus pattern (68 bp):
TACTGGACCTCGTAGCCCCCCACATGCAAGCTCCTTGGTATACGAGAACTGGGACCACGAACTTC
CCT
Found at i:50420667 original size:21 final size:20
Alignment explanation
Indices: 50420627--50420675 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
50420617 TCTTAAATAC
*
50420627 ATATAAAAAAATTCAAACATT
1 ATATAAAAAAAATCAAACA-T
50420648 ATATAAAAAAAAT-AACACAT
1 ATATAAAAAAAATCAA-ACAT
*
50420668 ATCTAAAA
1 ATATAAAA
50420676 GAACATGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.24
Consensus pattern (20 bp):
ATATAAAAAAAATCAAACAT
Found at i:50421009 original size:7 final size:7
Alignment explanation
Indices: 50420997--50421022 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
50420987 TTCCAAACTT
50420997 AAAAAAC
1 AAAAAAC
50421004 AAAAAAC
1 AAAAAAC
50421011 AAAAAAC
1 AAAAAAC
50421018 AAAAA
1 AAAAA
50421023 TAAAATTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:50426214 original size:27 final size:25
Alignment explanation
Indices: 50426168--50426227 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 25
50426158 TGCTAGGTGA
* *
50426168 GACTCTTAGGAGAAATTTGTTAAGTAG
1 GACTCTTAGAAGAAAGTTGTT--GTAG
* *
50426195 GACTCTTAGAATAAAGTTGTTTTAG
1 GACTCTTAGAAGAAAGTTGTTGTAG
50426220 GACTCTTA
1 GACTCTTA
50426228 ATATGTTGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 11 0.38
27 18 0.62
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.37
Consensus pattern (25 bp):
GACTCTTAGAAGAAAGTTGTTGTAG
Found at i:50434197 original size:49 final size:51
Alignment explanation
Indices: 50434075--50434207 Score: 148
Period size: 49 Copynumber: 2.6 Consensus size: 51
50434065 CCCATGCATC
* * * *
50434075 TGGGAGTAGGG-CCTTTATTACCTTCCATAAGTTTGCCTCCTATTATGTGTT
1 TGGGAGTAGGGTCATTTATTACCTTCCATAAGTCT-CCTCCTACTATGAGTT
* * *
50434126 TGGGAGCAGGGTCACCTTATTACCTTTCATAAGTCT-C-CCT-CTATGAGTT
1 TGGGAGTAGGGTCA-TTTATTACCTTCCATAAGTCTCCTCCTACTATGAGTT
50434175 TGGGAGTAGGGTCATTTCATTACCTTCCATAAG
1 TGGGAGTAGGGTCATTT-ATTACCTTCCATAAG
50434208 CGTCCCCCCA
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
48 2 0.03
49 34 0.49
50 3 0.04
51 11 0.16
52 1 0.01
53 18 0.26
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (51 bp):
TGGGAGTAGGGTCATTTATTACCTTCCATAAGTCTCCTCCTACTATGAGTT
Found at i:50440891 original size:45 final size:44
Alignment explanation
Indices: 50440803--50440895 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 44
50440793 ATTACAACAT
*
50440803 CATTCCATTCAACAAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACAAAACACAAGAATACTATTACAGCTCTATTC
* *
50440847 CATTCCATTCAACCAAACA-ATTGAATTACTATTACAGCTCTATTC
1 CATTCCATTCAACAAAACACA-AGAA-TACTATTACAGCTCTATTC
50440892 CATT
1 CATT
50440896 ACACATCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.48
45 22 0.50
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (44 bp):
CATTCCATTCAACAAAACACAAGAATACTATTACAGCTCTATTC
Found at i:50440898 original size:16 final size:17
Alignment explanation
Indices: 50440877--50440916 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
50440867 TTGAATTACT
50440877 ATTACAGC-TCTATTCC
1 ATTACAGCATCTATTCC
50440893 ATTACA-CATCTATTCC
1 ATTACAGCATCTATTCC
50440909 ATTACAGC
1 ATTACAGC
50440917 GAACCAAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 20 0.91
17 1 0.05
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.35
Consensus pattern (17 bp):
ATTACAGCATCTATTCC
Found at i:50444473 original size:32 final size:32
Alignment explanation
Indices: 50444436--50444497 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
50444426 TCTTTTAACG
* *
50444436 ATTGAGGGTTAGAAAATAATGGAGATCATTTT
1 ATTGAGGGTTAGAAAATAATAGAAATCATTTT
* *
50444468 ATTGAGGGTTTGAGAATAATAGAAATCATT
1 ATTGAGGGTTAGAAAATAATAGAAATCATT
50444498 CGATGGAGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (32 bp):
ATTGAGGGTTAGAAAATAATAGAAATCATTTT
Found at i:50445094 original size:21 final size:22
Alignment explanation
Indices: 50445065--50445105 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
50445055 AGCAAGCAAT
*
50445065 ATTTTTTTTCCTTCT-TTTTCG
1 ATTTATTTTCCTTCTCTTTTCG
*
50445086 ATTTATTTTCTTTCTCTTTT
1 ATTTATTTTCCTTCTCTTTT
50445106 TCGGCCTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.07, C:0.17, G:0.02, T:0.73
Consensus pattern (22 bp):
ATTTATTTTCCTTCTCTTTTCG
Found at i:50445858 original size:3 final size:3
Alignment explanation
Indices: 50445838--50445903 Score: 55
Period size: 3 Copynumber: 21.3 Consensus size: 3
50445828 GGGTCCCTTG
** *
50445838 TTA TTAA TTA TT- TTA TTA TTA AAA TTA TTTA TTT TTA TTA -TA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
50445883 TTTA TTA TTA TTGA TTA TTA T
1 -TTA TTA TTA TT-A TTA TTA T
50445904 CATATTTTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
2 4 0.08
3 35 0.69
4 12 0.24
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:50445891 original size:10 final size:10
Alignment explanation
Indices: 50445861--50445903 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
50445851 TATTATTAAA
50445861 ATTATTTATT
1 ATTATTTATT
*
50445871 TTTA-TTA-T
1 ATTATTTATT
50445879 ATTATTTATT
1 ATTATTTATT
*
50445889 ATTATTGATT
1 ATTATTTATT
50445899 ATTAT
1 ATTAT
50445904 CATATTTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
8 4 0.14
9 6 0.21
10 18 0.64
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTATTTATT
Found at i:50445893 original size:15 final size:15
Alignment explanation
Indices: 50445838--50445893 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 15
50445828 GGGTCCCTTG
* *
50445838 TTATTAATTATTTTA
1 TTATTTATTATTATA
**
50445853 TTA-TTAAAATTAT-
1 TTATTTATTATTATA
50445866 TTATTT-TTATTATA
1 TTATTTATTATTATA
50445880 TTATTTATTATTAT
1 TTATTTATTATTAT
50445894 TGATTATTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
13 8 0.25
14 14 0.44
15 10 0.31
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATTTATTATTATA
Found at i:50445899 original size:22 final size:20
Alignment explanation
Indices: 50445839--50445900 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 20
50445829 GGTCCCTTGT
*
50445839 TATTAATTATTTTATTATTAA
1 TATTATTTATTTTATTATT-A
*
50445860 AATTATTTA-TTT-TTATTA
1 TATTATTTATTTTATTATTA
50445878 TATTATTTATTATTATTGATTA
1 TATTATTTATT-TTATT-ATTA
50445900 T
1 T
50445901 TATCATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
18 9 0.26
19 6 0.18
20 5 0.15
21 9 0.26
22 5 0.15
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TATTATTTATTTTATTATTA
Found at i:50450001 original size:20 final size:21
Alignment explanation
Indices: 50449965--50450006 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
50449955 GCAAATGTTC
50449965 TTTCATTCTTTACGATT-TTT
1 TTTCATTCTTTACGATTCTTT
50449985 TTTCATTCTTT-CAGATTCTTT
1 TTTCATTCTTTAC-GATTCTTT
50450006 T
1 T
50450007 CTGCCAAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 1 0.05
20 15 0.75
21 4 0.20
ACGTcount: A:0.14, C:0.17, G:0.05, T:0.64
Consensus pattern (21 bp):
TTTCATTCTTTACGATTCTTT
Found at i:50450977 original size:7 final size:7
Alignment explanation
Indices: 50450952--50450984 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
50450942 AGTGATGTGA
50450952 AAAAATG
1 AAAAATG
50450959 AAAAGATG
1 AAAA-ATG
50450967 -AAAATG
1 AAAAATG
50450973 AAAAATG
1 AAAAATG
50450980 AAAAA
1 AAAAA
50450985 GTAAAATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 3 0.12
7 18 0.75
8 3 0.12
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:50452408 original size:89 final size:89
Alignment explanation
Indices: 50452257--50453488 Score: 1716
Period size: 89 Copynumber: 13.7 Consensus size: 89
50452247 CAGGTTGAAA
* * * * * **
50452257 AGATAGCAGATTTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAGTAGATCTTGTCTTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTC
50452322 ATGTACTGGCGTGAAGTAGATCAG
66 ATGTACTGGCGTGAAGTAGATCAG
* *
50452346 AGATAATAGATCTTACCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTC
*
50452411 ATGTACTGGTGTGAAGTAGATCAG
66 ATGTACTGGCGTGAAGTAGATCAG
* * **
50452435 AGAT-ACCGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTC
*
50452499 ATGTACTGGAGTGAAGTAGATCAG
66 ATGTACTGGCGTGAAGTAGATCAG
*
50452523 AGATAACAGATCTTGCCTTCCCATACTAGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAA-G-AAAA-CAGATCTTGTC
50452588 TTCATGTACTGGCGTGAAGTAGATCAG
63 TTCATGTACTGGCGTGAAGTAGATCAG
* * * **
50452615 AGATACCAGATCTTACCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTC
*
50452680 ATGTACTGGAGTGAAGTAGATCAG
66 ATGTACTGGCGTGAAGTAGATCAG
* * *
50452704 AGATAACAGATCTTGCCTTCCCATACTAGTGGCGAAACAGATCGAAGGAAAAAGCAGATCTTTTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAA-G-AAAA-CAGATCTTGTC
50452769 TTCATGTACTGGCGTGAAGTAGATCAG
63 TTCATGTACTGGCGTGAAGTAGATCAG
* * *
50452796 AGATACCAGATCTTGCCTTCCCATACTAGTGGCGAAGCAGATC-AATGAAAGCAGATCTTGTCTT
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAA-GAAAACAGATCTTGTCTT
*
50452860 CATGTACTAGCGTGAAGTAGATCAG
65 CATGTACTGGCGTGAAGTAGATCAG
* *
50452885 AGATAACAGATCATGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTT
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAA-G-AAAA-CAGATCTTGTC
50452950 TTCATGTACTGGCGTGAAGTAGATCAG
63 TTCATGTACTGGCGTGAAGTAGATCAG
* * **
50452977 AGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTC
*
50453042 ATGTACTGGCATGAAGTAGATCAG
66 ATGTACTGGCGTGAAGTAGATCAG
*
50453066 AGATAACAAATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAA-G-AAAA-CAGATCTTGTC
50453131 TTCATGTACTGGCGTGAAGTAGATCAG
63 TTCATGTACTGGCGTGAAGTAGATCAG
* * *
50453158 AGATACCAGATCTTACCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGA-AGATCTTGTCTT
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAA-ACAGATCTTGTCTT
* * *
50453222 CATATACTGGCGTGAAGTATATCAA
65 CATGTACTGGCGTGAAGTAGATCAG
* * *
50453247 AGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAAGAAAGCAGATCTTGTCTTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTC
* *
50453312 ATGTACTGGCGTAAAGTAGATCAA
66 ATGTACTGGCGTGAAGTAGATCAG
* * **** * * * *
50453336 AGATACCAGATCTTGTCTTAATGTATTGG-CGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTC
* *
50453400 ATGTATTGGCGTGAAGTAGATCAA
