Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 57 of 170
Found at i:16637633 original size:29 final size:30
Alignment explanation
Indices: 16637592--16637648 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
16637582 TGGTTTAATG
16637592 TGCAATTGAATACATG-AACTTTGATTTTA
1 TGCAATTGAATACATGAAACTTTGATTTTA
** *
16637621 TGCAATTTTATACATGAAATTTTGATTT
1 TGCAATTGAATACATGAAACTTTGATTT
16637649 AATCTAATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (30 bp):
TGCAATTGAATACATGAAACTTTGATTTTA
Found at i:16639025 original size:15 final size:15
Alignment explanation
Indices: 16639005--16639056 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
16638995 AAGAAATTTA
16639005 TGTGAGCTAGTGAAG
1 TGTGAGCTAGTGAAG
* *
16639020 TGTGAGCCA-TGCA-
1 TGTGAGCTAGTGAAG
* *
16639033 TGCGAGCTGGTGAAG
1 TGTGAGCTAGTGAAG
16639048 TGTGAGCTA
1 TGTGAGCTA
16639057 TCTCCAAGCA
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
13 6 0.22
14 6 0.22
15 15 0.56
ACGTcount: A:0.23, C:0.13, G:0.38, T:0.25
Consensus pattern (15 bp):
TGTGAGCTAGTGAAG
Found at i:16645785 original size:49 final size:47
Alignment explanation
Indices: 16645674--16646013 Score: 617
Period size: 47 Copynumber: 7.1 Consensus size: 47
16645664 TATGAAATGA
16645674 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
16645721 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
16645770 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
*
16645819 TGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
16645866 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
16645913 TGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
16645960 TGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
16646007 TGATAAG
1 TGATAAG
16646014 TCCCGAAGGG
Statistics
Matches: 287, Mismatches: 4, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
47 192 0.67
49 95 0.33
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
Found at i:16646188 original size:37 final size:37
Alignment explanation
Indices: 16646132--16646210 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
16646122 CCGAGCTCTA
* * * *
16646132 AAGACCTGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
16646169 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
16646206 AAGAC
1 AAGAC
16646211 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:16649203 original size:24 final size:24
Alignment explanation
Indices: 16649171--16649217 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
16649161 CGGTAGGATC
16649171 TATGATTGCATCTGTATCAGAATT
1 TATGATTGCATCTGTATCAGAATT
* * *
16649195 TATGTTTGCATTTGTATCTGAAT
1 TATGATTGCATCTGTATCAGAAT
16649218 ATGCATTTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.47
Consensus pattern (24 bp):
TATGATTGCATCTGTATCAGAATT
Found at i:16649224 original size:18 final size:18
Alignment explanation
Indices: 16649201--16649238 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
16649191 AATTTATGTT
16649201 TGCATTTGTATCTGAATA
1 TGCATTTGTATCTGAATA
*
16649219 TGCATTTGTATCTGATTA
1 TGCATTTGTATCTGAATA
16649237 TG
1 TG
16649239 AAATACATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.47
Consensus pattern (18 bp):
TGCATTTGTATCTGAATA
Found at i:16651389 original size:47 final size:47
Alignment explanation
Indices: 16651320--16651415 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
16651310 AGCAATGGCA
16651320 ATAATCAATTAAATCTAATGTTAATTAAACCATGATATACATAAAAG
1 ATAATCAATTAAATCTAATGTTAATTAAACCATGATATACATAAAAG
16651367 ATAATCAATTAAATCTAATGTTAATTAAACCATGATATACATAAAAG
1 ATAATCAATTAAATCTAATGTTAATTAAACCATGATATACATAAAAG
16651414 AT
1 AT
16651416 GATAAAAGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.32
Consensus pattern (47 bp):
ATAATCAATTAAATCTAATGTTAATTAAACCATGATATACATAAAAG
Found at i:16653256 original size:44 final size:44
Alignment explanation
Indices: 16653143--16653757 Score: 235
Period size: 44 Copynumber: 13.9 Consensus size: 44
16653133 GTAACTCGTA
* * * * * *
16653143 GCTTTAATCAGTTCCACTGCAACTCCAGGGAAATGAGATTTGTTA
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TG
* * * *
16653188 TCTTCAATTTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTG
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTG
*
16653232 GCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAG
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-G
* *
16653277 CCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG-GTT-T-
1 GC--T-TT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTG
* * * * * * *
16653322 GATATGATCTTCTCTACTGCAACTTCAGAGAGATAAGATTTGTAATATATA
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-------TG
** * * *
16653373 GCTTTAATCTATTCCGCTGCAACTTCAGGGAAATAAGA-TTGCTA
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TG
* * * * * * *
16653417 TCTTCAGTCTGCTCCACTGTAACTTTAGAGAGATAAGACTTGT-
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTG
** * * ** * *
16653460 AATTTCAAGCTGTTCCACTATAACTTCAGGGATATAAGA---GTC
1 GCTTT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTG
* *
16653502 GC--T-A------CCACTGCAACTTCGGGGAGATAAG-GTT-T-
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTG
* * * * * * * *
16653534 GCTATGATCTGCTCTACTACAGCTTCAGAGAGATAAGATCTGTAATTTATA
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGAT-A-A---G--ATTTGTG
* * * * * * *
16653585 GCTTCAATCTGTTCTACTGCAACTTCAGGGAAATAAGGTTCGTTA
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TG
* * * * * * *
16653630 TCTTCAGTCTGCTCCACTGTAACTTCAGGGAGATAAGACTTATA
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTG
* * * * * * *
16653674 TCTTCAATCTGCCCCACTGCAAATTTAGGGGGATAAGATTAGTG
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTG
*
16653718 GCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
16653758 CGTCATAATG
Statistics
Matches: 423, Mismatches: 106, Indels: 83
0.69 0.17 0.14
Matches are distributed among these distances:
32 22 0.05
33 1 0.00
34 1 0.00
35 1 0.00
38 1 0.00
40 1 0.00
41 46 0.11
42 4 0.01
43 4 0.01
44 167 0.39
45 72 0.17
46 2 0.00
47 2 0.00
48 4 0.01
49 34 0.08
50 6 0.01
51 55 0.13
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (44 bp):
GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTG
Found at i:16653313 original size:93 final size:87
Alignment explanation
Indices: 16653143--16653754 Score: 287
Period size: 89 Copynumber: 7.0 Consensus size: 87
16653133 GTAACTCGTA
* * * * * *
16653143 GCTTTAATCAGTTCCACTGCAACTCCAGGGAAATGAGATTTGT-TATCTTCAATTTGCTCCACTG
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTATATCTTCAATCTGCTCCACTG
16653207 CAACTTCAGGGAGATAAGGTTTGT
66 CAACTTCAGGGAGATAAGG-TT-T
*
16653231 GGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAGCCTATCTTCAATCTGCTCC
1 -GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTA---TATCTTCAATCTGCTCC
16653296 ACTGCAACTTCAGGGAGATAAGGTTT
62 ACTGCAACTTCAGGGAGATAAGGTTT
* * * * * * * **
16653322 GATATGATCTTCTCTACTGCAACTTCAGAGAGATAAGATTTGTAATATATAGCTTTAATCTATTC
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG---TATAT--CTTCAATCTGCTC
* * *
16653387 CGCTGCAACTTCAGGGAAATAA-GATT
61 CACTGCAACTTCAGGGAGATAAGGTTT
* * * * * * *
16653413 GCTATCTTCAGTCTGCTCCACTGTAACTTTAGAGAGATAAGACTTGTA-AT-TTCAAGCTGTTCC
1 GC--T-TT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTATATCTTCAATCTGCTCC
** *
16653476 ACTATAACTTCAGGGATATAA-----
62 ACTGCAACTTCAGGGAGATAAGGTTT
* * * * * *
16653497 G----AGTC-GCTACCACTGCAACTTCGGGGAGATAAGGTTTG-CTA---T-GATCTGCTCTACT
1 GCTTTAATCTGCT-CCACTGCAACTTCAGGGAGATAAGATTTGTATATCTTCAATCTGCTCCACT
* * *
16653552 ACAGCTTCAGAGAGATAAGATCTGTAATTTAT
65 GCAACTTCAGGGAGATAAG----G----TT-T
* * * * * * *
16653584 AGCTTCAATCTGTTCTACTGCAACTTCAGGGAAATAAGGTTCGT-TATCTTCAGTCTGCTCCACT
1 -GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTATATCTTCAATCTGCTCCACT
* *
16653648 GTAACTTCAGGGAGATAAGACTTAT
65 GCAACTTCAGGGAGATAAG-GTT-T
* * * * * * * ** * *
16653673 ATCTTCAATCTGCCCCACTGCAAATTTAGGGGGATAAGATTAG--TGGCTTTAGTCTGCTCCACT
1 -GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTATATCTTCAATCTGCTCCACT
16653736 GCAACTTCAGGGAGATAAG
65 GCAACTTCAGGGAGATAAG
16653755 ATTCGTCATA
Statistics
Matches: 403, Mismatches: 80, Indels: 81
0.71 0.14 0.14
Matches are distributed among these distances:
73 23 0.06
74 1 0.00
75 3 0.01
76 28 0.07
84 1 0.00
88 63 0.16
89 74 0.18
90 38 0.09
91 7 0.02
92 64 0.16
93 44 0.11
94 1 0.00
95 31 0.08
96 25 0.06
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (87 bp):
GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTATATCTTCAATCTGCTCCACTG
CAACTTCAGGGAGATAAGGTTT
Found at i:16654793 original size:14 final size:15
Alignment explanation
Indices: 16654770--16654802 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
16654760 ATCAACGTTT
*
16654770 TTCCAGATAAGG-CC
1 TTCCACATAAGGTCC
16654784 TTCCACATAAGGTCC
1 TTCCACATAAGGTCC
16654799 TTCC
1 TTCC
16654803 CAATTTTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.27
Consensus pattern (15 bp):
TTCCACATAAGGTCC
Found at i:16659835 original size:26 final size:22
Alignment explanation
Indices: 16659782--16659842 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 22
16659772 GGAATATGCA
*
16659782 TAAAAAAATAAACATAAAAGTT
1 TAAAAAAATAAACATAAAAGAT
16659804 TCAAAAAAATAAACAATAAAGAATGAT
1 T-AAAAAAATAAAC-AT-AA-AA-GAT
*
16659831 TAAAATAATAAA
1 TAAAAAAATAAA
16659843 TGAATAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 1 0.03
23 12 0.38
24 2 0.06
25 2 0.06
26 12 0.38
27 3 0.09
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (22 bp):
TAAAAAAATAAACATAAAAGAT
Found at i:16659844 original size:16 final size:15
Alignment explanation
Indices: 16659833--16659880 Score: 59
Period size: 11 Copynumber: 3.4 Consensus size: 15
16659823 AGAATGATTA
16659833 AAATAATAAATGAAT
1 AAATAATAAATGAAT
16659848 AAATAAT--AT--AT
1 AAATAATAAATGAAT
16659859 AAATAAGTAAATGAAT
1 AAATAA-TAAATGAAT
16659875 AAATAA
1 AAATAA
16659881 ATGAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
11 8 0.29
12 1 0.04
13 2 0.07
14 2 0.07
15 7 0.25
16 8 0.29
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (15 bp):
AAATAATAAATGAAT
Found at i:16659861 original size:27 final size:28
Alignment explanation
Indices: 16659818--16659893 Score: 88
Period size: 27 Copynumber: 2.8 Consensus size: 28
16659808 AAAAATAAAC
*
16659818 AATAAAGAATGAT-TAAAATAA-TAAATG
1 AATAAATAAT-ATATAAAATAAGTAAATG
16659845 AATAAATAATATAT-AAATAAGTAAATG
1 AATAAATAATATATAAAATAAGTAAATG
16659872 AATAAATAA-ATGAATAAAATAA
1 AATAAATAATAT--ATAAAATAA
16659894 AAGGAATAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
26 10 0.23
27 25 0.58
28 2 0.05
29 6 0.14
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (28 bp):
AATAAATAATATATAAAATAAGTAAATG
Found at i:16659881 original size:12 final size:12
Alignment explanation
Indices: 16659837--16659894 Score: 62
Period size: 12 Copynumber: 4.5 Consensus size: 12
16659827 TGATTAAAAT
16659837 AATAAATGAATA
1 AATAAATGAATA
*
16659849 AATAATATATAAATA
1 AAT-A-A-ATGAATA
*
