Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 67 of 125
Found at i:13230500 original size:63 final size:62
Alignment explanation
Indices: 13230369--13230526 Score: 153
Period size: 63 Copynumber: 2.5 Consensus size: 62
13230359 GCATTTATGG
* * * *
13230369 CAAAAAATGCCTTCAATAATCCCATCCATTTTTTATGAGGGGATTAATCAAGGTGTTTTAGC
1 CAAAAAATGCCTTCAATAATCCCTTCAATTTTTTATGAGAGGATTAATCAAGATGTTTTAGC
* * *
13230431 CTAAAAAATGCCTTGAATAATCCCCTTTAATTTTTTA-GAGAGGATT-ATACAACGCATTTTTTA
1 C-AAAAAATGCCTTCAATAAT-CCCTTCAATTTTTTATGAGAGGATTAAT-CAA-G-ATGTTTTA
13230494 -C
61 GC
* *
13230495 C-AAAAATACCTTCAATAATTCCCTTCCATTTT
1 CAAAAAATGCCTTCAATAA-TCCCTTCAATTTT
13230527 CTTTAGGATC
Statistics
Matches: 79, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
62 28 0.35
63 30 0.38
64 15 0.19
65 6 0.08
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (62 bp):
CAAAAAATGCCTTCAATAATCCCTTCAATTTTTTATGAGAGGATTAATCAAGATGTTTTAGC
Found at i:13230526 original size:62 final size:63
Alignment explanation
Indices: 13230369--13230526 Score: 164
Period size: 62 Copynumber: 2.5 Consensus size: 63
13230359 GCATTTATGG
* * *
13230369 CAAAAAATGCCTTCAATAA-TCCCATCCATTTTTTATGAGGGGATTAATCAAGGTGTTTTAGC
1 CAAAAAATGCCTTCAATAATTCCCTTCCATTTTTTATGAGAGGATTAATCAAGATGTTTTAGC
* * ** *
13230431 CTAAAAAATGCCTTGAATAATCCCCTTTAATTTTTTA-GAGAGGATT-ATACAACGCATTTTTTA
1 C-AAAAAATGCCTTCAATAATTCCCTTCCATTTTTTATGAGAGGATTAAT-CAA-G-ATGTTTTA
13230494 -C
62 GC
*
13230495 C-AAAAATACCTTCAATAATTCCCTTCCATTTT
1 CAAAAAATGCCTTCAATAATTCCCTTCCATTTT
13230527 CTTTAGGATC
Statistics
Matches: 78, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
62 29 0.37
63 28 0.36
64 15 0.19
65 6 0.08
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (63 bp):
CAAAAAATGCCTTCAATAATTCCCTTCCATTTTTTATGAGAGGATTAATCAAGATGTTTTAGC
Found at i:13234076 original size:7 final size:7
Alignment explanation
Indices: 13234064--13234088 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13234054 CATACTTATT
13234064 TAAACCC
1 TAAACCC
13234071 TAAACCC
1 TAAACCC
13234078 TAAACCC
1 TAAACCC
13234085 TAAA
1 TAAA
13234089 TTAGTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:13234971 original size:63 final size:63
Alignment explanation
Indices: 13234799--13234971 Score: 188
Period size: 63 Copynumber: 2.7 Consensus size: 63
13234789 TGTTTTTGTG
* * * * *
13234799 AGAAAATACCTTGAATAATCCCTTAAAAAAAATTGAATGGGGTTAGTCAAGGCATTTATGGCT
1 AGAAAATACCTTTAATAATCCCTTACAAAATATTGAATGGGGTTATTCAAGGCATTTATAGCT
* * ** * * * *
13234862 A-AAAACACCTTTGAATAATCCCTTTCAATTTTTATG-ATGGGATTATTGAAGGCATTTTTAGCT
1 AGAAAATACCTTT-AATAATCCCTTACAAAATAT-TGAATGGGGTTATTCAAGGCATTTATAGCT
*
13234925 AGAAAATGCCTTTAATAATCCCTTACAAAATATTGAATGGGGTTATT
1 AGAAAATACCTTTAATAATCCCTTACAAAATATTGAATGGGGTTATT
13234972 AAAGATGTTT
Statistics
Matches: 86, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
62 11 0.13
63 64 0.74
64 11 0.13
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.34
Consensus pattern (63 bp):
AGAAAATACCTTTAATAATCCCTTACAAAATATTGAATGGGGTTATTCAAGGCATTTATAGCT
Found at i:13235486 original size:26 final size:30
Alignment explanation
Indices: 13235421--13235488 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 30
13235411 TTGAAACCAA
13235421 ATTAATATAATATTTAAATTTAAAAAATTT
1 ATTAATATAATATTTAAATTTAAAAAATTT
* * *
13235451 -TTAGTCTAATATTT-AA-TT-ATAAATTT
1 ATTAATATAATATTTAAATTTAAAAAATTT
13235477 ATTAAT-TAATAT
1 ATTAATATAATAT
13235489 AATACTTACA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
26 13 0.39
27 6 0.18
28 2 0.06
29 12 0.36
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (30 bp):
ATTAATATAATATTTAAATTTAAAAAATTT
Found at i:13237166 original size:87 final size:90
Alignment explanation
Indices: 13237068--13237246 Score: 301
Period size: 89 Copynumber: 2.0 Consensus size: 90
13237058 AGTTGGTTAC
* * *
13237068 ACGTAAGGAAATATCAGCACCCTCATA-GCTCATAAAATTGGTATCAATTAATCATGCTTTATTT
1 ACGTAAGGAAATATCAACACCCCCATACGCTCATAAAATTGGTATCAATTAATCATGCTCTATTT
13237132 ATAACTTTG-A-AAAAATGGTTTTT
66 ATAACTTTGAACAAAAATGGTTTTT
13237155 ACGTAAGGAAATATCAACACCCCCATAGCGCTCATAAAATTGGTATCAATTAATCATGCTCTATT
1 ACGTAAGGAAATATCAACACCCCCATA-CGCTCATAAAATTGGTATCAATTAATCATGCTCTATT
13237220 TATAACTTTGAACAAAAATGGTTTTT
65 TATAACTTTGAACAAAAATGGTTTTT
13237246 A
1 A
13237247 TATGAAGTTT
Statistics
Matches: 85, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
87 25 0.29
89 45 0.53
90 1 0.01
91 14 0.16
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (90 bp):
ACGTAAGGAAATATCAACACCCCCATACGCTCATAAAATTGGTATCAATTAATCATGCTCTATTT
ATAACTTTGAACAAAAATGGTTTTT
Found at i:13238034 original size:19 final size:19
Alignment explanation
Indices: 13238010--13238048 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
13238000 CTAAGATTTC
*
13238010 AAGATTCCATTTAGGGTTT
1 AAGATTCCATCTAGGGTTT
**
13238029 AAGATTTTATCTAGGGTTT
1 AAGATTCCATCTAGGGTTT
13238048 A
1 A
13238049 GGGTTTCACC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.44
Consensus pattern (19 bp):
AAGATTCCATCTAGGGTTT
Found at i:13238078 original size:19 final size:18
Alignment explanation
Indices: 13238021--13238081 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
13238011 AGATTCCATT
*
13238021 TAGGGTTTAAGATTTTATC
1 TAGGGTTTAA-ATTTTACC
** *
13238040 TAGGGTTTAGGGTTTCACC
1 TAGGGTTTA-AATTTTACC
13238059 TAGGGTTTCAAATTTTACC
1 TAGGGTTT-AAATTTTACC
13238078 TAGG
1 TAGG
13238082 ATTCATTTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
19 32 0.97
20 1 0.03
ACGTcount: A:0.23, C:0.11, G:0.25, T:0.41
Consensus pattern (18 bp):
TAGGGTTTAAATTTTACC
Found at i:13238141 original size:25 final size:26
Alignment explanation
Indices: 13238104--13238160 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
13238094 TTCCATTCTT
* *
13238104 GGTTTTAGTTTAGGATTTCATTTTAG
1 GGTTTTAGCTTAGGATTTCAGTTTAG
*
13238130 GGTTTTA-CTTAGGGTTTCAGTTTAG
1 GGTTTTAGCTTAGGATTTCAGTTTAG
13238155 GGTTTT
1 GGTTTT
13238161 CTAAACTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 21 0.75
26 7 0.25
ACGTcount: A:0.16, C:0.05, G:0.26, T:0.53
Consensus pattern (26 bp):
GGTTTTAGCTTAGGATTTCAGTTTAG
Found at i:13238156 original size:13 final size:13
Alignment explanation
Indices: 13238104--13238159 Score: 60
Period size: 13 Copynumber: 4.4 Consensus size: 13
13238094 TTCCATTCTT
*
13238104 GGTTTTAGTTTAG
1 GGTTTCAGTTTAG
* *
13238117 GATTTCATTTTAG
1 GGTTTCAGTTTAG
* *
13238130 GGTTTTA-CTTAG
1 GGTTTCAGTTTAG
13238142 GGTTTCAGTTTAG
1 GGTTTCAGTTTAG
13238155 GGTTT
1 GGTTT
13238160 TCTAAACTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
12 10 0.29
13 24 0.71
ACGTcount: A:0.16, C:0.05, G:0.27, T:0.52
Consensus pattern (13 bp):
GGTTTCAGTTTAG
Found at i:13240811 original size:27 final size:25
Alignment explanation
Indices: 13240781--13240838 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 25
13240771 ATTATTATTA
13240781 TTTG-GTTTTTTGGGTTTTTGTTTGTTT
1 TTTGTGTTTTTT--GTTTTTGTTT-TTT
*
13240808 TTTGTTGTTTTTTTTTTTTGTTTTTT
1 TTTG-TGTTTTTTGTTTTTGTTTTTT
13240834 TTTGT
1 TTTGT
13240839 TGAACCATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
25 1 0.04
26 7 0.25
27 13 0.46
29 7 0.25
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (25 bp):
TTTGTGTTTTTTGTTTTTGTTTTTT
Found at i:13240823 original size:13 final size:13
Alignment explanation
Indices: 13240798--13240840 Score: 68
Period size: 13 Copynumber: 3.2 Consensus size: 13
13240788 TTTTGGGTTT
13240798 TTGTTTGTTTTTTG
1 TTGTTT-TTTTTTG
*
13240812 TTGTTTTTTTTTT
1 TTGTTTTTTTTTG
13240825 TTGTTTTTTTTTG
1 TTGTTTTTTTTTG
13240838 TTG
1 TTG
13240841 AACCATGAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 21 0.78
14 6 0.22
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (13 bp):
TTGTTTTTTTTTG
Found at i:13240826 original size:16 final size:15
Alignment explanation
Indices: 13240794--13240836 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
13240784 GGTTTTTTGG
13240794 GTTTTTGTTTGTTTTTT
1 GTTTTT-TTT-TTTTTT
13240811 GTTGTTTTTTTTTTTT
1 GTT-TTTTTTTTTTTT
13240827 GTTTTTTTTT
1 GTTTTTTTTT
13240837 GTTGAACCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.28
16 9 0.36
17 6 0.24
18 3 0.12
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (15 bp):
GTTTTTTTTTTTTTT
Found at i:13240827 original size:23 final size:23
Alignment explanation
Indices: 13240795--13240839 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
13240785 GTTTTTTGGG
13240795 TTTTTGTTTGTTTTTTGTTGTTT
1 TTTTTGTTTGTTTTTTGTTGTTT
* *
13240818 TTTTTTTTTGTTTTTTTTTGTT
1 TTTTTGTTTGTTTTTTGTTGTT
13240840 GAACCATGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (23 bp):
TTTTTGTTTGTTTTTTGTTGTTT
Found at i:13240922 original size:36 final size:36
Alignment explanation
Indices: 13240882--13240990 Score: 121
Period size: 36 Copynumber: 3.0 Consensus size: 36
13240872 GACAACAACG
*
13240882 CAAGTTAAAAAATAAAGAACGACTAGGATTGAACCA
1 CAAGTTAAAAAATAAAGAACGACCAGGATTGAACCA
* * * * **
13240918 CAAGTCAAATAATTAAAGAATGACCATGA-TGATACTG
1 CAAGTTAAA-AAATAAAGAACGACCAGGATTGA-ACCA
*
13240955 CAAGTTAAAAAATAAAGAACAACCAGGATTGAACCA
1 CAAGTTAAAAAATAAAGAACGACCAGGATTGAACCA
13240991 TGAGCCATAA
Statistics
Matches: 56, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
36 28 0.50
37 28 0.50
ACGTcount: A:0.51, C:0.15, G:0.16, T:0.18
Consensus pattern (36 bp):
CAAGTTAAAAAATAAAGAACGACCAGGATTGAACCA
Found at i:13241216 original size:73 final size:71
Alignment explanation
Indices: 13241059--13241258 Score: 213
Period size: 72 Copynumber: 2.8 Consensus size: 71
13241049 AACAACACAA
* * ** * *
13241059 CAAGTCAAAAAAATAAAGAACGAACGGAATTGAAGTATGAGTCAAGTAATTAAAGAATGACCGGG
1 CAAGTC-AAAAAATAAAGAACG-ATGGGATTGAACCATGAGTCAAGTAA-TAAAAAACGACCGGG
13241124 ATGACATAG
63 ATGACATAG
* **
13241133 CAAGTCAAAAAATAAAGAACGATGGGGATTGAACCACGAGTCAAGTAATAAAAAACGATTGGGAT
1 CAAGTCAAAAAATAAAGAACGAT-GGGATTGAACCATGAGTCAAGTAATAAAAAACGACCGGGAT
*
13241198 GATACT-G
65 GACA-TAG
** * * *
13241205 CAAGTTGAAAAATAAAGAATGATTGGATTGAACCATGACTCAAGTAATAAAAAA
1 CAAGTCAAAAAATAAAGAACGATGGGATTGAACCATGAGTCAAGTAATAAAAAA
13241259 TGATCGGAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
71 28 0.26
72 38 0.35
73 36 0.33
74 6 0.06
ACGTcount: A:0.48, C:0.11, G:0.21, T:0.19
Consensus pattern (71 bp):
CAAGTCAAAAAATAAAGAACGATGGGATTGAACCATGAGTCAAGTAATAAAAAACGACCGGGATG
ACATAG
Found at i:13241279 original size:71 final size:71
Alignment explanation
Indices: 13241067--13241320 Score: 233
Period size: 71 Copynumber: 3.5 Consensus size: 71
13241057 AACAAGTCAA
* ** * * *
13241067 AAAAATAAAGAACGAACGGAATTGAAGTATGAGTCAAGTAATTAAAGAATGACCGGGATGACATA
1 AAAAATAAAGAACGATCGG-ATTGAACCATGAGTCAAGTAA-TAAAAAATGATCGGGATGACACA
**
13241132 GCAAGTCA
64 GCAAGTTG
* * * * * *
13241140 AAAAATAAAGAACGATGGGGATTGAACCACGAGTCAAGTAATAAAAAACGATTGGGATGATACTG
1 AAAAATAAAGAACGAT-CGGATTGAACCATGAGTCAAGTAATAAAAAATGATCGGGATGACACAG
13241205 CAAGTTG
65 CAAGTTG
* * * * * *
13241212 AAAAATAAAGAATGATTGGATTGAACCATGACTCAAGTAATAAAAAATGATCGGAATAACACCGC
1 AAAAATAAAGAACGATCGGATTGAACCATGAGTCAAGTAATAAAAAATGATCGGGATGACACAGC
13241277 AAGTT-
66 AAGTTG
* * **
13241282 AGAAAATTAAGAACGACCAACATTGAACCATGAG-CAAGT
1 A-AAAATAAAGAACGATC-GGATTGAACCATGAGTCAAGT
