Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 83 of 130
Found at i:16585839 original size:30 final size:31
Alignment explanation
Indices: 16585804--16585865 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
16585794 TTACAAGTGA
16585804 TAAATTTTTATATAT-ATTTTTTATTATAAT
1 TAAATTTTTATATATAATTTTTTATTATAAT
*
16585834 TAAATTTTTTTATATAATTTTTTATTATAAT
1 TAAATTTTTATATATAATTTTTTATTATAAT
16585865 T
1 T
16585866 GAATAATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 14 0.47
31 16 0.53
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (31 bp):
TAAATTTTTATATATAATTTTTTATTATAAT
Found at i:16585842 original size:18 final size:17
Alignment explanation
Indices: 16585819--16585865 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 17
16585809 TTTTATATAT
16585819 ATTTTTTATTATAATTA
1 ATTTTTTATTATAATTA
*
16585836 AATTTTT-TTAT-A-TA
1 ATTTTTTATTATAATTA
16585850 ATTTTTTATTATAATT
1 ATTTTTTATTATAATT
16585866 GAATAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 8 0.32
15 5 0.20
16 5 0.20
17 7 0.28
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTTTTATTATAATTA
Found at i:16586588 original size:20 final size:22
Alignment explanation
Indices: 16586565--16586604 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
16586555 GATAATTTTC
16586565 TTAATTTTT-TTTGA-AAAAAA
1 TTAATTTTTATTTGATAAAAAA
16586585 TTAATTTTTATTTGATAAAA
1 TTAATTTTTATTTGATAAAA
16586605 TGAAAATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 5 0.28
22 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (22 bp):
TTAATTTTTATTTGATAAAAAA
Found at i:16587582 original size:36 final size:36
Alignment explanation
Indices: 16587507--16587587 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
16587497 TTTTAGAGTC
* ** *
16587507 TAGGGTTTACATTTGGTTTAAGGTTTTGGTTACGTT
1 TAGGGTTTACATTTAGTTTAAGGTTTTGACTACGGT
* *
16587543 TAGGGTTTA-AGTTTAGTTTAGGGTTTTGACTATGGT
1 TAGGGTTTACA-TTTAGTTTAAGGTTTTGACTACGGT
16587579 TAGGGTTTA
1 TAGGGTTTA
16587588 GGGTTCGACT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 1 0.03
36 37 0.97
ACGTcount: A:0.19, C:0.04, G:0.30, T:0.48
Consensus pattern (36 bp):
TAGGGTTTACATTTAGTTTAAGGTTTTGACTACGGT
Found at i:16587652 original size:21 final size:21
Alignment explanation
Indices: 16587626--16587667 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
16587616 TCTAGGTTTG
*
16587626 GGATTTGACTTTGAGGTTTTA
1 GGATTTGACTTTGAGATTTTA
*
16587647 GGATTTGACTTTTAGATTTTA
1 GGATTTGACTTTGAGATTTTA
16587668 AAGTTGACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.24, T:0.50
Consensus pattern (21 bp):
GGATTTGACTTTGAGATTTTA
Found at i:16587729 original size:20 final size:19
Alignment explanation
Indices: 16587690--16587927 Score: 93
Period size: 20 Copynumber: 11.6 Consensus size: 19
16587680 AAATTTAAGA
* *
16587690 TTTGACTTTTGG-TCTAGG
1 TTTGACTTTGGGTTTTAGG
16587708 TTTGACTTTAGGGTTTTAGG
1 TTTGACTTT-GGGTTTTAGG
* *
16587728 TTTTGCCTTAGGGTTTAGGGTTAGAG
1 -TTTGACTTTGGG-TT----TTAG-G
**
16587754 TTTGACTTTTATGTTTTAGTG
1 TTTGAC-TTTGGGTTTTAG-G
*
16587775 TTTGACTTTGGGGTTTAGGG
1 TTTGACTTTGGGTTTTA-GG
* * *
16587795 ATTGGCTTTTGGGTTTAAGG
1 TTTGAC-TTTGGGTTTTAGG
* * *
16587815 TTTAATTTTGGGATTTAAGG
1 TTTGACTTTGGG-TTTTAGG
* *
16587835 TTTAACTTTTGGTGTTTAGG
1 TTTGACTTTGGGT-TTTAGG
* **
16587855 ATTTCACTTTGGAGTTCAAGG
1 -TTTGACTTTGG-GTTTTAGG
* *
16587876 -TTGACCTTGGATTTTAGAG
1 TTTGACTTTGGGTTTTAG-G
*
16587895 TTTGACTTTTAGGTTTTAGGG
1 TTTGAC-TTTGGGTTTTA-GG
*
16587916 TTTGATTTTGGG
1 TTTGACTTTGGG
16587928 GTATAAGATT
Statistics
Matches: 163, Mismatches: 37, Indels: 38
0.68 0.16 0.16
Matches are distributed among these distances:
18 13 0.08
19 18 0.11
20 57 0.35
21 57 0.35
22 3 0.02
25 11 0.07
26 4 0.02
ACGTcount: A:0.16, C:0.06, G:0.29, T:0.49
Consensus pattern (19 bp):
TTTGACTTTGGGTTTTAGG
Found at i:16600968 original size:11 final size:11
Alignment explanation
Indices: 16600952--16600980 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
16600942 GGGTAATAAA
16600952 AAAATTTCTAG
1 AAAATTTCTAG
16600963 AAAATTTCTAG
1 AAAATTTCTAG
16600974 AAAATTT
1 AAAATTT
16600981 TTAAATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (11 bp):
AAAATTTCTAG
Found at i:16600988 original size:19 final size:19
Alignment explanation
Indices: 16600964--16601001 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
16600954 AATTTCTAGA
16600964 AAATTTCTAG-AAAATTTTT
1 AAATTT-TAGCAAAATTTTT
*
16600983 AAATTTTGGCAAAATTTTT
1 AAATTTTAGCAAAATTTTT
16601002 CAGCGTCAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.47
Consensus pattern (19 bp):
AAATTTTAGCAAAATTTTT
Found at i:16601851 original size:189 final size:192
Alignment explanation
Indices: 16601564--16601922 Score: 437
Period size: 189 Copynumber: 1.9 Consensus size: 192
16601554 AATAAATGTT
* * * * *
16601564 AATTATCCAATGATGAAATTTATAGAAATTTCAAATGGTAAATTTTTATAAAATTCCCATGTGAG
1 AATTATCCAAGGATGAAATTTATAGAAATTTAAAATAGTAAATTTTTAAAAAATTCCCAAGTGAG
* * * *
16601629 AAATTTTATCTAAATTTGACCTAGATTGTGGAATAATTTAGAT-AAAGTTTCAAT-AACAATAAT
66 AAATTTTATCTAAATTTGACCTAAATGGTGGAATAATTTAAATGAAA-TTTCAATAAAAAATAAT
16601692 TA--ATATTTATTTTCAAT-CCAAAAAAATAAAAAATAAAAAATTTTGGTTAAAAATATTTGAC
130 TATCATA-TTATTTTCAATCCCAAAAAAATAAAAAATAAAAAATTTTGGTTAAAAATATTTGAC
* ***
16601753 AATTATCCAAGGATGAGATTCT-TAGAAATTTAAAATAGTAAATTTTTTAAAAAATTTTTAAGTG
1 AATTATCCAAGGATGAAATT-TATAGAAATTTAAAATAGTAAA-TTTTTAAAAAATTCCCAAGTG
* *
16601817 AGAAATTTTCT-TAAATTTGTTCC-AAATGGTGGAATAATTTAAATGAAATTTCAATAAAAAATA
64 AGAAATTTTATCTAAATTTG-ACCTAAATGGTGGAATAATTTAAATGAAATTTCAATAAAAAATA
* ** * *
16601880 ATTGTCATATTATTTTCTTTCCCAAAAAAATGAGAAATAAAAA
128 ATTATCATATTATTTTCAATCCCAAAAAAATAAAAAATAAAAA
16601923 GAATTTCTAA
Statistics
Matches: 142, Mismatches: 20, Indels: 13
0.81 0.11 0.07
Matches are distributed among these distances:
189 69 0.49
190 41 0.29
191 9 0.06
192 23 0.16
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (192 bp):
AATTATCCAAGGATGAAATTTATAGAAATTTAAAATAGTAAATTTTTAAAAAATTCCCAAGTGAG
AAATTTTATCTAAATTTGACCTAAATGGTGGAATAATTTAAATGAAATTTCAATAAAAAATAATT
ATCATATTATTTTCAATCCCAAAAAAATAAAAAATAAAAAATTTTGGTTAAAAATATTTGAC
Found at i:16605697 original size:24 final size:24
Alignment explanation
Indices: 16605660--16605707 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
16605650 AAAAAGTCTT
* * *
16605660 AAAGAGAGAAAGAAATGCAAAATG
1 AAAGAAAGAAAGAAAAGAAAAATG
*
16605684 AAAGAAAGAGAGAAAAGAAAAATG
1 AAAGAAAGAAAGAAAAGAAAAATG
16605708 CCACAAACAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.67, C:0.02, G:0.25, T:0.06
Consensus pattern (24 bp):
AAAGAAAGAAAGAAAAGAAAAATG
Found at i:16606088 original size:6 final size:6
Alignment explanation
Indices: 16606073--16606144 Score: 60
Period size: 6 Copynumber: 12.0 Consensus size: 6
16606063 GGAAAAATAT
* *
16606073 GAAAAA -AAAAA GAAAAA -AAAAA GAAAAA -AAGGAAA AAAAAA GAAAGA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAA--AAA GAAAAA GAAAAA
* *
16606120 GAAAAA TGAAAAT GAAAAT GAAAAA
1 GAAAAA -GAAAAA GAAAAA GAAAAA
16606145 ATGAAAAAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
5 12 0.22
6 33 0.60
7 8 0.15
8 2 0.04
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (6 bp):
GAAAAA
Found at i:16606088 original size:8 final size:8
Alignment explanation
Indices: 16606073--16606164 Score: 55
Period size: 8 Copynumber: 11.2 Consensus size: 8
16606063 GGAAAAATAT
16606073 GAAAAAAA
1 GAAAAAAA
*
16606081 -AAAGAAA
1 GAAAAAAA
16606088 -AAAAAAA
1 GAAAAAAA
16606095 GAAAAAAA
1 GAAAAAAA
*
16606103 GGAAAAAA
1 GAAAAAAA
*
16606111 -AAAGAAA
1 GAAAAAAA
*
16606118 GAGAAAAAT
1 GA-AAAAAA
16606127 GAAAATGAAAA
1 G-AAA--AAAA
*
16606138 TGAAAAAAT
1 -GAAAAAAA
*
16606147 GAAAAAAT
1 GAAAAAAA
*
16606155 GGAAAAAA
1 GAAAAAAA
16606163 GA
1 GA
16606165 TGAAAATGAG
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
7 17 0.26
8 30 0.46
9 10 0.15
10 1 0.02
11 6 0.09
12 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.05
Consensus pattern (8 bp):
GAAAAAAA
Found at i:16606099 original size:19 final size:19
Alignment explanation
Indices: 16606077--16606117 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
16606067 AAATATGAAA
16606077 AAAAAAAGAAAAAAAAAAG
1 AAAAAAAGAAAAAAAAAAG
*
16606096 AAAAAAAGGAAAAAAAAAG
1 AAAAAAAGAAAAAAAAAAG
16606115 AAA
1 AAA
16606118 GAGAAAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (19 bp):
AAAAAAAGAAAAAAAAAAG
Found at i:16606099 original size:31 final size:32
Alignment explanation
Indices: 16606064--16606131 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 32
16606054 CTAATGGATG
*
16606064 GAAAAATATGAAAAAAAAAAGAAA-A-AAAAAA
1 GAAAAA-AAGAAAAAAAAAAGAAAGAGAAAAAA
* *
16606095 GAAAAAAAGGAAAAAAAAAGAAAGAGAAAAAT
1 GAAAAAAAGAAAAAAAAAAGAAAGAGAAAAAA
16606127 GAAAA
1 GAAAA
16606132 TGAAAATGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 15 0.47
31 7 0.22
32 10 0.31
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (32 bp):
GAAAAAAAGAAAAAAAAAAGAAAGAGAAAAAA
Found at i:16606131 original size:20 final size:21
Alignment explanation
Indices: 16606077--16606153 Score: 61
Period size: 20 Copynumber: 3.7 Consensus size: 21
16606067 AAATATGAAA
*
16606077 AAAAAAAGAAAAAA-AAAA-G
1 AAAAAATGAAAAAAGAAAATG
* * *
16606096 AAAAAAAGGAAAAAAAAAGAAAG
1 -AAAAAATGAAAAAAGAA-AATG
*
16606119 AGAAAAATG-AAAATGAAAATG
1 A-AAAAATGAAAAAAGAAAATG
16606140 AAAAAATGAAAAAA
1 AAAAAATGAAAAAA
16606154 TGGAAAAAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
20 20 0.43
21 10 0.22
22 9 0.20
23 7 0.15
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (21 bp):
AAAAAATGAAAAAAGAAAATG
Found at i:16606155 original size:16 final size:16
Alignment explanation
Indices: 16606134--16606184 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 16
16606124 AATGAAAATG
16606134 AAAATGAAAAAATGAA
1 AAAATGAAAAAATGAA
*
16606150 AAAATGGAAAAAA-GATG
1 AAAAT-GAAAAAATGA-A
16606167 AAAATGAGAGAAAATGAA
1 AAAATGA-A-AAAATGAA
16606185 GACTCAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 9 0.32
17 13 0.46
18 4 0.14
19 2 0.07
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.12
Consensus pattern (16 bp):
AAAATGAAAAAATGAA
Found at i:16606159 original size:9 final size:8
Alignment explanation
Indices: 16606134--16606184 Score: 50
Period size: 8 Copynumber: 6.0 Consensus size: 8
16606124 AATGAAAATG
16606134 AAAATGAA
1 AAAATGAA
16606142 AAAATGAA
1 AAAATGAA
16606150 AAAATGGAA
1 AAAAT-GAA
*
16606159 AAAA-GATG
1 AAAATGA-A
16606167 AAAATGAGA
1 AAAATGA-A
16606176 GAAAATGAA
1 -AAAATGAA
16606185 GACTCAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
7 2 0.06
8 17 0.47
9 10 0.28
10 7 0.19
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.12
Consensus pattern (8 bp):
AAAATGAA
Found at i:16607066 original size:23 final size:23
Alignment explanation
Indices: 16607035--16607078 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
16607025 GAAGCATATG
*
16607035 AATGGTGATCAAGTGATGAAAAT
1 AATGATGATCAAGTGATGAAAAT
*
16607058 AATGATGATCAATTGATGAAA
1 AATGATGATCAAGTGATGAAA
16607079 CTTGTTCGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.05, G:0.23, T:0.27
Consensus pattern (23 bp):
AATGATGATCAAGTGATGAAAAT
Found at i:16607625 original size:23 final size:22
Alignment explanation
Indices: 16607579--16607625 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
16607569 TAAATGTTGG
*
16607579 ATGCGAATCTTGCAATTTACAA
1 ATGCGAATCTTGAAATTTACAA
16607601 ATGCGAATCTT-AAGATCTTACAA
1 ATGCGAATCTTGAA-AT-TTACAA
16607624 AT
1 AT
16607626 TTGAATCCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 13 0.59
23 8 0.36
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (22 bp):
ATGCGAATCTTGAAATTTACAA
Found at i:16607925 original size:41 final size:41
Alignment explanation
