Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 52 of 211
Found at i:13913009 original size:41 final size:41
Alignment explanation
Indices: 13912952--13913034 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
13912942 AAGAATGACA
13912952 AAATTGGCATCTCTAGGACCTAAATGAGCAGCAAAGGAGGG
1 AAATTGGCATCTCTAGGACCTAAATGAGCAGCAAAGGAGGG
*
13912993 AAATTGGCATCTCTAGGACCTAAATGAGCGGCAAAGGAGGG
1 AAATTGGCATCTCTAGGACCTAAATGAGCAGCAAAGGAGGG
13913034 A
1 A
13913035 GTTTCCAAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.17
Consensus pattern (41 bp):
AAATTGGCATCTCTAGGACCTAAATGAGCAGCAAAGGAGGG
Found at i:13914234 original size:88 final size:90
Alignment explanation
Indices: 13914081--13914337 Score: 319
Period size: 88 Copynumber: 2.8 Consensus size: 90
13914071 TTAATGGTGT
* * * *
13914081 AAAA-AACTCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCTGCCTTTTTTTTTGCACTTACTTG
1 AAAAGAACCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCTGCCATTTTTTTTGCACTCAATTG
*
13914145 GGCACTTGAAATTTCACAATACATA
66 GGCACTTGAAATTTCAAAATACATA
*
13914170 AAAAG-CCCCTCAAACTTTTT-AAAAAAAGCAATTAAGCCCTTG-CATTTTTTTTGCACTCAATT
1 AAAAGAACCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCC-TGCCATTTTTTTTGCACTCAATT
*
13914232 GGGCACTTGAACTTTCAAAATACATA
65 GGGCACTTGAAATTTCAAAATACATA
*
13914258 AAAAGAACCCTCAAACTTTTTCAAAAAAAAAAAAAGCAATTAAGCCTCTACC--TTTTTTTGCAC
1 AAAAGAACCCTCAAACTTTTTC------AAAAAAAGCAATTAAGCC-CTGCCATTTTTTTTGCAC
*
13914321 TCAATTGGGTACTTGAA
59 TCAATTGGGCACTTGAA
13914338 CCGGCCATAG
Statistics
Matches: 146, Mismatches: 10, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
88 65 0.45
89 33 0.23
95 27 0.18
96 19 0.13
97 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.32
Consensus pattern (90 bp):
AAAAGAACCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCTGCCATTTTTTTTGCACTCAATTG
GGCACTTGAAATTTCAAAATACATA
Found at i:13914487 original size:29 final size:28
Alignment explanation
Indices: 13914399--13914481 Score: 89
Period size: 28 Copynumber: 3.0 Consensus size: 28
13914389 AAATGTGGCA
* *
13914399 AAAAAATGATAAAAA-A-TAAAAATTAAT
1 AAAAAAT-ATAAAAATATTAAATATTAAC
**
13914426 AAAAGTTATAAAAATATTAAATATTAAC
1 AAAAAATATAAAAATATTAAATATTAAC
*
13914454 AAAAAATATAAAAATATTTAAATTTTAA
1 AAAAAATATAAAAATA-TTAAATATTAA
13914482 TTAAAATTAG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 7 0.15
27 6 0.13
28 23 0.50
29 10 0.22
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.30
Consensus pattern (28 bp):
AAAAAATATAAAAATATTAAATATTAAC
Found at i:13914495 original size:29 final size:27
Alignment explanation
Indices: 13914401--13914501 Score: 89
Period size: 29 Copynumber: 3.7 Consensus size: 27
13914391 ATGTGGCAAA
* *
13914401 AAAATGATAAAAA-A-TAAAAATTAAT
1 AAAATTATAAAAATATTAAATATTAAT
*
13914426 AAAAGTTATAAAAATATTAAATATTAACA
1 AAAA-TTATAAAAATATTAAATATTAA-T
* *
13914455 AAAAATATAAAAATATTTAAATTTTAATT
1 AAAATTATAAAAATA-TTAAATATTAA-T
* *
13914484 AAAATTAGAAAAAAATTA
1 AAAATTATAAAAATATTA
13914502 CAAAAATCGA
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
25 4 0.07
26 8 0.13
27 1 0.02
28 22 0.36
29 26 0.43
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (27 bp):
AAAATTATAAAAATATTAAATATTAAT
Found at i:13914507 original size:20 final size:20
Alignment explanation
Indices: 13914484--13914528 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
13914474 AATTTTAATT
*
13914484 AAAATTAGAAAAAAATTACA
1 AAAATTAGAAAAAAAATACA
* *
13914504 AAAA-TCGAAAAAAAATATA
1 AAAATTAGAAAAAAAATACA
13914523 AAAATT
1 AAAATT
13914529 GTAAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.20
Consensus pattern (20 bp):
AAAATTAGAAAAAAAATACA
Found at i:13914513 original size:19 final size:19
Alignment explanation
Indices: 13914491--13914562 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
13914481 ATTAAAATTA
*
13914491 GAAAAAAATTACAAAAATC
1 GAAAAAAATTATAAAAATC
* *
13914510 GAAAAAAAATATAAAAATT
1 GAAAAAAATTATAAAAATC
* **
13914529 GTAAAATTTTATAAAAATC
1 GAAAAAAATTATAAAAATC
*
13914548 GTAAAAAA-TATAAAA
1 GAAAAAAATTATAAAA
13914563 TTTTATAAAG
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
18 7 0.16
19 36 0.84
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.24
Consensus pattern (19 bp):
GAAAAAAATTATAAAAATC
Found at i:13914583 original size:28 final size:29
Alignment explanation
Indices: 13914514--13914591 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 29
13914504 AAAATCGAAA
*
13914514 AAAAAT-AT-AAAAATTGTAAAATTTTAT
1 AAAAATCATAAAAAATTATAAAATTTTAT
*
13914541 AAAAATCGTAAAAAA-TATAAAATTTTAT
1 AAAAATCATAAAAAATTATAAAATTTTAT
*
13914569 -AAAGTCATAAGAAAATTATAAAA
1 AAAAATCATAA-AAAATTATAAAA
13914592 AATGTAAAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
27 14 0.33
28 17 0.40
29 12 0.28
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (29 bp):
AAAAATCATAAAAAATTATAAAATTTTAT
Found at i:13914852 original size:20 final size:20
Alignment explanation
Indices: 13914829--13914931 Score: 63
Period size: 20 Copynumber: 5.2 Consensus size: 20
13914819 TTTTTTATGA
13914829 TTTTTATAAAATTTTATAAT
1 TTTTTATAAAATTTTATAAT
* *
13914849 TTTTTA-CAAATTGTTCTAAT
1 TTTTTATAAAATT-TTATAAT
* **
13914869 TTTTTTTCTAATTTT-T-AT
1 TTTTTATAAAATTTTATAAT
* *
13914887 ATTTTTATTATAATTTAATAA-
1 -TTTTTA-TAAAATTTTATAAT
*
13914908 TTGTTAT-AAATTTTATTAAT
1 TTTTTATAAAATTTTA-TAAT
13914928 TTTT
1 TTTT
13914932 ATTTTTTATA
Statistics
Matches: 64, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
18 8 0.12
19 15 0.23
20 34 0.53
21 6 0.09
22 1 0.02
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTTATAAAATTTTATAAT
Found at i:13914859 original size:19 final size:18
Alignment explanation
Indices: 13914821--13914948 Score: 64
Period size: 19 Copynumber: 6.8 Consensus size: 18
13914811 TTATAATTTT
*
13914821 TTTTATGATTTTTATAAAA
1 TTTTATAATTTTT-TAAAA
13914840 TTTTATAATTTTTTACAAA
1 TTTTATAATTTTTTA-AAA
* * *
13914859 TTGTTCTAATTTTTTTTCTAAT
1 TT-TTATAA--TTTTTT-AAAA
* *
13914881 TTTTATATTTTTATTATAA
1 TTTTATAATTTT-TTAAAA
* *
13914900 TTTAATAA-TTGTTATAAA
1 TTTTATAATTTTTTA-AAA
**
13914918 TTTTATTAA-TTTTT-ATT
1 TTTTA-TAATTTTTTAAAA
13914935 TTTTATAATTTTTT
1 TTTTATAATTTTTT
13914949 GCCACATGTC
Statistics
Matches: 83, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
16 3 0.04
17 14 0.17
18 10 0.12
19 35 0.42
20 7 0.08
21 4 0.05
22 10 0.12
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTATAATTTTTTAAAA
Found at i:13914903 original size:10 final size:9
Alignment explanation
Indices: 13914820--13914947 Score: 64
Period size: 9 Copynumber: 13.6 Consensus size: 9
13914810 TTTATAATTT
*
13914820 TTTTTATGA
1 TTTTTATAA
13914829 TTTTTATAAA
1 TTTTTAT-AA
*
13914839 ATTTTATAA
1 TTTTTATAA
*
13914848 TTTTTTACAAA
1 -TTTTTA-TAA
**
13914859 TTGTTCTAATTT
1 TT-TT-T-ATAA
*
13914871 TTTTTCTAA
1 TTTTTATAA
13914880 TTTTTAT-A
1 TTTTTATAA
13914888 TTTTTATTATA
1 TTTTTA-TA-A
* *
13914899 ATTTAATAA
1 TTTTTATAA
*
13914908 TTGTTATAA
1 TTTTTATAA
*
13914917 ATTTTATTAA
1 TTTTTA-TAA
13914927 TTTTTAT--
1 TTTTTATAA
13914934 TTTTTATAA
1 TTTTTATAA
13914943 TTTTT
1 TTTTT
13914948 TGCCACATGT
Statistics
Matches: 88, Mismatches: 19, Indels: 24
0.67 0.15 0.18
Matches are distributed among these distances:
7 7 0.08
8 7 0.08
9 34 0.39
10 25 0.28
11 11 0.12
12 3 0.03
13 1 0.01
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:13915233 original size:91 final size:95
Alignment explanation
Indices: 13915047--13915243 Score: 248
Period size: 91 Copynumber: 2.1 Consensus size: 95
13915037 TAATGATCAA
13915047 AAGGCCTTTTTGATGCATTTGATAATTCAAGTAACCAATTGAGTGAAAAATAAAAATAAAAATCA
1 AAGGCCTTTTTGATGCATTTGATAATTCAAGTAACCAATTGAGTGAAAAATAAAAATAAAAA-CA
*
13915112 GGGACTTAATTGCTTTTCTTGAAAAAGTTTG
65 GGGACTTAATTGCTTTTCTTAAAAAAGTTTG
* **
13915143 AAGGCCTTTTTGATGCATTTTGA-AAGTTCAAGT-ACGCAATTGAGTG-CAAA-AAAAA-AAGCA
1 AAGGCCTTTTTGATGCA-TTTGATAA-TTCAAGTAAC-CAATTGAGTGAAAAATAAAAATAAAAA
*
13915203 -AGGG-CTTAATTGCTTTTGTTAAAAAAGTTTG
63 CAGGGACTTAATTGCTTTTCTTAAAAAAGTTTG
*
13915234 -AGGGCTTTTT
1 AAGGCCTTTTT
13915244 ACACAGCCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
90 9 0.10
91 25 0.27
92 4 0.04
94 3 0.03
95 5 0.05
96 24 0.26
97 22 0.24
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.34
Consensus pattern (95 bp):
AAGGCCTTTTTGATGCATTTGATAATTCAAGTAACCAATTGAGTGAAAAATAAAAATAAAAACAG
GGACTTAATTGCTTTTCTTAAAAAAGTTTG
Found at i:13922056 original size:21 final size:21
Alignment explanation
Indices: 13922012--13922057 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
13922002 TAGATTGGTT
* *
13922012 AATTGTATTAATCATAATTGA
1 AATTGTATGAATCATAATTAA
13922033 AATTGT-TGAATCATAATTCAA
1 AATTGTATGAATCATAATT-AA
13922054 AATT
1 AATT
13922058 ATATAGCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (21 bp):
AATTGTATGAATCATAATTAA
Found at i:13928100 original size:7 final size:7
Alignment explanation
Indices: 13928088--13928120 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
13928078 GTTGAGTAAG
13928088 AAAAATT
1 AAAAATT
13928095 AAAAATT
1 AAAAATT
13928102 AAAAATT
1 AAAAATT
13928109 AAAAATT
1 AAAAATT
13928116 AAAAA
1 AAAAA
13928121 ATCGACTCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAAATT
Found at i:13933557 original size:15 final size:14
Alignment explanation
Indices: 13933536--13933570 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
13933526 AATATTGTAT
*
13933536 TTTATTATTTTTTA
1 TTTATTATTATTTA
13933550 TATTATTATTATTTA
1 T-TTATTATTATTTA
13933565 TTTATT
1 TTTATT
13933571 CCATATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTATTATTATTTA
Found at i:13939790 original size:10 final size:8
Alignment explanation
Indices: 13939733--13939771 Score: 69
Period size: 8 Copynumber: 4.8 Consensus size: 8
13939723 CGCTGGATTT
13939733 ACATCATTA
1 ACAT-ATTA
13939742 ACATATTA
1 ACATATTA
13939750 ACATATTA
1 ACATATTA
13939758 ACATATTA
1 ACATATTA
13939766 ACATAT
1 ACATAT
13939772 AGATCAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 26 0.87
9 4 0.13
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (8 bp):
ACATATTA
Found at i:13948551 original size:28 final size:28
Alignment explanation
Indices: 13948515--13948568 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
13948505 GTGATAGTAT
* *
13948515 AGTGAGGGCCTTAACCCAATTCAGTAGC
1 AGTGAGGGCCTCAACCCAATACAGTAGC
*
13948543 AGTGTGGGCCTCAACCCAATACAGTA
1 AGTGAGGGCCTCAACCCAATACAGTA
13948569 TCATTACAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (28 bp):
AGTGAGGGCCTCAACCCAATACAGTAGC
Found at i:13948959 original size:27 final size:27
Alignment explanation
Indices: 13948921--13949191 Score: 327
Period size: 27 Copynumber: 10.1 Consensus size: 27
13948911 CAGTCATATC
*
13948921 ATTTTACCCTTAGAGGGTATTACGGTA
1 ATTTTACCCTTAGAGGGTATTTCGGTA
*
13948948 ATTTTACCCTTAG-GGGTATTTCGATA
1 ATTTTACCCTTAGAGGGTATTTCGGTA
*
13948974 ATTTTACCCTTAGAGGGTATTACGGTA
1 ATTTTACCCTTAGAGGGTATTTCGGTA
*
13949001 A-GTTACCCTTCA-AGGGTATTTCGGTA
1 ATTTTACCCTT-AGAGGGTATTTCGGTA
* *
13949027 ATTTTACCCTTTGAAGGTATTTCGGTA