13241321 CAAAAAATAA
Statistics
Matches: 147, Mismatches: 31, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
70 1 0.01
71 62 0.42
72 49 0.33
73 33 0.22
74 2 0.01
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.19
Consensus pattern (71 bp):
AAAAATAAAGAACGATCGGATTGAACCATGAGTCAAGTAATAAAAAATGATCGGGATGACACAGC
AAGTTG
Found at i:13241334 original size:40 final size:40
Alignment explanation
Indices: 13241275--13241351 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
13241265 GAATAACACC
* * *
13241275 GCAAGTTAGAAAATTAAGAACGACCAACATTGAACCATGA
1 GCAAGTCAAAAAATAAAGAACGACCAACATTGAACCATGA
* *
13241315 GCAAGTCAAAAAATAAAGAACGACCGAGATTGAACCA
1 GCAAGTCAAAAAATAAAGAACGACCAACATTGAACCA
13241352 CAAGTCAAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.49, C:0.18, G:0.18, T:0.14
Consensus pattern (40 bp):
GCAAGTCAAAAAATAAAGAACGACCAACATTGAACCATGA
Found at i:13241381 original size:37 final size:37
Alignment explanation
Indices: 13241328--13241401 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
13241318 AGTCAAAAAA
*
13241328 TAAAGAACGACCGAGATTGAACCACAAGTCAAGTAAT
1 TAAAGAACGACCGAGATTGAACCACAAATCAAGTAAT
* * *
13241365 TAAAGAATGACTGAGATTGAACCATAAATCAAGTAAT
1 TAAAGAACGACCGAGATTGAACCACAAATCAAGTAAT
13241402 GTTACTGCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (37 bp):
TAAAGAACGACCGAGATTGAACCACAAATCAAGTAAT
Found at i:13241479 original size:23 final size:22
Alignment explanation
Indices: 13241425--13241489 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
13241415 TGGGTTTACA
*
13241425 TGCTAGCTAATTTGGACTTTTG
1 TGCTAGCTAATTTGGACTTATG
* *
13241447 TGCCAACTAA-TTGTGAGCTTATG
1 TGCTAGCTAATTTG-GA-CTTATG
* *
13241470 TGCTAGCTAAATTGGGCTTA
1 TGCTAGCTAATTTGGACTTA
13241490 CATGTCAGCT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 14 0.41
23 14 0.41
24 3 0.09
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (22 bp):
TGCTAGCTAATTTGGACTTATG
Found at i:13242655 original size:19 final size:18
Alignment explanation
Indices: 13242608--13242655 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
13242598 CTTAGAGTCA
13242608 TATTCATTTTTTTTTACTT
1 TATT-ATTTTTTTTTACTT
* *
13242627 TTTCTCTTTTTTTTTACCTT
1 TAT-TATTTTTTTTTA-CTT
13242647 TATTATTTT
1 TATTATTTT
13242656 GATTTTTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (18 bp):
TATTATTTTTTTTTACTT
Found at i:13243037 original size:7 final size:7
Alignment explanation
Indices: 13243003--13243054 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
13242993 TTCATTTCAT
13243003 TTCTTTC
1 TTCTTTC
*
13243010 TTCCTT-
1 TTCTTTC
13243016 TTCTTTC
1 TTCTTTC
13243023 TT-TGTTC
1 TTCT-TTC
13243030 TTCTTTC
1 TTCTTTC
13243037 -T-TTTC
1 TTCTTTC
13243042 TTCTTTC
1 TTCTTTC
13243049 TT-TTTC
1 TTCTTTC
13243055 CCTTTTCCTC
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
5 4 0.11
6 12 0.32
7 21 0.55
8 1 0.03
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.73
Consensus pattern (7 bp):
TTCTTTC
Found at i:13249095 original size:20 final size:20
Alignment explanation
Indices: 13249073--13249111 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
13249063 AAATAGAGTC
13249073 AAAATTGGATAAAACTTGGCA
1 AAAATT-GATAAAACTTGGCA
13249094 AAAATTGATAAAACTTGG
1 AAAATTGATAAAACTTGG
13249112 GTCAACTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.49, C:0.08, G:0.18, T:0.26
Consensus pattern (20 bp):
AAAATTGATAAAACTTGGCA
Found at i:13251001 original size:7 final size:7
Alignment explanation
Indices: 13250977--13251111 Score: 99
Period size: 7 Copynumber: 20.0 Consensus size: 7
13250967 CAAACCTAAT
*
13250977 CCTAATC
1 CCTAAAC
13250984 CCT-AAC
1 CCTAAAC
13250990 CCTAAAC
1 CCTAAAC
*
13250997 TCTAAAC
1 CCTAAAC
**
13251004 TTTAAAAC
1 CCT-AAAC
13251012 CCTAAA-
1 CCTAAAC
13251018 CCTAAA-
1 CCTAAAC
* *
13251024 TCAAAAC
1 CCTAAAC
*
13251031 TCTAAA-
1 CCTAAAC
13251037 CCTAAAC
1 CCTAAAC
13251044 CCT-AAC
1 CCTAAAC
13251050 CCTAAAAC
1 CCT-AAAC
13251058 CCTAAAC
1 CCTAAAC
13251065 CCTAAATC
1 CCTAAA-C
13251073 CCT-AA-
1 CCTAAAC
13251078 CCTAAAC
1 CCTAAAC
13251085 CCTAAATC
1 CCTAAA-C
13251093 CCT-AA-
1 CCTAAAC
13251098 CCTAAAC
1 CCTAAAC
*
13251105 CCCAAAC
1 CCTAAAC
13251112 TAACGCTCAA
Statistics
Matches: 106, Mismatches: 10, Indels: 24
0.76 0.07 0.17
Matches are distributed among these distances:
5 6 0.06
6 30 0.28
7 51 0.48
8 19 0.18
ACGTcount: A:0.43, C:0.38, G:0.00, T:0.19
Consensus pattern (7 bp):
CCTAAAC
Found at i:13251083 original size:20 final size:20
Alignment explanation
Indices: 13251035--13251106 Score: 103
Period size: 20 Copynumber: 3.5 Consensus size: 20
13251025 CAAAACTCTA
13251035 AACCTAAACCCT-AA-CCCT
1 AACCTAAACCCTAAATCCCT
13251053 AAAACCCTAAACCCTAAATCCCT
1 --AA-CCTAAACCCTAAATCCCT
13251076 AACCTAAACCCTAAATCCCT
1 AACCTAAACCCTAAATCCCT
13251096 AACCTAAACCC
1 AACCTAAACCC
13251107 CAAACTAACG
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
20 31 0.63
21 12 0.24
22 2 0.04
23 4 0.08
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.17
Consensus pattern (20 bp):
AACCTAAACCCTAAATCCCT
Found at i:13251084 original size:27 final size:28
Alignment explanation
Indices: 13251008--13251097 Score: 100
Period size: 27 Copynumber: 3.3 Consensus size: 28
13250998 CTAAACTTTA
** *
13251008 AAACCCTAAA-CCTAAATC-AAAACTCT
1 AAACCCTAAACCCTAACCCTAAAACCCT
13251034 AAA-CCTAAACCCTAACCCTAAAACCCT
1 AAACCCTAAACCCTAACCCTAAAACCCT
13251061 AAACCCTAAATCCCTAA-CCT-AAACCCT
1 AAACCCTAAA-CCCTAACCCTAAAACCCT
13251088 AAATCCCTAA
1 AAA-CCCTAA
13251098 CCTAAACCCC
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
25 6 0.11
26 9 0.16
27 20 0.36
28 15 0.27
29 6 0.11
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.18
Consensus pattern (28 bp):
AAACCCTAAACCCTAACCCTAAAACCCT
Found at i:13253355 original size:20 final size:20
Alignment explanation
Indices: 13253317--13253355 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13253307 CTTGGTCAAG
* **
13253317 AAAGTTAAAATTAGTCAAAC
1 AAAGTCAAAATTACACAAAC
13253337 AAAGTCAAAATTACACAAA
1 AAAGTCAAAATTACACAAA
13253356 ACTTAATCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.13, G:0.08, T:0.21
Consensus pattern (20 bp):
AAAGTCAAAATTACACAAAC
Found at i:13253875 original size:144 final size:143
Alignment explanation
Indices: 13253626--13254033 Score: 418
Period size: 144 Copynumber: 2.9 Consensus size: 143
13253616 ATGAAGTGTG
* * * * * **
13253626 AAATTACTAAAATACCCCTATAAGGTTA-TTCGTAATTTGCCCTTCCCGAGCTTGGCTTTCATGA
1 AAATTACCAAAATACACCTATAAGGGTATTTCATAATTTGACCTTCCCGAGCTTGATTTTCATGA
* *
13253690 AACTTTTTAGATCTTAATTTCATAATATTTTATGATTTTTGGTGCATTTAAAATCATAGCAATAC
66 AACTTTTAAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTAAAATCATAGCAATAC
* *
13253755 CCTGTGA-A-GTCAA
131 CCCGAGAGATGT--A
* * * *
13253768 AAATTACCAAAATACACCTATAAGGGTATTTCACAATTTGACATTCCCAAGCTTAGATTTTTATG
1 AAATTACCAAAATACACCTATAAGGGTATTTCATAATTTGACCTTCCCGAGCTT-GATTTTCATG
* * ** * *
13253833 AAACTTTTAAAATCTTAATTTCATAATATTTCATGATTTTTGGTTCATTTGTAATCATAGTAGTA
65 AAACTTTTAAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTAAAATCATAGCAATA
*
13253898 CCCCGAGAGATGTG
130 CCCCGAGAGATGTA
* **
13253912 AAATTACCAAAATA-ACCCT-TAAGGGTATTTTCATAATTTGGCCTTCATGAG-TTCGAATTTTC
1 AAATTACCAAAATACA-CCTATAAGGGTA-TTTCATAATTTGACCTTCCCGAGCTT-G-ATTTTC
** * * * *
13253974 ACAAAATTTTTCAGATCTTAATTT-ATAATATTTCATAATTATTGGTGC-TTTAAAATCATA
62 ATGAAACTTTTAAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTAAAATCATA
13254034 AAAATGAGCA
Statistics
Matches: 219, Mismatches: 40, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
142 35 0.16
143 53 0.24
144 128 0.58
145 1 0.00
146 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (143 bp):
AAATTACCAAAATACACCTATAAGGGTATTTCATAATTTGACCTTCCCGAGCTTGATTTTCATGA
AACTTTTAAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTAAAATCATAGCAATAC
CCCGAGAGATGTA
Found at i:13254411 original size:11 final size:11
Alignment explanation
Indices: 13254395--13254419 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13254385 AAGTTTTCTC
13254395 AAAAAGAAAAA
1 AAAAAGAAAAA
13254406 AAAAAGAAAAA
1 AAAAAGAAAAA
13254417 AAA
1 AAA
13254420 GAAAGGCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:13255928 original size:218 final size:219
Alignment explanation
Indices: 13255583--13256128 Score: 697
Period size: 218 Copynumber: 2.5 Consensus size: 219
13255573 TAGTAATGAT
* * * * * *
13255583 AGTAATGAGAATTTTTTATGATAGGATTCCAGAAAGTCCGAGTAGTGATTCCTAAGAATTTTTTA
1 AGTAATGAGAATTTTTGATAATAGGACTCTAAAAAGTCTGAGTAGTGATTCCTAAGAATTTTTTA
* * * * * *
13255648 GATGAGAAGAGA-TTGCTAAAAATTACCAAAGTATTAGAATATTTAGAAACTCTTTTCAATACAA
66 GGTGAGAAAAGATTTTCTAAAAATTACCAAAGTATTGGAATATTTAAAAACTCCTTTCAATACAA
* * * **
13255712 CATTTTTTAATTAATTTGAACAATTCTCTTAAAGAGATAAAAAATATAAATATTTATAAGGGCAT
131 AATTTTTTAATTAATTTGAACAATTCTCTTAAAAAGATAAAAAACATAAATATTTATAAAAGCAT
*
13255777 GTATTT-TTTTAATAATAAAAATA
196 GCATTTGTTTTAATAATAAAAATA
* * * **
13255800 AGTAATAAGAATTTTCGATAATAGGACTCTAAAAAGTCTGAGTAGTGATTCCTGAGAATTTCCTA
1 AGTAATGAGAATTTTTGATAATAGGACTCTAAAAAGTCTGAGTAGTGATTCCTAAGAATTTTTTA
* *
13255865 GGTGGGAAAAGATTTTCTAAAAATTACCAAAGTTTTGGAATATTTAAAAACTCCTTTCAATACAA
66 GGTGAGAAAAGATTTTCTAAAAATTACCAAAGTATTGGAATATTTAAAAACTCCTTTCAATACAA
* * *
13255930 AATTTTTTAATTATTTTGAACAATTTTCTTAAAAAGATAAAAAGCATAAATATTTATAAAAGCAT
131 AATTTTTTAATTAATTTGAACAATTCTCTTAAAAAGATAAAAAACATAAATATTTATAAAAGCAT
*
13255995 GCATTTGTTTTAATAATAAAATTA
196 GCATTTGTTTTAATAATAAAAATA
* * * *
13256019 AGTAATGAGAATTTTTGATGATTA-GACTTTGAAAAA-TCTAAGTAGTGATTCTTAAGAATTTTT
1 AGTAATGAGAATTTTTGAT-AATAGGACTCT-AAAAAGTCTGAGTAGTGATTCCTAAGAATTTTT
* * ** *
13256082 TAGGTGAGAATAG-TCTTCTAAAAATTGTCAAAGTGTTGGAATATTTA
64 TAGGTGAGAAAAGATTTTCTAAAAATTACCAAAGTATTGGAATATTTA
13256129 GATTTTTTTT
Statistics
Matches: 281, Mismatches: 44, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
217 63 0.22
218 139 0.49
219 71 0.25
220 8 0.03
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (219 bp):
AGTAATGAGAATTTTTGATAATAGGACTCTAAAAAGTCTGAGTAGTGATTCCTAAGAATTTTTTA
GGTGAGAAAAGATTTTCTAAAAATTACCAAAGTATTGGAATATTTAAAAACTCCTTTCAATACAA
AATTTTTTAATTAATTTGAACAATTCTCTTAAAAAGATAAAAAACATAAATATTTATAAAAGCAT
GCATTTGTTTTAATAATAAAAATA
Found at i:13260546 original size:14 final size:14
Alignment explanation
Indices: 13260522--13260554 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
13260512 TTTAACCTAC
13260522 TGTTT-TTTCACTT
1 TGTTTATTTCACTT
*
13260535 TTTTTATTTCACTT
1 TGTTTATTTCACTT
13260549 TGTTTA
1 TGTTTA
13260555 CATGTTGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.12, C:0.12, G:0.06, T:0.70
Consensus pattern (14 bp):
TGTTTATTTCACTT
Found at i:13270298 original size:218 final size:221
Alignment explanation
Indices: 13269911--13270449 Score: 668
Period size: 218 Copynumber: 2.4 Consensus size: 221
13269901 AATGGAAATT
* ** * * *
13269911 TTTTGTATTGAAAAAAAATTTTAAATATTCCAACACTTTGACAATTTTTAGAAGA-CTATTCTCA
1 TTTTGTATTGAAAAGAGTTTTTAAATATTCCAAAACTTTG-TAATTTTTAGAAAATCTATTCTCA
** *
13269975 CCT-AGAAAATTCTC-GAGAATCACTACTTAGA-TTTTTCAGAGTCTCACCATCGAAAATTCTCA
65 CCTAAG-AAATTCTCAG-GAATCACTACTCGGACTTTTTCAAAGTCTCACCATCGAAAATTCTCA
*
13270037 TTACTTAATTTTATTATTAAAACAAATGCATGCTCTTATAAATATTTATA-CTTTTTATCTTTTT