Indices: 16607813--16608025 Score: 257
Period size: 42 Copynumber: 5.1 Consensus size: 41
16607803 GCCTTGTATT
* *
16607813 TTTTTCAAAGTTGTGGTTGCCTCTATTTAGGGGAGCATTTTA
1 TTTTTCAAAGTTGTGG-TGCCTCTGTTTAGAGGAGCATTTTA
* * *
16607855 TTTTTCAAAAGTCGTGGTGCCTTTATTTAGAGGAGCATTTTA
1 TTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAGGAGCATTTTA
* *
16607897 CTTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCATTTTA
1 TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCATTTTA
* * *
16607938 TTTTTCAAAAGTTGTGGTGCCTCTGTTTATAAGAGTATTTTA
1 TTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAGGAGCATTTTA
** * * *
16607980 TTTTTTTAAGTTATGGTGCCTCTGTTTAAAGGAGCA-TATA
1 TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCATTTTA
16608020 TTTTTC
1 TTTTTC
16608026 TTAAAGTCGT
Statistics
Matches: 148, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
40 8 0.05
41 61 0.41
42 70 0.47
43 9 0.06
ACGTcount: A:0.22, C:0.12, G:0.21, T:0.46
Consensus pattern (41 bp):
TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCATTTTA
Found at i:16607955 original size:83 final size:83
Alignment explanation
Indices: 16607814--16608056 Score: 299
Period size: 83 Copynumber: 2.9 Consensus size: 83
16607804 CCTTGTATTT
* * * *
16607814 TTTTCAAAGTTGTGGTTGCCTCTATTTAGGGGAGCATTTTATTTTTCAAAAGTCGTGGTGCCTTT
1 TTTTCAAAGTTATGG-TGCCTCTGTTTAGAGGAGCATTTTATTTTTCAAAAGTCGTGGTGCCTCT
*
16607879 ATTTAGAGGAGCATTTTAC
65 ATTTAGAAGAGCATTTTAC
* *
16607898 TTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTG
1 TTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTCAAAAGTCGTGGTGCCTCTA
* * *
16607963 TTTATAAGAGTATTTTAT
66 TTTAGAAGAGCATTTTAC
** * * * ***
16607981 TTTTTTAAGTTATGGTGCCTCTGTTTAAAGGAGCA-TATATTTTTCTTAAAGTCGTTAAGCCTCT
1 TTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTC-AAAAGTCGTGGTGCCTCT
16608045 ATTTAGAAGAGC
65 ATTTAGAAGAGC
16608057 TTTGTTTACT
Statistics
Matches: 136, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
82 9 0.07
83 113 0.83
84 14 0.10
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.44
Consensus pattern (83 bp):
TTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTCAAAAGTCGTGGTGCCTCTA
TTTAGAAGAGCATTTTAC
Found at i:16609160 original size:25 final size:25
Alignment explanation
Indices: 16609132--16609179 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
16609122 TTAATTATCC
16609132 AATGATGAAATTTATA-AAAATTTCA
1 AATGAT-AAATTTATATAAAATTTCA
* *
16609157 AATGGTAAATTTCTATAAAATTT
1 AATGATAAATTTATATAAAATTT
16609180 TTAAGTAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (25 bp):
AATGATAAATTTATATAAAATTTCA
Found at i:16609337 original size:185 final size:185
Alignment explanation
Indices: 16609128--16609469 Score: 469
Period size: 185 Copynumber: 1.8 Consensus size: 185
16609118 AATATTAATT
* * *
16609128 ATCCAATGATGAAATTTATAAAAATTTCAAATGGTAAA-TTTCTATAAAATTTTTAAGTAAGAAA
1 ATCCAAGGATGAAATTTATAAAAATTTCAAATGGTAAATTTTCTAAAAAATTTCTAAGTAAGAAA
* * *
16609192 TTTTATCTAAATTTGACCCAAATGATGAAATAATTTAGAT-AAAGTTTCAATAACAATAATTA--
66 TTTTAT-TAAATTTGACCCAAATGATGAAAGAATTTAAATGAAA-TTTCAATAAAAATAATTATC
16609254 ATATTTATTTTCAATCCAAAAAATAAAAAAATAAAAAATTTTGGTTGAAAATATTTGGC
129 ATA-TTATTTTCAATCCAAAAAA-AAAAAAATAAAAAATTTTGGTTGAAAATATTTGGC
* * *
16609313 ATCCAAGGATGAGATTCT-TAAAAATTTCAAATGGTAAATTTTTTAAAAAATTTCTATGTAAGAA
1 ATCCAAGGATGAAATT-TATAAAAATTTCAAATGGTAAATTTTCTAAAAAATTTCTAAGTAAGAA
* * *
16609377 ATTTTCTTAAATTTGTCCCAAATGATGGAAGAATTTAAATGAAATTTCAATAAAAATAATTATCA
65 ATTTTATTAAATTTGACCCAAATGATGAAAGAATTTAAATGAAATTTCAATAAAAATAATTATCA
** *
16609442 TATTATTTTCTTTCCAAACAAAAAAAAA
130 TATTATTTTCAATCCAAAAAAAAAAAAA
16609470 GAGAAATAAA
Statistics
Matches: 137, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
185 87 0.64
186 47 0.34
187 3 0.02
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.36
Consensus pattern (185 bp):
ATCCAAGGATGAAATTTATAAAAATTTCAAATGGTAAATTTTCTAAAAAATTTCTAAGTAAGAAA
TTTTATTAAATTTGACCCAAATGATGAAAGAATTTAAATGAAATTTCAATAAAAATAATTATCAT
ATTATTTTCAATCCAAAAAAAAAAAAATAAAAAATTTTGGTTGAAAATATTTGGC
Found at i:16610519 original size:27 final size:28
Alignment explanation
Indices: 16610455--16610521 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 28
16610445 ATTGTATAGA
*
16610455 TTTATAGTAATTTAATTTGTAATTAAGT
1 TTTATAGTAATTTAATTTGTAATAAAGT
*
16610483 TTTTTA-TAATTTAA-TT-TAATAAAGT
1 TTTATAGTAATTTAATTTGTAATAAAGT
16610508 TATTATAGTAATTT
1 T-TTATAGTAATTT
16610522 TTATAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 9 0.26
26 6 0.18
27 14 0.41
28 5 0.15
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.55
Consensus pattern (28 bp):
TTTATAGTAATTTAATTTGTAATAAAGT
Found at i:16610605 original size:16 final size:16
Alignment explanation
Indices: 16610563--16610605 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
16610553 ACGACAAAGG
*
16610563 TATTTTAATAATTTTA
1 TATTTTATTAATTTTA
*
16610579 TA-TATAGTTAATTTTA
1 TATTTTA-TTAATTTTA
16610595 TATTTTATTAA
1 TATTTTATTAA
16610606 AATTTAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
15 3 0.14
16 16 0.73
17 3 0.14
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TATTTTATTAATTTTA
Found at i:16618418 original size:17 final size:16
Alignment explanation
Indices: 16618397--16618453 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 16
16618387 GATTTTCTGA
*
16618397 TTTTTTTCCTTTTTCT
1 TTTTTTTCCATTTTCT
16618413 TCTTTTTT-CATTTTCT
1 T-TTTTTTCCATTTTCT
16618429 TTTTTTT-CATTCTCTCT
1 TTTTTTTCCATT-T-TCT
16618446 TTTTTTTC
1 TTTTTTTC
16618454 AAAAATCACA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
15 10 0.28
16 10 0.28
17 16 0.44
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTTCCATTTTCT
Found at i:16618426 original size:16 final size:16
Alignment explanation
Indices: 16618407--16618450 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 16
16618397 TTTTTTTCCT
16618407 TTTTCTTCTTTTTTCA
1 TTTTCTTCTTTTTTCA
16618423 TTTTCTT-TTTTTTCA
1 TTTTCTTCTTTTTTCA
*
16618438 TTCTC-TCTTTTTT
1 TTTTCTTCTTTTTT
16618451 TTCAAAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 1 0.04
15 18 0.69
16 7 0.27
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTCTTCTTTTTTCA
Found at i:16618454 original size:17 final size:15
Alignment explanation
Indices: 16618397--16618454 Score: 71
Period size: 16 Copynumber: 3.7 Consensus size: 15
16618387 GATTTTCTGA
* *
16618397 TTTTTTTCCTTTTTC
1 TTTTTTTTCATTTTC
16618412 TTCTTTTTTCATTTTC
1 TT-TTTTTTCATTTTC
16618428 TTTTTTTTCATTCTCTC
1 TTTTTTTTCATT-T-TC
16618445 TTTTTTTTCA
1 TTTTTTTTCA
16618455 AAAATCACAC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
15 12 0.32
16 14 0.37
17 12 0.32
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTTTCATTTTC
Found at i:16618775 original size:34 final size:34
Alignment explanation
Indices: 16618727--16618823 Score: 133
Period size: 34 Copynumber: 2.9 Consensus size: 34
16618717 CGTTTTCTAT
*
16618727 AAAAA-GTCGCTATATTAGTAGCGTTTGTATCTG
1 AAAAATGTCACTATATTAGTAGCGTTTGTATCTG
*
16618760 AAAAATGTCACTATATTAATAGCGTTTGTATCTG
1 AAAAATGTCACTATATTAGTAGCGTTTGTATCTG
* * * *
16618794 AAAAATATCTCTATATTAGCAGCATTTGTA
1 AAAAATGTCACTATATTAGTAGCGTTTGTA
16618824 CCTCTGACAT
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
33 5 0.09
34 51 0.91
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.37
Consensus pattern (34 bp):
AAAAATGTCACTATATTAGTAGCGTTTGTATCTG
Found at i:16619526 original size:21 final size:21
Alignment explanation
Indices: 16619473--16619527 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
16619463 CAACTGCTGA
*
16619473 AATTTT-GCACGCTTTTACTC
1 AATTTTAGCACGTTTTTACTC
* * * *
16619493 CATTATAGTACGTTTTTCCTC
1 AATTTTAGCACGTTTTTACTC
16619514 AATTTTAGCACGTT
1 AATTTTAGCACGTT
16619528 CATGTTCTCT
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.45
Consensus pattern (21 bp):
AATTTTAGCACGTTTTTACTC
Found at i:16622510 original size:21 final size:22
Alignment explanation
Indices: 16622485--16622530 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
16622475 TAACATGCAT
* *
16622485 AAATATTAATAATAA-AATTTA
1 AAATAATAAAAATAATAATTTA
*
16622506 AAATAATAAAAATAATATTTTA
1 AAATAATAAAAATAATAATTTA
16622528 AAA
1 AAA
16622531 ATTCAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATAATAAAAATAATAATTTA
Found at i:16623645 original size:50 final size:46
Alignment explanation
Indices: 16623573--16623932 Score: 192
Period size: 47 Copynumber: 7.8 Consensus size: 46
16623563 TTTTAAATTT
* * * *
16623573 AAAAAGCTCTCTAATCAAAGGCTCAACAACTTTAAAATTCATCATTTTG
1 AAAAAGCTCTCTAAGCAGAGGCTCAACAACTTTAAAATTCATC---GTA
* * * *
16623622 AGAAAGTTTCTCTAAGCAGAGGCTTAACAATTTTAAAAATTCATCGTA
1 AAAAAG-CTCTCTAAGCAGAGGCTCAACAACTTT-AAAATTCATCGTA
* * *
16623670 AAAAAGCTCATCTAAGTAGAGGCTCAATAACTTTAAAATTCATCTTA
1 AAAAAGCTC-TCTAAGCAGAGGCTCAACAACTTTAAAATTCATCGTA
* * * * * * *
16623717 AAAAAGCTCTTATAAGTAGAAGCTTAATAACTTTAAAAATCATC-TGG
1 AAAAAGCTC-TCTAAGCAGAGGCTCAACAACTTTAAAATTCATCGT-A
* *
16623764 AAAAAGCTCCTCTAAGCAGAGACTTAACAA--TT---A---A----A
1 AAAAAGCT-CTCTAAGCAGAGGCTCAACAACTTTAAAATTCATCGTA
* * * *
16623799 AAAAA--TCATCTAAGCAGAGGCTTAACAACTTTAAAAATCATCTTG
1 AAAAAGCTC-TCTAAGCAGAGGCTCAACAACTTTAAAATTCATCGTA
* * * * * *
16623844 AAAAAGCTCATCTAAACAAAAGCTCAATAACTTTAAAATTCTCATCTTG
1 AAAAAGCTC-TCTAAGCAGAGGCTCAACAACTTTAAAA-T-TCATCGTA
* * *
16623893 GAAAAGCTCCTCAAAGTAGAGGCTCAACAACTTTAAAATT
1 AAAAAGCT-CTCTAAGCAGAGGCTCAACAACTTTAAAATT
16623933 AAACTATTGA
Statistics
Matches: 246, Mismatches: 42, Indels: 48
0.73 0.12 0.14
Matches are distributed among these distances:
32 1 0.00
33 20 0.08
35 7 0.03
38 1 0.00
39 1 0.00
41 1 0.00
42 1 0.00
45 7 0.03
46 1 0.00
47 103 0.42
48 28 0.11
49 42 0.17
50 23 0.09
51 10 0.04
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.28
Consensus pattern (46 bp):
AAAAAGCTCTCTAAGCAGAGGCTCAACAACTTTAAAATTCATCGTA
Found at i:16623840 original size:32 final size:32
Alignment explanation
Indices: 16623774--16623841 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 32
16623764 AAAAAGCTCC
16623774 TCTAAGCAGAGACTTAACAATTAAAAAAAATCA
1 TCTAAGCAGAGACTTAACAATT-AAAAAAATCA
* *
16623807 TCTAAGCAGAGGCTTAACAACTT-TAAAAATCA
1 TCTAAGCAGAGACTTAACAA-TTAAAAAAATCA
16623839 TCT
1 TCT
16623842 TGAAAAAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 11 0.34
33 19 0.59
34 2 0.06
ACGTcount: A:0.47, C:0.18, G:0.10, T:0.25
Consensus pattern (32 bp):
TCTAAGCAGAGACTTAACAATTAAAAAAATCA
Found at i:16623918 original size:49 final size:49
Alignment explanation
Indices: 16623804--16623933 Score: 149
Period size: 49 Copynumber: 2.7 Consensus size: 49
16623794 TTAAAAAAAA
* *
16623804 TCATCTAAGCAGAGGCTTAACAACTTTAAAA--ATCATCTTGAAAAAGC
1 TCATCTAAACAGAGGCTCAACAACTTTAAAATTATCATCTTGAAAAAGC
* * * * *
16623851 TCATCTAAACAAAAGCTCAATAACTTTAAAATTCTCATCTTGGAAAAGC
1 TCATCTAAACAGAGGCTCAACAACTTTAAAATTATCATCTTGAAAAAGC
* *
16623900 TCCTC-AAAGTAGAGGCTCAACAACTTTAAAATTA
1 TCATCTAAA-CAGAGGCTCAACAACTTTAAAATTA
16623934 AACTATTGAA
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
47 26 0.39
48 3 0.04
49 38 0.57
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (49 bp):
TCATCTAAACAGAGGCTCAACAACTTTAAAATTATCATCTTGAAAAAGC
Found at i:16623931 original size:127 final size:125
Alignment explanation
Indices: 16623668--16623922 Score: 296
Period size: 127 Copynumber: 2.0 Consensus size: 125
16623658 AAATTCATCG
* * * * *
16623668 TAAAAAAGCTCATCTAAGTAGAGGCTCAATAACTTTAAAATTCATCTTAAAAAAGCTCTTATAAG
1 TAAAAAA--TCATCTAAGCAGAGGCTCAACAACTTTAAAAATCATCTTAAAAAAGCTCATATAAA
* * * * *
16623733 TAGAAGCTTAATAACTTTAAAAATCATCTGGAAAAAGCTCCTCTAAGCAGAGACTTAACAAT
64 CAAAAGCTCAATAACTTTAAAAATCATCTGGAAAAAGCTCCTCAAAGCAGAGACTCAACAAT
* * *
16623795 TAAAAAAAATCATCTAAGCAGAGGCTTAACAACTTTAAAAATCATCTTGAAAAAGCTCATCTAAA
