Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 90 of 91
Found at i:15292876 original size:82 final size:82
Alignment explanation
Indices: 15292705--15292962 Score: 261
Period size: 82 Copynumber: 3.2 Consensus size: 82
15292695 TTTTGATGGA
* * * ** * * *
15292705 AATAATAATTTACTTGAGCAATGACTTGATACA-ATTTT-TGTT-TCACTCTTTCTTTAGTTGCT
1 AATAATAATTGACTTCAGCAACGACTTGGCACAGATTTTAT-TTCTCA-TGTTTATTTAGTTGCG
* *
15292767 AGTAGGGGGCCAAGGTGGC
64 ACTAGTGGGCCAAGGTGGC
* * * *
15292786 AATAATAATTGACTTCAGCAACGACTTGGCACGGTTTTTGTTTCTCATGTTTATTTGGTTGCGAC
1 AATAATAATTGACTTCAGCAACGACTTGGCACAGATTTTATTTCTCATGTTTATTTAGTTGCGAC
*
15292851 TGGTGGGCCAAGGTGGC
66 TAGTGGGCCAAGGTGGC
* * * * *
15292868 AATAATAATTGACTTCAGCAATGACTTGGTACAGATTTTATTTCTCTTTTTTATTTAGTTGCTAC
1 AATAATAATTGACTTCAGCAACGACTTGGCACAGATTTTATTTCTCATGTTTATTTAGTTGCGAC
** * *
15292933 TAGTGGGTTAATGTGAC
66 TAGTGGGCCAAGGTGGC
15292950 AATAATAATTGAC
1 AATAATAATTGAC
15292963 AAGAGCACAA
Statistics
Matches: 146, Mismatches: 28, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
81 27 0.18
82 115 0.79
83 4 0.03
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (82 bp):
AATAATAATTGACTTCAGCAACGACTTGGCACAGATTTTATTTCTCATGTTTATTTAGTTGCGAC
TAGTGGGCCAAGGTGGC
Found at i:15296714 original size:2 final size:2
Alignment explanation
Indices: 15296707--15296739 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15296697 AGTTGTGACC
15296707 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15296740 GTAACTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15297864 original size:13 final size:13
Alignment explanation
Indices: 15297848--15297873 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15297838 TAGTAAAATA
15297848 ACTTTAATAAAGT
1 ACTTTAATAAAGT
15297861 ACTTTAATAAAGT
1 ACTTTAATAAAGT
15297874 GGATGTAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
ACTTTAATAAAGT
Found at i:15298003 original size:109 final size:108
Alignment explanation
Indices: 15297875--15298097 Score: 349
Period size: 109 Copynumber: 2.1 Consensus size: 108
15297865 TAATAAAGTG
* * *
15297875 GATGTAATCTACTTTATTAAAGTAACTTTAATACAA-TTAACATAAAGTTAATGCTGTCATAAAA
1 GATGTAATCTACTTTATTAAAGTAACTTTAATA-AAGTCAACATAAAGTTAATGCTGACACAAAA
* * *
15297939 TTAACTTGAAATGGTAAACTTGTTTTGATATTGGAGTTGGTATT
65 TTAACTAGAAATGATAAACTTGTCTTGATATTGGAGTTGGTATT
15297983 GATGTACATCTACTTTATTAAAGTAACTTTAATAAAGTCAACATAAAGTTAATGCTGACACAAAA
1 GATGTA-ATCTACTTTATTAAAGTAACTTTAATAAAGTCAACATAAAGTTAATGCTGACACAAAA
* *
15298048 TTAACTAGAAATGATAAGCTTGTCTTGATATTGGAGTTGGTGTT
65 TTAACTAGAAATGATAAACTTGTCTTGATATTGGAGTTGGTATT
15298092 GATGTA
1 GATGTA
15298098 GAGGCTCGTG
Statistics
Matches: 105, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
108 8 0.08
109 97 0.92
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (108 bp):
GATGTAATCTACTTTATTAAAGTAACTTTAATAAAGTCAACATAAAGTTAATGCTGACACAAAAT
TAACTAGAAATGATAAACTTGTCTTGATATTGGAGTTGGTATT
Found at i:15299274 original size:8 final size:8
Alignment explanation
Indices: 15299261--15299314 Score: 63
Period size: 8 Copynumber: 6.6 Consensus size: 8
15299251 CTATACTTGA
15299261 AAAAAAAT
1 AAAAAAAT
15299269 AAAAAAAT
1 AAAAAAAT
*
15299277 CAAAAAAT
1 AAAAAAAT
*
15299285 CAAAAAAT
1 AAAAAAAT
*
15299293 GAAAAAAT
1 AAAAAAAT
*
15299301 GAGAAAAAT
1 -AAAAAAAT
15299310 AAAAA
1 AAAAA
15299315 GGAAGGACTC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
8 34 0.85
9 6 0.15
ACGTcount: A:0.80, C:0.04, G:0.06, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:15299297 original size:24 final size:24
Alignment explanation
Indices: 15299262--15299314 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
15299252 TATACTTGAA
15299262 AAAAAATAAAAAAATCA-AAAAAT
1 AAAAAATAAAAAAATCAGAAAAAT
* *
15299285 CAAAAAATGAAAAAATGAGAAAAAT
1 -AAAAAATAAAAAAATCAGAAAAAT
15299310 AAAAA
1 AAAAA
15299315 GGAAGGACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.79, C:0.04, G:0.06, T:0.11
Consensus pattern (24 bp):
AAAAAATAAAAAAATCAGAAAAAT
Found at i:15300391 original size:41 final size:41
Alignment explanation
Indices: 15300346--15300425 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
15300336 CCAAAAGTTG
*
15300346 TGGTGCCTCTGTTTAGAGAAGTAATTTATTTTTCAAAGTCA
1 TGGTGCCTCTGTTTAGAGAAGCAATTTATTTTTCAAAGTCA
15300387 TGGTGCCTCTGTTTAGAGAAGCAATTTATTTTTCAAAGT
1 TGGTGCCTCTGTTTAGAGAAGCAATTTATTTTTCAAAGT
15300426 TTAAAAGAGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.41
Consensus pattern (41 bp):
TGGTGCCTCTGTTTAGAGAAGCAATTTATTTTTCAAAGTCA
Found at i:15300483 original size:41 final size:41
Alignment explanation
Indices: 15300438--15300615 Score: 161
Period size: 41 Copynumber: 4.3 Consensus size: 41
15300428 AAAAGAGCTT
*
15300438 TTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCAG
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAG
** * **
15300479 TTTATTTTTCAAAGTTGTGGTATCTCTGTTTAGAGGACCTT
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAG
15300520 TTTA-TTTTCTAAAGTTGTGGTGCCTC----TAGAGGAGCA-
1 TTTATTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAGGAGCAG
* * * *
15300556 TTTATTTTTTTTAAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTG
1 TTTA---TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC--AG
15300602 TTTACTTTTTCAAA
1 TTTA-TTTTTCAAA
15300616 AAAAAAAGAT
Statistics
Matches: 109, Mismatches: 16, Indels: 21
0.75 0.11 0.14
Matches are distributed among these distances:
36 4 0.04
37 8 0.07
39 14 0.13
40 9 0.08
41 53 0.49
43 9 0.08
44 8 0.07
46 4 0.04
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.46
Consensus pattern (41 bp):
TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAG
Found at i:15300524 original size:109 final size:111
Alignment explanation
Indices: 15300321--15300535 Score: 276
Period size: 109 Copynumber: 2.0 Consensus size: 111
15300311 GATTGTCGAG
* *
15300321 GAGCATTTTTTTTTTCCAAAAGTTGTGGTGCCTCTGTTTAGAGAAGTAATTTATTTTTCAAAGTC
1 GAGCATTTTTTTTTTCCAAAAGTTATGGTGCCTCTGTTTAGAGAAGCAATTTATTTTTCAAAGTC
* *
15300386 ATGGTGCCTCTGTTTAGAGAAGCAATTTATTTT-TCAAAGTTTAAAA
66 ATGGTACCTCTGTTTAGAGAACCAATTTATTTTCT-AAAGTTTAAAA
* *
15300432 GAGC-TTTTTATTTTT-C-AAAGTTATGGTGCCTCTGTTTAGAGGAGCAGTTTATTTTTCAAAGT
1 GAGCATTTTT-TTTTTCCAAAAGTTATGGTGCCTCTGTTTAGAGAAGCAATTTATTTTTCAAAGT
** * * **
15300494 TGTGGTATCTCTGTTTAGAGGACCTTTTTATTTTCTAAAGTT
65 CATGGTACCTCTGTTTAGAGAACCAATTTATTTTCTAAAGTT
15300536 GTGGTGCCTC
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
109 74 0.82
110 7 0.08
111 9 0.10
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.45
Consensus pattern (111 bp):
GAGCATTTTTTTTTTCCAAAAGTTATGGTGCCTCTGTTTAGAGAAGCAATTTATTTTTCAAAGTC
ATGGTACCTCTGTTTAGAGAACCAATTTATTTTCTAAAGTTTAAAA
Found at i:15300595 original size:80 final size:79
Alignment explanation
Indices: 15300435--15300615 Score: 190
Period size: 80 Copynumber: 2.2 Consensus size: 79
15300425 TTTAAAAGAG
*
15300435 CTTTTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCAGTTTATTTTTCAAAGTTGTGGT
1 CTTTTTATTTTTCAAAGTTATGGTGCCTC---TTAGAGGAGCAGTTTATTTTTAAAAGTTGTGGT
*
15300500 ATCTCTGTTTAGAGGAC
63 ACCTCTGTTTAGAGGAC
* *
15300517 CTTTTTA-TTTTCTAAAGTTGTGGTGCCTC-TAGAGGAGCA-TTTATTTTTTTTAAAAGTTGTTG
1 CTTTTTATTTTTC-AAAGTTATGGTGCCTCTTAGAGGAGCAGTTTA---TTTTTAAAAGTTGTGG
15300579 -AGCCTCTGTTTAGAGGAGC
62 TA-CCTCTGTTTAGAGGA-C
*
15300598 TTTGTTTACTTTTTCAAA
1 CTT-TTTA-TTTTTCAAA
15300616 AAAAAAAGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 17
0.79 0.05 0.16
Matches are distributed among these distances:
77 4 0.05
78 10 0.12
79 1 0.01
80 28 0.33
81 8 0.09
82 26 0.31
83 3 0.04
84 5 0.06
ACGTcount: A:0.21, C:0.12, G:0.20, T:0.46
Consensus pattern (79 bp):
CTTTTTATTTTTCAAAGTTATGGTGCCTCTTAGAGGAGCAGTTTATTTTTAAAAGTTGTGGTACC
TCTGTTTAGAGGAC
Found at i:15300821 original size:5 final size:5
Alignment explanation
Indices: 15300811--15300835 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
15300801 ATTGTTTTGA
15300811 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
15300836 TTTATTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:15301977 original size:26 final size:24
Alignment explanation
Indices: 15301917--15301978 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
15301907 CAAATTACCC
* *
15301917 AATGATGAGATTCTTAGAAATTTCA
1 AATGA-GAAATTCTTAGAAATCTCA
*
15301942 AATGATAAATTCTTAAGAAATCTCTA
1 AATGAGAAATTCTT-AGAAATCTC-A
*
15301968 TATGAGAAATT
1 AATGAGAAATT
15301979 TGCTCTAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 7 0.23
25 13 0.43
26 10 0.33
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (24 bp):
AATGAGAAATTCTTAGAAATCTCA
Found at i:15311272 original size:20 final size:21
Alignment explanation
Indices: 15311247--15311300 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 21
15311237 ATTTTTTCAT
15311247 TAAAAAATTCAAAATTAT-TA
1 TAAAAAATTCAAAATTATATA
*
15311267 T-AAAAA-TC-ACA-TATATA
1 TAAAAAATTCAAAATTATATA
15311284 TAAAATAATTCAAAATT
1 TAAAA-AATTCAAAATT
15311301 TTTGGAGGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
16 3 0.12
17 5 0.19
18 5 0.19
19 7 0.27
20 3 0.12
21 2 0.08
22 1 0.04
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAAAAATTCAAAATTATATA
Found at i:15311915 original size:3 final size:3
Alignment explanation
Indices: 15311909--15311940 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
15311899 GTTTTTTATT
15311909 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
15311941 CTTGATCCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:15317026 original size:30 final size:30
Alignment explanation
Indices: 15316992--15317085 Score: 119
Period size: 30 Copynumber: 3.3 Consensus size: 30
15316982 CCAACTGTGG
15316992 CTGGCTCATTCATATCCCCAAGTTCTGTTT
1 CTGGCTCATTCATATCCCCAAGTTCTGTTT
* **
15317022 CTGGCTCATT--T-TCACCAA---CTGTGG
1 CTGGCTCATTCATATCCCCAAGTTCTGTTT
15317046 CTGGCTCATTCATATCCCCAAGTTCTGTTT
1 CTGGCTCATTCATATCCCCAAGTTCTGTTT
15317076 CTGGCTCATT
1 CTGGCTCATT
15317086 TTCACCATCT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
24 14 0.27
26 1 0.02
27 12 0.23
28 1 0.02
30 24 0.46
ACGTcount: A:0.16, C:0.30, G:0.16, T:0.38
Consensus pattern (30 bp):
CTGGCTCATTCATATCCCCAAGTTCTGTTT
Found at i:15317043 original size:24 final size:24
Alignment explanation
Indices: 15317016--15317097 Score: 74
Period size: 24 Copynumber: 3.2 Consensus size: 24
15317006 TCCCCAAGTT
15317016 CTGTTTCTGGCTCATTTTCACCAA
1 CTGTTTCTGGCTCATTTTCACCAA
** *
15317040 CTGTGGCTGGCTCATTCATATCCCCAA
1 CTGTTTCTGGCTCATT--T-TCACCAA
*
15317067 GTTCTGTTTCTGGCTCATTTTCACCAT
1 ---CTGTTTCTGGCTCATTTTCACCAA
15317094 CTGT
1 CTGT
15317098 GGCTTTTTCC
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
24 18 0.40
26 1 0.02
27 11 0.24
28 1 0.02
30 14 0.31
ACGTcount: A:0.15, C:0.29, G:0.16, T:0.40
Consensus pattern (24 bp):
CTGTTTCTGGCTCATTTTCACCAA
Found at i:15317049 original size:54 final size:54
Alignment explanation
Indices: 15316979--15317101 Score: 237
Period size: 54 Copynumber: 2.3 Consensus size: 54