1 ATTTTACCCTTAGAGGGTATTTCGGTA
* **
13949054 A-TTTACCCTTCGAGGGTATTTTAGTA
1 ATTTTACCCTTAGAGGGTATTTCGGTA
* * * *
13949080 ATTTTACCCTTTGAGGATATTTTGATA
1 ATTTTACCCTTAGAGGGTATTTCGGTA
* *
13949107 ATTTTACCCTTCGAGGGTATTTCAGTA
1 ATTTTACCCTTAGAGGGTATTTCGGTA
* *
13949134 ATTTTTCCCTTCA-AGGGTATTTTGGTA
1 ATTTTACCCTT-AGAGGGTATTTCGGTA
*
13949161 ATTTTACCCTTCGAGGGTATTTCGGTA
1 ATTTTACCCTTAGAGGGTATTTCGGTA
13949188 ATTT
1 ATTT
13949192 CCTCATGAAT
Statistics
Matches: 208, Mismatches: 29, Indels: 14
0.83 0.12 0.06
Matches are distributed among these distances:
26 68 0.33
27 140 0.67
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTTAGAGGGTATTTCGGTA
Found at i:13949137 original size:54 final size:54
Alignment explanation
Indices: 13948921--13949191 Score: 345
Period size: 53 Copynumber: 5.1 Consensus size: 54
13948911 CAGTCATATC
* *
13948921 ATTTTACCCTTAGAGGGTATTACGGTAATTTTACCCTTAG-GGGTATTTC-GATA
1 ATTTTACCCTTAGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCAG-TA
* * * *
13948974 ATTTTACCCTTAGAGGGTATTACGGTAA-GTTACCCTTCAAGGGTATTTCGGTA
1 ATTTTACCCTTAGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCAGTA
* * *
13949027 ATTTTACCCTTTGAAGGTATTTCGGTAA-TTTACCCTTCGAGGGTATTTTAGTA
1 ATTTTACCCTTAGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCAGTA
* * * *
13949080 ATTTTACCCTTTGAGGATATTTTGATAATTTTACCCTTCGAGGGTATTTCAGTA
1 ATTTTACCCTTAGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCAGTA
* * *
13949134 ATTTTTCCCTTCA-AGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTCGGTA
1 ATTTTACCCTT-AGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCAGTA
13949188 ATTT
1 ATTT
13949192 CCTCATGAAT
Statistics
Matches: 194, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
52 8 0.04
53 109 0.56
54 77 0.40
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (54 bp):
ATTTTACCCTTAGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCAGTA
Found at i:13986581 original size:19 final size:19
Alignment explanation
Indices: 13986557--13986595 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
13986547 TTAAAAAGTT
13986557 AGTTCATAATCGCAAATAA
1 AGTTCATAATCGCAAATAA
13986576 AGTTCATAATCGCAAATAA
1 AGTTCATAATCGCAAATAA
13986595 A
1 A
13986596 AACATTACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.26
Consensus pattern (19 bp):
AGTTCATAATCGCAAATAA
Found at i:13988091 original size:103 final size:103
Alignment explanation
Indices: 13987902--13988091 Score: 233
Period size: 103 Copynumber: 1.8 Consensus size: 103
13987892 GACTTTAGTA
* * * *
13987902 TGGTGGAGGGATGATATAATACATGATATGTAACAGTTCCTACGAGCTTTGCACTATGGTGCACT
1 TGGTGGAGGGATGATACAATACATGATATGTAACAGTGCCTAAGAGCTTTGCACTACGGTGCACT
**
13987967 AGTGTAGTGTAGTTATTGCTCTTTTGAGCTATTTGATG
66 AGTGTAGTGTAGTTAACGCTCTTTTGAGCTATTTGATG
* **
13988005 TGGTGGAGGGATGATACATTACATGATATG-ATATTGTGCCTATAG-GCTTTGCACTACGGTGC-
1 TGGTGGAGGGATGATACAATACATGATATGTA-ACAGTGCCTA-AGAGCTTTGCACTACGGTGCA
* *
13988067 CTCGGTGTGGTGTAGTTAACGCTCT
64 CT-AGTGTAGTGTAGTTAACGCTCT
13988092 GTCGTGCAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
102 3 0.04
103 69 0.95
104 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (103 bp):
TGGTGGAGGGATGATACAATACATGATATGTAACAGTGCCTAAGAGCTTTGCACTACGGTGCACT
AGTGTAGTGTAGTTAACGCTCTTTTGAGCTATTTGATG
Found at i:14004766 original size:29 final size:27
Alignment explanation
Indices: 14004722--14004775 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
14004712 TATGTTCATA
*
14004722 TTTTTTTTTGTCAATTTGGCTATTATG
1 TTTTTTTTTATCAATTTGGCTATTATG
*
14004749 TTTTTTTTTATCTAAATTTGTCTATTA
1 TTTTTTTTTATC--AATTTGGCTATTA
14004776 ATCTTTCGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 11 0.48
29 12 0.52
ACGTcount: A:0.19, C:0.07, G:0.09, T:0.65
Consensus pattern (27 bp):
TTTTTTTTTATCAATTTGGCTATTATG
Found at i:14005647 original size:13 final size:13
Alignment explanation
Indices: 14005629--14005653 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14005619 CCTTCTAAAA
14005629 TTAATTTTTTAAT
1 TTAATTTTTTAAT
14005642 TTAATTTTTTAA
1 TTAATTTTTTAA
14005654 AATAAAATAT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTAATTTTTTAAT
Found at i:14012647 original size:16 final size:18
Alignment explanation
Indices: 14012612--14012649 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14012602 TATATTATAA
14012612 TATTAATTAATAAAATAT
1 TATTAATTAATAAAATAT
*
14012630 TATTACTTAA-AAAA-AT
1 TATTAATTAATAAAATAT
14012646 TATT
1 TATT
14012650 TAAAAGCCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 4 0.21
18 9 0.47
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
TATTAATTAATAAAATAT
Found at i:14015659 original size:20 final size:21
Alignment explanation
Indices: 14015634--14015675 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14015624 TTTGGGTGGA
*
14015634 TCAGCTC-TCCGAGCTTCTAT
1 TCAGCTCTTACGAGCTTCTAT
*
14015654 TCAGCTCTTATGAGCTTCTAT
1 TCAGCTCTTACGAGCTTCTAT
14015675 T
1 T
14015676 GGTGTGTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.17, C:0.29, G:0.14, T:0.40
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTAT
Found at i:14018350 original size:14 final size:14
Alignment explanation
Indices: 14018333--14018380 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
14018323 TATATTACTT
14018333 AATGATAAAAGTTA
1 AATGATAAAAGTTA
** *
14018347 AATGATTTAAG--G
1 AATGATAAAAGTTA
14018359 AATGATAAAAGTTA
1 AATGATAAAAGTTA
14018373 AATGATAA
1 AATGATAA
14018381 GATTTTAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
12 9 0.35
14 17 0.65
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (14 bp):
AATGATAAAAGTTA
Found at i:14018689 original size:41 final size:41
Alignment explanation
Indices: 14018632--14018757 Score: 119
Period size: 41 Copynumber: 3.1 Consensus size: 41
14018622 TTTATTGTCA
* * * *
14018632 GTGAAATAATTCAGACTTTATGTCTAGCAGACTTGATGCCG
1 GTGAAATAATTCAGACTATAAGTCCAGCAGACTTAATGCCG
* *
14018673 GTGAAATTATTCAGACTATAAGTCCAGCAGGCTTAATGCCG
1 GTGAAATAATTCAGACTATAAGTCCAGCAGACTTAATGCCG
* * * * * * *
14018714 GTGATATATTTTC-GACAATAAGTCTAGCAGGCTAAAAGCCG
1 GTGAAATA-ATTCAGACTATAAGTCCAGCAGACTTAATGCCG
14018755 GTG
1 GTG
14018758 TACTGAATCA
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
41 68 0.96
42 3 0.04
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (41 bp):
GTGAAATAATTCAGACTATAAGTCCAGCAGACTTAATGCCG
Found at i:14019016 original size:34 final size:34
Alignment explanation
Indices: 14018970--14019050 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
14018960 GCATATATAT
* *
14018970 ATTCGGTCTATGCA-ATTATTAGATATATATGTGC
1 ATTCGGTATATGCATA-TATTAAATATATATGTGC
14019004 ATTCGGTATATGCATATATTAAATATATA--TGC
1 ATTCGGTATATGCATATATTAAATATATATGTGC
* *
14019036 AATAGGTATATGCAT
1 ATTCGGTATATGCAT
14019051 TTGCTAAGCA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
32 16 0.38
34 25 0.60
35 1 0.02
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.40
Consensus pattern (34 bp):
ATTCGGTATATGCATATATTAAATATATATGTGC
Found at i:14019030 original size:32 final size:35
Alignment explanation
Indices: 14018962--14019050 Score: 100
Period size: 32 Copynumber: 2.7 Consensus size: 35
14018952 ATTGATGAGC
*
14018962 ATATATAT--ATTCGGTCTATGCA-ATTATTAGAT
1 ATATATATGCATTCGGTATATGCATATTATTAGAT
*
14018994 ATATATGTGCATTCGGTATATGCATA-TATTA-A-
1 ATATATATGCATTCGGTATATGCATATTATTAGAT
* *
14019026 ATATATATGCAATAGGTATATGCAT
1 ATATATATGCATTCGGTATATGCAT
14019051 TTGCTAAGCA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
32 29 0.59
33 1 0.02
34 18 0.37
35 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (35 bp):
ATATATATGCATTCGGTATATGCATATTATTAGAT
Found at i:14019199 original size:14 final size:14
Alignment explanation
Indices: 14019180--14019208 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14019170 TATGCATATG
14019180 ATGTATCTGTATAC
1 ATGTATCTGTATAC
14019194 ATGTATCTGTATAC
1 ATGTATCTGTATAC
14019208 A
1 A
14019209 GAACCAGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (14 bp):
ATGTATCTGTATAC
Found at i:14025725 original size:41 final size:41
Alignment explanation
Indices: 14025680--14025805 Score: 153
Period size: 41 Copynumber: 3.1 Consensus size: 41
14025670 TTTATTGTTA
* * * *
14025680 GTGAAATAATTCAGACTTTATGTCTAGCAGGCTTGATGCTG
1 GTGAAATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
14025721 GTGAAATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGAAATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
* * * * * *
14025762 GTGATACATTTCGGACAATAAGTCTAGCAGGCTTAAAGCCG
1 GTGAAATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
14025803 GTG
1 GTG
14025806 TATCGAATCA
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (41 bp):
GTGAAATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:14027947 original size:113 final size:112
Alignment explanation
Indices: 14027694--14027906 Score: 252
Period size: 113 Copynumber: 1.9 Consensus size: 112
14027684 TACCATCACA
* *
14027694 CGCCGC-AAGATCTGAAGACCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCG
1 CGCCGCAAAAATCT-AA-ACCAAAACGCATCGTTTTGGTCTCGATGTATACTAGAATTAGTGGCG
** * * *
14027758 TTTATAGTAAATCGCCGCTAAAGCAATTATTAGCGGCGTAATGGATGAAG
64 TTTATAAAAAAACGCCGCTAAAGCAAGTATTAGCGGCGTAAT-GATAAAG
* * * **
14027808 CGCCGCAAAAATCTAAACGAAAACGCATCGTTTT-GTCTCGCTGTATATTAGCGTTAGTGGCGCT
1 CGCCGCAAAAATCTAAACCAAAACGCATCGTTTTGGTCTCGATGTATACTAGAATTAGTGGCG-T
14027872 TTA-AAAAAACACGCCGCTAAAGCAAGTATTAGCGG
65 TTATAAAAAA-ACGCCGCTAAAGCAAGTATTAGCGG
14027907 TGCTTACTAA
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
112 27 0.32
113 44 0.52
114 8 0.09
115 6 0.07
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (112 bp):
CGCCGCAAAAATCTAAACCAAAACGCATCGTTTTGGTCTCGATGTATACTAGAATTAGTGGCGTT
TATAAAAAAACGCCGCTAAAGCAAGTATTAGCGGCGTAATGATAAAG
Found at i:14028534 original size:229 final size:228
Alignment explanation
Indices: 14028109--14028605 Score: 517
Period size: 229 Copynumber: 2.2 Consensus size: 228
14028099 GTTGTGGTAA
*
14028109 GCGCCGCAAAACATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGC
1 GCGCCGCAAAACATCTTAACCAAAACGCAGAGTTTGGTCATGAGGTATACTAGAATTAGTGGCGC
* **
14028174 AGAGGGCACACGCCGCTAATGCATACTATTAGCGGCGCTTCCGTATAAGCGCCACAAAATTTGAT
66 AGAGGGCACACGCCGCTAAAGCATACTATTAGCGGCGCTTCCGTATAAGCGCCACAAAAGATGAT
** ** * *
14028239 AACAAAAACGCAACATTTTTGTCTTGATGTATACAGTTATTAGTGGCGCATATTAAGAAACGCCG
131 AACAAAAACGCAACATTTAAGTCTTGATGTATACAGGAATTAGTGGCGCACATCAAGAAACGCCG
*
14028304 CTAAATCATAGTATTAG-TGGCGCTTGGGCAAAC
196 CTAAAGCATAGTATTAGCT-GCGCTTGGGCAAAC
* * * * *
14028337 GCGCCGCAAAATATGC-TCACCAAAACGCTGAGTTT-TTACATGAGGTATATTAGAATTAGTGGC
1 GCGCCGCAAAACAT-CTTAACCAAAACGCAGAGTTTGGT-CATGAGGTATACTAGAATTAGTGGC
* * * * * ** *
14028400 GCTTGTGGG-AGATCGCCGCTAAAGTATATTATTAGCGGCGCTTCTTTATAAGCGCCGCAAAAGA
64 GC-AGAGGGCACA-CGCCGCTAAAGCATACTATTAGCGGCGCTTCCGTATAAGCGCCACAAAAGA
* * * *
14028464 T-ATTAACAAAAACGCAGCGTTTAAGTCTTGATGTATACTGGAATTAGTGGCGTC-CA-CGAGAA
127 TGA-TAACAAAAACGCAACATTTAAGTCTTGATGTATACAGGAATTAGTGGCG-CACATCAAGAA
* **