66 ATGTACTGGCGTGAAGTAGATCAG
* * * * * *
50453424 AGATACCCGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCGGATCTTGTCTTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTC
50453489 CCATACTGGT
Statistics
Matches: 1023, Mismatches: 104, Indels: 32
0.88 0.09 0.03
Matches are distributed among these distances:
88 156 0.15
89 519 0.51
90 18 0.02
91 19 0.02
92 311 0.30
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (89 bp):
AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTC
ATGTACTGGCGTGAAGTAGATCAG
Found at i:50452687 original size:181 final size:181
Alignment explanation
Indices: 50452257--50453488 Score: 1937
Period size: 181 Copynumber: 6.9 Consensus size: 181
50452247 CAGGTTGAAA
* * * *
50452257 AGATAGCAGATTTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAGTAGATCTTGTCTTC
1 AGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTC
* *
50452322 ATGTACTGGCGTGAAGTAGATCAGAGATAATAGATCTTACCTTCCCATACTGGTGGCGAAGCAGA
66 ATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGA
*
50452387 TCGAA-G-AAAA-CAGATCTTGTCTTCATGTACTGGTGTGAAGTAGATCAG
131 TCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAG
50452435 AGATACC-GATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTC
1 AGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTC
* *
50452499 ATGTACTGGAGTGAAGTAGATCAGAGATAACAGATCTTGCCTTCCCATACTAGTGGCGAAGCAGA
66 ATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGA
50452564 TCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAG
131 TCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAG
*
50452615 AGATACCAGATCTTACCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTC
1 AGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTC
* * *
50452680 ATGTACTGGAGTGAAGTAGATCAGAGATAACAGATCTTGCCTTCCCATACTAGTGGCGAAACAGA
66 ATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGA
*
50452745 TCGAAGGAAAAAGCAGATCTTTTCTTCATGTACTGGCGTGAAGTAGATCAG
131 TCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAG
* * *
50452796 AGATACCAGATCTTGCCTTCCCATACTAGTGGCGAAGCAGATCAATGAAAGCAGATCTTGTCTTC
1 AGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTC
* *
50452861 ATGTACTAGCGTGAAGTAGATCAGAGATAACAGATCATGCCTTCCCATACTGGTGGCGAAGCAGA
66 ATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGA
*
50452926 TCGAAGGAAAAAGCAGATCTTGTTTTCATGTACTGGCGTGAAGTAGATCAG
131 TCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAG
50452977 AGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTC
1 AGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTC
* *
50453042 ATGTACTGGCATGAAGTAGATCAGAGATAACAAATCTTGCCTTCCCATACTGGTGGCGAAGCAGA
66 ATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGA
50453107 TCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAG
131 TCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAG
* *
50453158 AGATACCAGATCTTACCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGAAGATCTTGTCTTC
1 AGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTC
* * * * *
50453223 ATATACTGGCGTGAAGTATATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGA
66 ATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGA
* *
50453288 TCGAA-G--AAAGCAGATCTTGTCTTCATGTACTGGCGTAAAGTAGATCAA
131 TCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAG
* **** * * * * * **
50453336 AGATACCAGATCTTGTCTTAATGTATTGG-CGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTC
1 AGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTC
* * * * * *
50453400 ATGTATTGGCGTGAAGTAGATCAAAGATACCCGATCTTGTCTTCCCATACTGGTGGCGAAGTAGA
66 ATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGA
*
50453465 TCGAA-G--AAAGCGGATCTTGTCTTC
131 TCGAAGGAAAAAGCAGATCTTGTCTTC
50453489 CCATACTGGT
Statistics
Matches: 987, Mismatches: 63, Indels: 9
0.93 0.06 0.01
Matches are distributed among these distances:
177 230 0.23
178 69 0.07
179 4 0.00
180 45 0.05
181 639 0.65
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (181 bp):
AGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTC
ATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGA
TCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAG
Found at i:50454075 original size:21 final size:21
Alignment explanation
Indices: 50454041--50454081 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
50454031 AGCAAGCAAT
50454041 ATTTTTTTCCTTCT-TTTTTG
1 ATTTTTTTCCTTCTCTTTTTG
*
50454061 ATTTATTTTCTTTCTCTTTTT
1 ATTT-TTTTCCTTCTCTTTTT
50454082 CGGCCTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.07, C:0.15, G:0.02, T:0.76
Consensus pattern (21 bp):
ATTTTTTTCCTTCTCTTTTTG
Found at i:50454811 original size:3 final size:3
Alignment explanation
Indices: 50454803--50454871 Score: 61
Period size: 3 Copynumber: 22.3 Consensus size: 3
50454793 TTTGGGTCCC
** *
50454803 TTA TTA TTAA TTA TT- TTA TTA TTA AAA TTA TTTA TTT TTA TTA -TA
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
50454848 TTA TTTA TTA TTA TTGA TTA TTA T
1 TTA -TTA TTA TTA TT-A TTA TTA T
50454872 CATATTTTCT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
2 4 0.07
3 38 0.70
4 12 0.22
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:50454859 original size:10 final size:10
Alignment explanation
Indices: 50454803--50454871 Score: 56
Period size: 10 Copynumber: 7.0 Consensus size: 10
50454793 TTTGGGTCCC
*
50454803 TTATTATTAA
1 TTATTATTAT
50454813 TTATT-TTA-
1 TTATTATTAT
50454821 TTATTAAAATTAT
1 TTATT---ATTAT
*
50454834 TTATTTTTA-
1 TTATTATTAT
50454843 TTA-TATTAT
1 TTATTATTAT
50454852 TTATTATTAT
1 TTATTATTAT
*
50454862 TGATTATTAT
1 TTATTATTAT
50454872 CATATTTTCT
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
8 9 0.18
9 9 0.18
10 23 0.47
12 3 0.06
13 5 0.10
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (10 bp):
TTATTATTAT
Found at i:50454861 original size:15 final size:15
Alignment explanation
Indices: 50454804--50454861 Score: 59
Period size: 14 Copynumber: 4.1 Consensus size: 15
50454794 TTGGGTCCCT
* *
50454804 TATTATTAATTATTT
1 TATTATTTATTATTA
**
50454819 TATTA-TTAAAATTA
1 TATTATTTATTATTA
50454833 T-TTATTT-TTATTA
1 TATTATTTATTATTA
50454846 TATTATTTATTATTA
1 TATTATTTATTATTA
50454861 T
1 T
50454862 TGATTATTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
13 8 0.24
14 14 0.41
15 12 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TATTATTTATTATTA
Found at i:50467739 original size:3 final size:3
Alignment explanation
Indices: 50467733--50467781 Score: 68
Period size: 3 Copynumber: 17.3 Consensus size: 3
50467723 GAGAGAAAGG
*
50467733 AGA AGA AG- AGA AGG AGA AGA A-A AGA AGA AGA AGA AG- AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
50467778 AGA A
1 AGA A
50467782 AGAAAAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 6 0.15
3 35 0.85
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:50467743 original size:17 final size:15
Alignment explanation
Indices: 50467724--50467784 Score: 74
Period size: 14 Copynumber: 4.2 Consensus size: 15
50467714 AAAAAAAAAG
50467724 AGAGAAAGGAGAAG-A
1 AGAG-AAGGAGAAGAA
50467739 AGAGAAGGAGAAGAA
1 AGAGAAGGAGAAGAA
*
50467754 A-AGAAGAAGAAG-A
1 AGAGAAGGAGAAGAA
*
50467767 AGAGAAGAAGAAGAA
1 AGAGAAGGAGAAGAA
50467782 AGA
1 AGA
50467785 AAAAAAAAGG
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
13 2 0.05
14 30 0.71
15 10 0.24
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (15 bp):
AGAGAAGGAGAAGAA
Found at i:50467746 original size:14 final size:14
Alignment explanation
Indices: 50467733--50467785 Score: 81
Period size: 14 Copynumber: 3.9 Consensus size: 14
50467723 GAGAGAAAGG
*
50467733 AGAAGAAGAGAAGG
1 AGAAGAAGAGAAGA
*
50467747 AGAAGAAAAGAAGA
1 AGAAGAAGAGAAGA
50467761 AGAAGAAGAGAAGA
1 AGAAGAAGAGAAGA
50467775 AGAAGAA-AGAA
1 AGAAGAAGAGAA
50467786 AAAAAAAGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
13 4 0.11
14 32 0.89
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (14 bp):
AGAAGAAGAGAAGA
Found at i:50467752 original size:11 final size:12
Alignment explanation
Indices: 50467729--50467779 Score: 61
Period size: 11 Copynumber: 4.2 Consensus size: 12
50467719 AAAAGAGAGA
50467729 AAGGAGAAGAAGAG
1 AAGGAGAAG-A-AG
50467743 AAGGAGAAGAA-
1 AAGGAGAAGAAG
*
50467754 AAGAAGAAGAAG
1 AAGGAGAAGAAG
50467766 AA-GAGAAGAAG
1 AAGGAGAAGAAG
50467777 AAG
1 AAG
50467780 AAAGAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 20 0.61
12 3 0.09
13 1 0.03
14 9 0.27
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (12 bp):
AAGGAGAAGAAG
Found at i:50467780 original size:11 final size:11
Alignment explanation
Indices: 50467736--50467785 Score: 61
Period size: 11 Copynumber: 4.6 Consensus size: 11
50467726 AGAAAGGAGA
50467736 AGAAG-AGAAGG
1 AGAAGAAGAA-G
50467747 AGAAGAA-AAG
1 AGAAGAAGAAG
50467757 AAGAAGAAGAAG
1 -AGAAGAAGAAG
50467769 AGAAGAAGAAG
1 AGAAGAAGAAG
50467780 A-AAGAA
1 AGAAGAA
50467786 AAAAAAAGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
10 6 0.17
11 26 0.72
12 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (11 bp):
AGAAGAAGAAG
Found at i:50467960 original size:19 final size:19
Alignment explanation
Indices: 50467936--50468126 Score: 127
Period size: 19 Copynumber: 10.2 Consensus size: 19
50467926 TTTGGATTAG
50467936 AATTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
50467955 AATTTTTTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
50467974 AATTATTTTAT-AATTAAATTTGT
1 AATT-TTGTATGAA-T--A-TTGT
* * *
50467997 -ATTTATAGTTTTGGAT-TAGT
1 AATTT-T-G-TATGAATATTGT
50468017 -ATTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
50468035 AATTTTTTGTATGAATATTGT
1 AA--TTTTGTATGAATATTGT
*
50468056 AATTTT-TTTG--TA-TG-
1 AATTTTGTATGAATATTGT
* *
50468070 AATATTG--T-AATATTAT
1 AATTTTGTATGAATATTGT
*
50468086 AATTTTATATGAATATTGT
1 AATTTTGTATGAATATTGT
50468105 AATTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
50468124 AAT
1 AAT
50468127 GTCGAGATAT
Statistics
Matches: 136, Mismatches: 15, Indels: 42
0.70 0.08 0.22
Matches are distributed among these distances:
13 1 0.01
14 7 0.05
15 3 0.02
16 7 0.05
17 5 0.04
18 8 0.06
19 58 0.43
20 14 0.10
21 20 0.15