16659864 AGTAAATGAATA
1 AATAAATGAATA
16659876 AATAAATGAATAA
1 AATAAATGAAT-A
16659889 AATAAA
1 AATAAA
16659895 AGGAATAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
12 19 0.50
13 9 0.24
14 2 0.05
15 8 0.21
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (12 bp):
AATAAATGAATA
Found at i:16659914 original size:4 final size:4
Alignment explanation
Indices: 16659833--16659894 Score: 56
Period size: 4 Copynumber: 15.8 Consensus size: 4
16659823 AGAATGATTA
* * * *
16659833 AAAT -AAT AAAT GAAT AAAT -AAT ATAT AAAT AAGT AAAT GAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
*
16659879 AAAT GAAT AAAAT AAA
1 AAAT AAAT -AAAT AAA
16659895 AGGAATAATG
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
3 6 0.13
4 36 0.80
5 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:16664282 original size:33 final size:29
Alignment explanation
Indices: 16664245--16664319 Score: 78
Period size: 33 Copynumber: 2.4 Consensus size: 29
16664235 TAATTCAGCT
*
16664245 TAAATATTTAATTTAATTATATTTTATCTATAA
1 TAAATATTTAATTTAATTATA-TGT-T-TA-AA
* * *
16664278 TAAATTTTTAAGTTAATTTTATGTTTAAA
1 TAAATATTTAATTTAATTATATGTTTAAA
16664307 TAAATATTTAATT
1 TAAATATTTAATT
16664320 AGATAAACAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 13 0.36
30 2 0.06
31 1 0.03
32 2 0.06
33 18 0.50
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (29 bp):
TAAATATTTAATTTAATTATATGTTTAAA
Found at i:16664316 original size:29 final size:28
Alignment explanation
Indices: 16664255--16664320 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
16664245 TAAATATTTA
16664255 ATTTAATTATATTTTATCTATAATAAAT
1 ATTTAATTATATTTTATCTATAATAAAT
* * *
16664283 TTTTAAGTTA-ATTTTATGTTTAAATAAAT
1 ATTTAA-TTATATTTTATCTAT-AATAAAT
16664312 ATTTAATTA
1 ATTTAATTA
16664321 GATAAACATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 17 0.53
29 15 0.47
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.55
Consensus pattern (28 bp):
ATTTAATTATATTTTATCTATAATAAAT
Found at i:16664351 original size:18 final size:16
Alignment explanation
Indices: 16664328--16664367 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
16664318 TTAGATAAAC
16664328 ATAAATTTTAAAAATTAG
1 ATAAATTTT--AAATTAG
*
16664346 ATAAATTTTTAATTAG
1 ATAAATTTTAAATTAG
16664362 ATAAAT
1 ATAAAT
16664368 ACAAATTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.57
18 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (16 bp):
ATAAATTTTAAATTAG
Found at i:16664357 original size:40 final size:40
Alignment explanation
Indices: 16664306--16664383 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
16664296 TTATGTTTAA
*
16664306 ATAAATATTTAATTAGATAAACATAAATTTTAAAAATTAG
1 ATAAATATTTAATTAGATAAACACAAATTTTAAAAATTAG
* * *
16664346 ATAAATTTTTAATTAGATAAATACAAATTTTGAAAATT
1 ATAAATATTTAATTAGATAAACACAAATTTTAAAAATT
16664384 TATTTTTCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.40
Consensus pattern (40 bp):
ATAAATATTTAATTAGATAAACACAAATTTTAAAAATTAG
Found at i:16664428 original size:24 final size:24
Alignment explanation
Indices: 16664400--16664448 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
16664390 TCCATTTAAT
*
16664400 TTAAATTAAATAATTATTTAT-TTA
1 TTAAATTAAAT-ACTATTTATATTA
*
16664424 TTAAATTATATACTATTTATATTA
1 TTAAATTAAATACTATTTATATTA
16664448 T
1 T
16664449 ATATTAGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TTAAATTAAATACTATTTATATTA
Found at i:16664454 original size:23 final size:23
Alignment explanation
Indices: 16664414--16664471 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
16664404 ATTAAATAAT
16664414 TATTTAT-TTATTAAATTA-TATAC
1 TATTTATATTA-TAAATTAGTAT-C
* *
16664437 TATTTATATTATATATTAGTATT
1 TATTTATATTATAAATTAGTATC
*
16664460 TATTTAAATTAT
1 TATTTATATTAT
16664472 TAGCATTTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 24 0.80
24 6 0.20
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTTATATTATAAATTAGTATC
Found at i:16664459 original size:19 final size:19
Alignment explanation
Indices: 16664418--16664480 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
16664408 AATAATTATT
*
16664418 TATTTA-TTAAATTATATAC
1 TATTTATTTAAATTAT-TAG
*
16664437 TATTTATATTATA-TATTAG
1 TATTTAT-TTAAATTATTAG
16664456 TATTTATTTAAATTATTAG
1 TATTTATTTAAATTATTAG
*
16664475 CATTTA
1 TATTTA
16664481 CTAAAATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
18 4 0.11
19 26 0.70
20 3 0.08
21 4 0.11
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
TATTTATTTAAATTATTAG
Found at i:16664487 original size:19 final size:19
Alignment explanation
Indices: 16664450--16664488 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
16664440 TTATATTATA
* * *
16664450 TATTAGTATTTATTTAAAT
1 TATTAGCATTTACTAAAAT
16664469 TATTAGCATTTACTAAAAT
1 TATTAGCATTTACTAAAAT
16664488 T
1 T
16664489 TATACCTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (19 bp):
TATTAGCATTTACTAAAAT
Found at i:16679694 original size:11 final size:11
Alignment explanation
Indices: 16679668--16679705 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
16679658 AACTAATCCT
16679668 CTCTCAAATTTC
1 CTCTC-AATTTC
*
16679680 CTCTCAATTTG
1 CTCTCAATTTC
16679691 CTCTCAATTTC
1 CTCTCAATTTC
16679702 CTCT
1 CTCT
16679706 TAAATCCCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.18, C:0.34, G:0.03, T:0.45
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:16682051 original size:15 final size:16
Alignment explanation
Indices: 16682031--16682076 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
16682021 GACAAACCCT
*
16682031 AAACCCTTAA-CTTAA
1 AAACCCTTAACCCTAA
16682046 AAACCC-TAACCCTAA
1 AAACCCTTAACCCTAA
*
16682061 AAACCCTAAACCCTAA
1 AAACCCTTAACCCTAA
16682077 TATTTAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 3 0.11
15 16 0.59
16 8 0.30
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.17
Consensus pattern (16 bp):
AAACCCTTAACCCTAA
Found at i:16682058 original size:21 final size:22
Alignment explanation
Indices: 16682024--16682506 Score: 476
Period size: 22 Copynumber: 22.1 Consensus size: 22
16682014 TTTAATTGAC
16682024 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
16682046 AAACCCT-AACCCTAAAAACCCT--
1 AAACCCTAAACCCT--TAA-CTTAA
*** *
16682068 AAACCCT-AATATTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
16682089 AAACCCTAAACCCTTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
*
16682110 AAACCCATAAACCCTTAACCTAA
1 AAACCC-TAAACCCTTAACTTAA
*
16682133 AAACCCTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
16682155 AAACCCT-AACTCTTGACTTTA
1 AAACCCTAAACCCTTAACTTAA
16682176 AAACCCTAAACCCTTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
* *
16682197 AAACCCT-AACCCTTAAATAAA
1 AAACCCTAAACCCTTAACTTAA
*
16682218 AAACACT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
16682239 AACCCCT-AACCCTTAATTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
16682260 AACCCCTAAACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
16682282 AAACCCTAAACCCTTAACTAAA
1 AAACCCTAAACCCTTAACTTAA
*
16682304 AAACCGT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
16682325 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
16682347 AACCCCTAAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
16682369 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
16682390 AAACCATAAACCCTTAAGC-TAA
1 AAACCCTAAACCCTTAA-CTTAA
*
16682412 AAACTCC-AAACCCTTAACTTTA
1 AAAC-CCTAAACCCTTAACTTAA
*
16682434 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
16682455 AAGCCCTAAAACCCTAACCCTTAACTTTA
1 AAACCCT---A----AACCCTTAACTTAA
16682484 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
16682505 AA
1 AA
16682507 GCGCATCCAT
Statistics
Matches: 389, Mismatches: 47, Indels: 51
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.00
20 12 0.03
21 165 0.42
22 178 0.46
23 11 0.03
24 2 0.01
29 20 0.05
ACGTcount: A:0.43, C:0.32, G:0.01, T:0.24
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:16682100 original size:65 final size:63
Alignment explanation
Indices: 16682024--16682464 Score: 464
Period size: 65 Copynumber: 6.8 Consensus size: 63
16682014 TTTAATTGAC
* * * *
16682024 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTAAAAACCCT-AAACCCTAATA-TTTAAATT
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCT--TAA-CTTAAAACCCTAA-ACCTTAACTT
16682087 AA
62 AA
* *
16682089 AAACCCTAAACCCTTAACTT-AAAACCCATAAACCCTTAACCTAAAAACCCTAAACCCTTAACCT
1 AAACCCTAAACCCTTAACTTAAAAACCC-T-AACCCTTAA-CTTAAAACCCTAAA-CCTTAACTT
16682153 AA
62 AA
* * * * * *
16682155 AAACCCT-AACTCTTGACTTTAAAACCCTAAACCCTTAACTTAAAACCCTAACCCTTAAATAAA
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAACCCTAAACCTTAACTTAA
* * * *
16682218 AAACACT-AACCCTTAACTTAAAACCCCTAACCCTTAATTTTAAACCCCTAAACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAA-CTTAAAACCCTAAACC-TTAACTTAA
* *
16682282 AAACCCTAAACCCTTAACTAAAAAACCGTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTT-AAAACCCTAAA-CCTTAACTTAA
* * *
16682347 AACCCCTAAACCCTTAACTTTAAAACCCTAACCCTTAACTTTAAAACCATAAACCCTTAAGC-TA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAC-TTAAAACCCTAAA-CCTTAA-CTTA
16682411 A
63 A
* *
16682412 AAACTCC-AAACCCTTAACTTTAAAACCCTAACCCTTAACTTTAAAGCCCTAAA
1 AAAC-CCTAAACCCTTAACTTAAAAACCCTAACCCTTAAC-TTAAAACCCTAAA
16682465 ACCCTAACCC
Statistics
Matches: 325, Mismatches: 37, Indels: 28
0.83 0.09 0.07
Matches are distributed among these distances:
62 9 0.03
63 44 0.14
64 39 0.12
65 199 0.61
66 34 0.10
ACGTcount: A:0.44, C:0.32, G:0.01, T:0.24
Consensus pattern (63 bp):
AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAACCCTAAACCTTAACTTAA
Found at i:16682423 original size:50 final size:49
Alignment explanation
Indices: 16682368--16682506 Score: 159
Period size: 50 Copynumber: 2.9 Consensus size: 49
16682358 CCTTAACTTT
*
16682368 AAAACCCTAACCCTTAACTTTAAAACCATAAACCCTTAAGC-TAAAAACTCC
1 AAAACCCTAACCCTTAACTTTAAAACCCT-AACCCTTAA-CTTAAAAAC-CC
* *
16682419 ---A----AACCCTTAACTTTAAAACCCTAACCCTTAACTTTAAAGCCC
1 AAAACCCTAACCCTTAACTTTAAAACCCTAACCCTTAACTTAAAAACCC
16682461 TAAAACCCTAACCCTTAACTTTAAAACCCTAACCCTTAACTTAAAA
1 -AAAACCCTAACCCTTAACTTTAAAACCCTAACCCTTAACTTAAAA
16682507 GCGCATCCAT
Statistics
Matches: 75, Mismatches: 4, Indels: 19
0.77 0.04 0.19
Matches are distributed among these distances:
42 3 0.04
43 14 0.19
44 20 0.27
46 1 0.01
48 1 0.01
50 36 0.48
ACGTcount: A:0.42, C:0.32, G:0.01, T:0.24
Consensus pattern (49 bp):
AAAACCCTAACCCTTAACTTTAAAACCCTAACCCTTAACTTAAAAACCC
Found at i:16682465 original size:29 final size:29
Alignment explanation
Indices: 16682432--16682492 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
16682422 CCCTTAACTT
*
16682432 TAAAACCCTAACCCTTAACTTTAAAGCCC
1 TAAAACCCTAACCCTTAACTTTAAAACCC
16682461 TAAAACCCTAACCCTTAACTTTAAAACCC
1 TAAAACCCTAACCCTTAACTTTAAAACCC
16682490 TAA
1 TAA
16682493 CCCTTAACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.41, C:0.33, G:0.02, T:0.25
Consensus pattern (29 bp):
TAAAACCCTAACCCTTAACTTTAAAACCC
Found at i:16682508 original size:50 final size:51