15316969 ATCTGGCTCA
15316979 TCACCAACTGTGGCTGGCTCATTCATATCCCCAAGTTCTGTTTCTGGCTCATTT
1 TCACCAACTGTGGCTGGCTCATTCATATCCCCAAGTTCTGTTTCTGGCTCATTT
15317033 TCACCAACTGTGGCTGGCTCATTCATATCCCCAAGTTCTGTTTCTGGCTCATTT
1 TCACCAACTGTGGCTGGCTCATTCATATCCCCAAGTTCTGTTTCTGGCTCATTT
*
15317087 TCACCATCTGTGGCT
1 TCACCAACTGTGGCT
15317102 TTTTCCTGTG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.16, C:0.30, G:0.17, T:0.37
Consensus pattern (54 bp):
TCACCAACTGTGGCTGGCTCATTCATATCCCCAAGTTCTGTTTCTGGCTCATTT
Found at i:15321187 original size:29 final size:29
Alignment explanation
Indices: 15321123--15321193 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
15321113 AAATAATTGT
* *
15321123 TAAATTATAATAAATATTTAATATGATATT
1 TAAATTATAAT-AATATATAATATGATATC
* * * *
15321153 TGAATTTTAATAATCTATAATGTGATATC
1 TAAATTATAATAATATATAATATGATATC
15321182 TAAATTATAATA
1 TAAATTATAATA
15321194 TGTTAATTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
29 24 0.73
30 9 0.27
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (29 bp):
TAAATTATAATAATATATAATATGATATC
Found at i:15321329 original size:29 final size:30
Alignment explanation
Indices: 15321261--15321342 Score: 76
Period size: 29 Copynumber: 2.7 Consensus size: 30
15321251 TGATCACATT
* *
15321261 AAAATTAAATCTTATATTAATAAATAAATTTA
1 AAAATTAAATATCATATTAA-AAAT-AATTTA
* * *
15321293 TAATTTAAATATCATATTAAAAAT-TTTTA
1 AAAATTAAATATCATATTAAAAATAATTTA
* *
15321322 AAAATTAAATACCACATTAAA
1 AAAATTAAATATCATATTAAA
15321343 TTTTTTATTA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
29 21 0.51
31 4 0.10
32 16 0.39
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (30 bp):
AAAATTAAATATCATATTAAAAATAATTTA
Found at i:15322124 original size:61 final size:61
Alignment explanation
Indices: 15322009--15322126 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 61
15321999 TTTGCTAGAG
** *
15322009 ATTATTCAAGGCATTTTTACCAAAAAATGTCTTGAATAATCTCTTTCAAATTTTTTTCACA
1 ATTATTCAAGGCATTTTTACCAAAAAACATCTTGAATAATCTCATTCAAATTTTTTTCACA
** * * * **
15322070 ATTATTCAAGGTTTTTTTGCCAGAAAACATCTTGAATAATTTCATTCAGTTTTTTTT
1 ATTATTCAAGGCATTTTTACCAAAAAACATCTTGAATAATCTCATTCAAATTTTTTT
15322127 GGGATTATTC
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.46
Consensus pattern (61 bp):
ATTATTCAAGGCATTTTTACCAAAAAACATCTTGAATAATCTCATTCAAATTTTTTTCACA
Found at i:15322163 original size:59 final size:59
Alignment explanation
Indices: 15322039--15322242 Score: 173
Period size: 59 Copynumber: 3.4 Consensus size: 59
15322029 CAAAAAATGT
*** * * ** *
15322039 CTTGAATAATCTCT-TTCAAATTTTTTTCACAATTATTCAAGGTTTTTTTGCCAGAAAACAT
1 CTTGAATAATCT-TATTC-AATTTTTTT-GGGATTATTCAAGATGTTTTTATCAGAAAACAC
* * *
15322100 CTTGAATAAT-TTCATTCAGTTTTTTTTGGGATTATTCGAGGTGTTTTTAT-AGAAAACAC
1 CTTGAATAATCTT-ATTCA-ATTTTTTTGGGATTATTCAAGATGTTTTTATCAGAAAACAC
* * * *
15322159 CTTGAATAATCTTTTTTAATTTTTTTGGGATTATTCAAGATGTTTTTGTCATAAAACAC
1 CTTGAATAATCTTATTCAATTTTTTTGGGATTATTCAAGATGTTTTTATCAGAAAACAC
* * *
15322218 CTCGAATAATCCTCTT-AATTTTTTT
1 CTTGAATAATCTTATTCAATTTTTTT
15322243 TTTATGATTA
Statistics
Matches: 119, Mismatches: 19, Indels: 13
0.79 0.13 0.09
Matches are distributed among these distances:
58 36 0.30
59 43 0.36
60 20 0.17
61 20 0.17
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.47
Consensus pattern (59 bp):
CTTGAATAATCTTATTCAATTTTTTTGGGATTATTCAAGATGTTTTTATCAGAAAACAC
Found at i:15322236 original size:58 final size:58
Alignment explanation
Indices: 15322120--15322242 Score: 167
Period size: 58 Copynumber: 2.1 Consensus size: 58
15322110 TTCATTCAGT
* * * * *
15322120 TTTTTTTGGGATTATTCGAGGTGTTTTTATAGAAAACACCTTGAATAATCTTTTTTAA
1 TTTTTTTGGGATTATTCAAGATGTTTTTATAGAAAACACCTCGAATAATCTCTCTTAA
* *
15322178 TTTTTTTGGGATTATTCAAGATGTTTTTGTCATAAAACACCTCGAATAATC-CTCTTAA
1 TTTTTTTGGGATTATTCAAGATGTTTTTAT-AGAAAACACCTCGAATAATCTCTCTTAA
15322236 TTTTTTT
1 TTTTTTT
15322243 TTTATGATTA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 39 0.68
59 18 0.32
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.49
Consensus pattern (58 bp):
TTTTTTTGGGATTATTCAAGATGTTTTTATAGAAAACACCTCGAATAATCTCTCTTAA
Found at i:15322287 original size:61 final size:61
Alignment explanation
Indices: 15322222--15322363 Score: 171
Period size: 61 Copynumber: 2.3 Consensus size: 61
15322212 AAACACCTCG
*
15322222 AATAATCCTCTT-AATTTTTTTTTTATGATTATTCAAAGCATTTTTGCTAAAAAATGACTTA
1 AATAATCCTCTTCAATTTTTTTTTT-GGATTATTCAAAGCATTTTTGCTAAAAAATGACTTA
* *** * * *
15322283 AATAATCTTCTTCAAAAATTTTTTTGGATTATTCAATGCATTTTTGCTAGAAAATGCCTTA
1 AATAATCCTCTTCAATTTTTTTTTTGGATTATTCAAAGCATTTTTGCTAAAAAATGACTTA
*
15322344 GATAATACCT-TTCAATTTTT
1 AATAAT-CCTCTTCAATTTTT
15322364 GGGGGGATTA
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
61 55 0.83
62 11 0.17
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (61 bp):
AATAATCCTCTTCAATTTTTTTTTTGGATTATTCAAAGCATTTTTGCTAAAAAATGACTTA
Found at i:15322625 original size:71 final size:71
Alignment explanation
Indices: 15322533--15322671 Score: 215
Period size: 71 Copynumber: 2.0 Consensus size: 71
15322523 GTTTTATCTC
* * * *
15322533 GAATCAAGTTTGAGCTTAGTTTCAAGCTTCGATTTTTGAATCGAGCTCAAGCTCGAGCATCCCAA
1 GAATCAAGATTGAGCTAAGTTTCAAGCTTCAATTTTTGAATCGAGCTCAAGCTCAAGCATCCCAA
15322598 TGTCTT
66 TGTCTT
* * *
15322604 GAATCGAGATTGAGCTAAGTTTTAAGCTTCAATTTTTGAATCGAGCTTAAGCTCAAGCATCCCAA
1 GAATCAAGATTGAGCTAAGTTTCAAGCTTCAATTTTTGAATCGAGCTCAAGCTCAAGCATCCCAA
15322669 TGT
66 TGT
15322672 ACCAACTCGG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (71 bp):
GAATCAAGATTGAGCTAAGTTTCAAGCTTCAATTTTTGAATCGAGCTCAAGCTCAAGCATCCCAA
TGTCTT
Found at i:15325855 original size:14 final size:14
Alignment explanation
Indices: 15325836--15325862 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15325826 TAATAAAGAA
15325836 AAAATTAAAATAAC
1 AAAATTAAAATAAC
15325850 AAAATTAAAATAA
1 AAAATTAAAATAA
15325863 GGAATAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAATTAAAATAAC
Found at i:15325912 original size:4 final size:4
Alignment explanation
Indices: 15325903--15325927 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
15325893 TAATGGAATA
15325903 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
15325928 TACAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:15337149 original size:78 final size:79
Alignment explanation
Indices: 15336994--15337207 Score: 243
Period size: 78 Copynumber: 2.7 Consensus size: 79
15336984 ATTTTGGTGA
* * * * * * * * *
15336994 CAATAATAATTTACTGGAGCGATGACTTGGTACAAATTTTGTTTCTCTTTGTTTAGTTGCTAGTA
1 CAATAATAATTGACTTGAACAACGACTTGTTACAAATTTTTTTTCTCTTTATTTAGTTGCTACTA
* *
15337059 GCGGTCCAAGGTAG
66 ACGGGCCAAGGTAG
* * *
15337073 CATTAATAATTGATTTGAGCAACGACTTGTTA-AAACTTTTTTTTCT-TTTATTTAGTTGCTACT
1 CAATAATAATTGACTTGAACAACGACTTGTTACAAA-TTTTTTTTCTCTTTATTTAGTTGCTACT
15337136 AACGGGCCAAGGTAG
65 AACGGGCCAAGGTAG
* *
15337151 CAATAATAATTGACTTGAACAACGACTCGTTACAATTTTGTTTTTTCTCTTTATTTA
1 CAATAATAATTGACTTGAACAACGACTTGTTACAA-ATT-TTTTTTCTCTTTATTTA
15337208 ATTAAATTTA
Statistics
Matches: 113, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
78 59 0.52
79 38 0.34
80 8 0.07
81 8 0.07
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (79 bp):
CAATAATAATTGACTTGAACAACGACTTGTTACAAATTTTTTTTCTCTTTATTTAGTTGCTACTA
ACGGGCCAAGGTAG
Found at i:15337858 original size:24 final size:23
Alignment explanation
Indices: 15337831--15337881 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
15337821 TTCGTTGGTG
*
15337831 ACTTTTTATTTGTTCTATTGTTTT
1 ACTTTTTATTTGTTATATT-TTTT
* *
15337855 ACTTATTATTTTTTATATTTTTT
1 ACTTTTTATTTGTTATATTTTTT
15337878 -CTTT
1 ACTTT
15337882 ATTTTTATTC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 3 0.13
23 4 0.17
24 16 0.70
ACGTcount: A:0.16, C:0.08, G:0.04, T:0.73
Consensus pattern (23 bp):
ACTTTTTATTTGTTATATTTTTT
Found at i:15337882 original size:13 final size:14
Alignment explanation
Indices: 15337860--15337937 Score: 58
Period size: 13 Copynumber: 5.7 Consensus size: 14
15337850 GTTTTACTTA
*
15337860 TTATTTTTTATATT
1 TTATTCTTTATATT
15337874 TT-TTCTTTAT-TT
1 TTATTCTTTATATT
15337886 TTATTCTTT-TATT
1 TTATTCTTTATATT
*
15337899 TTCATTATTT-TATTT
1 TT-ATTCTTTATA-TT
*
15337914 TTATT-TTTATTTT
1 TTATTCTTTATATT
*
15337927 ATTATTATTTA
1 -TTATTCTTTA
15337938 AAAGTATTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
12 5 0.09
13 22 0.41
14 19 0.35
15 8 0.15
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (14 bp):
TTATTCTTTATATT
Found at i:15337890 original size:6 final size:6
Alignment explanation
Indices: 15337864--15337936 Score: 60
Period size: 6 Copynumber: 11.5 Consensus size: 6
15337854 TACTTATTAT
*
15337864 TTTTTA TATTTT- TTCTTTA TTTTTA TTCTTTTA TTTTCA TTATTTTA
1 TTTTTA T-TTTTA TT-TTTA TTTTTA -T-TTTTA TTTTTA -T-TTTTA
*
15337911 TTTTTA TTTTTA -TTTTA TTATTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT
15337937 AAAAGTATTT
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
5 6 0.11
6 30 0.55
7 10 0.18
8 9 0.16
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:15337898 original size:14 final size:13
Alignment explanation
Indices: 15337846--15337926 Score: 76
Period size: 14 Copynumber: 6.0 Consensus size: 13
15337836 TTATTTGTTC
*
15337846 TATTGTTTTACTTAT
1 TATT-TTTTA-TTTT
15337861 TATTTTTTATATTT
1 TATTTTTTAT-TTT
*
15337875 T-TTCTTTATTTT
1 TATTTTTTATTTT
15337887 TATTCTTTTATTTT
1 TATT-TTTTATTTT
*
15337901 CATTATTTTATTTT
1 TATT-TTTTATTTT
15337915 TA-TTTTTATTTT
1 TATTTTTTATTTT
15337927 ATTATTATTT
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
12 13 0.23
13 11 0.19
14 29 0.51
15 4 0.07
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.77
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:15337917 original size:20 final size:18
Alignment explanation
Indices: 15337865--15337936 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 18
15337855 ACTTATTATT
*
15337865 TTTTATATTTT-TTCTTTA
1 TTTTAT-TTTTATTTTTTA
15337883 TTTTTATTCTTTTATTTTCATTA
1 -TTTTA-T-TTTTATTTT--TTA
15337906 TTTTATTTTTA-TTTTTA
1 TTTTATTTTTATTTTTTA
*
15337923 TTTTATTATTATTT
1 TTTTATTTTTATTT
15337937 AAAAGTATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
17 13 0.29
18 2 0.04
19 8 0.18
20 10 0.22
21 4 0.09
22 5 0.11
23 3 0.07
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTATTTTTATTTTTTA
Found at i:15337936 original size:28 final size:28
Alignment explanation
Indices: 15337879--15337932 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
15337869 ATATTTTTTC
15337879 TTTATTTTTATTCTTTTATTTTCATTAT
1 TTTATTTTTATTCTTTTATTTTCATTAT
15337907 TTTATTTTTA-T-TTTTATTTT-ATTAT
1 TTTATTTTTATTCTTTTATTTTCATTAT
15337932 T
1 T
15337933 ATTTAAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 6 0.23
26 9 0.35
27 1 0.04
28 10 0.38
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.78
Consensus pattern (28 bp):
TTTATTTTTATTCTTTTATTTTCATTAT
Found at i:15338864 original size:3 final size:3
Alignment explanation