22 5 0.04
23 4 0.03
24 3 0.02
25 1 0.01
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (19 bp):
AATTTTGTATGAATATTGT
Found at i:50468370 original size:37 final size:37
Alignment explanation
Indices: 50468319--50468399 Score: 144
Period size: 37 Copynumber: 2.2 Consensus size: 37
50468309 CATATAAAGT
*
50468319 TTATAAAAAAATTAAATATCATTTTATTAAAAGTTTAA
1 TTAT-AAAAAATTAAAAATCATTTTATTAAAAGTTTAA
50468357 TTATAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
50468394 TTATAA
1 TTATAA
50468400 CTGACTTTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
37 38 0.90
38 4 0.10
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (37 bp):
TTATAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
Found at i:50470507 original size:27 final size:27
Alignment explanation
Indices: 50470445--50470511 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 27
50470435 ACCTCATATT
*
50470445 TAATGGTTTTTTATGTAAATAAAATTA
1 TAATGTTTTTTTATGTAAATAAAATTA
*
50470472 TAACGGTTTTTTTATGTAAATAAAATTA
1 TAA-TGTTTTTTTATGTAAATAAAATTA
50470500 TAATGTTTTTTT
1 TAATGTTTTTTT
50470512 TTATTTTGCA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 11 0.31
28 25 0.69
ACGTcount: A:0.36, C:0.01, G:0.10, T:0.52
Consensus pattern (27 bp):
TAATGTTTTTTTATGTAAATAAAATTA
Found at i:50473490 original size:19 final size:19
Alignment explanation
Indices: 50473461--50473512 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
50473451 AATACCTTAT
50473461 TTTTTTCTTCTTCT-CATTCC
1 TTTTTT-TTCTTCTGC-TTCC
50473481 TTTTTTTTCTTCTGCTTCC
1 TTTTTTTTCTTCTGCTTCC
*
50473500 TTCTTATTTCTTC
1 TT-TTTTTTCTTC
50473513 CGTTTCTCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.04, C:0.27, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTTTTTCTTCTGCTTCC
Found at i:50474418 original size:215 final size:215
Alignment explanation
Indices: 50474029--50474693 Score: 804
Period size: 216 Copynumber: 3.0 Consensus size: 215
50474019 AGCTTCCTAG
*
50474029 AAGAGCTTGTTCTTTTCCATCTCATTCATAGTTTCTCTTGAGTTTTCAGTT-ATTGAAG-GGGTT
1 AAGAGCTTGTTCTTTTCCATCTCATTCATGGTTTCTCTTGAGTTTTCAGTTGA-TGAAGAGGG-T
* * *
50474092 TCTTTTCTTTCCCAAAGAACTAAAAAATACGATGATGCATAACATAAAGAAAAAGAGGACTAGTG
64 TCTTTTCTTTTCCAAAGAACTAAAAAATACGATGATGCATAACAAAAAGAAAAAGAGGACTGGTG
* * * * *
50474157 AAAGCCTATTTGGCTAGCAAGGAAAAAAATAACAAGAAACGAAAAAAAGAGGCG-AGGAAGAAAG
129 AAAGCCTGTTTGGCTAGCGAGGAAAAAAACAATAAGAAAAGAAAAAAAGAGG-GAAGGAAGAAA-
* *
50474221 TCCATATTTTCTAGGAAGCCAAAA
192 ACCAAATTTTCTAGGAAGCCAAAA
* *
50474245 AAGACCTTGTTCTTTTCCATCTCATTCATGGCTTT-TTTTGAGTTTTCAGTTGATGAAGAGGGTT
1 AAGAGCTTGTTCTTTTCCATCTCATTCATGG-TTTCTCTTGAGTTTTCAGTTGATGAAGAGGGTT
*
50474309 CTTTTCTTTTCCAAAGAACTAAAATATA-GATGATGCATAACAAAAAGAAAAAGAGGACTGGTGA
65 CTTTTCTTTTCCAAAGAACTAAAAAATACGATGATGCATAACAAAAAGAAAAAGAGGACTGGTGA
* * *
50474373 AAGCCTGTTTGGCTAGTGAGGAAAAAAACAATGAGAAAAGAAAAAAAAGTGGGAAGGAA-AAAAC
130 AAGCCTGTTTGGCTAGCGAGGAAAAAAACAATAAGAAAAG-AAAAAAAGAGGGAAGGAAGAAAA-
50474437 CCAAATTTTCTAGGAAGCCAAACAATCTTCCTA
193 CCAAATTTTCTAGGAAGCC--A-AA-------A
* * * * *
50474470 GAAGAGCATATTCTTTTCCATCTCATTCATGGTTTCTCATGAGTTTTCAGTTGATGAAAAAGGTT
1 -AAGAGCTTGTTCTTTTCCATCTCATTCATGGTTTCTCTTGAGTTTTCAGTTGATG-AAGAGGGT
*
50474535 TCTTTTC-TTTCCAAAAGAACTAAAAAATATGATGATGCATAACAAAAAGAAAAAGAGGACTGGT
64 TCTTTTCTTTTCC-AAAGAACTAAAAAATACGATGATGCATAACAAAAAGAAAAAGAGGACTGGT
* * * * *
50474599 GAAAGCTTGTTTGGCTAGCGAGAAAAATATAAGAATAAAAAAAGAAAAAAATGAGGGAAAGAAGA
128 GAAAGCCTGTTTGGCTAGCGAGGAAAA-A-AACAATAAGAAAAGAAAAAAA-GAGGGAAGGAAGA
*
50474664 AAACTCAGATTTTCTAGGAAGCCAAAA
190 AAAC-CAAATTTTCTAGGAAGCCAAAA
50474691 AAG
1 AAG
50474694 CTTAAGAGAA
Statistics
Matches: 389, Mismatches: 34, Indels: 48
0.83 0.07 0.10
Matches are distributed among these distances:
215 89 0.23
216 92 0.24
217 8 0.02
218 2 0.01
220 3 0.01
221 1 0.00
225 4 0.01
226 51 0.13
227 28 0.07
228 60 0.15
229 9 0.02
230 21 0.05
231 21 0.05
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (215 bp):
AAGAGCTTGTTCTTTTCCATCTCATTCATGGTTTCTCTTGAGTTTTCAGTTGATGAAGAGGGTTC
TTTTCTTTTCCAAAGAACTAAAAAATACGATGATGCATAACAAAAAGAAAAAGAGGACTGGTGAA
AGCCTGTTTGGCTAGCGAGGAAAAAAACAATAAGAAAAGAAAAAAAGAGGGAAGGAAGAAAACCA
AATTTTCTAGGAAGCCAAAA
Found at i:50477364 original size:13 final size:13
Alignment explanation
Indices: 50477346--50477373 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
50477336 TATAGAGCGT
50477346 TATCGTAAAAACA
1 TATCGTAAAAACA
50477359 TATCGTAAAAACA
1 TATCGTAAAAACA
50477372 TA
1 TA
50477374 CATTTCCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.14, G:0.07, T:0.25
Consensus pattern (13 bp):
TATCGTAAAAACA
Found at i:50477520 original size:30 final size:31
Alignment explanation
Indices: 50477452--50477529 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 31
50477442 TTCGAGGCTC
**
50477452 TAGAAACACTTTAGAAACAATTCGAGACTAAAT
1 TAGAAACA-TTTA-AAACAATTCGAGAAAAAAT
50477485 TAGAAACATTTAAAAC-ATT-GAGAAAAAAGT
1 TAGAAACATTTAAAACAATTCGAGAAAAAA-T
*
50477515 TAGAAA-AATTAAAAC
1 TAGAAACATTTAAAAC
50477530 TGTAGGGTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 15 0.37
30 10 0.24
31 4 0.10
32 4 0.10
33 8 0.20
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (31 bp):
TAGAAACATTTAAAACAATTCGAGAAAAAAT
Found at i:50478543 original size:82 final size:82
Alignment explanation
Indices: 50478404--50478565 Score: 306
Period size: 82 Copynumber: 2.0 Consensus size: 82
50478394 CCAATCGAGC
*
50478404 TTTTCGATGACCTACAGGAAAAGAAAACAACTAACGTAAGCAATAATGGTTAATAAGTTCGTATA
1 TTTTCGATGACCTACAGGAAAAGAAAACAACTAACGTAAGCAATAATGCTTAATAAGTTCGTATA
50478469 AAGGTAACCTAACTAGA
66 AAGGTAACCTAACTAGA
*
50478486 TTTTCGATGACCTACAGGAAAAGAAAACAACTAACGTAAGCAATAATGCTTAGTAAGTTCGTATA
1 TTTTCGATGACCTACAGGAAAAGAAAACAACTAACGTAAGCAATAATGCTTAATAAGTTCGTATA
50478551 AAGGTAACCTAACTA
66 AAGGTAACCTAACTA
50478566 CTGAACATAT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
82 78 1.00
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (82 bp):
TTTTCGATGACCTACAGGAAAAGAAAACAACTAACGTAAGCAATAATGCTTAATAAGTTCGTATA
AAGGTAACCTAACTAGA
Found at i:50479259 original size:20 final size:20
Alignment explanation
Indices: 50479196--50479287 Score: 87
Period size: 20 Copynumber: 4.6 Consensus size: 20
50479186 GATGCATAAT
*
50479196 AGGGGCACCAAAGTGCAATC
1 AGGGGCACCGAAGTGCAATC
* ** *
50479216 AGGAGCA-CGAATGTGTGATT
1 AGGGGCACCGAA-GTGCAATC
50479236 AGGGGCACCGAAGTGCAATC
1 AGGGGCACCGAAGTGCAATC
* * *
50479256 AGGGGCACAGATGTGCATTC
1 AGGGGCACCGAAGTGCAATC
*
50479276 AGGGGTACCGAA
1 AGGGGCACCGAA
50479288 ATACAAATAG
Statistics
Matches: 55, Mismatches: 15, Indels: 4
0.74 0.20 0.05
Matches are distributed among these distances:
19 3 0.05
20 48 0.87
21 4 0.07
ACGTcount: A:0.30, C:0.20, G:0.35, T:0.15
Consensus pattern (20 bp):
AGGGGCACCGAAGTGCAATC
Found at i:50479270 original size:40 final size:39
Alignment explanation
Indices: 50479195--50479287 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 39
50479185 AGATGCATAA
* *
50479195 TAGGGGCACCAAAGTGCAATCAGGAGCACGAATGTGTGAT
1 TAGGGGCACCGAAGTGCAATCAGGAGCACGAATGTG-CAT
*
50479235 TAGGGGCACCGAAGTGCAATCAGGGGCAC-AGATGTGCAT
1 TAGGGGCACCGAAGTGCAATCAGGAGCACGA-ATGTGCAT
*
50479274 TCAGGGGTACCGAA
1 T-AGGGGCACCGAA
50479288 ATACAAATAG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
39 4 0.09
40 43 0.91
ACGTcount: A:0.30, C:0.19, G:0.34, T:0.16
Consensus pattern (39 bp):
TAGGGGCACCGAAGTGCAATCAGGAGCACGAATGTGCAT
Found at i:50481280 original size:21 final size:22
Alignment explanation
Indices: 50481242--50481283 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
50481232 AAATGCTAAC
50481242 AGAGGCACCGTAGTGCAAATAT
1 AGAGGCACCGTAGTGCAAATAT
50481264 AGAGGCACCGT-GTGCAAATA
1 AGAGGCACCGTAGTGCAAATA
50481284 AAGGAATCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.36, C:0.19, G:0.29, T:0.17
Consensus pattern (22 bp):
AGAGGCACCGTAGTGCAAATAT
Found at i:50485339 original size:46 final size:46
Alignment explanation
Indices: 50485257--50485348 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
50485247 TAGGGGTCTG
*
50485257 TCGCGACATTCCTTGGCTATATCATGAAACCCAAGGTAGTACATTA
1 TCGCGACATTCCTTGGCTATATCACGAAACCCAAGGTAGTACATTA
* * *
50485303 TCGCGACATTCCTTGGCTATGTCACGACACCTAAGGTAGTACATTA
1 TCGCGACATTCCTTGGCTATATCACGAAACCCAAGGTAGTACATTA
50485349 ATCATAGCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (46 bp):
TCGCGACATTCCTTGGCTATATCACGAAACCCAAGGTAGTACATTA
Found at i:50486335 original size:13 final size:13
Alignment explanation
Indices: 50486314--50486343 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
50486304 GAGCAAACAT
*
50486314 AAAACATAACTTA
1 AAAAAATAACTTA
50486327 AAAAAATAACTTA
1 AAAAAATAACTTA
50486340 AAAA
1 AAAA
50486344 CAAAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAAAATAACTTA
Found at i:50489441 original size:23 final size:23
Alignment explanation
Indices: 50489402--50489456 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
50489392 ATAATAGAGG
50489402 AAGAAAGA-A-AAATTGTAAAAC
1 AAGAAAGAGAGAAATTGTAAAAC
50489423 AAGAAAGAGAGAAATTGTAAAAC
1 AAGAAAGAGAGAAATTGTAAAAC
50489446 AAGAAAGAGAG
1 AAGAAAGAGAG
50489457 GAGGAGAGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 8 0.25
22 1 0.03
23 23 0.72
ACGTcount: A:0.64, C:0.04, G:0.22, T:0.11
Consensus pattern (23 bp):
AAGAAAGAGAGAAATTGTAAAAC
Found at i:50513484 original size:25 final size:25
Alignment explanation
Indices: 50513445--50513514 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
50513435 TAGGCCCATT
*
50513445 TTCACAACTCGTGTGAGCATTCTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
* *
50513470 TTCACAGCTCATGTGAGCATTTTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
*
50513495 TTCATAGCTCGTGTGAGCAT
1 TTCACAGCTCGTGTGAGCAT
50513515 ACAGGTACAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.34
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATTCTGA
Found at i:50523801 original size:293 final size:293
Alignment explanation
Indices: 50523310--50523887 Score: 867
Period size: 293 Copynumber: 2.0 Consensus size: 293
50523300 CCTTAATGGA
* * * * *
50523310 CTTAGAAGTTAAGGGTACCTTCTTTTTTCCAAGAAGAACTCCGGTAGCATATGGCTTAGTCAAAC