Alignment explanation
Indices: 16682411--16682508 Score: 171
Period size: 50 Copynumber: 1.9 Consensus size: 51
16682401 CCTTAAGCTA
*
16682411 AAAACTCCAAACCCTTAACTTTAAAACCCTAACCCTTAACTTTAAAGCCCT
1 AAAACTCCAAACCCTTAACTTTAAAACCCTAACCCTTAACTTAAAAGCCCT
*
16682462 AAAAC-CCTAACCCTTAACTTTAAAACCCTAACCCTTAACTTAAAAGC
1 AAAACTCCAAACCCTTAACTTTAAAACCCTAACCCTTAACTTAAAAGC
16682509 GCATCCATGA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 40 0.89
51 5 0.11
ACGTcount: A:0.41, C:0.33, G:0.02, T:0.24
Consensus pattern (51 bp):
AAAACTCCAAACCCTTAACTTTAAAACCCTAACCCTTAACTTAAAAGCCCT
Found at i:16682734 original size:125 final size:126
Alignment explanation
Indices: 16682503--16682808 Score: 393
Period size: 125 Copynumber: 2.4 Consensus size: 126
16682493 CCCTTAACTT
* *
16682503 AAAAGCGCATCCATGAGGGTGCGATTTCACAAATTCTTCTCA-AATAGCATCCTGCTTCAAGCAT
1 AAAAGCGCATCCACGAGGGCGCGATTTCA-AAATTCTTCTCATAA-AGCATCCTGCTTCAAGCA-
* *
16682567 TTTTTTTAAAACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAGGACCTAATGTAGC
63 GTTTTTTAAAACTATTTGCTCAGAAACATCAACTCGAAATTATTT-TTCCAGGACCTAATATAGC
*
16682632 AAAAGCGCATCCACGAGGGCGCGATTTCAAAATTCTTCTCATAAAGCATCCTGCTTGAAGC-GTT
1 AAAAGCGCATCCACGAGGGCGCGATTTCAAAATTCTTCTCATAAAGCATCCTGCTTCAAGCAGTT
* * * * *
16682696 TTTT-ATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCATGACCTATTATAGC
66 TTTTAAAACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTCCAGGACCTAATATAGC
* * * * * * *
16682756 AAAAGCGCGTACACGTGGACGCGACTTCAAAAATCCTTCTGATAAAGCATCCT
1 AAAAGCGCATCCACGAGGGCGCGATTTC-AAAATTCTTCTCATAAAGCATCCT
16682809 ACTTTGATTT
Statistics
Matches: 158, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
124 39 0.25
125 56 0.35
126 6 0.04
128 28 0.18
129 29 0.18
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (126 bp):
AAAAGCGCATCCACGAGGGCGCGATTTCAAAATTCTTCTCATAAAGCATCCTGCTTCAAGCAGTT
TTTTAAAACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTCCAGGACCTAATATAGC
Found at i:16684170 original size:6 final size:6
Alignment explanation
Indices: 16684159--16684191 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
16684149 TAATTTACTC
16684159 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
16684192 GTAGAGGGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:16689075 original size:19 final size:18
Alignment explanation
Indices: 16689039--16689076 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
16689029 TACGTCACAT
*
16689039 TAAATTACAAAGTCGTTA
1 TAAATTACAAAGTAGTTA
16689057 TAAATTACAAAAGTAGTTA
1 TAAATTAC-AAAGTAGTTA
16689076 T
1 T
16689077 TTTTTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (18 bp):
TAAATTACAAAGTAGTTA
Found at i:16691244 original size:34 final size:34
Alignment explanation
Indices: 16691200--16691266 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
16691190 CATCTCTCTC
* *
16691200 AATTAAAAATTCAGAAGAGAAATTGGGCAAGGTT
1 AATTAAAAATTCAAAAGAGAAACTGGGCAAGGTT
*
16691234 AATTACAAATTCAAAAGAGAAACTGGGCAAGGT
1 AATTAAAAATTCAAAAGAGAAACTGGGCAAGGT
16691267 CAAGTCTGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.48, C:0.09, G:0.22, T:0.21
Consensus pattern (34 bp):
AATTAAAAATTCAAAAGAGAAACTGGGCAAGGTT
Found at i:16698120 original size:3 final size:3
Alignment explanation
Indices: 16698114--16698154 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
16698104 TCATTAGCTT
16698114 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
16698155 TTTGTATTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:16700704 original size:16 final size:15
Alignment explanation
Indices: 16700660--16700697 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
16700650 TATTAAACTC
16700660 TTTTTTTCTTTTTCT
1 TTTTTTTCTTTTTCT
16700675 TTTTTTTCTTTTTCT
1 TTTTTTTCTTTTTCT
16700690 TTTTTTTC
1 TTTTTTTC
16700698 CTCTTTCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTTTCTTTTTCT
Found at i:16706573 original size:18 final size:16
Alignment explanation
Indices: 16706550--16706585 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
16706540 CTTCTGCTGC
16706550 TTTCTTTTCTTTTTCTTT
1 TTTCTTTT-TTTTT-TTT
16706568 TTTCTTTTTTTTTTTT
1 TTTCTTTTTTTTTTTT
16706584 TT
1 TT
16706586 GGTTTTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 5 0.28
18 8 0.44
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (16 bp):
TTTCTTTTTTTTTTTT
Found at i:16706583 original size:13 final size:13
Alignment explanation
Indices: 16706554--16706582 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16706544 TGCTGCTTTC
16706554 TTTTCTTTTTCTT
1 TTTTCTTTTTCTT
16706567 TTTTCTTTTT-TT
1 TTTTCTTTTTCTT
16706579 TTTT
1 TTTT
16706583 TTTGGTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTCTTTTTCTT
Found at i:16715878 original size:24 final size:22
Alignment explanation
Indices: 16715851--16715915 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
16715841 CCCCTTATTT
16715851 TTTCACAAACAAATATTCTCTCAA
1 TTTC-CAAACAAA-ATTCTCTCAA
***
16715875 TTTCCTTCCAAAATTCTCTCAA
1 TTTCCAAACAAAATTCTCTCAA
***
16715897 TTTCCTTCCAAAATTCTCT
1 TTTCCAAACAAAATTCTCT
16715916 TAAACTCTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 29 0.76
23 5 0.13
24 4 0.11
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTCCAAACAAAATTCTCTCAA
Found at i:16715893 original size:22 final size:22
Alignment explanation
Indices: 16715860--16715915 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
16715850 TTTTCACAAA
16715860 CAAATATTCTCTCAATTTCCTTC
1 CAAA-ATTCTCTCAATTTCCTTC
16715883 CAAAATTCTCTCAATTTCCTTC
1 CAAAATTCTCTCAATTTCCTTC
16715905 CAAAATTCTCT
1 CAAAATTCTCT
16715916 TAAACTCTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.29, C:0.30, G:0.00, T:0.41
Consensus pattern (22 bp):
CAAAATTCTCTCAATTTCCTTC
Found at i:16715946 original size:52 final size:52
Alignment explanation
Indices: 16715868--16715967 Score: 173
Period size: 52 Copynumber: 1.9 Consensus size: 52
16715858 AACAAATATT
* * *
16715868 CTCTCAATTTCCTTCCAAAATTCTCTCAATTTCCTTCCAAAATTCTCTTAAA
1 CTCTCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCTTAAA
16715920 CTCTCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCT
1 CTCTCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCT
16715968 CAAATCCATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (52 bp):
CTCTCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCTTAAA
Found at i:16715948 original size:22 final size:22
Alignment explanation
Indices: 16715920--16715970 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
16715910 TTCTCTTAAA
*
16715920 CTCTCAATTTCCTTC-CAAAAT
1 CTCTCAATTTCCTTCAAAAAAT
16715941 CCTCTCAATTTCCTTCAAAAAAT
1 -CTCTCAATTTCCTTCAAAAAAT
16715964 CTCTCAA
1 CTCTCAA
16715971 ATCCATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.35
Consensus pattern (22 bp):
CTCTCAATTTCCTTCAAAAAAT
Found at i:16716037 original size:28 final size:28
Alignment explanation
Indices: 16716006--16716061 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
16715996 TCAATTTCAT
*
16716006 TTTTTTAAGAA-AATTTTAAATATTTTTA
1 TTTTTTAAAAATAATTTTAAA-ATTTTTA
16716034 TTTTTTAAAAATAATTTTAAAATTTTTA
1 TTTTTTAAAAATAATTTTAAAATTTTTA
16716062 ATATTTTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (28 bp):
TTTTTTAAAAATAATTTTAAAATTTTTA
Found at i:16716068 original size:29 final size:28
Alignment explanation
Indices: 16716008--16716068 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
16715998 AATTTCATTT
* *
16716008 TTTTAAGAAAATTTTAAATATTTTTATT
1 TTTTAAAAAAATTTTAAATATTTTTATA
16716036 TTTTAAAAATAATTTTAAA-ATTTTTAATA
1 TTTTAAAAA-AATTTTAAATATTTTT-ATA
16716065 TTTT
1 TTTT
16716069 CAACAATGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (28 bp):
TTTTAAAAAAATTTTAAATATTTTTATA
Found at i:16717162 original size:7 final size:7
Alignment explanation
Indices: 16717150--16717174 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16717140 AGTGGATTGA
16717150 TATTTAG
1 TATTTAG
16717157 TATTTAG
1 TATTTAG
16717164 TATTTAG
1 TATTTAG
16717171 TATT
1 TATT
16717175 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:16718379 original size:29 final size:28
Alignment explanation
Indices: 16718338--16718475 Score: 177
Period size: 29 Copynumber: 4.6 Consensus size: 28
16718328 TTTTGATATT
*
16718338 ATTTGATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
16718366 ATTTTAATTAAAAACCCTAACCCTAATTTA
1 A-TTTAATTAAAAACCCTAA-CCTAATTTA
16718396 ATTTAATTAAAAACCCTAAACCCCAACCTAATTTA
1 ATTTAATTAAAAACCCT-------AACCTAATTTA
16718431 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
16718459 ATTTTAATTAAAAACCC
1 A-TTTAATTAAAAACCC
16718476 GAACTTGTAC
Statistics
Matches: 99, Mismatches: 1, Indels: 19
0.83 0.01 0.16
Matches are distributed among these distances:
28 13 0.13
29 48 0.48
30 10 0.10
35 26 0.26
36 2 0.02
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.34
Consensus pattern (28 bp):
ATTTAATTAAAAACCCTAACCTAATTTA
Found at i:16718388 original size:35 final size:34
Alignment explanation
Indices: 16718349--16718451 Score: 144
Period size: 35 Copynumber: 3.1 Consensus size: 34
16718339 TTTGATTAAA
16718349 AACCCTAACCTAATTTAATTTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAA-TTTAATTAAAAACCCT
16718384 AA--C---CCTAATTTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTTAATTAAAAACCCT
*
16718413 AAACCCCAACCTAATTTAATTTAATTAAAAACCCT
1 -AACCCTAACCTAATTTAATTTAATTAAAAACCCT
16718448 AACC
1 AACC
16718452 TAATTTAATT
Statistics
Matches: 62, Mismatches: 0, Indels: 13
0.83 0.00 0.17
Matches are distributed among these distances:
29 16 0.26
30 12 0.19
32 1 0.02
33 1 0.02
34 4 0.06
35 28 0.45
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (34 bp):
AACCCTAACCTAATTTAATTTAATTAAAAACCCT
Found at i:16720109 original size:41 final size:41
Alignment explanation
Indices: 16720065--16720286 Score: 345
Period size: 41 Copynumber: 5.4 Consensus size: 41
16720055 AGATTCACTA
* * * *
16720065 GCACTTAGCTTGTTAGGCTTAAAGCCTGATTCAGATCACCA
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCG
* * *
16720106 GCACTTAGCCTGCTAGGCTTATAGCCTAATCCAGTTCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCG
* *
16720147 GCACTTAGCCTGCTAGGTTTATAGCCTAATTCAGATCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCG
*
16720188 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCG
*
16720229 GCACTTAGCCTGCTAGGCTTATAGCCTGATTTAGATCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCG
16720270 GCACTTAGCCTGCTAGG
1 GCACTTAGCCTGCTAGG
16720287 TTTTAAAACC
Statistics
Matches: 166, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 166 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (41 bp):
GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCG
Found at i:16723221 original size:124 final size:124
Alignment explanation
Indices: 16723001--16723280 Score: 386
Period size: 124 Copynumber: 2.3 Consensus size: 124
16722991 CCACGAGGGC
* * *
16723001 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAATAATTATTTCCTACATGACCAACTGTAGCG