1 T--AAAAAATCATCTAAGCAGAGGCTCAACAACTTTAAAAATCATCTTAAAAAAGCTCATATAAA
* * *
16623860 CAAAAGCTCAATAACTTTAAAATTCTCATCTTGG-AAAAGCTCCTCAAAGTAGAGGCTCAACAA
64 CAAAAGCTCAATAACTTTAAAA--ATCATC-TGGAAAAAGCTCCTCAAAGCAGAGACTCAACAA
16623923 CTTTAAAATT
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
127 68 0.64
129 36 0.34
130 3 0.03
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.26
Consensus pattern (125 bp):
TAAAAAATCATCTAAGCAGAGGCTCAACAACTTTAAAAATCATCTTAAAAAAGCTCATATAAACA
AAAGCTCAATAACTTTAAAAATCATCTGGAAAAAGCTCCTCAAAGCAGAGACTCAACAAT
Found at i:16624251 original size:42 final size:41
Alignment explanation
Indices: 16624192--16624328 Score: 121
Period size: 42 Copynumber: 3.5 Consensus size: 41
16624182 AAATGACTAT
*
16624192 GGATATCACCACCGAGAAAATGTAATTCAAACATTGACACTC
1 GGATATCACCATCGAGAAAATGTAATTCAAACATTGAC-CTC
* *
16624234 GGATATCACCATCGAG--AA--T-ATGC-AA-A-TGACTTC
1 GGATATCACCATCGAGAAAATGTAATTCAAACATTGACCTC
** *
16624267 GGATATTGCCATCGAGAAAATGAAATTCAAAC-TTGGACGCTC
1 GGATATCACCATCGAGAAAATGTAATTCAAACATT-GAC-CTC
*
16624309 GGACATCACCATCGAGAAAA
1 GGATATCACCATCGAGAAAA
16624329 GCTAAATGAC
Statistics
Matches: 74, Mismatches: 11, Indels: 20
0.70 0.10 0.19
Matches are distributed among these distances:
33 16 0.22
34 4 0.05
35 3 0.04
36 2 0.03
37 3 0.04
38 4 0.05
39 2 0.03
40 3 0.04
41 3 0.04
42 34 0.46
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (41 bp):
GGATATCACCATCGAGAAAATGTAATTCAAACATTGACCTC
Found at i:16624294 original size:75 final size:74
Alignment explanation
Indices: 16624129--16624646 Score: 491
Period size: 75 Copynumber: 6.8 Consensus size: 74
16624119 TATCATCATT
** * * *
16624129 GAGAAAATGTAATTCAAGTTTTAACACTCGAATATCACCACCAAGAAATATGCAAATGACTAT-G
1 GAGAAAATGTAATTCAA-ACTTGACACTCGGATATCACCACCGAGAAA-ATGCAAATGACT-TCG
*
16624193 GATATCACCACC
63 GATATCGCCACC
* *
16624205 GAGAAAATGTAATTCAAACATTGACACTCGGATATCACCATCGAGAATATGCAAATGACTTCGGA
1 GAGAAAATGTAATTCAAAC-TTGACACTCGGATATCACCACCGAGAAAATGCAAATGACTTCGGA
* *
16624270 TATTGCCATC
65 TATCGCCACC
* * * * **
16624280 GAGAAAATGAAATTCAAACTTGGACGCTCGGACATCACCATCGAGAAAA-GCTAAATGACTTCAA
1 GAGAAAATGTAATTCAAACTT-GACACTCGGATATCACCACCGAGAAAATGC-AAATGACTTCGG
*
16624344 ATATCGACACC
64 ATATCGCCACC
* * * *
16624355 GAGAAAATGCAATTCAAACTTGGACACTCGAATATCACCACCAAGAAAAGGCAAATGACTTCGGA
1 GAGAAAATGTAATTCAAACTT-GACACTCGGATATCACCACCGAGAAAATGCAAATGACTTCGGA
*
16624420 TATCGTCACC
65 TATCGCCACC
* * * *
16624430 GAGAAAATGCAATTCAAACCTTGACACTCAGATATCATCACTGAGAAAATGCAAATGACTTCGGA
1 GAGAAAATGTAATTCAAA-CTTGACACTCGGATATCACCACCGAGAAAATGCAAATGACTTCGGA
*
16624495 TATCACCACC
65 TATCGCCACC
* * *
16624505 GAGAAAATGTAATTCAAATTTTGACACTTGGATATCACCACCAAGAAAATGTAATTCAAACCTTG
1 GAGAAAATGTAATTCAAA-CTTGACACTCGGATATCACCACCGAGAAAATG-----CAAA---TG
* * *
16624570 ACACTCGGATGTCACCACC
57 AC-TTCGGATATCGCCACC
* * ** * * *
16624589 AAGAAGATGTAATTCAAACCTTGACACTCGGATAAAACCATCGAAAAAATGTAAATGA
1 GAGAAAATGTAATTCAAA-CTTGACACTCGGATATCACCACCGAGAAAATGCAAATGA
16624647 TTTTTTTTAA
Statistics
Matches: 370, Mismatches: 57, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
74 5 0.01
75 251 0.68
76 48 0.13
79 3 0.01
80 4 0.01
83 4 0.01
84 55 0.15
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.22
Consensus pattern (74 bp):
GAGAAAATGTAATTCAAACTTGACACTCGGATATCACCACCGAGAAAATGCAAATGACTTCGGAT
ATCGCCACC
Found at i:16624402 original size:42 final size:41
Alignment explanation
Indices: 16624351--16624642 Score: 229
Period size: 42 Copynumber: 7.4 Consensus size: 41
16624341 CAAATATCGA
* *
16624351 CACCGAGAAAATGCAATTCAAACTTGGACACTCGAATATCAC
1 CACCGAGAAAATGTAATTCAAACTT-GACACTCGGATATCAC
* * * **
16624393 CACCAAGAAAA-G----GCAAA--TGAC-TTCGGATATCGT
1 CACCGAGAAAATGTAATTCAAACTTGACACTCGGATATCAC
* * *
16624426 CACCGAGAAAATGCAATTCAAACCTTGACACTCAGATATCAT
1 CACCGAGAAAATGTAATTCAAA-CTTGACACTCGGATATCAC
* *
16624468 CACTGAGAAAATG-----CAAA--TGAC-TTCGGATATCAC
1 CACCGAGAAAATGTAATTCAAACTTGACACTCGGATATCAC
* *
16624501 CACCGAGAAAATGTAATTCAAATTTTGACACTTGGATATCAC
1 CACCGAGAAAATGTAATTCAAA-CTTGACACTCGGATATCAC
* *
16624543 CACCAAGAAAATGTAATTCAAACCTTGACACTCGGATGTCAC
1 CACCGAGAAAATGTAATTCAAA-CTTGACACTCGGATATCAC
* * **
16624585 CACCAAGAAGATGTAATTCAAACCTTGACACTCGGATAAAAC
1 CACCGAGAAAATGTAATTCAAA-CTTGACACTCGGATATCAC
* *
16624627 CATCGAAAAAATGTAA
1 CACCGAGAAAATGTAA
16624643 ATGATTTTTT
Statistics
Matches: 201, Mismatches: 31, Indels: 36
0.75 0.12 0.13
Matches are distributed among these distances:
33 39 0.19
34 8 0.04
35 1 0.00
37 8 0.04
38 8 0.04
41 9 0.04
42 128 0.64
ACGTcount: A:0.41, C:0.23, G:0.15, T:0.21
Consensus pattern (41 bp):
CACCGAGAAAATGTAATTCAAACTTGACACTCGGATATCAC
Found at i:16624509 original size:33 final size:33
Alignment explanation
Indices: 16624232--16624513 Score: 109
Period size: 33 Copynumber: 7.7 Consensus size: 33
16624222 ACATTGACAC
* *
16624232 TCGGATATCACCATCGAGAATATGCAAATGACT
1 TCGGATATCACCACCGAGAAAATGCAAATGACT
** * *
16624265 TCGGATATTGCCATCGAGAAAATGAAATTCAAACTTGGACGC
1 TCGGATATCACCACCGAGAAAATG-----CAAA--T-GAC-T
* *
16624307 TCGGACATCACCATCGAGAAAA-GCTAAATGACT
1 TCGGATATCACCACCGAGAAAATGC-AAATGACT
** *
16624340 TCAAATATCGA-CACCGAGAAAATGCAATTCAAACTTGGACAC
1 TCGGATATC-ACCACCGAGAAAATG-----CAAA--T-GAC-T
* * *
16624382 TCGAATATCACCACCAAGAAAAGGCAAATGACT
1 TCGGATATCACCACCGAGAAAATGCAAATGACT
** *
16624415 TCGGATATCGTCACCGAGAAAATGCAATTCAAACCTTGACAC
1 TCGGATATCACCACCGAGAAAATG-----CAAA---TGAC-T
* * *
16624457 TCAGATATCATCACTGAGAAAATGCAAATGACT
1 TCGGATATCACCACCGAGAAAATGCAAATGACT
16624490 TCGGATATCACCACCGAGAAAATG
1 TCGGATATCACCACCGAGAAAATG
16624514 TAATTCAAAT
Statistics
Matches: 188, Mismatches: 30, Indels: 62
0.67 0.11 0.22
Matches are distributed among these distances:
33 77 0.41
34 12 0.06
35 2 0.01
36 1 0.01
37 11 0.06
38 11 0.06
39 1 0.01
40 2 0.01
41 12 0.06
42 59 0.31
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (33 bp):
TCGGATATCACCACCGAGAAAATGCAAATGACT
Found at i:16624544 original size:225 final size:226
Alignment explanation
Indices: 16624129--16624553 Score: 595
Period size: 225 Copynumber: 1.9 Consensus size: 226
16624119 TATCATCATT
* ** * *
16624129 GAGAAAATGTAATTCAAGTTTTAACACTCGAATATCACCACCAAGAAATATGCAAATGACTATGG
1 GAGAAAATGCAATTCAAACTTGAACACTCGAATATCACCACCAAGAAATAGGCAAATGACTATGG
* * *
16624194 ATATCACCACCGAGAAAATGTAATTCAAACATTGACACTCGGATATCACCATCGAGAATATGCAA
66 ATATCACCACCGAGAAAATGCAATTCAAACATTGACACTCAGATATCACCATCGAGAAAATGCAA
** * * * *
16624259 ATGACTTCGGATATTGCCATCGAGAAAATGAAATTCAAACTTGGACGCTCGGACATCACCATCGA
131 ATGACTTCGGATATCACCACCGAGAAAATGAAATTCAAACTTGGACACTCGGACATCACCACCAA
16624324 GAAAAGCTAAATGACTTCAAATATCGACACC
196 GAAAAGCTAAATGACTTCAAATATCGACACC
*
16624355 GAGAAAATGCAATTCAAACTTGGACACTCGAATATCACCACCAAGAAA-AGGCAAATGACT-TCG
1 GAGAAAATGCAATTCAAACTTGAACACTCGAATATCACCACCAAGAAATAGGCAAATGACTAT-G
** * *
16624418 GATATCGTCACCGAGAAAATGCAATTCAAACCTTGACACTCAGATATCATCA-CTGAGAAAATGC
65 GATATCACCACCGAGAAAATGCAATTCAAACATTGACACTCAGATATCACCATC-GAGAAAATGC
* * * * *
16624482 AAATGACTTCGGATATCACCACCGAGAAAATGTAATTCAAATTTTGACACTTGGATATCACCACC
129 AAATGACTTCGGATATCACCACCGAGAAAATGAAATTCAAACTTGGACACTCGGACATCACCACC
16624547 AAGAAAA
194 AAGAAAA
16624554 TGTAATTCAA
Statistics
Matches: 173, Mismatches: 24, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
224 2 0.01
225 128 0.74
226 43 0.25
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.22
Consensus pattern (226 bp):
GAGAAAATGCAATTCAAACTTGAACACTCGAATATCACCACCAAGAAATAGGCAAATGACTATGG
ATATCACCACCGAGAAAATGCAATTCAAACATTGACACTCAGATATCACCATCGAGAAAATGCAA
ATGACTTCGGATATCACCACCGAGAAAATGAAATTCAAACTTGGACACTCGGACATCACCACCAA
GAAAAGCTAAATGACTTCAAATATCGACACC
Found at i:16625103 original size:35 final size:34
Alignment explanation
Indices: 16625014--16625103 Score: 119
Period size: 35 Copynumber: 2.6 Consensus size: 34
16625004 TATGAGGCAA
*
16625014 ATGAAATGCAAATGTCTTTTCTTAAATGATGCTC
1 ATGAAATGCAAATGTCTTTTCTTAAAAGATGCTC
* *
16625048 ATGAGATGCAAATGTCTTTTCTTAAAAAGATG-TAT
1 ATGAAATGCAAATGTCTTTTCTT-AAAAGATGCT-C
*
16625083 ATGAAATGTAAATGTCTTTTC
1 ATGAAATGCAAATGTCTTTTC
16625104 CAAAAATACT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
34 23 0.47
35 26 0.53
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (34 bp):
ATGAAATGCAAATGTCTTTTCTTAAAAGATGCTC
Found at i:16626000 original size:1 final size:1
Alignment explanation
Indices: 16625994--16626020 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
16625984 TCATTCTTTC
16625994 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
16626021 ACGATTTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:16629341 original size:16 final size:16
Alignment explanation
Indices: 16629322--16629360 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
16629312 ATGTCATGCA
16629322 TTGAAAATTTTATTTT
1 TTGAAAATTTTATTTT
***
16629338 TTGATTTTTTTATTTT
1 TTGAAAATTTTATTTT
16629354 TTGAAAA
1 TTGAAAA
16629361 AAAAAAAGAT
Statistics
Matches: 17, Mismatches: 6, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (16 bp):
TTGAAAATTTTATTTT
Found at i:16630564 original size:26 final size:25
Alignment explanation
Indices: 16630538--16630587 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
16630528 TTTTCAATGT
16630538 TTGAAAAATATTTTTTTTTCATTTG
1 TTGAAAAATATTTTTTTTTCATTTG
* * *
16630563 TTGGAAATTATTTTTTATTTTATTT
1 TTGAAAAATATTTTTT-TTTCATTT
16630588 TATTTAGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.26, C:0.02, G:0.08, T:0.64
Consensus pattern (25 bp):
TTGAAAAATATTTTTTTTTCATTTG
Found at i:16632050 original size:16 final size:17
Alignment explanation
Indices: 16632012--16632054 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
16632002 GCCAAACTGT
*
16632012 TTTTTTTTTATATTTTGA
1 TTTTTTTTTATA-TATGA
*
16632030 CTTTTTTTTATA-ATGA
1 TTTTTTTTTATATATGA
16632046 TTTTTTTTT
1 TTTTTTTTT
16632055 CTCTTTTTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 11 0.50
18 11 0.50
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTTTTTTTATATATGA
Found at i:16632383 original size:11 final size:10
Alignment explanation
Indices: 16632356--16632413 Score: 54
Period size: 9 Copynumber: 6.1 Consensus size: 10
16632346 AGCCGTTGCC
16632356 AGAAAAAGAA
1 AGAAAAAGAA
16632366 AGAAAAAGAA
1 AGAAAAAGAA
*
16632376 ATGGAAAAG--
1 A-GAAAAAGAA
16632385 AGAAAAA-AA
1 AGAAAAAGAA
16632394 TAG-AAAAGAA
1 -AGAAAAAGAA
16632404 AG-AAAAGAA
1 AGAAAAAGAA
16632413 A
1 A
16632414 AGATAAATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
8 5 0.12
9 15 0.37
10 15 0.37
11 6 0.15
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:16632394 original size:17 final size:17
Alignment explanation
Indices: 16632364--16632426 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 17
16632354 CCAGAAAAAG
*
16632364 AAAGAAAAAGAAATGGA
1 AAAGAAAAAGAAATAGA
16632381 AAAGAGAAAA-AAATAGA
1 AAAGA-AAAAGAAATAGA
16632398 AAAG--AAAGAAA-AGA
1 AAAGAAAAAGAAATAGA
* *
16632412 AAAGATAAATAAATA
1 AAAGAAAAAGAAATA
16632427 AATAAATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 10 0.26
15 3 0.08
16 6 0.15
17 16 0.41
18 4 0.10
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (17 bp):
AAAGAAAAAGAAATAGA
Found at i:16632398 original size:23 final size:22
Alignment explanation
Indices: 16632357--16632399 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
16632347 GCCGTTGCCA
16632357 GAAAAAGAAAGAAAAAGAAATG
1 GAAAAAGAAAGAAAAAGAAATG
16632379 GAAAAGAGAAA-AAAATAGAAA
1 GAAAA-AGAAAGAAAA-AGAAA
16632400 AGAAAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (22 bp):
GAAAAAGAAAGAAAAAGAAATG
Found at i:16638345 original size:124 final size:124
Alignment explanation
Indices: 16638210--16638469 Score: 369
Period size: 124 Copynumber: 2.1 Consensus size: 124
16638200 AGAACAAACA
* * * * *
