Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 51 of 202
Found at i:15171907 original size:6 final size:6
Alignment explanation
Indices: 15171896--15171933 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
15171886 ACATTTACAG
15171896 TCAGAT TCAGAT TCAGAT TCAGAT TCAGAT TCAGAT TC
1 TCAGAT TCAGAT TCAGAT TCAGAT TCAGAT TCAGAT TC
15171934 GGACTTAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (6 bp):
TCAGAT
Found at i:15180059 original size:23 final size:23
Alignment explanation
Indices: 15180032--15180119 Score: 110
Period size: 23 Copynumber: 3.9 Consensus size: 23
15180022 GGCTTTGCCG
15180032 ATCAGGCACTTTATGTGTCGTAC
1 ATCAGGCACTTTATGTGTCGTAC
15180055 ATCAGGCACTTTATGTGTCGTATC
1 ATCAGGCACTTTATGTGTCGTA-C
* *
15180079 -TCAGGCTCTTTATGTGTC--AT
1 ATCAGGCACTTTATGTGTCGTAC
* *
15180099 ATCAGGCACCTTGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
15180120 TTTAGGCACT
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
21 16 0.29
23 39 0.70
24 1 0.02
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.38
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAC
Found at i:15180105 original size:21 final size:21
Alignment explanation
Indices: 15180032--15180141 Score: 105
Period size: 23 Copynumber: 5.1 Consensus size: 21
15180022 GGCTTTGCCG
*
15180032 ATCAGGCACTTTATGTGTCGTAC
1 ATCAGGCACTTTATGTGTC--AT
15180055 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTC--AT
* *
15180078 CTCAGGCTCTTTATGTGTCAT
1 ATCAGGCACTTTATGTGTCAT
* * *
15180099 ATCAGGCACCTTGTGTGTCGT
1 ATCAGGCACTTTATGTGTCAT
* *
15180120 TTTAGGCAC-TTATGTGTCAT
1 ATCAGGCACTTTATGTGTCAT
15180140 AT
1 AT
15180142 ACTGATCAGG
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
20 10 0.14
21 25 0.34
23 39 0.53
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (21 bp):
ATCAGGCACTTTATGTGTCAT
Found at i:15180118 original size:44 final size:42
Alignment explanation
Indices: 15180033--15180141 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 42
15180023 GCTTTGCCGA
* *
15180033 TCAGGCACTTTATGTGTCGTACATCAGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTC--ATATCAGGCACCTTATGTGTCGT-T
* *
15180078 CTCAGGCTCTTTATGTGTCATATCAGGCACCTTGTGTGTCGTT
1 -TCAGGCACTTTATGTGTCATATCAGGCACCTTATGTGTCGTT
*
15180121 TTAGGCAC-TTATGTGTCATAT
1 TCAGGCACTTTATGTGTCATAT
15180142 ACTGATCAGG
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 13 0.23
42 6 0.11
43 1 0.02
44 20 0.35
46 17 0.30
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.39
Consensus pattern (42 bp):
TCAGGCACTTTATGTGTCATATCAGGCACCTTATGTGTCGTT
Found at i:15181780 original size:15 final size:17
Alignment explanation
Indices: 15181759--15181795 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
15181749 AAAACTCCCA
15181759 GAAAT-AAACC-TTATT
1 GAAATAAAACCATTATT
*
15181774 TAAATAAAACCATTATT
1 GAAATAAAACCATTATT
15181791 GAAAT
1 GAAAT
15181796 CAACTCACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
15 4 0.22
16 5 0.28
17 9 0.50
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (17 bp):
GAAATAAAACCATTATT
Found at i:15198455 original size:3 final size:3
Alignment explanation
Indices: 15198442--15198486 Score: 81
Period size: 3 Copynumber: 14.7 Consensus size: 3
15198432 TATACAATCA
15198442 TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
15198487 CACAACAACA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:15198840 original size:19 final size:19
Alignment explanation
Indices: 15198816--15198852 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
15198806 AATATAAATT
*
15198816 ATTTATAAATTTTATTTAA
1 ATTTATAAATTATATTTAA
15198835 ATTTATAAATTATATTTA
1 ATTTATAAATTATATTTA
15198853 TGATTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTATAAATTATATTTAA
Found at i:15211044 original size:21 final size:21
Alignment explanation
Indices: 15211018--15211081 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
15211008 CCATAAGGGT
15211018 TGAATGGAAGCTCAAAAGAGC
1 TGAATGGAAGCTCAAAAGAGC
* * * * *
15211039 TGAATGGAAACCCATAAGGGT
1 TGAATGGAAGCTCAAAAGAGC
* *
15211060 TAAATTGAAGCTCAAAAGAGC
1 TGAATGGAAGCTCAAAAGAGC
15211081 T
1 T
15211082 AAACGGAAAC
Statistics
Matches: 31, Mismatches: 12, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.19
Consensus pattern (21 bp):
TGAATGGAAGCTCAAAAGAGC
Found at i:15211050 original size:42 final size:42
Alignment explanation
Indices: 15210995--15211115 Score: 170
Period size: 42 Copynumber: 2.9 Consensus size: 42
15210985 GCACATAAGT
* *
15210995 GCTAAACAGAAACCCATAAGGGTTGAATGGAAGCTCAAAAGA
1 GCTAAACGGAAACCCATAAGGGTTAAATGGAAGCTCAAAAGA
* * *
15211037 GCTGAATGGAAACCCATAAGGGTTAAATTGAAGCTCAAAAGA
1 GCTAAACGGAAACCCATAAGGGTTAAATGGAAGCTCAAAAGA
* * *
15211079 GCTAAACGGAAACCCATTAGGGTTAAATAGAAACTCA
1 GCTAAACGGAAACCCATAAGGGTTAAATGGAAGCTCA
15211116 TATGAGTTAA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (42 bp):
GCTAAACGGAAACCCATAAGGGTTAAATGGAAGCTCAAAAGA
Found at i:15216445 original size:36 final size:37
Alignment explanation
Indices: 15216338--15216489 Score: 123
Period size: 42 Copynumber: 3.9 Consensus size: 37
15216328 AATGCTGTAG
*
15216338 GCTTTAGCGGCGTTTT-T-GAATAAGCGCCGCTAATTCTATGG
1 GCTTTAGCGGCGTTTTCTGGAA-AAGCGCCGCTAA----A-GC
* *
15216379 GCTTTAACGGCGTTTT-TGTAAAAGCGCCGCTAAAGC
1 GCTTTAGCGGCGTTTTCTGGAAAAGCGCCGCTAAAGC
*
15216415 -CTTTAGCGGCGTTTTCTGGAAAAGCGCCGCTAATGC
1 GCTTTAGCGGCGTTTTCTGGAAAAGCGCCGCTAAAGC
* *
15216451 TGGGGTCTTTAGCGGCGTTTTCTAGAAAAGCGCCACTAA
1 ----G-CTTTAGCGGCGTTTTCTGGAAAAGCGCCGCTAA
15216490 GGACATTTTA
Statistics
Matches: 95, Mismatches: 8, Indels: 15
0.81 0.07 0.13
Matches are distributed among these distances:
35 14 0.15
36 19 0.20
37 1 0.01
41 28 0.29
42 33 0.35
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.30
Consensus pattern (37 bp):
GCTTTAGCGGCGTTTTCTGGAAAAGCGCCGCTAAAGC
Found at i:15216461 original size:77 final size:77
Alignment explanation
Indices: 15216339--15216489 Score: 202
Period size: 77 Copynumber: 2.0 Consensus size: 77
15216329 ATGCTGTAGG
* *
15216339 CTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATTCTATGGGCTTTAACGGCGTTTT-T-GTAAAA
1 CTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTAGGGGCTTTAACGGCGTTTTCTAG-AAAA
*
15216402 GCGCCGCTAAAGC
65 GCGCCACTAAAGC
*
15216415 CTTTAGCGGCGTTTTCTGGAA-AAGCGCCGCTAATGCT-GGGGTCTTTAGCGGCGTTTTCTAGAA
1 CTTTAGCGGCGTTTT-T-GAATAAGCGCCGCTAATGCTAGGGG-CTTTAACGGCGTTTTCTAGAA
15216478 AAGCGCCACTAA
63 AAGCGCCACTAA
15216490 GGACATTTTA
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
76 18 0.27
77 30 0.45
78 17 0.26
79 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (77 bp):
CTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTAGGGGCTTTAACGGCGTTTTCTAGAAAAG
CGCCACTAAAGC
Found at i:15216479 original size:42 final size:39
Alignment explanation
Indices: 15216297--15216489 Score: 171
Period size: 41 Copynumber: 4.8 Consensus size: 39
15216287 CCTTTCGAGT
* * * *
15216297 CTTTAGCGGCATTTTATTAAGAAGCACCGCTAATGCTGTAGG
1 CTTTAGCGGCGTTTT-TGAA-AAGCGCCGCTAATGCTG-GGG
* *
15216339 CTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATTCTATGGG
1 CTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGCT-GGGG
* *
15216380 CTTTAACGGCGTTTTTGTAAAAGCGCCGCTAAAGC-----
1 CTTTAGCGGCGTTTTTG-AAAAGCGCCGCTAATGCTGGGG
15216415 CTTTAGCGGCGTTTTCTGGAAAAGCGCCGCTAATGCTGGGG
1 CTTTAGCGGCGTTTT-T-GAAAAGCGCCGCTAATGCTGGGG
*
15216456 TCTTTAGCGGCGTTTTCTAGAAAAGCGCCACTAA
1 -CTTTAGCGGCGTTTT-T-GAAAAGCGCCGCTAA
15216490 GGACATTTTA
Statistics
Matches: 127, Mismatches: 14, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
35 14 0.11
36 17 0.13
37 1 0.01
41 48 0.38
42 47 0.37
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (39 bp):
CTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTGGGG
Found at i:15217416 original size:20 final size:21
Alignment explanation
Indices: 15217391--15217431 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15217381 TTAGGGACTA
*
15217391 GGGA-TTATGGTTTAAGGGTT
1 GGGATTTACGGTTTAAGGGTT
*
15217411 GGGATTTACGGTTTAGGGGTT
1 GGGATTTACGGTTTAAGGGTT
15217432 AGGGGTTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.02, G:0.41, T:0.39
Consensus pattern (21 bp):
GGGATTTACGGTTTAAGGGTT
Found at i:15218549 original size:451 final size:451
Alignment explanation
Indices: 15217707--15219056 Score: 2256
Period size: 451 Copynumber: 3.0 Consensus size: 451
15217697 TTGGATATAT
*
15217707 AGGACCACGTTATAA-GAAATAAAAAACATTAGCGGCGTTTGGGTAGAAACGCCGCAACTATGTA
1 AGGACCACATTATAAGGAAA-AAAAAACATTAGCGGCGTTTGGGTAGAAACGCCGCAACTATGTA
* *
15217771 CCCATTTTTTTGAGAACGGCGTCGTATCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGG
65 CCCATTTTTTTCAAAACGGCGTCGTATCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGG
* *
15217836 GAAAACGCCATAAATATGTATTATAATTTATCAAAACGGCCCCGTTTCAGAAGAGGAGTGTAATC
130 GAAAACGCCATAAATATGTATTATAATTTCTCAAAACGGCACCGTTTCAGAAGAGGAGTGTAATC
* * *
15217901 TATTAGTGGCGTTTATGCTAGAAACGTCGCAAGGATGTATTAATGTTTTTCAAAACGTCACCGTT
195 TATTAGTGGCGTTTATGCTAAAAACGCCGCAATGATGTATTAATGTTTTTCAAAACGTCACCGTT
* * * *
15217966 TCACTTCAGGACTTGACATTTTAGTGGCGTTTTTCAGGAAAACGCCGGAAATATGGATTAAAGTT
260 TCTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTCGGGAAAACGCCGGAACTATGGATTAAAGTT
* *
15218031 TCTTAAAAC-AGCACCGTTTCTTTTCAGTAAGTTAATTTTTAGTGGCGTTTTTGCTAAAAATGCC
325 TCTTAAAACGA-CACCGTTTCTATTCAGTAAGTTAATTTTTAGTGGCGTTTTTGCTAAAAACGCC
*
15218095 GCAACTATATATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTACGC
389 GCAAATATATATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTACGC
* * *
15218158 AGGACCACATTATAAGGAAAAAAAAACATTAACTGCGTTTGGGTAGAAACGCTGCAACTATGTAC
1 AGGACCACATTATAAGGAAAAAAAAACATTAGCGGCGTTTGGGTAGAAACGCCGCAACTATGTAC
15218223 CCATTTTTTTCAAAACGGCGTCGTATCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGGG
66 CCATTTTTTTCAAAACGGCGTCGTATCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGGG
15218288 AAAACGCCATAAATATGTATTATAATTTCTCAAAACGGCACCGTTTCAGAAGAGGAGTGTAATCT