1 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAATAATTATTTCCTACATGACCAACTGTACCG
* ** **
16723066 AAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCAT-ATAGCATCCTAGTATCA
66 AAATCGCATCCACGAGGGCACGATTTCACAATTTCTTCT-ATGATAGCATCCTAGTAGAA
* *
16723125 GCGATTTTATACTATTTGCTTAGAAAACGTCAAAAA-AATTATTTCTTACATGACCAACTGTACC
1 GCGATTTTATACTATTTGCTCAG-AAACGTCAAAAATAATTATTTCCTACATGACCAACTGTACC
* * * *
16723189 GAAATTGCATCCACGAGGGCACGATTTTACAATTTCTTCTTTGATAGCATCCTGGTAGAA
65 GAAATCGCATCCACGAGGGCACGATTTCACAATTTCTTCTATGATAGCATCCTAGTAGAA
16723249 GCGATTTTATACTATTTGAC-CAGAAACGTCAA
1 GCGATTTTATACTATTTG-CTCAGAAACGTCAA
16723281 CTCAAAATAA
Statistics
Matches: 138, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
123 10 0.07
124 115 0.83
125 13 0.09
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (124 bp):
GCGATTTTATACTATTTGCTCAGAAACGTCAAAAATAATTATTTCCTACATGACCAACTGTACCG
AAATCGCATCCACGAGGGCACGATTTCACAATTTCTTCTATGATAGCATCCTAGTAGAA
Found at i:16724091 original size:20 final size:20
Alignment explanation
Indices: 16724066--16724105 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
16724056 CGTAAAATGA
*
16724066 TTTCTAGAAAATGTTTTACT
1 TTTCTAGAAAATGATTTACT
*
16724086 TTTCTATAAAATGATTTACT
1 TTTCTAGAAAATGATTTACT
16724106 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (20 bp):
TTTCTAGAAAATGATTTACT
Found at i:16724229 original size:20 final size:20
Alignment explanation
Indices: 16724204--16724242 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
16724194 GTTTTTACAT
16724204 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
16724224 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
16724243 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:16733665 original size:58 final size:59
Alignment explanation
Indices: 16733596--16733711 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 59
16733586 TTAAACTTAA
* * *
16733596 TATTAAGTTAATATAATACTTATC-AAGATAAATATTAGATTAAATTTAATATTAAACC
1 TATTAAATTAATAGAATACTTATCTAAGATAAATATTAAATTAAATTTAATATTAAACC
* *
16733654 TATTAAATTAATAGAATATTTATCTATAAGATAAATATTAAATTTAATTTAATATTAA
1 TATTAAATTAATAGAATACTTATC--TAAGATAAATATTAAATTAAATTTAATATTAA
16733712 GATAAATACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
58 21 0.42
61 29 0.58
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (59 bp):
TATTAAATTAATAGAATACTTATCTAAGATAAATATTAAATTAAATTTAATATTAAACC
Found at i:16733725 original size:25 final size:25
Alignment explanation
Indices: 16733696--16733746 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
16733686 AAATATTAAA
*
16733696 TTTAAT-TTAATATTAAGATAAATAC
1 TTTAATATTAA-ATTAAGAAAAATAC
*
16733721 TTTAATATTAAATTAATAAAAATAC
1 TTTAATATTAAATTAAGAAAAATAC
16733746 T
1 T
16733747 ATCAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (25 bp):
TTTAATATTAAATTAAGAAAAATAC
Found at i:16736960 original size:154 final size:156
Alignment explanation
Indices: 16736780--16737063 Score: 450
Period size: 155 Copynumber: 1.8 Consensus size: 156
16736770 AAATCAAATC
* *
16736780 TTTCTTTTAAAAAAAATCACTACTTTTCTTAAATATCAAAA-TTTTATTTCGAAATAATTGA-AA
1 TTTCTTTT-AAAAAAATCACTACTTTTCTTAAAGATCAAAACTTTAATTTCGAAATAATTGACAA
*
16736843 AAGATCAAAACTTTGTTTTAAAATTTTAAACTTTTCCTTTAAAATGACT-AAAAAAATAGATTTT
65 AA-ATCAAAACTTTGTTTTAAAATTTTAAA-ATTTCCTTTAAAATGACTCAAAAAAATAGATTTT
16736907 TAAGAATAAAAATCTAAACTTTCTCTTTT
128 TAAGAATAAAAATCTAAACTTTCTCTTTT
* *
16736936 TTTCTTTT-AAAAAATCACTACTTTTCTTAAAGATCAAAACTTTAATTTCTAAATAGTTGACAAA
1 TTTCTTTTAAAAAAATCACTACTTTTCTTAAAGATCAAAACTTTAATTTCGAAATAATTGACAAA
* *
16737000 AATCAAAATTTTGTTTTAAAATTTTAAAATTTCCTTTAAAATGACTCAAAAACATAGATTTTTA
66 AATCAAAACTTTGTTTTAAAATTTTAAAATTTCCTTTAAAATGACTCAAAAAAATAGATTTTTA
16737064 TTTTTACAAT
Statistics
Matches: 118, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
154 47 0.40
155 59 0.50
156 12 0.10
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.42
Consensus pattern (156 bp):
TTTCTTTTAAAAAAATCACTACTTTTCTTAAAGATCAAAACTTTAATTTCGAAATAATTGACAAA
AATCAAAACTTTGTTTTAAAATTTTAAAATTTCCTTTAAAATGACTCAAAAAAATAGATTTTTAA
GAATAAAAATCTAAACTTTCTCTTTT
Found at i:16737080 original size:154 final size:155
Alignment explanation
Indices: 16736780--16737090 Score: 441
Period size: 154 Copynumber: 2.0 Consensus size: 155
16736770 AAATCAAATC
* *
16736780 TTTCTTTTAAAAAAAATCACTACTTTTCTTAAATATCAAAATTTTATTTCGAAATAATTGAAAAA
1 TTTCTTTT-AAAAAAATCACTACTTTTCTTAAAGATCAAAATTTAATTTCGAAATAATTGAAAAA
*
16736845 GATCAAAACTTTGTTTTAAAATTTTAAACTTTTCCTTTAAAATGACTAAAAAAATAGATTTTTAA
65 GATCAAAACTTTGTTTTAAAATTTTAAACATTTCCTTTAAAATGACTAAAAAAATAGATTTTTAA
*
16736910 GAATAAAAATCTAAACTTTCTCTTTT
130 GAATAAAAATATAAACTTTCTCTTTT
* *
16736936 TTTCTTTT-AAAAAATCACTACTTTTCTTAAAGATCAAAACTTTAATTTCTAAATAGTTGACAAA
1 TTTCTTTTAAAAAAATCACTACTTTTCTTAAAGATCAAAA-TTTAATTTCGAAATAATTGA-AAA
* *
16737000 A-ATCAAAATTTTGTTTTAAAATTTTAAA-ATTTCCTTTAAAATGACTCAAAAACATAGATTTTT
64 AGATCAAAACTTTGTTTTAAAATTTTAAACATTTCCTTTAAAATGACT-AAAAAAATAGATTTTT
*** * *
16737063 -ATTTTTACAATATAAACTTTCTCTTTT
128 AAGAATAAAAATATAAACTTTCTCTTTT
16737090 T
1 T
16737091 AAAAAAAAAT
Statistics
Matches: 139, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
154 69 0.50
155 58 0.42
156 12 0.09
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (155 bp):
TTTCTTTTAAAAAAATCACTACTTTTCTTAAAGATCAAAATTTAATTTCGAAATAATTGAAAAAG
ATCAAAACTTTGTTTTAAAATTTTAAACATTTCCTTTAAAATGACTAAAAAAATAGATTTTTAAG
AATAAAAATATAAACTTTCTCTTTT
Found at i:16741044 original size:43 final size:43
Alignment explanation
Indices: 16740940--16741175 Score: 202
Period size: 42 Copynumber: 5.6 Consensus size: 43
16740930 GAATAAAAAT
* * *
16740940 GGGTTGCTAAGTGATGATTCC-CCGAAT-TATTGACT-TTAAAG
1 GGGTTGCTAAGTGCTGATTCCACCGTATCT-TTGAATGTTAAAG
* * * *
16740981 ATGGTTGCTAAGTGCCGATTCCACTGTATCTTTGATTGTTAAAG
1 -GGGTTGCTAAGTGCTGATTCCACCGTATCTTTGAATGTTAAAG
* * *
16741025 GGGTTGCTATGTGCTGATTCC-CCGTAT-TACTGAAT-ATAAAG
1 GGGTTGCTAAGTGCTGATTCCACCGTATCT-TTGAATGTTAAAG
* * *
16741066 GTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGACTGTGAAAG
1 G-GGTTGCTAAGTGCTGATTCCACCGTATCTTTGAATGTTAAAG
* **
16741110 GGGTTGCTATGTGCTGATTCC-CCGTATCACTGAAT-TT-AAG
1 GGGTTGCTAAGTGCTGATTCCACCGTATCTTTGAATGTTAAAG
* *
16741150 GCAGTTGCTAAGTGCTGAATCCACCG
1 G-GGTTGCTAAGTGCTGATTCCACCG
16741176 AGTAACGAAT
Statistics
Matches: 156, Mismatches: 28, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
40 4 0.03
41 25 0.16
42 59 0.38
43 55 0.35
44 13 0.08
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (43 bp):
GGGTTGCTAAGTGCTGATTCCACCGTATCTTTGAATGTTAAAG
Found at i:16741086 original size:85 final size:84
Alignment explanation
Indices: 16740940--16741175 Score: 310
Period size: 85 Copynumber: 2.8 Consensus size: 84
16740930 GAATAAAAAT
* * * * * * *
16740940 GGGTTGCTAAGTGATGATTCCCCGAATTATTGACTTTAAAGATGGTTGCTAAGTGCCGATTCCAC
1 GGGTTGCTATGTGCTGATTCCCCGTATTACTGA-ATTAAAGGTGGTTGCTAAGTGCTGATTCCAC
* * *
16741005 TGTATCTTTGATTGTTAAAG
65 CGTATCTTTGACTGTGAAAG
*
16741025 GGGTTGCTATGTGCTGATTCCCCGTATTACTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCAC
1 GGGTTGCTATGTGCTGATTCCCCGTATTACTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCCAC
16741090 CGTATCTTTGACTGTGAAAG
65 CGTATCTTTGACTGTGAAAG
* * ** *
16741110 GGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTTAAGGCAGTTGCTAAGTGCTGAATCCACC
1 GGGTTGCTATGTGCTGATTCCCCGTATTACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCACC
16741175 G
66 G
16741176 AGTAACGAAT
Statistics
Matches: 133, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
84 27 0.20
85 106 0.80
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (84 bp):
GGGTTGCTATGTGCTGATTCCCCGTATTACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCACC
GTATCTTTGACTGTGAAAG
Found at i:16746747 original size:22 final size:21
Alignment explanation
Indices: 16746714--16746755 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
16746704 ACATATTACC
16746714 ATTTAGTCATTTAAACTTTAAG
1 ATTTAGTCATTTAAA-TTTAAG
*
16746736 ATTTA-TCAATTTTAATTTAA
1 ATTTAGTC-ATTTAAATTTAA
16746756 CAAAGCAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (21 bp):
ATTTAGTCATTTAAATTTAAG
Found at i:16753402 original size:129 final size:129
Alignment explanation
Indices: 16753172--16753429 Score: 498
Period size: 129 Copynumber: 2.0 Consensus size: 129
16753162 CTACAAAACC
* *
16753172 AAAAGGCGAGAGAGTGATACTATCAAAAGATATGTGAAAACAGTAACTGCAGAAACATATTTGTC
1 AAAAGGCGAGAGAGTGATACTATCAAAAGATACGTGAAAACAGGAACTGCAGAAACATATTTGTC
16753237 ACCCTCATAGATGCCTAATGCCAGCAATATAAAGAAATTCATTATGACTATGATAACTTCAGGA
66 ACCCTCATAGATGCCTAATGCCAGCAATATAAAGAAATTCATTATGACTATGATAACTTCAGGA
16753301 AAAAGGCGAGAGAGTGATACTATCAAAAGATACGTGAAAACAGGAACTGCAGAAACATATTTGTC
1 AAAAGGCGAGAGAGTGATACTATCAAAAGATACGTGAAAACAGGAACTGCAGAAACATATTTGTC
16753366 ACCCTCATAGATGCCTAATGCCAGCAATATAAAGAAATTCATTATGACTATGATAACTTCAGGA
66 ACCCTCATAGATGCCTAATGCCAGCAATATAAAGAAATTCATTATGACTATGATAACTTCAGGA
16753430 GTAGTGAGAG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 127 1.00
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (129 bp):
AAAAGGCGAGAGAGTGATACTATCAAAAGATACGTGAAAACAGGAACTGCAGAAACATATTTGTC
ACCCTCATAGATGCCTAATGCCAGCAATATAAAGAAATTCATTATGACTATGATAACTTCAGGA
Found at i:16758777 original size:16 final size:16
Alignment explanation
Indices: 16758756--16758823 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
16758746 TTTGGTTCGC
16758756 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
16758772 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
16758788 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
16758804 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
16758820 TGTA
1 TGTA
16758824 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:16759041 original size:16 final size:16
Alignment explanation
Indices: 16759020--16759087 Score: 100
Period size: 16 Copynumber: 4.2 Consensus size: 16
16759010 TTTGGTTCGC
16759020 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
16759036 TGTATTGGATTGGAGG
1 TGTATTGGATTAGAGG
16759052 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
16759068 TGTAATGGAATAAAGG
1 TGTATTGGATTAGAGG
16759084 TGTA
1 TGTA
16759088 ATAGCAAATC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:16759214 original size:264 final size:264
Alignment explanation
Indices: 16758744--16759267 Score: 951
Period size: 264 Copynumber: 2.0 Consensus size: 264
16758734 ATTTACAGTG
*
16758744 CGTTTGGTTCGCTGTATTGGATTAGAGGTGTATTGGATTAGAGATGTATTGGATTAGAGGTGTAT
1 CGTTTGGTTCGCTGTATTGGATTAGAGGTGTATTGGATTAGAGATGTATTGGATTAGAGGTGTAA
* * *
16758809 TGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAATGTAATGGAATAGAGGCGTAATAGT
66 TGGAATAAAGGTGTAATAGCAAATCAACTGTTTGGTTAAATGTAATGGAATAGAGGCGTAATAGT
* *
16758874 AATCTTGTGTTTGGTTGAATGGAATAGAGGTGTAATAGCATAATGGAAAAAACTAAAATGACTAG
131 AATCTTATATTTGGTTGAATGGAATAGAGGTGTAATAGCATAATGGAAAAAACTAAAATGACTAG
*
16758939 AATACCCTTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTT-AAATTATAATAA