1 CTTAAAAGTTAAGGGTACCTTCTTCTTGCCAACAAGAACTCCAGTAGCATATGGCTTAGTCAAAC
* ** * *
50523375 TCGCATAGAACTTTCGAACTAACTTCTCATCGGGTAATAATCGTGCATCACAAAATAATTCCAAT
66 TCGCATAGAACTCTAAAACTAACTCCTCATCGGGTAATAATCATGCATCACAAAATAATTCCAAT
* * *
50523440 TGAGGGCATCAATTGTGTTTCGAATCGACAAAGACACAACCATCTTATCATTGCTTTCCAAGTTG
131 TGAGGGCATCAATCGTCTTTCAAATCGACAAAGACACAACCATCTTATCATTGCTTTCCAAGTTG
50523505 AAACCTTTTT-TCGGCATCATAGGTTGATTCTTAAAGATTGAATCAAACCTCTCTTTCACTTCTT
196 AAACCTTTTTCT-GGCATCATAGGTTGATTCTTAAAGATTGAATCAAACCTCTCTTTCACTTCTT
50523569 CATCTTA-AA-CACAATGGTATTTTCGGCAAAGGT
260 CATC-TAGAATCACAATGGTATTTTCGGCAAAGGT
* * * *
50523602 CTTAAAAGTTAGGGGTACCTTCTTCTTGCCAACAAGAACTTCAGTAGCATCTGGCTTAGTCAAAT
1 CTTAAAAGTTAAGGGTACCTTCTTCTTGCCAACAAGAACTCCAGTAGCATATGGCTTAGTCAAAC
* * * * *
50523667 TGGCATAGAACTCTAAAACTAACTCCTCATTGGGTAATCATTATGCATCGCAAAAATAATTCCAA
66 TCGCATAGAACTCTAAAACTAACTCCTCATCGGGTAATAATCATGCATCAC-AAAATAATTCCAA
* *
50523732 TTGAGGGCATCAATCGTCTTTCAAATC-AGCAAAGGCACAATCATCTTATCATTGCTTTCCAAGT
130 TTGAGGGCATCAATCGTCTTTCAAATCGA-CAAAGACACAACCATCTTATCATTGCTTTCCAAGT
*
50523796 TGAAACCTTTTTCTGGCATGATAGGTTGATTCTTAAAGATTGAATCAAACCTCTCTTTCACTTCT
194 TGAAACCTTTTTCTGGCATCATAGGTTGATTCTTAAAGATTGAATCAAACCTCTCTTTCACTTCT
50523861 TCATCTAGAATCACAATGGTATTTTCG
259 TCATCTAGAATCACAATGGTATTTTCG
50523888 ACAGAGGCTT
Statistics
Matches: 256, Mismatches: 25, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
292 100 0.39
293 139 0.54
294 17 0.07
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (293 bp):
CTTAAAAGTTAAGGGTACCTTCTTCTTGCCAACAAGAACTCCAGTAGCATATGGCTTAGTCAAAC
TCGCATAGAACTCTAAAACTAACTCCTCATCGGGTAATAATCATGCATCACAAAATAATTCCAAT
TGAGGGCATCAATCGTCTTTCAAATCGACAAAGACACAACCATCTTATCATTGCTTTCCAAGTTG
AAACCTTTTTCTGGCATCATAGGTTGATTCTTAAAGATTGAATCAAACCTCTCTTTCACTTCTTC
ATCTAGAATCACAATGGTATTTTCGGCAAAGGT
Found at i:50529342 original size:41 final size:41
Alignment explanation
Indices: 50529174--50529319 Score: 213
Period size: 41 Copynumber: 3.6 Consensus size: 41
50529164 TTTAAACAGA
* * * ** * *
50529174 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTTTAATTCCG
1 TTCACCGGCACTT-AGCCTGCTAGGCCTATAGCCTGATTCAG
50529215 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
50529256 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
50529297 TTCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAG
50529320 ACGTATAGTC
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
40 1 0.01
41 96 0.99
ACGTcount: A:0.20, C:0.30, G:0.21, T:0.29
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
Found at i:50529342 original size:82 final size:82
Alignment explanation
Indices: 50529174--50529342 Score: 205
Period size: 82 Copynumber: 2.1 Consensus size: 82
50529164 TTTAAACAGA
* * ** * *
50529174 TTCACTGGCACTTCACCTGATAGGCTTATAGTTTAATTCCGTTCACCGGCACTTAGCCTGCTAGG
1 TTCACCGGCACTTCACCTGATAGGCCTATAGCCTAATTCAGTTCACCGGCACTTAGCCTGCTAGA
* *
50529239 CCTATAGCCTGATTCAG
66 CCTATAGCCTGAATAAG
* *
50529256 TTCACCGGCACTT-AGCCTGCTAGGCCTATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTCA-CCTGATAGGCCTATAGCCTAATTCAGTTCACCGGCACTTAGCCTGCTAG
* * *
50529320 ACGTATAGTCTGAATAAT
65 ACCTATAGCCTGAATAAG
50529338 TTCAC
1 TTCAC
50529343 TGCCAATAAA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 1 0.01
82 72 0.99
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (82 bp):
TTCACCGGCACTTCACCTGATAGGCCTATAGCCTAATTCAGTTCACCGGCACTTAGCCTGCTAGA
CCTATAGCCTGAATAAG
Found at i:50536822 original size:41 final size:41
Alignment explanation
Indices: 50536654--50536799 Score: 213
Period size: 41 Copynumber: 3.6 Consensus size: 41
50536644 TTTAAACAGA
* * * ** * *
50536654 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTTTAATTCCG
1 TTCACCGGCACTT-AGCCTGCTAGGCCTATAGCCTGATTCAG
50536695 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
50536736 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
50536777 TTCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAG
50536800 ACGTATAGTC
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
40 1 0.01
41 96 0.99
ACGTcount: A:0.20, C:0.30, G:0.21, T:0.29
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
Found at i:50536822 original size:82 final size:82
Alignment explanation
Indices: 50536654--50536827 Score: 215
Period size: 82 Copynumber: 2.1 Consensus size: 82
50536644 TTTAAACAGA
* ** * *
50536654 TTCACTGGCACTTCACCTGATAGGCTTATAGTTTAATTCCGTTCACCGGCACTTAGCCTGCTAGG
1 TTCACTGGCACTTCACCTGATAGGCCTATAGCCTAATTCAGTTCACCGGCACTTAGCCTGCTAGA
* *
50536719 CCTATAGCCTGATTCAG
66 CCTATAGCCTGAATAAG
* * *
50536736 TTCACCGGCACTT-AGCCTGCTAGGCCTATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAG
1 TTCACTGGCACTTCA-CCTGATAGGCCTATAGCCTAATTCAGTTCACCGGCACTTAGCCTGCTAG
* * *
50536800 ACGTATAGTCTGAATAAT
65 ACCTATAGCCTGAATAAG
50536818 TTCACTGGCA
1 TTCACTGGCA
50536828 ATAAATCCGA
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 1 0.01
82 76 0.99
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (82 bp):
TTCACTGGCACTTCACCTGATAGGCCTATAGCCTAATTCAGTTCACCGGCACTTAGCCTGCTAGA
CCTATAGCCTGAATAAG
Found at i:50541594 original size:23 final size:23
Alignment explanation
Indices: 50541566--50541616 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
50541556 TTACTAAAAA
*
50541566 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
50541589 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
50541612 AGTAA
1 TGTAA
50541617 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:50542110 original size:8 final size:8
Alignment explanation
Indices: 50542097--50542125 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
50542087 TTTTAAATGA
50542097 TATTTTAT
1 TATTTTAT
50542105 TATTTTAT
1 TATTTTAT
50542113 TATTTTAT
1 TATTTTAT
50542121 TATTT
1 TATTT
50542126 AGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:50542905 original size:22 final size:21
Alignment explanation
Indices: 50542863--50542909 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
50542853 ATTAGAGGCT
50542863 TAAATTTATATATTTAAAATAA
1 TAAATTTATATATTTAAAAT-A
**
50542885 TAAA-TTAGTATATTTTCAATA
1 TAAATTTA-TATATTTAAAATA
50542906 TAAA
1 TAAA
50542910 CAAATGGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
TAAATTTATATATTTAAAATA
Found at i:50545573 original size:25 final size:25
Alignment explanation
Indices: 50545544--50545597 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
50545534 ATTCTTTTTG
* * *
50545544 GCCTTTGTGGCTTATTCTGTATGTT
1 GCCTTTGTGACGTATTCTGCATGTT
50545569 GCCTTTGTGACGTATTCTGCATGTT
1 GCCTTTGTGACGTATTCTGCATGTT
50545594 GCCT
1 GCCT
50545598 CTATGGCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.09, C:0.20, G:0.24, T:0.46
Consensus pattern (25 bp):
GCCTTTGTGACGTATTCTGCATGTT
Found at i:50551963 original size:26 final size:27
Alignment explanation
Indices: 50551908--50551964 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
50551898 TCGTTATTCA
* *
50551908 CCACAAGGGTCTTTTCTTAAATAGATG
1 CCACAAGGGTCTTTCCTTAAATAGACG
*
50551935 CCACAA-GGTCTATTCCTTAAATTG-CG
1 CCACAAGGGTCT-TTCCTTAAATAGACG
50551961 CCAC
1 CCAC
50551965 GATTCTGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (27 bp):
CCACAAGGGTCTTTCCTTAAATAGACG
Found at i:50552101 original size:62 final size:62
Alignment explanation
Indices: 50551978--50552203 Score: 228
Period size: 61 Copynumber: 3.7 Consensus size: 62
50551968 TCTGTATTCT
* * * * *
50551978 CCACAAAGGCTTTCCTATCCAGAGCTTTTCCATAAAGG--TGTTCTTTTACATT-TGATGCTCG
1 CCACAAAGGCTTTCCTATCCAAAGTTTTTCCACAAAGGCAT-TTCTTTTACATTCAG-TACTCG
* *
50552039 CCACAAAGGCTTTCTTGTCCAAAGTTTTTTCCACAAAGGCATTTC-TTTACATTCAGTACTCG
1 CCACAAAGGCTTTCCTATCCAAAG-TTTTTCCACAAAGGCATTTCTTTTACATTCAGTACTCG
* * *** * * * *
50552101 CTACAGAGGCTTTCCTATCTGGAGTTTTTCCATAAAGTCA-ATCTTTTACATTCAGTACTTG
1 CCACAAAGGCTTTCCTATCCAAAGTTTTTCCACAAAGGCATTTCTTTTACATTCAGTACTCG
* *
50552162 CCACAAATGCTTTCCTATCCAAAGCTTTTCCACAAAGGCATT
1 CCACAAAGGCTTTCCTATCCAAAGTTTTTCCACAAAGGCATT
50552204 CTTAAACAAA
Statistics
Matches: 131, Mismatches: 28, Indels: 11
0.77 0.16 0.06
Matches are distributed among these distances:
60 2 0.02
61 82 0.63
62 42 0.32
63 4 0.03
64 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (62 bp):
CCACAAAGGCTTTCCTATCCAAAGTTTTTCCACAAAGGCATTTCTTTTACATTCAGTACTCG
Found at i:50554456 original size:128 final size:128
Alignment explanation
Indices: 50554226--50554468 Score: 353
Period size: 128 Copynumber: 1.9 Consensus size: 128
50554216 TAAGCAGATA
*
50554226 GCCAAAAACCATTCAAAGTGTCCACTTCCTATAAATACATTCTCAGTCCCCTGATTTCCTTACCT
1 GCCAAAAACCATTCAAAGTGTCCACTTCCCATAAATACATTCTCAGTCCCCTGATTTCCTTACCT
* ** **
50554291 AATCCAGGGTAGGTAAAAGAAAATCTAGTGATGATTAACCTCACTGTTGAGCATTAAATACAT
66 AATCCAGGATAGGTAAAAGAAAATCTAGCAAAAATTAACCTCACTGTTGAGCATTAAATACAT
* * *
50554354 GCCAAAAACCATTCCAAGTGTCCACTTCCCATAAATATATTCTC-GATCTCCTGATTTCCTTACC
1 GCCAAAAACCATTCAAAGTGTCCACTTCCCATAAATACATTCTCAG-TCCCCTGATTTCCTTACC
* * * *
50554418 TAATCTAGGATTGGTAAAAGAAAATCTGGCAAAAATTAACCTCATTGTTGA
65 TAATCCAGGATAGGTAAAAGAAAATCTAGCAAAAATTAACCTCACTGTTGA
50554469 CCAGTCATGA
Statistics
Matches: 101, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
127 1 0.01
128 100 0.99
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (128 bp):
GCCAAAAACCATTCAAAGTGTCCACTTCCCATAAATACATTCTCAGTCCCCTGATTTCCTTACCT
AATCCAGGATAGGTAAAAGAAAATCTAGCAAAAATTAACCTCACTGTTGAGCATTAAATACAT
Found at i:50564096 original size:43 final size:42
Alignment explanation
Indices: 50563991--50564111 Score: 118
Period size: 43 Copynumber: 2.8 Consensus size: 42
50563981 CGTACAATGC
* * * *
50563991 CAACGTCCCAAACGTGGTCTTACATGCAATCACATATCGATG
1 CAACGTCCCAAACGTGGTCTTACACGAAAACACAAATCGATG
* * * *
50564033 CCACTGTTCCAGACAG-GGTCTTACACGTAAACACAAATCGATG
1 CAAC-GTCCCAAAC-GTGGTCTTACACGAAAACACAAATCGATG
*
50564076 TCAACGTCCCATACGTGGTCTTACACGAAAAACACA
1 -CAACGTCCCAAACGTGGTCTTACACG-AAAACACA
50564112 TATCAGAGGT
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
42 4 0.06
43 48 0.76
44 11 0.17
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (42 bp):
CAACGTCCCAAACGTGGTCTTACACGAAAACACAAATCGATG