128 TTACTTAATTTTATTATTAAAACAAATACATGCTCTTATAAATATTTATATCTTTTTATCTTTTT
13270101 AAGAAAATTGTTCAAAATAATT-AAAAAA
193 AAGAAAATTGTTCAAAATAATTAAAAAAA
* *
13270129 TTTTGTATTGAAAAGAGTTTTTAAATATTCCAAAACTTTAGTAATTTTTAGAAAATCTTTTCCCA
1 TTTTGTATTGAAAAGAGTTTTTAAATATTCCAAAACTTT-GTAATTTTTAGAAAATCTATTCTCA
* ** *
13270194 CCTAAGAAATTCTCAGGAATCACCACTCGGACTTTTT-AAAGTC-CTATTATCGAAAATTCTTAT
65 CCTAAGAAATTCTCAGGAATCACTACTCGGACTTTTTCAAAGTCTC-ACCATCGAAAATTCTCAT
* *
13270257 TACTTATTTTTATTATTAAAA-AAATACATGC-CGTTATAAATATTTATATTTTTTTTATCTTTT
129 TACTTAATTTTATTATTAAAACAAATACATGCTC-TTATAAATATTTATA-TCTTTTTATCTTTT
*
13270320 TAAGAGAATTGTTCAAAATAATTAAAAAAAA
192 TAAGAAAATTGTTCAAAATAATT-AAAAAAA
* * * * *
13270351 TGTTGTATTGAAAAGAGTTTCTAAATATTCTAATACTTTGGTAATTTTTAG-AAATCTCTTCTCA
1 TTTTGTATTGAAAAGAGTTTTTAAATATTCCAAAACTTT-GTAATTTTTAGAAAATCTATTCTCA
** * *
13270415 TTTAAAAAATTCTTAGGAATCACTACTCGGACTTT
65 CCTAAGAAATTCTCAGGAATCACTACTCGGACTTT
13270450 CTGGAGTCCT
Statistics
Matches: 279, Mismatches: 31, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
217 1 0.00
218 72 0.26
219 71 0.25
220 42 0.15
221 41 0.15
222 52 0.19
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (221 bp):
TTTTGTATTGAAAAGAGTTTTTAAATATTCCAAAACTTTGTAATTTTTAGAAAATCTATTCTCAC
CTAAGAAATTCTCAGGAATCACTACTCGGACTTTTTCAAAGTCTCACCATCGAAAATTCTCATTA
CTTAATTTTATTATTAAAACAAATACATGCTCTTATAAATATTTATATCTTTTTATCTTTTTAAG
AAAATTGTTCAAAATAATTAAAAAAA
Found at i:13272279 original size:143 final size:143
Alignment explanation
Indices: 13272036--13272433 Score: 423
Period size: 143 Copynumber: 2.8 Consensus size: 143
13272026 ATTTTAAAGC
* * ** * * *
13272036 ACCAAAAATCATGAAATATTAT-AAATTAAGATTTGAAAATTTTTGTGAAAATTCGAA-CTCAGG
1 ACCAAAAATCATGAAATATTATGAAATTAAGATTTAAAAAGTTTCAT-AAAAATCCAAGCTCGGG
* * *
13272099 AAGGCCAAATTATGAAA-ATACCATTA-AGGGTTATTTTGGTAATTTCACACCTCTCGGGGTACT
65 AAGGCCAAATTACGAAATAT-CC-TTATAGGG-TATTTTGGTAATTTCACACCTCACAGGGTACT
13272162 ACTATGATTACAAATGA
127 ACTATGATTACAAATGA
* *
13272179 ACC-AAAATCATGAAATATTATGAAATTAAGATTTAAAAAGTTTCATAAAAATCTAAGCTTGGGA
1 ACCAAAAATCATGAAATATTATGAAATTAAGATTTAAAAAGTTTCATAAAAATCCAAGCTCGGGA
* * *** * * *
13272243 ATGTCAAATTACGAAATATCCTTATAGGTGTATTTTGGTAATTTTTGACTTCACAGGGTATTGCT
66 AGGCCAAATTACGAAATATCCTTATAGG-GTATTTTGGTAATTTCACACCTCACAGGGTACTACT
** *
13272308 ATGATTTTAAATGC
130 ATGATTACAAATGA
* * *
13272322 ACCAAAAATCATAAAATATTATGAAATTAAGATCTAAAAAGTTTCAT-GAAATCCAAGCTCGGGA
1 ACCAAAAATCATGAAATATTATGAAATTAAGATTTAAAAAGTTTCATAAAAATCCAAGCTCGGGA
* * *
13272386 AGGGCAAATTACG-AATAACCTTATAGGGGTATTTTAGTAATTTTCACA
66 AGGCCAAATTACGAAATATCCTTATA-GGGTATTTTGGTAA-TTTCACA
13272434 ATTCATGGGA
Statistics
Matches: 213, Mismatches: 34, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
142 51 0.24
143 118 0.55
144 44 0.21
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.32
Consensus pattern (143 bp):
ACCAAAAATCATGAAATATTATGAAATTAAGATTTAAAAAGTTTCATAAAAATCCAAGCTCGGGA
AGGCCAAATTACGAAATATCCTTATAGGGTATTTTGGTAATTTCACACCTCACAGGGTACTACTA
TGATTACAAATGA
Found at i:13275034 original size:184 final size:184
Alignment explanation
Indices: 13274720--13275273 Score: 1054
Period size: 184 Copynumber: 3.0 Consensus size: 184
13274710 AAGTTAGGTT
* *
13274720 CAGGTGTCGATTACGTATGATGAAGGATTTAGCACCCTTACAGCACTCATCAAAAGTAGTACCAA
1 CAGGAGTCGATTATGTATGATGAAGGATTTAGCACCCTTACAGCACTCATCAAAAGTAGTACCAA
*
13274785 TTGATTGCATAACACAATAAAATATGATGAATGCATGAAAATATAATATGGATTACAAAGTATGA
66 TTGATTGCATAACACAATAAAATATGATGAATGCATGAAAATATAATATGGATGACAAAGTATGA
13274850 ATGCATGATACTATAAAAATGCATGTGATGACAAGGTTAAATGAAATACAAATG
131 ATGCATGATACTATAAAAATGCATGTGATGACAAGGTTAAATGAAATACAAATG
*
13274904 CAGGAGTCGATTATGTATGATGAAGGATTTAGCACCCTTACAGCACTAATCAAAAGTAGTACCAA
1 CAGGAGTCGATTATGTATGATGAAGGATTTAGCACCCTTACAGCACTCATCAAAAGTAGTACCAA
*
13274969 TTGATTCCATAACACAATAAAATATGATGAATGCATGAAAATATAATATGGATGACAAAGTATGA
66 TTGATTGCATAACACAATAAAATATGATGAATGCATGAAAATATAATATGGATGACAAAGTATGA
*
13275034 ATGCATGATACTATAAAAATGCATGTGATGACAAGGTTAAATGAAGTACAAATG
131 ATGCATGATACTATAAAAATGCATGTGATGACAAGGTTAAATGAAATACAAATG
13275088 CAGGAGTCGATTATGTATGATGAAGGATTTAGCACCCTTACAGCACTCATCAAAAGTAGTACCAA
1 CAGGAGTCGATTATGTATGATGAAGGATTTAGCACCCTTACAGCACTCATCAAAAGTAGTACCAA
13275153 TTGATTGCATAACACAATAAAATATGATGAATGCATGAAAATATAATATGGATGACAAAGTATGA
66 TTGATTGCATAACACAATAAAATATGATGAATGCATGAAAATATAATATGGATGACAAAGTATGA
13275218 ATGCATGATACTATAAAAATGCATGTGATGACAAGGTTAAATGAAATACAAATG
131 ATGCATGATACTATAAAAATGCATGTGATGACAAGGTTAAATGAAATACAAATG
13275272 CA
1 CA
13275274 TGATTGATTT
Statistics
Matches: 361, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
184 361 1.00
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.26
Consensus pattern (184 bp):
CAGGAGTCGATTATGTATGATGAAGGATTTAGCACCCTTACAGCACTCATCAAAAGTAGTACCAA
TTGATTGCATAACACAATAAAATATGATGAATGCATGAAAATATAATATGGATGACAAAGTATGA
ATGCATGATACTATAAAAATGCATGTGATGACAAGGTTAAATGAAATACAAATG
Found at i:13275332 original size:7 final size:7
Alignment explanation
Indices: 13275313--13275427 Score: 69
Period size: 7 Copynumber: 16.7 Consensus size: 7
13275303 GGGGTCTAGG
13275313 TTAGGGAT
1 TTAGGG-T
13275321 TTAGGGT
1 TTAGGGT
*
13275328 TTAGGGG
1 TTAGGGT
*
13275335 TTATGGT
1 TTAGGGT
13275342 TTAGGGTT
1 TTAGGG-T
*
13275350 TTAAGG-
1 TTAGGGT
13275356 TTAGGGT
1 TTAGGGT
13275363 TTA-GGT
1 TTAGGGT
*
13275369 TTAGAGT
1 TTAGGGT
* *
13275376 TT-CGAT
1 TTAGGGT
13275382 TTA-GGT
1 TTAGGGT
13275388 TTAGGGTT
1 TTAGGG-T
**
13275396 TTAAAGT
1 TTAGGGT
*
13275403 TTAGAGT
1 TTAGGGT
*
13275410 TTAGAG-
1 TTAGGGT
*
13275416 TTAGGGA
1 TTAGGGT
13275423 TTAGG
1 TTAGG
13275428 ATTAGATTTG
Statistics
Matches: 85, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
6 24 0.28
7 44 0.52
8 17 0.20
ACGTcount: A:0.22, C:0.01, G:0.35, T:0.43
Consensus pattern (7 bp):
TTAGGGT
Found at i:13275346 original size:21 final size:21
Alignment explanation
Indices: 13275310--13275374 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
13275300 TTTGGGGTCT
13275310 AGGTTAGGGATTTAGGGTTTAG
1 AGGTTAGGG-TTTAGGGTTTAG
* *
13275332 GGGTTATGGTTTAGGGTTTTA-
1 AGGTTAGGGTTTAGGG-TTTAG
13275353 AGGTTAGGGTTTA-GGTTTAG
1 AGGTTAGGGTTTAGGGTTTAG
13275373 AG
1 AG
13275375 TTTCGATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
19 4 0.11
20 4 0.11
21 18 0.49
22 11 0.30
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (21 bp):
AGGTTAGGGTTTAGGGTTTAG
Found at i:13275359 original size:14 final size:15
Alignment explanation
Indices: 13275313--13275411 Score: 62
Period size: 15 Copynumber: 6.6 Consensus size: 15
13275303 GGGGTCTAGG
* *
13275313 TTAGGGATTTAGGGT
1 TTAGGGTTTTAAGGT
* *
13275328 TTAGGG-GTTATGGT
1 TTAGGGTTTTAAGGT
13275342 TTAGGGTTTTAAGG-
1 TTAGGGTTTTAAGGT
13275356 TTAGGG-TTT-AGGT
1 TTAGGGTTTTAAGGT
* *
13275369 TTAGAGTTTCGATTTAGGT
1 TTAG-GGTT---TTAAGGT
*
13275388 TTAGGGTTTTAAAGT
1 TTAGGGTTTTAAGGT
*
13275403 TTAGAGTTT
1 TTAGGGTTT
13275412 AGAGTTAGGG
Statistics
Matches: 67, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
12 3 0.04
13 7 0.10
14 19 0.28
15 25 0.37
18 5 0.07
19 8 0.12
ACGTcount: A:0.20, C:0.01, G:0.33, T:0.45
Consensus pattern (15 bp):
TTAGGGTTTTAAGGT
Found at i:13275372 original size:13 final size:13
Alignment explanation
Indices: 13275282--13275392 Score: 79
Period size: 13 Copynumber: 8.5 Consensus size: 13
13275272 CATGATTGAT
13275282 TTTAGGTTTGAGGG
1 TTTAGGTTT-AGGG
*
13275296 -TTA-GTTTGGGG
1 TTTAGGTTTAGGG
*
13275307 TCTAGG-TTAGGG
1 TTTAGGTTTAGGG
13275319 ATTTAGGGTTTAGGG
1 -TTTA-GGTTTAGGG
*
13275334 GTTATGGTTTAGGG
1 TTTA-GGTTTAGGG
13275348 TTTTAAGG-TTAGGG
1 -TTT-AGGTTTAGGG
*
13275362 TTTAGGTTTAGAG
1 TTTAGGTTTAGGG
* *
13275375 TTTCGATTTA-GG
1 TTTAGGTTTAGGG
13275387 TTTAGG
1 TTTAGG
13275393 GTTTTAAAGT
Statistics
Matches: 76, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
11 3 0.04
12 19 0.25
13 23 0.30
14 20 0.26
15 10 0.13
16 1 0.01
ACGTcount: A:0.17, C:0.02, G:0.38, T:0.43
Consensus pattern (13 bp):
TTTAGGTTTAGGG
Found at i:13275621 original size:16 final size:16
Alignment explanation
Indices: 13275600--13275633 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13275590 TTTTTCTTTA
13275600 AAAAAAAAACTAAAAT
1 AAAAAAAAACTAAAAT
**
13275616 AAAAAATCACTAAAAT
1 AAAAAAAAACTAAAAT
13275632 AA
1 AA
13275634 CCTAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAAAAAAACTAAAAT
Found at i:13277043 original size:144 final size:141
Alignment explanation
Indices: 13276776--13277112 Score: 314
Period size: 144 Copynumber: 2.4 Consensus size: 141
13276766 CAACCTCTGA
* * * *
13276776 AATGTCAAATTACGAAATTACCCCTA-AGGGT-TTTTCGTAATTTCATACCTCTCGGGCTATTGC
1 AATGTCAAATTACAAAATTACCCTTATAGGGTATTTT-GTAATTTCACACCTCTCGGGCAATT-C
* *
13276839 TAGGATTTAAAATGCTCCAAAAATCATAAAATATTATAAAATCATGATTTGAAAAGTTTCACGAA
64 AAGGATTTAAAAT-CTCCAAAAATCATAAAATATTATAAAACCATGATTTGAAAAGTTTCACG-A
13276904 AAACT-AACCTCAAG
127 AAACTCAACCTCAAG
*
13276918 AATGTCAAATTACAAAATTACCCTTATAGGGTATTTTGATAATTTCACACCTTTCGAGGTACAAT
1 AATGTCAAATTACAAAATTACCCTTATAGGGTATTTTG-TAATTTCACACCTCTCG-GG--CAAT
* * * **
13276983 T-AAGGATTTCAAAAT-TCTAAAAATCATTAAATGATT-TCAAACCATGATTTGGAGCA-TTTCA
62 TCAAGGATTT-AAAATCTCCAAAAATCATAAAAT-ATTATAAAACCATGATTT-GAAAAGTTTCA
* ** ***
13277044 TGAAATTTCAACCTTGGG
124 CGAAAACTCAACCTCAAG
* * *
13277062 AAGGTCAAATTACAAAAATA-CCTT-TAAGGTATTTTTGTAATTTCACACCTC
1 AATGTCAAATTACAAAATTACCCTTATAGGGTA-TTTTGTAATTTCACACCTC
13277113 CTAAGATGTG
Statistics
Matches: 162, Mismatches: 22, Indels: 22
0.79 0.11 0.11
Matches are distributed among these distances:
142 43 0.27
143 19 0.12
144 76 0.47
145 15 0.09
146 5 0.03
147 4 0.02
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (141 bp):
AATGTCAAATTACAAAATTACCCTTATAGGGTATTTTGTAATTTCACACCTCTCGGGCAATTCAA
GGATTTAAAATCTCCAAAAATCATAAAATATTATAAAACCATGATTTGAAAAGTTTCACGAAAAC
TCAACCTCAAG
Found at i:13277330 original size:20 final size:21
Alignment explanation
Indices: 13277305--13277343 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
13277295 GAGAGTTGAC
13277305 CCAAGTTCTAT-CAATTTTTA
1 CCAAGTTCTATCCAATTTTTA
*
13277325 CCAAGTTTTATCCAATTTT
1 CCAAGTTCTATCCAATTTT
13277344 GACTCTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.28, C:0.21, G:0.05, T:0.46
Consensus pattern (21 bp):
CCAAGTTCTATCCAATTTTTA
Found at i:13277354 original size:20 final size:20
Alignment explanation
Indices: 13277331--13277372 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
13277321 TTTACCAAGT
*
13277331 TTTATCCAATTTTGACTCTA
1 TTTAACCAATTTTGACTCTA
* *
13277351 TTTAACTAATTTTGACTTTA
1 TTTAACCAATTTTGACTCTA
13277371 TT
1 TT
13277373 GATCAAGTTT
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:0.26, C:0.14, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTAACCAATTTTGACTCTA
Found at i:13284491 original size:145 final size:146
Alignment explanation
Indices: 13284254--13284666 Score: 369
Period size: 146 Copynumber: 2.8 Consensus size: 146
13284244 GAGAAAGACC
* * * * * **
13284254 AAATTAC-CAAAATACCCTTATAAGGGGCATTTTTGTAATTT-GACTTTCTCGGGCTC-AAATTT
1 AAATTACGAAAAATACCCTTATAA-GGGTATTTTGGCAATTTAGCCTTTC-CAAGCTCGAAA-TT
* ** *
13284316 TCATGAAACTTTCCAGA-CCTTAATCCTATAATATGTCATGATTTTTTATGCATTTAAAATCACA