Indices: 15338856--15338907 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
15338846 AAATGATGGA
*
15338856 AAT AAT AAT AAT AAT AAT AAT AA- AAC AA- AAT AA- AAGTT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA--T AAT AAT
15338900 AAT AAT AA
1 AAT AAT AA
15338908 ATTTTAGAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
2 6 0.14
3 36 0.82
5 2 0.05
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:15339951 original size:75 final size:74
Alignment explanation
Indices: 15339828--15339977 Score: 273
Period size: 75 Copynumber: 2.0 Consensus size: 74
15339818 ACACCAAACC
*
15339828 ACTATACTTATTGCAAAATAAATGTATTATTGTTTCTCAAAAAGCCTATTACAATGACAATACAG
1 ACTATACTTATTGCAAAATAAATGTATTATTGTTTCTCAAAAAGCCTATTACAATGACAATACAA
15339893 AGGCTGGTTA
66 AGGC-GGTTA
*
15339903 ACTATACTTATTGCAAAATAAATGTATTATTGTTTCTCAAAGAGCCTATTACAATGACAATACAA
1 ACTATACTTATTGCAAAATAAATGTATTATTGTTTCTCAAAAAGCCTATTACAATGACAATACAA
15339968 AGGCGGTTA
66 AGGCGGTTA
15339977 A
1 A
15339978 AACTTTTTTT
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
74 6 0.08
75 67 0.92
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (74 bp):
ACTATACTTATTGCAAAATAAATGTATTATTGTTTCTCAAAAAGCCTATTACAATGACAATACAA
AGGCGGTTA
Found at i:15340930 original size:3 final size:3
Alignment explanation
Indices: 15340922--15340959 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
15340912 CCTAAAATTA
* *
15340922 TGT TGT TGT TGT TGT TGT TAT TGT TAT TGT TGT TGT TG
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TG
15340960 CTATTGTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.05, C:0.00, G:0.29, T:0.66
Consensus pattern (3 bp):
TGT
Found at i:15340951 original size:21 final size:21
Alignment explanation
Indices: 15340922--15340970 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
15340912 CCTAAAATTA
* *
15340922 TGTTGTTGTTGTTGTTGTTAT
1 TGTTATTGTTGTTGTTGCTAT
15340943 TGTTATTGTTGTTGTTGCTAT
1 TGTTATTGTTGTTGTTGCTAT
15340964 TGTTATT
1 TGTTATT
15340971 ATTATTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.08, C:0.02, G:0.24, T:0.65
Consensus pattern (21 bp):
TGTTATTGTTGTTGTTGCTAT
Found at i:15340999 original size:18 final size:17
Alignment explanation
Indices: 15340969--15341037 Score: 59
Period size: 19 Copynumber: 3.8 Consensus size: 17
15340959 GCTATTGTTA
*
15340969 TTATTATTATTTTCTATT
1 TTATT-TTATTTTTTATT
15340987 TTATTTTATTTTTTAGTTT
1 TTATTTTATTTTTTA--TT
15341006 TTATTTTAATTTTAGTT-TT
1 TTATTTT-ATTTT--TTATT
*
15341025 TTATATTATTTTT
1 TTATTTTATTTTT
15341038 GGGTTTCCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
16 1 0.02
17 9 0.20
18 10 0.23
19 17 0.39
20 5 0.11
22 2 0.05
ACGTcount: A:0.20, C:0.01, G:0.03, T:0.75
Consensus pattern (17 bp):
TTATTTTATTTTTTATT
Found at i:15341007 original size:19 final size:20
Alignment explanation
Indices: 15340985--15341037 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
15340975 TTATTTTCTA
15340985 TTTTATTTTATTTTTTAG-T
1 TTTTATTTTATTTTTTAGTT
*
15341004 TTTTATTTTA-ATTTTAGTT
1 TTTTATTTTATTTTTTAGTT
*
15341023 TTTTATATTATTTTT
1 TTTTATTTTATTTTT
15341038 GGGTTTCCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 6 0.21
19 20 0.69
20 3 0.10
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (20 bp):
TTTTATTTTATTTTTTAGTT
Found at i:15341033 original size:24 final size:23
Alignment explanation
Indices: 15340983--15341036 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
15340973 TATTATTTTC
*
15340983 TATTTTATTTTATTTTTTAGTTTT
1 TATTTTATTTTATTTTTTAG-TAT
15341007 TATTTTAATTTTAGTTTTTTA-TAT
1 TATTTT-ATTTTA-TTTTTTAGTAT
15341031 TATTTT
1 TATTTT
15341037 TGGGTTTCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 14 0.52
25 6 0.22
26 7 0.26
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (23 bp):
TATTTTATTTTATTTTTTAGTAT
Found at i:15341500 original size:2 final size:2
Alignment explanation
Indices: 15341493--15341552 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
15341483 CACCAAACAA
15341493 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
15341535 AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG
15341553 CCATATACAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15341760 original size:4 final size:4
Alignment explanation
Indices: 15341744--15341803 Score: 52
Period size: 4 Copynumber: 15.5 Consensus size: 4
15341734 GTTTTGCTAG
* * * * * *
15341744 TTAT TTGT TTAT TTAT TTTT TTAT TTCT ATAT TTAT TTAT TCAT TCA-
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
15341791 TTAT TT-T TTAT TT
1 TTAT TTAT TTAT TT
15341804 GGGGTTTTTT
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
3 5 0.11
4 39 0.89
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:15343319 original size:22 final size:22
Alignment explanation
Indices: 15343208--15343326 Score: 73
Period size: 22 Copynumber: 5.4 Consensus size: 22
15343198 TTTTGATTTT
* * * *
15343208 TACTATATTATTAGTAATTTAT
1 TACTAAATTATCAATAATTTAC
15343230 TACTAAATTATCAATAATTTAC
1 TACTAAATTATCAATAATTTAC
* *
15343252 T-CTTAAACTATCAATGATTTA-
1 TAC-TAAATTATCAATAATTTAC
* * **
15343273 TCAGTAAATTAT-TATGTTTTGAC
1 T-ACTAAATTATCAATAATTT-AC
* *
15343296 TACTATATTATCATTAATTTAC
1 TACTAAATTATCAATAATTTAC
*
15343318 TACTTAATT
1 TACTAAATT
15343327 TTTAATTATT
Statistics
Matches: 73, Mismatches: 18, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
21 8 0.11
22 60 0.82
23 5 0.07
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (22 bp):
TACTAAATTATCAATAATTTAC
Found at i:15345879 original size:13 final size:13
Alignment explanation
Indices: 15345828--15345879 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 13
15345818 AAAGGTAAAA
15345828 TTATATTTTATTC
1 TTATATTTTATTC
*
15345841 TTATAATTTTGAATTT
1 TTAT-ATTTT--ATTC
15345857 TTATTATTTTATTC
1 TTA-TATTTTATTC
*
15345871 ATATATTTT
1 TTATATTTT
15345880 GGATATTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
13 10 0.31
14 10 0.31
16 11 0.34
17 1 0.03
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (13 bp):
TTATATTTTATTC
Found at i:15347109 original size:17 final size:18
Alignment explanation
Indices: 15347082--15347126 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
15347072 AATTACTAAA
15347082 ATAATTTATTTTAAAAAT
1 ATAATTTATTTTAAAAAT
*
15347100 ATAA-TTATTTTTAAAAT
1 ATAATTTATTTTAAAAAT
* *
15347117 TTTATTTATT
1 ATAATTTATT
15347127 AATCATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATAATTTATTTTAAAAAT
Found at i:15353028 original size:9 final size:9
Alignment explanation
Indices: 15353002--15353030 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
15352992 CTGAGGCAAG
15353002 GAAAAAAAA
1 GAAAAAAAA
15353011 -AAAAAAAA
1 GAAAAAAAA
15353019 GAAAAAAAA
1 GAAAAAAAA
15353028 GAA
1 GAA
15353031 CTCTGGGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:15354758 original size:3 final size:3
Alignment explanation
Indices: 15354750--15354787 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
15354740 TACGTTTTTT
15354750 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
15354788 CTTGATTCCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:15358774 original size:52 final size:52
Alignment explanation
Indices: 15358689--15358842 Score: 190
Period size: 52 Copynumber: 3.0 Consensus size: 52
15358679 ATAACCATAT
* *
15358689 AAACTTACCCATTAAGAATCTCTTT-TCTCTTAGAATTCTTCTCCTGTAAGTC
1 AAACTTACCTATTAAGAATC-CTTTCTCTCTTAGAATTCTTCTCCTGCAAGTC
* * * *
15358741 AAACTTGCCTATTAAGAATCCCTTTCCCT-TTAGAATTCTTTTCTTGCAAGTC
1 AAACTTACCTATTAAGAAT-CCTTTCTCTCTTAGAATTCTTCTCCTGCAAGTC
**
15358793 AAACTTACCTATTAAGAAT-C-TTCTCTCTTAGAATTCTTCTTTTGCAAGTC
1 AAACTTACCTATTAAGAATCCTTTCTCTCTTAGAATTCTTCTCCTGCAAGTC
15358843 TTCTTGTCCA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
49 5 0.06
50 22 0.25
52 59 0.66
53 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (52 bp):
AAACTTACCTATTAAGAATCCTTTCTCTCTTAGAATTCTTCTCCTGCAAGTC
Found at i:15360212 original size:25 final size:25
Alignment explanation
Indices: 15360184--15360280 Score: 86
Period size: 25 Copynumber: 3.7 Consensus size: 25
15360174 TAATTTTTTT
15360184 ATTATTCAAGGCATTTTTTCTTGAG
1 ATTATTCAAGGCATTTTTTCTTGAG
* ***
15360209 ATTATTCAAGGTATTTTTTATTTCTTTTT
1 ATTATTCAAGGCA---TTT-TTTCTTGAG
* * *
15360238 ATTATTCAAGGCATTTTTGCTAGGG
1 ATTATTCAAGGCATTTTTTCTTGAG
*
15360263 ATTATTAAAGGCATTTTT
1 ATTATTCAAGGCATTTTT
15360281 ATCAAAAATG
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
25 33 0.58
26 3 0.05
28 3 0.05
29 18 0.32
ACGTcount: A:0.25, C:0.09, G:0.14, T:0.52
Consensus pattern (25 bp):
ATTATTCAAGGCATTTTTTCTTGAG
Found at i:15360233 original size:29 final size:29
Alignment explanation
Indices: 15360184--15360255 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
15360174 TAATTTTTTT
15360184 ATTATTCAAGGCA---TTT-TTTCTTGAG
1 ATTATTCAAGGCATTTTTTATTTCTTGAG
* ***
15360209 ATTATTCAAGGTATTTTTTATTTCTTTTT
1 ATTATTCAAGGCATTTTTTATTTCTTGAG
15360238 ATTATTCAAGGCATTTTT
1 ATTATTCAAGGCATTTTT
15360256 GCTAGGGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
25 12 0.32
28 3 0.08
29 23 0.61
ACGTcount: A:0.24, C:0.10, G:0.11, T:0.56
Consensus pattern (29 bp):
ATTATTCAAGGCATTTTTTATTTCTTGAG
Found at i:15360340 original size:60 final size:61
Alignment explanation
Indices: 15360263--15360497 Score: 185
Period size: 59 Copynumber: 3.9 Consensus size: 61
15360253 TTTGCTAGGG
***
15360263 ATTATTAAAGGCATTTTTATCA-AAAATGTCTTGAATAATCCCCTTCAATTTTTTTTGACA
1 ATTATTAAAGGCATTTTTATCAGAAAACACCTTGAATAATCCCCTTCAATTTTTTTTGACA
* ** * * *
15360323 ATTATTCAAA-GCTTTTTTATCAGAAAACACCTTGAATAATTTCGTTCAATTTTTTTGGA-G
1 ATTATT-AAAGGCATTTTTATCAGAAAACACCTTGAATAATCCCCTTCAATTTTTTTTGACA
** ** *** * **
15360383 ATTATTTGAGGTGTTTTTA-CAGAAAACACCTTGAATAATCTTTTTTAA-TTTTTTT-AGG
1 ATTATTAAAGGCATTTTTATCAGAAAACACCTTGAATAATCCCCTTCAATTTTTTTTGACA
* * * * * * *
15360441 ATTATTCAAGACGTTTTTGTTAGAAAACACCTCGAATAATCCCCTTAAATTTTTTTT
1 ATTATTAAAGGCATTTTTATCAGAAAACACCTTGAATAATCCCCTTCAATTTTTTTT
15360498 TTATGATTAT
Statistics
Matches: 140, Mismatches: 29, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
57 1 0.01
58 21 0.15
59 49 0.35
60 37 0.26
61 32 0.23
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (61 bp):
ATTATTAAAGGCATTTTTATCAGAAAACACCTTGAATAATCCCCTTCAATTTTTTTTGACA
Found at i:15360371 original size:61 final size:59
Alignment explanation
Indices: 15360292--15360520 Score: 185
Period size: 59 Copynumber: 3.8 Consensus size: 59
15360282 TCAAAAATGT
** *
15360292 CTTGAATAATCCCCTTCAATTTTTTTTGACAATTATTCAAAGCTTTTTTATCAGAAAACAC
1 CTTGAATAATTTCCTTCAATTTTTTTTGA-GATTATTC-AAGCTTTTTTATCAGAAAACAC
* * ** *
15360353 CTTGAATAATTTCGTTCAATTTTTTTGGAGATTATTTGAGGTGTTTTTA-CAGAAAACAC
1 CTTGAATAATTTCCTTCAATTTTTTTTGAGATTATTCAAGCT-TTTTTATCAGAAAACAC
* * * * * *
15360412 CTTGAATAATCTT-TTTTAATTTTTTTAG-GATTATTCAAGACGTTTTTGTTAGAAAACAC
1 CTTGAATAAT-TTCCTTCAATTTTTTTTGAGATTATTCAAG-CTTTTTTATCAGAAAACAC
* ** * * *
15360471 CTCGAATAATCCCCTTAAATTTTTTTTTTATGATTATTCAAAGCATTTTT
1 CTTGAATAATTTCCTTCAA-TTTTTTTTGA-GATTATTC-AAGCTTTTTT