131 AAAACGCCATAAATATGTATTATAATTTCTCAAAACGGCACCGTTTCAGAAGAGGAGTGTAATCT
* * **
15218353 ATTAATGGTGTTTATGCTAAAAACGCCGCAATGATGTATTAATGTTTTTCAAAACGTCACCAATT
196 ATTAGTGGCGTTTATGCTAAAAACGCCGCAATGATGTATTAATGTTTTTCAAAACGTCACCGTTT
*
15218418 CTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTCGGGAAAATGCCGGAACTATGGATTAAAGTTT
261 CTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTCGGGAAAACGCCGGAACTATGGATTAAAGTTT
* *
15218483 CTTAAAACGACACCATTTCTATTCAGTAAGTTAATTCTTAGTGGCGTTTTTGCGT-AAAACGCCG
326 CTTAAAACGACACCGTTTCTATTCAGTAAGTTAATTTTTAGTGGCGTTTTTGC-TAAAAACGCCG
*
15218547 CAAATATATATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTACGT
390 CAAATATATATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTACGC
* * *
15218609 AGGACCACATTATAAGGAAAAAAAAACATTAGCGGCGTTTGGGAAAAAACGCCGCAACTATGTTC
1 AGGACCACATTATAAGGAAAAAAAAACATTAGCGGCGTTTGGGTAGAAACGCCGCAACTATGTAC
* * *
15218674 CCATTTTTTTCAAAACAGCGTCGTATCCATTTAGAAATTTAATTTAATTTGTGGCATTTTTTGGA
66 CCATTTTTTTCAAAACGGCGTCGTATCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGGG
* *
15218739 AAAACGCCATAAATATGTATTATAATTTCGCAAAACGGCACCGTTTCAGAAGATGAGTGTAATCT
131 AAAACGCCATAAATATGTATTATAATTTCTCAAAACGGCACCGTTTCAGAAGAGGAGTGTAATCT
15218804 ATTAGTGGCGTTTATGCTAAAAACGCCGCAATGATGTATTAATGTTTTTCAAAACGTCACCGTTT
196 ATTAGTGGCGTTTATGCTAAAAACGCCGCAATGATGTATTAATGTTTTTCAAAACGTCACCGTTT
* *
15218869 CTCTTCAGGACTTGAAATTTTAGTGGTGTTTTTCGGGAAAACGCTGGAACTATGGATTAAAGTTT
261 CTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTCGGGAAAACGCCGGAACTATGGATTAAAGTTT
* ** *
15218934 CTTAAAACGGCACCGTTTGAATTCAATAAGTTAATTTTTAGTGGCGTTTTTGCTAAAAACGCCGC
326 CTTAAAACGACACCGTTTCTATTCAGTAAGTTAATTTTTAGTGGCGTTTTTGCTAAAAACGCCGC
* * * *
15218999 AAATATATATTTAAGGTTCTTAAAACGTTGCTGTTTAAGAATTTAATTTTGGTAATTA
391 AAATATATATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTA
15219057 TGGAAGCAAT
Statistics
Matches: 841, Mismatches: 54, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
450 1 0.00
451 834 0.99
452 6 0.01
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (451 bp):
AGGACCACATTATAAGGAAAAAAAAACATTAGCGGCGTTTGGGTAGAAACGCCGCAACTATGTAC
CCATTTTTTTCAAAACGGCGTCGTATCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGGG
AAAACGCCATAAATATGTATTATAATTTCTCAAAACGGCACCGTTTCAGAAGAGGAGTGTAATCT
ATTAGTGGCGTTTATGCTAAAAACGCCGCAATGATGTATTAATGTTTTTCAAAACGTCACCGTTT
CTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTCGGGAAAACGCCGGAACTATGGATTAAAGTTT
CTTAAAACGACACCGTTTCTATTCAGTAAGTTAATTTTTAGTGGCGTTTTTGCTAAAAACGCCGC
AAATATATATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTACGC
Found at i:15220856 original size:66 final size:66
Alignment explanation
Indices: 15220741--15220901 Score: 202
Period size: 66 Copynumber: 2.4 Consensus size: 66
15220731 AATTACACAA
* * * * *
15220741 CTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTAAAAAAAGATATGAAGAACTCCAGCTA-C
1 CTTAAAGCAGATGCAGCAACGAGAGAAGCTAAGGTTAAAAAAAGATATGAAGAACTCCAGC-AGC
15220805 AG
65 AG
* **
15220807 CTTAAAGCAGATGCAGCAGCGAGAGAAGCTAAGGTTCAACGAAAG-TATGAAGAACTCCAGCAGC
1 CTTAAAGCAGATGCAGCAACGAGAGAAGCTAAGGTT-AAAAAAAGATATGAAGAACTCCAGCAGC
15220871 AG
65 AG
15220873 CTTAAAGCAGATGC-GACAACGAGAGAAGC
1 CTTAAAGCAGATGCAG-CAACGAGAGAAGC
15220902 AGAGGCTGCA
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
65 2 0.02
66 76 0.90
67 6 0.07
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.14
Consensus pattern (66 bp):
CTTAAAGCAGATGCAGCAACGAGAGAAGCTAAGGTTAAAAAAAGATATGAAGAACTCCAGCAGCA
G
Found at i:15220916 original size:21 final size:21
Alignment explanation
Indices: 15220892--15220968 Score: 118
Period size: 21 Copynumber: 3.7 Consensus size: 21
15220882 GATGCGACAA
*
15220892 CGAGAGAAGCAGAGGCTGCAG
1 CGAGGGAAGCAGAGGCTGCAG
*
15220913 CGAGGGAAGCAGAGGCTACAG
1 CGAGGGAAGCAGAGGCTGCAG
*
15220934 CGAGGGAAGTAGAGGCTGCAG
1 CGAGGGAAGCAGAGGCTGCAG
*
15220955 CAAGGGAAGCAGAG
1 CGAGGGAAGCAGAG
15220969 CAGCGTAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.34, C:0.17, G:0.44, T:0.05
Consensus pattern (21 bp):
CGAGGGAAGCAGAGGCTGCAG
Found at i:15220924 original size:42 final size:42
Alignment explanation
Indices: 15220877--15220968 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
15220867 CAGCAGCTTA
* *
15220877 AAGCAGATGCGACAACGAGAGAAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCGACAACGAGAGAAGCAGAGGCTGCAGCAAGGG
* * * *
15220919 AAGCAGAGGCTACAGCGAGGGAAGTAGAGGCTGCAGCAAGGG
1 AAGCAGAGGCGACAACGAGAGAAGCAGAGGCTGCAGCAAGGG
15220961 AAGCAGAG
1 AAGCAGAG
15220969 CAGCGTAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.36, C:0.17, G:0.41, T:0.05
Consensus pattern (42 bp):
AAGCAGAGGCGACAACGAGAGAAGCAGAGGCTGCAGCAAGGG
Found at i:15221420 original size:43 final size:43
Alignment explanation
Indices: 15221339--15221570 Score: 295
Period size: 43 Copynumber: 5.4 Consensus size: 43
15221329 TTTTCGACAA
* * *
15221339 AAAGTGCCGCTAAAAGATAAGGGTATTTAGCGGTGTTTGTGGAG
1 AAAGCGCCGCT-AAAGATAAGGGTCTTTAGCGGCGTTTGTGGAG
* * *
15221383 AAAGCACCGCTAAAGCTAAGGGTCTTTAACGGCGTTTGTGGAG
1 AAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAG
*
15221426 AAAGCGCCGCTAAAGATAAAGGTCTTTAGCGGCGTTTGTGGAG
1 AAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAG
* * * * *
15221469 AAAGAGCCGCTAAAGATCAGGTTCTTTAGTGGCGTTTGTGGTG
1 AAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAG
* * * *
15221512 GAAGCGCCGCTATAGATCAGGGTCTTTTGCGGCGTTTGTGG-G
1 AAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAG
15221554 AAAAGCGCCGCTAAAGA
1 -AAAGCGCCGCTAAAGA
15221571 CCCTAATCTT
Statistics
Matches: 163, Mismatches: 24, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
42 1 0.01
43 153 0.94
44 9 0.06
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAG
Found at i:15221581 original size:43 final size:42
Alignment explanation
Indices: 15221364--15221672 Score: 226
Period size: 43 Copynumber: 7.2 Consensus size: 42
15221354 GATAAGGGTA
* * * * *
15221364 TTTAGCGGTGTTTGTGGAGAAAGCACCGCTAAAG-CTAAGGGTC
1 TTTAGCGGCGTTTGTGGA-AAAGCGCCGCTAAAGAC-CATGATC
* ** * *
15221407 TTTAACGGCGTTTGTGGAGAAAGCGCCGCTAAAGATAAAGGTC
1 TTTAGCGGCGTTTGTGGA-AAAGCGCCGCTAAAGACCATGATC
* * * *
15221450 TTTAGCGGCGTTTGTGGAGAAAGAGCCGCTAAAGATCAGGTTC
1 TTTAGCGGCGTTTGTGGA-AAAGCGCCGCTAAAGACCATGATC
* ** * * * *
15221493 TTTAGTGGCGTTTGTGGTGGAAGCGCCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGACCATGATC
* * *
15221536 TTTTGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCCTAATC
1 TTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGACCATGATC
* * * *
15221579 TTTAGCGGCGCTTTATCGAAAA-CGTCGCTAAAGACCCTGATC
1 TTTAGCGGCG-TTTGTGGAAAAGCGCCGCTAAAGACCATGATC
* * * ** *
15221621 TTTAGCGGCGTTTGTGCGAGAAGCGCCACTATAGACCAACACC
1 TTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGACCATGATC
15221664 TTTAGCGGC
1 TTTAGCGGC
15221673 ATTTATTTCT
Statistics
Matches: 219, Mismatches: 41, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
41 4 0.02
42 32 0.15
43 177 0.81
44 6 0.03
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGACCATGATC
Found at i:15221581 original size:86 final size:86
Alignment explanation
Indices: 15221339--15221672 Score: 259
Period size: 86 Copynumber: 3.9 Consensus size: 86
15221329 TTTTCGACAA
* * * * *
15221339 AAAGTGCCGCTAAAAGATAAGGGTATTTAGCGGTGTTTGTGGAGAAAGCA-CCGCTAAAG-CTAA
1 AAAGCGCCGCT-AAAGATAAAGGTCTTTAGCGGCGTTTGTGGAGAAAG-AGCCGCTAAAGAC-CA
** *
15221402 GGGTCTTTAACGGCGTTTGTGGAG
63 GAATCTTTAGCGGCGTTTGTGGAG
* **
15221426 AAAGCGCCGCTAAAGATAAAGGTCTTTAGCGGCGTTTGTGGAGAAAGAGCCGCTAAAGATCAGGT
1 AAAGCGCCGCTAAAGATAAAGGTCTTTAGCGGCGTTTGTGGAGAAAGAGCCGCTAAAGACCAGAA
* *
15221491 TCTTTAGTGGCGTTTGTGGTG
66 TCTTTAGCGGCGTTTGTGGAG
* * * * * * **
15221512 GAAGCGCCGCTATAGATCAGGGTCTTTTGCGGCGTTTGTGG-GAAAAGCGCCGCTAAAGACCCTA
1 AAAGCGCCGCTAAAGATAAAGGTCTTTAGCGGCGTTTGTGGAG-AAAGAGCCGCTAAAGACCAGA
* *
15221576 ATCTTTAGCGGCGCTTTATCGA-
65 ATCTTTAGCGGCG-TTTGTGGAG
* **** * * * *
15221598 AAA-CGTCGCTAAAGACCCTGATCTTTAGCGGCGTTTGTGCGAG-AAGCGCCACTATAGACCA-A
1 AAAGCGCCGCTAAAGATAAAGGTCTTTAGCGGCGTTTGTG-GAGAAAGAGCCGCTAAAGACCAGA
*
15221660 CACCTTTAGCGGC
65 -ATCTTTAGCGGC
15221673 ATTTATTTCT
Statistics
Matches: 203, Mismatches: 37, Indels: 16
0.79 0.14 0.06
Matches are distributed among these distances:
84 1 0.00
85 57 0.28
86 129 0.64
87 16 0.08
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.25
Consensus pattern (86 bp):
AAAGCGCCGCTAAAGATAAAGGTCTTTAGCGGCGTTTGTGGAGAAAGAGCCGCTAAAGACCAGAA
TCTTTAGCGGCGTTTGTGGAG
Found at i:15221672 original size:128 final size:128
Alignment explanation
Indices: 15221406--15221672 Score: 267
Period size: 128 Copynumber: 2.1 Consensus size: 128
15221396 AGCTAAGGGT
* * *
15221406 CTTTAACGGCGTTTGTGGAGAAAGCGCCGCTAAAGATAAAGGTCTTTAGCGGCGTTTGTGGAGAA
1 CTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGATAAA-GTCTTTAGCGGCGTTTATCGAGAA
* * * * * * ****
15221471 AGAGCCGCTAAAGATCAGGTTCTTTAGTGGCGTTTGTGGTGGAAGCGCCGCTATAGATCAGGGT
65 AGAGCCGCTAAAGACCAGGATCTTTAGCGGCGTTTGTGGTAGAAGCGCCACTATAGACCAACAC
*
15221535 CTTTTGCGGCGTTTGTGG-GAAAAGCGCCGCTAAAGACCCT-AA-TCTTTAGCGGCGCTTTATCG
1 CTTTAGCGGCGTTTGTGGAG-AAAGCGCCGCTAAAGA---TAAAGTCTTTAGCGGCG-TTTATCG
* * **
15221597 A-AAA-CGTCGCTAAAGACCCTGATCTTTAGCGGCGTTTGTGCG-AGAAGCGCCACTATAGACCA
61 AGAAAGAGCCGCTAAAGACCAGGATCTTTAGCGGCGTTTGTG-GTAGAAGCGCCACTATAGACCA
15221659 ACAC
125 ACAC
15221663 CTTTAGCGGC
1 CTTTAGCGGC
15221673 ATTTATTTCT
Statistics
Matches: 113, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
128 56 0.50
129 48 0.42
130 6 0.05
131 2 0.02
132 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (128 bp):
CTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGATAAAGTCTTTAGCGGCGTTTATCGAGAAA
GAGCCGCTAAAGACCAGGATCTTTAGCGGCGTTTGTGGTAGAAGCGCCACTATAGACCAACAC
Found at i:15230929 original size:25 final size:25
Alignment explanation
Indices: 15230889--15230958 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
15230879 CAGGCCCATT
* * *