196 AATACCCTTAGCATAAATTTGTTTGGGTAAATGATTATTGTTATTGTTATTTAAAATT-TAATAA
16759003 GGGCA
260 GGGCA
* *
16759008 CGTTTGGTTCGCTGTATTGGATTAGAGGTGTATTGGATTGGAGGTGTATTGGATTAGAGGTGTAA
1 CGTTTGGTTCGCTGTATTGGATTAGAGGTGTATTGGATTAGAGATGTATTGGATTAGAGGTGTAA
16759073 TGGAATAAAGGTGTAATAGCAAATCAACTGTTTGGTTAAATGTAATGGAATAGAGGCGTAATAGT
66 TGGAATAAAGGTGTAATAGCAAATCAACTGTTTGGTTAAATGTAATGGAATAGAGGCGTAATAGT
16759138 AATCTTATATTTGGTTGAATGGAATAGAGGTGTAATAGCATAATGGAAAAAACTAAAATGACTAG
131 AATCTTATATTTGGTTGAATGGAATAGAGGTGTAATAGCATAATGGAAAAAACTAAAATGACTAG
16759203 AATACCCTTAGCATAAATTTGTTTGGGTAAATGATTATTGTTATTGTTATTTAAAATTTAATAAG
196 AATACCCTTAGCATAAATTTGTTTGGGTAAATGATTATTGTTATTGTTATTTAAAATTTAATAAG
16759268 ATTATTAATA
Statistics
Matches: 250, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
264 245 0.98
265 5 0.02
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (264 bp):
CGTTTGGTTCGCTGTATTGGATTAGAGGTGTATTGGATTAGAGATGTATTGGATTAGAGGTGTAA
TGGAATAAAGGTGTAATAGCAAATCAACTGTTTGGTTAAATGTAATGGAATAGAGGCGTAATAGT
AATCTTATATTTGGTTGAATGGAATAGAGGTGTAATAGCATAATGGAAAAAACTAAAATGACTAG
AATACCCTTAGCATAAATTTGTTTGGGTAAATGATTATTGTTATTGTTATTTAAAATTTAATAAG
GGCA
Found at i:16759336 original size:15 final size:15
Alignment explanation
Indices: 16759312--16759353 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
16759302 TTTAAACATA
*
16759312 ATTATTATTAAATAT
1 ATTATAATTAAATAT
16759327 ATTATAATTAAAT-T
1 ATTATAATTAAATAT
*
16759341 A-TATAATTTAATA
1 ATTATAATTAAATA
16759354 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 10 0.42
14 2 0.08
15 12 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:16759422 original size:107 final size:108
Alignment explanation
Indices: 16759301--16759511 Score: 388
Period size: 107 Copynumber: 2.0 Consensus size: 108
16759291 ATTTAATCAT
*
16759301 ATTTAAACATAATTATTATTAAATATATTATAATTAAATTATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
16759366 ATTAATATTCTTATATGAATTTACTCAAATCATAATATAGATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATAGATA
16759409 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
16759473 ATCAATATTCTTATATGAATTTACTAAAATCATAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATA
16759512 TAATACTATA
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 96 0.96
108 4 0.04
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (108 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATAGATA
Found at i:16759449 original size:16 final size:16
Alignment explanation
Indices: 16759406--16759451 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
16759396 CATAATATAG
*
16759406 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
16759422 ATTATT-AAATATATT
1 ATAATTAAAATATATT
16759437 ATAATTAAAATATAT
1 ATAATTAAAATATAT
16759452 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:16759458 original size:14 final size:15
Alignment explanation
Indices: 16759406--16759460 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
16759396 CATAATATAG
16759406 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
16759422 ATTATTAAATATATT
1 ATAATTAAATATATT
16759437 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
16759450 ATAATTTAATA
1 ATAATTAAATA
16759461 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:16759509 original size:37 final size:35
Alignment explanation
Indices: 16759339--16759509 Score: 102
Period size: 37 Copynumber: 4.7 Consensus size: 35
16759329 TATAATTAAA
*
16759339 TTATATAATTTAATAAAATTCTTAATAATTAATATT
1 TTATATAATTTAATAAAA-TCATAATAATTAATATT
* *
16759375 CTTATATGAATTTACTCAAATCATAAT-A-TAGATAATT
1 -TTATAT-AATTTAATAAAATCATAATAATTA-AT-ATT
* * * *
16759412 TAACATAATTATTATTAAATAT-ATTATAATTAA-A--
1 TTATATAA-T-TTAATAAA-ATCATAATAATTAATATT
* * *
16759446 ATATATAATTTAATAAAATTCTTAATAATCAATATT
1 TTATATAATTTAATAAAA-TCATAATAATTAATATT
*
16759482 CTTATATGAATTTACTAAAATCATAATA
1 -TTATAT-AATTTAATAAAATCATAATA
16759510 TATAATACTA
Statistics
Matches: 101, Mismatches: 18, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
31 1 0.01
32 8 0.08
33 9 0.09
34 6 0.06
35 4 0.04
36 9 0.09
37 37 0.37
38 25 0.25
39 2 0.02
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (35 bp):
TTATATAATTTAATAAAATCATAATAATTAATATT
Found at i:16759562 original size:107 final size:107
Alignment explanation
Indices: 16759304--16759567 Score: 344
Period size: 107 Copynumber: 2.5 Consensus size: 107
16759294 TAATCATATT
* * * *
16759304 TAAACATAATTATTATTAAATATATTATAATTAAATTATATAATTTAATAAAATTCTTAATAATT
1 TAAA-ATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATC
* * *
16759369 AATATTCTTATATGAATTTACTCAAATCATAATATAGATAATT
65 AATATTCTTATATGAATTTACTAAAATCATAATATAAATAATA
* * *
16759412 TAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
1 TAAAATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
*
16759477 ATATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
66 ATATTCTTATATGAATTTACTAAAATCATAATATA-AATAATA
16759520 TAAAAT-ATAATT-TGAAATA-ATTA-ATATT-AAATATAT--TTTAATTAAAAT
1 TAAAATAATAATTATGAAATATATTATA-ATTAAAATATATAATTTAA-TAAAAT
16759568 ATATTATTTA
Statistics
Matches: 143, Mismatches: 10, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
102 5 0.03
103 6 0.04
104 9 0.06
105 7 0.05
106 6 0.04
107 98 0.69
108 12 0.08
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (107 bp):
TAAAATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
ATATTCTTATATGAATTTACTAAAATCATAATATAAATAATA
Found at i:16765598 original size:21 final size:21
Alignment explanation
Indices: 16765574--16765626 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
16765564 CATTGTTTCT
*
16765574 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
16765595 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
16765616 AATCTCACCGC
1 AATCTCACCGC
16765627 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:16770286 original size:19 final size:19
Alignment explanation
Indices: 16770259--16770373 Score: 160
Period size: 19 Copynumber: 5.8 Consensus size: 19
16770249 AATCATATCT
*
16770259 TCTAAGATTGCTTATCATA
1 TCTAAGATTGCATATCATA
*
16770278 TCCAAGATTGCACATATCATA
1 TCTAAGATTG--CATATCATA
16770299 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
16770318 TCTAAGATTGCATAT-ATCA
1 TCTAAGATTGCATATCAT-A
16770337 TTACTAAGATTGCATATCATA
1 -T-CTAAGATTGCATATCATA
16770358 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
16770374 CTCAAAAATT
Statistics
Matches: 87, Mismatches: 3, Indels: 12
0.85 0.03 0.12
Matches are distributed among these distances:
18 2 0.02
19 49 0.56
20 2 0.02
21 32 0.37
22 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:16770307 original size:40 final size:39
Alignment explanation
Indices: 16770252--16770369 Score: 184
Period size: 40 Copynumber: 3.0 Consensus size: 39
16770242 ATTACAAAAT
* *
16770252 CATATC-TTCTAAGATTGCTTATCATATCCAAGATTGCA
1 CATATCATTCTAAGATTGCATATCATATCTAAGATTGCA
16770290 CATATCATATCTAAGATTGCATATCATATCTAAGATTGCA
1 CATATCAT-TCTAAGATTGCATATCATATCTAAGATTGCA
*
16770330 TATATCATTACTAAGATTGCATATCATATCTAAGATTGCA
1 CATATCATT-CTAAGATTGCATATCATATCTAAGATTGCA
16770370 TATCCTCAAA
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
38 6 0.08
39 2 0.03
40 66 0.89
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (39 bp):
CATATCATTCTAAGATTGCATATCATATCTAAGATTGCA
Found at i:16770353 original size:59 final size:56
Alignment explanation
Indices: 16770252--16770373 Score: 167
Period size: 59 Copynumber: 2.1 Consensus size: 56
16770242 ATTACAAAAT
16770252 CATATCTTCTAAGATTGCTTATCATATCCAAGATTGCACATATCATATCTAAGATTG
1 CATATCTTCTAAGATTGCTTATCATATCCAAGATTG-ACATATCATATCTAAGATTG
*
16770309 CATATCATATCTAAGATTGCATATATCAT-TACTAAGATTG-CATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTGC-T-TATCATAT-CCAAGATTGACATATCATATCTAAGATTG
16770368 CATATC
1 CATATC
16770374 CTCAAAAATT
Statistics
Matches: 59, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
57 6 0.10
58 1 0.02
59 36 0.61
60 2 0.03
61 14 0.24
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (56 bp):
CATATCTTCTAAGATTGCTTATCATATCCAAGATTGACATATCATATCTAAGATTG
Found at i:16770738 original size:44 final size:44
Alignment explanation
Indices: 16770690--16771001 Score: 134
Period size: 44 Copynumber: 7.1 Consensus size: 44
16770680 CTGTAACCAC
*
16770690 AGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCTT
1 AGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTACTGCTT
* * * * * ** **
16770734 AGGGAGATAATATCTGA-AATCTTCAATCTATTCCACTGTTGCCC
1 AGGGAGGTAAAATC-CACCATCTTCAATCTACTCCACTACTGCTT
* * * ** * **
16770778 AGGGAAGTAGAAT-TACCGGCTTCAATGTACTCCACTGTAAC--CAC
1 AGGGAGGTAAAATCCACCATCTTCAATCTACTCCAC--T-ACTGCTT
* * *
16770822 AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
1 AGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTACTGCTT
* * * * * ** *
16770866 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGCCT
1 AGGGAGGTAAAATC-CACCATCTTCAATCTACTCCACTACTGCTT
* * * *** * * **
16770910 AGGGAAGTAGAAT-TACTGGCTTCAATGTACTCCACTA-TAACCAC
1 AGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTACT--GCTT
* * *
16770954 AGGGAGGTAAAATCCACCATCTTCGATCTGCTCCAGTACTGCTT
1 AGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTACTGCTT
16770998 AGGG
1 AGGG
16771002 GGATAAGATC
Statistics
Matches: 182, Mismatches: 72, Indels: 28
0.65 0.26 0.10
Matches are distributed among these distances:
42 5 0.03
43 30 0.16
44 113 0.62
45 33 0.18
46 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (44 bp):
AGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTACTGCTT
Found at i:16771299 original size:132 final size:132
Alignment explanation
Indices: 16770602--16771277 Score: 1054
Period size: 132 Copynumber: 5.1 Consensus size: 132
16770592 CTGCAACTGC
* * * * * * *
16770602 AGGGAGATTAGA-CTTACAATCTTCAACCTATTCCACTGCTGACCAGGG-AGATAGGATTATTGG
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGTCCAGGGAAG-TAGAATTACTGG
* *
16770665 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACT
64 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
16770730 GCTT
129 GCTT
* * *
16770734 AGGGAGATAATATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACCGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
16770799 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
16770864 TT
131 TT
16770866 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG-CCTAGGGAAGTAGAATTACTGGC
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCC-AGGGAAGTAGAATTACTGGC
* * *
16770930 TTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCAGTACTG
65 TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTG
16770995 CTT
130 CTT
* *
16770998 AGGGGGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGAGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
* * * *
16771063 TCAATGTACTCCACTATAACCACAGGGAAGTAAAATCTGCCATCTTCTATCTGCTCCACTACTGC
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
16771128 TT
131 TT
16771130 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
* * * * *