15360521 GCTGGAAAAT
Statistics
Matches: 134, Mismatches: 25, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
58 14 0.10
59 57 0.43
60 21 0.16
61 25 0.19
62 14 0.10
63 3 0.02
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.45
Consensus pattern (59 bp):
CTTGAATAATTTCCTTCAATTTTTTTTGAGATTATTCAAGCTTTTTTATCAGAAAACAC
Found at i:15360681 original size:34 final size:33
Alignment explanation
Indices: 15360613--15360687 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 33
15360603 TGCCTTAGAT
*
15360613 AATACCTTTCAAGTTTTTTGGGGATTATTGAAA
1 AATACCTTTCAAGTTTTTTGGGGATTATTAAAA
* * **
15360646 AATATCTTTCAATTTTTTTTTGGATTATTCAAAA
1 AATACCTTTCAAGTTTTTTGGGGATTATT-AAAA
15360680 AATACCTT
1 AATACCTT
15360688 AAATAATCCC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
33 25 0.71
34 10 0.29
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (33 bp):
AATACCTTTCAAGTTTTTTGGGGATTATTAAAA
Found at i:15361730 original size:24 final size:24
Alignment explanation
Indices: 15361703--15361748 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
15361693 CCATTTTGTA
15361703 TTATTATTATTT-TTCTTTCTTTTC
1 TTATTATT-TTTCTTCTTTCTTTTC
*
15361727 TTATTATTTTTCTTTTTTCTTT
1 TTATTATTTTTCTTCTTTCTTT
15361749 CTTTTTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (24 bp):
TTATTATTTTTCTTCTTTCTTTTC
Found at i:15361927 original size:23 final size:23
Alignment explanation
Indices: 15361901--15361950 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
15361891 ATTTTGGGTT
15361901 GAAAATATGGGATTCGAATCTCA
1 GAAAATATGGGATTCGAATCTCA
* *
15361924 GAAAATCTGGGATTTGAATCTCA
1 GAAAATATGGGATTCGAATCTCA
15361947 GAAA
1 GAAA
15361951 GCTTTATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (23 bp):
GAAAATATGGGATTCGAATCTCA
Found at i:15362325 original size:12 final size:12
Alignment explanation
Indices: 15362308--15362332 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15362298 TCGACGACCA
15362308 ATGACGGCGGTG
1 ATGACGGCGGTG
15362320 ATGACGGCGGTG
1 ATGACGGCGGTG
15362332 A
1 A
15362333 CGATGACCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.16, G:0.48, T:0.16
Consensus pattern (12 bp):
ATGACGGCGGTG
Found at i:15362910 original size:10 final size:10
Alignment explanation
Indices: 15362895--15362920 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
15362885 ATAATTAAAT
15362895 AAAAATAATA
1 AAAAATAATA
15362905 AAAAATAATA
1 AAAAATAATA
15362915 AAAAAT
1 AAAAAT
15362921 GTAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAAATAATA
Found at i:15375295 original size:47 final size:47
Alignment explanation
Indices: 15375117--15375620 Score: 482
Period size: 47 Copynumber: 10.6 Consensus size: 47
15375107 TTTCGAGAAC
* * * * *
15375117 AGATGAATTTTTAAAGTTATTGAGCCTATGCTAAGAGGAACTTTTTCA
1 AGATGAA-TTTTAAAGTTGTTGAGCCTCTACTAAGATGAGCTTTTTCA
* * *
15375165 AGATGAGAATTTCTTTAAA---GTTGAGCATCTACTAAGAAGAGCTTTTCCA
1 AGAT--GAA--T-TTTAAAGTTGTTGAGCCTCTACTAAGATGAGCTTTTTCA
* * * *
15375214 AGATGAATTTTTAAAGTTATTGAGCCTTTGCTGAGATGAGCTTTTTCA
1 AGATGAA-TTTTAAAGTTGTTGAGCCTCTACTAAGATGAGCTTTTTCA
*
15375262 AGATGAATTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTCA
1 AGATGAATTTTAAAGTTGTTGAGCCTCTACTAAGATGAGCTTTTTCA
* * * * *
15375309 AGATAAATTTTAAAGTTGTTAAGCTTCT-CTTGATATGAGCTTTTTCA
1 AGATGAATTTTAAAGTTGTTGAGCCTCTAC-TAAGATGAGCTTTTTCA
* *
15375356 TGATGAATTTTAAAGTTGTTGAGCCTCTACTAAGA-GAAACTTTTTTC-
1 AGATGAATTTTAAAGTTGTTGAGCCTCTACTAAGATG-AGC-TTTTTCA
* * * * *
15375403 ATATGAATTTTTAAAGTTGTTGAGCTTCTACTGAGAGGAGCTTTTTGA
1 AGATGAA-TTTTAAAGTTGTTGAGCCTCTACTAAGATGAGCTTTTTCA
* * ** *
15375451 AGATGAATTTTAAAGTTATTGAGCCTTTACTGAA-AAAAGCTTTTTGA
1 AGATGAATTTTAAAGTTGTTGAGCCTCTACT-AAGATGAGCTTTTTCA
* * *
15375498 AGATGAATTTTAAAGTTATTGAGCCTCTACTAAGAGGAGCTTTTTTA
1 AGATGAATTTTAAAGTTGTTGAGCCTCTACTAAGATGAGCTTTTTCA
* * *
15375545 AGATGATTTTTAAAGTTATTGAACCTCTACTAAGATGAGCTTTTTCA
1 AGATGAATTTTAAAGTTGTTGAGCCTCTACTAAGATGAGCTTTTTCA
** * *
15375592 AGATGGCTTTTTAAAATTGTTGAACCTCT
1 AGAT-GAATTTTAAAGTTGTTGAGCCTCT
15375621 GTTTAGTGGA
Statistics
Matches: 387, Mismatches: 52, Indels: 34
0.82 0.11 0.07
Matches are distributed among these distances:
45 6 0.02
46 6 0.02
47 239 0.62
48 97 0.25
49 28 0.07
50 3 0.01
51 2 0.01
52 6 0.02
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.39
Consensus pattern (47 bp):
AGATGAATTTTAAAGTTGTTGAGCCTCTACTAAGATGAGCTTTTTCA
Found at i:15375605 original size:189 final size:186
Alignment explanation
Indices: 15375117--15375614 Score: 554
Period size: 189 Copynumber: 2.6 Consensus size: 186
15375107 TTTCGAGAAC
* *
15375117 AGATGAATTTTTAAAGTTATTGAGCCTATGCTAAGAGGAACTTTTTCAAGATGAGAATTTCTTTA
1 AGATGAA-TTTTAAAGTTATTGAGCCTCT-CTAAGAGGAGCTTTTTCAAGAT--G-A-TT-TTTA
* * * *
15375182 AAG--TTGAGCATCTACTAAGAAGAGCTTTTCCAAGATGAATTTTTAAAGTTATTGAGCCTTTGC
59 AAGTTTTGAGCCTCTACTAAG-AGAGCTTTTTCAAGATGAATTTTTAAAGTTGTTGAGCCTTTAC
* * * **
15375245 TGAGATGAGCTTTTTCAAGATGAATTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTCA
123 TGAGAGGAGCTTTTTCAAGATGAATTTTAAAGTTATTGAGCCTCTACTGAAAAAAGCTTTTTCA
* * * * * * * * *
15375309 AGATAAATTTTAAAGTTGTTAAGCTTCTCTTGATATGAGCTTTTTCATGATGAATTTTAAAGTTG
1 AGATGAATTTTAAAGTTATTGAGCCTCTC-TAAGAGGAGCTTTTTCAAGATGATTTTTAAAGTT-
* *
15375374 TTGAGCCTCTACTAAGAGAAACTTTTTTC-ATATGAATTTTTAAAGTTGTTGAG-CTTCTACTGA
64 TTGAGCCTCTACTAAGAG-AGC-TTTTTCAAGATGAATTTTTAAAGTTGTTGAGCCTT-TACTGA
* * *
15375437 GAGGAGCTTTTTGAAGATGAATTTTAAAGTTATTGAGCCTTTACTGAAAAAAGCTTTTTGA
126 GAGGAGCTTTTTCAAGATGAATTTTAAAGTTATTGAGCCTCTACTGAAAAAAGCTTTTTCA
*
15375498 AGATGAATTTTAAAGTTATTGAGCCTCTACTAAGAGGAGCTTTTTTAAGATGATTTTTAAAGTTA
1 AGATGAATTTTAAAGTTATTGAGCCTCT-CTAAGAGGAGCTTTTTCAAGATGATTTTTAAAGTT-
* ** *
15375563 TTGAACCTCTACTAAGATGAGCTTTTTCAAGATGGCTTTTTAAAATTGTTGA
64 TTGAGCCTCTACTAAGA-GAGCTTTTTCAAGATGAATTTTTAAAGTTGTTGA
15375615 ACCTCTGTTT
Statistics
Matches: 254, Mismatches: 42, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
186 7 0.03
187 1 0.00
188 12 0.05
189 187 0.74
190 8 0.03
191 33 0.13
192 6 0.02
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.40
Consensus pattern (186 bp):
AGATGAATTTTAAAGTTATTGAGCCTCTCTAAGAGGAGCTTTTTCAAGATGATTTTTAAAGTTTT
GAGCCTCTACTAAGAGAGCTTTTTCAAGATGAATTTTTAAAGTTGTTGAGCCTTTACTGAGAGGA
GCTTTTTCAAGATGAATTTTAAAGTTATTGAGCCTCTACTGAAAAAAGCTTTTTCA
Found at i:15375867 original size:3 final size:3
Alignment explanation
Indices: 15375859--15375910 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
15375849 TATTTTATAT
15375859 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15375907 TTA T
1 TTA T
15375911 ATTTTTTTCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15376102 original size:23 final size:23
Alignment explanation
Indices: 15376075--15376124 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
15376065 ATTTTGGGTT
15376075 GAAAATAT-GAGATTTGAATCCCA
1 GAAAATATAG-GATTTGAATCCCA
*
15376098 GAAAATCTAGGATTTGAATCCCA
1 GAAAATATAGGATTTGAATCCCA
15376121 GAAA
1 GAAA
15376125 GCTCTATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 24 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.14, G:0.18, T:0.24
Consensus pattern (23 bp):
GAAAATATAGGATTTGAATCCCA
Found at i:15384510 original size:29 final size:30
Alignment explanation
Indices: 15384401--15384510 Score: 100
Period size: 30 Copynumber: 3.7 Consensus size: 30
15384391 TTATTTATTT
* * *
15384401 AAATATAAAT-TAAAAATTAATTTAAATACA
1 AAATA-AAATATAAAAATTTATTTAAGTATA
* * * * *
15384431 CATTAAAGTATAAATATTTATTTGAGTATA
1 AAATAAAATATAAAAATTTATTTAAGTATA
*
15384461 AAATAAAATATAAAAAATTATTTAAGTA-A
1 AAATAAAATATAAAAATTTATTTAAGTATA
15384490 AAGA-AAAATATAAAAATTTAT
1 AA-ATAAAATATAAAAATTTAT
15384511 AACAATATAA
Statistics
Matches: 63, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
29 22 0.35
30 41 0.65
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.35
Consensus pattern (30 bp):
AAATAAAATATAAAAATTTATTTAAGTATA
Found at i:15384981 original size:13 final size:13
Alignment explanation
Indices: 15384946--15384984 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
15384936 TTTGTGTTCT
15384946 AAAAA-TATTTTA
1 AAAAATTATTTTA
15384958 AATAAATTTATTTTA
1 AA-AAA-TTATTTTA
15384973 AAAAATTATTTT
1 AAAAATTATTTT
15384985 TTATAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.08
13 10 0.42
14 3 0.12
15 9 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
AAAAATTATTTTA
Found at i:15384985 original size:14 final size:15
Alignment explanation
Indices: 15384951--15384984 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
15384941 GTTCTAAAAA
15384951 TATTTTAAATAAATT
1 TATTTTAAATAAATT
15384966 TATTTTAAA-AAA-T
1 TATTTTAAATAAATT
15384979 TATTTT
1 TATTTT
15384985 TTATAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
14 3 0.16
15 9 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTTTAAATAAATT
Found at i:15385002 original size:15 final size:14
Alignment explanation
Indices: 15384946--15385005 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 14
15384936 TTTGTGTTCT
15384946 AAAAA-TATTTTAA
1 AAAAATTATTTTAA
*
15384959 ATAAATTTATTTTAA
1 A-AAAATTATTTTAA
*
15384974 AAAATTATTTTTTATAA
1 AAAA--ATTATTT-TAA
15384991 AAAAATTA-TTTAA
1 AAAAATTATTTTAA
15385004 AA
1 AA
15385006 TGTTTTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
13 6 0.16
14 8 0.21
15 12 0.32
16 5 0.13
17 7 0.18
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AAAAATTATTTTAA
Found at i:15388783 original size:20 final size:20
Alignment explanation
Indices: 15388758--15388804 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
15388748 TTTTAGGTTG
* *
15388758 ATTTTTGGCATCATTTTAGA
1 ATTTTTGGAATCATTTTAAA
**
15388778 ATTTTTGGAATTTTTTTAAA
1 ATTTTTGGAATCATTTTAAA
15388798 ATTTTTG
1 ATTTTTG
15388805 AAATTTAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.04, G:0.13, T:0.57
Consensus pattern (20 bp):
ATTTTTGGAATCATTTTAAA
Found at i:15388809 original size:20 final size:20
Alignment explanation
Indices: 15388771--15388810 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15388761 TTTGGCATCA
* *
15388771 TTTTAGAATTTTTGGAATTT
1 TTTTAAAATTTTTGAAATTT
15388791 TTTTAAAATTTTTGAAATTT
1 TTTTAAAATTTTTGAAATTT
15388811 AAGTTTCAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (20 bp):
TTTTAAAATTTTTGAAATTT
Found at i:15394668 original size:29 final size:30
Alignment explanation
Indices: 15394600--15394681 Score: 76
Period size: 29 Copynumber: 2.7 Consensus size: 30
15394590 TGATCACATT
* *
15394600 AAAATTAAATCTTATATTAATAAATAAATTTA
1 AAAATTAAATATCATATTAA-AAAT-AATTTA
* * *
15394632 TAATTTAAATATCATATTAAAAAT-TTTTA
1 AAAATTAAATATCATATTAAAAATAATTTA
* *
15394661 AAAATTAAATACCACATTAAA
1 AAAATTAAATATCATATTAAA
15394682 TTTTTTATTA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
29 21 0.51
31 4 0.10
32 16 0.39
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (30 bp):
AAAATTAAATATCATATTAAAAATAATTTA
Found at i:15395298 original size:62 final size:56
Alignment explanation
Indices: 15395165--15395346 Score: 136