15230889 TCACAACTCGTGTGAGCATTTATAG
1 TCACAACTTGTCTGAGCATTTACAG
* *
15230914 TCACAGCTTGTCTGAGCATTTACCG
1 TCACAACTTGTCTGAGCATTTACAG
*
15230939 TCACAACTTGTGTGAGCATT
1 TCACAACTTGTCTGAGCATT
15230959 GTTCCTACGT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (25 bp):
TCACAACTTGTCTGAGCATTTACAG
Found at i:15232864 original size:17 final size:18
Alignment explanation
Indices: 15232842--15232882 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
15232832 ATATTTTTAA
15232842 TTAAAA-TTTAAAATTAT
1 TTAAAATTTTAAAATTAT
*
15232859 TTAAAATTTTAGAATTAT
1 TTAAAATTTTAAAATTAT
15232877 TTAAAA
1 TTAAAA
15232883 ATAGTATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TTAAAATTTTAAAATTAT
Found at i:15237028 original size:24 final size:24
Alignment explanation
Indices: 15236989--15237044 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
15236979 CTTGTGCTCT
* *
15236989 ACACGGCCTCGTACATGGCCAGCC
1 ACACGGCCTCGCACATGGCCAACC
*
15237013 ACATGGCCTCGCACATGGCCAACC
1 ACACGGCCTCGCACATGGCCAACC
15237037 ACACGGCC
1 ACACGGCC
15237045 GCTGGTGTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.23, C:0.43, G:0.23, T:0.11
Consensus pattern (24 bp):
ACACGGCCTCGCACATGGCCAACC
Found at i:15249621 original size:21 final size:21
Alignment explanation
Indices: 15249595--15249638 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
15249585 TATTATATGA
15249595 TAATAACAAAAGTAATTTAAT
1 TAATAACAAAAGTAATTTAAT
15249616 TAATAACAAAAGTAATTTAAT
1 TAATAACAAAAGTAATTTAAT
15249637 TA
1 TA
15249639 TGTATGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.34
Consensus pattern (21 bp):
TAATAACAAAAGTAATTTAAT
Found at i:15251477 original size:29 final size:28
Alignment explanation
Indices: 15251411--15251482 Score: 65
Period size: 28 Copynumber: 2.4 Consensus size: 28
15251401 TCATTATTTT
*
15251411 AAATAATTTTAATGATTTTTAATTTTTAAAA
1 AAATAA-TTT-AT-ATTTTTAAATTTTAAAA
**
15251442 TCA-AATTTATATTTTTAAAATTTTAAAA
1 AAATAATTTATATTTTT-AAATTTTAAAA
15251470 AAATAATTATATA
1 AAATAATT-TATA
15251483 CTAACATGTC
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
27 6 0.18
28 13 0.39
29 7 0.21
30 6 0.18
31 1 0.03
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (28 bp):
AAATAATTTATATTTTTAAATTTTAAAA
Found at i:15251812 original size:2 final size:2
Alignment explanation
Indices: 15251805--15251843 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
15251795 CTCTATTCTT
15251805 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15251844 CTTCATCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15252602 original size:28 final size:28
Alignment explanation
Indices: 15252495--15252673 Score: 191
Period size: 28 Copynumber: 6.4 Consensus size: 28
15252485 GGTCGTGTGT
* * *
15252495 CCCCTATTTTTTAGATATTATAGTTTTG
1 CCCCTATTTTTTAGATTTTACAATTTTG
* *** *
15252523 CCACTATTTCAAAAATTTTACAATTTTG
1 CCCCTATTTTTTAGATTTTACAATTTTG
*
15252551 CCCCTATTTTTCTAG-TTTATACAATTTTA
1 CCCCTATTTTT-TAGATTT-TACAATTTTG
15252580 CCCCTATTTTTTAGATTTTACAATTTT-
1 CCCCTATTTTTTAGATTTTACAATTTTG
* * *
15252607 CCCTTATTTTTTAGATTTTATAGTTTTG
1 CCCCTATTTTTTAGATTTTACAATTTTG
*
15252635 CCCCTACTTTTTAGATTTTACAATTTTG
1 CCCCTATTTTTTAGATTTTACAATTTTG
*
15252663 TCTCCTATTTT
1 -CCCCTATTTT
15252674 ACAAATTTTA
Statistics
Matches: 123, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
27 24 0.20
28 67 0.54
29 32 0.26
ACGTcount: A:0.23, C:0.18, G:0.06, T:0.53
Consensus pattern (28 bp):
CCCCTATTTTTTAGATTTTACAATTTTG
Found at i:15252659 original size:55 final size:54
Alignment explanation
Indices: 15252494--15252661 Score: 194
Period size: 55 Copynumber: 3.0 Consensus size: 54
15252484 TGGTCGTGTG
* * ** *
15252494 TCCCCTATTTTTTAGATATTATAGTTTTGCCACTATTTCAAAAATTTTACAATTT
1 TCCCCTATTTTTTAGATTTTATAGTTTTGCCCCTATTT-TTAGATTTTACAATTT
* * *
15252549 TGCCCCTATTTTTCTAG-TTTATACAATTTTACCCCTATTTTTTAGATTTTACAATTT
1 T-CCCCTATTTTT-TAGATTT-TATAGTTTTGCCCCTA-TTTTTAGATTTTACAATTT
*
15252606 TCCCTTATTTTTTAGATTTTATAGTTTTGCCCCTACTTTTTAGATTTTACAATTT
1 TCCCCTATTTTTTAGATTTTATAGTTTTGCCCCTA-TTTTTAGATTTTACAATTT
15252661 T
1 T
15252662 GTCTCCTATT
Statistics
Matches: 95, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
55 37 0.39
56 26 0.27
57 29 0.31
58 3 0.03
ACGTcount: A:0.24, C:0.17, G:0.06, T:0.53
Consensus pattern (54 bp):
TCCCCTATTTTTTAGATTTTATAGTTTTGCCCCTATTTTTAGATTTTACAATTT
Found at i:15256320 original size:19 final size:19
Alignment explanation
Indices: 15256296--15256349 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
15256286 ATACCAAAAA
15256296 TAATATTATTTTAATAGTT
1 TAATATTATTTTAATAGTT
*
15256315 TAATATTAATTT-A-A-TT
1 TAATATTATTTTAATAGTT
*
15256331 TAATACTTATCTTAATAGT
1 TAATA-TTATTTTAATAGT
15256350 ATTTTATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
16 7 0.25
17 6 0.21
18 2 0.07
19 12 0.43
20 1 0.04
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (19 bp):
TAATATTATTTTAATAGTT
Found at i:15256348 original size:36 final size:36
Alignment explanation
Indices: 15256296--15256402 Score: 107
Period size: 36 Copynumber: 2.9 Consensus size: 36
15256286 ATACCAAAAA
*
15256296 TAATATTATTTTAATAGTTTAATATTAATTTAAT-T
1 TAATATTATCTTAATAGTTTAATATTAATTTAATAT
*
15256331 TAATACTTATCTTAATAGTATT-TTATTAATTTAATAT
1 TAATA-TTATCTTAATAGT-TTAATATTAATTTAATAT
15256368 TAAAGTGATTATCTTAATA--TTACAT-TTAATTTAAT
1 T-AA-T-ATTATCTTAATAGTTTA-ATATTAATTTAAT
15256403 GTTTATCTTG
Statistics
Matches: 61, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
35 5 0.08
36 26 0.43
37 14 0.23
38 3 0.05
39 12 0.20
40 1 0.02
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (36 bp):
TAATATTATCTTAATAGTTTAATATTAATTTAATAT
Found at i:15257021 original size:5 final size:5
Alignment explanation
Indices: 15257011--15257053 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
15257001 TACATATATC
15257011 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TAT
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TAT
15257054 CTGTGTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.21, C:0.00, G:0.19, T:0.60
Consensus pattern (5 bp):
TATTG
Found at i:15265537 original size:23 final size:23
Alignment explanation
Indices: 15265511--15265586 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
15265501 ATAAGTGCAA
15265511 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
15265534 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
15265557 CACTGAAATGTAACCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
15265580 CACTGAT
1 CACTGAT
15265587 CAATAACACT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:15265830 original size:18 final size:17
Alignment explanation
Indices: 15265804--15265842 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
15265794 ATTTTCCTTC
15265804 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
15265821 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
15265839 CACA
1 CACA
15265843 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:15272898 original size:23 final size:23
Alignment explanation
Indices: 15272872--15272924 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
15272862 ATAAGTGCAA
15272872 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
15272895 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
15272918 CACTGAT
1 CACTGAT
15272925 CAGTAACACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:15273180 original size:18 final size:17
Alignment explanation
Indices: 15273154--15273192 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
15273144 ATTTTCCTTC
15273154 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
15273171 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
15273189 CACA
1 CACA
15273193 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:15274880 original size:37 final size:36
Alignment explanation
Indices: 15274816--15274891 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
15274806 ATTCCAAAAA
15274816 TAATATTATTTTAATAGTTTAACATTAAATTTAAT-T
1 TAATATTATTTTAATAGTTTAACATT-AATTTAATAT
**
15274852 TAATACTTATTTTAATAGTATT-TTATTAATTTAATAT
1 TAATA-TTATTTTAATAGT-TTAACATTAATTTAATAT
15274889 TAA
1 TAA
15274892 AGTGATTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (36 bp):
TAATATTATTTTAATAGTTTAACATTAATTTAATAT
Found at i:15275018 original size:16 final size:16
Alignment explanation
Indices: 15274999--15275029 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15274989 TACCTTGGTA
*
15274999 AATATTATATTAATTT
1 AATATTATAGTAATTT
15275015 AATATTATAGTAATT
1 AATATTATAGTAATT
15275030 AAATTTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
AATATTATAGTAATTT
Found at i:15276085 original size:138 final size:138
Alignment explanation
Indices: 15275814--15276105 Score: 381
Period size: 138 Copynumber: 2.1 Consensus size: 138
15275804 GAAGTGACAG
* * ** * * *
15275814 TTTATCTGCAA-ATTTGT-TTATGCACCCACAGCCCAGTGGCAGTATTTATCCTTTAATTGCAAA
1 TTTATCTGCAATATTT-TATTGTGCACCCAGAATCCAATGGCAGTATTTAACCTTTAACTGCAAA
* * *
15275877 TATGATGTACATCCACAACCCATCGATAGCTTTTACCTGCAAATATGGTGTGCATCTATAGCCTA
65 TATGATGTACATCCACAACCCATCGACAGCTTTTACCTGCAAATATGGTGTGCATCTATAACCCA
* *
15275942 GTGACAGCT
130 ATGACAGAT
* * *
15275951 TTTATTTGCAATATTTTATTGTGCACCCAGAATCCAATGGCAGTGTTTAACCTTTAACTGGAAAT
1 TTTATCTGCAATATTTTATTGTGCACCCAGAATCCAATGGCAGTATTTAACCTTTAACTGCAAAT
* * * *
15276016 ATGTTGTATATCCACAACCCATCGACAGCTTTTACTTGCGAATATGGTGTGCATCTATAACCCAA
66 ATGATGTACATCCACAACCCATCGACAGCTTTTACCTGCAAATATGGTGTGCATCTATAACCCAA
15276081 TGACAGAT
131 TGACAGAT
*
15276089 TTTATCTGCGATATTTT
1 TTTATCTGCAATATTTT
15276106 GTTGCGTACC
Statistics
Matches: 132, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
137 11 0.08
138 121 0.92
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (138 bp):
TTTATCTGCAATATTTTATTGTGCACCCAGAATCCAATGGCAGTATTTAACCTTTAACTGCAAAT
ATGATGTACATCCACAACCCATCGACAGCTTTTACCTGCAAATATGGTGTGCATCTATAACCCAA
TGACAGAT
Found at i:15276945 original size:21 final size:21
Alignment explanation