63 TCATGAAACTTTTCAGATCC-TAATATTATAATATTTCATGATTTTTTATGCATTTAAAATCACA
* * * *
13284380 GCAGTA-CCTTGGGAAGTGTA
127 ACAGTACCCCT-GAAAGTATA
* * ** * *
13284400 AAATTA-GTAAAATACCCTTAT-AGGTGTATTTTGGCAATTTGGCC-TTCTTGAGCTTGGAATTT
1 AAATTACGAAAAATACCCTTATAAGG-GTATTTTGGCAATTTAGCCTTTC-CAAGCTCGAAATTT
* * * * *
13284462 CATGAAACTTTTCAGATCCTAGTTTTATAATATTTCATGAATTTTTATGCATTTTAAATCATAAC
64 CATGAAACTTTTCAGATCCTAATATTATAATATTTCATGATTTTTTATGCATTTAAAATCACAAC
* *
13284527 ATTACCCCTGAAAGTATG
129 AGTACCCCTGAAAGTATA
* * *
13284545 AAATTACGAAAAATACCCTTATAAGGGTATTTTTGTAATTTAGTCTTTCCAAGCTCGAAATTTCA
1 AAATTACGAAAAATACCCTTATAAGGGTATTTTGGCAATTTAGCCTTTCCAAGCTCGAAATTTCA
* * * *
13284610 TGAAAC-TTTCTAGATCATAATATTATAACATTTCATGATTTTTTGTG-TTTTAAAATC
66 TGAAACTTTTC-AGATCCTAATATTATAATATTTCATGATTTTTTATGCATTTAAAATC
13284667 CCAAAAATGA
Statistics
Matches: 217, Mismatches: 40, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
144 2 0.01
145 104 0.48
146 105 0.48
147 6 0.03
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (146 bp):
AAATTACGAAAAATACCCTTATAAGGGTATTTTGGCAATTTAGCCTTTCCAAGCTCGAAATTTCA
TGAAACTTTTCAGATCCTAATATTATAATATTTCATGATTTTTTATGCATTTAAAATCACAACAG
TACCCCTGAAAGTATA
Found at i:13284617 original size:146 final size:146
Alignment explanation
Indices: 13284254--13284666 Score: 412
Period size: 145 Copynumber: 2.8 Consensus size: 146
13284244 GAGAAAGACC
* * *
13284254 AAATTAC-CAAAATACCCTTATAAGGGGCATTTTTGTAATTTGACTTTCTCGGGCTC-AAATTTT
1 AAATTACGAAAAATACCCTTATAA-GGGTATTTTTGTAATTTGACTTTCTCGAGCTCGAAA-TTT
* ** * *
13284317 CATGAAACTTTCCAGA-CCTTAATCCTATAATATGTCATGATTTTTTATGCATTTAAAATCACAG
64 CATGAAACTTTTCAGATCC-TAATATTATAATATTTCATGATTTTTTATGCATTTAAAATCACAA
* * *
13284381 CAGTACCTTGGGAAGTGTA
128 CAGTACCCTGGAAAGTATA
* * * * * * * *
13284400 AAATTA-GTAAAATACCCTTAT-AGGTGTATTTTGGCAATTTGGCCTTCTTGAGCTTGGAATTTC
1 AAATTACGAAAAATACCCTTATAAGG-GTATTTTTGTAATTTGACTTTCTCGAGCTCGAAATTTC
* * * * *
13284463 ATGAAACTTTTCAGATCCTAGTTTTATAATATTTCATGAATTTTTATGCATTTTAAATCATAACA
65 ATGAAACTTTTCAGATCCTAATATTATAATATTTCATGATTTTTTATGCATTTAAAATCACAACA
* *
13284528 TTACCCCT-GAAAGTATG
130 GTA-CCCTGGAAAGTATA
* *
13284545 AAATTACGAAAAATACCCTTATAAGGGTATTTTTGTAATTTAGTCTTTC-CAAGCTCGAAATTTC
1 AAATTACGAAAAATACCCTTATAAGGGTATTTTTGTAATTT-GACTTTCTCGAGCTCGAAATTTC
* * * *
13284609 ATGAAAC-TTTCTAGATCATAATATTATAACATTTCATGATTTTTTGTG-TTTTAAAATC
65 ATGAAACTTTTC-AGATCCTAATATTATAATATTTCATGATTTTTTATGCATTTAAAATC
13284667 CCAAAAATGA
Statistics
Matches: 217, Mismatches: 41, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
144 2 0.01
145 106 0.49
146 101 0.47
147 8 0.04
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (146 bp):
AAATTACGAAAAATACCCTTATAAGGGTATTTTTGTAATTTGACTTTCTCGAGCTCGAAATTTCA
TGAAACTTTTCAGATCCTAATATTATAATATTTCATGATTTTTTATGCATTTAAAATCACAACAG
TACCCTGGAAAGTATA
Found at i:13292956 original size:1 final size:1
Alignment explanation
Indices: 13292950--13293011 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
13292940 AACATTTTCA
* * * * * * * *
13292950 TTTTTTTATTTTTTTATTTTTTTTTTGTGTTTTTTTTTGTTCTTTTTTTGTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
13293012 ACCAAAGCTC
Statistics
Matches: 45, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.03, C:0.02, G:0.08, T:0.87
Consensus pattern (1 bp):
T
Found at i:13292982 original size:27 final size:27
Alignment explanation
Indices: 13292952--13293011 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
13292942 CATTTTCATT
*
13292952 TTTTTATTTTTTTATTTTTTT-TTTGTG
1 TTTTT-TTTTGTTATTTTTTTGTTTGTG
* *
13292979 TTTTTTTTTGTTCTTTTTTTGTTTTTG
1 TTTTTTTTTGTTATTTTTTTGTTTGTG
13293006 TTTTTT
1 TTTTTT
13293012 ACCAAAGCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 13 0.45
27 16 0.55
ACGTcount: A:0.03, C:0.02, G:0.08, T:0.87
Consensus pattern (27 bp):
TTTTTTTTTGTTATTTTTTTGTTTGTG
Found at i:13292984 original size:23 final size:23
Alignment explanation
Indices: 13292958--13293012 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
13292948 CATTTTTTTA
*
13292958 TTTTTTTATTTTTTTTTTGTGTT
1 TTTTTTTATTCTTTTTTTGTGTT
* *
13292981 TTTTTTTGTTCTTTTTTTGTTTT
1 TTTTTTTATTCTTTTTTTGTGTT
13293004 TGTTTTTTA
1 T-TTTTTTA
13293013 CCAAAGCTCC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.04, C:0.02, G:0.09, T:0.85
Consensus pattern (23 bp):
TTTTTTTATTCTTTTTTTGTGTT
Found at i:13293005 original size:17 final size:15
Alignment explanation
Indices: 13292950--13293011 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 15
13292940 AACATTTTCA
*
13292950 TTTTTTTATTTTTTT
1 TTTTTTTGTTTTTTT
*
13292965 ATTTTTTT-TTTGTGTT
1 -TTTTTTTGTTT-TTTT
13292981 TTTTTTTGTTCTTTTT
1 TTTTTTTGTT-TTTTT
13292997 TTGTTTTTGTTTTTT
1 TT-TTTTTGTTTTTT
13293012 ACCAAAGCTC
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
15 10 0.25
16 21 0.52
17 9 0.22
ACGTcount: A:0.03, C:0.02, G:0.08, T:0.87
Consensus pattern (15 bp):
TTTTTTTGTTTTTTT
Found at i:13293009 original size:12 final size:11
Alignment explanation
Indices: 13292958--13293010 Score: 70
Period size: 11 Copynumber: 4.6 Consensus size: 11
13292948 CATTTTTTTA
*
13292958 TTTTTTTATTT
1 TTTTTTTGTTT
13292969 TTTTTTTGTGTT
1 TTTTTTTGT-TT
*
13292981 TTTTTTTGTTC
1 TTTTTTTGTTT
13292992 TTTTTTTGTTT
1 TTTTTTTGTTT
13293003 TTGTTTTT
1 TT-TTTTT
13293011 TACCAAAGCT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
11 21 0.57
12 16 0.43
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.87
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:13293196 original size:41 final size:41
Alignment explanation
Indices: 13293018--13293356 Score: 543
Period size: 41 Copynumber: 8.1 Consensus size: 41
13293008 TTTTACCAAA
* * *
13293018 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAA-GTAAATT
*
13293061 GCTCCTCTGAACAGAGGCACCACGACTTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGGAAAGTAAATT
13293103 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATT
*
13293145 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAATTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
13293186 GCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGGAAAGTAAATT
*
13293228 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
*
13293269 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
* *
13293310 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
*
13293351 ACTCCT
1 GCTCCT
13293357 TGACAATCAT
Statistics
Matches: 281, Mismatches: 12, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
41 138 0.49
42 112 0.40
43 27 0.10
44 4 0.01
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
Found at i:13293205 original size:83 final size:82
Alignment explanation
Indices: 13293018--13293356 Score: 543
Period size: 83 Copynumber: 4.1 Consensus size: 82
13293008 TTTTACCAAA
* * * *
13293018 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATTGCTCCTCTGAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAA-GTAAATTGCTCCTCTAAACAGAGGCACCA
*
13293083 CGACTTTTGGAAAGTAAATT
64 CGAC-TTTGAAAAGTAAATT
13293103 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* *
13293168 GACTTTGGAAATTAAATT
65 GACTTTGAAAAGTAAATT
13293186 GCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
13293251 GACTTTGAAAAGTAAATT
65 GACTTTGAAAAGTAAATT
* *
13293269 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
13293334 ACTTTGAAAAGTAAATT
66 ACTTTGAAAAGTAAATT
*
13293351 ACTCCT
1 GCTCCT
13293357 TGACAATCAT
Statistics
Matches: 242, Mismatches: 10, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
82 60 0.25
83 114 0.47
84 37 0.15
85 31 0.13
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (82 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
ACTTTGAAAAGTAAATT
Found at i:13294646 original size:20 final size:21
Alignment explanation
Indices: 13294616--13294662 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
13294606 GAATCTCTTT
13294616 TTTTATTTTTTCAT-TTTTTCC
1 TTTT-TTTTTTCATCTTTTTCC
*
13294637 TTTTTTTTTTCATCTTTTTTC
1 TTTTTTTTTTCATCTTTTTCC
13294658 TTTTT
1 TTTTT
13294663 GCTCATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTTTTTTTTCATCTTTTTCC
Found at i:13295072 original size:13 final size:12
Alignment explanation
Indices: 13295054--13295084 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
13295044 TTTTGTGGTC
13295054 TTTTTTTCTTTT
1 TTTTTTTCTTTT
13295066 TTCTTTTTCTTTT
1 TT-TTTTTCTTTT
13295079 TTTTTT
1 TTTTTT
13295085 CAAAATTACC
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:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:13298686 original size:58 final size:56
Alignment explanation
Indices: 13298614--13298889 Score: 279
Period size: 58 Copynumber: 4.7 Consensus size: 56
13298604 ATTTTTGTGT
* *
13298614 AGGAAAAGTTGATACTTTCAACTTTTTCCCAAAAATATTTTTT-AGAAATGTTAATCTCG
1 AGGAAAA-TTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTGA-AAAT-TTAATTTCA
* *
13298673 AGGAAAATTGATACTTTCAAGTTTTTCCC-AAAATATCTTTTGAAAACTTTAATTTCGA
1 AGGAAAATTGATACTTTCAA-CTTTTCCCAAAAATATTTTTTGAAAA-TTTAATTTC-A
* * * * *
13298731 A-GAAAATTGATACTTTCAACTTTTCCTCAAAATTTTTTTTTTTTAAATTTTGATTTCCA
1 AGGAAAATTGATACTTTCAACTTTTCC-CAAAA--ATATTTTTTGAAAATTTAATTT-CA
* * *
13298790 AGGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTATTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCC-CAAAAAT-ATTTTTTGAAAATTTAATTTCA
* *
13298848 AGAAAAATTGATATTTTCAACTTTTCTCCAAAAATATTTTTT
1 AGGAAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTT
13298890 TGATTTTTAT
Statistics
Matches: 184, Mismatches: 21, Indels: 26
0.80 0.09 0.11
Matches are distributed among these distances:
56 6 0.03
57 46 0.25
58 59 0.32
59 32 0.17
60 41 0.22
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (56 bp):
AGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAAATTTAATTTCA
Found at i:13298930 original size:22 final size:22
Alignment explanation
Indices: 13298905--13298946 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
13298895 TTTATTTAAA
13298905 GAAAATAGAACAAA-ATAAAAGT
1 GAAAATA-AACAAAGATAAAAGT
*
13298927 GAAAATAAATAAAGATAAAA
1 GAAAATAAACAAAGATAAAA
13298947 AATAAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.71, C:0.02, G:0.12, T:0.14
Consensus pattern (22 bp):
GAAAATAAACAAAGATAAAAGT
Found at i:13298950 original size:17 final size:16
Alignment explanation
Indices: 13298928--13299024 Score: 69
Period size: 17 Copynumber: 6.1 Consensus size: 16
13298918 AATAAAAGTG
13298928 AAAATAAATAAAGATAA
1 AAAATAAATAAA-ATAA
*
13298945 AAAATAAAGAAAAGTAA
1 AAAATAAATAAAA-TAA
*
13298962 AACAA-AAATAAAAT-T
1 AA-AATAAATAAAATAA
* * *
13298977 AAGATAAA-GATA-AA
1 AAAATAAATAAAATAA
13298991 AAAATAAATAAATATAA
1 AAAATAAATAAA-ATAA
*
13299008 CAAATAAATAAAA-AA
1 AAAATAAATAAAATAA
13299023 AA
1 AA
13299025 TTAAAAAAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
14 10 0.16
15 9 0.15
16 4 0.07
17 36 0.59
18 2 0.03
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.16
Consensus pattern (16 bp):
AAAATAAATAAAATAA
Found at i:13299983 original size:22 final size:21
Alignment explanation
Indices: 13299930--13300077 Score: 87
Period size: 23 Copynumber: 6.9 Consensus size: 21
13299920 ATATTATAGG
13299930 ATAAATAAAAA-A-ATAA-TA
1 ATAAATAAAAATATATAATTA