16638210 CCTTCAATAATTTTTTGTTAATATTTTTTAGATTATTAAA-AGCATCTTCCAATGAAAAAAGCCT
1 CCTTCACTAATTTTCTCTTAAAATTTTTGAGATTATTAAAGA-CATCTTCCAATGAAAAAAGCCT
* *
16638274 TCCATTTTACATAACTCAAATTTAAAAATGGTTAGTGAAAGCATTTATTCTAGAAAAATG
65 TCAATTTTACATAACTCAAATTTAAAAATAGTTAGTGAAAGCATTTATTCTAGAAAAATG
* * * *
16638334 CCTTCACTAATTTTCTCTTAAAATTTTTGAGATTATTAAAGACGTCTTTCAGTGAAAAACGCCTT
1 CCTTCACTAATTTTCTCTTAAAATTTTTGAGATTATTAAAGACATCTTCCAATGAAAAAAGCCTT
* * * *
16638399 CAATTTTGCATAACTCAAATTTTAAGATAGTTAGTGAAGGCATTTATTCTAGAAAAATG
66 CAATTTTACATAACTCAAATTTAAAAATAGTTAGTGAAAGCATTTATTCTAGAAAAATG
16638458 CCTTCACTAATT
1 CCTTCACTAATT
16638470 CCTTCTAATT
Statistics
Matches: 120, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
124 119 0.99
125 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (124 bp):
CCTTCACTAATTTTCTCTTAAAATTTTTGAGATTATTAAAGACATCTTCCAATGAAAAAAGCCTT
CAATTTTACATAACTCAAATTTAAAAATAGTTAGTGAAAGCATTTATTCTAGAAAAATG
Found at i:16638346 original size:186 final size:186
Alignment explanation
Indices: 16637813--16638346 Score: 674
Period size: 186 Copynumber: 2.9 Consensus size: 186
16637803 GGATAGTTAA
* * * *
16637813 TGAAGGTGTTTTTTAAGAACAAACACATTCAATAATTTTTTTTTAAAATTTTTGGGATTATTAAA
1 TGAAGGTATTTTTTAAGAACAAACACCTTCAATAATTTTTTCTTAAAATTTTTGAGATTATTAAA
* * * * * * * * *
16637878 GGTGTCTTTTAGTGAAAAATGCATTCAATATTCCACAACTCAAATTTTAAAACGGTTAGTGAATG
66 AGCGTCTTTCAGTGAAAAAAGCCTTCAATTTTACACAACTCAAATTTTAAAATGGTTAGTGAAAG
** * * *
16637943 CGTTTATTCTAGAAAAACACCTTTACTAATTCCTTCTAATTTACGTACATAATTAT
131 CGTTTATTCTAGAAAAATGCCTTCACTAATTTCTTATAATTTACGTACATAATTAT
* * * *
16637999 TAAAGATATTTTTTGAGAACAAAAACCTTCAATAATTTTTTCTTAAAATTTTTGAGATTATT-AA
1 TGAAGGTATTTTTTAAGAACAAACACCTTCAATAATTTTTTCTTAAAATTTTTGAGATTATTAAA
* * * * * *
16638063 AGACGTCTTTCAGTGAAAAACGCCTTTAATTTTTCACAACTCAAATTTTAAGATAGTTAGTGAAG
66 AG-CGTCTTTCAGTGAAAAAAGCCTTCAATTTTACACAACTCAAATTTTAAAATGGTTAGTGAAA
* * *
16638128 GTGTTTATTTTAAAAAAATGCCTTCACTAATTTCTTATAATTTACGTACATAATTAT
130 GCGTTTATTCTAGAAAAATGCCTTCACTAATTTCTTATAATTTACGTACATAATTAT
* * * *
16638185 TGAAGGTATTTTTTTAGAACAAACACCTTCAATAATTTTTTGTTAATATTTTTTAGATTATTAAA
1 TGAAGGTATTTTTTAAGAACAAACACCTTCAATAATTTTTTCTTAAAATTTTTGAGATTATTAAA
* * * * * *
16638250 AGCATCTTCCAATGAAAAAAGCCTTCCATTTTACATAACTCAAATTTAAAAATGGTTAGTGAAAG
66 AGCGTCTTTCAGTGAAAAAAGCCTTCAATTTTACACAACTCAAATTTTAAAATGGTTAGTGAAAG
*
16638315 CATTTATTCTAGAAAAATGCCTTCACTAATTT
131 CGTTTATTCTAGAAAAATGCCTTCACTAATTT
16638347 TCTCTTAAAA
Statistics
Matches: 295, Mismatches: 51, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
185 3 0.01
186 288 0.98
187 4 0.01
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.40
Consensus pattern (186 bp):
TGAAGGTATTTTTTAAGAACAAACACCTTCAATAATTTTTTCTTAAAATTTTTGAGATTATTAAA
AGCGTCTTTCAGTGAAAAAAGCCTTCAATTTTACACAACTCAAATTTTAAAATGGTTAGTGAAAG
CGTTTATTCTAGAAAAATGCCTTCACTAATTTCTTATAATTTACGTACATAATTAT
Found at i:16638389 original size:310 final size:310
Alignment explanation
Indices: 16638019--16638655 Score: 952
Period size: 310 Copynumber: 2.1 Consensus size: 310
16638009 TTTTGAGAAC
* *
16638019 AAAA-ACCTTCAATAATTTTTTCTTAAAATTTTTGAGATTATTAAAGACGTCTTTCAGTGAAAAA
1 AAAATACCTTCACTAATTTTCTCTTAAAATTTTTGAGATTATTAAAGACGTCTTTCAGTGAAAAA
* * ** *
16638083 CGCCTTTAATTTTTCACAACTCAAATTTTAAGATAGTTAGTGAAGGTGTTTATTTTAAAAAAATG
66 CGCCTTCAATTTTGCACAACTCAAATTTTAAGATAGTTAGTGAAGGCATTTATTCTAAAAAAATG
* * * * *
16638148 CCTTCACTAATTTCTTATAATTTACGTACATAATTATTGAAGGTATTTTTTTAGAACAAACACCT
131 CCTTCACTAATTCCTTATAATTTACATACATAATTATTGAAAGTATTTTTTTAAAACAAACACAT
* * * * *
16638213 TCAATAATTTTTTGTTAATATTTTTTAGATTATTAAAAGCATCTTCCAATGAAAAAAGCCTTCCA
196 TCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAAGCATCTTCCAATGAAAAAAGCCTTCAA
**
16638278 TTTTACATAACTCAAATTTAAAAATGGTTAGTGAAAGCATTTATTCTAGA
261 TTTTACATAACTCAAATTTAAAAACAGTTAGTGAAAGCATTTATTCTAGA
*
16638328 AAAATGCCTTCACTAATTTTCTCTTAAAATTTTTGAGATTATTAAAGACGTCTTTCAGTGAAAAA
1 AAAATACCTTCACTAATTTTCTCTTAAAATTTTTGAGATTATTAAAGACGTCTTTCAGTGAAAAA
* *
16638393 CGCCTTCAATTTTGCATAACTCAAATTTTAAGATAGTTAGTGAAGGCATTTATTCTAGAAAAATG
66 CGCCTTCAATTTTGCACAACTCAAATTTTAAGATAGTTAGTGAAGGCATTTATTCTAAAAAAATG
* *
16638458 CCTTCACTAATTCCTTCTAATTTACATACATAATTATTGAAAGTATTTTTTTAAAACAAATACAT
131 CCTTCACTAATTCCTTATAATTTACATACATAATTATTGAAAGTATTTTTTTAAAACAAACACAT
* * * * *
16638523 TCAATAATTTTCTCTTAAAATTTTTGGGATTATTAAAGGCGTCTTTCAATGAAAAACGCCTTCAA
196 TCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAAGCATCTTCCAATGAAAAAAGCCTTCAA
* * * * *
16638588 TTTTTCATAACTCAAATTTTAAGACAGTTAGTGAAGGCGTTTATTCTAGA
261 TTTTACATAACTCAAATTTAAAAACAGTTAGTGAAAGCATTTATTCTAGA
*
16638638 AAAATACATTCACTAATT
1 AAAATACCTTCACTAATT
16638656 CCTTCTAATT
Statistics
Matches: 291, Mismatches: 36, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
309 4 0.01
310 287 0.99
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (310 bp):
AAAATACCTTCACTAATTTTCTCTTAAAATTTTTGAGATTATTAAAGACGTCTTTCAGTGAAAAA
CGCCTTCAATTTTGCACAACTCAAATTTTAAGATAGTTAGTGAAGGCATTTATTCTAAAAAAATG
CCTTCACTAATTCCTTATAATTTACATACATAATTATTGAAAGTATTTTTTTAAAACAAACACAT
TCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAAGCATCTTCCAATGAAAAAAGCCTTCAA
TTTTACATAACTCAAATTTAAAAACAGTTAGTGAAAGCATTTATTCTAGA
Found at i:16638461 original size:63 final size:62
Alignment explanation
Indices: 16638263--16638463 Score: 146
Period size: 63 Copynumber: 3.2 Consensus size: 62
16638253 ATCTTCCAAT
* * * * * *
16638263 GAAAAAAGCCTTCCATTTTACATAACTCAAATTTAAAAATGGTTAGTGAAAGCATTTATTCTA
1 GAAAAATGCCTTCAATTTT-CATAACTCAAATTTTAAGATAGTTAGTGAAGGCATTTATTCTA
* * * * * * * *
16638326 GAAAAATGCCTTCACTAATTTTC-T--CTTAAAATTTT-TGAGA-TTATTAAAGACGTCT-TTC-
1 GAAAAATGCCTT--C-AATTTTCATAAC-TCAAATTTTAAGATAGTTAGTGAAGGCATTTATTCT
16638384 A
62 A
*
16638385 GTGAAAAACGCCTTCAATTTTGCATAACTCAAATTTTAAGATAGTTAGTGAAGGCATTTATTCTA
1 --GAAAAATGCCTTCAATTTT-CATAACTCAAATTTTAAGATAGTTAGTGAAGGCATTTATTCTA
16638450 GAAAAATGCCTTCA
1 GAAAAATGCCTTCA
16638464 CTAATTCCTT
Statistics
Matches: 100, Mismatches: 24, Indels: 28
0.66 0.16 0.18
Matches are distributed among these distances:
58 6 0.06
59 3 0.03
60 4 0.04
61 28 0.28
62 6 0.06
63 41 0.41
64 4 0.04
65 3 0.03
66 5 0.05
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (62 bp):
GAAAAATGCCTTCAATTTTCATAACTCAAATTTTAAGATAGTTAGTGAAGGCATTTATTCTA
Found at i:16638620 original size:496 final size:497
Alignment explanation
Indices: 16637828--16638995 Score: 1622
Period size: 496 Copynumber: 2.4 Consensus size: 497
16637818 GTGTTTTTTA
* * * * *
16637828 AGAACAAACACATTCAATAATTTTTTTTTAAAATTTTTGGGATTATTAAAGGTGTCTTTTAGTGA
1 AGAA-AAACACCTTCACTAATTTTTTCTTAAAATTTTTGAGATTATTAAAGGCGTCTTTTAGTGA
* * * * * *
16637893 AAAATGCATTCAATATTCCACAACTCAAATTTTAAAACGGTTAGTGAATGCGTTTATTCTAGAAA
65 AAAACGCCTTCAATTTTCCACAACTCAAATTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAAA
** * *
16637958 AACACCTTTACTAATTCCTTCTAATTTACGTACATAATTATT-AAAGATATTTTTTGAGAACAAA
130 AATGCCTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAAGATATTTTTTGAAAACAAA
* * *
16638022 AACCTTCAATAATTTTTTCTTAAAATTTTTGAGATTATTAAAGACGTCTTTCAGTGAAAAACGCC
195 AACATTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGACGTCTTTCAATGAAAAACGCC
* * * * * *
16638087 TTTAATTTTTCACAACTCAAATTTTAAGATAGTTAGTGAAGGTGTTTATTTTAAAAAAATGCCTT
260 TTCAATTTTTCACAACTCAAATTTTAAGACAGTTAGTGAAGGCGTTTATTCTAAAAAAATACATT
*
16638152 CACTAATTTCTTATAATTTACGTACATAATTATTGAAGGTATTTTTTTAGAACAAACACCTTCAA
325 CACTAATTCCTTATAATTTACGTACATAATTATTGAAGGTATTTTTTTAGAACAAACACCTTCAA
** * * *
16638217 TAATTTTTTGTTAATATTTTTTA-GATTATTAAAAGCATCTTCCAATGAAAAAAGCCTTCCATTT
390 TAATTTCCTCTTAA-AATTTTTAGGATTATTAAAAGCATCTTCCAATGAAAAAAGCCTTCAATTT
*
16638281 TACATAACTCAAATTTAAAAATGGTTAGTGAAAGCATTTATTCT
454 TACATAACTCAAATTTAAAAACGGTTAGTGAAAGCATTTATTCT
** * * *
16638325 AGAAAAATGCCTTCACTAATTTTCTCTTAAAATTTTTGAGATTATTAAAGACGTCTTTCAGTGAA
1 AGAAAAACACCTTCACTAATTTTTTCTTAAAATTTTTGAGATTATTAAAGGCGTCTTTTAGTGAA
* * **
16638390 AAACGCCTTCAATTTTGCATAACTCAAATTTTAAGATAGTTAGTGAAGGCATTTATTCTAGAAAA
66 AAACGCCTTCAATTTTCCACAACTCAAATTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAAAA
* * *
16638455 ATGCCTTCACTAATTCCTTCTAATTTACATACATAATTATTGAAAG-TATTTTTTTAAAACAAAT
131 ATGCCTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAAGATATTTTTTGAAAACAAAA
* *
16638519 ACATTCAATAATTTTCTCTTAAAATTTTTGGGATTATTAAAGGCGTCTTTCAATGAAAAACGCCT
196 ACATTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGACGTCTTTCAATGAAAAACGCCT
* *
16638584 TCAATTTTTCATAACTCAAATTTTAAGACAGTTAGTGAAGGCGTTTATTCTAGAAAAATACATTC
261 TCAATTTTTCACAACTCAAATTTTAAGACAGTTAGTGAAGGCGTTTATTCTAAAAAAATACATTC
* * * * ** *
16638649 ACTAATTCCTTCTAATTTACTTACATAATTATTGAAGGTGTTTTTTTATAACAAACGTCTTTAAT
326 ACTAATTCCTTATAATTTACGTACATAATTATTGAAGGTATTTTTTTAGAACAAACACCTTCAAT
* * * * * * *
16638714 AATTTCCTCTTAAAATTTTTAGGATTATTAAAGGCGTTTTTCAATGAAAAACGCCTTTAATTTTC
391 AATTTCCTCTTAAAATTTTTAGGATTATTAAAAGCATCTTCCAATGAAAAAAGCCTTCAATTTTA
* * * *
16638779 CATAACTTAAATTTTAAGACGGTTAGTGAAGGCATTTATTCT
456 CATAACTCAAATTTAAAAACGGTTAGTGAAAGCATTTATTCT
*
16638821 AGAAAAACACCTTCACTAATTTTTTCTTAAAATTTTTGAGATTATTAAAGGCATCTTTTAGTGAA
1 AGAAAAACACCTTCACTAATTTTTTCTTAAAATTTTTGAGATTATTAAAGGCGTCTTTTAGTGAA
* *
16638886 GAACGCCTTCAATTTTTCACAACTCAAATTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAAAA
66 AAACGCCTTCAATTTTCCACAACTCAAATTTTAAGACGGTTAGTGAAGGCATTTATTCTAG-AAA
* ** * **
16638951 AATGCTTTCACTAATTTTTTTTAATTTTTGTACATAATTATTGAA
130 AATGCCTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAA
16638996 GGCGATTTTC
Statistics
Matches: 585, Mismatches: 83, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
495 7 0.01
496 529 0.90
497 49 0.08
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (497 bp):
AGAAAAACACCTTCACTAATTTTTTCTTAAAATTTTTGAGATTATTAAAGGCGTCTTTTAGTGAA
AAACGCCTTCAATTTTCCACAACTCAAATTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAAAA
ATGCCTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAAGATATTTTTTGAAAACAAAA
ACATTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGACGTCTTTCAATGAAAAACGCCT
TCAATTTTTCACAACTCAAATTTTAAGACAGTTAGTGAAGGCGTTTATTCTAAAAAAATACATTC
ACTAATTCCTTATAATTTACGTACATAATTATTGAAGGTATTTTTTTAGAACAAACACCTTCAAT
AATTTCCTCTTAAAATTTTTAGGATTATTAAAAGCATCTTCCAATGAAAAAAGCCTTCAATTTTA
CATAACTCAAATTTAAAAACGGTTAGTGAAAGCATTTATTCT
Found at i:16638655 original size:186 final size:185
Alignment explanation
Indices: 16638335--16638841 Score: 782
Period size: 186 Copynumber: 2.7 Consensus size: 185
16638325 AGAAAAATGC
* * * *
16638335 CTTCACTAATTTTCTCTTAAAATTTTTGAGATTATTAAAGACGTCTTTCAGTGAAAAACGCCTTC
1 CTTCAATAATTTTCTCTTAAAATTTTTGGGATTATTAAAGGCGTCTTTCAATGAAAAACGCCTTC
* * *
16638400 AATTTTGCATAACTCAAATTTTAAGATAGTTAGTGAAGGCATTTATTCTAGAAAAATGCCTTCAC
66 AATTTTCCATAACTCAAATTTTAAGACAGTTAGTGAAGGCATTTATTCTAGAAAAATACCTTCAC
16638465 TAATTCCTTCTAATTTACATACATAATTATTGAAAGTATTTTTTTAAAACAAA-T
131 TAATTCCTTCTAATTTACATACATAATTATTGAAAGTATTTTTTTAAAACAAACT
16638519 ACATTCAATAATTTTCTCTTAAAATTTTTGGGATTATTAAAGGCGTCTTTCAATGAAAAACGCCT
1 -C-TTCAATAATTTTCTCTTAAAATTTTTGGGATTATTAAAGGCGTCTTTCAATGAAAAACGCCT
* * *
16638584 TCAATTTTTCATAACTCAAATTTTAAGACAGTTAGTGAAGGCGTTTATTCTAGAAAAATACATTC
64 TCAATTTTCCATAACTCAAATTTTAAGACAGTTAGTGAAGGCATTTATTCTAGAAAAATACCTTC
* * * *
16638649 ACTAATTCCTTCTAATTTACTTACATAATTATTGAAGGTGTTTTTTTATAACAAACGT
129 ACTAATTCCTTCTAATTTACATACATAATTATTGAAAGTATTTTTTTAAAACAAAC-T
* * * * *
16638707 CTTTAATAATTTCCTCTTAAAATTTTTAGGATTATTAAAGGCGTTTTTCAATGAAAAACGCCTTT
1 CTTCAATAATTTTCTCTTAAAATTTTTGGGATTATTAAAGGCGTCTTTCAATGAAAAACGCCTTC
* * *
16638772 AATTTTCCATAACTTAAATTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAAAAACACCTTCAC
66 AATTTTCCATAACTCAAATTTTAAGACAGTTAGTGAAGGCATTTATTCTAGAAAAATACCTTCAC
16638837 TAATT
131 TAATT