Indices: 15276912--15276955 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
15276902 GAGTTTTCTG
* *
15276912 AAAATAGACTAAATTTTCTTAA
1 AAAATAGAATAAATGTT-TTAA
15276934 AAAATA-AATAAATGTTTTAA
1 AAAATAGAATAAATGTTTTAA
15276954 AA
1 AA
15276956 CGATTGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 8 0.40
22 6 0.30
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.34
Consensus pattern (21 bp):
AAAATAGAATAAATGTTTTAA
Found at i:15278516 original size:24 final size:24
Alignment explanation
Indices: 15278489--15278540 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
15278479 TTTGTAGGTC
*
15278489 AAATAAATTATACTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
15278513 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
15278537 AAAT
1 AAAT
15278541 CTTATTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:15280489 original size:24 final size:24
Alignment explanation
Indices: 15280436--15280498 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
15280426 GGTCAGATAA
* *
15280436 ATTATGCTAATAAATACTAAATAT
1 ATTATACTAATAAATACTAAACAT
* *
15280460 AGTATACTAATAAATACTAAACCT
1 ATTATACTAATAAATACTAAACAT
* *
15280484 TTTATA-AAATAAATA
1 ATTATACTAATAAATA
15280499 TATTTTATTT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 8 0.25
24 24 0.75
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.35
Consensus pattern (24 bp):
ATTATACTAATAAATACTAAACAT
Found at i:15293086 original size:7 final size:7
Alignment explanation
Indices: 15293074--15293221 Score: 57
Period size: 7 Copynumber: 20.7 Consensus size: 7
15293064 ACCAATTAAT
15293074 CTAAACC
1 CTAAACC
15293081 CTAAACCC
1 CTAAA-CC
*
15293089 CTAACCC
1 CTAAACC
*
15293096 CT-ATCTC
1 CTAAAC-C
*
15293103 ATAAACC
1 CTAAACC
*
15293110 CTAAATC
1 CTAAACC
* *
15293117 ATAAAAC
1 CTAAACC
*
15293124 ATAAACCC
1 CTAAA-CC
*
15293132 CTAACCC
1 CTAAACC
*
15293139 CTAACCC
1 CTAAACC
*
15293146 CTAAACA
1 CTAAACC
*
15293153 TTAAA-C
1 CTAAACC
*
15293159 CTCAACC
1 CTAAACC
15293166 CTAAAACC
1 CT-AAACC
*
15293174 ATAAACC
1 CTAAACC
* *
15293181 ATAATCC
1 CTAAACC
* *
15293188 ATAATCC
1 CTAAACC
15293195 CTAAACAC
1 CTAAAC-C
* *
15293203 ATAATCC
1 CTAAACC
15293210 CTAAACC
1 CTAAACC
*
15293217 TTAAA
1 CTAAA
15293222 ATAGTAACTC
Statistics
Matches: 107, Mismatches: 27, Indels: 14
0.72 0.18 0.09
Matches are distributed among these distances:
6 5 0.05
7 80 0.75
8 22 0.21
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:15293177 original size:50 final size:51
Alignment explanation
Indices: 15293075--15293180 Score: 121
Period size: 50 Copynumber: 2.1 Consensus size: 51
15293065 CCAATTAATC
** *
15293075 TAAA-CCCTAAACCCCTAACCCCTATCTCATAAACCCTAAATCATAAAACA
1 TAAACCCCTAAACCCCTAACCCCTATAACATAAACCCTAAACCATAAAACA
* *
15293125 TAAACCCCT-AACCCCTAACCCCTA-AACATTAAA-CCTCAACCCTAAAACCA
1 TAAACCCCTAAACCCCTAACCCCTATAACA-TAAACCCTAAACCATAAAA-CA
15293175 TAAACC
1 TAAACC
15293181 ATAATCCATA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
49 13 0.27
50 31 0.65
51 4 0.08
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (51 bp):
TAAACCCCTAAACCCCTAACCCCTATAACATAAACCCTAAACCATAAAACA
Found at i:15293207 original size:15 final size:15
Alignment explanation
Indices: 15293187--15293215 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15293177 AACCATAATC
15293187 CATAATCCCTAAACA
1 CATAATCCCTAAACA
15293202 CATAATCCCTAAAC
1 CATAATCCCTAAAC
15293216 CTTAAAATAG
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:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (15 bp):
CATAATCCCTAAACA
Found at i:15293221 original size:22 final size:21
Alignment explanation
Indices: 15293144--15293221 Score: 70
Period size: 21 Copynumber: 3.7 Consensus size: 21
15293134 AACCCCTAAC
*
15293144 CCCTAAACATTAAACC-TCAA-
1 CCCTAAACCTTAAACCAT-AAT
*
15293164 CCCTAAAACCATAAACCATAAT
1 CCCT-AAACCTTAAACCATAAT
* * *
15293186 CCATAATCCCTAAACACATAAT
1 CCCTAAACCTTAAAC-CATAAT
15293208 CCCTAAACCTTAAA
1 CCCTAAACCTTAAA
15293222 ATAGTAACTC
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
20 4 0.09
21 21 0.46
22 21 0.46
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (21 bp):
CCCTAAACCTTAAACCATAAT
Found at i:15293296 original size:25 final size:25
Alignment explanation
Indices: 15293268--15293319 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
15293258 GATAATTAAT
15293268 TCAATATTTTAAAATTAATACTATC
1 TCAATATTTTAAAATTAATACTATC
15293293 TCAATATTTTAAAATTAATACTATC
1 TCAATATTTTAAAATTAATACTATC
15293318 TC
1 TC
15293320 TTTTACGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.44
Consensus pattern (25 bp):
TCAATATTTTAAAATTAATACTATC
Found at i:15294037 original size:41 final size:42
Alignment explanation
Indices: 15293950--15294041 Score: 120
Period size: 41 Copynumber: 2.2 Consensus size: 42
15293940 TAAAATAGAG
15293950 CATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCCAAGA
1 CATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCCAAGA
* *
15293992 -ATTAGCGGCGCTT-TTCCAAAAATGCCGCTAAAG--CCGAGAA
1 CATTAGCGGCGCTTCTT-CAAAAACGCCGCTAAAGACCCAAG-A
15294032 CATTAGCGGC
1 CATTAGCGGC
15294042 ACAAACGTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
39 4 0.09
40 3 0.07
41 38 0.84
ACGTcount: A:0.32, C:0.28, G:0.22, T:0.18
Consensus pattern (42 bp):
CATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCCAAGA
Found at i:15294110 original size:41 final size:41
Alignment explanation
Indices: 15294060--15294181 Score: 142
Period size: 41 Copynumber: 3.0 Consensus size: 41
15294050 CACTAAAAAT
* * *
15294060 AGAGCATTAGCGGCGCTTTTCTAAAAACGCTGCTAAAGCCG
1 AGAGCATTAGCGACGCTTTTCTAAAAACGCCGCTAAAGCCC
* *
15294101 AGAGCATTAGCGCCGCATTTTC-AAAAACGCCGCTAAATCCCC
1 AGAGCATTAGCGACGC-TTTTCTAAAAACGCCGCTAAA-GCCC
* *
15294143 A-TGCATTAGCGACGC-TTTCTAAAAAAGCCGCTAAAGCCC
1 AGAGCATTAGCGACGCTTTTCTAAAAACGCCGCTAAAGCCC
15294182 CAAAAACTCA
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
39 7 0.10
40 14 0.20
41 41 0.59
42 8 0.11
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (41 bp):
AGAGCATTAGCGACGCTTTTCTAAAAACGCCGCTAAAGCCC
Found at i:15294150 original size:114 final size:112
Alignment explanation
Indices: 15293931--15294153 Score: 292
Period size: 114 Copynumber: 2.0 Consensus size: 112
15293921 CGCTTTTCAA
15293931 AAACGTCACTAAAATAGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCCAAGAATTA
1 AAACGTCACTAAAATAGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCCAAGAATTA
* * * *
15293996 GCGGCGCTTTTCCAAAAATGCCGCTAAAGCCGAGAACATTAGCGGCAC
66 GCGCCGCTTTTCCAAAAACGCCGCTAAACCCCAG-ACATTAGCGGCAC
* * *
15294044 AAACGTCACTAAAAATAGAGCATTAGCGGCGCTT-TTCTAAAAACGCTGCTAAAG-CCGAGAGCA
1 AAACGTCACT-AAAATAGAGCATTAGCGGCGCTTCTTC-AAAAACGCCGCTAAAGACCCA-AGAA
15294107 TTAGCGCCGCATTTT-CAAAAACGCCGCTAAATCCCCATG-CATTAGCG
63 TTAGCGCCGC-TTTTCCAAAAACGCCGCTAAA-CCCCA-GACATTAGCG
15294154 ACGCTTTCTA
Statistics
Matches: 97, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
113 16 0.16
114 73 0.75
115 7 0.07
116 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (112 bp):
AAACGTCACTAAAATAGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCCAAGAATTA
GCGCCGCTTTTCCAAAAACGCCGCTAAACCCCAGACATTAGCGGCAC
Found at i:15298959 original size:22 final size:21
Alignment explanation
Indices: 15298928--15298992 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
15298918 TTAAAAACTG
* *
15298928 AAATGTATATTTGAAATGTTT
1 AAATATATATTTGAAATATTT
*
15298949 ATAATATATATTTTAAA-ATTT
1 A-AATATATATTTGAAATATTT
15298970 AAATATATATTTTGAAATTATTT
1 AAATATATA-TTTGAAA-TATTT
15298993 TCTAAATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 8 0.22
21 11 0.31
22 13 0.36
23 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (21 bp):
AAATATATATTTGAAATATTT
Found at i:15298974 original size:20 final size:21
Alignment explanation
Indices: 15298946--15298988 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
15298936 ATTTGAAATG
15298946 TTTATAATATATATTTTAAAA
1 TTTATAATATATATTTTAAAA
*
15298967 TTTA-AATATATATTTTGAAA
1 TTTATAATATATATTTTAAAA
15298987 TT
1 TT
15298989 ATTTTCTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TTTATAATATATATTTTAAAA
Found at i:15299001 original size:20 final size:19
Alignment explanation
Indices: 15298978--15299069 Score: 63
Period size: 19 Copynumber: 5.0 Consensus size: 19
15298968 TTAAATATAT
15298978 ATTTTGAAAT-TATTTTCTAA
1 ATTTT-AAATATATTTT-TAA
15298998 ATTTTAAATATATTTTTAA
1 ATTTTAAATATATTTTTAA
* *
15299017 A--TT--AT-T-GTTTAAA
1 ATTTTAAATATATTTTTAA
*
15299030 AATTTAAATATTATTTTTTAA
1 ATTTTAAATA-TA-TTTTTAA
*
15299051 ATATTAAATATATTTTTAA
1 ATTTTAAATATATTTTTAA
15299070 TAATATAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 19
0.70 0.07 0.23
Matches are distributed among these distances:
13 6 0.11
14 1 0.02
15 4 0.07
17 4 0.07
19 16 0.28
20 13 0.23
21 13 0.23
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.55
Consensus pattern (19 bp):
ATTTTAAATATATTTTTAA
Found at i:15299005 original size:33 final size:32
Alignment explanation
Indices: 15298960--15299052 Score: 118
Period size: 32 Copynumber: 2.8 Consensus size: 32
15298950 TAATATATAT
15298960 TTTAAAATTTAAATATATATTTTGAAATTATT-
1 TTTAAAATTTAAATATATATTTT-AAATTATTG
*
15298992 TTCTAAATTTTAAATATAT-TTTTAAATTATTG
1 TT-TAAAATTTAAATATATATTTTAAATTATTG
*
15299024 TTTAAAAATTTAAATATTATTTTTTAAAT
1 TTT-AAAATTTAAATA-TATATTTTAAAT
15299053 ATTAAATATA
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
31 9 0.17
32 19 0.35
33 18 0.33
34 8 0.15
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (32 bp):
TTTAAAATTTAAATATATATTTTAAATTATTG
Found at i:15299059 original size:21 final size:22
Alignment explanation
Indices: 15299017--15299067 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
15299007 ATATTTTTAA
*
15299017 ATTATTGTTTAAAAATTTAAAT
1 ATTATTTTTTAAAAATTTAAAT
*
15299039 ATTATTTTTTAAATA-TTAAAT
1 ATTATTTTTTAAAAATTTAAAT
15299060 A-TATTTTT
1 ATTATTTTT