*
13299948 AT-AATAACAGATATATAATTA
1 ATAAATAA-AAATATATAATTA
* *
13299969 GATAAATAAAAATATAAAAATAA
1 -ATAAATAAAAATAT-ATAATTA
13299992 ATAAAATATAAAATA-ATAA-TA
1 AT-AAATA-AAAATATATAATTA
13300013 ATAAATAAATAA-ATA-AATTATA
1 ATAAATAAA-AATATATAA-T-TA
*
13300035 ATATAATAATAAATATATAACTA
1 ATA-AATAA-AAATATATAATTA
*
13300058 TATAAATAAAATACATATAA
1 -ATAAATAAAA-ATATATAA
13300078 ATATTAACAG
Statistics
Matches: 102, Mismatches: 8, Indels: 35
0.70 0.06 0.24
Matches are distributed among these distances:
17 5 0.05
18 4 0.04
19 6 0.06
20 12 0.12
21 5 0.05
22 19 0.19
23 36 0.35
24 13 0.13
25 2 0.02
ACGTcount: A:0.68, C:0.02, G:0.01, T:0.29
Consensus pattern (21 bp):
ATAAATAAAAATATATAATTA
Found at i:13299993 original size:4 final size:4
Alignment explanation
Indices: 13299970--13300146 Score: 61
Period size: 4 Copynumber: 44.2 Consensus size: 4
13299960 ATATAATTAG
*
13299970 ATAA AT-A A-AA ATATA A-AA ATAA ATAA A-AT ATAA A-ATA AT-A AT-A
1 ATAA ATAA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATA-A ATAA ATAA
* * *
13300013 ATAA ATAA ATAA ATAA ATTATA ATATA AT-A ATAA ATAT ATAA CTAT ATAA
1 ATAA ATAA ATAA ATAA A-TA-A ATA-A ATAA ATAA ATAA ATAA ATAA ATAA
* * * * * *
13300063 ATAAA ATACA TATAA AT-A TTAA CAGAA AAAA ATAA ATAA AGAT ATAC
1 AT-AA ATA-A -ATAA ATAA ATAA -ATAA ATAA ATAA ATAA ATAA ATAA
* * *
13300110 ATAT ATTA ATAT ATAGTA AT-A ATAA ATAA AT-A ATAA A
1 ATAA ATAA ATAA ATA--A ATAA ATAA ATAA ATAA ATAA A
13300147 ATACATAAAA
Statistics
Matches: 130, Mismatches: 23, Indels: 40
0.67 0.12 0.21
Matches are distributed among these distances:
3 26 0.20
4 79 0.61
5 18 0.14
6 7 0.05
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (4 bp):
ATAA
Found at i:13299998 original size:55 final size:55
Alignment explanation
Indices: 13299907--13300049 Score: 144
Period size: 55 Copynumber: 2.5 Consensus size: 55
13299897 ATTAGAAAAT
** * *
13299907 ATAAATAAA-AAAAATATTATAGGATAAATAAAAAAATAATAATAATAACAGATATATAA
1 ATAAATAAATAAAAATA-TA-AAAATAAAT-AAAATATAA-AATAATAACA-ATAAATAA
* * *
13299966 TTAGATAAATAAAAATATAAAAATAAATAAAATATAAAATAATAATAATAAATAA
1 ATAAATAAATAAAAATATAAAAATAAATAAAATATAAAATAATAACAATAAATAA
* * *
13300021 ATAAATAAATTATAATATAATAATAAATA
1 ATAAATAAATAAAAATATAAAAATAAATA
13300050 TATAACTATA
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
55 31 0.44
56 9 0.13
57 8 0.11
58 7 0.10
59 9 0.13
60 7 0.10
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.28
Consensus pattern (55 bp):
ATAAATAAATAAAAATATAAAAATAAATAAAATATAAAATAATAACAATAAATAA
Found at i:13300010 original size:25 final size:25
Alignment explanation
Indices: 13299972--13300199 Score: 107
Period size: 25 Copynumber: 8.8 Consensus size: 25
13299962 ATAATTAGAT
13299972 AAATA-AAAAT-ATAAAAATAAATA
1 AAATATAAAATAATAAAAATAAATA
*
13299995 AAATATAAAATAATAATAATAAATA
1 AAATATAAAATAATAAAAATAAATA
* *
13300020 AATAAATAAATTATAAT-ATAAT-AATA
1 AA-ATATAAA--ATAATAAAAATAAATA
*
13300046 AATATATAACTATATAA-ATAAAATACATA
1 AA-ATATAA--A-ATAATA-AAAATAAATA
* *
13300075 TAAATATTAACAGAA-AAAAATAAATA
1 -AAATA-TAAAATAATAAAAATAAATA
* * *
13300101 AAGATATACATATATTAATATATAGTAATA
1 AA-ATATA-AAATAATAA-AAATA--AATA
*
13300131 ATAA-AT-AAATAAT-AAAATACATA
1 A-AATATAAAATAATAAAAATAAATA
* * * *
13300154 AAATACAAAAGAAAAAAAATAAAAA
1 AAATATAAAATAATAAAAATAAATA
13300179 AAATA-AAAATAATACAAAATA
1 AAATATAAAATAATA-AAAATA
13300200 GGAACCGAAT
Statistics
Matches: 159, Mismatches: 23, Indels: 44
0.70 0.10 0.19
Matches are distributed among these distances:
22 2 0.01
23 10 0.06
24 17 0.11
25 41 0.26
26 34 0.21
27 21 0.13
28 14 0.09
29 8 0.05
30 11 0.07
31 1 0.01
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (25 bp):
AAATATAAAATAATAAAAATAAATA
Found at i:13300167 original size:77 final size:78
Alignment explanation
Indices: 13299930--13300176 Score: 205
Period size: 81 Copynumber: 3.1 Consensus size: 78
13299920 ATATTATAGG
* * * * * * *
13299930 ATAAATAAAAAAAT-AATAATAATAACAGATATATAATTAGATAAATAAAAATATAAAAATAAAT
1 ATAAATAAAGAAATAAATTATAAT-ATA-ATA-ATAAATATATAAATAAATA-AT-AAAATACAT
* *
13299994 AAAATATAAAATAATAATA
61 AAAATATAAAAGAA-AAAA
* * *
13300013 ATAAATAAATAAATAAATTATAATATAATAATAAATATATAACTATATAAATAAAATACATATAA
1 ATAAATAAAGAAATAAATTATAATATAATAATAAATATATAAATAAAT-AATAAAATACATA-AA
*
13300078 ATATTAACAGAAAAAA
64 ATA-TAAAAGAAAAAA
* * *
13300094 ATAAATAAAGATATACATATATTAATAT-ATAGT-AATA-ATAAATAAATAATAAAATACATAAA
1 ATAAATAAAGAAATAAAT-TA-TAATATAATAATAAATATATAAATAAATAATAAAATACATAAA
*
13300156 ATACAAAAGAAAAAAA
64 ATATAAAAG-AAAAAA
13300172 ATAAA
1 ATAAA
13300177 AAAAATAAAA
Statistics
Matches: 137, Mismatches: 20, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
77 4 0.03
78 16 0.12
79 13 0.09
80 17 0.12
81 42 0.31
82 16 0.12
83 21 0.15
84 8 0.06
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (78 bp):
ATAAATAAAGAAATAAATTATAATATAATAATAAATATATAAATAAATAATAAAATACATAAAAT
ATAAAAGAAAAAA
Found at i:13300178 original size:15 final size:15
Alignment explanation
Indices: 13300133--13300190 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 15
13300123 TAGTAATAAT
*
13300133 AAATAAATAATAAAAT
1 AAATAAA-AATAAAAA
*
13300149 ACAT-AAAATACAAAA
1 AAATAAAAATA-AAAA
13300164 GAAA-AAAAATAAAAA
1 -AAATAAAAATAAAAA
13300179 AAATAAAAATAA
1 AAATAAAAATAA
13300191 TACAAAATAG
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
14 7 0.20
15 17 0.49
16 11 0.31
ACGTcount: A:0.79, C:0.03, G:0.02, T:0.16
Consensus pattern (15 bp):
AAATAAAAATAAAAA
Found at i:13300186 original size:18 final size:19
Alignment explanation
Indices: 13300160--13300197 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
13300150 CATAAAATAC
13300160 AAAAGAAAAAAAATA-AAA
1 AAAAGAAAAAAAATACAAA
* *
13300178 AAAATAAAAATAATACAAA
1 AAAAGAAAAAAAATACAAA
13300197 A
1 A
13300198 TAGGAACCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.84, C:0.03, G:0.03, T:0.11
Consensus pattern (19 bp):
AAAAGAAAAAAAATACAAA
Found at i:13301045 original size:98 final size:98
Alignment explanation
Indices: 13300859--13301046 Score: 213
Period size: 98 Copynumber: 1.9 Consensus size: 98
13300849 CCTAATATTT
* * *
13300859 TAAACTATAAAATTTGACAAAATATATTAAAACTATATTATATTTTTAAAAAATTAAAAAACTTA
1 TAAAATATAAAATTTGACAAAACATATTAAAACTATATTATATTTTTAAAAAATTAAAAAAATTA
**
13300924 TTCAAAAAGTAAAATTTTGAAATTTATTTATCC
66 TTCAAAAAGTAAAATTTAAAAATTTATTTATCC
* * * * * *
13300957 TAAAATATAATATTTGACAAAACATGTTAAAA-TATA-TAT-TTTTTGATAATTTAAAAAAA-AA
1 TAAAATATAAAATTTGACAAAACATATTAAAACTATATTATATTTTTAAAAAATTAAAAAAATTA
13301018 TTCTTAAAAAGTAGAGAATTTAAAAATTT
66 TTC--AAAAAGTA-A-AATTTAAAAATTT
13301047 TAATTTTAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
94 4 0.05
95 16 0.21
96 11 0.15
97 5 0.07
98 39 0.52
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (98 bp):
TAAAATATAAAATTTGACAAAACATATTAAAACTATATTATATTTTTAAAAAATTAAAAAAATTA
TTCAAAAAGTAAAATTTAAAAATTTATTTATCC
Found at i:13302856 original size:14 final size:15
Alignment explanation
Indices: 13302837--13302874 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
13302827 CATATTAATT
*
13302837 TAATATAT-TATAAC
1 TAATATATATATAAA
13302851 TAATATATATATAAA
1 TAATATATATATAAA
13302866 T-ATATATAT
1 TAATATATAT
13302875 GTATTAGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATATATATATAAA
Found at i:13304296 original size:36 final size:35
Alignment explanation
Indices: 13304244--13304344 Score: 148
Period size: 36 Copynumber: 2.8 Consensus size: 35
13304234 CAACTCAAAA
* * *
13304244 TTCATACATATGTAATAAATCTTGGGTTCTTTATTT
1 TTCAAACATATATAATAAATCTTTGGTTCTTT-TTT
*
13304280 TTCACACATATATAATAAATCTTTGGTTCTTTTTT
1 TTCAAACATATATAATAAATCTTTGGTTCTTTTTT
13304315 TCTCAAACATATATAATAAATCTTTGGTTC
1 T-TCAAACATATATAATAAATCTTTGGTTC
13304345 ATCACATACT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 4 0.07
36 56 0.93
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.48
Consensus pattern (35 bp):
TTCAAACATATATAATAAATCTTTGGTTCTTTTTT
Found at i:13305979 original size:13 final size:13
Alignment explanation
Indices: 13305961--13305985 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13305951 AGATAAAAAA
13305961 AAATATAATAATT
1 AAATATAATAATT
13305974 AAATATAATAAT
1 AAATATAATAAT
13305986 ATTTAATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATATAATAATT
Found at i:13306136 original size:108 final size:109
Alignment explanation
Indices: 13306016--13306218 Score: 320
Period size: 108 Copynumber: 1.9 Consensus size: 109
13306006 TAATAAAATA
*
13306016 TTGATTTGGCATTTGAAATGAACAATAAAATTGATGAGAT-GGCATCGAATCGAAGAGAAATTAA
1 TTGATTTGGCATTTGAAATGAACAATAAAATTGATGAGATAGG-ATCAAATCGAAGAGAAATTAA
**
13306080 AGAGG-GGTAACTTTTATATATTGTATAAATGTGGTGATAAAGTG
65 AGAGGACATAACTTTTATATATTGTATAAATGTGGTGATAAAGTG
* *
13306124 TTGATTTGGCATTTGAAATTAACAATAAAATTGATGAGATAGGATCAAATTGAAGAGAAATTAAA
1 TTGATTTGGCATTTGAAATGAACAATAAAATTGATGAGATAGGATCAAATCGAAGAGAAATTAAA
**
13306189 GAGGACATTGCTTTTATATATTGTATAAAT
66 GAGGACATAACTTTTATATATTGTATAAAT
13306219 AAGCGCTTAG
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
108 63 0.73
109 23 0.27
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.33
Consensus pattern (109 bp):
TTGATTTGGCATTTGAAATGAACAATAAAATTGATGAGATAGGATCAAATCGAAGAGAAATTAAA
GAGGACATAACTTTTATATATTGTATAAATGTGGTGATAAAGTG
Found at i:13313454 original size:30 final size:30
Alignment explanation
Indices: 13313419--13313480 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
13313409 AAATAGTATA
*
13313419 AAAAGATATTTGTGCATGGGTTAAACAATT
1 AAAAGAAATTTGTGCATGGGTTAAACAATT
* *
13313449 AAAAGAAATTTGTGTATGGGTTAAAGAATT
1 AAAAGAAATTTGTGCATGGGTTAAACAATT
13313479 AA
1 AA
13313481 GACTTCTGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.32
Consensus pattern (30 bp):
AAAAGAAATTTGTGCATGGGTTAAACAATT
Found at i:13315132 original size:52 final size:49
Alignment explanation
Indices: 13315046--13315183 Score: 143
Period size: 49 Copynumber: 2.8 Consensus size: 49
13315036 ATTGAGATAT
** * *
13315046 TTTTGGGATTTAATTCTAGAATCAATTGGCATTAAAAATGATGTGGAGTGA
1 TTTTGGGATTTAATTCTAGAATCAATTCACATT-AAAATGAT-AGGAGAGA
* * *
13315097 TTGTTGGGATTTAATTCCT-TAATCAATTCATATTAAATTGATAGGAGAGA
1 TT-TTGGGATTTAATT-CTAGAATCAATTCACATTAAAATGATAGGAGAGA
* * *
13315147 TTTTGGGATTTGATTTTAGAATCAATTCTCATTAAAA
1 TTTTGGGATTTAATTCTAGAATCAATTCACATTAAAA
13315184 CAAAAATAAA
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
48 1 0.01
49 27 0.38
50 8 0.11
51 9 0.13
52 24 0.34
53 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (49 bp):
TTTTGGGATTTAATTCTAGAATCAATTCACATTAAAATGATAGGAGAGA
Found at i:13315742 original size:26 final size:24
Alignment explanation
Indices: 13315680--13315745 Score: 71
Period size: 26 Copynumber: 2.7 Consensus size: 24
13315670 TGTTTTGACT
*
13315680 TTATTTTTCTTA-TTTTATTTTTG
1 TTATTTTTCTTATTTTTATTTCTG
* *
13315703 TTCTTTTTGTTTATTTTTATTTACTG
1 TTATTTTT-CTTATTTTTATTT-CTG
13315729 TTATTATTTCTTATTTT
1 TTATT-TTTCTTATTTT
13315746 CAATTGAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
23 7 0.21
24 3 0.09
25 8 0.24
26 13 0.38
27 3 0.09
ACGTcount: A:0.14, C:0.06, G:0.05, T:0.76
Consensus pattern (24 bp):
TTATTTTTCTTATTTTTATTTCTG
Found at i:13319731 original size:13 final size:12