Found at i:50567836 original size:21 final size:21
Alignment explanation
Indices: 50567810--50567880 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
50567800 GATAAAAAAT
50567810 AAAAATCAATAAAAGTTATAA
1 AAAAATCAATAAAAGTTATAA
* * * *
50567831 AAAAATTACA-AAATGTAAAAAA
1 AAAAATCA-ATAAAAGT-TATAA
*
50567853 TAAAAATCAATAAAAGTTATAG
1 -AAAAATCAATAAAAGTTATAA
50567875 AAAAAT
1 AAAAAT
50567881 TACAAAATGC
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
21 18 0.49
22 7 0.19
23 12 0.32
ACGTcount: A:0.68, C:0.04, G:0.06, T:0.23
Consensus pattern (21 bp):
AAAAATCAATAAAAGTTATAA
Found at i:50567859 original size:44 final size:45
Alignment explanation
Indices: 50567795--50567889 Score: 174
Period size: 44 Copynumber: 2.1 Consensus size: 45
50567785 CATGTGGCGA
50567795 AAAATGATAAAAAATAAAAATCAATAAAAGTTATAAAAAAATTAC
1 AAAATGATAAAAAATAAAAATCAATAAAAGTTATAAAAAAATTAC
*
50567840 AAAATG-TAAAAAATAAAAATCAATAAAAGTTATAGAAAAATTAC
1 AAAATGATAAAAAATAAAAATCAATAAAAGTTATAAAAAAATTAC
50567884 AAAATG
1 AAAATG
50567890 CTTCTTTTGG
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 43 0.88
45 6 0.12
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.22
Consensus pattern (45 bp):
AAAATGATAAAAAATAAAAATCAATAAAAGTTATAAAAAAATTAC
Found at i:50568050 original size:34 final size:35
Alignment explanation
Indices: 50567984--50568052 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
50567974 AAAATTTCTA
* *
50567984 TTTTTTTCTATATTTCAATATAATTTATAATATTT
1 TTTTTTTCTATATTTCAATAAAAATTATAATATTT
*
50568019 TTTTTTTCTA-ATTTTTAATAAAAATTA-AATATTT
1 TTTTTTTCTATA-TTTCAATAAAAATTATAATATTT
50568053 CTTATATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
34 8 0.27
35 22 0.73
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (35 bp):
TTTTTTTCTATATTTCAATAAAAATTATAATATTT
Found at i:50568095 original size:29 final size:29
Alignment explanation
Indices: 50568021--50568096 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
50568011 TAATATTTTT
* *
50568021 TTTTTCTAATTTTTAATAAAAATTAAATA
1 TTTTTATAATTTTTATTAAAAATTAAATA
* *
50568050 TTTCTTATATTTTTTATT-AAAATTTAATA
1 TTT-TTATAATTTTTATTAAAAATTAAATA
50568079 TATTTTATAATTTTTATT
1 T-TTTTATAATTTTTATT
50568097 TTTTATTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 27 0.68
30 13 0.32
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTTTATAATTTTTATTAAAAATTAAATA
Found at i:50568338 original size:90 final size:89
Alignment explanation
Indices: 50568207--50568406 Score: 237
Period size: 93 Copynumber: 2.2 Consensus size: 89
50568197 GAATGCATTT
* * * * *
50568207 TACCAATTGAGTG-AAAAAAAAGTAGGGGCTTAATTGC-TTTTTTG-AAAATG-TTTGAGTGTCT
1 TACCAATTGAGTGAAAAAAAAAATAAGGGCTTAATTACTTTTTTTGAAAAATGTTTTAAG-GCCT
* *
50568268 TTTTAATGCATTTTGACAGTTCAAG
65 TTTTAATACATTTTGAAAGTTCAAG
50568293 TACCTAATTGAGTGAAAAAACAACAATAAGGGCTTAATTACTTTTTTTTGAAAAATGTTTTAAGG
1 TACC-AATTGAGTGAAAAAA-AA-AATAAGGGCTTAATTAC-TTTTTTTGAAAAATGTTTTAAGG
* *
50568358 CCTTTTTGATATATTTTGAAAGTTCAAG
62 CCTTTTTAATACATTTTGAAAGTTCAAG
50568386 TATCCAATTGAGTGAAAAAAA
1 TA-CCAATTGAGTGAAAAAAA
50568407 GAGATTTAAT
Statistics
Matches: 96, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
86 4 0.04
87 9 0.09
88 5 0.05
89 2 0.02
90 14 0.15
92 8 0.08
93 47 0.49
94 7 0.07
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (89 bp):
TACCAATTGAGTGAAAAAAAAAATAAGGGCTTAATTACTTTTTTTGAAAAATGTTTTAAGGCCTT
TTTAATACATTTTGAAAGTTCAAG
Found at i:50581068 original size:39 final size:40
Alignment explanation
Indices: 50580911--50581135 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
50580901 GCTCCTCGTT
* *
50580911 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
50580951 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
50580991 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
50581031 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
50581070 CAAATGTCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
50581111 CAAA-GCCTTCCGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
50581136 CATCATTCAA
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 115 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:50581126 original size:119 final size:120
Alignment explanation
Indices: 50580913--50581135 Score: 274
Period size: 119 Copynumber: 1.9 Consensus size: 120
50580903 TCCTCGTTCA
*
50580913 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * *
50580978 TTAGTAACTCGCACAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCATCCGGACTTAACCCGGATTTAGTAACTCGCACC
* * * **
50581033 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGTCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * * *
50581095 ATATGGTCACTTAGCACAAA-GCCTTCCGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACAAATGCCATCCGGACTTAACCCGGA
50581136 CATCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
118 4 0.05
119 63 0.72
120 20 0.23
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCACAAATGCCATCCGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:50588853 original size:40 final size:39
Alignment explanation
Indices: 50588809--50589030 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 39
50588799 GCTCCTCGTT
* *
50588809 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTT-TAGTAACTCGCA
*
50588849 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTTAGTAACTCGCA
* *
50588889 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTTAGTAACTCGCA
* ** *
50588929 CCAATGCCTTCGGG-CTTAGCCCGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCA
* * * * *
50588967 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTTAGTAAC-TCGCA
50589008 CAAA-GCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
50589031 ACATCATTCA
Statistics
Matches: 156, Mismatches: 20, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
37 2 0.01
38 22 0.14
39 25 0.16
40 95 0.61
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCA
Found at i:50588992 original size:78 final size:78
Alignment explanation
Indices: 50588809--50589029 Score: 250
Period size: 78 Copynumber: 2.8 Consensus size: 78
50588799 GCTCCTCGTT
* * * *
50588809 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTTGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTAGCACCAATGCCTTCGGG-CTTAGCCC-
*
50588873 GATTTAGTAACTCGCA
63 GAATTAGTAACTCGCA
* * *
50588889 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGAA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCACCAATGCCTTCGGGCTTAGCCCGAA
*
50588954 TTAGTATCTCGCA
66 TTAGTAACTCGCA
* * * * *
50588967 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGCTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TAGCACCAATGCCTTCGGGCTTAGCCCG
50589030 GACATCATTC
Statistics
Matches: 122, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
77 3 0.02
78 60 0.49
79 11 0.09
80 46 0.38
81 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCACCAATGCCTTCGGGCTTAGCCCGAA
TTAGTAACTCGCA
Found at i:50589020 original size:118 final size:119
Alignment explanation
Indices: 50588811--50589031 Score: 270
Period size: 118 Copynumber: 1.9 Consensus size: 119
50588801 TCCTCGTTCA
** *
50588811 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
50588876 TTAGTAACTCGCACAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCATCGGG-CTTAACCCGGATTTAGTAACTCGCACC
* * **
50588931 AATGCCTTCGGG-CTTAGCCCGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
* * * *
50588993 TATGGTCACTTAGCACAAA-GCCTTCGGGCTTAGCCCGGA
65 TATAGTAAC-TAGCACAAATGCCATCGGGCTTAACCCGGA
50589032 CATCATTCAA
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
117 13 0.15
118 44 0.51
119 17 0.20
120 12 0.14
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCACAAATGCCATCGGGCTTAACCCGGATTTAGTAACTCGCACC
Found at i:50604630 original size:16 final size:16
Alignment explanation
Indices: 50604609--50604639 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50604599 TTAAATAACT
*
50604609 AAAATAAATAAACAAG
1 AAAATAAACAAACAAG
50604625 AAAATAAACAAACAA
1 AAAATAAACAAACAA
50604640 CTTAAATCGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.10, G:0.03, T:0.10
Consensus pattern (16 bp):
AAAATAAACAAACAAG
Found at i:50605320 original size:135 final size:135
Alignment explanation
Indices: 50605106--50605376 Score: 461
Period size: 135 Copynumber: 2.0 Consensus size: 135
50605096 TTGATGTCGA
* * * *
50605106 ATATAGAATGGAGTACTAAATCTCTCGATCGAAATAATGAATAATGTCGCTCACAAAGGTAGATA
1 ATATAGAACGGAGTAATAAATCTCTCAATCGAAATAATGAATAATGTCGCTCACAAAGGCAGATA
* * *
50605171 ATGGAAATAATTCAATATTAGAAAAGAATTTTTGGATAGAAACTGATTCCAAGAGGAAAATCAAA
66 ATGGAAATAATTCAATATTAGAAAAGAATTCTTGAATAGAAACCGATTCCAAGAGGAAAATCAAA
50605236 GAGTT
131 GAGTT
50605241 ATATAGAACGGAGTAATAAATCTCTCAATCGAAATAATGAATAATGTCGCTCACAAAGGCAGATA
1 ATATAGAACGGAGTAATAAATCTCTCAATCGAAATAATGAATAATGTCGCTCACAAAGGCAGATA
* *
50605306 ATGGAAATACTTCAATATTAGAAAAGAATTCTTGAATTGAAACCGATTCCAAGAGGAAAATCAAA
66 ATGGAAATAATTCAATATTAGAAAAGAATTCTTGAATAGAAACCGATTCCAAGAGGAAAATCAAA
50605371 GAGTT
131 GAGTT
50605376 A
1 A
50605377 ATGAAAAAAG
Statistics
Matches: 127, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
135 127 1.00
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.25
Consensus pattern (135 bp):
ATATAGAACGGAGTAATAAATCTCTCAATCGAAATAATGAATAATGTCGCTCACAAAGGCAGATA
ATGGAAATAATTCAATATTAGAAAAGAATTCTTGAATAGAAACCGATTCCAAGAGGAAAATCAAA
GAGTT
Found at i:50623721 original size:18 final size:19
Alignment explanation
Indices: 50623698--50623738 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
50623688 GTAGAAATTA
*
50623698 AAAACTACT-AAATTAAAT
1 AAAACTAATGAAATTAAAT
*
50623716 AAAACTAATGAAATTAAGT
1 AAAACTAATGAAATTAAAT
50623735 AAAA
1 AAAA
50623739 TAACCAAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.24
Consensus pattern (19 bp):
AAAACTAATGAAATTAAAT
Found at i:50630636 original size:23 final size:23
Alignment explanation
Indices: 50630605--50630655 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
50630595 ACCTACTTTC
* *
50630605 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
50630628 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