15299068 AATAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 7 0.26
21 7 0.26
22 13 0.48
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTATTTTTTAAAAATTTAAAT
Found at i:15299074 original size:21 final size:20
Alignment explanation
Indices: 15298951--15299075 Score: 69
Period size: 20 Copynumber: 5.9 Consensus size: 20
15298941 AAATGTTTAT
15298951 AATATATATTTTAAAAT-TTA
1 AATATAT-TTTTAAAATATTA
* *
15298971 AATATATATTTTGAAATTATTT
1 AATATAT-TTTT-AAAATATTA
** *
15298993 TCTA-AATTTTAAATATATTTTTA
1 AATATATTTTTAAA-ATA---TTA
15299016 AAT-TATTGTTTAAAA-ATTTA
1 AATATATT-TTTAAAATA-TTA
*
15299036 AATATTATTTTTTAAATATTA
1 AATA-TATTTTTAAAATATTA
15299057 AATATATTTTTAATAATAT
1 AATATATTTTTAA-AATAT
15299076 AAAACATTTA
Statistics
Matches: 81, Mismatches: 12, Indels: 23
0.70 0.10 0.20
Matches are distributed among these distances:
19 3 0.04
20 33 0.41
21 23 0.28
22 10 0.12
23 6 0.07
24 6 0.07
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.54
Consensus pattern (20 bp):
AATATATTTTTAAAATATTA
Found at i:15299189 original size:23 final size:25
Alignment explanation
Indices: 15299157--15299212 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
15299147 TTTTAATTTG
*
15299157 TTTTATAATT-TTTTTAAT-TATGAT
1 TTTTA-AATTATTTTAAATATATGAT
*
15299181 TTTTAAATTATTTTAAATATATTAT
1 TTTTAAATTATTTTAAATATATGAT
15299206 TTTTAAA
1 TTTTAAA
15299213 GATATGACCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 4 0.14
24 12 0.43
25 12 0.43
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTAAATTATTTTAAATATATGAT
Found at i:15299265 original size:13 final size:13
Alignment explanation
Indices: 15299247--15299272 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15299237 TTGTTGTATA
15299247 ATATTTTAAATAT
1 ATATTTTAAATAT
15299260 ATATTTTAAATAT
1 ATATTTTAAATAT
15299273 TTTTAATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATATTTTAAATAT
Found at i:15299284 original size:30 final size:31
Alignment explanation
Indices: 15299245--15299320 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 31
15299235 ATTTGTTGTA
*
15299245 TAATATTTTAAATATATA-TTTTA-AATATTTT
1 TAAT-TTTTAAATATATATTTTTATAA-ATTAT
15299276 TAATTTTTAAATATA-ATTTTTATAAATTAT
1 TAATTTTTAAATATATATTTTTATAAATTAT
*
15299306 TAA-TTTTAAAGATAT
1 TAATTTTTAAATATAT
15299321 TCAAAAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
29 11 0.28
30 23 0.57
31 6 0.15
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (31 bp):
TAATTTTTAAATATATATTTTTATAAATTAT
Found at i:15299448 original size:7 final size:7
Alignment explanation
Indices: 15299431--15299460 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
15299421 TTTTTTAATA
15299431 TAATAATT
1 TAAT-ATT
15299439 TAATATT
1 TAATATT
15299446 TAATATT
1 TAATATT
15299453 TAATATT
1 TAATATT
15299460 T
1 T
15299461 TATTTTGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.82
8 4 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TAATATT
Found at i:15302597 original size:30 final size:30
Alignment explanation
Indices: 15302560--15302666 Score: 133
Period size: 30 Copynumber: 3.6 Consensus size: 30
15302550 CGGTGGTTGC
* *
15302560 TCTGGGTGAAATGAACTCGAACCGCCTATG
1 TCTGGGTGATATGAACTTGAACCGCCTATG
* *
15302590 TTTGGGTGATATGAACTTGAACCGCTTATG
1 TCTGGGTGATATGAACTTGAACCGCCTATG
* * *
15302620 TCTGGGTGATATGAACTTGAACTGGCAATG
1 TCTGGGTGATATGAACTTGAACCGCCTATG
* *
15302650 TCCGAGTGATATGAACT
1 TCTGGGTGATATGAACT
15302667 ACTCTGCGAC
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 66 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (30 bp):
TCTGGGTGATATGAACTTGAACCGCCTATG
Found at i:15304955 original size:71 final size:71
Alignment explanation
Indices: 15304863--15305012 Score: 246
Period size: 71 Copynumber: 2.1 Consensus size: 71
15304853 TTAAAATATA
* * * * *
15304863 TTTTTAAAAATATATTGAATATATTATAATTTTAATATTGGTTATACTTAACATTTTTTAATATA
1 TTTTTAAAAATATATTAAATATATTAAAATTTTAAAATTGGCTATACATAACATTTTTTAATATA
15304928 TTTAAT
66 TTTAAT
15304934 TTTTTAAAAATATATTAAATATATTAAAATTTTAAAATTGGCTATACATAACATTTTTTAATATA
1 TTTTTAAAAATATATTAAATATATTAAAATTTTAAAATTGGCTATACATAACATTTTTTAATATA
15304999 TTTAAT
66 TTTAAT
15305005 TTCTTTAA
1 TT-TTTAA
15305013 GTTTTTAAAC
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
71 68 0.93
72 5 0.07
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.51
Consensus pattern (71 bp):
TTTTTAAAAATATATTAAATATATTAAAATTTTAAAATTGGCTATACATAACATTTTTTAATATA
TTTAAT
Found at i:15304960 original size:20 final size:20
Alignment explanation
Indices: 15304922--15304962 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
15304912 AACATTTTTT
* * *
15304922 AATATATTTAATTTTTTAAA
1 AATATATTAAATATATTAAA
15304942 AATATATTAAATATATTAAA
1 AATATATTAAATATATTAAA
15304962 A
1 A
15304963 TTTTAAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATATATTAAATATATTAAA
Found at i:15305128 original size:40 final size:41
Alignment explanation
Indices: 15305075--15305159 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 41
15305065 AAAAATATAT
*
15305075 ATTAAGTACATAAATTTATGAATGTGTACTAAAATTAAAAA
1 ATTAAGTACATAAATTTATAAATGTGTACTAAAATTAAAAA
* * *
15305116 ATTAA-TATATAAATTTATAAATGTGTATTAAAATTTAAAA
1 ATTAAGTACATAAATTTATAAATGTGTACTAAAATTAAAAA
15305156 ATTA
1 ATTA
15305160 TAACCAACAC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 35 0.88
41 5 0.12
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (41 bp):
ATTAAGTACATAAATTTATAAATGTGTACTAAAATTAAAAA
Found at i:15305149 original size:20 final size:20
Alignment explanation
Indices: 15305095--15305157 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
15305085 TAAATTTATG
* *
15305095 AATGTGTACTAAAATTAAAA
1 AATGTGTATTAAAATTTAAA
* *
15305115 AAT-T-AATATATAAATTTATA
1 AATGTGTAT-TA-AAATTTAAA
15305135 AATGTGTATTAAAATTTAAA
1 AATGTGTATTAAAATTTAAA
15305155 AAT
1 AAT
15305158 TATAACCAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
18 1 0.03
19 3 0.09
20 24 0.73
21 3 0.09
22 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (20 bp):
AATGTGTATTAAAATTTAAA
Found at i:15309060 original size:18 final size:18
Alignment explanation
Indices: 15309021--15309060 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15309011 GTCAGACATG
* *
15309021 GAGGAAAGGGATATAATT
1 GAGGAAAAGGATATAATC
*
15309039 GAGGAAAAGGATATTATC
1 GAGGAAAAGGATATAATC
15309057 GAGG
1 GAGG
15309061 GTGATACTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.35, T:0.20
Consensus pattern (18 bp):
GAGGAAAAGGATATAATC
Found at i:15317407 original size:16 final size:16
Alignment explanation
Indices: 15317376--15317412 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
15317366 TATTTTTCAA
15317376 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
15317392 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
15317408 TATTA
1 TATTA
15317413 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:15317430 original size:19 final size:18
Alignment explanation
Indices: 15317398--15317433 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
15317388 TTATTATTTT
*
15317398 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
15317416 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
15317434 CAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:15318003 original size:2 final size:2
Alignment explanation
Indices: 15317996--15318039 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
15317986 TTAATATTAT
* *
15317996 TA TA TA TA TG CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15318038 TA
1 TA
15318040 GGCCTGGATC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:15320453 original size:9 final size:10
Alignment explanation
Indices: 15320433--15320457 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15320423 AAAAGGAGAG
15320433 TTTTAGGTTT
1 TTTTAGGTTT
15320443 TTTTAGGTTT
1 TTTTAGGTTT
15320453 TTTTA
1 TTTTA
15320458 ACAGAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.00, G:0.16, T:0.72
Consensus pattern (10 bp):
TTTTAGGTTT
Found at i:15321162 original size:2 final size:2
Alignment explanation
Indices: 15321089--15321147 Score: 50
Period size: 2 Copynumber: 29.5 Consensus size: 2
15321079 AATTTATTTG
* * *
15321089 TA TA TA TA TA TA TA TA CA TA CT- TA TA TA T- TA TT TA TA TA CTT
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA
*
15321131 TA TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA T
15321148 GTGTACATTT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
1 2 0.04
2 41 0.91
3 2 0.04
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15321433 original size:6 final size:6
Alignment explanation
Indices: 15321422--15321475 Score: 108
Period size: 6 Copynumber: 9.0 Consensus size: 6
15321412 TATTTTAATT
15321422 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
15321470 CATATA
1 CATATA
15321476 TACATCCTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
CATATA
Found at i:15330556 original size:25 final size:25
Alignment explanation
Indices: 15330509--15330557 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
15330499 GCTGGATTTG
* *
15330509 ATTTTTGAAAATATTTTCTATTTTC
1 ATTTTTAAAAATATTTTCAATTTTC
15330534 ATTTTTAAAAATAATTTT-AATTTT
1 ATTTTTAAAAAT-ATTTTCAATTTT
15330558 TTTTGTACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (25 bp):
ATTTTTAAAAATATTTTCAATTTTC
Found at i:15331807 original size:19 final size:19
Alignment explanation
Indices: 15331780--15331852 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
15331770 AATTTTTGAG
15331780 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
15331799 GATACGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
15331818 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
15331837 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
15331853 ATATATGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:15333078 original size:19 final size:20
Alignment explanation
Indices: 15333039--15333078 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