14028526 ATCGCCGCTAAAGCATGGTATTAGCTGCGCTTTTTG-ATAA-
190 A-CGCCGCTAAAGCATAGTATTAGCTGCGC-TTGGGCA-AAC
* * **
14028566 GCGTCGGAAAATGTCTTAACCAAAACGCAGAGTTTTGGTC
1 GCGCCGCAAAACATCTTAACCAAAACGCAGAG-TTTGGTC
14028606 TTAACCATGC
Statistics
Matches: 219, Mismatches: 37, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
227 1 0.00
228 64 0.29
229 142 0.65
230 11 0.05
231 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (228 bp):
GCGCCGCAAAACATCTTAACCAAAACGCAGAGTTTGGTCATGAGGTATACTAGAATTAGTGGCGC
AGAGGGCACACGCCGCTAAAGCATACTATTAGCGGCGCTTCCGTATAAGCGCCACAAAAGATGAT
AACAAAAACGCAACATTTAAGTCTTGATGTATACAGGAATTAGTGGCGCACATCAAGAAACGCCG
CTAAAGCATAGTATTAGCTGCGCTTGGGCAAAC
Found at i:14028691 original size:21 final size:20
Alignment explanation
Indices: 14028667--14028705 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
14028657 TTTGGTCTAT
*
14028667 GGTTTATGGTTTAAAGGTTGG
1 GGTTTAAGGTTT-AAGGTTGG
14028688 GGTTTAAGGTTTAAGGTT
1 GGTTTAAGGTTTAAGGTT
14028706 ATGTGTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.44
Consensus pattern (20 bp):
GGTTTAAGGTTTAAGGTTGG
Found at i:14029558 original size:14 final size:15
Alignment explanation
Indices: 14029539--14029573 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
14029529 ACACTTGTAT
*
14029539 GGATTTAGGGTTT-G
1 GGATTTAAGGTTTCG
14029553 GGATTTAAGGTTTCG
1 GGATTTAAGGTTTCG
14029568 GGATTT
1 GGATTT
14029574 TGGGGTCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.17, C:0.03, G:0.37, T:0.43
Consensus pattern (15 bp):
GGATTTAAGGTTTCG
Found at i:14032632 original size:36 final size:36
Alignment explanation
Indices: 14032601--14032851 Score: 297
Period size: 36 Copynumber: 7.5 Consensus size: 36
14032591 CTTACATTAA
*
14032601 TTACATAACTTACATAAATTAAGTAAATTACATAAC
1 TTACATAACTTACATAAATTAAGTAAATTAAATAAC
14032637 TTACATAACTTACATAAA-T---TAAA-T--AT--C
1 TTACATAACTTACATAAATTAAGTAAATTAAATAAC
14032664 TTACATAACTTACATAAATTAAGTAAATTAAATAAC
1 TTACATAACTTACATAAATTAAGTAAATTAAATAAC
14032700 TTACATAACTTACATAAA-T---T-AA--AAAT--C
1 TTACATAACTTACATAAATTAAGTAAATTAAATAAC
14032727 TTACATAACTTACATAAATTAAGTAAATTAAATAAC
1 TTACATAACTTACATAAATTAAGTAAATTAAATAAC
* * *
14032763 TTACATAACTTATATAACTTACA-TAAATTAAATATC
1 TTACATAACTTACATAAATTA-AGTAAATTAAATAAC
*
14032799 TTACATAATTTACATAAATTAAGTAAATTAAATAAC
1 TTACATAACTTACATAAATTAAGTAAATTAAATAAC
* *
14032835 TTACACAACTCACATAA
1 TTACATAACTTACATAA
14032852 TGATGTAGTA
Statistics
Matches: 185, Mismatches: 10, Indels: 40
0.79 0.04 0.17
Matches are distributed among these distances:
27 38 0.21
28 2 0.01
29 6 0.03
31 8 0.04
32 8 0.04
34 6 0.03
35 3 0.02
36 113 0.61
37 1 0.01
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.34
Consensus pattern (36 bp):
TTACATAACTTACATAAATTAAGTAAATTAAATAAC
Found at i:14032674 original size:63 final size:63
Alignment explanation
Indices: 14032601--14032851 Score: 376
Period size: 63 Copynumber: 3.8 Consensus size: 63
14032591 CTTACATTAA
*
14032601 TTACATAACTTACATAAATTAAGTAAATTACATAACTTACATAACTTACATAAATTAAATATC
1 TTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAAATTAAATATC
*
14032664 TTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAAATTAAAAATC
1 TTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAAATTAAATATC
14032727 TTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTATATAACTTACATAAATT
1 TTACATAACTTACATAAATTAAGTAAATTAAATAAC-T---T-AC----ATAACTTACATAAATT
14032792 AAATATC
57 AAATATC
* * *
14032799 TTACATAATTTACATAAATTAAGTAAATTAAATAACTTACACAACTCACATAA
1 TTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAA
14032852 TGATGTAGTA
Statistics
Matches: 173, Mismatches: 6, Indels: 18
0.88 0.03 0.09
Matches are distributed among these distances:
63 108 0.62
64 1 0.01
67 3 0.02
68 3 0.02
71 1 0.01
72 57 0.33
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.34
Consensus pattern (63 bp):
TTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAAATTAAATATC
Found at i:14032677 original size:9 final size:9
Alignment explanation
Indices: 14032587--14032952 Score: 249
Period size: 9 Copynumber: 41.4 Consensus size: 9
14032577 CACAAATTAA
14032587 ATAACTTAC
1 ATAACTTAC
14032596 ATTAA-TTAC
1 A-TAACTTAC
14032605 ATAACTTAC
1 ATAACTTAC
*
14032614 ATAAATTA-
1 ATAACTTAC
*
14032622 AGTAAATTAC
1 A-TAACTTAC
14032632 ATAACTTAC
1 ATAACTTAC
14032641 ATAACTTAC
1 ATAACTTAC
* *
14032650 ATAAATTAA
1 ATAACTTAC
*
14032659 ATATCTTAC
1 ATAACTTAC
14032668 ATAACTTAC
1 ATAACTTAC
*
14032677 ATAAATTA-
1 ATAACTTAC
* *
14032685 AGTAAATTAA
1 A-TAACTTAC
14032695 ATAACTTAC
1 ATAACTTAC
14032704 ATAACTTAC
1 ATAACTTAC
*
14032713 ATAAATTA-
1 ATAACTTAC
*
14032721 AAAATCTTAC
1 ATAA-CTTAC
14032731 ATAACTTAC
1 ATAACTTAC
*
14032740 ATAAATTA-
1 ATAACTTAC
* *
14032748 AGTAAATTAA
1 A-TAACTTAC
14032758 ATAACTTAC
1 ATAACTTAC
*
14032767 ATAACTTAT
1 ATAACTTAC
14032776 ATAACTTAC
1 ATAACTTAC
* *
14032785 ATAAATTAA
1 ATAACTTAC
*
14032794 ATATCTTAC
1 ATAACTTAC
*
14032803 ATAATTTAC
1 ATAACTTAC
*
14032812 ATAAATTA-
1 ATAACTTAC
* *
14032820 AGTAAATTAA
1 A-TAACTTAC
14032830 ATAACTTAC
1 ATAACTTAC
* *
14032839 ACAACTCAC
1 ATAACTTAC
* *
14032848 ATAA-TGAT
1 ATAACTTAC
* *
14032856 GT-A-GTAC
1 ATAACTTAC
*
14032863 ACAACTTAC
1 ATAACTTAC
14032872 ATAA--TAC
1 ATAACTTAC
*
14032879 ATTACTTAC
1 ATAACTTAC
*
14032888 ATAGCTTAC
1 ATAACTTAC
*
14032897 ATTACTTAC
1 ATAACTTAC
** *
14032906 ATGGGGCATAC
1 AT--AACTTAC
14032917 ATAA--TAC
1 ATAACTTAC
14032924 ATAA--TAC
1 ATAACTTAC
14032931 ATAACTTAC
1 ATAACTTAC
14032940 ATAACTTAC
1 ATAACTTAC
14032949 ATAA
1 ATAA
14032953 TACATAAAAA
Statistics
Matches: 284, Mismatches: 53, Indels: 40
0.75 0.14 0.11
Matches are distributed among these distances:
7 22 0.08
8 14 0.05
9 232 0.82
10 10 0.04
11 6 0.02
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.34
Consensus pattern (9 bp):
ATAACTTAC
Found at i:14032925 original size:7 final size:7
Alignment explanation
Indices: 14032913--14032959 Score: 58
Period size: 7 Copynumber: 6.1 Consensus size: 7
14032903 TACATGGGGC
14032913 ATACATA
1 ATACATA
14032920 ATACATA
1 ATACATA
14032927 ATACATA
1 ATACATA
14032934 ACTTACATA
1 A--TACATA
14032943 ACTTACATA
1 A--TACATA
14032952 ATACATA
1 ATACATA
14032959 A
1 A
14032960 AAATATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 22 0.58
9 16 0.42
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (7 bp):
ATACATA
Found at i:14038485 original size:21 final size:21
Alignment explanation
Indices: 14038460--14038534 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 21
14038450 CAGCAACTTA
* *
14038460 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
*
14038481 AAGCAGATGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
** *
14038502 AAGCAGCAAGAGAAGCAGCGATAG
1 AAGCAG--AG-GCCGCAGCGAGAG
14038526 AAGCAGAGG
1 AAGCAGAGG
14038535 TTCAAAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
21 25 0.57
22 2 0.05
23 1 0.02
24 16 0.36
ACGTcount: A:0.37, C:0.19, G:0.41, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:14038513 original size:12 final size:12
Alignment explanation
Indices: 14038492--14038531 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
14038482 AGCAGATGCC
14038492 GCAGCGAGAGAA
1 GCAGCGAGAGAA
*
14038504 GCAGCAAGAGAA
1 GCAGCGAGAGAA
*
14038516 GCAGCGATAGAA
1 GCAGCGAGAGAA
14038528 GCAG
1 GCAG
14038532 AGGTTCAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.42, C:0.17, G:0.38, T:0.03
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:14039010 original size:42 final size:43
Alignment explanation
Indices: 14038938--14039030 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 43
14038928 TCAAAACAGT
* * * *
14038938 GGCGTTTGTGAAATAAGCGCCGCTAAAGAACACTACTTTTAGC
1 GGCGTTTTTGAAACAAGCGCCACTAAAGAACACTACTTTTAGA
* *
14038981 GGCGTTTTTG-AACAAGCGCCACTATAGAACATTACTTTTAGA
1 GGCGTTTTTGAAACAAGCGCCACTAAAGAACACTACTTTTAGA
14039023 GGCGTTTT
1 GGCGTTTT
14039031 CTTCCAAAGC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 35 0.80
43 9 0.20
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (43 bp):
GGCGTTTTTGAAACAAGCGCCACTAAAGAACACTACTTTTAGA
Found at i:14039101 original size:42 final size:42
Alignment explanation
Indices: 14038951--14039193 Score: 287
Period size: 42 Copynumber: 5.8 Consensus size: 42
14038941 GTTTGTGAAA
**
14038951 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGAAC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TCC
* * * *
14038994 -AAGCGCCACTATAGAACATTA-CTTTTAGAGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCC
* * *
14039036 AAAGCACCGCTAAAGAACGTGATCTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
* * *
14039078 TAAACGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
*
14039120 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
*
14039162 TAAGCGCCGTTAAAGAACATGATCTTTAGCGG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGG
14039194 TATTTTTTTA
Statistics
Matches: 176, Mismatches: 20, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
41 1 0.01
42 144 0.82
43 30 0.17
44 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
Found at i:14039125 original size:127 final size:126
Alignment explanation
Indices: 14038955--14039193 Score: 297
Period size: 127 Copynumber: 1.9 Consensus size: 126
14038945 GTGAAATAAG
* * *
14038955 CGCCGCTAAAGAACACTACTTTTAGCGGCGTTTTTGAACAAGCGCCACTATAGAACATTA-CTTT
1 CGCCGCTAAAGAACACTACTTTTAGCGGCATTTTTGAACAAGCGCCACTAAAGAACATGATC-TT
*
14039019 TAGAGGCGTTTTCTTCCAAAGCACCGCTAAAGAACGTGATCTTTAGCGGCGTTTTTTCCTAAA
65 TAGAGGCGTTTT-TTCCAAAGCACCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAA
** *
14039082 CGCCGCTAAAGAACA-TGA-TCTTTAGCGGCATTTTT-TTCTAAGCGCCGCTAAAGAACATGATC
1 CGCCGCTAAAGAACACT-ACT-TTTAGCGGCATTTTTGAAC-AAGCGCCACTAAAGAACATGATC
* * * * *
14039144 TTTAGCGGCGTTTTTTTCTAAGCGCCGTTAAAGAACATGATCTTTAGCGG
63 TTTAGAGGCGTTTTTTCCAAAGCACCGCTAAAGAACATGATCTTTAGCGG
14039194 TATTTTTTTA
Statistics
Matches: 96, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
126 34 0.35
127 61 0.64
128 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (126 bp):
CGCCGCTAAAGAACACTACTTTTAGCGGCATTTTTGAACAAGCGCCACTAAAGAACATGATCTTT
AGAGGCGTTTTTTCCAAAGCACCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAA
Found at i:14039317 original size:22 final size:22
Alignment explanation
Indices: 14039292--14039334 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
14039282 TAGTGGCGTT
* *
14039292 AAAAAGCGCCGCTAAAGACCTA
1 AAAAAACGCCGCTAAAAACCTA
14039314 AAAAAACGCCGCTAAAAACCT
1 AAAAAACGCCGCTAAAAACCT
14039335 GTTCTACTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.28, G:0.14, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACCTA
Found at i:14047220 original size:16 final size:15
Alignment explanation
Indices: 14047199--14047228 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
14047189 GTTTATTTTA
14047199 ATTATTTGATGAAATT
1 ATTATTTGAT-AAATT
14047215 ATTATTTGATAAAT
1 ATTATTTGATAAAT
14047229 GTTTTGATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (15 bp):
ATTATTTGATAAATT