50630651 TTACA
1 TTACA
50630656 CAACCATACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:50638516 original size:15 final size:15
Alignment explanation
Indices: 50638496--50638531 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
50638486 AGGTTTTATT
50638496 ATTGCACCCAGGTAA
1 ATTGCACCCAGGTAA
**
50638511 ATTGCATTCAGGTAA
1 ATTGCACCCAGGTAA
50638526 ATTGCA
1 ATTGCA
50638532 TTCACGTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (15 bp):
ATTGCACCCAGGTAA
Found at i:50638532 original size:15 final size:15
Alignment explanation
Indices: 50638504--50638535 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
50638494 TTATTGCACC
50638504 CAGGTAAATTGCATT
1 CAGGTAAATTGCATT
50638519 CAGGTAAATTGCATT
1 CAGGTAAATTGCATT
50638534 CA
1 CA
50638536 CGTTAGTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (15 bp):
CAGGTAAATTGCATT
Found at i:50639543 original size:466 final size:466
Alignment explanation
Indices: 50638665--50639573 Score: 1611
Period size: 466 Copynumber: 2.0 Consensus size: 466
50638655 CAACAGTTAC
* *
50638665 CAAAAGCAGGTAGAGACCATTAAATTGGTCAAAAAGTTTTAATTTTTAATTATTACTTTGTGATT
1 CAAAAGCAGGTAGAGACCATTAAATTGGTCAAAAAGTTTTAAGTTTTAATTATTACTTCGTGATT
50638730 TTAGTTTATTTTATTTATGTTTTTGTTAAAGTTTGTTTTCCTTCCTTTTTGCAAAATAATTAAGT
66 TTAGTTTATTTTATTTATGTTTTTGTTAAAGTTTGTTTTCCTTCCTTTTTGCAAAATAATTAAGT
* * * *
50638795 ACTATTGTTGACGCATTGAAATTTTGCTATCAATGCATTCTATAATTCTGCACTACCATTTATAA
131 ACCATTGTCGACGCATTAAAATTTTCCTATCAATGCATTCTATAATTCTGCACTACCATTTATAA
* *
50638860 CTCATTAAAATTTTGGGAATTTCAGATTCCATCATTGGATCAAAAATCACTCAGCTGTTTGATCC
196 CTCATTAAAATTTTGGGAAATTCAGATTCCACCATTGGATCAAAAATCACTCAGCTGTTTGATCC
*
50638925 TTCTGAGTGGGCACAATTTCTATTAGACACAACTATTCTCGCCAGCTTTATATCTCTCCACAAAA
261 TTCTGAGCGGGCACAATTTCTATTAGACACAACTATTCTCGCCAGCTTTATATCTCTCCACAAAA
* * *
50638990 CAACACGCCTCTCCATCTTCCTCTTTTCACTCACTATAAATCCTCTTCCACTGTACCGACTATAA
326 CAACACGCCTCTCCATATTCCTCTTTTCACTCACTATAAATCCTCCTCCACTATACCGACTATAA
*
50639055 CGTATACAACCAACCATTTTTATTTCCTTCTCTTCTCAAGATCATATATTTTCCTTCATTTTTGG
391 AGTATACAACCAACCATTTTTATTTCCTTCTCTTCTCAAGATCATATATTTTCCTTCATTTTTGG
50639120 TCAATAGTGAT
456 TCAATAGTGAT
*
50639131 CAAAAGTAGGTAGAGACCATTAAATTGGTCAAAAAGTTTTAAGTTTTAATTATTACTTCGTGATT
1 CAAAAGCAGGTAGAGACCATTAAATTGGTCAAAAAGTTTTAAGTTTTAATTATTACTTCGTGATT
* *
50639196 TTAGTTTATTTTATTTATGTTTTTGTTAAAGTTTTTTTTCCTTCCTTTTTGCAGAATAATTAAGT
66 TTAGTTTATTTTATTTATGTTTTTGTTAAAGTTTGTTTTCCTTCCTTTTTGCAAAATAATTAAGT
* *
50639261 ACCATTGTCGACGCATTAAAATTTTCCTATCAATGCATTCTATAATTTTGTACTACCATTTATAA
131 ACCATTGTCGACGCATTAAAATTTTCCTATCAATGCATTCTATAATTCTGCACTACCATTTATAA
50639326 CTCATTAAAATTTTGGGAAATTCAGATTCCACCATTGGATCAAAAATCACTCAGCTGTTTGATCC
196 CTCATTAAAATTTTGGGAAATTCAGATTCCACCATTGGATCAAAAATCACTCAGCTGTTTGATCC
* * *
50639391 TTCTGAGCGGGCACAATTTCTATTGGACACAACTATTCTCGCCATCTTTATATCTCTCCATAAAA
261 TTCTGAGCGGGCACAATTTCTATTAGACACAACTATTCTCGCCAGCTTTATATCTCTCCACAAAA
50639456 CAACACGCCTCTCCATATTCCTCTTTTCACTCACTATAAATCCTCCTCCACTATACCGACTATAA
326 CAACACGCCTCTCCATATTCCTCTTTTCACTCACTATAAATCCTCCTCCACTATACCGACTATAA
* *
50639521 AGTATACAACCAACCATTTTTATTTCCTTCTCTTTTCAAGATCATATCTTTTC
391 AGTATACAACCAACCATTTTTATTTCCTTCTCTTCTCAAGATCATATATTTTC
50639574 AACTTTAAAC
Statistics
Matches: 420, Mismatches: 23, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
466 420 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (466 bp):
CAAAAGCAGGTAGAGACCATTAAATTGGTCAAAAAGTTTTAAGTTTTAATTATTACTTCGTGATT
TTAGTTTATTTTATTTATGTTTTTGTTAAAGTTTGTTTTCCTTCCTTTTTGCAAAATAATTAAGT
ACCATTGTCGACGCATTAAAATTTTCCTATCAATGCATTCTATAATTCTGCACTACCATTTATAA
CTCATTAAAATTTTGGGAAATTCAGATTCCACCATTGGATCAAAAATCACTCAGCTGTTTGATCC
TTCTGAGCGGGCACAATTTCTATTAGACACAACTATTCTCGCCAGCTTTATATCTCTCCACAAAA
CAACACGCCTCTCCATATTCCTCTTTTCACTCACTATAAATCCTCCTCCACTATACCGACTATAA
AGTATACAACCAACCATTTTTATTTCCTTCTCTTCTCAAGATCATATATTTTCCTTCATTTTTGG
TCAATAGTGAT
Found at i:50642505 original size:27 final size:27
Alignment explanation
Indices: 50642475--50642652 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
50642465 ATATTGAGTC
* * * *
50642475 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
50642502 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
50642529 CGCACACTTAGTGCTCCATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
50642557 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
50642584 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
50642611 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
50642638 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50642653 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:50642614 original size:82 final size:81
Alignment explanation
Indices: 50642496--50642651 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
50642486 TGCTATATAA
* **
50642496 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTCCATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
50642561 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
50642578 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
50642642 CACTTAGTGC
65 CACTTAGTGC
50642652 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:50650541 original size:27 final size:27
Alignment explanation
Indices: 50650494--50650670 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
50650484 ATATTGAGTC
* * * *
50650494 CGCACACTCA-TGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
50650520 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
50650547 CGCACACTTAGTGCTCCATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
50650575 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
50650602 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
50650629 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
50650656 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50650671 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
26 9 0.07
27 95 0.74
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:50650579 original size:55 final size:53
Alignment explanation
Indices: 50650514--50650670 Score: 197
Period size: 55 Copynumber: 2.9 Consensus size: 53
50650504 TGCTATATAA
* * *
50650514 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTCCATAG
1 TCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCT-CATAG
** * * *
50650568 TCAAACTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGCATCATAT
1 TC-AACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGC-TCATAG
**
50650623 TCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCT
1 TCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCT
50650671 GTACAATTTA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
53 1 0.01
54 41 0.47
55 45 0.51
56 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (53 bp):
TCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTCATAG
Found at i:50650634 original size:82 final size:81
Alignment explanation
Indices: 50650514--50650669 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
50650504 TGCTATATAA
* **
50650514 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTCCATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
50650579 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
50650596 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
50650660 CACTTAGTGC
65 CACTTAGTGC
50650670 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:50658561 original size:50 final size:50
Alignment explanation
Indices: 50658437--50658678 Score: 157
Period size: 50 Copynumber: 4.7 Consensus size: 50
50658427 GATAATAACA
* * * **
50658437 TGCCAAAGCCATGTCCCAAAAATGGTCTTACATGGGATGTTTCTTGTAT---
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTT-TCATATCGG
* * *
50658486 TGTCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTTTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTTTCATATCGG
* ** ** * *
50658536 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTTTCATATCGG
* *** * ** * *
50658586 TGCCAACGCCATGTTAAAGACATGGTCCTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTTTCAT-A--TC---GG
* *
50658642 TGCCAATGCCATGTTCCAAACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
50658679 TCGCATCACC
Statistics
Matches: 152, Mismatches: 32, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
47 4 0.03
48 4 0.03
49 32 0.21
50 77 0.51
53 2 0.01
56 33 0.22
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTTTCATATCGG
Found at i:50664709 original size:50 final size:50
Alignment explanation
Indices: 50664638--50664782 Score: 175
Period size: 50 Copynumber: 2.9 Consensus size: 50
50664628 GATAATAACA
* * **
50664638 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * * *
50664688 TGCCCATGCCATGTCCTAGACATAGTATTACAGGGGACCTCTCATTTCGG
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
50664738 TGCCAATGCCATGCCCTAGAAATGGTCTTATAT-GGACCTCTCATA
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATA
50664783 ATGTCAACGA
Statistics
Matches: 78, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
49 11 0.14
50 67 0.86
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:50664948 original size:13 final size:13
Alignment explanation
Indices: 50664930--50664954 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50664920 CTTAAGTAAA
50664930 CATTAAATAAATT
1 CATTAAATAAATT
50664943 CATTAAATAAAT
1 CATTAAATAAAT
50664955 ATATAATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (13 bp):
CATTAAATAAATT
Found at i:50668666 original size:54 final size:53
Alignment explanation
Indices: 50668553--50668666 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 53
50668543 TCGTCCTTTA
* * * *
50668553 TCTTCTTTCCCTACATAATGCCATAGTCCCAGACTAGGTCTTACATTATGTGG
1 TCTTCTTTCCCTACATAATGCCATAGTCCCAAACTAGGTCTTACACTATATAG
* * *
50668606 TATTCTTATCCCTATATGATGCCATAGTCCCAAACTAGGTCTTACACTATATAG
1 TCTTCTT-TCCCTACATAATGCCATAGTCCCAAACTAGGTCTTACACTATATAG
50668660 TCTTCTT
1 TCTTCTT
50668667 GCCATAGCCA
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 6 0.12
54 46 0.88
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (53 bp):
TCTTCTTTCCCTACATAATGCCATAGTCCCAAACTAGGTCTTACACTATATAG