15333029 TTCTAGGCCT
* *
15333039 TTGTAATATTTATTATTGCA
1 TTGTAATATTTAATATAGCA
15333059 TTGT-ATATTTAATATAGCA
1 TTGTAATATTTAATATAGCA
15333078 T
1 T
15333079 CACATCATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.53
Consensus pattern (20 bp):
TTGTAATATTTAATATAGCA
Found at i:15333439 original size:98 final size:98
Alignment explanation
Indices: 15333319--15333513 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
15333309 CTAAAAACAA
* * *
15333319 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGAGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGAGTGTGACTTC
15333384 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
15333417 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGACTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGAGTGTGACTTC
15333482 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
15333514 ATTTTATTGT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.36
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGAGTGTGACTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:15351138 original size:4 final size:4
Alignment explanation
Indices: 15351129--15351163 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
15351119 ATCATTCACA
15351129 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
15351164 AAAATGAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:15353049 original size:17 final size:17
Alignment explanation
Indices: 15353022--15353054 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15353012 AAAAGAATTT
15353022 ATTATTAATTAGATTGAA
1 ATTATTAATTA-ATTGAA
15353040 ATTA-TAATTAATTGA
1 ATTATTAATTAATTGA
15353055 CATAGTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (17 bp):
ATTATTAATTAATTGAA
Found at i:15363940 original size:18 final size:18
Alignment explanation
Indices: 15363895--15363929 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15363885 ATGAGTTTAC
*
15363895 AAATATTTTAAATTATTG
1 AAATCTTTTAAATTATTG
15363913 AAATCTTTTAAATTATT
1 AAATCTTTTAAATTATT
15363930 TATGATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (18 bp):
AAATCTTTTAAATTATTG
Found at i:15367116 original size:13 final size:13
Alignment explanation
Indices: 15367097--15367128 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
15367087 ATCTATATCT
15367097 ATATAAACATTTC
1 ATATAAACATTTC
*
15367110 GTATAAACATTTC
1 ATATAAACATTTC
15367123 ATATAA
1 ATATAA
15367129 TTATTTTCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (13 bp):
ATATAAACATTTC
Found at i:15367191 original size:40 final size:40
Alignment explanation
Indices: 15367097--15367194 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 40
15367087 ATCTATATCT
* *
15367097 ATATAAACATTTCGTATAAACATTTCATATAATTATTTTC
1 ATATAACCATTTCATATAAACATTTCATATAATTATTTTC
* * *
15367137 GTATAGCTGA-TTCATATAAACA-TTC-TATATATCTATTTTC
1 ATATAAC-CATTTCATATAAACATTTCATATA-AT-TATTTTC
15367177 ATATAACCATTTCATATA
1 ATATAACCATTTCATATA
15367195 TTGATTTTTC
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
38 4 0.09
39 6 0.13
40 35 0.76
41 1 0.02
ACGTcount: A:0.38, C:0.14, G:0.04, T:0.44
Consensus pattern (40 bp):
ATATAACCATTTCATATAAACATTTCATATAATTATTTTC
Found at i:15374014 original size:50 final size:50
Alignment explanation
Indices: 15373949--15374527 Score: 377
Period size: 50 Copynumber: 11.5 Consensus size: 50
15373939 TTTGGAAAGT
* * * *
15373949 AAGATTCGCCATTGTGGCTTCAATCTTTTTAACTGTAATGTCGGGGAAGC
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * * * * *
15373999 AAGATTCACCGTTGTGGCTTTAAT-TTGCTTCACTGCACTGCCTGGGAGAGT
1 AAGATTCACCGTTGTGGCTTTAATCTT-TTTAACTGCAATGTCGGGGA-AGC
**** ** * * *
15374050 AAGATTCGTTTTTGTAACTTTAATCCTTTTAATTGCAATGTCGGGAAAGC
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
** * * * * *
15374100 AAGATTCACCGTTGTGGCTTTAATCTGCTTCACTGCACTGCCTGGGAGAGT
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGA-AGC
* * * * *
15374151 AAGATTCATCGTTGTGACTTTAATCCTTTTAACTGCAATGTTGGGAAAGC
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * * ** ** * * * *
15374201 AAGATTCTCTGTTGTGTCTTTAATCTACTCCACTGCACTGCCTGGGAGAGT
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGA-AGC
*** * * *
15374252 AAGATTTGTCGTCGTGACTTTAATCCTTTTAACTGCAATGTCGGGGAAGC
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* ** ** ** * * * *
15374302 AAGATTCACTGTTGTGGCTTTAATCCGTTCCACTGCACCGCCTGGGAGGT
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * * * * ** * *
15374352 AAGATTCGCTGTTGTAGCTTTAACCTTTTTAACCGCAACATCAGGGAGGC
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * * * **
15374402 AAGATTCATCGATGTGGCTTTAATCTTTTTAACTGCAATGCCAGGGAAAT
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * * * * *
15374452 AAGATTCGCTGTTGTAGCTTTAAGCTTTTTAACTACAATGTCAGGGAAGC
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* *
15374502 AATATTCACCGATGTGGCTTTAATCT
1 AAGATTCACCGTTGTGGCTTTAATCT
15374528 GCTCCGCTAC
Statistics
Matches: 384, Mismatches: 140, Indels: 10
0.72 0.26 0.02
Matches are distributed among these distances:
49 2 0.01
50 275 0.72
51 106 0.28
52 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (50 bp):
AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
Found at i:15374100 original size:101 final size:100
Alignment explanation
Indices: 15373970--15374530 Score: 644
Period size: 101 Copynumber: 5.6 Consensus size: 100
15373960 TTGTGGCTTC
* * *
15373970 AATCTTTTTAACTGTAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATTTGCTTCACTGC
1 AATCCTTTTAACTGCAATGTC-GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTCACTGC
*
15374035 ACTGCCTGGGAGAGTAAGATTCGTTTTTGTAACTTT
65 ACTGCCTGGGAGAGTAAGATTCGTTGTTGTAACTTT
*
15374071 AATCCTTTTAATTGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTCACTGC
1 AATCCTTTTAACTGCAATGTCGGG-AAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTCACTGC
* * *
15374136 ACTGCCTGGGAGAGTAAGATTCATCGTTGTGACTTT
65 ACTGCCTGGGAGAGTAAGATTCGTTGTTGTAACTTT
* * * * * *
15374172 AATCCTTTTAACTGCAATGTTGGGAAAGCAAGATTCTCTGTTGTGTCTTTAATCTACTCCACTGC
1 AATCCTTTTAACTGCAATGTCGGG-AAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTCACTGC
* * * *
15374237 ACTGCCTGGGAGAGTAAGATTTGTCGTCGTGACTTT
65 ACTGCCTGGGAGAGTAAGATTCGTTGTTGTAACTTT
* *
15374273 AATCCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGTTGTGGCTTTAATCCG-TTCCACTG
1 AATCCTTTTAACTGCAATGTC-GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTT-CACTG
* * *
15374337 CACCGCCTGGGAG-GTAAGATTCGCTGTTGTAGCTTT
64 CACTGCCTGGGAGAGTAAGATTCGTTGTTGTAACTTT
* ** * * * ** *
15374373 AA-CCTTTTTAACCGCAACATCAGGGAGGCAAGATTCATCGATGTGGCTTTAATCTTTTTAACTG
1 AATCC-TTTTAACTGCAATGTC-GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTCACTG
* * * * *
15374437 CAATGCCAGGGA-AATAAGATTCGCTGTTGTAGCTTT
64 CACTGCCTGGGAGAGTAAGATTCGTTGTTGTAACTTT
* * * * *
15374473 AAGCTTTTTAACTACAATGTCAGGGAAGCAATATTCACCGATGTGGCTTTAATCTGCT
1 AATCCTTTTAACTGCAATGTC-GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGCT
15374531 CCGCTACTGC
Statistics
Matches: 397, Mismatches: 56, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
99 2 0.01
100 145 0.37
101 247 0.62
102 3 0.01
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.34
Consensus pattern (100 bp):
AATCCTTTTAACTGCAATGTCGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTCACTGCA
CTGCCTGGGAGAGTAAGATTCGTTGTTGTAACTTT
Found at i:15375941 original size:7 final size:7
Alignment explanation
Indices: 15375922--15375972 Score: 63
Period size: 7 Copynumber: 7.4 Consensus size: 7
15375912 TTAGCCTCTC
15375922 CATTTTT
1 CATTTTT
15375929 -ACTTTTT
1 CA-TTTTT
15375936 CATTTTTT
1 CA-TTTTT
15375944 CATTTTT
1 CATTTTT
15375951 CA-TTTT
1 CATTTTT
15375957 CA-TTTT
1 CATTTTT
15375963 CATTTTT
1 CATTTTT
15375970 CAT
1 CAT
15375973 CTCTCTTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
6 13 0.32
7 19 0.47
8 8 0.20
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:15375956 original size:13 final size:13
Alignment explanation
Indices: 15375922--15375972 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
15375912 TTAGCCTCTC
*
15375922 CATTTTTACTTTTT
1 CATTTTT-CATTTT
15375936 CATTTTTTCATTTTT
1 CA-TTTTTCA-TTTT
15375951 CA-TTTTCATTTT
1 CATTTTTCATTTT
15375963 CATTTTTCAT
1 CATTTTTCAT
15375973 CTCTCTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
12 6 0.18
13 13 0.39
14 3 0.09
15 11 0.33
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (13 bp):
CATTTTTCATTTT
Found at i:15375981 original size:19 final size:19
Alignment explanation
Indices: 15375940--15375983 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
15375930 CTTTTTCATT
*
15375940 TTTTCATTTTTCATTTTCA
1 TTTTCATTTTTCATTCTCA
*
15375959 TTTTCATTTTTCATCTCTCT
1 TTTTCATTTTTCAT-TCTCA
15375979 TTTTC
1 TTTTC
15375984 TCTTTTGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.11, C:0.20, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTCATTTTTCATTCTCA
Found at i:15376878 original size:22 final size:24
Alignment explanation
Indices: 15376827--15376878 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 24
15376817 TTTTTTTCTT
*
15376827 ATTTTTTCATTTTTGATTTGGATG
1 ATTTTTTCATTTTTGATTTGGATC
*
15376851 ACTTTTT-A-TTTTGACTTT-GATC
1 ATTTTTTCATTTTTGA-TTTGGATC
15376873 ATTTTT
1 ATTTTT
15376879 CTTTTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 14 0.58
23 4 0.17
24 6 0.25
ACGTcount: A:0.17, C:0.08, G:0.12, T:0.63
Consensus pattern (24 bp):
ATTTTTTCATTTTTGATTTGGATC
Found at i:15376884 original size:22 final size:23
Alignment explanation
Indices: 15376829--15376884 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 23
15376819 TTTTTCTTAT
*
15376829 TTTTTCATTTTTGATTTGGATGAC
1 TTTTTC-TTTTTGATTTGGATCAC
*
15376853 TTTTT-ATTTTGACTTT-GATCA-
1 TTTTTCTTTTTGA-TTTGGATCAC
15376874 TTTTTCTTTTT
1 TTTTTCTTTTT
15376885 TTTTTACTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
21 5 0.19
22 14 0.52
23 3 0.11
24 5 0.19
ACGTcount: A:0.14, C:0.09, G:0.11, T:0.66