Found at i:14048049 original size:13 final size:14
Alignment explanation
Indices: 14048025--14048058 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
14048015 GCATAGGTAA
14048025 AGATCATTTTGAAG
1 AGATCATTTTGAAG
14048039 AGATC-TTTTGAAG
1 AGATCATTTTGAAG
*
14048052 TGATCAT
1 AGATCAT
14048059 CCTCATCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (14 bp):
AGATCATTTTGAAG
Found at i:14051783 original size:21 final size:21
Alignment explanation
Indices: 14051757--14051796 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
14051747 TGGTAGTGAA
14051757 AACGCTTCCTGCAAGGGGTAT
1 AACGCTTCCTGCAAGGGGTAT
14051778 AACGCTTCCTGCAAGGGGT
1 AACGCTTCCTGCAAGGGGT
14051797 GTTTTCCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.23
Consensus pattern (21 bp):
AACGCTTCCTGCAAGGGGTAT
Found at i:14052386 original size:9 final size:9
Alignment explanation
Indices: 14052374--14052411 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
14052364 ATAAAACATG
14052374 TTATTCGAA
1 TTATTCGAA
14052383 TTATTCGAA
1 TTATTCGAA
*
14052392 TTATTCGAG
1 TTATTCGAA
*
14052401 TTATTTGAA
1 TTATTCGAA
14052410 TT
1 TT
14052412 GTAAATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (9 bp):
TTATTCGAA
Found at i:14053962 original size:15 final size:15
Alignment explanation
Indices: 14053939--14053976 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
14053929 TTTATAAGAA
14053939 AAAATAAAATT-GAAG
1 AAAA-AAAATTCGAAG
14053954 AGAAAAAAATTCGAAG
1 A-AAAAAAATTCGAAG
14053970 AAAAAAA
1 AAAAAAA
14053977 GAATTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.71, C:0.03, G:0.13, T:0.13
Consensus pattern (15 bp):
AAAAAAAATTCGAAG
Found at i:14053975 original size:16 final size:15
Alignment explanation
Indices: 14053938--14053981 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
14053928 TTTTATAAGA
14053938 AAAAATAAAATTGAAG
1 AAAAA-AAAATTGAAG
*
14053954 AGAAAAAAATTCGAAG
1 AAAAAAAAATT-GAAG
14053970 AAAAAAAGAATT
1 AAAAAAA-AATT
14053982 TAAAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.25
16 14 0.58
17 4 0.17
ACGTcount: A:0.68, C:0.02, G:0.14, T:0.16
Consensus pattern (15 bp):
AAAAAAAAATTGAAG
Found at i:14053976 original size:17 final size:16
Alignment explanation
Indices: 14053934--14053981 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
14053924 AAAATTTTAT
14053934 AAGAAAAAATAAAATTG
1 AAGAAAAAA-AAAATTG
*
14053951 AAG-AGAAAAAAATTCG
1 AAGAAAAAAAAAATT-G
*
14053967 AAGAAAAAAAGAATT
1 AAGAAAAAAAAAATT
14053982 TAAAAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 6 0.23
16 8 0.31
17 12 0.46
ACGTcount: A:0.69, C:0.02, G:0.15, T:0.15
Consensus pattern (16 bp):
AAGAAAAAAAAAATTG
Found at i:14054017 original size:21 final size:20
Alignment explanation
Indices: 14053991--14054044 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 20
14053981 TTAAAAAAAT
14053991 ATTTGAGAATTGAAAATTAAA
1 ATTTGA-AATTGAAAATTAAA
14054012 ATTTGAAGATTGAAAATATAAA
1 ATTTGAA-ATTGAAAAT-TAAA
*
14054034 ATTAGAAATTG
1 ATTTGAAATTG
14054045 GAGATTAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 1 0.03
21 19 0.63
22 10 0.33
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (20 bp):
ATTTGAAATTGAAAATTAAA
Found at i:14058065 original size:25 final size:26
Alignment explanation
Indices: 14058010--14058066 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
14058000 AGAATGACAT
* *
14058010 CGTTATAGTAGCACAATTAATAACAT
1 CGTTATAGTAGCACAAGTAATAACAA
*
14058036 CGTTATAGTAGCACAAGTCA-AACAA
1 CGTTATAGTAGCACAAGTAATAACAA
14058061 CGTTAT
1 CGTTAT
14058067 TAAATAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 10 0.36
26 18 0.64
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (26 bp):
CGTTATAGTAGCACAAGTAATAACAA
Found at i:14070360 original size:11 final size:12
Alignment explanation
Indices: 14070313--14070361 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
14070303 TAAAATCATT
14070313 AAAATTATTATTA
1 AAAATTA-TATTA
14070326 AACAA-TATA-TA
1 AA-AATTATATTA
*
14070337 AAAATTATTTTA
1 AAAATTATATTA
14070349 AAAATTA-ATTA
1 AAAATTATATTA
14070360 AA
1 AA
14070362 TACTAACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
10 2 0.06
11 12 0.39
12 11 0.35
13 4 0.13
14 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (12 bp):
AAAATTATATTA
Found at i:14076620 original size:15 final size:15
Alignment explanation
Indices: 14076600--14076631 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14076590 TATCTTTACT
14076600 ATTATTTTGATTTTA
1 ATTATTTTGATTTTA
*
14076615 ATTATTTTTATTTTA
1 ATTATTTTGATTTTA
14076630 AT
1 AT
14076632 CAAATTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
ATTATTTTGATTTTA
Found at i:14077475 original size:15 final size:16
Alignment explanation
Indices: 14077450--14077488 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
14077440 ATCAAATTAC
14077450 TTAATAATTAACTA-AA
1 TTAA-AATTAACTATAA
*
14077466 TTTAAATTAACTATAA
1 TTAAAATTAACTATAA
14077482 TTAAAAT
1 TTAAAAT
14077489 AAATCTAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (16 bp):
TTAAAATTAACTATAA
Found at i:14078513 original size:70 final size:70
Alignment explanation
Indices: 14078400--14078540 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
14078390 TATCTTAATT
14078400 GTCTTTCCTAATTTTGTTGACGTTAAATGTGGTGTTGGAGATTAAAGGTGATCCATGTAAATGTG
1 GTCTTTCCTAATTTTGTTGACGTTAAATGTGGTGTTGGAGATTAAAGGTGATCCATGTAAATGTG
14078465 GTCTA
66 GTCTA
14078470 GTCTTTCCTAATTTTGTTGACGTTAAATGTGGTGTTGGAGATTAAAGGTGATCCATGTAAATGTG
1 GTCTTTCCTAATTTTGTTGACGTTAAATGTGGTGTTGGAGATTAAAGGTGATCCATGTAAATGTG
14078535 GTCTA
66 GTCTA
14078540 G
1 G
14078541 AGAGCTGTGC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (70 bp):
GTCTTTCCTAATTTTGTTGACGTTAAATGTGGTGTTGGAGATTAAAGGTGATCCATGTAAATGTG
GTCTA
Found at i:14085884 original size:26 final size:26
Alignment explanation
Indices: 14085848--14085902 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
14085838 TTCGAATTAA
14085848 TTACAAGAGGAGTAGACTATGTCTAT
1 TTACAAGAGGAGTAGACTATGTCTAT
14085874 TTACAAGAGGAGTAGACTATGTCTAT
1 TTACAAGAGGAGTAGACTATGTCTAT
14085900 TTA
1 TTA
14085903 TAGGCTTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.33
Consensus pattern (26 bp):
TTACAAGAGGAGTAGACTATGTCTAT
Found at i:14087527 original size:16 final size:16
Alignment explanation
Indices: 14087506--14087536 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
14087496 ATGTTGAAAG
14087506 AAAAAAATTAAAGATA
1 AAAAAAATTAAAGATA
14087522 AAAAAAATTAAAGAT
1 AAAAAAATTAAAGAT
14087537 TTTTAGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (16 bp):
AAAAAAATTAAAGATA
Found at i:14099315 original size:44 final size:45
Alignment explanation
Indices: 14099222--14099316 Score: 131
Period size: 44 Copynumber: 2.1 Consensus size: 45
14099212 GGTTCGCTGT
*
14099222 AATGGAATAGATGCGTAATAGCAAATCAATTGTTTGGTTGAATGT
1 AATGGAATAGATGCGTAATAGCAAATCAATTGTTTGGTTGAATGG
* * *
14099267 AATGGAATAGATGCGTAATAG-TATTC-TTGTGTTTGGTTGAATGG
1 AATGGAATAGATGCGTAATAGCAAATCAAT-TGTTTGGTTGAATGG
14099311 AATGGA
1 AATGGA
14099317 GGTGTAATAG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 21 0.47
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.35
Consensus pattern (45 bp):
AATGGAATAGATGCGTAATAGCAAATCAATTGTTTGGTTGAATGG
Found at i:14099514 original size:17 final size:18
Alignment explanation
Indices: 14099473--14099507 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14099463 TTATTATTAA
*
14099473 ATATATTTTAATTAAAAT
1 ATATAATTTAATTAAAAT
14099491 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
14099508 TATTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:14099590 original size:120 final size:118
Alignment explanation
Indices: 14099453--14099767 Score: 499
Period size: 120 Copynumber: 2.6 Consensus size: 118
14099443 TTAATCATAT
*
14099453 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAAT
1 TTTAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTATTAATAAT
* *
14099518 CAATATTGTTATATGAATTTAC-TCAAATCATAATATATGATACTATAAAATATAA
65 CAATATTATTATATGAATTT-CTTAAAATCATAATATATGATACTAT-AAATATAA
*
14099573 TTTAAGATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
1 TTTAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTATTAATAAT
*
14099638 CAATATTATTATATGAATTTCTTAAAATCATAATATATGATAGTATAAATATAA
65 CAATATTATTATATGAATTTCTTAAAATCATAATATATGATACTATAAATATAA
*
14099692 TTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT-TAAAATAA
1 TTT-AAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTAT-TAATAA
*
14099756 TCATTATTATTA
64 TCAATATTATTA
14099768 AATATAATTT
Statistics
Matches: 184, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
118 1 0.01
119 78 0.42
120 105 0.57
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (118 bp):
TTTAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTATTAATAATC
AATATTATTATATGAATTTCTTAAAATCATAATATATGATACTATAAATATAA
Found at i:14099614 original size:18 final size:17
Alignment explanation
Indices: 14099591--14099627 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
14099581 AATTATTATT
14099591 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
14099607 AAATATATGATTTAATA
1 AAATATATGATTTAATA
14099624 AAAT
1 AAAT
14099628 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:14099733 original size:18 final size:17
Alignment explanation
Indices: 14099710--14099746 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
14099700 AATTATTATT
14099710 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
14099726 AAATATATGATTTAATA
1 AAATATATGATTTAATA
14099743 AAAT
1 AAAT
14099747 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:14099776 original size:29 final size:28
Alignment explanation
Indices: 14099683--14099779 Score: 94
Period size: 28 Copynumber: 3.5 Consensus size: 28
14099673 TATGATAGTA
*
14099683 TAAATATAATTTGAAAT-A-ATTATTAT
1 TAAATATAATTTAAAATAATATTATTAT
* *
14099709 TAAATATATTTTAATTAA-AATA-TATGAT
1 TAAATATAATTTAA--AATAATATTATTAT
* *
14099737 TTAATAAAATTTAAAATAATCATTATTAT
1 TAAATATAATTTAAAATAAT-ATTATTAT
14099766 TAAATATAATTTAA
1 TAAATATAATTTAA
14099780 TTATATGAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
26 14 0.25
27 3 0.05
28 20 0.36
29 18 0.33
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (28 bp):
TAAATATAATTTAAAATAATATTATTAT
Found at i:14099818 original size:91 final size:91
Alignment explanation
Indices: 14099730--14099973 Score: 241
Period size: 91 Copynumber: 2.7 Consensus size: 91
14099720 TAATTAAAAT
* *
14099730 ATATGATTTAATAA-AAT-T-TAAAATAATCATTATTATT-A-AATATAATTTAATTATATGAAT
1 ATATAATTTAATAATAATATATAAAATAATCA-AATTATTGATAATA-AATTTAATTATATGAAT
* * *
14099790 TTGTATAATTTAATATAATTATTATTAA
64 TTATATAATTTAAAATAATTAATATTAA
** * * **
14099818 ATATAATTTAATAATAATATATAACTTCATCAAATTCTTGATAATAAATTTTGTTATATGAATTT
1 ATATAATTTAATAATAATATATAAAATAATCAAATTATTGATAATAAATTTAATTATATGAATTT
14099883 ATATAATTTAAAATAATTAATATTAA
66 ATATAATTTAAAATAATTAATATTAA
* * * * * * * *
14099909 ATATAATATAATAATGATATAT-AATTCATAAAATTCTTAATAATAAATATT-CTTATATGAATT