16771195 TCGATGTACTCCACTGTAACCACATGTAGGTAAAATCCGCCATCTACGATATGCT-CAGCTACTG
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCA-CTACTG
16771259 CTT
130 CTT
16771262 AGGGAGATAAGATCTG
1 AGGGAGATAAGATCTG
16771278 CTATTTTTAA
Statistics
Matches: 505, Mismatches: 34, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
131 4 0.01
132 494 0.98
133 7 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
TT
Found at i:16772599 original size:6 final size:6
Alignment explanation
Indices: 16772578--16772611 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
16772568 TTGGCCTCTC
16772578 CTTTTT C-TTTT C-TTTT CTTTTT CTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
16772612 TTTATCACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
CTTTTT
Found at i:16772599 original size:16 final size:17
Alignment explanation
Indices: 16772578--16772614 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
16772568 TTGGCCTCTC
16772578 CTTTTTC-TTTTCTTTT
1 CTTTTTCTTTTTCTTTT
16772594 CTTTTTCTTTTTCTTTT
1 CTTTTTCTTTTTCTTTT
16772611 -TTTT
1 CTTTT
16772615 ATCACTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
CTTTTTCTTTTTCTTTT
Found at i:16775232 original size:24 final size:24
Alignment explanation
Indices: 16775203--16775248 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
16775193 ATCATCTTTT
* *
16775203 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATGCATTTCCTTTTGAA
*
16775227 GCTGCTCCTGCATTTCCTTTTG
1 GCTGCTCATGCATTTCCTTTTG
16775249 GGATTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (24 bp):
GCTGCTCATGCATTTCCTTTTGAA
Found at i:16778244 original size:21 final size:19
Alignment explanation
Indices: 16778208--16778282 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
16778198 AATCATATCT
16778208 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
16778227 TCCAAGATTGCACATATCATA
1 TCTAAGATTG--CATATCATA
16778248 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
16778267 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
16778283 CTCAAAAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
21 18 0.35
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:16778256 original size:40 final size:38
Alignment explanation
Indices: 16778201--16778278 Score: 129
Period size: 40 Copynumber: 2.0 Consensus size: 38
16778191 ATTACAAAAT
16778201 CATATCTTCTAAGATTGCATATCATATCCAAGATTGCA
1 CATATCTTCTAAGATTGCATATCATATCCAAGATTGCA
*
16778239 CATATCATATCTAAGATTGCATATCATATCTAAGATTGCA
1 CATATC-T-TCTAAGATTGCATATCATATCCAAGATTGCA
16778279 TATCCTCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
38 6 0.16
39 1 0.03
40 30 0.81
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (38 bp):
CATATCTTCTAAGATTGCATATCATATCCAAGATTGCA
Found at i:16791313 original size:27 final size:26
Alignment explanation
Indices: 16791283--16791424 Score: 117
Period size: 27 Copynumber: 5.3 Consensus size: 26
16791273 GTGGGGTCAA
*
16791283 TAAAATGACCGAAATACCTTCGAAGGG
1 TAAAATGACCGAAATACC-TCAAAGGG
* *
16791310 TAAAATAACTGAAATAATCC-CAAAGGG
1 TAAAATGACCGAAAT-A-CCTCAAAGGG
* * * *
16791337 CAAAATGATCGAAATACCTCAAAAGA
1 TAAAATGACCGAAATACCTCAAAGGG
* *
16791363 TAAAATGACCGAAAT-CCCCTAAAGGA
1 TAAAATGACCGAAATACCTC-AAAGGG
* * *
16791389 TAAAATAACCAAAATACCCTCATAGGG
1 TAAAATGACCGAAATA-CCTCAAAGGG
16791416 TAAAATGAC
1 TAAAATGAC
16791425 TGTTATACCC
Statistics
Matches: 90, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
25 5 0.06
26 37 0.41
27 42 0.47
28 4 0.04
29 2 0.02
ACGTcount: A:0.49, C:0.19, G:0.15, T:0.18
Consensus pattern (26 bp):
TAAAATGACCGAAATACCTCAAAGGG
Found at i:16791367 original size:26 final size:26
Alignment explanation
Indices: 16791338--16791408 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
16791328 CCCAAAGGGC
* *
16791338 AAAATGATCGAAAT-ACCTCAAAAGAT
1 AAAATGACCGAAATCCCCT-AAAAGAT
*
16791364 AAAATGACCGAAATCCCCTAAAGGAT
1 AAAATGACCGAAATCCCCTAAAAGAT
* * *
16791390 AAAATAACCAAAATACCCT
1 AAAATGACCGAAATCCCCT
16791409 CATAGGGTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 35 0.92
27 3 0.08
ACGTcount: A:0.52, C:0.21, G:0.10, T:0.17
Consensus pattern (26 bp):
AAAATGACCGAAATCCCCTAAAAGAT
Found at i:16791791 original size:28 final size:28
Alignment explanation
Indices: 16791759--16791823 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
16791749 GGTTGCATTA
*
16791759 CCACACTGTTACTGTATTGGGCTAAGGC
1 CCACACTGTTACTGTATCGGGCTAAGGC
16791787 CCACACTGTTACTGTATCGGGCTAAGGC
1 CCACACTGTTACTGTATCGGGCTAAGGC
16791815 CCACACTGT
1 CCACACTGT
16791824 ACTATCACTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (28 bp):
CCACACTGTTACTGTATCGGGCTAAGGC
Found at i:16798922 original size:9 final size:9
Alignment explanation
Indices: 16798908--16798938 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
16798898 TTGTTTATTA
16798908 TGGACATTT
1 TGGACATTT
16798917 TGGACATTT
1 TGGACATTT
16798926 TGGACATTAT
1 TGGACATT-T
16798936 TGG
1 TGG
16798939 GTTTTTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 17 0.81
10 4 0.19
ACGTcount: A:0.23, C:0.10, G:0.26, T:0.42
Consensus pattern (9 bp):
TGGACATTT
Found at i:16802286 original size:3 final size:3
Alignment explanation
Indices: 16802278--16802308 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
16802268 ACTGAAAAAG
16802278 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC A
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC A
16802309 GTATGATCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:16806382 original size:17 final size:17
Alignment explanation
Indices: 16806360--16806392 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16806350 TTTGGCATTA
*
16806360 TATGTCTTGCATTTTAG
1 TATGTCATGCATTTTAG
16806377 TATGTCATGCATTTTA
1 TATGTCATGCATTTTA
16806393 TTTATGTGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.52
Consensus pattern (17 bp):
TATGTCATGCATTTTAG
Found at i:16808244 original size:41 final size:39
Alignment explanation
Indices: 16808157--16808251 Score: 97
Period size: 41 Copynumber: 2.4 Consensus size: 39
16808147 ATACCTATAT
* *
16808157 ATATATAAAAATATAAAGTATTATTATTAGAAATTAACT
1 ATATATAAAAATATAAAGTATTATTATTAGAAATAAACA
* *
16808196 TTCTATAAAAATATAAAGTTAATTA-TATATAGAAA-AAACAA
1 ATATATAAAAATATAAAG-T-ATTATTAT-TAGAAATAAAC-A
16808237 ATATATAAAAA-ATAA
1 ATATATAAAAATATAA
16808252 TAATAATACA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
39 16 0.35
40 11 0.24
41 19 0.41
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (39 bp):
ATATATAAAAATATAAAGTATTATTATTAGAAATAAACA
Found at i:16809867 original size:44 final size:43
Alignment explanation
Indices: 16809819--16809979 Score: 141
Period size: 44 Copynumber: 3.7 Consensus size: 43
16809809 ATTTTGATAC
* *
16809819 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTGTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTG-ATCT
* * * *
16809863 GCTCCACTGCAAATTTAGGGAGATAAGACTGGTTGC--GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTGATCT
* * * *
16809904 GCTCTACTGCAACTTCAGAGAGATAAGATCT-GTAGTT-TTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TGGT--TTCTTGATCT
* * *
16809948 ACTCCACTGCAACTTTAGGGAGATAGGATTGG
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGG
16809980 GGTCTTCGAT
Statistics
Matches: 92, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
41 29 0.32
42 2 0.02
43 2 0.02
44 59 0.64
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (43 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTGATCT
Found at i:16810357 original size:24 final size:24
Alignment explanation
Indices: 16810330--16810386 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
16810320 CGGATTGCCC
*
16810330 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCCTCAAGGTTCAAT
16810354 CCACTGTAATCCTCAAGGTTCAAT
1 CCACTGTAATCCTCAAGGTTCAAT
16810378 CCACTGTAA
1 CCACTGTAA
16810387 CCTTTGGGAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (24 bp):
CCACTGTAATCCTCAAGGTTCAAT
Found at i:16815524 original size:27 final size:27
Alignment explanation
Indices: 16815467--16815539 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
16815457 CTCGGCGTAT
* * * *
16815467 TATCTCGTGTTTAGTGTCCTGATTGAT
1 TATCTTGTGTTTAATGTCCTGATAGAC
16815494 TATCTTGTGTTTAATGTCCTG-TCAGAC
1 TATCTTGTGTTTAATGTCCTGAT-AGAC
*
16815521 TATCCTGTGTTTAATGTCC
1 TATCTTGTGTTTAATGTCC
16815540 CGTTGAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.03
27 39 0.98
ACGTcount: A:0.16, C:0.18, G:0.19, T:0.47
Consensus pattern (27 bp):
TATCTTGTGTTTAATGTCCTGATAGAC
Found at i:16815755 original size:45 final size:45
Alignment explanation
Indices: 16815691--16815820 Score: 183
Period size: 44 Copynumber: 2.9 Consensus size: 45
16815681 CCGCTTTTAT
* *
16815691 ATGATGCCATAATGTCTTTCAACTGTGGTCTTACAT-ATTTTCATC
1 ATGATGCCATAATATCTTTCAACTATGGTCTTAC-TCATTTTCATC
*
16815736 ATGATGCCATAATATCTTTC-AGTATGGTCTTACTCATTTTCATC
1 ATGATGCCATAATATCTTTCAACTATGGTCTTACTCATTTTCATC
* * *
16815780 ATGATTCCATAACATCTTTCAGCTATGGTCTTACTCATTTT
1 ATGATGCCATAATATCTTTCAACTATGGTCTTACTCATTTT
16815821 TGGCGTATAA
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
43 1 0.01
44 38 0.50
45 37 0.49
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.43
Consensus pattern (45 bp):
ATGATGCCATAATATCTTTCAACTATGGTCTTACTCATTTTCATC
Found at i:16815777 original size:21 final size:21
Alignment explanation
Indices: 16815752--16815820 Score: 52
Period size: 23 Copynumber: 3.1 Consensus size: 21
16815742 CCATAATATC
16815752 TTTCAGTATGGTCTTACTCAT
1 TTTCAGTATGGTCTTACTCAT
* * *
16815773 TTTCA-TCATGATTCCATA-ACAT
1 TTTCAGT-ATG-GT-CTTACTCAT
16815795 CTTTCAGCTATGGTCTTACTCAT
1 -TTTCAG-TATGGTCTTACTCAT
16815818 TTT
1 TTT
16815821 TGGCGTATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 13
0.65 0.11 0.24
Matches are distributed among these distances:
20 1 0.03
21 8 0.23
22 10 0.29
23 12 0.34
24 3 0.09
25 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.46
Consensus pattern (21 bp):
TTTCAGTATGGTCTTACTCAT
Found at i:16817738 original size:27 final size:27
Alignment explanation
Indices: 16817708--16817768 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
16817698 TCAGCGGACC
*
16817708 ATCCTATGTTTAGTGTCCCGTCAAACT
1 ATCCTATGTTTAGTGTCCCATCAAACT
** *
16817735 ATCCCGTGTTTAGTGTCCCATCAGACT
1 ATCCTATGTTTAGTGTCCCATCAAACT
16817762 AT-CTATG
1 ATCCTATG
16817769 GTTCCACAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
26 3 0.11
27 25 0.89
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.36
Consensus pattern (27 bp):
ATCCTATGTTTAGTGTCCCATCAAACT
Found at i:16824245 original size:50 final size:50
Alignment explanation
Indices: 16824164--16824455 Score: 286
Period size: 50 Copynumber: 5.9 Consensus size: 50
16824154 CATTTGGGTA
* *
16824164 AAGAGGTCCCATGTAAGACCATGTCTAGGACATGGTGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
*
16824214 AAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * * **
16824264 AAGAGGTCCCATGTAAGACTATGTGTGGGACATGGCATTGAAACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * * ** * *