Consensus pattern (23 bp):
TTTTTCTTTTTGATTTGGATCAC
Found at i:15381543 original size:3 final size:3
Alignment explanation
Indices: 15381535--15381592 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
15381525 AAGTAAAAAC
15381535 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15381583 TAA TAA TAA T
1 TAA TAA TAA T
15381593 GATGATGATG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:15381597 original size:3 final size:3
Alignment explanation
Indices: 15381591--15381625 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
15381581 AATAATAATA
15381591 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
15381626 AATAATAGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:15385552 original size:20 final size:21
Alignment explanation
Indices: 15385512--15385557 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
15385502 GGATAAATAC
15385512 CCCCTTTTTATGTGTAATTTG
1 CCCCTTTTTATGTGTAATTTG
* *
15385533 CCCCTTTTTTTG-GTATTTTG
1 CCCCTTTTTATGTGTAATTTG
15385553 CCCCT
1 CCCCT
15385558 AATAATACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.09, C:0.26, G:0.13, T:0.52
Consensus pattern (21 bp):
CCCCTTTTTATGTGTAATTTG
Found at i:15387644 original size:35 final size:35
Alignment explanation
Indices: 15387605--15387686 Score: 164
Period size: 35 Copynumber: 2.3 Consensus size: 35
15387595 TAAATTTATT
15387605 TTTGATATATGTATTTTTCTTTTTGGTCAACCCTA
1 TTTGATATATGTATTTTTCTTTTTGGTCAACCCTA
15387640 TTTGATATATGTATTTTTCTTTTTGGTCAACCCTA
1 TTTGATATATGTATTTTTCTTTTTGGTCAACCCTA
15387675 TTTGATATATGT
1 TTTGATATATGT
15387687 GATAGTATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.21, C:0.12, G:0.12, T:0.55
Consensus pattern (35 bp):
TTTGATATATGTATTTTTCTTTTTGGTCAACCCTA
Found at i:15389163 original size:15 final size:15
Alignment explanation
Indices: 15389127--15389165 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
15389117 ATCGATTCAC
*
15389127 TTCTTTCTTTTTCTT
1 TTCTTTTTTTTTCTT
*
15389142 TTCTTTTCTTTTCTT
1 TTCTTTTTTTTTCTT
15389157 TT-TTTTTTT
1 TTCTTTTTTT
15389166 ACTGAAGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (15 bp):
TTCTTTTTTTTTCTT
Found at i:15389165 original size:5 final size:5
Alignment explanation
Indices: 15389130--15389162 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
15389120 GATTCACTTC
15389130 TTTCTT TTTCT TTTCT TTTCT TTTCT TTT-T TTT
1 TTTC-T TTTCT TTTCT TTTCT TTTCT TTTCT TTT
15389163 TTTACTGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 19 0.70
6 4 0.15
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (5 bp):
TTTCT
Found at i:15390397 original size:19 final size:19
Alignment explanation
Indices: 15390370--15390439 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
15390360 TCAATTCATT
*
15390370 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
15390389 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
15390407 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
15390426 TTTTAATTTAATAA
1 TTTTAATTTAATAA
15390440 ACTATTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:15390418 original size:37 final size:37
Alignment explanation
Indices: 15390375--15390445 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
15390365 TCATTTTTTT
15390375 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
15390412 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
15390446 AAGTAATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:15390686 original size:33 final size:33
Alignment explanation
Indices: 15390649--15390779 Score: 163
Period size: 33 Copynumber: 3.7 Consensus size: 33
15390639 ATTATTTTCT
15390649 TTTTATTCCCCTTCAACTCATTTTTTTAGTAAA
1 TTTTATTCCCCTTCAACTCATTTTTTTAGTAAA
** *
15390682 TTTTATTCCCCTTCAACTCATTTTAGTAATAATTA
1 TTTTATTCCCCTTCAACTCATTTTTTTAGTAA--A
15390717 TTTTCTTTTTATTCCCCTTCAACTCATTTTTTTAGTAAA
1 ------TTTTATTCCCCTTCAACTCATTTTTTTAGTAAA
15390756 TTTTATTCCCCTTCAACTCATTTT
1 TTTTATTCCCCTTCAACTCATTTT
15390780 AGTAATAATA
Statistics
Matches: 84, Mismatches: 6, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
33 53 0.63
35 1 0.01
39 1 0.01
41 29 0.35
ACGTcount: A:0.23, C:0.22, G:0.02, T:0.53
Consensus pattern (33 bp):
TTTTATTCCCCTTCAACTCATTTTTTTAGTAAA
Found at i:15390747 original size:74 final size:74
Alignment explanation
Indices: 15390639--15390788 Score: 300
Period size: 74 Copynumber: 2.0 Consensus size: 74
15390629 CTCCTTATTT
15390639 ATTATTTTCTTTTTATTCCCCTTCAACTCATTTTTTTAGTAAATTTTATTCCCCTTCAACTCATT
1 ATTATTTTCTTTTTATTCCCCTTCAACTCATTTTTTTAGTAAATTTTATTCCCCTTCAACTCATT
15390704 TTAGTAATA
66 TTAGTAATA
15390713 ATTATTTTCTTTTTATTCCCCTTCAACTCATTTTTTTAGTAAATTTTATTCCCCTTCAACTCATT
1 ATTATTTTCTTTTTATTCCCCTTCAACTCATTTTTTTAGTAAATTTTATTCCCCTTCAACTCATT
15390778 TTAGTAATA
66 TTAGTAATA
15390787 AT
1 AT
15390789 AAAACTGATC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 76 1.00
ACGTcount: A:0.25, C:0.20, G:0.03, T:0.53
Consensus pattern (74 bp):
ATTATTTTCTTTTTATTCCCCTTCAACTCATTTTTTTAGTAAATTTTATTCCCCTTCAACTCATT
TTAGTAATA
Found at i:15390876 original size:30 final size:31
Alignment explanation
Indices: 15390840--15390901 Score: 90
Period size: 33 Copynumber: 2.0 Consensus size: 31
15390830 AGTTTTATTA
*
15390840 TTACT-AAAATGAGTTGAAGGGGAATAAAAT
1 TTACTAAAAATGAGTCGAAGGGGAATAAAAT
15390870 TTACTAAAAAAATGAGTCGAAGGGGAATAAAA
1 TTACT--AAAAATGAGTCGAAGGGGAATAAAA
15390902 AGAAAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 5 0.18
33 23 0.82
ACGTcount: A:0.50, C:0.05, G:0.23, T:0.23
Consensus pattern (31 bp):
TTACTAAAAATGAGTCGAAGGGGAATAAAAT
Found at i:15391149 original size:37 final size:37
Alignment explanation
Indices: 15391107--15391177 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
15391097 AGTATTACTT
15391107 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
15391144 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
15391178 AAAAAAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.39
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:15391182 original size:19 final size:19
Alignment explanation
Indices: 15391113--15391181 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
15391103 ACTTAATAGT
15391113 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
15391132 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
15391150 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
15391169 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
15391182 AAATGAGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:15391284 original size:27 final size:27
Alignment explanation
Indices: 15391246--15391326 Score: 128
Period size: 27 Copynumber: 3.0 Consensus size: 27
15391236 CAATTAGCCC
*
15391246 CTTTGGCACCATTGATGCCGCCAATCG-
1 CTTTGGCACCATTGGTGCCGCCAAT-GT
15391273 CTTTGGCACCATTGGTGCCGCCAATGT
1 CTTTGGCACCATTGGTGCCGCCAATGT
*
15391300 CTTTGGCACCTTTGGTGCCGCCAATGT
1 CTTTGGCACCATTGGTGCCGCCAATGT
15391327 GATTGGCTTG
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
26 1 0.02
27 50 0.98
ACGTcount: A:0.15, C:0.31, G:0.25, T:0.30
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCGCCAATGT
Found at i:15392901 original size:16 final size:17
Alignment explanation
Indices: 15392881--15392925 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
15392871 GAAATAGTTA
15392881 TATTTAGAACAATCATG
1 TATTTAGAACAATCATG
* *
15392898 -ATTTCGAACAA-CTTG
1 TATTTAGAACAATCATG
15392913 TATTTAGAACAAT
1 TATTTAGAACAAT
15392926 TGTGTTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 3 0.13
16 20 0.87
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (17 bp):
TATTTAGAACAATCATG
Found at i:15393809 original size:15 final size:15
Alignment explanation
Indices: 15393789--15393821 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
15393779 AATCACATTC
15393789 ATATTATATATACTA
1 ATATTATATATACTA
15393804 ATATTATATATACTA
1 ATATTATATATACTA
15393819 ATA
1 ATA
15393822 GGATTATGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATTATATATACTA
Found at i:15394403 original size:2 final size:2
Alignment explanation
Indices: 15394396--15394420 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15394386 ATGCCAATTT
15394396 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
15394421 TGTGCGCGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:15396204 original size:22 final size:22
Alignment explanation
Indices: 15396176--15396229 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
15396166 ATTTATGTTT
15396176 TTAACTTTTATTTATTTAATTA
1 TTAACTTTTATTTATTTAATTA
*
15396198 TTAACTTTTATTTATTTAATTT
1 TTAACTTTTATTTATTTAATTA
15396220 TTAACATTTT
1 TTAAC-TTTT
15396230 TGCAATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.65
Consensus pattern (22 bp):
TTAACTTTTATTTATTTAATTA
Found at i:15400339 original size:33 final size:33
Alignment explanation
Indices: 15400292--15400412 Score: 206
Period size: 33 Copynumber: 3.7 Consensus size: 33
15400282 GTAGACCACC
15400292 CCGTGTTTACTGTCCTAGAGGATTTACTCTGTT
1 CCGTGTTTACTGTCCTAGAGGATTTACTCTGTT
* * *
15400325 CCGTGTTTATTGTCCTAGAGGACTTACTCTATT
1 CCGTGTTTACTGTCCTAGAGGATTTACTCTGTT
15400358 CCGTGTTTACTGTCCTAGAGGATTTACTCTGTT
1 CCGTGTTTACTGTCCTAGAGGATTTACTCTGTT
*
15400391 CCGTGTTTACTGTCTTAGAGGA
1 CCGTGTTTACTGTCCTAGAGGA
15400413 CTTGCTCTAT
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 81 1.00
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.41
Consensus pattern (33 bp):
CCGTGTTTACTGTCCTAGAGGATTTACTCTGTT
Found at i:15400398 original size:66 final size:66
Alignment explanation
Indices: 15400292--15400422 Score: 235
Period size: 66 Copynumber: 2.0 Consensus size: 66
15400282 GTAGACCACC
*
15400292 CCGTGTTTACTGTCCTAGAGGATTTACTCTGTTCCGTGTTTATTGTCCTAGAGGACTTACTCTAT
1 CCGTGTTTACTGTCCTAGAGGATTTACTCTGTTCCGTGTTTACTGTCCTAGAGGACTTACTCTAT
15400357 T
66 T
* *
15400358 CCGTGTTTACTGTCCTAGAGGATTTACTCTGTTCCGTGTTTACTGTCTTAGAGGACTTGCTCTAT
1 CCGTGTTTACTGTCCTAGAGGATTTACTCTGTTCCGTGTTTACTGTCCTAGAGGACTTACTCTAT