16638842 TTTTCTTAAA
Statistics
Matches: 295, Mismatches: 24, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
185 1 0.00
186 292 0.99
187 1 0.00
188 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (185 bp):
CTTCAATAATTTTCTCTTAAAATTTTTGGGATTATTAAAGGCGTCTTTCAATGAAAAACGCCTTC
AATTTTCCATAACTCAAATTTTAAGACAGTTAGTGAAGGCATTTATTCTAGAAAAATACCTTCAC
TAATTCCTTCTAATTTACATACATAATTATTGAAAGTATTTTTTTAAAACAAACT
Found at i:16638849 original size:124 final size:124
Alignment explanation
Indices: 16638721--16638974 Score: 372
Period size: 124 Copynumber: 2.0 Consensus size: 124
16638711 AATAATTTCC
* * *
16638721 TCTTAAAATTTTT-AGGATTATTAAAGGCGT-TTTTCAATGAAAAACGCCTTTAATTTTCCATAA
1 TCTTAAAATTTTTGA-GATTATTAAAGGCATCTTTT-AATGAAAAACGCCTTCAATTTTCCACAA
*
16638784 CTTAAATTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAAAAACA-CCTTCACTAATTTTT
64 CTCAAATTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAAAAA-AGCCTTCACTAATTTTT
* * *
16638845 TCTTAAAATTTTTGAGATTATTAAAGGCATCTTTTAGTGAAGAACGCCTTCAATTTTTCACAACT
1 TCTTAAAATTTTTGAGATTATTAAAGGCATCTTTTAATGAAAAACGCCTTCAATTTTCCACAACT
*
16638910 CAAATTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAAAAAATGCTTTCACTAATTTTT
66 CAAATTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAAAAAA-GCCTTCACTAATTTTT
16638970 T-TTAA
1 TCTTAA
16638975 TTTTTGTACA
Statistics
Matches: 118, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
123 1 0.01
124 97 0.82
125 20 0.17
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (124 bp):
TCTTAAAATTTTTGAGATTATTAAAGGCATCTTTTAATGAAAAACGCCTTCAATTTTCCACAACT
CAAATTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAAAAAAGCCTTCACTAATTTTT
Found at i:16642767 original size:35 final size:35
Alignment explanation
Indices: 16642723--16642792 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
16642713 ATATATAAAC
* *
16642723 CAAATATTTTATGGGCATAAATATATAACTGACTT
1 CAAACATTTTATGGGCATAAACATATAACTGACTT
* ** *
16642758 CAAACATTTTTTGGGTGTAAACCTATAACTGACTT
1 CAAACATTTTATGGGCATAAACATATAACTGACTT
16642793 GATAAATACA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (35 bp):
CAAACATTTTATGGGCATAAACATATAACTGACTT
Found at i:16643607 original size:244 final size:244
Alignment explanation
Indices: 16643164--16643626 Score: 529
Period size: 244 Copynumber: 1.9 Consensus size: 244
16643154 CAAGAAAATA
* * * * *
16643164 CCTTGAATAATCCTCTAACAAAATGTTATTGAAGGCATTTTTTATTAAAACCACCTTTAATAATC
1 CCTTAAATAATCCTATAACAAAATGTTATTGAAGGCATTTTTGATAAAAACCACCTTCAATAATC
* * * * *
16643229 CCACCTAAAATTTTATTATGTGAAATATTGAAGGCATTTTGGGCAAAAAATGCCTTCAAGAATCC
66 CCACCTAAAATTTTATCATGTGAAATATTAAAGGCATTTTGAGCAAAAAATACATTCAAGAATCC
** ** *
16643294 GTTTCAACTTTTTTGTATAGATTATTGAAGGTGTTTTAAAAAAAAATGACCGTCAATAATATCAA
131 GTTTCAACTTTTTTGTATAGATTATTGAAGGCATTTTAAAAAAAAACCACAGTCAATAATATCAA
*
16643359 CTAAAAATTAATTGAATGGATTATTAAAGGCGTTTTCCTATCGATAACG
196 CTAAAAATTAATTGAATAGATTATTAAAGGCGTTTTCCTATCGATAACG
*
16643408 CCTTAAATAAT-CTATAACAAAATGTTATTGAAGGCATTTTTGGA-AAAAATCACCTTCAATAAT
1 CCTTAAATAATCCTATAACAAAATGTTATTGAAGGCATTTTT-GATAAAAACCACCTTCAATAAT
*** * * * * * *
16643471 TTGACCATTCAAA-TTTATCGTTTGGAATATTAAAGGCATTTTGAGCCAAAAATATATTCAAGAA
65 CCCACC--TAAAATTTTATCATGTGAAATATTAAAGGCATTTTGAGCAAAAAATACATTCAAGAA
* * ** * * * *
16643535 TCC-TTTCCAACTTTTTTTTATGGATTATTGAAGGCATTTTTGACAAAAACCACATTTAATAATG
128 TCCGTTT-CAACTTTTTTGTATAGATTATTGAAGGCATTTTAAAAAAAAACCACAGTCAATAATA
* * *
16643599 TTAACTAAAAATTTATTGATTAGATTAT
192 TCAACTAAAAATTAATTGAATAGATTAT
16643627 AAAATGCGAG
Statistics
Matches: 178, Mismatches: 37, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
243 51 0.29
244 123 0.69
245 4 0.02
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.37
Consensus pattern (244 bp):
CCTTAAATAATCCTATAACAAAATGTTATTGAAGGCATTTTTGATAAAAACCACCTTCAATAATC
CCACCTAAAATTTTATCATGTGAAATATTAAAGGCATTTTGAGCAAAAAATACATTCAAGAATCC
GTTTCAACTTTTTTGTATAGATTATTGAAGGCATTTTAAAAAAAAACCACAGTCAATAATATCAA
CTAAAAATTAATTGAATAGATTATTAAAGGCGTTTTCCTATCGATAACG
Found at i:16645258 original size:19 final size:19
Alignment explanation
Indices: 16645217--16645252 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16645207 GTGGCTTCTT
*
16645217 TTTTTTGTTTATGTTGTGC
1 TTTTTTGTTTATGTGGTGC
16645236 TTTTTTGTTTA-GTGGTG
1 TTTTTTGTTTATGTGGTG
16645253 AGTTTTGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.06, C:0.03, G:0.25, T:0.67
Consensus pattern (19 bp):
TTTTTTGTTTATGTGGTGC
Found at i:16647064 original size:21 final size:21
Alignment explanation
Indices: 16647040--16647084 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
16647030 CAGATGGAGA
*
16647040 GTGAAATGGATTTTAGTTTAT
1 GTGAAATGGATTTTAGCTTAT
* *
16647061 GTGATATGGATTTTGGCTTAT
1 GTGAAATGGATTTTAGCTTAT
16647082 GTG
1 GTG
16647085 GCAGCTGACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (21 bp):
GTGAAATGGATTTTAGCTTAT
Found at i:16647376 original size:2 final size:2
Alignment explanation
Indices: 16647369--16647405 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
16647359 GCCACTGCAT
16647369 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16647406 GTGTGTATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16647887 original size:152 final size:153
Alignment explanation
Indices: 16647671--16647954 Score: 459
Period size: 152 Copynumber: 1.9 Consensus size: 153
16647661 ATAGTGAACG
*
16647671 ACATAAATACTCCTATAAATTTTAAGAAATAACAAATTTACTTTTAAATTTTTAGCATTATTTAT
1 ACATAAATACTCCTATAAATTTTAAGAAATAACAAATTTACTTTTAAATTTCTAGCATTATTTAT
*
16647736 TTATTTAATAATA-ATTATTTATCATTAAATATATAGCTTTTATTAGTTAGTTATTTAAATTTAA
66 TTATTTAATAA-AGATTATTTATCATTAAAAATATAGCTTTTATTAGTTAGTTATTTAAATTTAA
16647800 ATCTAAAAGTGTTAAAAATGAATA
130 ATCTAAAAGTGTTAAAAATGAATA
* * *
16647824 ACATAAATA-TCTTTATAAATTTTAA-AAATAACAAATTTA-TATTTCAATTTCTAGCATTTTTT
1 ACATAAATACTC-CTATAAATTTTAAGAAATAACAAATTTACT-TTTAAATTTCTAGCATTATTT
*
16647886 ATTTATTTAATAAAGATTATTTATCATTAAAAATATAGCTTTTATTTGTTAGTTATTTAAATTTA
64 ATTTATTTAATAAAGATTATTTATCATTAAAAATATAGCTTTTATTAGTTAGTTATTTAAATTTA
16647951 AATC
129 AATC
16647955 AATTAAAAAT
Statistics
Matches: 122, Mismatches: 6, Indels: 7
0.90 0.04 0.05
Matches are distributed among these distances:
151 2 0.02
152 99 0.81
153 21 0.17
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (153 bp):
ACATAAATACTCCTATAAATTTTAAGAAATAACAAATTTACTTTTAAATTTCTAGCATTATTTAT
TTATTTAATAAAGATTATTTATCATTAAAAATATAGCTTTTATTAGTTAGTTATTTAAATTTAAA
TCTAAAAGTGTTAAAAATGAATA
Found at i:16650203 original size:17 final size:17
Alignment explanation
Indices: 16650181--16650214 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
16650171 TAATATTCCC
16650181 TCTATCTTATT-TTTTTG
1 TCTATCTT-TTCTTTTTG
16650198 TCTATCTTTTCTTTTTG
1 TCTATCTTTTCTTTTTG
16650215 GGATGTCCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.09, C:0.15, G:0.06, T:0.71
Consensus pattern (17 bp):
TCTATCTTTTCTTTTTG
Found at i:16650568 original size:22 final size:22
Alignment explanation
Indices: 16650543--16650800 Score: 107
Period size: 22 Copynumber: 11.9 Consensus size: 22
16650533 TAAATTATGG
*
16650543 ATAACTTAATAATAAATAAATA
1 ATAACTTAATAGTAAATAAATA
* * * *
16650565 ATAATTTAGTAGTAAATAATTG
1 ATAACTTAATAGTAAATAAATA
** * ** * *
16650587 ATAAGATAATTGTATGTCAATG
1 ATAACTTAATAGTAAATAAATA
* * *
16650609 ATAACATAATAATAAATACATA
1 ATAACTTAATAGTAAATAAATA
*
16650631 ATAA-TATAGTAGTAAAT-AATAA
1 ATAACT-TAATAGTAAATAAAT-A
* * * *
16650653 ATAACTTAATGGTAAATTATTT
1 ATAACTTAATAGTAAATAAATA
* * *
16650675 AT-ACATAATTGTAAATATATA
1 ATAACTTAATAGTAAATAAATA
* * **
16650696 ATAA-TTCAGTAGTAAATTAAGG
1 ATAACTT-AATAGTAAATAAATA
* * * *
16650718 ATAATTTAATA-AAAATAAGTG
1 ATAACTTAATAGTAAATAAATA
*
16650739 ATAACTTAATAGTAAAGT-AATG
1 ATAACTTAATAGTAAA-TAAATA
* * *
16650761 ATGACTTAGT-GTAAATTAATA
1 ATAACTTAATAGTAAATAAATA
*
16650782 ATAATTTAATAGTAAATAA
1 ATAACTTAATAGTAAATAA
16650801 GATTAAGTTT
Statistics
Matches: 168, Mismatches: 57, Indels: 22
0.68 0.23 0.09
Matches are distributed among these distances:
20 1 0.01
21 49 0.29
22 112 0.67
23 6 0.04
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.35
Consensus pattern (22 bp):
ATAACTTAATAGTAAATAAATA
Found at i:16651156 original size:22 final size:22
Alignment explanation
Indices: 16651121--16651654 Score: 229
Period size: 22 Copynumber: 24.1 Consensus size: 22
16651111 AATCATAAAA
* *
16651121 AACTTAATAATAAATTAATGAT
1 AACTTAATAGTAAATCAATGAT
* * * *
16651143 AATTTAGTAGTAAAT-AATTTAG
1 AACTTAATAGTAAATCAA-TGAT
*
16651165 AACTTAGTAGTAATTAAT-AATTGA-
1 AACTTAATAGT-A--AATCAA-TGAT
* *
16651189 AAATTAAAAGTAAATCAAT-AT
1 AACTTAATAGTAAATCAATGAT
* *
16651210 AACCTAATAGT-AATCATTGAT
1 AACTTAATAGTAAATCAATGAT
* * * *
16651231 AAATTAATAGTTAATTAGTGAT
1 AACTTAATAGTAAATCAATGAT
* *
16651253 AATTCTGT-ATAGTAAATTAGTGAT
1 AA--CT-TAATAGTAAATCAATGAT
* ** *
16651277 AACTTAATAATATGTCAATAAT
1 AACTTAATAGTAAATCAATGAT
*
16651299 AATTTAATAGTAAAT-AATTGAT
1 AACTTAATAGTAAATCAA-TGAT
* *
16651321 AACTTAGTAGTAAATCAATAAT
1 AACTTAATAGTAAATCAATGAT
*
16651343 AA-TATAATAGTAAATGC-ATAAT
1 AACT-TAATAGTAAAT-CAATGAT
*
16651365 AACTTAATAGTAAATCAATTAT
1 AACTTAATAGTAAATCAATGAT
* * *
16651387 AACATAATTGTAAATGCAA-AAT
1 AACTTAATAGTAAAT-CAATGAT
* * *
16651409 AGCATAGTAGTAAATCAATGAT
1 AACTTAATAGTAAATCAATGAT
* **
16651431 AATTTAATAAAAAAAT-AGATGAT
1 AACTTAAT-AGTAAATCA-ATGAT
* *
16651454 AACTTAATAGTTAATCATTGAT
1 AACTTAATAGTAAATCAATGAT
* *
16651476 AATTTAATAGTAAATCAATGAA
1 AACTTAATAGTAAATCAATGAT
* * * *
16651498 AATTTAGTAATAAAT-TATAGAT
1 AACTTAATAGTAAATCAAT-GAT
* *
16651520 AACTTAATAGTAAATCTAT-TT
1 AACTTAATAGTAAATCAATGAT
* * * * *
16651541 TACTTTAATAGCAATTAAATTAT
1 AAC-TTAATAGTAAATCAATGAT
** *
16651564 AAACTTAGCAGTAAATC-ATAAAT
1 -AACTTAATAGTAAATCAAT-GAT
*
16651587 AACTTAGA-AATAAATCAATGAT
1 AACTTA-ATAGTAAATCAATGAT
* * * * *
16651609 AATTTAGTAGTTAATCAGT-AA
1 AACTTAATAGTAAATCAATGAT
*
16651630 AACTCAAT-GATAAATCAATGAT
1 AACTTAATAG-TAAATCAATGAT
16651652 AAC
1 AAC
16651655 ATGATAGCAA
Statistics
Matches: 384, Mismatches: 94, Indels: 68
0.70 0.17 0.12
Matches are distributed among these distances:
20 8 0.02
21 51 0.13
22 245 0.64
23 43 0.11
24 28 0.07
25 9 0.02
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (22 bp):
AACTTAATAGTAAATCAATGAT
Found at i:16651712 original size:22 final size:22
Alignment explanation
Indices: 16651679--16651761 Score: 107
Period size: 22 Copynumber: 3.8 Consensus size: 22
16651669 ATAATAGTAC
16651679 ATAGT-AATTATTGATAATTTT
1 ATAGTAAATTATTGATAATTTT
16651700 ATAGTAAATTATTGATAA-TTT
1 ATAGTAAATTATTGATAATTTT
* * * *
16651721 AGTAGTAAATCACTAATAATGTT
1 A-TAGTAAATTATTGATAATTTT
16651744 ATAGTAAATTATTGATAA
1 ATAGTAAATTATTGATAA
16651762 CTTAGCTATA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
21 9 0.17
22 40 0.77
23 3 0.06
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (22 bp):
ATAGTAAATTATTGATAATTTT
Found at i:16651746 original size:44 final size:44
Alignment explanation
Indices: 16651692--16651776 Score: 136
Period size: 44 Copynumber: 1.9 Consensus size: 44
16651682 GTAATTATTG
* *
16651692 ATAATTTTATAGTAAATTATTGATAATTTAG-TAGTAAATCACTA
1 ATAATGTTATAGTAAATTATTGATAACTTAGCTA-TAAATCACTA
16651736 ATAATGTTATAGTAAATTATTGATAACTTAGCTATAAATCA
1 ATAATGTTATAGTAAATTATTGATAACTTAGCTATAAATCA
16651777 GAGATAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 36 0.95
45 2 0.05
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (44 bp):
ATAATGTTATAGTAAATTATTGATAACTTAGCTATAAATCACTA
Found at i:16651773 original size:22 final size:21
Alignment explanation
Indices: 16651748--16651797 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
16651738 AATGTTATAG
**
16651748 TAAATTATTGATAACTTAGCTA
1 TAAATTAGAGATAACTTAG-TA
* *
16651770 TAAATCAGAGATAATTTAGTA
1 TAAATTAGAGATAACTTAGTA