Alignment explanation
Indices: 13319710--13319743 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
13319700 GTGCTCCACT
13319710 AACAAAAAAAGA
1 AACAAAAAAAGA
*
13319722 CACAAAAAAAGA
1 AACAAAAAAAGA
*
13319734 AAGAAAAAAA
1 AACAAAAAAA
13319744 AAATGAAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.82, C:0.09, G:0.09, T:0.00
Consensus pattern (12 bp):
AACAAAAAAAGA
Found at i:13319744 original size:77 final size:78
Alignment explanation
Indices: 13319597--13319756 Score: 191
Period size: 78 Copynumber: 2.0 Consensus size: 78
13319587 GAAAATGAAG
**
13319597 GAAAATTGATGGAATAAAATGCCAATGTGCTTTACTAAAAAAAAAAGAGCCAAAACAAAACAAAA
1 GAAAATTGATGGAATAAAATGCCAATGTGCTCCACTAAAAAAAAAAGAGCCAAAACAAAACAAAA
*
13319662 GAAAAATGGAAAA
66 AAAAAATGGAAAA
** * * *
13319675 GAAAATTGATGGGGTAAAATGCC-ATGTGCTCCACTAACAAAAAAAGA-CACAAAAAAAGAAAGA
1 GAAAATTGATGGAATAAAATGCCAATGTGCTCCACTAAAAAAAAAAGAGC-C-AAAACA-AAACA
13319738 AAAAAAAAAT-GAAAGA
63 AAAAAAAAATGGAAA-A
13319754 GAA
1 GAA
13319757 TCTGTTGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
76 1 0.01
77 22 0.31
78 30 0.43
79 17 0.24
ACGTcount: A:0.59, C:0.11, G:0.17, T:0.14
Consensus pattern (78 bp):
GAAAATTGATGGAATAAAATGCCAATGTGCTCCACTAAAAAAAAAAGAGCCAAAACAAAACAAAA
AAAAAATGGAAAA
Found at i:13319745 original size:78 final size:77
Alignment explanation
Indices: 13319574--13319753 Score: 197
Period size: 77 Copynumber: 2.3 Consensus size: 77
13319564 TTGACAAATG
* **
13319574 AAAAAATGAAAAAGAAAATGAAGGAAAATTGATGGAATAAAATGCCAATGTGCTTTACTAAAAAA
1 AAAAAA-GAAAAA-AAAATGAAAGAAAATTGATGGAATAAAATGCCAATGTGCTCCACTAAAAAA
13319639 AAAAGAGCCAAAAC
64 AAAAGAGCCAAAAC
* * ** *
13319653 AAAACA-AAAGAAAAATGGAAAAGAAAATTGATGGGGTAAAATGCC-ATGTGCTCCACTAACAAA
1 AAAAAAGAAAAAAAAAT-G-AAAGAAAATTGATGGAATAAAATGCCAATGTGCTCCACTAAAAAA
13319716 AAAAGA-CACAAAA-
64 AAAAGAGC-CAAAAC
13319729 AAAGAAAGAAAAAAAAAATGAAAGA
1 AAA-AAAG-AAAAAAAAATGAAAGA
13319754 GAATCTGTTG
Statistics
Matches: 85, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
76 9 0.11
77 38 0.45
78 24 0.28
79 14 0.16
ACGTcount: A:0.61, C:0.09, G:0.17, T:0.13
Consensus pattern (77 bp):
AAAAAAGAAAAAAAAATGAAAGAAAATTGATGGAATAAAATGCCAATGTGCTCCACTAAAAAAAA
AAGAGCCAAAAC
Found at i:13319773 original size:78 final size:78
Alignment explanation
Indices: 13319597--13319782 Score: 173
Period size: 78 Copynumber: 2.4 Consensus size: 78
13319587 GAAAATGAAG
*** ** *
13319597 GAAAATTGATGGAATAAAATGCCAATGTGCTTTACTAAAAAAAAAAGAGCCAAAACAAAACAAAA
1 GAAAATTGATGGGCCAAAATGCCAATGTGCTCCACTAAAAAAAAAAGAGCCAAAAAAAAACAAAA
*
13319662 GAAAAATGGAAAA
66 AAAAAATGGAAAA
** * *
13319675 GAAAATTGATGGGGTAAAATGCC-ATGTGCTCCACTAACAAAAAAAGA-CACAAAAAAAGAAAGA
1 GAAAATTGATGGGCCAAAATGCCAATGTGCTCCACTAAAAAAAAAAGAGC-C-AAAAAA-AAACA
13319738 AAAAAAAAAT-G-AAA
63 AAAAAAAAATGGAAAA
* * * *
13319752 GAGAATCTGTTGGGCCAAAATGTCAAAGTGC
1 GAAAAT-TGATGGGCCAAAATGCCAATGTGC
13319783 CCCCATATGA
Statistics
Matches: 89, Mismatches: 14, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
76 1 0.01
77 30 0.34
78 40 0.45
79 18 0.20
ACGTcount: A:0.54, C:0.12, G:0.18, T:0.16
Consensus pattern (78 bp):
GAAAATTGATGGGCCAAAATGCCAATGTGCTCCACTAAAAAAAAAAGAGCCAAAAAAAAACAAAA
AAAAAATGGAAAA
Found at i:13320075 original size:25 final size:24
Alignment explanation
Indices: 13320046--13320096 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 24
13320036 TGTGCAAGAA
13320046 AAAAAAAAGAAAAAACAATAGAAAAG
1 AAAAAAAAGAAAAAA-AATA-AAAAG
*
13320072 AAAAAAAAGAAAATAAATAAAAAG
1 AAAAAAAAGAAAAAAAATAAAAAG
13320096 A
1 A
13320097 GGACAAAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 6 0.25
25 4 0.17
26 14 0.58
ACGTcount: A:0.82, C:0.02, G:0.10, T:0.06
Consensus pattern (24 bp):
AAAAAAAAGAAAAAAAATAAAAAG
Found at i:13321204 original size:121 final size:118
Alignment explanation
Indices: 13320837--13321206 Score: 357
Period size: 121 Copynumber: 3.1 Consensus size: 118
13320827 AGTCCAGGTG
* * * * * ** * * *
13320837 ATTTTTTATGATTCATGGTTTCATCTCGGTCATTTATTTTCAACCTCAACTCGGTCTTGGTCGCC
1 ATTTTTTATGACTCATGGTTTTATCCCAGTCATTTATTTT-TACCTTGACTCGATCCTAGT--CC
* * ** * * *
13320902 TT-ATTTTTTGACTTGAGATTTTGTCCCAATCACCTAATTTTGGCTCAGTCTAGATC
63 TTCATTTTTTGACTTGTGGTTTCATCCCAATCACC-AATCTTGGCTTAATCTAGATC
* * ** * *
13320958 ATTTCTTGTGACTTTTGGTTTTGTCCCAGTCATTTATTTTTGACCTTGACTCGATCCTCA-TCGT
1 ATTTTTTATGACTCATGGTTTTATCCCAGTCATTTATTTTT-ACCTTGACTCGATCCT-AGTCCT
* * ** *
13321022 CTCATTTTTTAACTCGTGGTTTCATCTTAGTCACCCAATCTTGGCTTAATCTAGATC
64 -TCATTTTTTGACTTGTGGTTTCATCCCAATCA-CCAATCTTGGCTTAATCTAGATC
*
13321079 ATTTTTTATGACTCGTGGTTTTATCCCAGTCATTTATTTTTACCCTTGACTCGATCCTAGTCACT
1 ATTTTTTATGACTCATGGTTTTATCCCAGTCATTTATTTTTA-CCTTGACTCGATCCTAGTC-CT
*
13321144 TCATTTTTTGACTTGTGGTTTCATCCCAATCATCCAATCTTGGCTTAATCTAGATA
64 TCATTTTTTGACTTGTGGTTTCATCCCAATCA-CCAATCTTGGCTTAATCTAGATC
13321200 ATTTTTT
1 ATTTTTT
13321207 TAACCTTTGC
Statistics
Matches: 200, Mismatches: 41, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
119 2 0.01
120 3 0.01
121 192 0.96
122 3 0.01
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.46
Consensus pattern (118 bp):
ATTTTTTATGACTCATGGTTTTATCCCAGTCATTTATTTTTACCTTGACTCGATCCTAGTCCTTC
ATTTTTTGACTTGTGGTTTCATCCCAATCACCAATCTTGGCTTAATCTAGATC
Found at i:13321247 original size:17 final size:17
Alignment explanation
Indices: 13321227--13321265 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
13321217 GAAACTTGGA
*
13321227 ATCTTGCAAGTCTTTCT
1 ATCTTGCAAATCTTTCT
13321244 ATCTTGCAAATCTTTCT
1 ATCTTGCAAATCTTTCT
*
13321261 TTCTT
1 ATCTT
13321266 ACGAATCTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.23, G:0.08, T:0.51
Consensus pattern (17 bp):
ATCTTGCAAATCTTTCT
Found at i:13321545 original size:86 final size:84
Alignment explanation
Indices: 13321334--13321584 Score: 236
Period size: 86 Copynumber: 2.9 Consensus size: 84
13321324 TTATGAATCT
* * * * *
13321334 ATCTTTGTGAATCTAGAACCTTTGCGAGACTTGTAATCTTATGAATTTGTCTTTCTTG-AAATTT
1 ATCTTTATGAATCTAGAACCTTTGCGA-ACTT-AAATCTTGTGAATTTGTCTTTCTTGTGAATCT
** *
13321398 GAAAGTCCCTGCGATCCTGGA
64 GAAAGTCTTTGCGAACCTGGA
** * *
13321419 ATCTTTGCGAATGTAGAACCTTTGTGAAACTTAAAATCTTGTGAATTTGTCTTTCTTGTGAATCT
1 ATCTTTATGAATCTAGAACCTTTGCG-AACTT-AAATCTTGTGAATTTGTCTTTCTTGTGAATCT
*
13321484 GAAAGTCTTTGCGAACTTGGA
64 GAAAGTCTTTGCGAACCTGGA
* * * * * *
13321505 ATTTTTATGAATCTAGAACCTATGCGAATCTTCAAGTCTTGCGAATCTT-CCATTCTTGTGAATC
1 ATCTTTATGAATCTAGAACCTTTGCGAA-CTT-AAATCTTGTGAAT-TTGTCTTTCTTGTGAATC
**
13321569 TGAAAACCTTTGCGAA
63 TGAAAGTCTTTGCGAA
13321585 TATTGAATCT
Statistics
Matches: 137, Mismatches: 25, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
85 52 0.38
86 83 0.61
87 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (84 bp):
ATCTTTATGAATCTAGAACCTTTGCGAACTTAAATCTTGTGAATTTGTCTTTCTTGTGAATCTGA
AAGTCTTTGCGAACCTGGA
Found at i:13321547 original size:17 final size:17
Alignment explanation
Indices: 13321527--13321569 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
13321517 CTAGAACCTA
13321527 TGCGAATCTTCAAGTCT
1 TGCGAATCTTCAAGTCT
* *
13321544 TGCGAATCTTCCATTCT
1 TGCGAATCTTCAAGTCT
*
13321561 TGTGAATCT
1 TGCGAATCT
13321570 GAAAACCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (17 bp):
TGCGAATCTTCAAGTCT
Found at i:13322764 original size:6 final size:6
Alignment explanation
Indices: 13322753--13322782 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
13322743 TATTTACAAA
13322753 AAAAAT AAAAAT AAAAAT AAAAAT AGAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT A-AAAA
13322783 ATCTTGTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:13325430 original size:3 final size:3
Alignment explanation
Indices: 13325424--13325475 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
13325414 AAGAAAAAAA
* *
13325424 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATA ATG ACG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
13325472 ATG A
1 ATG A
13325476 AACACAAGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.37, C:0.02, G:0.31, T:0.31
Consensus pattern (3 bp):
ATG
Found at i:13329856 original size:158 final size:159
Alignment explanation
Indices: 13329565--13329927 Score: 412
Period size: 158 Copynumber: 2.3 Consensus size: 159
13329555 CATGTTGATA
* *
13329565 AGATCACATTTGTGAAAGGTGAAAACTATTGCATATATTTGCATTGTGATTCTACTTCTGTATTG
1 AGATCACATTTGTGAAAGGTGAAAACTATT-CATATATTTGCATTATGATTCTACTTATGTATTG
* * * * * * * *
13329630 TTATTGTTGATAAAGTTGATAGTATAGTAATTGAATGCCTAATCATTGTAAGAAATTCAATATTG
65 TGATTATTGATAAAGTAGACAGTATAG-AATTGAAAGCATAATAATTCTAAGAAATTCAATATTG
* * * **
13329695 AACTAGATAGTGTTTTGCATGTATTGAA-ATG
129 AACTAAATAGTATTTTACACATATT-AAGATG
* * *
13329726 AGATCACATTTGTCAAAGGTGAAAACTATT-ATGTATTTTGCATTATGATTCTATTTATGTATTG
1 AGATCACATTTGTGAAAGGTGAAAACTATTCATATA-TTTGCATTATGATTCTACTTATGTATTG
* * * *
13329790 TGATTATTGATGAAGTAGACAGTGTAG-ATTGAAAGCATAGTAATTCT-AGAAAATTCAGTATTG
65 TGATTATTGATAAAGTAGACAGTATAGAATTGAAAGCATAATAATTCTAAG-AAATTCAATATTG
*
13329853 AACTAAATAGTATTTTATACATATTAAGATG
129 AACTAAATAGTATTTTACACATATTAAGATG
* *
13329884 AGACCACATTTGTGAAAGGTGAAAACTATTGCATAT-TTGGCATT
1 AGATCACATTTGTGAAAGGTGAAAACTATT-CATATATTTGCATT
13329928 GTAGCAATTG
Statistics
Matches: 170, Mismatches: 27, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
157 4 0.02
158 84 0.49
159 4 0.02
160 49 0.29
161 29 0.17
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (159 bp):
AGATCACATTTGTGAAAGGTGAAAACTATTCATATATTTGCATTATGATTCTACTTATGTATTGT
GATTATTGATAAAGTAGACAGTATAGAATTGAAAGCATAATAATTCTAAGAAATTCAATATTGAA
CTAAATAGTATTTTACACATATTAAGATG
Found at i:13330023 original size:117 final size:117
Alignment explanation
Indices: 13329817--13330044 Score: 287
Period size: 117 Copynumber: 1.9 Consensus size: 117
13329807 GACAGTGTAG
* *
13329817 ATTGAAAGCATAGTAATTCTAGAAAATTCAGTATTGAACTAAATAGTATTTTATACATATTAAGA
1 ATTGAAAGCATAATAATTATAGAAAATTCAGTATTGAACTAAATAGTATTTTATACATATTAAGA
* *
13329882 TGAGACCACATTTGTGAAAGGTGAAAACTATTGCATATTTGGCATTGTAGCA
66 TGAGACCACATTTCTAAAAGGTGAAAACTATTGCATATTTGGCATTGTAGCA
* * * * * *** *
13329934 ATTGAAAGCCTAATCATTATAGAAAATTCAGTATTGAACTAGATAGTGTTTTGTGTGTATTGAGA
1 ATTGAAAGCATAATAATTATAGAAAATTCAGTATTGAACTAAATAGTATTTTATACATATTAAGA
** * *
13329999 T-AGGATTACATTTCTAAAAGGTGAAAACTATTGTATATTTTGCATT
66 TGA-GACCACATTTCTAAAAGGTGAAAACTATTGCATATTTGGCATT
13330045 ATGATTTTGT
Statistics
Matches: 93, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
116 1 0.01
117 92 0.99
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (117 bp):
ATTGAAAGCATAATAATTATAGAAAATTCAGTATTGAACTAAATAGTATTTTATACATATTAAGA
TGAGACCACATTTCTAAAAGGTGAAAACTATTGCATATTTGGCATTGTAGCA
Found at i:13334996 original size:22 final size:20
Alignment explanation
Indices: 13334980--13335025 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
13334970 TAAATCTATT
13334980 AAAAAAACTCAACAAATCTA
1 AAAAAAACTCAACAAATCTA
* * *
13335000 AAAAATACTCAATAATTC-A
1 AAAAAAACTCAACAAATCTA
13335019 AAAAAAA
1 AAAAAAA
13335026 AAAAACTCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.17
Consensus pattern (20 bp):
AAAAAAACTCAACAAATCTA
Found at i:13335001 original size:19 final size:19
Alignment explanation
Indices: 13334979--13335024 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