1 ATATAATTTAATAATAATATATAAAATAATCAAATTATTGATAATAAAT-TTAATTATATGAATT
14099972 TA
65 TA
14099974 CTAAAATCAT
Statistics
Matches: 133, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
88 13 0.10
89 3 0.02
90 42 0.32
91 71 0.53
92 4 0.03
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (91 bp):
ATATAATTTAATAATAATATATAAAATAATCAAATTATTGATAATAAATTTAATTATATGAATTT
ATATAATTTAAAATAATTAATATTAA
Found at i:14099841 original size:44 final size:44
Alignment explanation
Indices: 14099758--14099934 Score: 128
Period size: 44 Copynumber: 3.8 Consensus size: 44
14099748 TAAAATAATC
*
14099758 ATTATTATTAAATATAATTTAATTATATGAATTTGTATAATTTAATATA
1 ATTATTATTAAATATAATTTAA-TA-AT-AA--TATATAATTTAATATA
* *
14099807 ATTATTATTAAATATAATTTAATAATAATATATAACTTCATCA-A
1 ATTATTATTAAATATAATTTAATAATAATATATAATTTAAT-ATA
* * * *
14099851 ATTCTTGATAATAAAT-T-TTGTTATATGAAT-TTATATAATTTAAAATA
1 ATTATT-AT--TAAATATAAT-TTA-AT-AATAATATATAATTTAATATA
* * *
14099898 ATTAATATTAAATATAATATAATAATGATATATAATT
1 ATTATTATTAAATATAATTTAATAATAATATATAATT
14099935 CATAAAATTC
Statistics
Matches: 103, Mismatches: 14, Indels: 27
0.72 0.10 0.19
Matches are distributed among these distances:
43 3 0.03
44 32 0.31
45 7 0.07
46 10 0.10
47 24 0.23
48 5 0.05
49 22 0.21
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (44 bp):
ATTATTATTAAATATAATTTAATAATAATATATAATTTAATATA
Found at i:14099984 original size:46 final size:45
Alignment explanation
Indices: 14099844--14099985 Score: 110
Period size: 46 Copynumber: 3.1 Consensus size: 45
14099834 ATATATAACT
* * * * *
14099844 TCATCAAATTCTTGATAATAAATTTTGTTATATGAATTTATATAA
1 TCATAAAATTCTTAATAATAAATATTATTATATGAATTTATAAAA
* ** * * * *
14099889 T-TTAAAATAATTAATATTAAATA-TAATATAAT-AATGATATATAAT
1 TCATAAAATTCTTAATAATAAATATTATTAT-ATGAAT-TTATA-AAA
*
14099934 TCATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAAAA
1 TCATAAAATTCTTAATAATAAATATTATTATATGAATTTA-TAAAA
14099980 TCATAA
1 TCATAA
14099986 TATAACTTGA
Statistics
Matches: 70, Mismatches: 20, Indels: 13
0.68 0.19 0.13
Matches are distributed among these distances:
43 7 0.10
44 21 0.30
45 3 0.04
46 30 0.43
47 9 0.13
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.43
Consensus pattern (45 bp):
TCATAAAATTCTTAATAATAAATATTATTATATGAATTTATAAAA
Found at i:14107749 original size:21 final size:21
Alignment explanation
Indices: 14107694--14107751 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
14107684 AATTTAAAAT
14107694 TAATAAGCCTTAATT-AATTAA
1 TAATAAG-CTTAATTAAATTAA
* * *
14107715 -ACTAAACCTAAATTAAATTAA
1 TAAT-AAGCTTAATTAAATTAA
14107736 TAATAAGCTTAATTAA
1 TAATAAGCTTAATTAA
14107752 CATAAATTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
20 8 0.29
21 18 0.64
22 2 0.07
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.34
Consensus pattern (21 bp):
TAATAAGCTTAATTAAATTAA
Found at i:14113055 original size:72 final size:72
Alignment explanation
Indices: 14112938--14113080 Score: 268
Period size: 72 Copynumber: 2.0 Consensus size: 72
14112928 TTTTCCTTTG
14112938 TTGTGATATCCATCATCGATCTTTGCAGAGACTTCTTCACGTTGAAGGTTGCAGATCTGAGTTTC
1 TTGTGATATCCATCATCGATCTTTGCAGAGACTTCTTCACGTTGAAGGTTGCAGATCTGAGTTTC
14113003 TTTTTTA
66 TTTTTTA
* *
14113010 TTGTGATATCCATCATCGATCTTTGCAGAGACTTCTTCACTTTGAAGGTTGCAGATCTGAGTTTG
1 TTGTGATATCCATCATCGATCTTTGCAGAGACTTCTTCACGTTGAAGGTTGCAGATCTGAGTTTC
14113075 TTTTTT
66 TTTTTT
14113081 TTCAGTCTAT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (72 bp):
TTGTGATATCCATCATCGATCTTTGCAGAGACTTCTTCACGTTGAAGGTTGCAGATCTGAGTTTC
TTTTTTA
Found at i:14113307 original size:22 final size:21
Alignment explanation
Indices: 14113265--14113365 Score: 97
Period size: 21 Copynumber: 4.9 Consensus size: 21
14113255 TTATGAAATG
14113265 TTTTATAATATTATTTTTTAAAA
1 TTTTA-AATA-TATTTTTTAAAA
14113288 TTTTAAATATATTTTCTTAAAA
1 TTTTAAATATATTTT-TTAAAA
*
14113310 --TT-ATTA-ATTTTTTAAAA
1 TTTTAAATATATTTTTTAAAA
*
14113327 -TTTAAACAT-TATTTTTAAAA
1 TTTTAAATATAT-TTTTTAAAA
*
14113347 TTTTAAATATACTTTTTAA
1 TTTTAAATATATTTTTTAA
14113366 TAATATAAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
17 6 0.09
18 7 0.11
19 6 0.09
20 11 0.17
21 21 0.32
22 10 0.15
23 5 0.08
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTAAATATATTTTTTAAAA
Found at i:14113326 original size:39 final size:37
Alignment explanation
Indices: 14113265--14113352 Score: 103
Period size: 39 Copynumber: 2.4 Consensus size: 37
14113255 TTATGAAATG
* *
14113265 TTTTATAA-TATT-ATTTTTTAAAATTTTAA-ATATATT
1 TTTTAAAATTATTAATTTTTTAAAATTTAAACAT-TA-T
14113301 TTCTTAAAATTATTAATTTTTTAAAATTTAAACATTAT
1 TT-TTAAAATTATTAATTTTTTAAAATTTAAACATTAT
14113339 TTTTAAAATT-TTAA
1 TTTTAAAATTATTAA
14113353 ATATACTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
36 6 0.13
37 13 0.28
38 7 0.15
39 18 0.39
40 2 0.04
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (37 bp):
TTTTAAAATTATTAATTTTTTAAAATTTAAACATTAT
Found at i:14113331 original size:38 final size:38
Alignment explanation
Indices: 14113265--14113352 Score: 105
Period size: 38 Copynumber: 2.4 Consensus size: 38
14113255 TTATGAAATG
* *
14113265 TTTTATAA-TATT-ATTTTTTAAAATTTTAAATA-TATT
1 TTTTAAAATTATTAATTTTTTAAAATTTTAAACATTA-T
14113301 TTCTTAAAATTATTAATTTTTTAAAA-TTTAAACATTAT
1 TT-TTAAAATTATTAATTTTTTAAAATTTTAAACATTAT
14113339 TTTTAAAATT-TTAA
1 TTTTAAAATTATTAA
14113353 ATATACTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
36 6 0.13
37 13 0.28
38 14 0.30
39 13 0.28
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (38 bp):
TTTTAAAATTATTAATTTTTTAAAATTTTAAACATTAT
Found at i:14113451 original size:23 final size:22
Alignment explanation
Indices: 14113425--14113503 Score: 81
Period size: 22 Copynumber: 3.5 Consensus size: 22
14113415 ATTTATTATT
* *
14113425 TATTTTATAATATTTTAAATGTA
1 TATTTTAAAAT-TTTTAAATATA
14113448 TATTTTAAAATTTTTAAATATA
1 TATTTTAAAATTTTTAAATATA
**
14113470 TATTTATTTAA-TTTTAAATATA
1 TATTT-TAAAATTTTTAAATATA
14113492 -ATTTTTAAAATT
1 TA-TTTTAAAATT
14113504 ATGATTTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
21 4 0.09
22 30 0.64
23 13 0.28
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (22 bp):
TATTTTAAAATTTTTAAATATA
Found at i:14113512 original size:15 final size:15
Alignment explanation
Indices: 14113492--14113520 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14113482 TTTAAATATA
14113492 ATTTTTAAAATTATG
1 ATTTTTAAAATTATG
14113507 ATTTTTAAAATTAT
1 ATTTTTAAAATTAT
14113521 TTTTAAAGGT
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:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
ATTTTTAAAATTATG
Found at i:14113524 original size:12 final size:12
Alignment explanation
Indices: 14113481--14113563 Score: 55
Period size: 12 Copynumber: 6.8 Consensus size: 12
14113471 ATTTATTTAA
*
14113481 TTTTAAATATAAT
1 TTTTAAA-ATTAT
14113494 TTTTAAAATTATGAT
1 TTTTAAAA-T-T-AT
14113509 TTTTAAAATTAT
1 TTTTAAAATTAT
**
14113521 TTTTAAAGGTA-
1 TTTTAAAATTAT
*
14113532 -TTTAAACTT-T
1 TTTTAAAATTAT
*
14113542 TTTTAAAATTCT
1 TTTTAAAATTAT
*
14113554 ATTTAAAATT
1 TTTTAAAATT
14113564 TTAAAAAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
10 7 0.12
11 8 0.14
12 22 0.39
13 9 0.16
14 1 0.02
15 10 0.18
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (12 bp):
TTTTAAAATTAT
Found at i:14113684 original size:21 final size:21
Alignment explanation
Indices: 14113659--14113714 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
14113649 TAAGACTTTT
14113659 GTAAATATATATATTAAAAAA
1 GTAAATATATATATTAAAAAA
* *
14113680 GTAAAAATTTATATTAAAAAA
1 GTAAATATATATATTAAAAAA
*
14113701 TTAAATATATATAT
1 GTAAATATATATAT
14113715 ATTATAACTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (21 bp):
GTAAATATATATATTAAAAAA
Found at i:14121249 original size:7 final size:7
Alignment explanation
Indices: 14121237--14121278 Score: 84
Period size: 7 Copynumber: 6.0 Consensus size: 7
14121227 CACCAAAATA
14121237 AAATTTT
1 AAATTTT
14121244 AAATTTT
1 AAATTTT
14121251 AAATTTT
1 AAATTTT
14121258 AAATTTT
1 AAATTTT
14121265 AAATTTT
1 AAATTTT
14121272 AAATTTT
1 AAATTTT
14121279 TATATTAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AAATTTT
Found at i:14121392 original size:21 final size:19
Alignment explanation
Indices: 14121360--14121403 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
14121350 TTAATTTTTT
14121360 AAATTTTAAATATAATTTAA
1 AAATTTTAAATAT-ATTTAA
* *
14121380 AAATGTTTGAATATCTTTAA
1 AAAT-TTTAAATATATTTAA
14121400 AAAT
1 AAAT
14121404 AATTTTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (19 bp):
AAATTTTAAATATATTTAA
Found at i:14121413 original size:21 final size:22
Alignment explanation
Indices: 14121361--14121413 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
14121351 TAATTTTTTA
14121361 AATTTTAAATATAATTTAAAAAT
1 AATTTT-AATATAATTTAAAAAT
* * *
14121384 -GTTTGAATAT-CTTTAAAAAT
1 AATTTTAATATAATTTAAAAAT
14121404 AATTTTAATA
1 AATTTTAATA
14121414 ATTAATAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
20 9 0.38
21 12 0.50
22 3 0.12
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (22 bp):
AATTTTAATATAATTTAAAAAT
Found at i:14121569 original size:22 final size:22
Alignment explanation
Indices: 14121531--14121600 Score: 87
Period size: 20 Copynumber: 3.4 Consensus size: 22
14121521 TATATTTTAA
*
14121531 ATAT-TTTATAATATTAAAAAAT
1 ATATATTTA-AATTTTAAAAAAT
14121553 ATATATTTAAATTTT-AAAAAT
1 ATATATTTAAATTTTAAAAAAT
14121574 A-ATATTTAAATTTTAAAAAA-
1 ATATATTTAAATTTTAAAAAAT
14121594 ATA-ATTT
1 ATATATTT
14121601 TAAAAATATA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
20 18 0.41
21 13 0.30
22 9 0.20
23 4 0.09
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATATATTTAAATTTTAAAAAAT
Found at i:14121571 original size:20 final size:20
Alignment explanation
Indices: 14121529--14121672 Score: 88
Period size: 21 Copynumber: 7.2 Consensus size: 20
14121519 AATATATTTT
* *
14121529 AAATAT-TTTATAATATTAAA
1 AAATATATTTAAAAT-TTTAA
*
14121549 AAATATATATTTAAATTTTAA
1 AAATATAT-TTAAAATTTTAA
14121570 AAATAATATTT-AAATTTTAA
1 AAAT-ATATTTAAAATTTTAA
14121590 AAA-A-A--T--AATTTTAAA
1 AAATATATTTAAAATTTT-AA
14121605 AATATATATTTAAAATTTTAA
1 AA-ATATATTTAAAATTTTAA
*
14121626 AAATAATATTATAAAACATTTAA
1 AAAT-ATATT-TAAAA-TTTTAA
* * *
14121649 ATATATCTTTCAAATTTTATA
1 AAATATATTTAAAATTTTA-A
14121670 AAA
1 AAA
14121673 CCAATAATAA
Statistics
Matches: 100, Mismatches: 9, Indels: 29
0.72 0.07 0.21
Matches are distributed among these distances:
14 6 0.06
15 5 0.05
16 1 0.01
17 2 0.02
18 2 0.02
20 25 0.25
21 27 0.27
22 24 0.24
23 8 0.08
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
AAATATATTTAAAATTTTAA
Found at i:14121574 original size:55 final size:57
Alignment explanation
Indices: 14121510--14121634 Score: 154
Period size: 55 Copynumber: 2.2 Consensus size: 57
14121500 AGGTCATATC
* *
14121510 TTTAAAAATAATATATTTTAAATATTT-TATAAT-A-TTAAAAAATATATATTT-AAAT
1 TTTAAAAATAATATA-TTTAAAT-TTTAAAAAATAATTTAAAAAATATATATTTAAAAT
*
14121565 TTTAAAAAT-A-ATATTTAAATTTTAAAAAAATAATTTTAAAAATATATATTTAAAAT