16651791 TAAATTA
1 TAAATTA
16651798 ATAATGATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (21 bp):
TAAATTAGAGATAACTTAGTA
Found at i:16651784 original size:44 final size:44
Alignment explanation
Indices: 16651691--16651797 Score: 132
Period size: 44 Copynumber: 2.4 Consensus size: 44
16651681 AGTAATTATT
* *
16651691 GATAATTTTATAGTAAATTATTGATAATTTAGTAGTAAATCACTA
1 GATAA-TTTATAGTAAATTATTGATAACTTAGTAGTAAATCACGA
16651736 -ATAATGTTATAGTAAATTATTGATAACTTAGCTA-TAAATCA-GA
1 GATAAT-TTATAGTAAATTATTGATAACTTAG-TAGTAAATCACGA
16651779 GATAATTTAGTA-TAAATTA
1 GATAATTTA-TAGTAAATTA
16651798 ATAATGATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
43 12 0.21
44 42 0.75
45 2 0.04
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (44 bp):
GATAATTTATAGTAAATTATTGATAACTTAGTAGTAAATCACGA
Found at i:16651877 original size:22 final size:21
Alignment explanation
Indices: 16651818--16651895 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 21
16651808 AGTTGTAAAT
* *
16651818 TAGTTAATTATTAACAACTTCT-
1 TAGTAAATTA-TAATAACTT-TA
*
16651840 TAGTAAATCATCAATAACTTTA
1 TAGTAAATTAT-AATAACTTTA
*
16651862 TAGTAAATTAGTAATAATTTTA
1 TAGTAAATTA-TAATAACTTTA
*
16651884 TAATAAATTATA
1 TAGTAAATTATA
16651896 GTAAATTAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
21 4 0.09
22 42 0.89
23 1 0.02
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (21 bp):
TAGTAAATTATAATAACTTTA
Found at i:16651897 original size:32 final size:32
Alignment explanation
Indices: 16651859--16651926 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
16651849 ATCAATAACT
*
16651859 TTATAGTAAATTAGTAATAATTTTATAATAAA
1 TTATAGTAAATTAGTAATAACTTTATAATAAA
16651891 TTATAGTAAATTAGTAATAACTTTATAATAAA
1 TTATAGTAAATTAGTAATAACTTTATAATAAA
16651923 TTAT
1 TTAT
16651927 CTATAACTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (32 bp):
TTATAGTAAATTAGTAATAACTTTATAATAAA
Found at i:16651903 original size:76 final size:76
Alignment explanation
Indices: 16651818--16651967 Score: 189
Period size: 76 Copynumber: 2.0 Consensus size: 76
16651808 AGTTGTAAAT
* * * *
16651818 TAGTTAATTATTAACAACTTCT-TAGTAAATCATCAATAACTTTATAGTAAATTAGT-AATAATT
1 TAGTAAATTAGTAACAACTT-TATAATAAATCATCAATAACTTAATAGTAAATTA-TCAATAA-T
16651881 TTA-TAATAAATTA
63 TTAGTAATAAATTA
* * *
16651894 TAGTAAATTAGTAATAACTTTATAATAAATTATCTATAACTTAATAGTAAATTATCAATAATTTA
1 TAGTAAATTAGTAACAACTTTATAATAAATCATCAATAACTTAATAGTAAATTATCAATAATTTA
16651959 GTAATAAAT
66 GTAATAAAT
16651968 AATTTATAAC
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
75 6 0.09
76 58 0.91
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (76 bp):
TAGTAAATTAGTAACAACTTTATAATAAATCATCAATAACTTAATAGTAAATTATCAATAATTTA
GTAATAAATTA
Found at i:16651947 original size:44 final size:44
Alignment explanation
Indices: 16651893--16652011 Score: 134
Period size: 44 Copynumber: 2.7 Consensus size: 44
16651883 ATAATAAATT
*
16651893 ATAGTAAATTAGT-AATAACTTTA-TAATAAATTATCTATAACTTA
1 ATAGTAAATTA-TCAATAA-TTTAGTAATAAATAATCTATAACTTA
*
16651937 ATAGTAAATTATCAATAATTTAGTAATAAATAATTTATAACTTA
1 ATAGTAAATTATCAATAATTTAGTAATAAATAATCTATAACTTA
* * * * * *
16651981 GTAATAAATCATCTATAACTTAGTGATAAAT
1 ATAGTAAATTATCAATAATTTAGTAATAAAT
16652012 TAATGATAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
43 5 0.08
44 60 0.92
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.39
Consensus pattern (44 bp):
ATAGTAAATTATCAATAATTTAGTAATAAATAATCTATAACTTA
Found at i:16651962 original size:19 final size:21
Alignment explanation
Indices: 16651881--16652002 Score: 86
Period size: 22 Copynumber: 5.7 Consensus size: 21
16651871 AGTAATAATT
*
16651881 TTAT-AATAAATTATAGTAAA
1 TTATCAATAACTTATAGTAAA
*
16651901 TTAGT-AATAACTTTATAATAAA
1 TTA-TCAATAAC-TTATAGTAAA
*
16651923 TTATCTATAACTTAATAGTAAA
1 TTATCAATAACTT-ATAGTAAA
* *
16651945 TTATCAATAATTTAGTAATAAA
1 TTATCAATAACTTA-TAGTAAA
* ** *
16651967 TAATTTATAACTTAGTAATAAA
1 TTATCAATAACTTA-TAGTAAA
* *
16651989 TCATCTATAACTTA
1 TTATCAATAACTTA
16652003 GTGATAAATT
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
20 3 0.04
21 10 0.12
22 71 0.85
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (21 bp):
TTATCAATAACTTATAGTAAA
Found at i:16651976 original size:22 final size:22
Alignment explanation
Indices: 16651907--16652011 Score: 113
Period size: 22 Copynumber: 4.8 Consensus size: 22
16651897 TAAATTAGTA
*
16651907 ATAACTTTA-TAATAAATTATCT
1 ATAAC-TTAGTAATAAATAATCT
* * * *
16651929 ATAACTTAATAGTAAATTATCA
1 ATAACTTAGTAATAAATAATCT
* *
16651951 ATAATTTAGTAATAAATAATTT
1 ATAACTTAGTAATAAATAATCT
*
16651973 ATAACTTAGTAATAAATCATCT
1 ATAACTTAGTAATAAATAATCT
*
16651995 ATAACTTAGTGATAAAT
1 ATAACTTAGTAATAAAT
16652012 TAATGATAAT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
21 3 0.04
22 67 0.96
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.40
Consensus pattern (22 bp):
ATAACTTAGTAATAAATAATCT
Found at i:16651987 original size:11 final size:10
Alignment explanation
Indices: 16651859--16651967 Score: 74
Period size: 11 Copynumber: 10.1 Consensus size: 10
16651849 ATCAATAACT
*
16651859 TTATAGTAAA
1 TTATAATAAA
*
16651869 TTAGTAATAATT
1 TTA-TAATAA-A
16651881 TTATAATAAA
1 TTATAATAAA
*
16651891 TTATAGTAAA
1 TTATAATAAA
*
16651901 TTAGTAATAACT
1 TTA-TAATAA-A
16651913 TTATAATAAA
1 TTATAATAAA
* *
16651923 TTATCTATAAC
1 TTAT-AATAAA
*
16651934 TTAATAGTAAA
1 TT-ATAATAAA
*
16651945 TTATCAATAAT
1 TTAT-AATAAA
16651956 TTAGTAATAAA
1 TTA-TAATAAA
16651967 T
1 T
16651968 AATTTATAAC
Statistics
Matches: 76, Mismatches: 15, Indels: 15
0.72 0.14 0.14
Matches are distributed among these distances:
10 21 0.28
11 46 0.61
12 9 0.12
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.42
Consensus pattern (10 bp):
TTATAATAAA
Found at i:16652020 original size:22 final size:21
Alignment explanation
Indices: 16651907--16652025 Score: 87
Period size: 22 Copynumber: 5.4 Consensus size: 21
16651897 TAAATTAGTA
*
16651907 ATAACTTTA-TAATAAATTATCT
1 ATAAC-TTAGTAATAAATAAT-T
* * * *
16651929 ATAACTTAATAGTAAATTATCA
1 ATAACTTAGTAATAAATAAT-T
*
16651951 ATAATTTAGTAATAAATAATTT
1 ATAACTTAGTAATAAATAA-TT
*
16651973 ATAACTTAGTAATAAATCATCT
1 ATAACTTAGTAATAAATAAT-T
* *
16651995 ATAACTTAGTGATAAATTAATG
1 ATAACTTAGTAATAAA-TAATT
*
16652017 ATAATTTAG
1 ATAACTTAG
16652026 AAGTAATCAG
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
21 4 0.05
22 72 0.90
23 4 0.05
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.40
Consensus pattern (21 bp):
ATAACTTAGTAATAAATAATT
Found at i:16652301 original size:22 final size:22
Alignment explanation
Indices: 16652276--16652372 Score: 86
Period size: 22 Copynumber: 4.3 Consensus size: 22
16652266 CTCATATATT
* *
16652276 GTAATTTATTGATAAATTAATA
1 GTAATTAATTGATAACTTAATA
* * ** *
16652298 GTAAATCATAAATAACTTAGTA
1 GTAATTAATTGATAACTTAATA
16652320 GTAATTCAATTGATAACTTAATA
1 GTAATT-AATTGATAACTTAATA
* * *
16652343 GTAAATAATTAATAACTTAACA
1 GTAATTAATTGATAACTTAATA
16652365 GCTAATTA
1 G-TAATTA
16652373 TTAAAAAGTT
Statistics
Matches: 58, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
22 36 0.62
23 22 0.38
ACGTcount: A:0.47, C:0.07, G:0.08, T:0.37
Consensus pattern (22 bp):
GTAATTAATTGATAACTTAATA
Found at i:16652337 original size:23 final size:23
Alignment explanation
Indices: 16652287--16652362 Score: 93
Period size: 22 Copynumber: 3.4 Consensus size: 23
16652277 TAATTTATTG
* *
16652287 ATAAATTAATAGTAAATC-ATAA
1 ATAACTTAATAGTAAATCAATTA
* * *
16652309 ATAACTTAGTAGTAATTCAATTG
1 ATAACTTAATAGTAAATCAATTA
16652332 ATAACTTAATAGTAAAT-AATTA
1 ATAACTTAATAGTAAATCAATTA
16652354 ATAACTTAA
1 ATAACTTAA
16652363 CAGCTAATTA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
22 28 0.62
23 17 0.38
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.36
Consensus pattern (23 bp):
ATAACTTAATAGTAAATCAATTA
Found at i:16652577 original size:22 final size:22
Alignment explanation
Indices: 16652559--16652663 Score: 63
Period size: 22 Copynumber: 4.8 Consensus size: 22
16652549 CATTTATAAC
16652559 TAACTTTA-TAATAAATTATCAA
1 TAAC-TTAGTAATAAATTATCAA
*
16652581 TAACTTAGTAATAAATCATTC-A
1 TAACTTAGTAATAAATTA-TCAA
* * * **
16652603 TAACTTAATAGTAAATCATTGA
1 TAACTTAGTAATAAATTATCAA
* * * *
16652625 TAATTTAATAATAAA-CATTAA
1 TAACTTAGTAATAAATTATCAA
* *
16652646 TAACATAATAATAAATTA
1 TAACTTAGTAATAAATTA
16652664 GTTATAATAA
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
21 22 0.32
22 45 0.65
23 2 0.03
ACGTcount: A:0.51, C:0.09, G:0.03, T:0.37
Consensus pattern (22 bp):
TAACTTAGTAATAAATTATCAA
Found at i:16652671 original size:43 final size:43
Alignment explanation
Indices: 16652566--16652671 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 43
16652556 AACTAACTTT
* * * * *
16652566 ATAATAAATTATCAATAACTTAGTAATAAATCATTCATAACTTA
1 ATAATAAATTAT-TATAATTTAATAATAAATCATTAATAACATA
* *
16652610 ATAGTAAATCATTGATAATTTAATAATAAA-CATTAATAACATA
1 ATAATAAATTATT-ATAATTTAATAATAAATCATTAATAACATA
16652653 ATAATAAATTAGTTATAAT
1 ATAATAAATTA-TTATAAT
16652672 AATATATCAG
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
43 25 0.49
44 26 0.51
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (43 bp):
ATAATAAATTATTATAATTTAATAATAAATCATTAATAACATA
Found at i:16652743 original size:22 final size:23
Alignment explanation
Indices: 16652685--16652744 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 23
16652675 ATATCAGTGT
* *
16652685 TAATTTAGTTGT-AATTTATTGA
1 TAATTAAGTTGTAAATTAATTGA
16652707 TAACTTAA--TGATAAATTAATT-A
1 TAA-TTAAGTTG-TAAATTAATTGA
16652729 TAATTAAGTTGTAAAT
1 TAATTAAGTTGTAAAT
16652745 CAGTGATAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
21 6 0.19
22 13 0.42
23 12 0.39
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.47
Consensus pattern (23 bp):
TAATTAAGTTGTAAATTAATTGA
Found at i:16652889 original size:24 final size:24
Alignment explanation
Indices: 16652841--16652901 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
16652831 CATATTTTAA
* *
16652841 TAGTAAATTAGTGATATAATTTAG
1 TAGTAAATTATTGATATAATATAG
*
16652865 TCGTAAATTATTGATA-ATATATAG
1 TAGTAAATTATTGATATA-ATATAG
*
16652889 TAGTAAATCATTG
1 TAGTAAATTATTG
16652902 CTAACTTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 1 0.03
24 30 0.97
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (24 bp):
TAGTAAATTATTGATATAATATAG
Found at i:16656440 original size:20 final size:19
Alignment explanation
Indices: 16656417--16656455 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
16656407 TATAAAATAA
*
16656417 TTAAATATCACATTTAAATT
1 TTAAAAATCAC-TTTAAATT
*
16656437 TTAAAAATTACTTTAAATT
1 TTAAAAATCACTTTAAATT
16656456 CGCTTCAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAAAAATCACTTTAAATT
Found at i:16657241 original size:25 final size:25
Alignment explanation
Indices: 16657213--16657263 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
16657203 AATAGAGTAA
* *
16657213 TGAAAAGAAAAGGAAAGGAGAAAAG
1 TGAAAAGAAAAGAAAAGAAGAAAAG
16657238 TGAAAAGAAAAGAAAAGAAGAAAAG
1 TGAAAAGAAAAGAAAAGAAGAAAAG
16657263 T
1 T
16657264 ATATTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.06
Consensus pattern (25 bp):
TGAAAAGAAAAGAAAAGAAGAAAAG
Found at i:16658188 original size:8 final size:8
Alignment explanation
Indices: 16658177--16658230 Score: 63
Period size: 8 Copynumber: 6.5 Consensus size: 8
16658167 TGATATGAAC
*
16658177 ATATCAAT
1 ATATCTAT
16658185 ATATCTAT
1 ATATCTAT
16658193 ATATCTAT
1 ATATCTAT
16658201 ATCTATCTAT
1 A--TATCTAT
*
16658211 ATATATAT
1 ATATCTAT
*
16658219 ATATATAT
1 ATATCTAT
16658227 ATAT
1 ATAT
16658231 ATATTTCTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
8 34 0.81
10 8 0.19
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (8 bp):
ATATCTAT
Found at i:16658193 original size:6 final size:6