Found at i:50675648 original size:15 final size:16
Alignment explanation
Indices: 50675621--50675650 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
50675611 GAGAACAATT
50675621 AATATATATTATATAA
1 AATATATATTATATAA
50675637 AATATA-ATTATATA
1 AATATATATTATATA
50675651 TTAGTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATATTATATAA
Found at i:50675892 original size:20 final size:21
Alignment explanation
Indices: 50675856--50675897 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
50675846 AATTGACCCT
50675856 TTTATTTGTCAAATTAA-AAA
1 TTTATTTGTCAAATTAAGAAA
*
50675876 TTTATTTTGTC-ACTTAAGAAA
1 TTTA-TTTGTCAAATTAAGAAA
50675897 T
1 T
50675898 ACTTTCTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (21 bp):
TTTATTTGTCAAATTAAGAAA
Found at i:50680693 original size:45 final size:45
Alignment explanation
Indices: 50680629--50680720 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
50680619 GAGTGAAGTG
* *
50680629 AGAGCATCCACTTCATGTATTCCTACGACTCGTCTTCTTGGCGCT
1 AGAGCATCCACTTCATGTATTCCTACGACTCCTCTTCCTGGCGCT
*
50680674 AGAGCATCCACTTCATGTATTCCTGCGACTCCTCTTCCTGGCGCT
1 AGAGCATCCACTTCATGTATTCCTACGACTCCTCTTCCTGGCGCT
50680719 AG
1 AG
50680721 TTGATTGGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.17, C:0.33, G:0.18, T:0.32
Consensus pattern (45 bp):
AGAGCATCCACTTCATGTATTCCTACGACTCCTCTTCCTGGCGCT
Found at i:50681075 original size:108 final size:108
Alignment explanation
Indices: 50680886--50681098 Score: 408
Period size: 108 Copynumber: 2.0 Consensus size: 108
50680876 TGCAATGCGG
50680886 GATTCCATAATGAGGGCACTTTCATAACAATTCTTTATACCTTTCTCACACCTCATACAAGGACT
1 GATTCCATAATGAGGGCACTTTCATAACAATTCTTTATACCTTTCTCACACCTCATACAAGGACT
50680951 TGTCATCCATCTATTGGAAGGTAGTGATCTCATTCTGCAATGA
66 TGTCATCCATCTATTGGAAGGTAGTGATCTCATTCTGCAATGA
* *
50680994 GATTCCATGATGAGGGCACTTTCGTAACAATTCTTTATACCTTTCTCACACCTCATACAAGGACT
1 GATTCCATAATGAGGGCACTTTCATAACAATTCTTTATACCTTTCTCACACCTCATACAAGGACT
50681059 TGTCATCCATCTATTGGAAGGTAGTGATCTCATTCTGCAA
66 TGTCATCCATCTATTGGAAGGTAGTGATCTCATTCTGCAA
50681099 CTTAGCATTC
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 103 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (108 bp):
GATTCCATAATGAGGGCACTTTCATAACAATTCTTTATACCTTTCTCACACCTCATACAAGGACT
TGTCATCCATCTATTGGAAGGTAGTGATCTCATTCTGCAATGA
Found at i:50688917 original size:21 final size:23
Alignment explanation
Indices: 50688875--50688917 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
50688865 TAATTAATCA
*
50688875 TAAACAGAAGCAAATCTCTTTTC
1 TAAACAGAAGCAAATATCTTTTC
*
50688898 TAAA-AGAAG-AAATATGTTTT
1 TAAACAGAAGCAAATATCTTTT
50688918 AAAAAATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (23 bp):
TAAACAGAAGCAAATATCTTTTC
Found at i:50692118 original size:18 final size:18
Alignment explanation
Indices: 50692080--50692129 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 18
50692070 ATCAAAACTT
50692080 GTTTCTCCAAAGTTTTAAA
1 GTTTCTCCAAA-TTTTAAA
*
50692099 GTTTCTCCAAATTTTTAA
1 GTTTCTCCAAATTTTAAA
*
50692117 GTTT-TCAAAATTT
1 GTTTCTCCAAATTT
50692130 AAGTTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.28
18 10 0.34
19 11 0.38
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.48
Consensus pattern (18 bp):
GTTTCTCCAAATTTTAAA
Found at i:50692142 original size:14 final size:15
Alignment explanation
Indices: 50692112--50692143 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
50692102 TCTCCAAATT
50692112 TTTAAGTTTTCAAAA
1 TTTAAGTTTTCAAAA
50692127 TTTAAGTTTT-AAAA
1 TTTAAGTTTTCAAAA
50692141 TTT
1 TTT
50692144 TTATTACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (15 bp):
TTTAAGTTTTCAAAA
Found at i:50692381 original size:27 final size:28
Alignment explanation
Indices: 50692329--50692381 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
50692319 GAAATAATTA
* *
50692329 AAATTCATTATGTTAATAATTTAAGTGC
1 AAATTAATTATGTTAATAATTAAAGTGC
*
50692357 AAATTAATTAT-TTTATAATTAAAGT
1 AAATTAATTATGTTAATAATTAAAGT
50692382 ATAAATTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (28 bp):
AAATTAATTATGTTAATAATTAAAGTGC
Found at i:50692387 original size:27 final size:28
Alignment explanation
Indices: 50692329--50692388 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 28
50692319 GAAATAATTA
* * *
50692329 AAATTCATTATGTTAATAATTTAAGTGC
1 AAATTAATTATGTTAATAATTAAAGTAC
* *
50692357 AAATTAATTAT-TTTATAATTAAAGTAT
1 AAATTAATTATGTTAATAATTAAAGTAC
50692384 AAATT
1 AAATT
50692389 CTGACAGAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (28 bp):
AAATTAATTATGTTAATAATTAAAGTAC
Found at i:50695925 original size:15 final size:15
Alignment explanation
Indices: 50695886--50695942 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
50695876 TCGGGGAAAT
*
50695886 TAAAAT-AAAATTAA
1 TAAAATAAAAATAAA
**
50695900 TAACCTAAAAATTAAA
1 TAAAATAAAAA-TAAA
* *
50695916 TCAAATAAAAATAAC
1 TAAAATAAAAATAAA
50695931 TAAAATAAAAAT
1 TAAAATAAAAAT
50695943 TCGTATCAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
14 4 0.12
15 18 0.55
16 11 0.33
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (15 bp):
TAAAATAAAAATAAA
Found at i:50709545 original size:40 final size:40
Alignment explanation
Indices: 50709462--50709554 Score: 98
Period size: 40 Copynumber: 2.3 Consensus size: 40
50709452 GCATTTTACG
** * * *
50709462 AAAAACGCTACAAAATATCAAGCATTAGCGGCGTTACATAA
1 AAAAACGCCGCAAAATACCAAGCATTAGCAGCGTTACA-CA
**
50709503 AAAAACGCCGCAAAA-ACCAAGCATTAGCAGCGTTTTACA
1 AAAAACGCCGCAAAATACCAAGCATTAGCAGCGTTACACA
*
50709542 AAAAGCGCCGCAA
1 AAAAACGCCGCAA
50709555 TAGAGTAACA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
39 13 0.30
40 18 0.41
41 13 0.30
ACGTcount: A:0.45, C:0.24, G:0.16, T:0.15
Consensus pattern (40 bp):
AAAAACGCCGCAAAATACCAAGCATTAGCAGCGTTACACA
Found at i:50711557 original size:16 final size:16
Alignment explanation
Indices: 50711536--50711566 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
50711526 ATTTTTTCTC
50711536 TTCTGAAATCCCTAAG
1 TTCTGAAATCCCTAAG
50711552 TTCTGAAATCCCTAA
1 TTCTGAAATCCCTAA
50711567 CTTCATTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.32
Consensus pattern (16 bp):
TTCTGAAATCCCTAAG
Found at i:50716869 original size:21 final size:21
Alignment explanation
Indices: 50716843--50716893 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
50716833 CTACAACTTA
* *
50716843 AAGCAGATGCGGCAGCAAGAG
1 AAGCAGAGGCAGCAGCAAGAG
*
50716864 AAGCAGAGGCAGCAGCGAGAG
1 AAGCAGAGGCAGCAGCAAGAG
*
50716885 AAGCTGAGG
1 AAGCAGAGG
50716894 TTCAACGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.37, C:0.18, G:0.41, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCAAGAG
Found at i:50716896 original size:87 final size:87
Alignment explanation
Indices: 50716777--50716974 Score: 274
Period size: 87 Copynumber: 2.3 Consensus size: 87
50716767 ACACAACTTA
* * * * *
50716777 AAGCGGAGGCAACATCGAGAGAAGCTGGGGTTCAA-AAAAGATATAAAGAACTCCAGCTA-CAAC
1 AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAA-ATATAAACAACTCCAGC-AGCAAC
50716840 TTAAAGCAGATGCGGCAGCAAGAG
64 TTAAAGCAGATGCGGCAGCAAGAG
* * *
50716864 AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAATATGAACAACTCCAGCAGCAGCTT
1 AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAATATAAACAACTCCAGCAGCAACTT
50716929 AAAGCAGATGCGGCAGCAAGAG
66 AAAGCAGATGCGGCAGCAAGAG
* *
50716951 AAGCAGAGGCTGCAGCGAGGGAAG
1 AAGCAGAGGCAGCAGCGAGAGAAG
50716975 TAGAGGCTGC
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
86 1 0.01
87 95 0.96
88 3 0.03
ACGTcount: A:0.39, C:0.19, G:0.31, T:0.11
Consensus pattern (87 bp):
AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAATATAAACAACTCCAGCAGCAACTT
AAAGCAGATGCGGCAGCAAGAG
Found at i:50716974 original size:21 final size:21
Alignment explanation
Indices: 50716930--50716999 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
50716920 CAGCAGCTTA
* * * *
50716930 AAGCAGATGCGGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
50716951 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
50716972 AAGTAGAGGCTGCAACGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
50716993 AAGCAGA
1 AAGCAGA
50717000 ATAGCTTAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.36, C:0.17, G:0.41, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:50717374 original size:43 final size:44
Alignment explanation
Indices: 50717313--50717649 Score: 372
Period size: 43 Copynumber: 7.8 Consensus size: 44
50717303 GTTTTTCTAA
* * *
50717313 AAGCGCCGCTAAAAACCATGAG-CTATAGCGGTGTTTGTTGGTT
1 AAGCGCCGCTAAAGACCATGAGTCTATAGCGGCGTTTGTTGGAT
50717356 AAGCGCCGCTAAAGACCATG-GTCTATAGCGGCGTTTGTATGG-T
1 AAGCGCCGCTAAAGACCATGAGTCTATAGCGGCGTTTGT-TGGAT
* * * *
50717399 CAGCGCCGCTAAAGACCAAGA-TCTATAGCGGCATTT-TATGGGT
1 AAGCGCCGCTAAAGACCATGAGTCTATAGCGGCGTTTGT-TGGAT
* * * *
50717442 AAACGCCGCTAAAGGCCATG-GGCTATAGCGGCGTTT-TATGGGT
1 AAGCGCCGCTAAAGACCATGAGTCTATAGCGGCGTTTGT-TGGAT
* * *
50717485 TAGCGCCGCTAAAGACCATG-GTCTATAGCGACGTTTGATGGAT
1 AAGCGCCGCTAAAGACCATGAGTCTATAGCGGCGTTTGTTGGAT
* * *
50717528 AAGCGCCGTTAAAGACCATG-GTCTATAGCGGTGTTTGATGGAT
1 AAGCGCCGCTAAAGACCATGAGTCTATAGCGGCGTTTGTTGGAT
* * *
50717571 AAGCGCCGCTAAAGGCCATGA-TCTATAGCGGCGTTTGATGGCT
1 AAGCGCCGCTAAAGACCATGAGTCTATAGCGGCGTTTGTTGGAT
* *
50717614 AAACGCCGCTAAAGACCCT-AGTCTATAGCGGCGTTT
1 AAGCGCCGCTAAAGACCATGAGTCTATAGCGGCGTTT
50717650 ATTATAAAAA
Statistics
Matches: 257, Mismatches: 29, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
42 7 0.03
43 247 0.96
44 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (44 bp):
AAGCGCCGCTAAAGACCATGAGTCTATAGCGGCGTTTGTTGGAT
Found at i:50717461 original size:86 final size:86
Alignment explanation
Indices: 50717313--50717649 Score: 435
Period size: 86 Copynumber: 3.9 Consensus size: 86
50717303 GTTTTTCTAA
* * * * * *
50717313 AAGCGCCGCTAAAAACCATGAGCTATAGCGGTGTTTGTTGGTTAAGCGCCGCTAAAGACCATGGT
1 AAGCGCCGCTAAAGACCATGATCTATAGCGGCGTTTGATGGATAAACGCCGCTAAAGACCATGGT
50717378 CTATAGCGGCGTTTGTATGGT
66 CTATAGCGGCGTTTGTATGGT
* * * * * * *
50717399 CAGCGCCGCTAAAGACCAAGATCTATAGCGGCATTTTATGGGTAAACGCCGCTAAAGGCCATGGG