1 TTTAAAAATAATATATTTAAATTTT-AAAAAATAATTTAAAAAATATATATTTAAAAT
14121621 TTTAAAAATAATAT
1 TTTAAAAATAATAT
14121635 TATAAAACAT
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
51 3 0.05
52 7 0.12
53 7 0.12
54 2 0.03
55 25 0.42
56 13 0.22
57 1 0.02
58 2 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (57 bp):
TTTAAAAATAATATATTTAAATTTTAAAAAATAATTTAAAAAATATATATTTAAAAT
Found at i:14121599 original size:14 final size:14
Alignment explanation
Indices: 14121582--14121619 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
14121572 ATAATATTTA
14121582 AATTTTAAAAAAAT
1 AATTTTAAAAAAAT
*
14121596 AATTTTAAAAATAT
1 AATTTTAAAAAAAT
14121610 -ATATTTAAAA
1 AAT-TTTAAAA
14121620 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 2 0.09
14 20 0.91
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AATTTTAAAAAAAT
Found at i:14121600 original size:34 final size:37
Alignment explanation
Indices: 14121562--14121641 Score: 123
Period size: 36 Copynumber: 2.3 Consensus size: 37
14121552 TATATATTTA
14121562 AATTTTAAAAATA-ATATTT-AAATTTTAAAAA-AAT
1 AATTTTAAAAATATATATTTAAAATTTTAAAAATAAT
14121596 AATTTTAAAAATATATATTTAAAATTTTAAAAATAAT
1 AATTTTAAAAATATATATTTAAAATTTTAAAAATAAT
*
14121633 -ATTATAAAA
1 AATTTTAAAA
14121642 CATTTAAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
34 13 0.31
35 6 0.14
36 20 0.48
37 3 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (37 bp):
AATTTTAAAAATATATATTTAAAATTTTAAAAATAAT
Found at i:14121623 original size:22 final size:22
Alignment explanation
Indices: 14121596--14121672 Score: 79
Period size: 22 Copynumber: 3.5 Consensus size: 22
14121586 TTAAAAAAAT
14121596 AATTTTAAAAATATATATTTAA
1 AATTTTAAAAATATATATTTAA
14121618 AATTTTAAAAATA-ATATTATAA
1 AATTTTAAAAATATATATT-TAA
* * *
14121640 AACATTT--AAATATATCTTTCA
1 AA-TTTTAAAAATATATATTTAA
14121661 AATTTTATAAAA
1 AATTTTA-AAAA
14121673 CCAATAATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
20 3 0.07
21 14 0.31
22 22 0.49
23 6 0.13
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (22 bp):
AATTTTAAAAATATATATTTAA
Found at i:14121689 original size:11 final size:11
Alignment explanation
Indices: 14121669--14121716 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
14121659 CAAATTTTAT
*
14121669 AAAACCAATAA
1 AAAACAAATAA
*
14121680 TAAACAAATAA
1 AAAACAAATAA
*
14121691 AAAATAAATAA
1 AAAACAAATAA
**
14121702 AGGACAAATAA
1 AAAACAAATAA
14121713 AAAA
1 AAAA
14121717 ACTTAAAAAG
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.75, C:0.08, G:0.04, T:0.12
Consensus pattern (11 bp):
AAAACAAATAA
Found at i:14121698 original size:15 final size:15
Alignment explanation
Indices: 14121678--14121740 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
14121668 TAAAACCAAT
*
14121678 AATAAACAAATAAAA
1 AATAAATAAATAAAA
** *
14121693 AATAAATAAAGGACA
1 AATAAATAAATAAAA
*
14121708 AATAAAAAAACTTAAAA
1 AATAAATAAA--TAAAA
*
14121725 AGTAAATAAATAAAA
1 AATAAATAAATAAAA
14121740 A
1 A
14121741 CTTAAAAAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
15 26 0.72
17 10 0.28
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.16
Consensus pattern (15 bp):
AATAAATAAATAAAA
Found at i:14125140 original size:41 final size:39
Alignment explanation
Indices: 14125095--14125226 Score: 124
Period size: 40 Copynumber: 3.3 Consensus size: 39
14125085 AAACAGGTTT
14125095 TTAGCGGCGTTTGGACAAAAAACGCCACTAAAAATCGAGCA
1 TTAGCGGCGTTT--ACAAAAAACGCCACTAAAAATCGAGCA
** * *
14125136 TTAGCGGCGCTTTACGTAAAACGCCGCTAAAGATCGAGCA
1 TTAGCGGCG-TTTACAAAAAACGCCACTAAAAATCGAGCA
* * * *
14125176 TTAGCGGCGTTT-CTAGGAAAGCGCCGCTAAAAAT-TAGCA
1 TTAGCGGCGTTTAC-A-AAAAACGCCACTAAAAATCGAGCA
*
14125215 TTAGCGGTGTTT
1 TTAGCGGCGTTT
14125227 TTTGGAAAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
38 1 0.01
39 18 0.23
40 47 0.60
41 9 0.12
42 3 0.04
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (39 bp):
TTAGCGGCGTTTACAAAAAACGCCACTAAAAATCGAGCA
Found at i:14125234 original size:39 final size:41
Alignment explanation
Indices: 14125112--14125247 Score: 154
Period size: 40 Copynumber: 3.4 Consensus size: 41
14125102 CGTTTGGACA
* * *
14125112 AAAAACGCCACTAAAAATCGAGCATTAGCGGCGCTT-TACG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTCTAGG
* *
14125152 TAAAACGCCGCTAAAGATCGAGCATTAGCGGCGTTTCTAGG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTCTAGG
* * * * *
14125193 -AAAGCGCCGCTAAAAAT-TAGCATTAGCGGTGTTTTTTGG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTCTAGG
14125232 AAAAACGCCGC-AAAAA
1 AAAAACGCCGCTAAAAA
14125248 GTCTAAGCCC
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 23 0.28
40 56 0.68
41 3 0.04
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTCTAGG
Found at i:14125654 original size:20 final size:21
Alignment explanation
Indices: 14125629--14125669 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
14125619 TTTAATTTAA
14125629 TTAACAT-TATAGTTTAGGGT
1 TTAACATATATAGTTTAGGGT
*
14125649 TTAACATATATGGTTTAGGGT
1 TTAACATATATAGTTTAGGGT
14125670 ATATATAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.29, C:0.05, G:0.22, T:0.44
Consensus pattern (21 bp):
TTAACATATATAGTTTAGGGT
Found at i:14125756 original size:14 final size:14
Alignment explanation
Indices: 14125730--14125831 Score: 62
Period size: 14 Copynumber: 7.2 Consensus size: 14
14125720 GGTTTATAAA
14125730 TTATGGAATTAGGGG
1 TTATGG-ATTAGGGG
*
14125745 TTATGGATTAGGGA
1 TTATGGATTAGGGG
* ** *
14125759 TTCTGTTTTAAGGG
1 TTATGGATTAGGGG
* * *
14125773 TTGT-GATTTAAGGT
1 TTATGGA-TTAGGGG
*
14125787 TTATGGGTTAGGGG
1 TTATGGATTAGGGG
* *
14125801 TTAGGGGTTAGGGG
1 TTATGGATTAGGGG
* *
14125815 TTAGGGGTTAGGGG
1 TTATGGATTAGGGG
14125829 TTA
1 TTA
14125832 GAGTAAGAGT
Statistics
Matches: 70, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
14 63 0.90
15 7 0.10
ACGTcount: A:0.20, C:0.01, G:0.41, T:0.38
Consensus pattern (14 bp):
TTATGGATTAGGGG
Found at i:14125801 original size:7 final size:7
Alignment explanation
Indices: 14125791--14125832 Score: 84
Period size: 7 Copynumber: 6.0 Consensus size: 7
14125781 TAAGGTTTAT
14125791 GGGTTAG
1 GGGTTAG
14125798 GGGTTAG
1 GGGTTAG
14125805 GGGTTAG
1 GGGTTAG
14125812 GGGTTAG
1 GGGTTAG
14125819 GGGTTAG
1 GGGTTAG
14125826 GGGTTAG
1 GGGTTAG
14125833 AGTAAGAGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.14, C:0.00, G:0.57, T:0.29
Consensus pattern (7 bp):
GGGTTAG
Found at i:14125902 original size:34 final size:34
Alignment explanation
Indices: 14125840--14125904 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
14125830 TAGAGTAAGA
* *
14125840 GTTAGGGATTTAGGGTTTATATATTTAGTGTTAG
1 GTTAGGGATTTAGGGTTTAGATAATTAGTGTTAG
14125874 GTTAGGG-TTTAGGGTTTAGATTAATTAGTGT
1 GTTAGGGATTTAGGGTTTAGA-TAATTAGTGT
14125905 GTTTTAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 12 0.43
34 16 0.57
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (34 bp):
GTTAGGGATTTAGGGTTTAGATAATTAGTGTTAG
Found at i:14126062 original size:21 final size:21
Alignment explanation
Indices: 14126013--14126067 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
14126003 CTATATTAAA
*
14126013 TAAGGTTTAGAGGTTAGTGGTT
1 TAAGGTTTAGA-GTTAGTGATT
** *
14126035 TGGGGTTAAGAGTTAGTGATT
1 TAAGGTTTAGAGTTAGTGATT
14126056 TAAGGTTTAGAG
1 TAAGGTTTAGAG
14126068 ATTCGAGGTC
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.38
Consensus pattern (21 bp):
TAAGGTTTAGAGTTAGTGATT
Found at i:14126462 original size:17 final size:16
Alignment explanation
Indices: 14126429--14126462 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14126419 ATATTAGATT
*
14126429 TAAAAAAATTAATAAA
1 TAAAAAAATTAACAAA
14126445 TAAAAAAATGTAACAAA
1 TAAAAAAAT-TAACAAA
14126462 T
1 T
14126463 TGATACGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
TAAAAAAATTAACAAA
Found at i:14126773 original size:27 final size:27
Alignment explanation
Indices: 14126715--14126776 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
14126705 ATTTTTCTTT
* ***
14126715 AAAAAAATCAATTTATAAAAACGCCGC
1 AAAAAAATCAATTTATAAAAACACAAA
14126742 AAAAAAATCAATTTATAAAAA-ACAAA
1 AAAAAAATCAATTTATAAAAACACAAA
14126768 ATAAAAAAT
1 A-AAAAAAT
14126777 TAATAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.07
27 28 0.93
ACGTcount: A:0.66, C:0.11, G:0.03, T:0.19
Consensus pattern (27 bp):
AAAAAAATCAATTTATAAAAACACAAA
Found at i:14127037 original size:41 final size:41
Alignment explanation
Indices: 14126980--14127066 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 41
14126970 AAGTTCTACG
* *
14126980 ATTTTGGGCCGACTTTGTTATATGGGCATATCCATATAAAA
1 ATTTTGGGCCCACTTTGTTATACGGGCATATCCATATAAAA
*
14127021 ATTTTGGGCCCACTTTGTTATACGGGCTTATCCATATAAAA
1 ATTTTGGGCCCACTTTGTTATACGGGCATATCCATATAAAA
14127062 ATTTT
1 ATTTT
14127067 CTCCATATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (41 bp):
ATTTTGGGCCCACTTTGTTATACGGGCATATCCATATAAAA
Found at i:14131050 original size:43 final size:42
Alignment explanation
Indices: 14130990--14131143 Score: 195
Period size: 43 Copynumber: 3.6 Consensus size: 42
14130980 ATAATTTTTT
* * * ** * *
14130990 TAAAGGT-TTTGTTTTTAGCGGTGTTTTTGCTAGAAGTGCCGT
1 TAAAGGTCTTGGTTTTTAGCGGCGTTTGTGGGA-AAGCGCCGC
14131032 TAAAGGTCTTGGTTTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCTTGGTTTTTAGCGGCGTTTGTGGG-AAAGCGCCGC
*
14131075 TAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAGCGCCGC
1 TAAAGGTCTTGGTTTTTAGCGGCGTTTGTGGGAAAGCGCCGC
14131117 TAAAGGTC-TGGTTCTTTAGCGGCGTTT
1 TAAAGGTCTTGGTT-TTTAGCGGCGTTT
14131144 ATTTCTAAAA
Statistics
Matches: 100, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
41 4 0.04
42 38 0.38
43 57 0.57
44 1 0.01
ACGTcount: A:0.17, C:0.15, G:0.32, T:0.36
Consensus pattern (42 bp):
TAAAGGTCTTGGTTTTTAGCGGCGTTTGTGGGAAAGCGCCGC
Found at i:14134845 original size:15 final size:15
Alignment explanation
Indices: 14134825--14134856 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
14134815 CTTATTTGAT
14134825 TACTAGTTCACCAGG
1 TACTAGTTCACCAGG
14134840 TACTAGTTCACCAGG
1 TACTAGTTCACCAGG
14134855 TA
1 TA
14134857 AGTTCATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (15 bp):
TACTAGTTCACCAGG
Found at i:14134862 original size:13 final size:14
Alignment explanation
Indices: 14134829--14134862 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
14134819 TTTGATTACT
14134829 AGTTCACCAGGTAC
1 AGTTCACCAGGTAC
14134843 TAGTTCACCAGGTA-
1 -AGTTCACCAGGTAC
14134857 AGTTCA
1 AGTTCA
14134863 TATGGAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
15 13 0.68
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (14 bp):
AGTTCACCAGGTAC
Found at i:14142012 original size:12 final size:12
Alignment explanation
Indices: 14141995--14142025 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
14141985 GGTTTTTTTA
14141995 TGTTTTTAAATT
1 TGTTTTTAAATT
14142007 TGTTTTTAAATT
1 TGTTTTTAAATT
*
14142019 TATTTTT
1 TGTTTTT
14142026 CATTTCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (12 bp):
TGTTTTTAAATT
Found at i:14142967 original size:98 final size:98
Alignment explanation