Period size: 57 Copynumber: 3.1 Consensus size: 56
15395155 CCTTAAAATT
* * * * **
15395165 TTTTTGACAAAAACACA-TTGAATAATCCTGT-TTTTTTTTTTATTATTATTCAAAGTG
1 TTTTTGACAAAAAAAAACTTAAATAAT-CT-TCTTTTTTTTTTA-TATTATTCAAGGCA
* *
15395222 TTTTTAACATAAAAATAACTTAAATAATACCCTTCACTTTTTTTTTTATATTATTCAAGGCA
1 TTTTTGACA-AAAAAAAACTTAAATAAT---CTT--CTTTTTTTTTTATATTATTCAAGGCA
* * * *
15395284 TTTTTGGCAAAAAAAACCTTGAATAATCTTGTTTAATTTTTTT-TATTATTCAAGGCA
1 TTTTTGACAAAAAAAAACTTAAATAATCTTCTTT--TTTTTTTATATTATTCAAGGCA
15395341 TTTTTG
1 TTTTTG
15395347 CTAGGGATTA
Statistics
Matches: 102, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
56 3 0.03
57 28 0.27
58 15 0.15
59 8 0.08
60 1 0.01
61 18 0.18
62 18 0.18
63 11 0.11
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.48
Consensus pattern (56 bp):
TTTTTGACAAAAAAAAACTTAAATAATCTTCTTTTTTTTTTATATTATTCAAGGCA
Found at i:15395561 original size:59 final size:60
Alignment explanation
Indices: 15395385--15395573 Score: 204
Period size: 59 Copynumber: 3.2 Consensus size: 60
15395375 AAAAAAATGT
* * ** * *
15395385 CTTGAATAATCTCTTTCAAATTTTTTTGACAATTATTCAAGGCTTTTTTGCCAAAAAATAC
1 CTTGAATAATTTTTTTC-AATTTTTTTGAGGATTATTCAAGGCGTTTTTGCCAAAAAACAC
* * * ** *
15395446 CTTGAATAATTTTATTCAA-TTTTTTGAGGGATTATTCGAGGTGTTTTT-ATACAAAACAC
1 CTTGAATAATTTTTTTCAATTTTTTTGA-GGATTATTCAAGGCGTTTTTGCCAAAAAACAC
* *
15395505 CTTGAATAATTTTTTTCAATTTTTTTGA-GATTATTCAAGACGTTTTTGCCAGAAAACAC
1 CTTGAATAATTTTTTTCAATTTTTTTGAGGATTATTCAAGGCGTTTTTGCCAAAAAACAC
*
15395564 CTCGAATAAT
1 CTTGAATAAT
15395574 CCCCTTAAAT
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
58 16 0.15
59 50 0.48
60 25 0.24
61 14 0.13
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.43
Consensus pattern (60 bp):
CTTGAATAATTTTTTTCAATTTTTTTGAGGATTATTCAAGGCGTTTTTGCCAAAAAACAC
Found at i:15395611 original size:118 final size:120
Alignment explanation
Indices: 15395385--15395611 Score: 253
Period size: 118 Copynumber: 1.9 Consensus size: 120
15395375 AAAAAAATGT
* * * *
15395385 CTTGAATAATCTCTTTCAAATTTTTTTGACAATTATTCAAGGCTTTTTTGCCAAAAAATACCTTG
1 CTTGAATAATCTCTTTCAAATTTTTTTGACAATTATTCAAGACGTTTTTGCCAAAAAACACCTCG
*** * * * **
15395450 AATAATTTTATTCAATTTTTTGAGGGATTATTCGAGGTGTTTTTATACAAAACAC
66 AATAATCCCATTAAATTTTTTGAGGGATTATTCAAAGCATTTTTATACAAAACAC
* * * *
15395505 CTTGAATAATTTTTTTC-AATTTTTTTGA-GATTATTCAAGACGTTTTTGCCAGAAAACACCTCG
1 CTTGAATAATCTCTTTCAAATTTTTTTGACAATTATTCAAGACGTTTTTGCCAAAAAACACCTCG
* * *
15395568 AATAATCCCCTTAAATTTTTTTTA-TGATTATTCAAAGCATTTTT
66 AATAATCCCATTAAA-TTTTTTGAGGGATTATTCAAAGCATTTTT
15395612 GCTAGAAAAT
Statistics
Matches: 87, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
118 54 0.62
119 18 0.21
120 15 0.17
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (120 bp):
CTTGAATAATCTCTTTCAAATTTTTTTGACAATTATTCAAGACGTTTTTGCCAAAAAACACCTCG
AATAATCCCATTAAATTTTTTGAGGGATTATTCAAAGCATTTTTATACAAAACAC
Found at i:15395619 original size:60 final size:60
Alignment explanation
Indices: 15395522--15395682 Score: 175
Period size: 60 Copynumber: 2.7 Consensus size: 60
15395512 AATTTTTTTC
* * * *
15395522 AATTTTTTTGA-GATTATTC-AAGACGTTTTTGCCAGAAAA-CACCTCGAATAATCCCCTTA
1 AATTTTTTTTATGATTATTCAAAG-CATTTTTGCTAGAAAATCA-CTCAAATAATCCCCTTA
* * * *
15395581 AATTTTTTTTATGATTATTCAAAGCATTTTTGCTAGAAAATGACTTAAATAATCCTCTTC
1 AATTTTTTTTATGATTATTCAAAGCATTTTTGCTAGAAAATCACTCAAATAATCCCCTTA
* * *
15395641 AATTTTTTTTTTGGATTATTCAATGTATTTTTGCTAGAAAAT
1 AATTTTTTTTAT-GATTATTCAAAGCATTTTTGCTAGAAAAT
15395683 GCTTTAGATA
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
59 10 0.11
60 46 0.53
61 31 0.36
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.44
Consensus pattern (60 bp):
AATTTTTTTTATGATTATTCAAAGCATTTTTGCTAGAAAATCACTCAAATAATCCCCTTA
Found at i:15395673 original size:61 final size:60
Alignment explanation
Indices: 15395519--15395709 Score: 190
Period size: 61 Copynumber: 3.2 Consensus size: 60
15395509 AATAATTTTT
* * * ** * ** *
15395519 TTCAATTTTTTTGA-GATTATTC-AAGACGTTTTTGCCAGAAAACACCTCGAATAATCCCC
1 TTCAATTTTTTTTATGATTATTCAAAG-CATTTTTGCTAGAAAATGCTTTAAATAATCCTC
*
15395578 TTAAATTTTTTTTATGATTATTCAAAGCATTTTTGCTAGAAAATGAC-TTAAATAATCCTC
1 TTCAATTTTTTTTATGATTATTCAAAGCATTTTTGCTAGAAAATG-CTTTAAATAATCCTC
* * * * * *
15395638 TTCAATTTTTTTTTTGGATTATTCAATGTATTTTTGCTAGAAAATGCTTTAGATAATACTT
1 TTCAATTTTTTTTAT-GATTATTCAAAGCATTTTTGCTAGAAAATGCTTTAAATAATCCTC
15395699 TTCAATTTTTT
1 TTCAATTTTTT
15395710 GGGGGATTAT
Statistics
Matches: 111, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
59 12 0.11
60 46 0.41
61 53 0.48
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.46
Consensus pattern (60 bp):
TTCAATTTTTTTTATGATTATTCAAAGCATTTTTGCTAGAAAATGCTTTAAATAATCCTC
Found at i:15396008 original size:71 final size:71
Alignment explanation
Indices: 15395878--15396012 Score: 191
Period size: 71 Copynumber: 1.9 Consensus size: 71
15395868 GTTTTACCTC
* * * * *
15395878 GAATCAAGTTTGAGCTTAGTTTCAAGCTTCGATTTTTGAATCAAGCTCGAGCTTGAGCATCCCAG
1 GAATCAAGATTGAGCTAAGTTTCAAGCTTCAATTTTTGAATCAAGCTCAAGCTTAAGCATCCCAG
15395943 TGTCTT
66 TGTCTT
* *
15395949 GAATCAAGATTGAGCTAAGTTTTAAGCTTCAATTTTTGAATCGAGCTCAAG-TTCAAGCATCCCA
1 GAATCAAGATTGAGCTAAGTTTCAAGCTTCAATTTTTGAATCAAGCTCAAGCTT-AAGCATCCCA
15396013 ATGTACCAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
70 2 0.04
71 54 0.96
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (71 bp):
GAATCAAGATTGAGCTAAGTTTCAAGCTTCAATTTTTGAATCAAGCTCAAGCTTAAGCATCCCAG
TGTCTT
Found at i:15402547 original size:15 final size:15
Alignment explanation
Indices: 15402523--15402554 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15402513 AATAACATAA
*
15402523 TTTGATTAATTCAAT
1 TTTGAATAATTCAAT
15402538 TTTGAATAATTCAAT
1 TTTGAATAATTCAAT
15402553 TT
1 TT
15402555 GTAATTAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (15 bp):
TTTGAATAATTCAAT
Found at i:15403749 original size:156 final size:153
Alignment explanation
Indices: 15403436--15403775 Score: 398
Period size: 156 Copynumber: 2.2 Consensus size: 153
15403426 TCGACTTTAT
* * *
15403436 GTATCACTGTTGCTTTCATCCTTCAACTTCCGAAGTCGAGGCCCGTAAAAAGAAACTCAGAGACA
1 GTATCACTGCTGCTTTCATCCTTCAACTTCAGAAGTCGAGGCCCGTAAAAAGAAACTCAAAGACA
** * *
15403501 AAAATTCAACTTCAGAAAAGGACGGTCAAGAGAACCCTAGAGATCTGAATTGCTTTAGATCATAT
66 AAAATTCAACTTCAGAAAAGGACAATCAAGAGAACCCTAGAGACCGGAATTGCTTTAGATCATAT
* * *
15403566 ATCAAGCATTTACTCGACGTCGC
131 ATCAAGCATTTACGCAACGTAGC
* * * *
15403589 GTATCATTGCTGCTTTCATCCTTCAACTTCAGAAGT-GCAGGTCCGTAAAAAGTACCTCAAAGA-
1 GTATCACTGCTGCTTTCATCCTTCAACTTCAGAAGTCG-AGGCCCGTAAAAAGAAACTCAAAGAC
* *
15403652 AGATAATTCAACTTCAGAAATGAAGGACAATGAAGAGAACCCTAGAGACCGGAATTGCTTTAGAT
65 A-AAAATTCAACTTCAG-AA--AAGGACAATCAAGAGAACCCTAGAGACCGGAATTGCTTTAGAT
* *
15403717 CATATATCAAGCGTTTACGCAACTTAAG-
126 CATATATCAAGCATTTACGCAACGT-AGC
* * ** *
15403745 GTATCACAGTTGCTGCCATCCTTCGACTTCA
1 GTATCACTGCTGCTTTCATCCTTCAACTTCA
15403776 CAAAAAAAGA
Statistics
Matches: 157, Mismatches: 24, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
152 2 0.01
153 68 0.43
154 2 0.01
156 84 0.54
157 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (153 bp):
GTATCACTGCTGCTTTCATCCTTCAACTTCAGAAGTCGAGGCCCGTAAAAAGAAACTCAAAGACA
AAAATTCAACTTCAGAAAAGGACAATCAAGAGAACCCTAGAGACCGGAATTGCTTTAGATCATAT
ATCAAGCATTTACGCAACGTAGC
Found at i:15404624 original size:29 final size:29
Alignment explanation
Indices: 15404579--15404657 Score: 74
Period size: 29 Copynumber: 2.8 Consensus size: 29
15404569 TAAAAACGAA
* * *
15404579 TAGAA-AAAAAATGAAATTCAAAATGTATG
1 TAGAATAAAATATTAAATTCAAAA-GAATG
* * *
15404608 TA-AATAAATTATTAAATTGAAAAGAATT
1 TAGAATAAAATATTAAATTCAAAAGAATG
15404636 TAGAATAAAATATT-AATTCAAA
1 TAGAATAAAATATTAAATTCAAA
15404658 TTTCAAAGAG
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
28 14 0.35
29 26 0.65
ACGTcount: A:0.58, C:0.03, G:0.09, T:0.30
Consensus pattern (29 bp):
TAGAATAAAATATTAAATTCAAAAGAATG
Found at i:15410300 original size:17 final size:16
Alignment explanation
Indices: 15410276--15410345 Score: 104
Period size: 17 Copynumber: 4.2 Consensus size: 16
15410266 CTAGGTTTCT
15410276 AAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
*
15410292 AAAATCCCCTTAAATCC
1 AAAA-CCCCTAAAATCC
*
15410309 AAACCCCCTAAAATCC
1 AAAACCCCTAAAATCC
15410325 AAAACCCCTTAAAATCC
1 AAAACCCC-TAAAATCC
15410342 AAAA
1 AAAA
15410346 TCTCAAACTT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
16 22 0.46
17 26 0.54
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:15410322 original size:33 final size:33
Alignment explanation
Indices: 15410280--15410344 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
15410270 GTTTCTAAAA
15410280 CCCCTAAAATCCAAAATCCCCTT-AAATCCAAAC
1 CCCCTAAAATCCAAAA-CCCCTTAAAATCCAAAC
15410313 CCCCTAAAATCCAAAACCCCTTAAAATCCAAA
1 CCCCTAAAATCCAAAACCCCTTAAAATCCAAA
15410345 ATCTCAAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 6 0.19
33 25 0.81
ACGTcount: A:0.45, C:0.38, G:0.00, T:0.17
Consensus pattern (33 bp):
CCCCTAAAATCCAAAACCCCTTAAAATCCAAAC
Found at i:15410383 original size:15 final size:15
Alignment explanation
Indices: 15410363--15410420 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 15
15410353 CTTTTAAACT
*
15410363 CTTAAATCTAAACCC
1 CTTAAATCAAAACCC
*
15410378 CTTAAATCCAAAATCC
1 CTTAAAT-CAAAACCC
* *
15410394 CTAAAATCCAAA-CC
1 CTTAAATCAAAACCC
15410408 CTTAAATCAAAAC
1 CTTAAATCAAAAC
15410421 TCCAAACCTC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
14 12 0.34
15 11 0.31
16 12 0.34
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (15 bp):
CTTAAATCAAAACCC
Found at i:15410439 original size:14 final size:15
Alignment explanation
Indices: 15410414--15410457 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 15
15410404 AACCCTTAAA
15410414 TCAAAACTCCAAACC
1 TCAAAACTCCAAACC
15410429 TCAAAAC-CCAAACC
1 TCAAAACTCCAAACC
15410443 -CTAAAATCTCCAAAC
1 TC-AAAA-CTCCAAAC
15410458 TTTAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 1 0.04
14 11 0.42
15 8 0.31
16 6 0.23
ACGTcount: A:0.48, C:0.39, G:0.00, T:0.14
Consensus pattern (15 bp):
TCAAAACTCCAAACC
Found at i:15412410 original size:15 final size:15
Alignment explanation
Indices: 15412390--15412422 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
15412380 GGTGGATGCT
*
15412390 ATGGATGTTTTATGG
1 ATGGATATTTTATGG
15412405 ATGGATATTTTATGG
1 ATGGATATTTTATGG
15412420 ATG
1 ATG
15412423 TTATAGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.45
Consensus pattern (15 bp):
ATGGATATTTTATGG
Found at i:15412497 original size:39 final size:39
Alignment explanation
Indices: 15412443--15412525 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 39
15412433 TTGATAGATG
*
15412443 TTTTATGATGTATTTGTTGAATGTTATCTAAATTTGATA
1 TTTTATGATGTATTTGATGAATGTTATCTAAATTTGATA
* *
15412482 TTTTATGATGTATTTGATGAATGTTATCTGAATTTTATA
1 TTTTATGATGTATTTGATGAATGTTATCTAAATTTGATA
15412521 TTTTA
1 TTTTA
15412526 ATAAATAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.28, C:0.02, G:0.14, T:0.55