13334969 ATAAATCTAT
13334979 TAAAAAAACTCAACAAATC
1 TAAAAAAACTCAACAAATC
* *
13334998 TAAAAAATACTCAATAATTC
1 TAAAAAA-ACTCAACAAATC
13335018 -AAAAAAA
1 TAAAAAAA
13335025 AAAAAACTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 13 0.54
20 10 0.42
ACGTcount: A:0.65, C:0.15, G:0.00, T:0.20
Consensus pattern (19 bp):
TAAAAAAACTCAACAAATC
Found at i:13335066 original size:21 final size:22
Alignment explanation
Indices: 13335022--13335066 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
13335012 TAATTCAAAA
* *
13335022 AAAAAAAAACTCAACAATACTT
1 AAAAAAAAACTCAACAAAAATT
*
13335044 AAAAAAAACCT-AACAAAAATT
1 AAAAAAAAACTCAACAAAAATT
13335065 AA
1 AA
13335067 CAATACTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.69, C:0.16, G:0.00, T:0.16
Consensus pattern (22 bp):
AAAAAAAAACTCAACAAAAATT
Found at i:13335072 original size:31 final size:33
Alignment explanation
Indices: 13335034--13335096 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
13335024 AAAAAAACTC
13335034 AACAATACTT-A-AAAAAAACCTAACAAAAATT
1 AACAATACTTAATAAAAAAACCTAACAAAAATT
*
13335065 AACAATACTTAATAAAAAAATCTAACAAAAAT
1 AACAATACTTAATAAAAAAACCTAACAAAAAT
13335097 AAACTACAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 10 0.34
32 1 0.03
33 18 0.62
ACGTcount: A:0.65, C:0.14, G:0.00, T:0.21
Consensus pattern (33 bp):
AACAATACTTAATAAAAAAACCTAACAAAAATT
Found at i:13338067 original size:17 final size:17
Alignment explanation
Indices: 13338042--13338074 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13338032 TTAAAGGTTT
13338042 TAACAAAAAATAACTAA
1 TAACAAAAAATAACTAA
*
13338059 TAACTAAAAATAACTA
1 TAACAAAAAATAACTA
13338075 CCTTAATTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.12, G:0.00, T:0.21
Consensus pattern (17 bp):
TAACAAAAAATAACTAA
Found at i:13342827 original size:23 final size:23
Alignment explanation
Indices: 13342797--13342843 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
13342787 TCCATGCCTT
13342797 AGTTTATTGGTTTAAAGTCATAA
1 AGTTTATTGGTTTAAAGTCATAA
13342820 AGTTTATTGGTTTAAAGTCATAA
1 AGTTTATTGGTTTAAAGTCATAA
13342843 A
1 A
13342844 ATAATAAACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.04, G:0.17, T:0.43
Consensus pattern (23 bp):
AGTTTATTGGTTTAAAGTCATAA
Found at i:13344071 original size:144 final size:140
Alignment explanation
Indices: 13343794--13344335 Score: 494
Period size: 144 Copynumber: 3.8 Consensus size: 140
13343784 GATTTTAAAA
* * * * * * * * *
13343794 CACTAAAAATCATGAAATATTATAAAATTGAGATATGAAAAG-TTCATGAAAATTCGATCTCGGG
1 CACTAAAAATCAAGAAATATTATGAAATTAAGATCTAAAAAGTTTCATGAAAATCCAAGCTC--A
** * * * * * * **
13343858 AAAGGT-AAATTAGGAAATACCCATATAGAGGTATTTTGATAATTTCATACTTCTTGGGTTTTGC
64 AAAGGTCAAATTACAAAATAACCTTATAG-GGTATTTTGGTAATTTTATA-TTTTTAGGTACTGC
13343922 TATGATTTCAAATG
127 TATGATTTCAAATG
*
13343936 CACTAAAAATCAAGAAAAATTATGAAATTAAGATCTAAAAAGTTTCATGAAAATCCAAGCTCAAA
1 CACTAAAAATCAAGAAATATTATGAAATTAAGATCTAAAAAGTTTCATGAAAATCCAAGCTCAAA
*
13344001 AGGGTCAAATTATGAAAATAACCTTATAAGGGTATTTTGGTAATTTTATATTTTTAAGGTACTGC
66 A-GGTCAAATTA-CAAAATAACCTTAT-AGGGTATTTTGGTAATTTTATATTTTT-AGGTACTGC
*
13344066 TATGATTTCAAATA
127 TATGATTTCAAATG
* * * * **
13344080 CACTAAAAATCATGAAATATTATGAAATTAATATCTAAAAAATTTCATAAAAATTTGAA-CTCAG
1 CACTAAAAATCAAGAAATATTATGAAATTAAGATCTAAAAAGTTTCATGAAAA-TCCAAGCTCA-
* *
13344144 AAAGGTCAAATTACCAAAAT-A-C-T-T---GTATTTTGGTAATTTTACATTTTTTAGGTACTGT
64 AAAGGTCAAATTA-CAAAATAACCTTATAGGGTATTTTGGTAATTTTATA-TTTTTAGGTACTGC
* *
13344202 TAAGATTTTAAATG
127 TATGATTTCAAATG
* * * **
13344216 AACTAAAAATTATA-AAATATTATGAAATTAAGATTTAAAAAGTTTCATGAAAATCCAAGCTTGG
1 CACTAAAAATCA-AGAAATATTATGAAATTAAGATCTAAAAAGTTTCATGAAAATCCAAGC-TCA
* * * *
13344280 GAAGGTTAAATTACAAAAAAACCCTTATAGGGGTATTTTGGTAATTTTTTATTTTT
64 AAAGGTCAAATTACAAAATAA-CCTTATA-GGGTATTTTGGTAATTTTATATTTTT
13344336 CTCAGTGCAA
Statistics
Matches: 329, Mismatches: 50, Indels: 41
0.78 0.12 0.10
Matches are distributed among these distances:
135 8 0.02
136 95 0.29
137 6 0.02
138 1 0.00
139 1 0.00
140 2 0.01
141 4 0.01
142 40 0.12
143 32 0.10
144 132 0.40
145 8 0.02
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (140 bp):
CACTAAAAATCAAGAAATATTATGAAATTAAGATCTAAAAAGTTTCATGAAAATCCAAGCTCAAA
AGGTCAAATTACAAAATAACCTTATAGGGTATTTTGGTAATTTTATATTTTTAGGTACTGCTATG
ATTTCAAATG
Found at i:13344285 original size:136 final size:141
Alignment explanation
Indices: 13343919--13344327 Score: 433
Period size: 136 Copynumber: 2.9 Consensus size: 141
13343909 TCTTGGGTTT
* * *
13343919 TGCTATGATTTCAAATGCACTAAAAATCA-AGAAAAATTATGAAATTAAGATCTAAAAAGTTTCA
1 TGCTAAGATTTCAAATGAACTAAAAATCATA-AAATATTATGAAATTAAGATCTAAAAAGTTTCA
* **
13343983 TGAAAATCCAAGCTCA-AAAGGGTCAAATTATGAAAATAACCTTATAAGGGTATTTTGGTAATTT
65 TGAAAATCCAAGCTTAGAAA-GGTCAAATTACAAAAATAACCTTAT-A--GTATTTTGGTAATTT
*
13344047 TATATTTTTAAGGTAC
126 TACATTTTTAAGGTAC
* * * *
13344063 TGCTATGATTTCAAAT-ACACTAAAAATCATGAAATATTATGAAATTAATATCTAAAAAATTTCA
1 TGCTAAGATTTCAAATGA-ACTAAAAATCATAAAATATTATGAAATTAAGATCTAAAAAGTTTCA
* ** * *
13344127 TAAAAATTTGAA-CTCAGAAAGGTCAAATTACCAAAAT-A-C-T-T-GTATTTTGGTAATTTTAC
65 TGAAAA-TCCAAGCTTAGAAAGGTCAAATTACAAAAATAACCTTATAGTATTTTGGTAATTTTAC
*
13344186 ATTTTTTAGGTAC
129 ATTTTTAAGGTAC
* * * *
13344199 TGTTAAGATTTTAAATGAACTAAAAATTATAAAATATTATGAAATTAAGATTTAAAAAGTTTCAT
1 TGCTAAGATTTCAAATGAACTAAAAATCATAAAATATTATGAAATTAAGATCTAAAAAGTTTCAT
* * *
13344264 GAAAATCCAAGCTTGGGAAGGTTAAATTACAAAAA-AACCCTTATAGGGGTATTTTGGTAATTTT
66 GAAAATCCAAGCTTAGAAAGGTCAAATTACAAAAATAA-CCTTATA---GTATTTTGGTAATTTT
13344328 TTATTTTTCT
Statistics
Matches: 222, Mismatches: 28, Indels: 30
0.79 0.10 0.11
Matches are distributed among these distances:
135 3 0.01
136 108 0.49
137 1 0.00
138 1 0.00
139 1 0.00
140 2 0.01
141 1 0.00
142 1 0.00
143 1 0.00
144 97 0.44
145 6 0.03
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.35
Consensus pattern (141 bp):
TGCTAAGATTTCAAATGAACTAAAAATCATAAAATATTATGAAATTAAGATCTAAAAAGTTTCAT
GAAAATCCAAGCTTAGAAAGGTCAAATTACAAAAATAACCTTATAGTATTTTGGTAATTTTACAT
TTTTAAGGTAC
Found at i:13344881 original size:37 final size:38
Alignment explanation
Indices: 13344831--13344928 Score: 135
Period size: 40 Copynumber: 2.6 Consensus size: 38
13344821 CCTTAAATAG
*
13344831 AGGCTTTGAAACTTTAAAGATGGCT-CCCCCTAAACAA
1 AGGCTTTGAAACTTTAAAAATGGCTCCCCCCTAAACAA
* *
13344868 AGGCTTTGAAACTTAAAAAAAATGGCTCCCCCCTAAACAG
1 AGGCTTTGAAACTT--TAAAAATGGCTCCCCCCTAAACAA
*
13344908 ATGCTTTGAAACTTTAAAAAT
1 AGGCTTTGAAACTTTAAAAAT
13344929 TTAAAATATT
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
37 14 0.26
38 6 0.11
39 9 0.17
40 24 0.45
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (38 bp):
AGGCTTTGAAACTTTAAAAATGGCTCCCCCCTAAACAA
Found at i:13344914 original size:40 final size:38
Alignment explanation
Indices: 13344810--13344927 Score: 130
Period size: 37 Copynumber: 3.1 Consensus size: 38
13344800 ATCTTTTTTG
* * * * *
13344810 AAAATTGCTCTCCTTAAATAGAGGCTTTGAAACTT-TA
1 AAAATGGCTCCCCCTAAACAGAGGCTTTGAAACTTAAA
* *
13344847 AAGATGGCTCCCCCTAAACAAAGGCTTTGAAACTTAAAA
1 AAAATGGCTCCCCCTAAACAGAGGCTTTGAAACTT-AAA
* *
13344886 AAAATGGCTCCCCCCTAAACAGATGCTTTGAAACTTTAA
1 AAAATGGCT-CCCCCTAAACAGAGGCTTTGAAACTTAAA
13344925 AAA
1 AAA
13344928 TTTAAAATAT
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
37 29 0.43
39 14 0.21
40 24 0.36
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (38 bp):
AAAATGGCTCCCCCTAAACAGAGGCTTTGAAACTTAAA
Found at i:13345100 original size:105 final size:105
Alignment explanation
Indices: 13344913--13345163 Score: 299
Period size: 105 Copynumber: 2.4 Consensus size: 105
13344903 AACAGATGCT
* * * * * * *
13344913 TTGAAACTTTAAAAATTTAAAAT-ATTTTGCTTAGAGATCTTAGATATTATGCCCAAAGGTCTTT
1 TTGAAACTTTGAAAATTTAAAATGA-TTTGCCTAAAGGTTTTAGAGATTATGCCCAAAGGTCTTA
* *
13344977 CAAATCTCAACATATTTGAATGCTCCTCCCAATCAAAGGCA
65 CAAATCTCAAAATATTTGAATGCTCATCCCAATCAAAGGCA
* ***
13345018 TTGAAACTTTGAAAGTTTAAAATGATTTGCCTAAAGGTTTTAGAGATTATGCCTGGAGGTCTTAC
1 TTGAAACTTTGAAAATTTAAAATGATTTGCCTAAAGGTTTTAGAGATTATGCCCAAAGGTCTTAC
* * * *
13345083 AAGTCTTAAAATCTTTGAATGCTCATCCCAATCAAAGGGA
66 AAATCTCAAAATATTTGAATGCTCATCCCAATCAAAGGCA
* * *
13345123 TTGAAACTTTGAAACTTTAAAATGGTTTGCC-GAAGGTTTTA
1 TTGAAACTTTGAAAATTTAAAATGATTTGCCTAAAGGTTTTA
13345164 CAAATTTCAA
Statistics
Matches: 125, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
104 9 0.07
105 115 0.92
106 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (105 bp):
TTGAAACTTTGAAAATTTAAAATGATTTGCCTAAAGGTTTTAGAGATTATGCCCAAAGGTCTTAC
AAATCTCAAAATATTTGAATGCTCATCCCAATCAAAGGCA
Found at i:13345256 original size:22 final size:21
Alignment explanation
Indices: 13345227--13345267 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
13345217 AATTTAAAAT
*
13345227 GATTTGCCTAGAGATCTTAGA
1 GATTTGCCCAGAGATCTTAGA
*
13345248 GATTATGCCCAGAGGTCTTA
1 GATT-TGCCCAGAGATCTTA
13345268 CAAATCTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (21 bp):
GATTTGCCCAGAGATCTTAGA
Found at i:13345892 original size:44 final size:41
Alignment explanation
Indices: 13345750--13345899 Score: 106
Period size: 44 Copynumber: 3.5 Consensus size: 41
13345740 TTTCTTATGG
* * * *
13345750 TGCAAATGCAAATGTC-TT-ATACAATTGAAAATACAAATATGA
1 TGCAAATGCAAATGTCTTTCTTACGA-TGCAAATACAAGTA--A
** * *
13345792 GTGCAAATGCAAATGTCTTTCTTGTGATGCAGATACAAGTGA
1 -TGCAAATGCAAATGTCTTTCTTACGATGCAAATACAAGTAA
* ** * *
13345834 TGCATATGTGAATGTTTTTCATATACGAGTGCAAATGCAAGTAA
1 TGCAAATGCAAATGTCTTTC-T-TACGA-TGCAAATACAAGTAA
13345878 TGCAAATGCAAATGTCTTTCTT
1 TGCAAATGCAAATGTCTTTCTT
13345900 GTGATGGAGA
Statistics
Matches: 81, Mismatches: 21, Indels: 11
0.72 0.19 0.10
Matches are distributed among these distances:
41 16 0.20
42 3 0.04
43 20 0.25
44 40 0.49
45 2 0.02
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (41 bp):
TGCAAATGCAAATGTCTTTCTTACGATGCAAATACAAGTAA
Found at i:13345976 original size:15 final size:15
Alignment explanation
Indices: 13345956--13345984 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13345946 TTTTTTTTCT
13345956 TGATGCAAATGCAAG
1 TGATGCAAATGCAAG
13345971 TGATGCAAATGCAA
1 TGATGCAAATGCAA
13345985 AAACTCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (15 bp):
TGATGCAAATGCAAG
Found at i:13347340 original size:10 final size:10
Alignment explanation
Indices: 13347327--13347387 Score: 74
Period size: 10 Copynumber: 6.3 Consensus size: 10
13347317 TTTCCTTTCA
13347327 TTTCATTTTT
1 TTTCATTTTT
13347337 TTTCATTTTTT
1 TTTCA-TTTTT
13347348 TTTCA-TTTT
1 TTTCATTTTT
13347357 TTTCATTTTT
1 TTTCATTTTT
*
13347367 TTT--TTTTG
1 TTTCATTTTT
*
13347375 TTTAATTTTT
1 TTTCATTTTT
13347385 TTT
1 TTT
13347388 AGCTAAGTGG
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
8 7 0.16
9 9 0.20
10 19 0.42
11 10 0.22
ACGTcount: A:0.10, C:0.07, G:0.02, T:0.82
Consensus pattern (10 bp):
TTTCATTTTT
Found at i:13347347 original size:9 final size:9
Alignment explanation
Indices: 13347327--13347386 Score: 59
Period size: 9 Copynumber: 6.3 Consensus size: 9
13347317 TTTCCTTTCA
13347327 TTTCATTTTT
1 TTTCA-TTTT
13347337 TTTCATTTTTT
1 TTTCA--TTTT
13347348 TTTCATTTT
1 TTTCATTTT
13347357 TTTCATTTT
1 TTTCATTTT
*
13347366 TTT-TTTTT
1 TTTCATTTT