Indices: 14142838--14143030 Score: 343
Period size: 98 Copynumber: 2.0 Consensus size: 98
14142828 AAATAATAAA
* * *
14142838 GGAAATATTCCGAGTTTGGGGTTTTGAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTTAA
1 GGAAATATTCCGAGTTTGGGATTTTGAAGGAATCGTACCCTAACGTATTGGGTGTGATTTCTTAA
14142903 ATCTTGGATAAGTGGATGTTCTTTTAAAGTAAT
66 ATCTTGGATAAGTGGATGTTCTTTTAAAGTAAT
14142936 GGAAATATTCCGAGTTTGGGATTTT-AGAGGAATCGTACCCTAACGTATTGGGTGTGATTTCTTA
1 GGAAATATTCCGAGTTTGGGATTTTGA-AGGAATCGTACCCTAACGTATTGGGTGTGATTTCTTA
14143000 AATCTTGGATAAGTGGATGTTCTTTTAAAGT
65 AATCTTGGATAAGTGGATGTTCTTTTAAAGT
14143031 TTTATTACAC
Statistics
Matches: 91, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
97 1 0.01
98 90 0.99
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.38
Consensus pattern (98 bp):
GGAAATATTCCGAGTTTGGGATTTTGAAGGAATCGTACCCTAACGTATTGGGTGTGATTTCTTAA
ATCTTGGATAAGTGGATGTTCTTTTAAAGTAAT
Found at i:14143424 original size:23 final size:23
Alignment explanation
Indices: 14143398--14144010 Score: 90
Period size: 23 Copynumber: 26.3 Consensus size: 23
14143388 ACAAATTTGG
*
14143398 ACAGCACT-TATACATAAAATATA
1 ACAGCA-TGTATACACAAAATATA
* *
14143421 ACAGCATGTATATACAAAATTTA
1 ACAGCATGTATACACAAAATATA
* *
14143444 ACAGCAT-TGATTCACCAAAAT-TGG
1 ACAGCATGT-ATACA-CAAAATAT-A
* ** * * *
14143468 GCAGCATACATATAC-AAATTTGG
1 ACAGCATGTATACACAAAATAT-A
14143491 ACAGCACT-TATACACAAAATATA
1 ACAGCA-TGTATACACAAAATATA
** * *
14143514 ACAGCATGTATGTACAAAATTTG
1 ACAGCATGTATACACAAAATATA
*
14143537 ACAGCATTGCT-T-CACCAAAAT-TGG
1 ACAGCA-TG-TATACA-CAAAATAT-A
* ** * *
14143561 GCAGCATACATACAC-AAATTTGG
1 ACAGCATGTATACACAAAATAT-A
*
14143584 ACAGCACT-TATACACAAAATTTA
1 ACAGCA-TGTATACACAAAATATA
* *
14143607 ACAGCATGTATATACAAAAT-TGG
1 ACAGCATGTATACACAAAATAT-A
* *
14143630 ACAGCAT-TGATTCACCAAAAT-TGG
1 ACAGCATGT-ATACA-CAAAATAT-A
* ** ** * *
14143654 GCAGCATACATTTAC-AAATTTGG
1 ACAGCATGTATACACAAAATAT-A
*
14143677 ACAGAACT-TATACACAAAATATA
1 ACAGCA-TGTATACACAAAATATA
* * *
14143700 ACAACATGTATATACAAAAT-TGG
1 ACAGCATGTATACACAAAATAT-A
* *
14143723 ACAGCATTTATTCACCCAAAAT-TA
1 ACAGCATGTA-T-ACACAAAATATA
* ** * *
14143747 GGCAGCATACATACAC-AAATTTGG
1 -ACAGCATGTATACACAAAATAT-A
* *
14143771 ACAGCATTTATACACAAAATTTA
1 ACAGCATGTATACACAAAATATA
* *
14143794 ACAGCATGTATATACAAAAT-TGG
1 ACAGCATGTATACACAAAATAT-A
* *
14143817 ACAGCAT-TGATTCACCAAAAT-TGG
1 ACAGCATGT-ATACA-CAAAATAT-A
* ** * * *
14143841 GCAGCATACATATAC-AAATTTGG
1 ACAGCATGTATACACAAAATAT-A
14143864 ACAGCACT-TATACACAAAATATA
1 ACAGCA-TGTATACACAAAATATA
* *
14143887 ACAGCATGTATATACAAAAT-TGG
1 ACAGCATGTATACACAAAATAT-A
* *
14143910 ACAGCATTTATTCACCCAAAAT-TA
1 ACAGCATGTA-T-ACACAAAATATA
* ** * *
14143934 GGCAGCATACATACAC-AAATTTGG
1 -ACAGCATGTATACACAAAATAT-A
* * *
14143958 ACAACATTTATACACAAAATTTA
1 ACAGCATGTATACACAAAATATA
* * * *
14143981 ACAGCATGTATATATAAAATTTG
1 ACAGCATGTATACACAAAATATA
14144004 ACAGCAT
1 ACAGCAT
14144011 TGATTTATCA
Statistics
Matches: 448, Mismatches: 93, Indels: 98
0.70 0.15 0.15
Matches are distributed among these distances:
22 36 0.08
23 271 0.60
24 110 0.25
25 31 0.07
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.26
Consensus pattern (23 bp):
ACAGCATGTATACACAAAATATA
Found at i:14143491 original size:93 final size:93
Alignment explanation
Indices: 14143380--14144041 Score: 1063
Period size: 93 Copynumber: 7.1 Consensus size: 93
14143370 CTAAATATAC
* **
14143380 TACATATTACAAATTTGGACAGCACTTATACATAAAATATAACAGCATGTATATACAAAATTTAA
1 TACATA-TACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTGGA
14143445 CAGCATTGATTCACCAAAATTGGGCAGCA
65 CAGCATTGATTCACCAAAATTGGGCAGCA
* *
14143474 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATGTACAAAATTTGAC
1 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTGGAC
*
14143539 AGCATTGCTTCACCAAAATTGGGCAGCA
66 AGCATTGATTCACCAAAATTGGGCAGCA
* *
14143567 TACATACACAAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGAC
1 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTGGAC
14143632 AGCATTGATTCACCAAAATTGGGCAGCA
66 AGCATTGATTCACCAAAATTGGGCAGCA
* * *
14143660 TACATTTACAAATTTGGACAGAACTTATACACAAAATATAACAACATGTATATACAAAATTGGAC
1 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTGGAC
* *
14143725 AGCATTTATTCACCCAAAATTAGGCAGCA
66 AGCATTGATTCA-CCAAAATTGGGCAGCA
* * *
14143754 TACATACACAAATTTGGACAGCATTTATACACAAAATTTAACAGCATGTATATACAAAATTGGAC
1 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTGGAC
14143819 AGCATTGATTCACCAAAATTGGGCAGCA
66 AGCATTGATTCACCAAAATTGGGCAGCA
14143847 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTGGAC
1 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTGGAC
* *
14143912 AGCATTTATTCACCCAAAATTAGGCAGCA
66 AGCATTGATTCA-CCAAAATTGGGCAGCA
* * * * * *
14143941 TACATACACAAATTTGGACAACATTTATACACAAAATTTAACAGCATGTATATATAAAATTTGAC
1 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTGGAC
* *
14144006 AGCATTGATTTATCAAAATTGGGCAGCA
66 AGCATTGATTCACCAAAATTGGGCAGCA
14144034 TACATATA
1 TACATATA
14144042 ACAATTGGGC
Statistics
Matches: 526, Mismatches: 40, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
93 351 0.67
94 175 0.33
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (93 bp):
TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTGGAC
AGCATTGATTCACCAAAATTGGGCAGCA
Found at i:14143835 original size:187 final size:187
Alignment explanation
Indices: 14143388--14144041 Score: 1130
Period size: 187 Copynumber: 3.5 Consensus size: 187
14143378 ACTACATATT
* * **
14143388 ACAAATTTGGACAGCACTTATACATAAAATATAACAGCATGTATATACAAAATTTAACAGCATTG
1 ACAAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTG
14143453 ATTCACCAAAATTGGGCAGCATACATATACAAATTTGGACAGCACTTATACACAAAATATAACAG
66 ATTCACCAAAATTGGGCAGCATACATATACAAATTTGGACAGCACTTATACACAAAATATAACAG
* * ** *
14143518 CATGTATGTACAAAATTTGACAGCATTGCTTCA-CCAAAATTGGGCAGCATACATAC
131 CATGTATATACAAAATTGGACAGCATTTATTCACCCAAAATTAGGCAGCATACATAC
14143574 ACAAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTG
1 ACAAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTG
* * *
14143639 ATTCACCAAAATTGGGCAGCATACATTTACAAATTTGGACAGAACTTATACACAAAATATAACAA
66 ATTCACCAAAATTGGGCAGCATACATATACAAATTTGGACAGCACTTATACACAAAATATAACAG
14143704 CATGTATATACAAAATTGGACAGCATTTATTCACCCAAAATTAGGCAGCATACATAC
131 CATGTATATACAAAATTGGACAGCATTTATTCACCCAAAATTAGGCAGCATACATAC
*
14143761 ACAAATTTGGACAGCATTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTG
1 ACAAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTG
14143826 ATTCACCAAAATTGGGCAGCATACATATACAAATTTGGACAGCACTTATACACAAAATATAACAG
66 ATTCACCAAAATTGGGCAGCATACATATACAAATTTGGACAGCACTTATACACAAAATATAACAG
14143891 CATGTATATACAAAATTGGACAGCATTTATTCACCCAAAATTAGGCAGCATACATAC
131 CATGTATATACAAAATTGGACAGCATTTATTCACCCAAAATTAGGCAGCATACATAC
* * * *
14143948 ACAAATTTGGACAACATTTATACACAAAATTTAACAGCATGTATATATAAAATTTGACAGCATTG
1 ACAAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTG
* *
14144013 ATTTATCAAAATTGGGCAGCATACATATA
66 ATTCACCAAAATTGGGCAGCATACATATA
14144042 ACAATTGGGC
Statistics
Matches: 446, Mismatches: 21, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
186 152 0.34
187 294 0.66
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (187 bp):
ACAAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTG
ATTCACCAAAATTGGGCAGCATACATATACAAATTTGGACAGCACTTATACACAAAATATAACAG
CATGTATATACAAAATTGGACAGCATTTATTCACCCAAAATTAGGCAGCATACATAC
Found at i:14144811 original size:28 final size:28
Alignment explanation
Indices: 14144779--14144905 Score: 182
Period size: 28 Copynumber: 4.5 Consensus size: 28
14144769 ATTTAATAAG
* * *
14144779 CTCGCACACTTAGTGCTCAATAATCAAA
1 CTCGCACACTTAGTGCTCTACAATTAAA
* *
14144807 CTCGCACACTTAGTGCTTTACCATTAAA
1 CTCGCACACTTAGTGCTCTACAATTAAA
14144835 CTCGCACACTTAGTGCTCTACAATTAAA
1 CTCGCACACTTAGTGCTCTACAATTAAA
* *
14144863 CTCGCACACTTAGTGCTTTATAATTAAA
1 CTCGCACACTTAGTGCTCTACAATTAAA
*
14144891 TTCGCACACTTAGTG
1 CTCGCACACTTAGTG
14144906 TCGAAAATCA
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 89 1.00
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.31
Consensus pattern (28 bp):
CTCGCACACTTAGTGCTCTACAATTAAA
Found at i:14157500 original size:44 final size:43
Alignment explanation
Indices: 14157360--14157945 Score: 318
Period size: 44 Copynumber: 13.5 Consensus size: 43
14157350 CCGATAATCC
* * * * **
14157360 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAA-AACCTTGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAATC-AAG-TCT
* * * * * *
14157404 TATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCTAGTAT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAATCAAGTCT
14157444 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAATCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AATCAAGTCT
* *
14157488 TATC-CTCCTGAAGTTGCAATGGGGGCAGACTGAAG-ATGGCAAGTCT
1 TATCTC-CCTGAAGTTGCAGT-GGAGCAGACT-AAGAAT--CAAGTCT
* * * *
14157534 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAA-AGTCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAATC-A-AGTCT
* * * *
14157578 TATCTCCCTGAAGTTGCAGTGGAGCGGATTTA-AACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAATCA-AG-TCT
* * * * *
14157622 TATCTCTCTGAAGTTGCAG-AGAGCAGA-TCA-CATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAATCAAGTCT
* * *
14157662 TATCTCCCTGAAGATGCAGTGGAGCAGACTAAGCAAGCAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AATCAAGTCT
* *
14157706 TATC-CTCCTGAAGTTGCAGT-GAGGCAGACTAA-AGATGGAAAATCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGACTAAGA-AT--CAAGTCT
* * * * * *
14157751 TGTCTCTCTGAAGTTGCAATGGAGCAGATTAAAGCCGA-CAA-TCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG--AATCAAGTCT
* * *
14157795 TATCTCCCTGAAGTTGCAATGGA-CTGGATTAA-AACCTC-AGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGC-AGACTAAGAA--TCAAG-TCT
* * * * *
14157839 TATCTCTCTGAAGTTGCAGAGG-GCAGA-T-CGCATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAATCAAGTCT
* *
14157879 TATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGAACGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAA-TCAAGTCT
*
14157924 TATC-CCCTTGAAATTGCAGTGG
1 TATCTCCC-TGAAGTTGCAGTGG
14157946 GGGTAGACTA
Statistics
Matches: 422, Mismatches: 75, Indels: 89
0.72 0.13 0.15
Matches are distributed among these distances:
40 67 0.16
41 25 0.06
42 16 0.04
43 27 0.06
44 186 0.44
45 67 0.16
46 32 0.08
47 1 0.00
48 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAATCAAGTCT
Found at i:14157588 original size:90 final size:87
Alignment explanation
Indices: 14157443--14157908 Score: 292
Period size: 84 Copynumber: 5.4 Consensus size: 87
14157433 GCATCTAGTA
*
14157443 TTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGT-AATCAAGTCTTATC-CTCCTGAAGTTGC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGTCGAT-AA-TCTTATCTC-CCTGAAGTTGC
*
14157505 AATGGGGGCAGACTGAAGATGGCAAGTC
63 AAT-GGAGCAGACT-AAGA-GGCAAGTC
* * *
14157533 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCCTATCTCCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGTCGATAATCTTATCTCCCTGAAGTTGCAAT