Consensus pattern (39 bp):
TTTTATGATGTATTTGATGAATGTTATCTAAATTTGATA
Found at i:15414121 original size:17 final size:17
Alignment explanation
Indices: 15414099--15414147 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
15414089 TAATTTTACA
*
15414099 AATAATTTTTAAATTAT
1 AATAATTTTTAAATGAT
*
15414116 AATAATATTTAATATGAT
1 AATAATTTTTAA-ATGAT
*
15414134 AATTGATTTTTAAA
1 AA-TAATTTTTAAA
15414148 AGTTTTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 11 0.42
18 7 0.27
19 8 0.31
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (17 bp):
AATAATTTTTAAATGAT
Found at i:15414956 original size:59 final size:58
Alignment explanation
Indices: 15414858--15415240 Score: 509
Period size: 59 Copynumber: 6.4 Consensus size: 58
15414848 ATTGAATTAA
* *
15414858 TTCCCTAAAAATA-TTTTTTGGAAATTTCGATTT-TCAAGGAAAATTGATACTTTCAACTT
1 TTCCCCAAAAATATTTTTTTTGAAATTT--ATTTCT-AAGGAAAATTGATACTTTCAACTT
* ***
15414917 TTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTT
1 TTCCCCAAAAATATTTTTTTTG-AAATTTATTTCTAAGGAAAATTGATACTTTCAACTT
*
15414976 TTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTTAAGGAAAATTGATACTTTCAACTT
1 TTCCCCAAAAATATTTTTTTTGAAA-TTT-ATTTCTAAGGAAAATTGATACTTTCAACTT
15415036 TTCCCCAAAAATATATTTTTTTTGGAAATTTATTTTTCTTTTAAGGAAAATTGATACTTTCAACT
1 TTCCCC-AAAA-ATATTTTTTTT-GAAATTTA--TTTC---TAAGGAAAATTGATACTTTCAACT
15415101 T
58 T
* *
15415102 TTCCCTAAAAATATTTTTTTTCGAAATTTATTTCTGAGGAAAATTGATACTTTCAACTT
1 TTCCCCAAAAATATTTTTTTT-GAAATTTATTTCTAAGGAAAATTGATACTTTCAACTT
*
15415161 TTCCCCAAAAATATTTTTTTTTGAAATTTATTTCTGAGGAAAATTGATACTTTCAACTT
1 TTCCCCAAAAATA-TTTTTTTTGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTT
*
15415220 TTCCCTAAAAATATTTTTTTT
1 TTCCCCAAAAATATTTTTTTT
15415241 TTTGGAATTT
Statistics
Matches: 294, Mismatches: 16, Indels: 29
0.87 0.05 0.09
Matches are distributed among these distances:
58 11 0.04
59 143 0.49
60 51 0.17
61 11 0.04
62 18 0.06
63 7 0.02
64 19 0.06
65 4 0.01
66 30 0.10
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.46
Consensus pattern (58 bp):
TTCCCCAAAAATATTTTTTTTGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTT
Found at i:15415242 original size:185 final size:186
Alignment explanation
Indices: 15414888--15415247 Score: 577
Period size: 185 Copynumber: 1.9 Consensus size: 186
15414878 GAAATTTCGA
*
15414888 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTA
1 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACACTTTTTTTGAAAATTTATTTCTA
*
15414953 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTTAAGGAA
66 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTCTAAGGAA
15415018 AATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTTGGAAATTTATTTTTC
131 AATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTTGGAAATTTATTTTTC
* *
15415074 TTTT-AAGGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTTCG-AAATTTATTTC
1 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAAACACTTTTTTT-GAAAATTTATTTC
* *
15415136 TGAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAA-TTT-ATTTCTGAG
64 TAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGAAATTTTGATTTCTAAG
* *
15415199 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTTGGAA
128 GAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TATTTTTTTTGGAA
15415248 TTTTTTATTT
Statistics
Matches: 162, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
184 41 0.25
185 104 0.64
186 17 0.10
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (186 bp):
TTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACACTTTTTTTGAAAATTTATTTCTA
AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTCTAAGGAA
AATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTTGGAAATTTATTTTTC
Found at i:15415340 original size:16 final size:16
Alignment explanation
Indices: 15415319--15415360 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
15415309 AACCTAATCT
*
15415319 AATAAATAAA-AATTAA
1 AATAAATAAAGAAAT-A
*
15415335 AATAAACAAAGAAATA
1 AATAAATAAAGAAATA
15415351 AATAAATAAA
1 AATAAATAAA
15415361 TAAAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (16 bp):
AATAAATAAAGAAATA
Found at i:15415833 original size:31 final size:31
Alignment explanation
Indices: 15415795--15415865 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
15415785 ACTGGGCAGG
* ** *
15415795 TCGCCGGAAACTTCAATGTTGGCCGGAATTT
1 TCGCCGGAAAATTCAAACTTCGCCGGAATTT
15415826 TCGCCGGAAAATTCAAACTTCGCCGGAATTT
1 TCGCCGGAAAATTCAAACTTCGCCGGAATTT
*
15415857 TCGTCGGAA
1 TCGCCGGAA
15415866 TCTGGAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (31 bp):
TCGCCGGAAAATTCAAACTTCGCCGGAATTT
Found at i:15415928 original size:26 final size:25
Alignment explanation
Indices: 15415874--15415926 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
15415864 AATCTGGAAA
*
15415874 TTTCCCAGAAATTTCCAGAAAAAAT
1 TTTCCCAAAAATTTCCAGAAAAAAT
*
15415899 TTTCGCCAAAAATTTCTA-AAAAAAT
1 TTTC-CCAAAAATTTCCAGAAAAAAT
15415924 TTT
1 TTT
15415927 TCTCACTCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (25 bp):
TTTCCCAAAAATTTCCAGAAAAAAT
Found at i:15416440 original size:3 final size:3
Alignment explanation
Indices: 15416432--15416461 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
15416422 AAAGATATAC
15416432 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15416462 GAATACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15416475 original size:14 final size:14
Alignment explanation
Indices: 15416434--15416475 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
15416424 AGATATACAT
*
15416434 AATAATAATAATAAT
1 AATAATAATAAT-AG
15416449 AATAATAATAATAG
1 AATAATAATAATAG
15416463 AATACATAA-AATA
1 AATA-ATAATAATA
15416476 CAAAAGAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (14 bp):
AATAATAATAATAG
Found at i:15417372 original size:1 final size:1
Alignment explanation
Indices: 15417366--15417393 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
15417356 TCAACAAAGT
15417366 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
15417394 GCTTTGGACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:15417885 original size:13 final size:13
Alignment explanation
Indices: 15417862--15417903 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
15417852 ATATTTTGTT
15417862 AATATTTTATTAAA
1 AATA-TTTATTAAA
15417876 AATATTTATTTAAA
1 AATATTTA-TTAAA
*
15417890 AATATATATTAAA
1 AATATTTATTAAA
15417903 A
1 A
15417904 TTTATTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AATATTTATTAAA
Found at i:15417971 original size:14 final size:13
Alignment explanation
Indices: 15417952--15417993 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
15417942 TGACAAGACC
15417952 TTTTAATTTATTGA
1 TTTTAATTT-TTGA
*
15417966 TTTTAATTTTTTA
1 TTTTAATTTTTGA
15417979 TTTTAATTTTT-A
1 TTTTAATTTTTGA
15417991 TTT
1 TTT
15417994 AATCATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 4 0.15
13 14 0.52
14 9 0.33
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTTAATTTTTGA
Found at i:15417983 original size:13 final size:13
Alignment explanation
Indices: 15417952--15417993 Score: 59
Period size: 12 Copynumber: 3.2 Consensus size: 13
15417942 TGACAAGACC
*
15417952 TTTTAATTTATTGA
1 TTTTAATTT-TTTA
15417966 TTTTAATTTTTTA
1 TTTTAATTTTTTA
15417979 TTTTAA-TTTTTA
1 TTTTAATTTTTTA
15417991 TTT
1 TTT
15417994 AATCATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 9 0.33
13 9 0.33
14 9 0.33
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTTAATTTTTTA
Found at i:15418212 original size:28 final size:28
Alignment explanation
Indices: 15418152--15418212 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
15418142 TTAAATTATA
*
15418152 ATAAAATATTTAATATGATATTTAATTT
1 ATAAAATATTTAATATGATATTTAAATT
* *
15418180 TTAAAATTTTTAATATGATATTTAAATT
1 ATAAAATATTTAATATGATATTTAAATT
15418208 ATAAA
1 ATAAA
15418213 TTTATTTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (28 bp):
ATAAAATATTTAATATGATATTTAAATT
Found at i:15424854 original size:73 final size:73
Alignment explanation
Indices: 15424777--15424924 Score: 199
Period size: 73 Copynumber: 2.0 Consensus size: 73
15424767 CGTCATTCTA
* * ** * *
15424777 ATGTCGCAATCAAAG-TTCTTGTTTATTGCATCATCAATTCAGCTAACTGTGGGGAATTTAATTA
1 ATGTCGCAACCAAAGCTT-TTGTTCACGGCATCATCAATTCAGCCAACTATGGGGAATTTAATTA
15424841 TTGACATTG
65 TTGACATTG
* * *
15424850 ATGTCGCAACCAAAGCTTTTGTTCACGGCATCATCAATTCATCCACCTATGTGGAATTTAATTAT
1 ATGTCGCAACCAAAGCTTTTGTTCACGGCATCATCAATTCAGCCAACTATGGGGAATTTAATTAT
15424915 TGACATTG
66 TGACATTG
15424923 AT
1 AT
15424925 TTGATTATAT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
73 63 0.97
74 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.36
Consensus pattern (73 bp):
ATGTCGCAACCAAAGCTTTTGTTCACGGCATCATCAATTCAGCCAACTATGGGGAATTTAATTAT
TGACATTG
Found at i:15428591 original size:20 final size:20
Alignment explanation
Indices: 15428563--15428604 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
15428553 AATTGATTGG
*
15428563 ATTTAAAAATTGAATTTTTT
1 ATTTAAAAATTGAAATTTTT
* *
15428583 ATTTTAAAATTTAAATTTTT
1 ATTTAAAAATTGAAATTTTT
15428603 AT
1 AT
15428605 AATAACAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
ATTTAAAAATTGAAATTTTT
Found at i:15429451 original size:21 final size:21
Alignment explanation
Indices: 15429422--15429461 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15429412 AATAGGGTAA
*
15429422 TCCTATTTACATCCCATTTTT
1 TCCTATTTACACCCCATTTTT
*
15429443 TCCTCTTTACACCCCATTT
1 TCCTATTTACACCCCATTT
15429462 CTCACTACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.35, G:0.00, T:0.47
Consensus pattern (21 bp):
TCCTATTTACACCCCATTTTT
Found at i:15430840 original size:45 final size:45
Alignment explanation
Indices: 15430764--15430896 Score: 171
Period size: 45 Copynumber: 2.9 Consensus size: 45
15430754 AACAAGTCTT
* *
15430764 ATGTCATGCATTTTTCGCAAATTAA-TAAGAAAATGATGTATCTC
1 ATGTCATGCATTTTTCGCAAATAAATTAAGAAAATGATGTATCTA
* **
15430808 ATGTCATGCATTTTTTGCAAATAAATTAAGAAAATGA-CAAGTCTA
1 ATGTCATGCATTTTTCGCAAATAAATTAAGAAAATGATGTA-TCTA
*
15430853 ATGTAATGCATTTTTCGCAAAATAAATTAAGAAAATGATAGTAT
1 ATGTCATGCATTTTTCGC-AAATAAATTAAGAAAATGAT-GTAT
15430897 GAAAATGGTA
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
44 24 0.32
45 30 0.40
46 19 0.25
47 1 0.01
48 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (45 bp):
ATGTCATGCATTTTTCGCAAATAAATTAAGAAAATGATGTATCTA
Found at i:15431129 original size:46 final size:46
Alignment explanation
Indices: 15431023--15431203 Score: 278
Period size: 46 Copynumber: 4.0 Consensus size: 46
15431013 TCACATGAAC
* * *
15431023 AAGTCTCATGTCAA-GCTTTTTTCGCAAATCAA-TAAGAAAATGA-T
1 AAGTCTAATGT-AATGCATTTTTCGCAAATAAATTAAGAAAATGATT
*
15431067 AAGTCTCATGTAATGCATTTTTCGCAAATAAATTAAGAAAATGATT
1 AAGTCTAATGTAATGCATTTTTCGCAAATAAATTAAGAAAATGATT
15431113 AAGTCTAATGTAATGCATTTTTCGCAAATAAATTAAGAAAATGATT
1 AAGTCTAATGTAATGCATTTTTCGCAAATAAATTAAGAAAATGATT
* *
15431159 AAGTCTAATGTGATGCATTTTTCCCAAATAAATTAAGAAAATGAT