Alignment explanation
Indices: 16658183--16658234 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
16658173 GAACATATCA
* * * *
16658183 ATATAT CTATAT ATCTAT ATCTAT CTATAT ATATAT ATATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
16658231 ATAT
1 ATAT
16658235 TTCTTATGGG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (6 bp):
ATATAT
Found at i:16658215 original size:4 final size:4
Alignment explanation
Indices: 16658183--16658234 Score: 68
Period size: 4 Copynumber: 13.0 Consensus size: 4
16658173 GAACATATCA
* * * *
16658183 ATAT ATCT ATAT ATCT ATAT CTAT CTAT ATAT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
16658231 ATAT
1 ATAT
16658235 TTCTTATGGG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (4 bp):
ATAT
Found at i:16660357 original size:19 final size:21
Alignment explanation
Indices: 16660333--16660374 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
16660323 TTCAAGAGAT
*
16660333 TTAAAAT-TTTAA-AAATATA
1 TTAAAATATTAAATAAATATA
16660352 TTAAAATATTAAATAAATATA
1 TTAAAATATTAAATAAATATA
16660373 TT
1 TT
16660375 TTATAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 4 0.20
21 9 0.45
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAAAATATTAAATAAATATA
Found at i:16661643 original size:16 final size:16
Alignment explanation
Indices: 16661622--16661724 Score: 60
Period size: 16 Copynumber: 6.6 Consensus size: 16
16661612 ATTATTAAAA
16661622 TATTAAAATTATTTAT
1 TATTAAAATTATTTAT
16661638 TATT-AAA--A--TA-
1 TATTAAAATTATTTAT
*
16661648 TATTGAAATTATTTAT
1 TATTAAAATTATTTAT
*
16661664 TATTAAAATTA-TTAA
1 TATTAAAATTATTTAT
*
16661679 TATTCAAAAATAATTATAT
1 TATT--AAAATTATT-TAT
*
16661698 T-TTAATAATAATATTTAA
1 TATTAA-AAT--TATTTAT
16661716 TATTAAAAT
1 TATTAAAAT
16661725 ATTATTTAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 26
0.68 0.06 0.26
Matches are distributed among these distances:
10 4 0.06
11 5 0.07
13 2 0.03
15 12 0.18
16 16 0.24
17 9 0.13
18 9 0.13
19 10 0.15
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (16 bp):
TATTAAAATTATTTAT
Found at i:16661650 original size:26 final size:26
Alignment explanation
Indices: 16661612--16661678 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
16661602 TATTAATATA
16661612 ATTATT-AAA-ATATTAAAATTATTT
1 ATTATTAAAATATATTAAAATTATTT
*
16661636 ATTATTAAAATATATTGAAATTATTT
1 ATTATTAAAATATATTAAAATTATTT
16661662 ATTATTAAAAT-TATTAA
1 ATTATTAAAATATATTAA
16661679 TATTCAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
24 6 0.15
25 8 0.21
26 25 0.64
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (26 bp):
ATTATTAAAATATATTAAAATTATTT
Found at i:16661651 original size:10 final size:9
Alignment explanation
Indices: 16661611--16661678 Score: 65
Period size: 9 Copynumber: 8.0 Consensus size: 9
16661601 ATATTAATAT
16661611 AATTATTAA
1 AATTATTAA
16661620 AA-TATTAA
1 AATTATTAA
16661628 AATTATT--
1 AATTATTAA
*
16661635 TATTATTAA
1 AATTATTAA
*
16661644 AATATATTGA
1 AAT-TATTAA
16661654 AATTATT--
1 AATTATTAA
*
16661661 TATTATTAA
1 AATTATTAA
16661670 AATTATTAA
1 AATTATTAA
16661679 TATTCAAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
7 12 0.25
8 8 0.17
9 20 0.42
10 8 0.17
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (9 bp):
AATTATTAA
Found at i:16661730 original size:18 final size:17
Alignment explanation
Indices: 16661653--16661741 Score: 69
Period size: 18 Copynumber: 5.2 Consensus size: 17
16661643 AAATATATTG
*
16661653 AAATTATTTATTATT-A
1 AAATTATTTAATATTAA
16661669 AAATTA-TTAATATTCAA
1 AAATTATTTAATATT-AA
* *
16661686 AAA-TAATTATATTTTAA
1 AAATTATTTA-ATATTAA
*
16661703 TAATAATATTTAATATTAA
1 -AA-ATTATTTAATATTAA
16661722 AATATTATTTAATA-TAA
1 AA-ATTATTTAATATTAA
16661739 AAA
1 AAA
16661742 AACTTAAAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 14
0.76 0.06 0.17
Matches are distributed among these distances:
15 7 0.11
16 9 0.15
17 14 0.23
18 19 0.31
19 7 0.11
20 5 0.08
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (17 bp):
AAATTATTTAATATTAA
Found at i:16661810 original size:15 final size:15
Alignment explanation
Indices: 16661772--16661951 Score: 86
Period size: 15 Copynumber: 11.5 Consensus size: 15
16661762 ATTATTCTTC
16661772 ATATTATTTATTAAT
1 ATATTATTTATTAAT
16661787 AATAAATTATTTATT-A-
1 -AT--ATTATTTATTAAT
16661803 ATA-TA-TTA-T-A-
1 ATATTATTTATTAAT
*
16661813 ATATTGTTTATTAAT
1 ATATTATTTATTAAT
*
16661828 ATATGATTTATTAATAT
1 ATATTATTTATT-A-AT
* *
16661845 ATATTGTTTATGAAT
1 ATATTATTTATTAAT
* *
16661860 ATATTATAATATTTTTAT
1 ATATTAT--T-TATTAAT
*
16661878 GAATATTTTTTATTAAT
1 --ATATTATTTATTAAT
* *
16661895 ATATTATATTAATAGT
1 ATATTAT-TTATTAAT
16661911 ATATTATTTATTCATAT
1 ATATTATTTATT-A-AT
*
16661928 AATATTATTTATTTAT
1 -ATATTATTTATTAAT
*
16661944 ATAATATT
1 ATATTATT
16661952 AATTTTAAGT
Statistics
Matches: 126, Mismatches: 20, Indels: 37
0.69 0.11 0.20
Matches are distributed among these distances:
10 5 0.04
11 4 0.03
12 5 0.04
13 2 0.02
14 1 0.01
15 37 0.29
16 20 0.16
17 19 0.15
18 27 0.21
20 6 0.05
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (15 bp):
ATATTATTTATTAAT
Found at i:16661826 original size:23 final size:22
Alignment explanation
Indices: 16661774--16661831 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 22
16661764 TATTCTTCAT
16661774 ATTATTTATT-A-ATA--ATAA
1 ATTATTTATTAATATATTATAA
16661792 ATTATTTATTAATATATTATAA
1 ATTATTTATTAATATATTATAA
*
16661814 TATTGTTTATTAATATAT
1 -ATTATTTATTAATATAT
16661832 GATTTATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 10 0.29
19 1 0.03
20 3 0.09
22 4 0.12
23 16 0.47
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
ATTATTTATTAATATATTATAA
Found at i:16661876 original size:22 final size:25
Alignment explanation
Indices: 16661836--16661883 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 25
16661826 ATATATGATT
16661836 TATTAATATATATTGTTTATGAATA
1 TATTAATATATATTGTTTATGAATA
16661861 TATT-ATA-ATATT-TTTATGAATA
1 TATTAATATATATTGTTTATGAATA
16661883 T
1 T
16661884 TTTTTATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 11 0.48
23 5 0.22
24 3 0.13
25 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (25 bp):
TATTAATATATATTGTTTATGAATA
Found at i:16661903 original size:55 final size:55
Alignment explanation
Indices: 16661772--16661952 Score: 168
Period size: 55 Copynumber: 3.5 Consensus size: 55
16661762 ATTATTCTTC
* * *
16661772 ATATTATTTATTAATA-ATAAATTATTTATTAATATATTATAATATTGTTTATTA
1 ATATTATTTATTAATATATATATTATTTATGAATATATTATAATATTGTTTATGA
*
16661826 ATATATGATTTATT-A-ATATATATTGTTTATGAATATATTATAATATT-TTTATGA
1 ATAT-T-ATTTATTAATATATATATTATTTATGAATATATTATAATATTGTTTATGA
* * * * **
16661880 ATATTTTTTATTAATATAT-TA-TATTAAT-AGTATATTAT-TTATT-CATAT-A
1 ATATTATTTATTAATATATATATTATTTATGAATATATTATAATATTGTTTATGA
*
16661929 ATATTATTTATTTATATA-ATATTA
1 ATATTATTTATTAATATATATATTA
16661953 ATTTTAAGTA
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
49 19 0.18
50 9 0.08
51 9 0.08
52 11 0.10
53 4 0.04
54 19 0.18
55 29 0.27
56 7 0.07
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (55 bp):
ATATTATTTATTAATATATATATTATTTATGAATATATTATAATATTGTTTATGA
Found at i:16661904 original size:13 final size:12
Alignment explanation
Indices: 16661796--16661908 Score: 54
Period size: 13 Copynumber: 8.8 Consensus size: 12
16661786 TAATAAATTA
16661796 TTTATTAATA-T
1 TTTATTAATATT
*
16661807 ATTA-TAATATT
1 TTTATTAATATT
16661818 GTTTATTAATATAT
1 -TTTATTAATAT-T
16661832 GATTTATTAATATATATT
1 --TTTA-T--TA-ATATT
*
16661850 GTTTATGAATA-T
1 -TTTATTAATATT
*
16661862 ATTA-TAATATT
1 TTTATTAATATT
*
16661873 TTTATGAATATTT
1 TTTATTAATA-TT
16661886 TTTATTAATATAT
1 TTTATTAATAT-T
*
16661899 TATATTAATA
1 TTTATTAATA
16661909 GTATATTATT
Statistics
Matches: 78, Mismatches: 11, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
10 9 0.12
11 11 0.14
12 9 0.12
13 30 0.38
14 2 0.03
15 4 0.05
16 2 0.03
17 4 0.05
18 3 0.04
19 4 0.05
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (12 bp):
TTTATTAATATT
Found at i:16661945 original size:18 final size:18
Alignment explanation
Indices: 16661772--16661952 Score: 116
Period size: 18 Copynumber: 10.3 Consensus size: 18
16661762 ATTATTCTTC
16661772 ATATTATTTATTAATAATA
1 ATATTATTTATTAAT-ATA
16661791 A-ATTATTTATTAATATA
1 ATATTATTTATTAATATA
* * * *
16661808 TTATAATATTGTTTAT-TA
1 ATATTAT-TTATTAATATA
16661826 ATATATGATTTATTAATAT-
1 ATAT-T-ATTTATTAATATA
* *
16661845 ATATTGTTTATGAATATA
1 ATATTATTTATTAATATA
* *
16661863 TTATAATATTT-TT-AT-GA
1 --ATATTATTTATTAATATA
*
16661880 ATATTTTTTATT-A-AT-
1 ATATTATTTATTAATATA
16661895 ATATTA--TATTAATAGT-
1 ATATTATTTATTAATA-TA
*
16661911 ATATTATTTATTCATATA
1 ATATTATTTATTAATATA
*
16661929 ATATTATTTATTTATATA
1 ATATTATTTATTAATATA
16661947 ATATTA
1 ATATTA
16661953 ATTTTAAGTA
Statistics
Matches: 126, Mismatches: 20, Indels: 33
0.70 0.11 0.18
Matches are distributed among these distances:
13 4 0.03
14 1 0.01
15 13 0.10
16 10 0.08
17 15 0.12
18 55 0.44
19 18 0.14
20 10 0.08
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (18 bp):
ATATTATTTATTAATATA
Found at i:16661945 original size:31 final size:31
Alignment explanation
Indices: 16661864--16661945 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 31
16661854 ATGAATATAT
* *
16661864 TATAATATT-TTTATGAATATTTTTTATTAA
1 TATAATATTATTTATGTATATTATTTATTAA
* * *
16661894 TATATTA-TATTAATAGTATATTATTTATTCA
1 TATAATATTATTTAT-GTATATTATTTATTAA
*
16661925 TATAATATTATTTATTTATAT
1 TATAATATTATTTATGTATAT
16661946 AATATTAATT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
29 1 0.02
30 10 0.24
31 24 0.59
32 6 0.15
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (31 bp):
TATAATATTATTTATGTATATTATTTATTAA
Found at i:16667505 original size:15 final size:15
Alignment explanation
Indices: 16667485--16667514 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16667475 AGTGTATACG
16667485 CTACTATGAAAAAGT
1 CTACTATGAAAAAGT
16667500 CTACTATGAAAAAGT
1 CTACTATGAAAAAGT
16667515 GAGAAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (15 bp):
CTACTATGAAAAAGT
Found at i:16668551 original size:31 final size:31
Alignment explanation
Indices: 16668516--16668581 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
16668506 TATTTTCTTA
16668516 AATATTAACACATTATTATATGTTTATAAGT
1 AATATTAACACATTATTATATGTTTATAAGT
*
16668547 AATATTAACACATTATTTTATGTTTATAAGT
1 AATATTAACACATTATTATATGTTTATAAGT
16668578 AATA
1 AATA
16668582 AAATAATGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (31 bp):
AATATTAACACATTATTATATGTTTATAAGT
Found at i:16675352 original size:4 final size:4
Alignment explanation
Indices: 16675286--16675528 Score: 73
Period size: 4 Copynumber: 61.8 Consensus size: 4
16675276 GGGTAGGCCA
* * * *
16675286 ATTT ATTT -TTT ATTT -TTT ATTT -TAT ATAT ATTT CTTT TTTGT ATTTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT-T A-TTT
* * * *
16675333 ATGT A-TT ATGT ATTT ATTT ATTT A-TT ATTACT ATTT GTTAAT ATAT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT--T ATTT ATT--T ATTT
* * * * *
16675379 ATTT A-TT ATTT ATCT GTTAAT ATAT ATTT A-TT ATTT ATCT ATTT ATAT
1 ATTT ATTT ATTT ATTT ATT--T ATTT ATTT ATTT ATTT ATTT ATTT ATTT
* * * * *
16675427 A-TT ATTAT ATAT ATGT ATTT A-TT A-TT ATTT ATCT ACTT ATAT A-TT
1 ATTT ATT-T ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
* * * * *
16675472 A-TT A-TT ATTT ATCT ATTA ATATT -TTT ATTT ATCT AATT ATTT TTTT
1 ATTT ATTT ATTT ATTT ATTT AT-TT ATTT ATTT ATTT ATTT ATTT ATTT
* *
16675518 AATT ATCT ATT
1 ATTT ATTT ATT
16675529 AACATTTTTT
Statistics
Matches: 172, Mismatches: 46, Indels: 42
0.66 0.18 0.16
Matches are distributed among these distances:
3 37 0.22
4 118 0.69
5 7 0.04
6 10 0.06
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (4 bp):