16824314 GAGAGGTCCCCCGTAAGACCATATCTGGGATATGGAATGGGCACCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
** * * * * *
16824364 GAA-AACTCCCTTGTAAGACCATATCTGGGATATGGCATTGGCAGTAC-AGA-
1 -AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA--CCGAGAT
** *
16824414 AA-ACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
16824456 TGTTATTATC
Statistics
Matches: 204, Mismatches: 35, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
49 36 0.18
50 164 0.80
51 3 0.01
52 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:16828784 original size:27 final size:26
Alignment explanation
Indices: 16828748--16828862 Score: 106
Period size: 27 Copynumber: 4.3 Consensus size: 26
16828738 TTGGGCCATT
*
16828748 AAATTACCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCC-CGAAGGGTA
16828775 AAATGACCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCC-CGAAGGGTA
* * * *
16828802 AAATTATCAAAATACCCCAAAAGAGG-A
1 AAATGACCGAAATACCCC-GAAG-GGTA
* * *
16828829 AAATGACTGAAATACCCCTATGGGGTA
1 AAATGACCGAAATACCCCGA-AGGGTA
16828856 AAATGAC
1 AAATGAC
16828863 TGTTAAGGCA
Statistics
Matches: 73, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
26 4 0.05
27 67 0.92
28 2 0.03
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.17
Consensus pattern (26 bp):
AAATGACCGAAATACCCCGAAGGGTA
Found at i:16829127 original size:26 final size:26
Alignment explanation
Indices: 16829028--16829127 Score: 98
Period size: 26 Copynumber: 3.9 Consensus size: 26
16829018 TTGCCACAAA
* * *
16829028 TACTGTTA-TGGCAGCTTTGCTGTGA
1 TACTATTACTGGCAGCTTTGCTGCGT
* * **
16829053 TACTGA-TACTGGCAGCTGTACTATGT
1 TACT-ATTACTGGCAGCTTTGCTGCGT
*
16829079 TACT-TTACTGGTAGCTTTGCTGCGT
1 TACTATTACTGGCAGCTTTGCTGCGT
16829104 TACTATTACTGGCAGCTTTGCTGC
1 TACTATTACTGGCAGCTTTGCTGC
16829128 AATATTGGTG
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
25 25 0.42
26 35 0.58
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (26 bp):
TACTATTACTGGCAGCTTTGCTGCGT
Found at i:16829318 original size:30 final size:30
Alignment explanation
Indices: 16829260--16829318 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
16829250 GCTAAGGCCC
* * *
16829260 ACACTGTTACTGTATAGGGCTTATGCCCAT
1 ACACTGCTACTGTATAGGGCTCAGGCCCAT
16829290 ACACTGCTACTGTATAGGGCTCAGGCCCA
1 ACACTGCTACTGTATAGGGCTCAGGCCCA
16829319 GATTGATTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (30 bp):
ACACTGCTACTGTATAGGGCTCAGGCCCAT
Found at i:16843928 original size:27 final size:26
Alignment explanation
Indices: 16843905--16844267 Score: 320
Period size: 27 Copynumber: 13.5 Consensus size: 26
16843895 GAGACCCCGA
* *
16843905 ATAGGTAAAATGACCAAAATACCCCC
1 ATAGGTAAAATGACCGAAATACCCCT
* * *
16843931 ACAGGGTTAAATGACCGAAATAGCCCT
1 ATA-GGTAAAATGACCGAAATACCCCT
*
16843958 ATAGGGTAAAATGACCGAAATACCCCC
1 ATA-GGTAAAATGACCGAAATACCCCT
**
16843985 ATAGGATAAAATGATTGAAATA-CCCT
1 ATAGG-TAAAATGACCGAAATACCCCT
*
16844011 CATAGGGTAAAATGACCGAAGTACCCCT
1 -ATA-GGTAAAATGACCGAAATACCCCT
* *
16844039 ATCGGGTAAAATGACTGAAATA-CCCT
1 AT-AGGTAAAATGACCGAAATACCCCT
** *
16844065 ATAGTGTAAAATGAATGAAATACCCCC
1 ATAG-GTAAAATGACCGAAATACCCCT
* * *
16844092 ATAGGGTAAAATAACCAAAATACCTCT
1 ATA-GGTAAAATGACCGAAATACCCCT
16844119 ATAGGGTAAAATGACCGAAATACCCCT
1 ATA-GGTAAAATGACCGAAATACCCCT
* *
16844146 ATAAGGT-AAATGATCGAAATACCCCC
1 AT-AGGTAAAATGACCGAAATACCCCT
* *
16844172 ATAAGGTAAAATGACTGAAATA-CTCT
1 AT-AGGTAAAATGACCGAAATACCCCT
* ** *
16844198 CATAAGGTAAAATGACCAAAATTTCCTT
1 -AT-AGGTAAAATGACCGAAATACCCCT
* *
16844226 ATAGGGTAAAATGACCAAAATACCCCC
1 ATA-GGTAAAATGACCGAAATACCCCT
16844253 ATAGGGTAAAATGAC
1 ATA-GGTAAAATGAC
16844268 TGGTATATCT
Statistics
Matches: 278, Mismatches: 45, Indels: 27
0.79 0.13 0.08
Matches are distributed among these distances:
25 1 0.00
26 56 0.20
27 211 0.76
28 10 0.04
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.21
Consensus pattern (26 bp):
ATAGGTAAAATGACCGAAATACCCCT
Found at i:16843972 original size:54 final size:53
Alignment explanation
Indices: 16843908--16844267 Score: 416
Period size: 54 Copynumber: 6.7 Consensus size: 53
16843898 ACCCCGAATA
* * *
16843908 GGTAAAATGACCAAAATACCCCCACAGGGTTAAATGACCGAAATAGCCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATA-CCCTATAG
* **
16843962 GGTAAAATGACCGAAATACCCCCATAGGATAAAATGATTGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCT-ATAG
* * * *
16844016 GGTAAAATGACCGAAGTACCCCTATCGGGTAAAATGACTGAAATACCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCTATAG
* ** * *
16844069 TGTAAAATGAATGAAATACCCCCATAGGGTAAAATAACCAAAATACCTCTATAG
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACC-CTATAG
* * * * *
16844123 GGTAAAATGACCGAAATACCCCTATAAGGT-AAATGATCGAAATACCCCCATAA
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATA-CCCTATAG
* * * * * * *
16844176 GGTAAAATGACTGAAATACTCTCATAAGGTAAAATGACCAAAATTTCCTTATAG
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAA-TACCCTATAG
*
16844230 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGAC
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAC
16844268 TGGTATATCT
Statistics
Matches: 256, Mismatches: 45, Indels: 10
0.82 0.14 0.03
Matches are distributed among these distances:
53 87 0.34
54 168 0.66
55 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (53 bp):
GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCTATAG
Found at i:16844091 original size:107 final size:105
Alignment explanation
Indices: 16843908--16844269 Score: 415
Period size: 107 Copynumber: 3.4 Consensus size: 105
16843898 ACCCCGAATA
* * * *
16843908 GGTAAAATGACCAAAATACCCCCACAGGGTTAAATGACCGAAATAGCCCTATAGGGTAAAATGAC
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACTGAAATACCCCTATA-GGTAAAATGAC
* ***
16843973 CGAAATACCCCCATAGGATAAAATGATTGAAATACCCTCATAG
65 TGAAATACCCCCATAGG-TAAAATGACCAAAATA-CCTCATAG
* * * * *
16844016 GGTAAAATGACCGAAGTACCCCTATCGGGTAAAATGACTGAAATA-CCCTATAGTGTAAAATGAA
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACTGAAATACCCCTATAG-GTAAAATGAC
*
16844080 TGAAATACCCCCATAGGGTAAAATAACCAAAATACCTCTATAG
65 TGAAATACCCCCATA-GGTAAAATGACCAAAATACCTC-ATAG
* * * *
16844123 GGTAAAATGACCGAAATACCCCTATAAGGT-AAATGA-TCGAAATACCCCCATAAGGTAAAATGA
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACT-GAAATACCCCTAT-AGGTAAAATGA
* * * *
16844186 CTGAAATACTCTCATAAGGTAAAATGACCAAAATTTCCTTATAG
64 CTGAAATACCCCCAT-AGGTAAAATGACCAAAA-TACCTCATAG
16844230 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACTG
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACTG
16844270 GTATATCTCT
Statistics
Matches: 218, Mismatches: 26, Indels: 20
0.83 0.10 0.08
Matches are distributed among these distances:
105 1 0.00
106 17 0.08
107 145 0.67
108 54 0.25
109 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (105 bp):
GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACTGAAATACCCCTATAGGTAAAATGACT
GAAATACCCCCATAGGTAAAATGACCAAAATACCTCATAG
Found at i:16844294 original size:81 final size:80
Alignment explanation
Indices: 16843907--16844269 Score: 243
Period size: 80 Copynumber: 4.5 Consensus size: 80
16843897 GACCCCGAAT
* * * * * * *
16843907 AGGTAAAATGACCAAAATACCCCCACAGGGTTAAATGACCGAAATAGCCCT-ATAGGGTAAAATG
1 AGGT-AAATGACCAAAATACCCCCATAAGGTAAAATGACTGAAATA-CTCTCATAAGATAAAATG
* *
16843971 ACCGAAATACCCCCAT-
64 ACCAAAATACCCCTATA
*** * * * * * ** *
16843987 AGGATAAAATGATTGAAATACCCTCATAGGGTAAAATGACCGAAGTAC-CCCTATCGGGTAAAAT
1 AGG-T-AAATGACCAAAATACCCCCATAAGGTAAAATGACTGAAATACTCTC-ATAAGATAAAAT
**
16844051 GACTGAAATA-CCCTAT-
63 GACCAAAATACCCCTATA
*** * * ** * *
16844067 AGTGTAAAATGAATGAAATACCCCCATAGGGTAAAATAACCAAAATAC-CTCTATAGGGTAAAAT
1 AG-GT-AAATGACCAAAATACCCCCATAAGGTAAAATGACTGAAATACTCTC-ATAAGATAAAAT
*
16844131 GACCGAAATACCCCTATA
63 GACCAAAATACCCCTATA
* * *
16844149 AGGTAAATGATCGAAATACCCCCATAAGGTAAAATGACTGAAATACTCTCATAAGGTAAAATGAC
1 AGGTAAATGACCAAAATACCCCCATAAGGTAAAATGACTGAAATACTCTCATAAGATAAAATGAC
** *
16844214 CAAAATTTCCTTATA
66 CAAAATACCCCTATA
* *
16844229 GGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACTG
1 AGGT-AAATGACCAAAATACCCCCATAAGGTAAAATGACTG
16844270 GTATATCTCT
Statistics
Matches: 241, Mismatches: 34, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
79 1 0.00
80 137 0.57
81 101 0.42
82 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (80 bp):
AGGTAAATGACCAAAATACCCCCATAAGGTAAAATGACTGAAATACTCTCATAAGATAAAATGAC
CAAAATACCCCTATA
Found at i:16844396 original size:25 final size:25
Alignment explanation
Indices: 16844362--16844411 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
16844352 TGAGCATGAC
*
16844362 ATTTTGCATATACGTATGATATTAT
1 ATTTTGCATACACGTATGATATTAT
16844387 ATTTTGCATACACGTATGATATTAT
1 ATTTTGCATACACGTATGATATTAT
16844412 GTACTGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (25 bp):
ATTTTGCATACACGTATGATATTAT
Found at i:16847507 original size:51 final size:51
Alignment explanation
Indices: 16847426--16847528 Score: 170
Period size: 51 Copynumber: 2.0 Consensus size: 51
16847416 GAGGAGAAAG
* *
16847426 GCAATGAGACTTGGGTACTAATTTGCCTATAACGTTTCCTCCATCGAGCAT
1 GCAACGAGACTTGGGTACTAATTTGCCTATAACATTTCCTCCATCGAGCAT
* *
16847477 GCAACGAGACTTGGGTACTAATTTGCCTATAACATTTCGTCCATTGAGCAT
1 GCAACGAGACTTGGGTACTAATTTGCCTATAACATTTCCTCCATCGAGCAT
16847528 G
1 G
16847529 ATCCCTATAG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (51 bp):
GCAACGAGACTTGGGTACTAATTTGCCTATAACATTTCCTCCATCGAGCAT
Found at i:16866074 original size:18 final size:18
Alignment explanation
Indices: 16866051--16866090 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
16866041 GATGCCATGG
16866051 TATGCTGATTACGTGAAT
1 TATGCTGATTACGTGAAT
16866069 TATGCTGATTACGTGAAT
1 TATGCTGATTACGTGAAT
16866087 TATG
1 TATG
16866091 TTGCTAAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.40
Consensus pattern (18 bp):
TATGCTGATTACGTGAAT
Found at i:16876251 original size:37 final size:37
Alignment explanation
Indices: 16876196--16876299 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
16876186 ATCCAACCGA
* *
16876196 AACATGCCAAATGATCATAAGAGCTAATACAACAGAT
1 AACACGCCAAATGCTCATAAGAGCTAATACAACAGAT
* * *
16876233 AACACGCCAAATGCTCATAAGAGTTAATCCAACCGAT
1 AACACGCCAAATGCTCATAAGAGCTAATACAACAGAT
16876270 AACACGCCAAATGCTCATAAGAGCT-ATACA
1 AACACGCCAAATGCTCATAAGAGCTAATACA
16876300 TCCGCCCCTA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
36 4 0.07
37 56 0.93
ACGTcount: A:0.44, C:0.24, G:0.13, T:0.18
Consensus pattern (37 bp):
AACACGCCAAATGCTCATAAGAGCTAATACAACAGAT
Found at i:16882386 original size:17 final size:18
Alignment explanation
Indices: 16882364--16882397 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16882354 CTTAATGTTT
16882364 GTTCTA-GAACTCACTAA
1 GTTCTATGAACTCACTAA
*
16882381 GTTCTATGAACTTACTA
1 GTTCTATGAACTCACTA
16882398 CATTACCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (18 bp):
GTTCTATGAACTCACTAA
Found at i:16885378 original size:39 final size:38
Alignment explanation
Indices: 16885281--16885378 Score: 151
Period size: 39 Copynumber: 2.5 Consensus size: 38
16885271 TATCCTAAAC