1 AAGTCTAATGTAATGCATTTTTCGCAAATAAATTAAGAAAATGAT
15431204 AGTATGAAAA
Statistics
Matches: 129, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
43 2 0.02
44 27 0.21
45 11 0.09
46 89 0.69
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (46 bp):
AAGTCTAATGTAATGCATTTTTCGCAAATAAATTAAGAAAATGATT
Found at i:15431380 original size:313 final size:312
Alignment explanation
Indices: 15430757--15431470 Score: 1175
Period size: 313 Copynumber: 2.3 Consensus size: 312
15430747 TCACATGAAC
* * * *
15430757 AAGTCTTATGTCATGCATTTTTCGCAAATTAATAAGAAAATGATGT-A-TCTCATGTCATGCATT
1 AAGTCTCATGTCATGCATTTTTCGCAAATAAATAAGAAAATGAT-TAAGTCTAATGTAATGCATT
*
15430820 TTTTGCAAATAAATTAAGAAAATGA-CAAGTCTAATGTAATGCATTTTTCGCAAAATAAATTAAG
65 TTTCGCAAATAAATTAAGAAAATGATCAAGTCTAATGTAATGCATTTTTCGCAAAATAAATTAAG
*
15430884 AAAATGATAGTATGAAAATGGTATTTGCAAACATGGAATAATGGAAATTTCGTAAAATCCTTCCT
130 AAAATGATAGTATGAAAATGGCATTTGCAAACATGGAATAATGGAAATTTCGTAAAATCCTTCCT
*
15430949 TTAGTGGTAGCTTTTCTCTGTTTGGGTCACATTAATTCATCTGTGGTAGGCTGACTTCCCCTTTT
195 TTAGTGGCAGCTTTTCTCTGTTTGGGTCACATTAATTCATCTGTGGTAGGCTGACTTCCCCTTTT
*
15431014 CACATGAACAAGTCTCATGTCAAGCTTTTTTCGCAAATCAATAAGAAAATGAT
260 CACACGAACAAGTCTCATGTCAAGCTTTTTTCGCAAATCAATAAGAAAATGAT
*
15431067 AAGTCTCATGTAATGCATTTTTCGCAAATAAATTAAGAAAATGATTAAGTCTAATGTAATGCATT
1 AAGTCTCATGTCATGCATTTTTCGCAAATAAA-TAAGAAAATGATTAAGTCTAATGTAATGCATT
* * *
15431132 TTTCGCAAATAAATTAAGAAAATGATTAAGTCTAATGTGATGCATTTTTC-CCAAATAAATTAAG
65 TTTCGCAAATAAATTAAGAAAATGATCAAGTCTAATGTAATGCATTTTTCGCAAAATAAATTAAG
* * *
15431196 AAAATGATAGTATGAAAATGGCATTTGCAAACATGGGATAATGGAAATTTTGTAAACTCCTTCCT
130 AAAATGATAGTATGAAAATGGCATTTGCAAACATGGAATAATGGAAATTTCGTAAAATCCTTCC-
* *
15431261 TTTAGTGGCAGGTTTTCTCTGTTTGGGTCACATTAATTCATCTGTGGTAGGCTTACTTCCCCTTT
194 TTTAGTGGCAGCTTTTCTCTGTTTGGGTCACATTAATTCATCTGTGGTAGGCTGACTTCCCCTTT
* *
15431326 TCACACGAACAAGTGTCATGTCAAGCTTTTTTTGCAAATCAATAAGAAAATGAT
259 TCACACGAACAAGTCTCATGTCAAGCTTTTTTCGCAAATCAATAAGAAAATGAT
*
15431380 AAGTCTCATGTCATGCATTTTTCGCAAATAAACTAATAAAATGATTAAGTCTAATGTAATGCATT
1 AAGTCTCATGTCATGCATTTTTCGCAAATAAA-TAAGAAAATGATTAAGTCTAATGTAATGCATT
*
15431445 TTTCGCAAATAAGTTAAGAAAATGAT
65 TTTCGCAAATAAATTAAGAAAATGAT
15431471 AGTATAAAAA
Statistics
Matches: 376, Mismatches: 23, Indels: 7
0.93 0.06 0.02
Matches are distributed among these distances:
310 30 0.08
311 13 0.03
312 111 0.30
313 222 0.59
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (312 bp):
AAGTCTCATGTCATGCATTTTTCGCAAATAAATAAGAAAATGATTAAGTCTAATGTAATGCATTT
TTCGCAAATAAATTAAGAAAATGATCAAGTCTAATGTAATGCATTTTTCGCAAAATAAATTAAGA
AAATGATAGTATGAAAATGGCATTTGCAAACATGGAATAATGGAAATTTCGTAAAATCCTTCCTT
TAGTGGCAGCTTTTCTCTGTTTGGGTCACATTAATTCATCTGTGGTAGGCTGACTTCCCCTTTTC
ACACGAACAAGTCTCATGTCAAGCTTTTTTCGCAAATCAATAAGAAAATGAT
Found at i:15431407 original size:44 final size:44
Alignment explanation
Indices: 15431336--15431471 Score: 157
Period size: 46 Copynumber: 3.0 Consensus size: 44
15431326 TCACACGAAC
* * * *
15431336 AAGTGTCATGTCAAGCTTTTTTTGCAAATCAA-TAAGAAAATGAT
1 AAGTCTCATGTCATGCATTTTTCGCAAAT-AACTAAGAAAATGAT
*
15431380 AAGTCTCATGTCATGCATTTTTCGCAAATAAACTAATAAAATGATT
1 AAGTCTCATGTCATGCATTTTTCGCAAAT-AACTAAGAAAATGA-T
* * *
15431426 AAGTCTAATGTAATGCATTTTTCGCAAATAAGTTAAGAAAATGAT
1 AAGTCTCATGTCATGCATTTTTCGCAAATAA-CTAAGAAAATGAT
15431471 A
1 A
15431472 GTATAAAAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
44 27 0.34
45 14 0.18
46 38 0.48
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (44 bp):
AAGTCTCATGTCATGCATTTTTCGCAAATAACTAAGAAAATGAT
Found at i:15431670 original size:44 final size:45
Alignment explanation
Indices: 15431602--15431695 Score: 131
Period size: 44 Copynumber: 2.1 Consensus size: 45
15431592 TCACATGAAC
* * *
15431602 AAGTCTCATGTCAAGCTTTTTTCGCAAATTAA-TAAGAAAATGAT
1 AAGTATCATGTCAAGCATTTTTCGCAAATAAATTAAGAAAATGAT
15431646 AAGTATCATGT-AATGCATTTTTCGCAAATAAATTAAGAAAATGAT
1 AAGTATCATGTCAA-GCATTTTTCGCAAATAAATTAAGAAAATGAT
15431691 -AGTAT
1 AAGTAT
15431696 GAAAATGGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
43 2 0.04
44 31 0.69
45 12 0.27
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (45 bp):
AAGTATCATGTCAAGCATTTTTCGCAAATAAATTAAGAAAATGAT
Found at i:15431675 original size:266 final size:267
Alignment explanation
Indices: 15431067--15431690 Score: 1002
Period size: 266 Copynumber: 2.3 Consensus size: 267
15431057 AGAAAATGAT
* *
15431067 AAGTCTCATGT-AATGCATTTTTCGCAAATAAATTAAGAAAATGATTAAGTCTAATGTAATGCAT
1 AAGTCTCATGTCAA-GCTTTTTTCGCAAATAAA-TAAGAAAATGA-TAAGTCTCATGTAATGCAT
*
15431131 TTTTCGCAAATAAATTAAGAAAATGATTAAGTCTAATGTGATGCATTTTTCCCAAATAAATTAAG
63 TTTTCGCAAATAAATTAAGAAAATGATTAAGTCTAATGTAATGCATTTTTCCCAAATAAATTAAG
* *
15431196 AAAATGATAGTATGAAAATGGCATTTGCAAACATGGGATAATGGAAATTTTGTAAACTCCTTCCT
128 AAAATGATAGTATAAAAATGGCATTTGCAAACATGGGATAATGGAAATTTCGTAAACTCCTTCCT
*
15431261 TTTAGTGGCAGGTTTTCTCTGTTTGGGTCACATTAATTCATCTGTGGTAGGCTTACTTCCCCTTT
193 TTTAGTGGCAGCTTTTCTCTGTTTGGGTCACATTAATTCATCTGTGGTAGGCTTACTTCCCCTTT
15431326 TCACACGAAC
258 TCACACGAAC
* * * *
15431336 AAGTGTCATGTCAAGCTTTTTTTGCAAATCAATAAGAAAATGATAAGTCTCATGTCATGCATTTT
1 AAGTCTCATGTCAAGCTTTTTTCGCAAATAAATAAGAAAATGATAAGTCTCATGTAATGCATTTT
* * * *
15431401 TCGCAAATAAACTAATAAAATGATTAAGTCTAATGTAATGCATTTTTCGCAAATAAGTTAAGAAA
66 TCGCAAATAAATTAAGAAAATGATTAAGTCTAATGTAATGCATTTTTCCCAAATAAATTAAGAAA
*
15431466 ATGATAGTATAAAAATGGTATTTGCAAACAT-GGAGTAATGGAAATTTCGTAAACTCCTTCC-TT
131 ATGATAGTATAAAAATGGCATTTGCAAACATGGGA-TAATGGAAATTTCGTAAACTCCTTCCTTT
** *
15431529 TAGTGTTAGCTTTTCTCTGTTTGGGTCACATTAATTCATCTGTGGTAGGCTTACTTTCCCTTTTC
195 TAGTGGCAGCTTTTCTCTGTTTGGGTCACATTAATTCATCTGTGGTAGGCTTACTTCCCCTTTTC
*
15431594 ACATGAAC
260 ACACGAAC
* *
15431602 AAGTCTCATGTCAAGCTTTTTTCGCAAATTAATAAGAAAATGATAAGTATCATGTAATGCATTTT
1 AAGTCTCATGTCAAGCTTTTTTCGCAAATAAATAAGAAAATGATAAGTCTCATGTAATGCATTTT
15431667 TCGCAAATAAATTAAGAAAATGAT
66 TCGCAAATAAATTAAGAAAATGAT
15431691 AGTATGAAAA
Statistics
Matches: 327, Mismatches: 26, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
266 155 0.47
267 134 0.41
268 11 0.03
269 25 0.08
270 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.36
Consensus pattern (267 bp):
AAGTCTCATGTCAAGCTTTTTTCGCAAATAAATAAGAAAATGATAAGTCTCATGTAATGCATTTT
TCGCAAATAAATTAAGAAAATGATTAAGTCTAATGTAATGCATTTTTCCCAAATAAATTAAGAAA
ATGATAGTATAAAAATGGCATTTGCAAACATGGGATAATGGAAATTTCGTAAACTCCTTCCTTTT
AGTGGCAGCTTTTCTCTGTTTGGGTCACATTAATTCATCTGTGGTAGGCTTACTTCCCCTTTTCA
CACGAAC
Found at i:15431764 original size:220 final size:220
Alignment explanation
Indices: 15431380--15431910 Score: 909
Period size: 220 Copynumber: 2.4 Consensus size: 220
15431370 AGAAAATGAT
* * * * *
15431380 AAGTCTCATGTCATGCATTTTTCGCAAATAAACTAATAAAATGATTAAGTCTAATGTAATGCATT
1 AAGTCTCATGTCAAGCTTTTTTCGCAAATTAA-TAAGAAAATGA-TAAGTCTCATGTAATGCATT
* *
15431445 TTTCGCAAATAAGTTAAGAAAATGATAGTATAAAAATGGTATTTGCAAACATGGAGTAATGGAAA
64 TTTCGCAAATAAATTAAGAAAATGATAGTATAAAAATGGTATTTGCAAACATGGAATAATGGAAA
* *
15431510 TTTCGTAAACTCCTTCCTTTAGTGTTAGCTTTTCTCTGTTTGGGTCACATTAATTCATCTGTGGT
129 TTTCGTAAAATCCTTCCTTTAGTGGTAGCTTTTCTCTGTTTGGGTCACATTAATTCATCTGTGGT
*
15431575 AGGCTTACTTTCCCTTTTCACATGAAC
194 AGGCTTACTTCCCCTTTTCACATGAAC
*
15431602 AAGTCTCATGTCAAGCTTTTTTCGCAAATTAATAAGAAAATGATAAGTATCATGTAATGCATTTT
1 AAGTCTCATGTCAAGCTTTTTTCGCAAATTAATAAGAAAATGATAAGTCTCATGTAATGCATTTT
*
15431667 TCGCAAATAAATTAAGAAAATGATAGTATGAAAATGGTATTTGCAAACATGGAATAATGGAAATT
66 TCGCAAATAAATTAAGAAAATGATAGTATAAAAATGGTATTTGCAAACATGGAATAATGGAAATT
15431732 TCGTAAAATCCTTCCTTTAGTGGTAGCTTTTCTCTGTTTGGGTCACATTAATTCATCTGTGGTAG
131 TCGTAAAATCCTTCCTTTAGTGGTAGCTTTTCTCTGTTTGGGTCACATTAATTCATCTGTGGTAG
15431797 GCTTACTTCCCCTTTTCACATGAAC
196 GCTTACTTCCCCTTTTCACATGAAC
* *
15431822 AAGTCTCAGGTCAAGCTTTTTTCGCAAATTAATAAGAAAATGATAAGTCTCATGTCATGCATTTT
1 AAGTCTCATGTCAAGCTTTTTTCGCAAATTAATAAGAAAATGATAAGTCTCATGTAATGCATTTT
*
15431887 TCGCAAATAAATTAAGGAAATGAT
66 TCGCAAATAAATTAAGAAAATGAT
15431911 TAAGTCTAAT
Statistics
Matches: 293, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
220 254 0.87
221 10 0.03
222 29 0.10
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (220 bp):
AAGTCTCATGTCAAGCTTTTTTCGCAAATTAATAAGAAAATGATAAGTCTCATGTAATGCATTTT
TCGCAAATAAATTAAGAAAATGATAGTATAAAAATGGTATTTGCAAACATGGAATAATGGAAATT
TCGTAAAATCCTTCCTTTAGTGGTAGCTTTTCTCTGTTTGGGTCACATTAATTCATCTGTGGTAG
GCTTACTTCCCCTTTTCACATGAAC
Found at i:15431887 original size:44 final size:45
Alignment explanation
Indices: 15431822--15431957 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 45
15431812 TCACATGAAC
* * * *
15431822 AAGTCTCAGGTCAAGCTTTTTTCGCAAATTAA-TAAGAAAATGAT
1 AAGTCTCATGTCATGCATTTTTCGCAAATAAATTAAGAAAATGAT
*
15431866 AAGTCTCATGTCATGCATTTTTCGCAAATAAATTAAGGAAATGATT
1 AAGTCTCATGTCATGCATTTTTCGCAAATAAATTAAGAAAATGA-T
* *
15431912 AAGTCTAATGTAATGCATTTTTCGCAAATAAATTAAGAAAATGAT
1 AAGTCTCATGTCATGCATTTTTCGCAAATAAATTAAGAAAATGAT
15431957 A
1 A
15431958 GTATGAAAAT
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
44 28 0.34
45 12 0.15
46 42 0.51
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (45 bp):
AAGTCTCATGTCATGCATTTTTCGCAAATAAATTAAGAAAATGAT
Found at i:15431934 original size:266 final size:266
Alignment explanation
Indices: 15431602--15432333 Score: 1306
Period size: 266 Copynumber: 2.8 Consensus size: 266
15431592 TCACATGAAC
* * * * *
15431602 AAGTCTCATGTCAAGCTTTTTTCGCAAATTAA-TAAGAAAATGA-TAAGTATCATGTAATGCATT
1 AAGTCTCATGTCATGCATTTTTCGCAAATAAATTAAGAAAATGATTAAGTCTAATGTAATGCATT
15431665 TTTCGCAAATAAATTAAGAAAATGATAGTATGAAAATGGTATTTGCAAACATGGAATAATGGAAA
66 TTTCGCAAATAAATTAAGAAAATGATAGTATGAAAATGGTATTTGCAAACATGGAATAATGGAAA
15431730 TTTCGTAAAATCCTTCCTTTAGTGGTAGCTTTTCTCTGTTTGGGTCACATTAATTCATCTGTGGT
131 TTTCGTAAAATCCTTCCTTTAGTGGTAGCTTTTCTCTGTTTGGGTCACATTAATTCATCTGTGGT
15431795 AGGCTTACTTCCCCTTTTCACATGAACAAGTCTCAGGTCAAGCTTTTTTCGCAAATTAATAAGAA
196 AGGCTTACTTCCCCTTTTCACATGAACAAGTCTCAGGTCAAGCTTTTTTCGCAAATTAATAAGAA
15431860 AATGAT
261 AATGAT
*
15431866 AAGTCTCATGTCATGCATTTTTCGCAAATAAATTAAGGAAATGATTAAGTCTAATGTAATGCATT
1 AAGTCTCATGTCATGCATTTTTCGCAAATAAATTAAGAAAATGATTAAGTCTAATGTAATGCATT
15431931 TTTCGCAAATAAATTAAGAAAATGATAGTATGAAAATGGTATTTGCAAACATGGAATAATGGAAA
66 TTTCGCAAATAAATTAAGAAAATGATAGTATGAAAATGGTATTTGCAAACATGGAATAATGGAAA
* *
15431996 TTTCGTAAACTCCTTCCTTTAGTGGTAGCTTTTCTTTGTTTGGGTCACATTAATTCATCTGTGGT
131 TTTCGTAAAATCCTTCCTTTAGTGGTAGCTTTTCTCTGTTTGGGTCACATTAATTCATCTGTGGT
* * * *
15432061 AGGATTACTTCTCCTTTTCACATTAACAAGTCTCATGTCAAGCTTTTTTCGCAAATTAATAAGAA
196 AGGCTTACTTCCCCTTTTCACATGAACAAGTCTCAGGTCAAGCTTTTTTCGCAAATTAATAAGAA
15432126 AATGAT
261 AATGAT
*
15432132 AAGTCTCATGTCATGCATTTTTCGCAAATAAATTAAGAAAATGATTAAGTCTAATGTAATGCAAT
1 AAGTCTCATGTCATGCATTTTTCGCAAATAAATTAAGAAAATGATTAAGTCTAATGTAATGCATT
15432197 TTTCGCAAATAAATTAAGAAAATGATAGTATGAAAATGGTATTTGCAAACATGGAATAATGGAAA
66 TTTCGCAAATAAATTAAGAAAATGATAGTATGAAAATGGTATTTGCAAACATGGAATAATGGAAA
* *
15432262 TTCCGTAAAATCCTTCCTTTATTGGTAGCTTTTCTCTGTTTGGGTCACATTAATTCATCTGTGGT