15400423 GGATACCATA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.42
Consensus pattern (66 bp):
CCGTGTTTACTGTCCTAGAGGATTTACTCTGTTCCGTGTTTACTGTCCTAGAGGACTTACTCTAT
T
Found at i:15400606 original size:54 final size:53
Alignment explanation
Indices: 15400524--15400712 Score: 168
Period size: 54 Copynumber: 3.6 Consensus size: 53
15400514 CTTACTCATC
* *
15400524 ATACCTGGCTGTCATAGCATCTTTCATCTACAATTTTATTACACTGTATACCTT
1 ATACCTTGCTGCCATAGCATCTTTCATCTAC-ATTTTATTACACTGTATACCTT
* * ** * * *** *
15400578 ATACCTTGCTGCCATGGCGTCTTTCATCT--ATGGTCTTACGCTACGTACCTC
1 ATACCTTGCTGCCATAGCATCTTTCATCTACATTTTATTACACTGTATACCTT
* * *
15400629 ATACC-AGACTGCCATAGTATCTTTCATCTACGATTTTATTACACCGTATACCTT
1 ATACCTTG-CTGCCATAGCATCTTTCATCTAC-ATTTTATTACACTGTATACCTT
* * *
15400683 ATACATTGCTGTCATAGCGTCTTTCATCTA
1 ATACCTTGCTGCCATAGCATCTTTCATCTA
15400713 TGGTCTTACA
Statistics
Matches: 100, Mismatches: 30, Indels: 10
0.71 0.21 0.07
Matches are distributed among these distances:
50 1 0.01
51 37 0.37
54 61 0.61
55 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.38
Consensus pattern (53 bp):
ATACCTTGCTGCCATAGCATCTTTCATCTACATTTTATTACACTGTATACCTT
Found at i:15400641 original size:51 final size:51
Alignment explanation
Indices: 15400586--15400772 Score: 164
Period size: 51 Copynumber: 3.6 Consensus size: 51
15400576 TTATACCTTG
* * *
15400586 CTGCCATGGCGTCTTTCATCTATGGTCTTACGCTACGTACCTCATACCAGA
1 CTGCCATAGCATCTTTCATCTATGGTCTTACACTACGTACCTCATACCAGA
* * * * * *
15400637 CTGCCATAGTATCTTTCATCTACGATTTTATTAC-ACCGTATACCTTATA-CATTG-
1 CTGCCATAGCATCTTTCATCTATGGTCTTA-CACTA-CG--TACCTCATACCA--GA
* * * *
15400691 CTGTCATAGCGTCTTTCATCTATGGTCTTACACTACGTGCCTCATACTAGA
1 CTGCCATAGCATCTTTCATCTATGGTCTTACACTACGTACCTCATACCAGA
* *
15400742 CTGCCATAGCATCATTCATCGATGGTCTTAC
1 CTGCCATAGCATCTTTCATCTATGGTCTTAC
15400773 GCAATATACT
Statistics
Matches: 104, Mismatches: 23, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
50 1 0.01
51 59 0.57
52 4 0.04
53 6 0.06
54 33 0.32
55 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.35
Consensus pattern (51 bp):
CTGCCATAGCATCTTTCATCTATGGTCTTACACTACGTACCTCATACCAGA
Found at i:15400667 original size:105 final size:105
Alignment explanation
Indices: 15400522--15400761 Score: 363
Period size: 105 Copynumber: 2.3 Consensus size: 105
15400512 GTCTTACTCA
* * * * *
15400522 TCATACCTGGCTGTCATAGCATCTTTCATCTACAATTTTATTACACTGTATACCTTATACCTTGC
1 TCATACCAGACTGCCATAGCATCTTTCATCTACAATTTTATTACACCGTATACCTTATACATTGC
* *
15400587 TGCCATGGCGTCTTTCATCTATGGTCTTACGCTACGTACC
66 TGCCATAGCGTCTTTCATCTATGGTCTTACACTACGTACC
* *
15400627 TCATACCAGACTGCCATAGTATCTTTCATCTACGATTTTATTACACCGTATACCTTATACATTGC
1 TCATACCAGACTGCCATAGCATCTTTCATCTACAATTTTATTACACCGTATACCTTATACATTGC
* *
15400692 TGTCATAGCGTCTTTCATCTATGGTCTTACACTACGTGCC
66 TGCCATAGCGTCTTTCATCTATGGTCTTACACTACGTACC
* *
15400732 TCATACTAGACTGCCATAGCATCATTCATC
1 TCATACCAGACTGCCATAGCATCTTTCATC
15400762 GATGGTCTTA
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
105 121 1.00
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.37
Consensus pattern (105 bp):
TCATACCAGACTGCCATAGCATCTTTCATCTACAATTTTATTACACCGTATACCTTATACATTGC
TGCCATAGCGTCTTTCATCTATGGTCTTACACTACGTACC
Found at i:15403432 original size:25 final size:25
Alignment explanation
Indices: 15403396--15403452 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
15403386 TAGTCGTATG
15403396 GTGTGACCATGTATGGCACACAATC
1 GTGTGACCATGTATGGCACACAATC
* * *
15403421 GTGTGACTATGTGTGGCACACGATC
1 GTGTGACCATGTATGGCACACAATC
15403446 GTGTGAC
1 GTGTGAC
15403453 AAGCGTCCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (25 bp):
GTGTGACCATGTATGGCACACAATC
Found at i:15406278 original size:2 final size:2
Alignment explanation
Indices: 15406267--15406300 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
15406257 TATTTCTCTT
15406267 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15406301 TTACAATACT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15411075 original size:20 final size:20
Alignment explanation
Indices: 15411050--15411149 Score: 76
Period size: 20 Copynumber: 5.0 Consensus size: 20
15411040 AATGCTATAT
* *
15411050 AGGGGCACCGAAGTGCAAGC
1 AGGGGCACCAAAGTGCAAAC
* **
15411070 AGGGGCGCCTTAGTGCAAAC
1 AGGGGCACCAAAGTGCAAAC
* * * *
15411090 AAGGGCACAAAAGTGAAAAT
1 AGGGGCACCAAAGTGCAAAC
15411110 AGGGG-ACCAAAGTGCATAAC
1 AGGGGCACCAAAGTGCA-AAC
* **
15411130 AGAGGCACTGAAGTGCAAAC
1 AGGGGCACCAAAGTGCAAAC
15411150 TCGTACAAGT
Statistics
Matches: 60, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
19 9 0.15
20 42 0.70
21 9 0.15
ACGTcount: A:0.38, C:0.20, G:0.32, T:0.10
Consensus pattern (20 bp):
AGGGGCACCAAAGTGCAAAC
Found at i:15412623 original size:98 final size:98
Alignment explanation
Indices: 15412454--15412648 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
15412444 ATACAATAAA
* *
15412454 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACGCCCAATACGTTAGGGCACGATA
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATA
15412519 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
* *
15412552 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATA
*
15412617 CCTTTAGAATCTCAAACTCGGAATATTTCCTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTT
15412649 CATGATTTTT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATA
CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:15412935 original size:3 final size:3
Alignment explanation
Indices: 15412927--15412960 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
15412917 TACAAATGTT
15412927 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
15412961 ATACATCATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:15415658 original size:44 final size:44
Alignment explanation
Indices: 15415478--15415964 Score: 198
Period size: 44 Copynumber: 11.1 Consensus size: 44
15415468 NNNNNNNNNN
* * *
15415478 AGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* *** * * * * * *
15415522 AGATAAGATCTGAAATCTTTAACCTTCTCCGCTGCTGCTGAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** ** * * *
15415566 AGACAAGGCTTGGTGGCTTAAATCTGCTGCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCCGTCTTCAATCTGCT--CCACTACTGCTTAGG-G
* *
15415610 AGATAAGATTTTCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * *
15415654 AGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** ** * * *
15415698 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* *
15415742 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* **** * * * * * * *
15415786 AGATAAGATCTATAATTTTTAATTTTCTCCACTGCAGCTCAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** ** * * * **
15415830 AGATGAGGCTTGGTGGCTTAAATCTACTTCCCACTA-T-CTTAGAA
1 AGATAAGATTTGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGGG
* * *
15415874 AGATAAGATTCGCCTTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * *
15415918 AGATAAGATCTACAATCATCAATCTTCTCCACTACTGCTCAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
15415962 AGA
1 AGA
15415965 CAATGCTTGA
Statistics
Matches: 305, Mismatches: 122, Indels: 32
0.66 0.27 0.07
Matches are distributed among these distances:
42 18 0.06
43 9 0.03
44 256 0.84
45 8 0.03
46 14 0.05
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:15415715 original size:132 final size:132
Alignment explanation
Indices: 15415478--15416034 Score: 864
Period size: 132 Copynumber: 4.2 Consensus size: 132
15415468 NNNNNNNNNN
* *
15415478 AGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGA-AATCTTT
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACAATCTTC
* * *
15415542 AACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTGCCCACTATCTTG
65 AACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
15415607 GAA
130 GAA
**
15415610 AGATAAGATTTTCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
*
15415675 ACCTTCTCCACTGCTGCTTAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
66 ACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
15415740 AA
131 AA
* * *
15415742 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTTA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
** * ** * *
15415807 ATTTTCTCCACTGCAGCTCAGGGAGATGAGGCTTGGTGGCTTAAATCTACTTCCCACTATCTTAG
66 ACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
15415872 AA
131 AA
* *
15415874 AGATAAGATTCGCCTTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCATCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
* * * *
15415939 ATCTTCTCCACTACTGCTCAGGGAGACAATGCTTGATGGCTTAAATCTGCTTCCCACTATCTTGG
66 ACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
15416004 AA
131 AA
* *
15416006 AGATAAGATTCTCCGTTTTCGATCTGCTC
1 AGATAAGATTCGCCGTCTTCGATCTGCTC
15416035 TACTGTCAAT
Statistics
Matches: 387, Mismatches: 37, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
131 1 0.00
132 386 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (132 bp):
AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
ACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
AA
Found at i:15417313 original size:1 final size:1
Alignment explanation
Indices: 15417309--15417361 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
15417299 TTCACTTTCA
* * * * * *
15417309 TTTTTTGTTTTTTTTTTGTTTTTGTTTTTGTTTTTGTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15417362 GAATCTGAGC
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (1 bp):
T
Found at i:15417330 original size:17 final size:17
Alignment explanation
Indices: 15417310--15417359 Score: 84
Period size: 17 Copynumber: 2.9 Consensus size: 17
15417300 TCACTTTCAT
15417310 TTTTTGTTTTTTTTTTG
1 TTTTTGTTTTTTTTTTG
15417327 TTTTTGTTTTTGTTTTTG
1 TTTTTGTTTTT-TTTTTG
15417345 -TTTTGTTTTTTTTTT
1 TTTTTGTTTTTTTTTT
15417360 TTGAATCTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.16
17 21 0.66
18 6 0.19
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (17 bp):
TTTTTGTTTTTTTTTTG
Done.