* * *
16885281 TATGACATAATTAAAACCCTTATTAATGTTGTTCAAAT
1 TATGACATAATTAAAACTCATATTAATGATGTTCAAAT
16885319 TATGACATAATTAAAAACTCATATTAATGATGTTCAAAT
1 TATGACATAATT-AAAACTCATATTAATGATGTTCAAAT
16885358 TATGACATAATTAAACACTCA
1 TATGACATAATTAAA-ACTCA
16885379 AACTAAATTA
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
38 15 0.27
39 40 0.73
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (38 bp):
TATGACATAATTAAAACTCATATTAATGATGTTCAAAT
Found at i:16886525 original size:40 final size:40
Alignment explanation
Indices: 16886482--16886664 Score: 206
Period size: 40 Copynumber: 4.6 Consensus size: 40
16886472 TTAATTATAT
* * *
16886482 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCT
1 TGATTACACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * *
16886522 TGATTACACACATGTGCCCCTGTTTGTACTAT-GATACCCC
1 TGATTACACATACGTGCCCCTATTTGTACT-TCGGTACCCC
* * *
16886562 TGATTTCACATACGTGCCCCTATTTGTACTTTGGTTCCCC
1 TGATTACACATACGTGCCCCTATTTGTACTTCGGTACCCC
** * *
16886602 TGACAACACACACGTGCCCCTATTTGTACTTCAGTACCCC
1 TGATTACACATACGTGCCCCTATTTGTACTTCGGTACCCC
* *
16886642 TGATTATAGATACGTGCCCCTAT
1 TGATTACACATACGTGCCCCTAT
16886665 CTATACCTTG
Statistics
Matches: 118, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 116 0.98
41 1 0.01
ACGTcount: A:0.20, C:0.31, G:0.16, T:0.33
Consensus pattern (40 bp):
TGATTACACATACGTGCCCCTATTTGTACTTCGGTACCCC
Found at i:16886588 original size:80 final size:80
Alignment explanation
Indices: 16886482--16886664 Score: 235
Period size: 80 Copynumber: 2.3 Consensus size: 80
16886472 TTAATTATAT
* * * ** * *
16886482 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTGATTACACACATGTGCCCCTGTTT
1 TGATTTCACATACGTGCCCCTATTTGTACTTCGGTACCCCTGACAACACACACGTGCCCCTATTT
*
16886547 GTACTATGA-TACCCC
66 GTACT-TCAGTACCCC
* *
16886562 TGATTTCACATACGTGCCCCTATTTGTACTTTGGTTCCCCTGACAACACACACGTGCCCCTATTT
1 TGATTTCACATACGTGCCCCTATTTGTACTTCGGTACCCCTGACAACACACACGTGCCCCTATTT
16886627 GTACTTCAGTACCCC
66 GTACTTCAGTACCCC
*
16886642 TGATTAT-AGATACGTGCCCCTAT
1 TGATT-TCACATACGTGCCCCTAT
16886665 CTATACCTTG
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
79 2 0.02
80 87 0.97
81 1 0.01
ACGTcount: A:0.20, C:0.31, G:0.16, T:0.33
Consensus pattern (80 bp):
TGATTTCACATACGTGCCCCTATTTGTACTTCGGTACCCCTGACAACACACACGTGCCCCTATTT
GTACTTCAGTACCCC
Found at i:16889964 original size:16 final size:17
Alignment explanation
Indices: 16889941--16889984 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
16889931 ATAAAAAAAT
16889941 TAAA-TAAATT-GGAAA
1 TAAATTAAATTGGGAAA
*
16889956 TAAATTAAATTGGGAAG
1 TAAATTAAATTGGGAAA
16889973 TAAATTCAAATT
1 TAAATT-AAATT
16889985 TTTTAAACAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 4 0.16
16 6 0.24
17 10 0.40
18 5 0.20
ACGTcount: A:0.52, C:0.02, G:0.14, T:0.32
Consensus pattern (17 bp):
TAAATTAAATTGGGAAA
Found at i:16892424 original size:40 final size:40
Alignment explanation
Indices: 16892369--16892628 Score: 281
Period size: 40 Copynumber: 6.5 Consensus size: 40
16892359 TGATTGCACG
* ** * *
16892369 TACGTGCCCCTGTTTGTACTTTGGTACCCCCGATTTCATA
1 TACGTGCCCCTGTTTGTACTTCGGTACCCCTAATTACACA
* *
16892409 TACGTGCCCCTGTTTGTACTT-GGTACCCCTTATTGCACA
1 TACGTGCCCCTGTTTGTACTTCGGTACCCCTAATTACACA
* * * *
16892448 TATGTGCCCATGTTTGTACTTCAGTACTCCTAATTACACA
1 TACGTGCCCCTGTTTGTACTTCGGTACCCCTAATTACACA
* * * *
16892488 CAAGTGCCCCTGTTTGTACGTCGGTACCCCTAATTGCACA
1 TACGTGCCCCTGTTTGTACTTCGGTACCCCTAATTACACA
* * *
16892528 TACGTGCCCCTATTTGTACTTCGGTATCTCTAATTACACA
1 TACGTGCCCCTGTTTGTACTTCGGTACCCCTAATTACACA
* * * *
16892568 CACGTGCCTCTATTTGCACTTCGGTACCCC-ATATTACACA
1 TACGTGCCCCTGTTTGTACTTCGGTACCCCTA-ATTACACA
* *
16892608 TACGTGCCCCTATTTATACTT
1 TACGTGCCCCTGTTTGTACTT
16892629 TGATAATTTT
Statistics
Matches: 185, Mismatches: 33, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
39 34 0.18
40 151 0.82
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.35
Consensus pattern (40 bp):
TACGTGCCCCTGTTTGTACTTCGGTACCCCTAATTACACA
Found at i:16897353 original size:56 final size:54
Alignment explanation
Indices: 16897227--16897389 Score: 188
Period size: 54 Copynumber: 3.0 Consensus size: 54
16897217 GGCCATGGCA
*
16897227 AGAAGACCATATAGTGTAAGACCTAGTCTGGTACTATAGTATCATATGGGGAAG
1 AGAAGACCATATAGTGTAAGACCTAGTCTGGTACTATAGCATCATATGGGGAAG
* * * *
16897281 TGAAGACCATATAGTGTAAGACCTAGTCATGGTGGCTATGGCATCATATGAGGATA-
1 AGAAGACCATATAGTGTAAGACCTAGTC-TGGT-ACTATAGCATCATATGGGGA-AG
* * *
16897337 AG-AGAACCATATAGTGTAAGACCTAGTCTAGG-ACTATGGCGTCATGTGGGGAA
1 AGAAG-ACCATATAGTGTAAGACCTAGTCT-GGTACTATAGCATCATATGGGGAA
16897390 AAGATAAAGG
Statistics
Matches: 94, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
53 1 0.01
54 43 0.46
55 7 0.07
56 42 0.45
57 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.25
Consensus pattern (54 bp):
AGAAGACCATATAGTGTAAGACCTAGTCTGGTACTATAGCATCATATGGGGAAG
Found at i:16899928 original size:16 final size:17
Alignment explanation
Indices: 16899904--16899939 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
16899894 TGATTAATGT
16899904 TTAATTTTTTATTAATA
1 TTAATTTTTTATTAATA
16899921 TTAA-TTTTTATTAATA
1 TTAATTTTTTATTAATA
16899937 TTA
1 TTA
16899940 TTATCTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTAATTTTTTATTAATA
Found at i:16900347 original size:19 final size:18
Alignment explanation
Indices: 16900325--16900360 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
16900315 TTACTAAAAC
16900325 TATTAATACATATATATAA
1 TATTAATACAT-TATATAA
*
16900344 TATTAATATATTATATA
1 TATTAATACATTATATA
16900361 GCATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAATACATTATATAA
Found at i:16900445 original size:10 final size:10
Alignment explanation
Indices: 16900430--16900456 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
16900420 TTAATCAGTA
16900430 TAATAATAAT
1 TAATAATAAT
16900440 TAATAATAAT
1 TAATAATAAT
16900450 TAATAAT
1 TAATAAT
16900457 TAATATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TAATAATAAT
Found at i:16905375 original size:20 final size:18
Alignment explanation
Indices: 16905350--16905387 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 18
16905340 TTTTAAATTT
16905350 CTTTATATATTCTTTAAAAA
1 CTTTATAT-TT-TTTAAAAA
16905370 CTTTATATTTTTTAAAAA
1 CTTTATATTTTTTAAAAA
16905388 TATATAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 2 0.11
20 8 0.44
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (18 bp):
CTTTATATTTTTTAAAAA
Found at i:16906377 original size:59 final size:59
Alignment explanation
Indices: 16906314--16906483 Score: 322
Period size: 59 Copynumber: 2.9 Consensus size: 59
16906304 TCAAGTTTGT
*
16906314 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
16906373 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
*
16906432 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
16906484 AATAATTTGA
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 109 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:16906547 original size:30 final size:30
Alignment explanation
Indices: 16906513--16906572 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
16906503 TAACAATTTT
*
16906513 AATAACAATTAGTTTTAATTTT-ATTAAAAA
1 AATAA-AATTAATTTTAATTTTAATTAAAAA
**
16906543 AATAATTTTAATTTTAATTTTAATTAAAAA
1 AATAAAATTAATTTTAATTTTAATTAAAAA
16906573 CGGGCCGGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (30 bp):
AATAAAATTAATTTTAATTTTAATTAAAAA
Found at i:16917492 original size:25 final size:24
Alignment explanation
Indices: 16917458--16917528 Score: 61
Period size: 25 Copynumber: 2.8 Consensus size: 24
16917448 CATAACTTCA
* *
16917458 CCACTAAGGCTGTCCGAATAATACG
1 CCACAAAGGCTGTCAG-ATAATACG
* * *
16917483 CCACATAGGCCTTTCAGATAATTCG
1 CCACAAAGG-CTGTCAGATAATACG
*
16917508 CCACAAAGGCTTTACAGATAA
1 CCACAAAGGCTGT-CAGATAA
16917529 CTTTGCCACT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
24 4 0.11
25 29 0.76
26 5 0.13
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (24 bp):
CCACAAAGGCTGTCAGATAATACG
Found at i:16917542 original size:26 final size:24
Alignment explanation
Indices: 16917475--16917827 Score: 123
Period size: 25 Copynumber: 14.0 Consensus size: 24
16917465 GGCTGTCCGA
* *
16917475 ATAATACGCCACATAGGCCTTTCAG
1 ATAATTCGCCACAAAGG-CTTTCAG
16917500 ATAATTCGCCACAAAGGCTTTACAG
1 ATAATTCGCCACAAAGGCTTT-CAG
* * *
16917525 ATAACTTTGCCACTAAGGCTTTCTG
1 ATAA-TTCGCCACAAAGGCTTTCAG
* * * *
16917550 AATAATACACCACATATGCCTTTCAG
1 -ATAATTCGCCACA-AAGGCTTTCAG
** *
16917576 ATAATTTTCCACAAAGGCTTTATAG
1 ATAATTCGCCACAAAGGCTTT-CAG
* ** * *
16917601 GTAACTTTACTACTAAA-GCTTTCTG
1 ATAA-TTCGCCAC-AAAGGCTTTCAG
* * * * * *
16917626 AATAATACACTACAAAGACCATTCAA
1 -ATAATTCGCCACAAAG-GCTTTCAG
*
16917652 ATAATTCACCACAAAGGCTTTACAG
1 ATAATTCGCCACAAAGGCTTT-CAG
* * * * * *
16917677 ATTACTCACTACAAAGGCTTCCCAA
1 ATAATTCGCCACAAAGGCTT-TCAG
* * *
16917702 ATAATACGCCACAAAGACCATTCAG
1 ATAATTCGCCACAAAG-GCTTTCAG
* * ** *
16917727 ATAATTTGCCATAAAGATTTTACAA
1 ATAATTCGCCACAAAGGCTTT-CAG
* * * *
16917752 ATTACTCACCACAAAGGCTTTCCG
1 ATAATTCGCCACAAAGGCTTTCAG
* * *
16917776 AATAATACGCCATAAAGGCCTTTAAG
1 -ATAATTCGCCACAAAGG-CTTTCAG
* *
16917802 ATAATTCGTCAAAAAGGCTTTACAG
1 ATAATTCGCCACAAAGGCTTT-CAG
16917827 A
1 A
16917828 CTACTCGTCT
Statistics
Matches: 235, Mismatches: 76, Indels: 34
0.68 0.22 0.10
Matches are distributed among these distances:
24 23 0.10
25 157 0.67
26 52 0.22
27 3 0.01
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (24 bp):
ATAATTCGCCACAAAGGCTTTCAG
Found at i:16917553 original size:76 final size:76
Alignment explanation
Indices: 16917449--16917827 Score: 384
Period size: 76 Copynumber: 5.0 Consensus size: 76
16917439 GGATTCCCAC
* *
16917449 ATAACTTCACCACTAAGGCTGTCCGAATAATACGCCACATAGGCCTTTCAGATAATTCGCCACAA
1 ATAACTTCACCACTAAGGCTTTCCGAATAATACGCCACAAAGGCCTTTCAGATAATTCGCCACAA
16917514 AGGCTTTACAG
66 AGGCTTTACAG
** * * * * **
16917525 ATAACTTTGCCACTAAGGCTTTCTGAATAATACACCACATATGCCTTTCAGATAATTTTCCACAA
1 ATAACTTCACCACTAAGGCTTTCCGAATAATACGCCACAAAGGCCTTTCAGATAATTCGCCACAA
*
16917590 AGGCTTTATAG
66 AGGCTTTACAG
* * * * * * * * * * *
16917601 GTAACTTTACTACTAAAGCTTTCTGAATAATACACTACAAAGACCATTCAAATAATTCACCACAA
1 ATAACTTCACCACTAAGGCTTTCCGAATAATACGCCACAAAGGCCTTTCAGATAATTCGCCACAA
16917666 AGGCTTTACAG
66 AGGCTTTACAG
* * * * * * * * *
16917677 ATTAC-TCACTACAAAGGCTTCCCAAATAATACGCCACAAAGACCATTCAGATAATTTGCCATAA
1 ATAACTTCACCACTAAGGCTTTCCGAATAATACGCCACAAAGGCCTTTCAGATAATTCGCCACAA
** *
16917741 AGATTTTACAA
66 AGGCTTTACAG
* * * * * *
16917752 ATTAC-TCACCACAAAGGCTTTCCGAATAATACGCCATAAAGGCCTTTAAGATAATTCGTCAAAA
1 ATAACTTCACCACTAAGGCTTTCCGAATAATACGCCACAAAGGCCTTTCAGATAATTCGCCACAA
16917816 AGGCTTTACAG
66 AGGCTTTACAG
16917827 A
1 A
16917828 CTACTCGTCT
Statistics
Matches: 251, Mismatches: 52, Indels: 1
0.83 0.17 0.00
Matches are distributed among these distances:
75 118 0.47
76 133 0.53
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (76 bp):
ATAACTTCACCACTAAGGCTTTCCGAATAATACGCCACAAAGGCCTTTCAGATAATTCGCCACAA
AGGCTTTACAG
Done.