ATTT
Found at i:16675402 original size:25 final size:24
Alignment explanation
Indices: 16675351--16675500 Score: 127
Period size: 25 Copynumber: 6.3 Consensus size: 24
16675341 TGTATTTATT
*
16675351 TATTTATTATTACTATTTGTTAATATA
1 TATTTATTATT--TATCTGTT-ATATA
16675378 TATTTATTATTTATCTGTTAATATA
1 TATTTATTATTTATCTGTT-ATATA
*
16675403 TATTTATTATTTATCTATT-TATA
1 TATTTATTATTTATCTGTTATATA
* *
16675426 TA-TTATTATATATATG-TAT-T-
1 TATTTATTATTTATCTGTTATATA
*
16675446 TA-TTATTATTTATCTACTTATATA
1 TATTTATTATTTATCT-GTTATATA
*
16675470 T-TATTATTATTTATCTATTA-ATA
1 TAT-TTATTATTTATCTGTTATATA
*
16675493 TTTTTATT
1 TATTTATT
16675501 TATCTAATTA
Statistics
Matches: 106, Mismatches: 9, Indels: 20
0.79 0.07 0.15
Matches are distributed among these distances:
20 13 0.12
21 2 0.02
22 15 0.14
23 16 0.15
24 5 0.05
25 44 0.42
27 11 0.10
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (24 bp):
TATTTATTATTTATCTGTTATATA
Found at i:16675458 original size:42 final size:44
Alignment explanation
Indices: 16675401--16675511 Score: 145
Period size: 42 Copynumber: 2.5 Consensus size: 44
16675391 TCTGTTAATA
* *
16675401 TATATTTATTATTTATCTATTTATATATTATTA-TATATATGTAT
1 TATA-TTATTATTTATCTAATTATATATTATTATTATATATCTAT
* *
16675445 T-TATTATTATTTATCTACTTATATATTATTATTATTTATCTAT
1 TATATTATTATTTATCTAATTATATATTATTATTATATATCTAT
*
16675488 TAATATTTTTATTTATCTAATTAT
1 T-ATATTATTATTTATCTAATTAT
16675512 TTTTTTAATT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
42 27 0.46
43 12 0.20
44 1 0.02
45 19 0.32
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (44 bp):
TATATTATTATTTATCTAATTATATATTATTATTATATATCTAT
Found at i:16675477 original size:45 final size:42
Alignment explanation
Indices: 16675327--16675511 Score: 135
Period size: 45 Copynumber: 4.1 Consensus size: 42
16675317 TTCTTTTTTG
* * * * *
16675327 TATTTTATGTATTATGTATTTATTTATT-TATTATTA-CTATT
1 TATTATATATATTAT-TATTTATCTATTATATTATTATTTATC
*
16675368 TGTTAATATATATTTATTATTTATCTGTTAATATATATTTATTATTTATC
1 TATT-ATATATA-TTATTATTTATC---T-AT-TATA-TTATTATTTATC
*
16675418 TATT-TATATATTATTATATATATGTATT-TATTATTATTTATC
1 TATTATATATATTATTAT-T-TATCTATTATATTATTATTTATC
*
16675460 TACTTATATATTATTATTATTTATCTATTAATATTTTTATTTATC
1 TA-TTATATA-TATTATTATTTATCTATT-ATATTATTATTTATC
16675505 TAATTAT
1 T-ATTAT
16675512 TTTTTTAATT
Statistics
Matches: 116, Mismatches: 10, Indels: 32
0.73 0.06 0.20
Matches are distributed among these distances:
41 3 0.03
42 26 0.22
43 15 0.13
44 6 0.05
45 30 0.26
46 4 0.03
47 8 0.07
48 9 0.08
49 9 0.08
50 6 0.05
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (42 bp):
TATTATATATATTATTATTTATCTATTATATTATTATTTATC
Found at i:16675499 original size:20 final size:20
Alignment explanation
Indices: 16675402--16675537 Score: 98
Period size: 20 Copynumber: 6.4 Consensus size: 20
16675392 CTGTTAATAT
16675402 ATATTTATTATTTATCTATTTA
1 ATATTT-TTATTTATCTA-TTA
* *
16675424 TATATTATTATATATATGTATT-
1 -ATATT-TT-TATTTATCTATTA
*
16675446 -TATTATTATTTATCTACTTA
1 ATATTTTTATTTATCTA-TTA
16675466 TATATTATTATTATTTATCTATTA
1 -ATA-T-TT-TTATTTATCTATTA
16675490 ATATTTTTATTTATCTAATT-
1 ATATTTTTATTTATCT-ATTA
* *
16675510 ATTTTTTTAATTATCTATTA
1 ATATTTTTATTTATCTATTA
*
16675530 ACATTTTT
1 ATATTTTT
16675538 TGTTTGATTT
Statistics
Matches: 92, Mismatches: 10, Indels: 25
0.72 0.08 0.20
Matches are distributed among these distances:
18 8 0.09
19 6 0.07
20 34 0.37
21 5 0.05
22 3 0.03
23 12 0.13
24 13 0.14
25 11 0.12
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (20 bp):
ATATTTTTATTTATCTATTA
Found at i:16675508 original size:17 final size:17
Alignment explanation
Indices: 16675463--16675515 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
16675453 ATTTATCTAC
*
16675463 TTATATATT-ATTATTAT
1 TTATCTATTAATTATT-T
16675480 TTATCTATTAA-TATTT
1 TTATCTATTAATTATTT
*
16675496 TTATTTATCTAATTATTT
1 TTATCTAT-TAATTATTT
16675514 TT
1 TT
16675516 TTAATTATCT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 8 0.26
17 15 0.48
18 8 0.26
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATCTATTAATTATTT
Found at i:16675513 original size:67 final size:67
Alignment explanation
Indices: 16675380--16675530 Score: 172
Period size: 67 Copynumber: 2.3 Consensus size: 67
16675370 TTAATATATA
* *
16675380 TTTATTATTTATCT-GTTAATATATATTTATTATTTATCTATTTATATATTATTATATATATGTA
1 TTTATTATTTATCTACTTAATATATATTTATTATTTATCTATTAATATATTATTATATATATGTA
16675444 TT
66 TT
* *
16675446 TATTATTATTTATCTACTT-ATATAT-TATTATTATTTATCTATTAATATTTTTATT-TATCTAA
1 T-TTATTATTTATCTACTTAATATATAT-TTATTATTTATCTATTAATA-TATTATTATATAT-A
16675508 T-TATT
62 TGTATT
*
16675513 TTT-TTAATTATCTA-TTAA
1 TTTATTATTTATCTACTTAA
16675531 CATTTTTTGT
Statistics
Matches: 74, Mismatches: 5, Indels: 13
0.80 0.05 0.14
Matches are distributed among these distances:
64 2 0.03
65 11 0.15
66 4 0.05
67 47 0.64
68 10 0.14
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (67 bp):
TTTATTATTTATCTACTTAATATATATTTATTATTTATCTATTAATATATTATTATATATATGTA
TT
Found at i:16675867 original size:27 final size:26
Alignment explanation
Indices: 16675818--16675868 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
16675808 TCGGTGAAAA
**
16675818 TTTTTTAGAATTTTTGGTGAATTTTT
1 TTTTTTAGAATTTTTGGAAAATTTTT
*
16675844 TTTTTTGGAAATTTTTGGAAAATTT
1 TTTTTTAG-AATTTTTGGAAAATTT
16675869 CGAAATTCAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.33
27 14 0.67
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.61
Consensus pattern (26 bp):
TTTTTTAGAATTTTTGGAAAATTTTT
Found at i:16676392 original size:4 final size:4
Alignment explanation
Indices: 16676385--16676469 Score: 58
Period size: 4 Copynumber: 22.0 Consensus size: 4
16676375 TTTTTTTTTC
* * *
16676385 ATTT ATTT ATTT ATTT A-TT A-TT A-TT ATTT ATTAG ATTT GTTT A-GT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT-T ATTT ATTT ATTT
16676430 ATTT -TTT ATTT -TATT -TTT ATTTT ATTTT ATTT ATTT ATTT
1 ATTT ATTT ATTT AT-TT ATTT A-TTT A-TTT ATTT ATTT ATTT
16676470 TTATTTTATT
Statistics
Matches: 68, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
3 17 0.25
4 39 0.57
5 12 0.18
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:16676443 original size:5 final size:5
Alignment explanation
Indices: 16676433--16676479 Score: 62
Period size: 5 Copynumber: 9.4 Consensus size: 5
16676423 GTTTAGTATT
16676433 TTTTA TTTTA TTTTTA TTTTA TTTTA -TTTA -TTTA TTTTTA TTTTA TT
1 TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TT
16676480 ATTTTCTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
4 8 0.21
5 22 0.56
6 9 0.23
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:16676446 original size:11 final size:11
Alignment explanation
Indices: 16676432--16676479 Score: 69
Period size: 11 Copynumber: 4.2 Consensus size: 11
16676422 TGTTTAGTAT
16676432 TTTTTATTTTA
1 TTTTTATTTTA
16676443 TTTTTATTTTA
1 TTTTTATTTTA
*
16676454 TTTTATTTATTTA
1 TTTT-TAT-TTTA
16676467 TTTTTATTTTA
1 TTTTTATTTTA
16676478 TT
1 TT
16676480 ATTTTCTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 21 0.64
12 4 0.12
13 8 0.24
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:16676464 original size:14 final size:14
Alignment explanation
Indices: 16676434--16676484 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
16676424 TTTAGTATTT
16676434 TTTATTTTATTTTTA
1 TTTATTTTA-TTTTA
16676449 TTTTATTTTA-TTTA
1 -TTTATTTTATTTTA
16676463 TTTATTTTTATTTTA
1 TTTA-TTTTATTTTA
16676478 -TTATTTT
1 TTTATTTT
16676485 CTTTAAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
13 8 0.24
14 12 0.36
15 4 0.12
16 9 0.27
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:16676471 original size:24 final size:29
Alignment explanation
Indices: 16676387--16676483 Score: 56
Period size: 34 Copynumber: 3.2 Consensus size: 29
16676377 TTTTTTTCAT
*
16676387 TTATTTATTTATTTATTATTATTATTTATT
1 TTATTTATTTATTT-TTATTTTTATTTATT
** * *
16676417 AGATTTGTTTAGTATTTTTTATTTTATTTTTATT
1 TTATTT-ATT--TA-TTTTTATTTT-TATTTATT
*
16676451 TTATTTTATTTA--TTTATTTTTATTT-TA
1 TTA-TTTATTTATTTTTATTTTTATTTATT
16676478 TTATTT
1 TTATTT
16676484 TCTTTAAATA
Statistics
Matches: 51, Mismatches: 10, Indels: 16
0.66 0.13 0.21
Matches are distributed among these distances:
26 3 0.06
27 4 0.08
28 4 0.08
29 8 0.16
30 4 0.08
31 2 0.04
32 2 0.04
33 8 0.16
34 13 0.25
35 3 0.06
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (29 bp):
TTATTTATTTATTTTTATTTTTATTTATT
Found at i:16676484 original size:13 final size:12
Alignment explanation
Indices: 16676386--16676484 Score: 66
Period size: 11 Copynumber: 8.2 Consensus size: 12
16676376 TTTTTTTTCA
16676386 TTTA-TTTATTT
1 TTTATTTTATTT
*
16676397 ATTTATTATTATTA
1 -TTTATT-TTATTT
**
16676411 TTTATTAGATTT
1 TTTATTTTATTT
*
16676423 GTTTA--GTATTT
1 -TTTATTTTATTT
16676434 TTTATTTTA-TT
1 TTTATTTTATTT
16676445 TTTATTTTATTT
1 TTTATTTTATTT
16676457 TATT-TATTTA-TT
1 T-TTAT-TTTATTT
16676469 TTTATTTTATTAT
1 TTTATTTTATT-T
16676482 TTT
1 TTT
16676485 CTTTAAATAA
Statistics
Matches: 69, Mismatches: 7, Indels: 21
0.71 0.07 0.22
Matches are distributed among these distances:
10 4 0.06
11 21 0.30
12 18 0.26
13 21 0.30
14 5 0.07
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:16679724 original size:15 final size:15
Alignment explanation
Indices: 16679704--16679734 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16679694 TTTGCATACA
*
16679704 TGCATTCTCATTCAT
1 TGCATTCTCACTCAT
16679719 TGCATTCTCACTCAT
1 TGCATTCTCACTCAT
16679734 T
1 T
16679735 ACACTTAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.29, G:0.06, T:0.45
Consensus pattern (15 bp):
TGCATTCTCACTCAT
Found at i:16685329 original size:40 final size:40
Alignment explanation
Indices: 16685285--16685366 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
16685275 CGAGAAGAAT
* *
16685285 AATACTGCCTTGTAACAGTAATGTTAAATTTTAATTGCAC
1 AATACTGCCTTGTAACAGTAAGGTTAAATTTTAATTACAC
16685325 AATACTGCCTTGTAACAGTAAGGTTAAATTTTAATTACAC
1 AATACTGCCTTGTAACAGTAAGGTTAAATTTTAATTACAC
16685365 AA
1 AA
16685367 ATAACATTGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (40 bp):
AATACTGCCTTGTAACAGTAAGGTTAAATTTTAATTACAC
Found at i:16685457 original size:36 final size:36
Alignment explanation
Indices: 16685410--16685483 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
16685400 GCTTACAAGC
16685410 TACTATAGATAGAAGAGTGAAAGCATTAAAAGTGTT
1 TACTATAGATAGAAGAGTGAAAGCATTAAAAGTGTT
16685446 TACTATAGATAGAAGAGTGAAAGCATTAAAAGTGTT
1 TACTATAGATAGAAGAGTGAAAGCATTAAAAGTGTT
16685482 TA
1 TA
16685484 GAGACTCAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.45, C:0.05, G:0.22, T:0.28
Consensus pattern (36 bp):
TACTATAGATAGAAGAGTGAAAGCATTAAAAGTGTT
Found at i:16687023 original size:25 final size:25
Alignment explanation
Indices: 16686978--16687043 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 25
16686968 ATATTATGCT
16686978 TGAAAAAAA--AAAAGAGAAAAATGAAA
1 TGAAAAAAATGAAAA-AGAAAAA--AAA
*
16687004 TG-GAAAAATGAAAAAGAAAAAAAA
1 TGAAAAAAATGAAAAAGAAAAAAAA
16687028 TGAAAAAAATGAAAAA
1 TGAAAAAAATGAAAAA
16687044 AGTGAATGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
24 5 0.14
25 17 0.49
26 9 0.26
27 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (25 bp):
TGAAAAAAATGAAAAAGAAAAAAAA
Found at i:16687033 original size:9 final size:9
Alignment explanation
Indices: 16687007--16687049 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
16686997 AATGAAATGG
16687007 AAAAATGAA
1 AAAAATGAA
*
16687016 AAAGA--AA
1 AAAAATGAA
16687023 AAAAATGAA
1 AAAAATGAA
16687032 AAAAATGAA
1 AAAAATGAA
*
16687041 AAAAGTGAA
1 AAAAATGAA
16687050 TGAAAAAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
7 6 0.21
9 23 0.79
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (9 bp):
AAAAATGAA
Done.