*
13347374 GTTTAATTTT
1 -TTTCATTTT
13347384 TTT
1 TTT
13347387 TAGCTAAGTG
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
8 4 0.09
9 22 0.49
10 9 0.20
11 10 0.22
ACGTcount: A:0.10, C:0.07, G:0.02, T:0.82
Consensus pattern (9 bp):
TTTCATTTT
Found at i:13356531 original size:23 final size:22
Alignment explanation
Indices: 13356505--13356556 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
13356495 TTCTTTTTCA
13356505 TTTTTTTCTTTTGCTGGCAACT-T
1 TTTTTTTCTTTT--TGGCAACTCT
* *
13356528 TTTTTTCCTTTTTGGCACCTCT
1 TTTTTTTCTTTTTGGCAACTCT
13356550 TTTTTTT
1 TTTTTTT
13356557 TCTCCTTCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 7 0.28
22 7 0.28
23 11 0.44
ACGTcount: A:0.06, C:0.19, G:0.10, T:0.65
Consensus pattern (22 bp):
TTTTTTTCTTTTTGGCAACTCT
Found at i:13356543 original size:21 final size:22
Alignment explanation
Indices: 13356505--13356555 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
13356495 TTCTTTTTCA
13356505 TTTTTTTCTTTTGCTGGCAACT-
1 TTTTTTTCTTTT-CTGGCAACTC
*
13356527 TTTTTTTCCTTTT-TGGCACCTC
1 TTTTTTT-CTTTTCTGGCAACTC
13356549 TTTTTTT
1 TTTTTTT
13356556 TTCTCCTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 7 0.27
22 14 0.54
23 5 0.19
ACGTcount: A:0.06, C:0.20, G:0.10, T:0.65
Consensus pattern (22 bp):
TTTTTTTCTTTTCTGGCAACTC
Found at i:13357240 original size:145 final size:145
Alignment explanation
Indices: 13356972--13357344 Score: 396
Period size: 145 Copynumber: 2.6 Consensus size: 145
13356962 GTAAAAATCC
*
13356972 AAAAATCATGAAATATTATGAAATTGAAATGTGAAAAGTTTCATAAAAATCCAATCTCAGAAAGG
1 AAAAATCATGAAATATTATGAAATTGAAATGTGAAAAGTTTCATAAAAATCCAAGCTCAGAAAGG
* *
13357037 GCAAATTATAAAAATATCCTTATAAGGGTATTTTGGTAATTTTATACTTCTCGAGGTACTACTAT
66 GCAAATTACAAAAATATCCTTATAAGGGTATTTTGGTAATTTCATACTTCTCGAGGTACTACTAT
*
13357102 GAGTTCAAATGCACT
131 AAGTTCAAATGCACT
* * * * * * * * **
13357117 AAAAATCATGAAATATTATTAAATTTAGATTTGGAAAG-TTCTATGAAAATTCGAGCTTGGAAAG
1 AAAAATCATGAAATATTATGAAATTGAAATGTGAAAAGTTTC-ATAAAAATCCAAGCTCAGAAAG
** * * *
13357181 GTTAAATTACAAAAATA-CCTT-TATAGGGTTATTTTGGTAATTTCATATTTTTC-AGGGTACTG
65 GGCAAATTACAAAAATATCCTTATA-AGGG-TATTTTGGTAATTTCATACTTCTCGA-GGTACTA
* *
13357243 CTGTAATTTCAAATGCACT
127 CTATAAGTTCAAATGCACT
* * * * * * *
13357262 AAAAATCGTGAAATGTTATGAAATT-AATATCTAAAAAGTTTGATGAAAATCCAAGCTCAGAAAA
1 AAAAATCATGAAATATTATGAAATTGAA-ATGTGAAAAGTTTCATAAAAATCCAAGCTCAGAAAG
* *
13357326 GTCAAATTATAAAAATATC
65 GGCAAATTACAAAAATATC
13357345 TTAAACCTTA
Statistics
Matches: 185, Mismatches: 36, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
143 2 0.01
144 13 0.07
145 167 0.90
146 3 0.02
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (145 bp):
AAAAATCATGAAATATTATGAAATTGAAATGTGAAAAGTTTCATAAAAATCCAAGCTCAGAAAGG
GCAAATTACAAAAATATCCTTATAAGGGTATTTTGGTAATTTCATACTTCTCGAGGTACTACTAT
AAGTTCAAATGCACT
Found at i:13357378 original size:12 final size:13
Alignment explanation
Indices: 13357346--13357384 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
13357336 AAAAATATCT
*
13357346 TAAACCTTAAACC
1 TAAACCCTAAACC
13357359 TTAAACCCTAAACC
1 -TAAACCCTAAACC
13357373 -AAACCCTAAACC
1 TAAACCCTAAACC
13357385 CTAACCTAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 12 0.50
14 12 0.50
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.18
Consensus pattern (13 bp):
TAAACCCTAAACC
Found at i:13357385 original size:7 final size:7
Alignment explanation
Indices: 13357346--13357388 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
13357336 AAAAATATCT
*
13357346 TAAACCT
1 TAAACCC
*
13357353 TAAACCT
1 TAAACCC
13357360 TAAACCC
1 TAAACCC
13357367 TAAA-CC
1 TAAACCC
13357373 -AAACCC
1 TAAACCC
13357379 TAAACCC
1 TAAACCC
13357386 TAA
1 TAA
13357389 CCTAGACCCC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
5 3 0.09
6 4 0.12
7 26 0.79
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:13357402 original size:19 final size:19
Alignment explanation
Indices: 13357361--13357402 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
13357351 CTTAAACCTT
*
13357361 AAACCCTAAACCAAACCCT
1 AAACCCTAAACCAAACCCC
*
13357380 AAACCCT-AACCTAGACCCC
1 AAACCCTAAACC-AAACCCC
13357399 AAAC
1 AAAC
13357403 TAACCCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.45, C:0.43, G:0.02, T:0.10
Consensus pattern (19 bp):
AAACCCTAAACCAAACCCC
Found at i:13361809 original size:16 final size:17
Alignment explanation
Indices: 13361790--13361838 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
13361780 TCTCTTCTCA
13361790 CTTTTAGTTC-TTAGTT
1 CTTTTAGTTCTTTAGTT
13361806 C-TTTAGTTCTTTAGTT
1 CTTTTAGTTCTTTAGTT
* *
13361822 CTTTTATTTTTTTAGTT
1 CTTTTAGTTCTTTAGTT
13361839 TAATTATTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 8 0.28
16 8 0.28
17 13 0.45
ACGTcount: A:0.12, C:0.10, G:0.10, T:0.67
Consensus pattern (17 bp):
CTTTTAGTTCTTTAGTT
Found at i:13361813 original size:8 final size:8
Alignment explanation
Indices: 13361792--13361825 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
13361782 TCTTCTCACT
13361792 TTTAGTTC
1 TTTAGTTC
13361800 -TTAGTTC
1 TTTAGTTC
13361807 TTTAGTTC
1 TTTAGTTC
13361815 TTTAGTTC
1 TTTAGTTC
13361823 TTT
1 TTT
13361826 TATTTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.65
Consensus pattern (8 bp):
TTTAGTTC
Found at i:13366715 original size:11 final size:10
Alignment explanation
Indices: 13366676--13366731 Score: 51
Period size: 10 Copynumber: 5.7 Consensus size: 10
13366666 TAATAAAAGC
*
13366676 CTTTTTTTCT
1 CTTTTTTTTT
*
13366686 CTTTTTTTTA
1 CTTTTTTTTT
* *
13366696 ATTTATTTTT
1 CTTTTTTTTT
*
13366706 CTTTTGTTTT
1 CTTTTTTTTT
*
13366716 -TTTTTTTAT
1 CTTTTTTTTT
13366725 CTTTTTT
1 CTTTTTT
13366732 GTTTGCGTGT
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
9 7 0.20
10 28 0.80
ACGTcount: A:0.07, C:0.09, G:0.02, T:0.82
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:13372128 original size:24 final size:24
Alignment explanation
Indices: 13372091--13372138 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
13372081 ATGAGGTTTT
* *
13372091 GTTTGAGGGTAAGCAAAGATTCAA
1 GTTTGAGAGCAAGCAAAGATTCAA
13372115 GTTTGAGAGCAAGCAAAGATTCAA
1 GTTTGAGAGCAAGCAAAGATTCAA
13372139 ATATAAGGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.27, T:0.23
Consensus pattern (24 bp):
GTTTGAGAGCAAGCAAAGATTCAA
Found at i:13373071 original size:16 final size:17
Alignment explanation
Indices: 13373050--13373083 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
13373040 TTCTTTTCTC
13373050 TTTTTTAGTTC-TTAGT
1 TTTTTTAGTTCTTTAGT
*
13373066 TTTTTTATTTCTTTAGT
1 TTTTTTAGTTCTTTAGT
13373083 T
1 T
13373084 GAGTTATTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.12, C:0.06, G:0.09, T:0.74
Consensus pattern (17 bp):
TTTTTTAGTTCTTTAGT
Found at i:13373995 original size:31 final size:28
Alignment explanation
Indices: 13373958--13374018 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
13373948 AAAATTTAAA
* *
13373958 ATTTTGTTGATTTTTAAGTGTTTTAATGCTT
1 ATTTTG-TGATATTT-AGGGTTTTAA-GCTT
13373989 ATTTTGTGATATTTAGGGTTTTAAGCTT
1 ATTTTGTGATATTTAGGGTTTTAAGCTT
13374017 AT
1 AT
13374019 AGATAAGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 6 0.21
29 9 0.32
30 7 0.25
31 6 0.21
ACGTcount: A:0.21, C:0.03, G:0.18, T:0.57
Consensus pattern (28 bp):
ATTTTGTGATATTTAGGGTTTTAAGCTT
Found at i:13374888 original size:17 final size:17
Alignment explanation
Indices: 13374855--13374889 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
13374845 TAGTTCAAAG
**
13374855 TTCTTTAGTTTTTTTAT
1 TTCTTTAGTTTAGTTAT
13374872 TTCTTTAGTTTAGTTAT
1 TTCTTTAGTTTAGTTAT
13374889 T
1 T
13374890 GACCTAGGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.14, C:0.06, G:0.09, T:0.71
Consensus pattern (17 bp):
TTCTTTAGTTTAGTTAT
Found at i:13381084 original size:14 final size:14
Alignment explanation
Indices: 13381067--13381093 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13381057 TATATATAAA
13381067 ATATTTAAAAAATG
1 ATATTTAAAAAATG
13381081 ATATTTAAAAAAT
1 ATATTTAAAAAAT
13381094 AAAAAAATTA
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:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (14 bp):
ATATTTAAAAAATG
Found at i:13381130 original size:57 final size:59
Alignment explanation
Indices: 13381046--13381167 Score: 196
Period size: 57 Copynumber: 2.1 Consensus size: 59
13381036 TATTTTTTTA
* *
13381046 ATTAATAATATTATATATAAAATATTTAAAAAATGATATTTAAAAAAT-AAA-AAAATT
1 ATTAATAATATTATATATAAAATATTTAAAAAATAATACTTAAAAAATAAAATAAAATT
*
13381103 ATTAATAATATTATATGTAAAATATTTAAAAAATAATACTTAAAAAATAAAATAAAATT
1 ATTAATAATATTATATATAAAATATTTAAAAAATAATACTTAAAAAATAAAATAAAATT
13381162 A-TAATA
1 ATTAATA
13381168 CAGATATAGA
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
57 45 0.75
58 8 0.13
59 7 0.12
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (59 bp):
ATTAATAATATTATATATAAAATATTTAAAAAATAATACTTAAAAAATAAAATAAAATT
Found at i:13381140 original size:14 final size:14
Alignment explanation
Indices: 13381123--13381152 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13381113 TTATATGTAA
*
13381123 AATATTTAAAAAAT
1 AATACTTAAAAAAT
13381137 AATACTTAAAAAAT
1 AATACTTAAAAAAT
13381151 AA
1 AA
13381153 AATAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (14 bp):
AATACTTAAAAAAT
Found at i:13387367 original size:35 final size:35
Alignment explanation
Indices: 13387325--13387395 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
13387315 ACAGATTATG
13387325 TATCAAATCAGGATCAATTTCCTAATTTGTTGGGA
1 TATCAAATCAGGATCAATTTCCTAATTTGTTGGGA
* * * *
13387360 TATCAAATTAGGATCATTTTCTTGATTTGTTGGGA
1 TATCAAATCAGGATCAATTTCCTAATTTGTTGGGA
13387395 T
1 T
13387396 TTATATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.42
Consensus pattern (35 bp):
TATCAAATCAGGATCAATTTCCTAATTTGTTGGGA
Found at i:13395141 original size:35 final size:35
Alignment explanation
Indices: 13395087--13395157 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
13395077 GCAGATTATG
*
13395087 TATCAAATTAGGATTAATTTCCTGATTTGTTGGGA
1 TATCAAATTAGGATCAATTTCCTGATTTGTTGGGA
* *
13395122 TATCAAATTGGGATCAATTTCTTGATTTGTTGGGA
1 TATCAAATTAGGATCAATTTCCTGATTTGTTGGGA
13395157 T
1 T
13395158 TTATATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (35 bp):
TATCAAATTAGGATCAATTTCCTGATTTGTTGGGA
Found at i:13404761 original size:22 final size:22
Alignment explanation
Indices: 13404736--13404780 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
13404726 CGCTAAATCC
* *
13404736 AGAATTCTATCGTCAAGAAACT
1 AGAATTCTACCATCAAGAAACT
13404758 AGAATTCTACCATCAAGAAACT
1 AGAATTCTACCATCAAGAAACT
13404780 A
1 A
13404781 CCACTTGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.24
Consensus pattern (22 bp):
AGAATTCTACCATCAAGAAACT
Found at i:13405295 original size:15 final size:14
Alignment explanation
Indices: 13405257--13405297 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
13405247 ATTTTCCTAT
13405257 ATATAAAAGTGTAA
1 ATATAAAAGTGTAA
13405271 ATATAAAAGTGTAA
1 ATATAAAAGTGTAA
*
13405285 ATTTCAAAAGTGT
1 ATAT-AAAAGTGT
13405298 TAACAGTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.51, C:0.02, G:0.15, T:0.32
Consensus pattern (14 bp):
ATATAAAAGTGTAA
Done.