1 AAGCGCCGCTAAAGACCATGATCTATAGCGGCGTTTGATGGATAAACGCCGCTAAAGACCATGGT
50717464 CTATAGCGGCGTTT-TATGGGT
66 CTATAGCGGCGTTTGTAT-GGT
* * * * *
50717485 TAGCGCCGCTAAAGACCATGGTCTATAGCGACGTTTGATGGATAAGCGCCGTTAAAGACCATGGT
1 AAGCGCCGCTAAAGACCATGATCTATAGCGGCGTTTGATGGATAAACGCCGCTAAAGACCATGGT
*
50717550 CTATAGCGGTGTTTG-ATGGAT
66 CTATAGCGGCGTTTGTATGG-T
* * * *
50717571 AAGCGCCGCTAAAGGCCATGATCTATAGCGGCGTTTGATGGCTAAACGCCGCTAAAGACCCTAGT
1 AAGCGCCGCTAAAGACCATGATCTATAGCGGCGTTTGATGGATAAACGCCGCTAAAGACCATGGT
50717636 CTATAGCGGCGTTT
66 CTATAGCGGCGTTT
50717650 ATTATAAAAA
Statistics
Matches: 214, Mismatches: 34, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
85 5 0.02
86 209 0.98
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (86 bp):
AAGCGCCGCTAAAGACCATGATCTATAGCGGCGTTTGATGGATAAACGCCGCTAAAGACCATGGT
CTATAGCGGCGTTTGTATGGT
Found at i:50717553 original size:129 final size:129
Alignment explanation
Indices: 50717316--50717649 Score: 431
Period size: 129 Copynumber: 2.6 Consensus size: 129
50717306 TTTCTAAAAG
** *
50717316 CGCCGCTAAAAACCATGAGCTATAGCGGTGTTTGT-T-GGTTAAGCGCCGCTAAAGACCATGGTC
1 CGCCGCTAAAGGCCATGAGCTATAGCGGCGTTT-TATGGGTT-AGCGCCGCTAAAGACCATGGTC
* * *
50717379 TATAGCGGCGTTTGTATGGTCAGCGCCGCTAAAGACCAAGATCTATAGCGGCATTTTATGGGTAA
64 TATAGCGGCGTTTGTATGGTAAGCGCCGCTAAAGACCAAGATCTATAGCGGCATTTGATGGATAA
50717444 A
129 A
*
50717445 CGCCGCTAAAGGCCATGGGCTATAGCGGCGTTTTATGGGTTAGCGCCGCTAAAGACCATGGTCTA
1 CGCCGCTAAAGGCCATGAGCTATAGCGGCGTTTTATGGGTTAGCGCCGCTAAAGACCATGGTCTA
* * * * ** *
50717510 TAGCGACGTTTG-ATGGATAAGCGCCGTTAAAGACCATGGTCTATAGCGGTGTTTGATGGATAAG
66 TAGCGGCGTTTGTATGG-TAAGCGCCGCTAAAGACCAAGATCTATAGCGGCATTTGATGGATAAA
* * * * * * *
50717574 CGCCGCTAAAGGCCATGATCTATAGCGGCGTTTGATGGCTAAACGCCGCTAAAGACCCTAGTCTA
1 CGCCGCTAAAGGCCATGAGCTATAGCGGCGTTTTATGGGTTAGCGCCGCTAAAGACCATGGTCTA
50717639 TAGCGGCGTTT
66 TAGCGGCGTTT
50717650 ATTATAAAAA
Statistics
Matches: 179, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
128 5 0.03
129 170 0.95
130 4 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (129 bp):
CGCCGCTAAAGGCCATGAGCTATAGCGGCGTTTTATGGGTTAGCGCCGCTAAAGACCATGGTCTA
TAGCGGCGTTTGTATGGTAAGCGCCGCTAAAGACCAAGATCTATAGCGGCATTTGATGGATAAA
Found at i:50718639 original size:17 final size:17
Alignment explanation
Indices: 50718610--50718642 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
50718600 TTTAAACAAT
50718610 AAATGTTAACTTATTTA
1 AAATGTTAACTTATTTA
50718627 AAAT-TTAACCTTATTT
1 AAATGTTAA-CTTATTT
50718643 GATTCTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.39, C:0.09, G:0.03, T:0.48
Consensus pattern (17 bp):
AAATGTTAACTTATTTA
Found at i:50721530 original size:14 final size:15
Alignment explanation
Indices: 50721511--50721543 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
50721501 ACACAATAAT
*
50721511 AGAAAGAAA-AAGAA
1 AGAAAGAAAGAAAAA
50721525 AGAAAGAAAGAAAAA
1 AGAAAGAAAGAAAAA
50721540 AGAA
1 AGAA
50721544 GGCTCTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AGAAAGAAAGAAAAA
Found at i:50726449 original size:50 final size:49
Alignment explanation
Indices: 50726360--50726454 Score: 111
Period size: 50 Copynumber: 1.9 Consensus size: 49
50726350 CATTGTCTTT
* * * * *
50726360 ATAGTCATGACATCCCCTATTGATGTCACGACATTAAGCTTCTATTTAC
1 ATAGTCATGACATCCCCTACTGAGGTCACAACATCAAGCTCCTATTTAC
*
50726409 ATAGTCATGATTCA-CCCCTACTGAGGTCGCAACATCAAGCTCCTAT
1 ATAGTCATGA--CATCCCCTACTGAGGTCACAACATCAAGCTCCTAT
50726455 CATCAAGGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
49 10 0.26
50 26 0.68
51 2 0.05
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (49 bp):
ATAGTCATGACATCCCCTACTGAGGTCACAACATCAAGCTCCTATTTAC
Found at i:50738310 original size:47 final size:47
Alignment explanation
Indices: 50738232--50738876 Score: 1040
Period size: 47 Copynumber: 13.6 Consensus size: 47
50738222 CCCTTCGGGA
* * * * *
50738232 CTTATCACA-ATTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATA-TATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
50738279 CCTGTCACATATCTACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50738326 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50738373 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50738420 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50738469 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50738516 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50738563 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50738610 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* **
50738657 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCTGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50738706 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50738753 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50738800 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50738849 CTTATCACATATATATACACTTTCACAT
1 CTTATCAC--ATATATACACTTTCACAT
50738877 CACAATTATC
Statistics
Matches: 560, Mismatches: 31, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
47 405 0.72
48 1 0.00
49 154 0.28
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50738488 original size:143 final size:141
Alignment explanation
Indices: 50738232--50738876 Score: 1031
Period size: 143 Copynumber: 4.5 Consensus size: 141
50738222 CCCTTCGGGA
* * * * * * * * *
50738232 CTTATCACA-ATTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATCTACA
1 CTTATCACATA-TATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
* *
50738296 CTTTCACATTCATCACATCGGCTATTAGGCCTCATCACATATATACACTTTCACATTCATCACAT
65 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
50738361 CGGCCATTAGGC
130 CGGCCATTAGGC
50738373 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
50738438 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
50738503 TCGGCTATTAGGC
129 TCGGCCATTAGGC
*
50738516 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
50738581 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
50738646 GGCCATTAGGC
131 GGCCATTAGGC
* **
50738657 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCTGCCTTATCACATATATAC
1 CTTATCACATATATAT--ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
50738722 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
50738787 TCGGCCATTAGGC
129 TCGGCCATTAGGC
50738800 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATAT--ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
50738865 ACACTTTCACAT
62 ACACTTTCACAT
50738877 CACAATTATC
Statistics
Matches: 471, Mismatches: 26, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
141 143 0.30
142 1 0.00
143 309 0.66
145 18 0.04
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:50738566 original size:190 final size:190
Alignment explanation
Indices: 50738232--50738876 Score: 1082
Period size: 190 Copynumber: 3.4 Consensus size: 190
50738222 CCCTTCGGGA
* * * * * * * *
50738232 CTTATCACAAT-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC-ATATCTAC
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATAC
*
50738295 ACTTTCACATTCATCACATCGGCTATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
50738360 TCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
* *
50738420 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-ATATATA
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATA
50738484 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
65 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
*
50738549 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
130 ATCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
50738610 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATA
* * **
50738674 CACTTTCACATTCATCACATTGGCCATTCTGCCTTATCACATATATACACTTTCACATTCATCAC
65 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
50738739 ATCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
130 ATCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
50738800 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATAT
50738865 ACACTTTCACAT
64 ACACTTTCACAT
50738877 CACAATTATC
Statistics
Matches: 436, Mismatches: 15, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
188 54 0.12
189 2 0.00
190 313 0.72
192 67 0.15
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (190 bp):
CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50738880 original size:237 final size:237
Alignment explanation
Indices: 50738232--50738878 Score: 1070
Period size: 237 Copynumber: 2.7 Consensus size: 237
50738222 CCCTTCGGGA
* * * * * * * *
50738232 CTTATCACA-ATTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATCTACA
1 CTTATCACATA-TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
* *
50738296 CTTTCACATTCATCACATCGGCTATTAGGCCTCATCACATATATACACTTTCACATTCATCACAT
65 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
50738361 CGGCCATTAGGCCTTATCACATATATAT--ACTTTCACATTCATCACATCGGCCATTAGGCCTTA
130 CGGCCATTAGGCCTTATCACATATATATACACTTT-ACA-TCATCACATCGGCCATTAGGCCTTA
50738424 TCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
193 TCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
50738469 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
50738534 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
50738599 GGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 GGCCATTAGGCCTTATCACATATATATACACTTT-ACA-TCATCACATCGGCCATTAGGCCTTAT
*
50738662 CACATATATATACACTTTCACATTCATCACATTGGCCATTCTGC
194 CACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
50738706 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
50738771 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
50738836 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATCA
129 TCGGCCATTAGGCCTTATCACATATATATACACTTT-ACATCA
50738879 CAATTATCCA
Statistics
Matches: 389, Mismatches: 14, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
235 6 0.02
237 315 0.81
238 1 0.00
239 47 0.12
240 3 0.01
241 17 0.04
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (237 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATATACACTTTACATCATCACATCGGCCATTAGGCCTTATCA
CATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Done.