131 TTTCGTAAAATCCTTCCTTTAGTGGTAGCTTTTCTCTGTTTGGGTCACATTAATTCATCTGTGGT
*
15432327 ACGCTTA
196 AGGCTTA
15432334 TTACTTTTGA
Statistics
Matches: 446, Mismatches: 20, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
264 29 0.07
265 10 0.02
266 407 0.91
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (266 bp):
AAGTCTCATGTCATGCATTTTTCGCAAATAAATTAAGAAAATGATTAAGTCTAATGTAATGCATT
TTTCGCAAATAAATTAAGAAAATGATAGTATGAAAATGGTATTTGCAAACATGGAATAATGGAAA
TTTCGTAAAATCCTTCCTTTAGTGGTAGCTTTTCTCTGTTTGGGTCACATTAATTCATCTGTGGT
AGGCTTACTTCCCCTTTTCACATGAACAAGTCTCAGGTCAAGCTTTTTTCGCAAATTAATAAGAA
AATGAT
Found at i:15432083 original size:486 final size:487
Alignment explanation
Indices: 15431113--15432176 Score: 1810
Period size: 486 Copynumber: 2.2 Consensus size: 487
15431103 GAAAATGATT
* * * * *
15431113 AAGTCTAATGT-AATGCATTTTTCGCAAATAAATTAAGAAAATGATTAAGTCTAATGTGATGCAT
1 AAGTCTCATGTCAA-GCTTTTTTCGCAAATTAA-TAAGAAAATGA-TAAGTCTCATGTAATGCAT
* *
15431177 TTTTCCCAAATAAATTAAGAAAATGATAGTATGAAAATGGCATTTGCAAACATGGGATAATGGAA
63 TTTTCGCAAATAAATTAAGAAAATGATAGTATGAAAATGGCATTTGCAAACATGGAATAATGGAA
* * *
15431242 ATTTTGTAAACTCCTTCCTTTTAGTGGCAGGTTTTCTCTGTTTGGGTCACATTAATTCATCTGTG
128 ATTTCGTAAAATCCTTCCTTTTAGTGGCAGCTTTTCTCTGTTTGGGTCACATTAATTCATCTGTG
* * *
15431307 GTAGGCTTACTTCCCCTTTTCACACGAACAAGTGTCATGTCAAGCTTTTTTTGCAAATCAATAAG
193 GTAGGCTTACTTCCCCTTTTCACACGAACAAGTCTCAGGTCAAGCTTTTTTCGCAAATCAATAAG
*
15431372 AAAATGATAAGTCTCATGTCATGCATTTTTCGCAAATAAACTAATAAAATGATTAAGTCTAATGT
258 AAAATGATAAGTCTCATGTCATGCATTTTTCGCAAATAAACTAAGAAAATGATTAAGTCTAATGT
* *
15431437 AATGCATTTTTCGCAAATAAGTTAAGAAAATGATAGTATAAAAATGGTATTTGCAAACATGGAGT
323 AATGCATTTTTCGCAAATAAATTAAGAAAATGATAGTATAAAAATGGTATTTGCAAACATGGAAT
*
15431502 AATGGAAATTTCGTAAACTCCTTCCTTTAGTGTTAGCTTTTCTCTGTTTGGGTCACATTAATTCA
388 AATGGAAATTTCGTAAACTCCTTCCTTTAGTGGTAGCTTTTCTCTGTTTGGGTCACATTAATTCA
*
15431567 TCTGTGGTAGGCTTACTTTCCCTTTTCACATGAAC
453 TCTGTGGTAGGATTACTTTCCCTTTTCACATGAAC
*
15431602 AAGTCTCATGTCAAGCTTTTTTCGCAAATTAATAAGAAAATGATAAGTATCATGTAATGCATTTT
1 AAGTCTCATGTCAAGCTTTTTTCGCAAATTAATAAGAAAATGATAAGTCTCATGTAATGCATTTT
*
15431667 TCGCAAATAAATTAAGAAAATGATAGTATGAAAATGGTATTTGCAAACATGGAATAATGGAAATT
66 TCGCAAATAAATTAAGAAAATGATAGTATGAAAATGGCATTTGCAAACATGGAATAATGGAAATT
*
15431732 TCGTAAAATCCTTCC-TTTAGTGGTAGCTTTTCTCTGTTTGGGTCACATTAATTCATCTGTGGTA
131 TCGTAAAATCCTTCCTTTTAGTGGCAGCTTTTCTCTGTTTGGGTCACATTAATTCATCTGTGGTA
* *
15431796 GGCTTACTTCCCCTTTTCACATGAACAAGTCTCAGGTCAAGCTTTTTTCGCAAATTAATAAGAAA
196 GGCTTACTTCCCCTTTTCACACGAACAAGTCTCAGGTCAAGCTTTTTTCGCAAATCAATAAGAAA
* *
15431861 ATGATAAGTCTCATGTCATGCATTTTTCGCAAATAAATTAAGGAAATGATTAAGTCTAATGTAAT
261 ATGATAAGTCTCATGTCATGCATTTTTCGCAAATAAACTAAGAAAATGATTAAGTCTAATGTAAT
*
15431926 GCATTTTTCGCAAATAAATTAAGAAAATGATAGTATGAAAATGGTATTTGCAAACATGGAATAAT
326 GCATTTTTCGCAAATAAATTAAGAAAATGATAGTATAAAAATGGTATTTGCAAACATGGAATAAT
*
15431991 GGAAATTTCGTAAACTCCTTCCTTTAGTGGTAGCTTTTCTTTGTTTGGGTCACATTAATTCATCT
391 GGAAATTTCGTAAACTCCTTCCTTTAGTGGTAGCTTTTCTCTGTTTGGGTCACATTAATTCATCT
*
15432056 GTGGTAGGATTAC-TTCTCCTTTTCACATTAAC
456 GTGGTAGGATTACTTTC-CCTTTTCACATGAAC
*
15432088 AAGTCTCATGTCAAGCTTTTTTCGCAAATTAATAAGAAAATGATAAGTCTCATGTCATGCATTTT
1 AAGTCTCATGTCAAGCTTTTTTCGCAAATTAATAAGAAAATGATAAGTCTCATGTAATGCATTTT
15432153 TCGCAAATAAATTAAGAAAATGAT
66 TCGCAAATAAATTAAGAAAATGAT
15432177 TAAGTCTAAT
Statistics
Matches: 543, Mismatches: 30, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
485 3 0.01
486 407 0.75
487 94 0.17
488 11 0.02
489 26 0.05
490 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (487 bp):
AAGTCTCATGTCAAGCTTTTTTCGCAAATTAATAAGAAAATGATAAGTCTCATGTAATGCATTTT
TCGCAAATAAATTAAGAAAATGATAGTATGAAAATGGCATTTGCAAACATGGAATAATGGAAATT
TCGTAAAATCCTTCCTTTTAGTGGCAGCTTTTCTCTGTTTGGGTCACATTAATTCATCTGTGGTA
GGCTTACTTCCCCTTTTCACACGAACAAGTCTCAGGTCAAGCTTTTTTCGCAAATCAATAAGAAA
ATGATAAGTCTCATGTCATGCATTTTTCGCAAATAAACTAAGAAAATGATTAAGTCTAATGTAAT
GCATTTTTCGCAAATAAATTAAGAAAATGATAGTATAAAAATGGTATTTGCAAACATGGAATAAT
GGAAATTTCGTAAACTCCTTCCTTTAGTGGTAGCTTTTCTCTGTTTGGGTCACATTAATTCATCT
GTGGTAGGATTACTTTCCCTTTTCACATGAAC
Found at i:15432153 original size:44 final size:45
Alignment explanation
Indices: 15432088--15432223 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 45
15432078 TCACATTAAC
* * *
15432088 AAGTCTCATGTCAAGCTTTTTTCGCAAATTAA-TAAGAAAATGAT
1 AAGTCTCATGTCATGCATTTTTCGCAAATAAATTAAGAAAATGAT
15432132 AAGTCTCATGTCATGCATTTTTCGCAAATAAATTAAGAAAATGATT
1 AAGTCTCATGTCATGCATTTTTCGCAAATAAATTAAGAAAATGA-T
* * *
15432178 AAGTCTAATGTAATGCAATTTTCGCAAATAAATTAAGAAAATGAT
1 AAGTCTCATGTCATGCATTTTTCGCAAATAAATTAAGAAAATGAT
15432223 A
1 A
15432224 GTATGAAAAT
Statistics
Matches: 84, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
44 29 0.35
45 13 0.15
46 42 0.50
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (45 bp):
AAGTCTCATGTCATGCATTTTTCGCAAATAAATTAAGAAAATGAT
Found at i:15433004 original size:21 final size:21
Alignment explanation
Indices: 15432964--15433030 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
15432954 TGTTGAGTGT
*
15432964 AGAAAGAA-ATGGGATATAAAG
1 AGAAA-AATATGGGATGTAAAG
15432985 AGAAAAATATGCGG-TGTAAAG
1 AGAAAAATATG-GGATGTAAAG
* *
15433006 AGGAAAATATGGGATGTAAAT
1 AGAAAAATATGGGATGTAAAG
15433027 AGAA
1 AGAA
15433031 TTACCTATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 4 0.10
21 33 0.85
22 2 0.05
ACGTcount: A:0.52, C:0.01, G:0.28, T:0.18
Consensus pattern (21 bp):
AGAAAAATATGGGATGTAAAG
Found at i:15433772 original size:20 final size:20
Alignment explanation
Indices: 15433747--15433785 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15433737 TTTTATGATT
*
15433747 ATAAAAATTTAAATTTTAAG
1 ATAAAAATTCAAATTTTAAG
*
15433767 ATAAAAATTCAATTTTTAA
1 ATAAAAATTCAAATTTTAA
15433786 ATGCAATCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (20 bp):
ATAAAAATTCAAATTTTAAG
Found at i:15436946 original size:12 final size:12
Alignment explanation
Indices: 15436925--15437031 Score: 53
Period size: 12 Copynumber: 8.6 Consensus size: 12
15436915 TACAAGAAAA
*
15436925 AAAATTATAAAT
1 AAAATAATAAAT
15436937 AAAATAATAAAT
1 AAAATAATAAAT
*
15436949 -AAATTAT-AAT
1 AAAATAATAAAT
*
15436959 -ATATAATAAAT
1 AAAATAATAAAT
15436970 ATAGAACTATATAAAT
1 A-A-AA-TA-ATAAAT
15436986 AAAATACCTATAAAT
1 AAAATA---ATAAAT
* *
15437001 ATTAAT-AGAAAT
1 A-AAATAATAAAT
15437013 -AAATAAATAAAT
1 AAAAT-AATAAAT
15437025 AAAATAA
1 AAAATAA
15437032 ATAAGATTTA
Statistics
Matches: 74, Mismatches: 9, Indels: 24
0.69 0.08 0.22
Matches are distributed among these distances:
10 11 0.15
11 9 0.12
12 23 0.31
13 7 0.09
14 3 0.04
15 11 0.15
16 10 0.14
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (12 bp):
AAAATAATAAAT
Found at i:15436950 original size:16 final size:16
Alignment explanation
Indices: 15436931--15437031 Score: 62
Period size: 16 Copynumber: 5.8 Consensus size: 16
15436921 AAAAAAAATT
15436931 ATAAATAAAATAATAA
1 ATAAATAAAATAATAA
*
15436947 ATAAATTATAAT-ATATA
1 ATAAA-TAAAATAATA-A
* * *
15436964 ATAAATATAGA-ACTAT
1 ATAAATA-AAATAATAA
15436980 ATAAATAAAATACCTATAA
1 ATAAATAAAATA---ATAA
15436999 ATATTAATAGAAATAAATAA
1 ATA--AATA-AAAT-AATAA
15437019 ATAAATAAAATAA
1 ATAAATAAAATAA
15437032 ATAAGATTTA
Statistics
Matches: 65, Mismatches: 8, Indels: 24
0.67 0.08 0.25
Matches are distributed among these distances:
15 2 0.03
16 20 0.31
17 18 0.28
18 4 0.06
19 5 0.08
20 7 0.11
21 4 0.06
22 4 0.06
23 1 0.02
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (16 bp):
ATAAATAAAATAATAA
Found at i:15436966 original size:17 final size:20
Alignment explanation
Indices: 15436943--15436988 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 20
15436933 AAATAAAATA
*
15436943 ATAAATAAAT-TATAA-TAT
1 ATAAATAAATATAGAACTAT
15436961 AT-AATAAATATAGAACTAT
1 ATAAATAAATATAGAACTAT
15436980 ATAAATAAA
1 ATAAATAAA
15436989 ATACCTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.29
18 6 0.25
19 5 0.21
20 6 0.25
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
ATAAATAAATATAGAACTAT
Found at i:15438161 original size:22 final size:22
Alignment explanation
Indices: 15438112--15438212 Score: 80
Period size: 22 Copynumber: 4.6 Consensus size: 22
15438102 AGTGAATTAA
* *
15438112 TGATAATATAGTAGTAAAAACA-
1 TGATAATTTAGTAGT-AAATCAT
* *
15438134 TAATAATTTAGTGGTAAATCAT
1 TGATAATTTAGTAGTAAATCAT
* *
15438156 TGATAATTTAAG-AGTAATTTAT
1 TGATAATTT-AGTAGTAAATCAT
* *
15438178 TGATAATTTAATAATAAATCAT
1 TGATAATTTAGTAGTAAATCAT
* *
15438200 TAATAATATAGTA
1 TGATAATTTAGTA
15438213 ATAATCAAAA
Statistics
Matches: 61, Mismatches: 15, Indels: 6
0.74 0.18 0.07
Matches are distributed among these distances:
21 6 0.10
22 53 0.87
23 2 0.03
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.39
Consensus pattern (22 bp):
TGATAATTTAGTAGTAAATCAT
Found at i:15438216 original size:22 final size:22
Alignment explanation
Indices: 15438047--15438212 Score: 77
Period size: 22 Copynumber: 7.5 Consensus size: 22
15438037 CAAAATTATG
* **
15438047 ATAATATAGTAGTAAATTGTTA
1 ATAATTTAGTAGTAAATCATTA
* *
15438069 ATAATTTTA-TAGTGAATAATTA
1 ATAA-TTTAGTAGTAAATCATTA
* * * * * * *
15438091 AAAATTAAAATAGTGAATTAATG
1 ATAATT-TAGTAGTAAATCATTA
* *
15438114 ATAATATAGTAGTAAAAACA-TA
1 ATAATTTAGTAGT-AAATCATTA
* *
15438136 ATAATTTAGTGGTAAATCATTG
1 ATAATTTAGTAGTAAATCATTA
* * *
15438158 ATAATTTAAG-AGTAATTTATTG
1 ATAATTT-AGTAGTAAATCATTA
* *
15438180 ATAATTTAATAATAAATCATTA
1 ATAATTTAGTAGTAAATCATTA
*
15438202 ATAATATAGTA
1 ATAATTTAGTA
15438213 ATAATCAAAA
Statistics
Matches: 106, Mismatches: 31, Indels: 14
0.70 0.21 0.09
Matches are distributed among these distances:
21 8 0.08
22 76 0.72
23 22 0.21
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.39
Consensus pattern (22 bp):
ATAATTTAGTAGTAAATCATTA
Found at i:15440556 original size:23 final size:23
Alignment explanation
Indices: 15440530--15440575 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
15440520 ATATATATCA
*
15440530 TTTTAAATTATTAATCTCTTAATT
1 TTTTAAATTA-TAATATCTTAATT
*
15440554 TTTTCAATTATAATATCTTAAT
1 TTTTAAATTATAATATCTTAAT
15440576 ATTTCTAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTTAAATTATAATATCTTAATT
Found at i:15451880 original size:13 final size:12
Alignment explanation
Indices: 15451858--15451888 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
15451848 TTAAATATTC
15451858 TTAAAATTTTTT
1 TTAAAATTTTTT
15451870 TTAAGAATTTTTT
1 TTAA-AATTTTTT
15451883 TTAAAA
1 TTAAAA
15451889 AAATTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (12 bp):
TTAAAATTTTTT
Found at i:15452656 original size:17 final size:17
Alignment explanation
Indices: 15452618--15452650 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15452608 TAATTGAGAT
15452618 AGAT-TAAATAATCTTG
1 AGATATAAATAATCTTG
15452634 AGATATAAATTAATCTT
1 AGATATAAA-TAATCTT
15452651 ATATATGCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 4 0.27
18 7 0.47
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.39
Consensus pattern (17 bp):
AGATATAAATAATCTTG
Done.