* * *
14157598 GGAGCGGATTTAA-A-CCACAGATC
66 GGAGCAGA-CTAAGAGGCA-AG-TC
* * * * * *
14157621 TTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCACA-TC--TAGTCTTATCTCCCTGAAGATGCAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAGTCGATAATCTTATCTCCCTGAAGTTGCAA
* *
14157681 TGGAGCAGACTAAGCAAGCAGGTC
65 TGGAGCAGACTAAG-AGGCAAGTC
* * * *
14157705 TTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTAAAGATGGAAAATCTTGTCTCTCTGAAGTTGC
1 TTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTAAAG-TCGATAATCTTATCTCCCTGAAGTTGC
*
14157768 AATGGAGCAGATTAA-AGCCGACAA-TC
63 AATGGAGCAGACTAAGAG--G-CAAGTC
* * * * * * *
14157794 CTATCTCCCTGAAGTTGCAATGGA-CTGGATTAAAACCTC-A-GATCTTATCTCTCTGAAGTTGC
1 TTATCTCCCTGAAGTTGCAGTGGAGC-AGACT-AAA-GTCGATAATCTTATCTCCCTGAAGTTGC
* * *
14157856 AGA-GG-GCAGA-T-CGCA-TCTAGTC
63 A-ATGGAGCAGACTAAG-AGGCAAGTC
*
14157878 TTATCTCTCTGAAGTTGCAGTGGAGCAGACT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACT
14157909 GAAGAACGCA
Statistics
Matches: 299, Mismatches: 46, Indels: 68
0.72 0.11 0.16
Matches are distributed among these distances:
83 6 0.02
84 77 0.26
85 10 0.03
86 9 0.03
87 19 0.06
88 46 0.15
89 64 0.21
90 59 0.20
91 7 0.02
92 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (87 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGTCGATAATCTTATCTCCCTGAAGTTGCAAT
GGAGCAGACTAAGAGGCAAGTC
Found at i:14157623 original size:134 final size:127
Alignment explanation
Indices: 14157444--14157689 Score: 298
Period size: 134 Copynumber: 1.9 Consensus size: 127
14157434 CATCTAGTAT
*
14157444 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAATCAAGTCTTATC-CTCCTGAAGTTGCAAT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AACCAAGTCTTATCTCT-CTGAAGTTGC-A-
* * * *
14157508 GGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
62 GAGAGCAGA-T-AACAT--CAAGTCTTATCTCCCTGAAGATGCAGTGGAGCAGATTAAAGTCGAT
14157573 AATCC
123 AATCC
* * *
14157578 TATCTCCCTGAAGTTGCAGTGGAGCGGATTTA-AACCACAGATCTTATCTCTCTGAAGTTGCAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAACCA-AG-TCTTATCTCTCTGAAGTTGCAGA
* *
14157642 GAGCAGATCACATCTAGTCTTATCTCCCTGAAGATGCAGTGGAGCAGA
64 GAGCAGATAACATCAAGTCTTATCTCCCTGAAGATGCAGTGGAGCAGA
14157690 CTAAGCAAGC
Statistics
Matches: 99, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
128 33 0.33
130 3 0.03
131 1 0.01
132 11 0.11
133 3 0.03
134 46 0.46
135 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (127 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAACCAAGTCTTATCTCTCTGAAGTTGCAGAGA
GCAGATAACATCAAGTCTTATCTCCCTGAAGATGCAGTGGAGCAGATTAAAGTCGATAATCC
Found at i:14157808 original size:173 final size:177
Alignment explanation
Indices: 14157444--14157812 Score: 418
Period size: 173 Copynumber: 2.1 Consensus size: 177
14157434 CATCTAGTAT
* *
14157444 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAATCAAGTCTTATCCTCCTGAAGTTGCAATG
1 TATCTCCCTGAAGTTGCAGTAGAGCAGACTAAG-AATCAAGTCTTATCCTCCTGAAGATGCAATG
* * * *
14157509 GGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATA
65 GGAGCAGACTGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGTCGAAA
* * *
14157574 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTTAAACCACAGATCT
130 ATCCTATCTCCCTGAAGTTGCAATGGAGCAGATTTAAACCACAGATCC
* * * * *
14157622 TATCTCTCTGAAGTTGCAG-AGAGCAGA-TCA-CATCTAGTCTTAT-CTCCCTGAAGATGCAGT-
1 TATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGAATCAAGTCTTATCCT-CCTGAAGATGCAATG
* *
14157682 GGAGCAGACT-AAGCA-AGCAGGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTAAAGATG
65 GGAGCAGACTGAAG-ATAGCAAGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTAAAG-TC
* * *
14157743 GAAAATCTTGTCTCTCTGAAGTTGCAATGGAGCAGA-TTAAAGCCGACA-ATCC
126 GAAAATCCTATCTCCCTGAAGTTGCAATGGAGCAGATTTAAA-CC-ACAGATCC
14157795 TATCTCCCTGAAGTTGCA
1 TATCTCCCTGAAGTTGCA
14157813 ATGGACTGGA
Statistics
Matches: 164, Mismatches: 20, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
171 3 0.02
172 43 0.26
173 65 0.40
174 26 0.16
176 2 0.01
177 7 0.04
178 18 0.11
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (177 bp):
TATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGAATCAAGTCTTATCCTCCTGAAGATGCAATGG
GAGCAGACTGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGTCGAAAA
TCCTATCTCCCTGAAGTTGCAATGGAGCAGATTTAAACCACAGATCC
Found at i:14157867 original size:217 final size:216
Alignment explanation
Indices: 14157346--14157944 Score: 905
Period size: 218 Copynumber: 2.8 Consensus size: 216
14157336 CAAACAGAAG
* **
14157346 AAAGCCGATAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCT
1 AAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAGATCTTATCTCT
*
14157411 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTATTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
66 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
* * * * * *
14157476 GTAATCAAGTCTTATCCTCCTGAAGTTGCAATGGGGGCAGACTGAAGATGGCAAGTCTTATCTCC
131 G-AAGCAAGTCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACTAAAGATGGAAAATCTTATCTCC
*
14157541 CTGAAGTTGCAGTGGAGCAGATT
194 CTGAAGTTGCAATGGAGCAGATT
* * *
14157564 AAAGTCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTTAAACCACAGATCTTATCTCT
1 AAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAGATCTTATCTCT
* *
14157629 CTGAAGTTGCAGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGATGCAGTGGAGCAGACTAA
66 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
* * *
14157694 GCAAGCAGGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGAAAATCTTGTCTCTC
131 G-AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGAAAATCTTATCTCCC
14157759 TGAAGTTGCAATGGAGCAGATT
195 TGAAGTTGCAATGGAGCAGATT
* *
14157781 AAAGCCGACAATCCTATCTCCCTGAAGTTGCAATGGA-CTGGATTAAAACCTCAGATCTTATCTC
1 AAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGC-GGATTAAAACCTCAGATCTTATCTC
* *
14157845 TCTGAAGTTGCAGAGGGCAGATCGCATCTAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTG
65 TCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-
*
14157910 AAGAACGCAAGTCTTATCC-CCTTGAAATTGCAGTG
129 AAGAA-GCAAGTCTTATCCTCC-TGAAGTTGCAGTG
14157945 GGGGTAGACT
Statistics
Matches: 346, Mismatches: 31, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
216 1 0.00
217 169 0.49
218 176 0.51
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (216 bp):
AAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAGATCTTATCTCT
CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
GAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGAAAATCTTATCTCCCT
GAAGTTGCAATGGAGCAGATT
Found at i:14159145 original size:12 final size:12
Alignment explanation
Indices: 14159130--14159160 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
14159120 TTTTTTTTTA
14159130 TGTTTTTAAATT
1 TGTTTTTAAATT
14159142 TGTTTTTAAATT
1 TGTTTTTAAATT
*
14159154 TATTTTT
1 TGTTTTT
14159161 CATTTCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (12 bp):
TGTTTTTAAATT
Found at i:14160114 original size:98 final size:98
Alignment explanation
Indices: 14159974--14160170 Score: 342
Period size: 98 Copynumber: 2.0 Consensus size: 98
14159964 TAAAAAATAA
* ** *
14159974 TAAAGGAAATATTCCGAGTTTGGGGTTTTGAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGAATTTTGAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
14160039 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
14160072 TAAAGGAAATATTCCAAGTTTGGAATTTTAGAA-GAATCGTGCCCTAACGTATTGGGTGTGATTT
1 TAAAGGAAATATTCCAAGTTTGGAATTTT-GAAGGAATCGTGCCCTAACGTATTGGGTGTGATTT
14160136 CTTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
65 CTTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
14160170 T
1 T
14160171 TTTATTACAC
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
98 91 0.97
99 3 0.03
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTGGAATTTTGAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:14160960 original size:22 final size:22
Alignment explanation
Indices: 14160934--14160979 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
14160924 TGATTTTTAT
*
14160934 AAATAAAAGAGTTAAAAATAAA
1 AAATAAAAGAATTAAAAATAAA
* **
14160956 AAATACATTAATTAAAAATAAA
1 AAATAAAAGAATTAAAAATAAA
14160978 AA
1 AA
14160980 TAATTAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (22 bp):
AAATAAAAGAATTAAAAATAAA
Found at i:14164633 original size:20 final size:20
Alignment explanation
Indices: 14164592--14164629 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14164582 AATCGTAAAT
*
14164592 TGAGCCCAAGAGCCCAAAAC
1 TGAGACCAAGAGCCCAAAAC
14164612 TGAGACCAAGA-CCCAAAA
1 TGAGACCAAGAGCCCAAAA
14164630 ACTGGTCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.45, C:0.32, G:0.18, T:0.05
Consensus pattern (20 bp):
TGAGACCAAGAGCCCAAAAC
Found at i:14164935 original size:25 final size:23
Alignment explanation
Indices: 14164907--14164998 Score: 69
Period size: 25 Copynumber: 3.8 Consensus size: 23
14164897 AAAAATAATA
14164907 TTATTTTAATAGTTTAATATTAAAT
1 TTATTTTAATA-TTT-ATATTAAAT
* *
14164932 TTATTTTAATACTTATCTTAATAGT
1 TTATTTTAATATTTATATTAA-A-T
* *
14164957 TTTTTATTAAT-TTGATATTAAAT
1 TTATT-TTAATATTTATATTAAAT
* * *
14164980 TTAATTTAATGTGTATATT
1 TTATTTTAATATTTATATT
14164999 GTAGATAAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
22 5 0.09
23 16 0.30
24 4 0.08
25 23 0.43
26 5 0.09
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (23 bp):
TTATTTTAATATTTATATTAAAT
Found at i:14177457 original size:17 final size:17
Alignment explanation
Indices: 14177415--14177461 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
14177405 AATTCAATTT
14177415 TAATATAAAT-ATTCAA
1 TAATATAAATAATTCAA
*
14177431 T-ATGACTAAATAATTCGA
1 TAAT-A-TAAATAATTCAA
14177449 TAATATAAATAAT
1 TAATATAAATAAT
14177462 ATAAAATGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
15 2 0.08
16 2 0.08
17 13 0.50
18 7 0.27
19 2 0.08
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.36
Consensus pattern (17 bp):
TAATATAAATAATTCAA
Found at i:14177756 original size:30 final size:31
Alignment explanation
Indices: 14177717--14177776 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
14177707 GGAGATGGGA
*
14177717 TGGGAAGGGAATAAAAGTTTTAGGG-GAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGGAGAAAAG
14177748 TGGG-AGGGAATAAAAATTTTGGGAGAAAA
1 TGGGAAGGGAATAAAAATTTTGGGAGAAAA
14177777 CAAAAGGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 3 0.11
30 20 0.74
31 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGGAGAAAAG
Found at i:14178422 original size:8 final size:8
Alignment explanation
Indices: 14178386--14178423 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
14178376 ATATAATTTT
14178386 TAAAAATA
1 TAAAAATA
14178394 T-AAAATA
1 TAAAAATA
14178401 TAAAGAATTA
1 TAAA-AA-TA
14178411 TAAAAATA
1 TAAAAATA
14178419 TAAAA
1 TAAAA
14178424 TTTTATAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
7 7 0.26
8 10 0.37
9 4 0.15
10 6 0.22
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (8 bp):
TAAAAATA
Done.