Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 73 of 438
Found at i:19282352 original size:17 final size:17
Alignment explanation
Indices: 19282309--19282356 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
19282299 AATATGCTCG
19282309 AAAA-AAAAAAGAAAAA
1 AAAAGAAAAAAGAAAAA
* *
19282325 AAAAGAGAAAAGAGAAA
1 AAAAGAAAAAAGAAAAA
**
19282342 AAGGGAAAAAAGAAA
1 AAAAGAAAAAAGAAA
19282357 GAGCAAATGT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAAGAAAAA
Found at i:19288225 original size:2 final size:2
Alignment explanation
Indices: 19288218--19288251 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
19288208 AGACATTGAC
19288218 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19288252 GAATGTACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19289357 original size:42 final size:42
Alignment explanation
Indices: 19289247--19289357 Score: 116
Period size: 43 Copynumber: 2.6 Consensus size: 42
19289237 TATACTAATT
*** * *
19289247 CCATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATG
1 CCATATCCCAGATATGGTCTTACACAAAATCTCATATCGATA
* * *
19289289 CTAATAGCCCA-ACTATGGTATTACACAAAATCTCATATCGATA
1 C-CATATCCCAGA-TATGGTCTTACACAAAATCTCATATCGATA
*
19289332 CCATATCCTAGATATGGTCTTACACA
1 CCATATCCCAGATATGGTCTTACACA
19289358 TAACCTCAGT
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
42 21 0.39
43 33 0.61
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACACAAAATCTCATATCGATA
Found at i:19293487 original size:22 final size:22
Alignment explanation
Indices: 19293461--19293505 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
19293451 AGAAAATTTA
*
19293461 AACAATGTAAGCTATAAAGCTT
1 AACAAAGTAAGCTATAAAGCTT
19293483 AACAAAGTAAGCTATAAAGCTT
1 AACAAAGTAAGCTATAAAGCTT
19293505 A
1 A
19293506 GTAAGTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.24
Consensus pattern (22 bp):
AACAAAGTAAGCTATAAAGCTT
Found at i:19302175 original size:2 final size:2
Alignment explanation
Indices: 19302168--19302200 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
19302158 CCATTTGCAC
19302168 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19302201 CTTGACCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19310474 original size:27 final size:27
Alignment explanation
Indices: 19310454--19310902 Score: 539
Period size: 27 Copynumber: 16.6 Consensus size: 27
19310444 AGGGTATTTT
*
19310454 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
19310481 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
19310508 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
19310535 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
19310562 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
19310589 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
19310616 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
19310643 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
19310670 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
19310697 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * ** *
19310724 GGTAATTTTACAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
19310751 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
19310778 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
19310805 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
19310832 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
19310859 AGTAATTCTATAAA-CTTAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
19310886 GGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
19310903 GGAGTACTTT
Statistics
Matches: 368, Mismatches: 44, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
26 4 0.01
27 359 0.98
28 5 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:19314927 original size:27 final size:27
Alignment explanation
Indices: 19314897--19315342 Score: 553
Period size: 27 Copynumber: 16.6 Consensus size: 27
19314887 AGGGTATTTT
*
19314897 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
19314924 AGTAATTCTGTAAATCAAAGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
19314951 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
19314978 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
19315005 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
19315032 -GATAATTATGTAAATCG-GGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
19315058 AGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
19315085 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
19315112 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
19315139 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
19315166 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
19315193 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
19315220 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
19315247 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
19315274 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
19315301 AGTAATTCTATAAA-CTTAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
19315328 AGTAATTCTGTAAAT
1 AGTAATTCTGTAAAT
19315343 TGGGAGTACT
Statistics
Matches: 367, Mismatches: 41, Indels: 21
0.86 0.10 0.05
Matches are distributed among these distances:
26 25 0.07
27 339 0.92
28 3 0.01
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:19316658 original size:45 final size:45
Alignment explanation
Indices: 19316599--19316695 Score: 160
Period size: 45 Copynumber: 2.2 Consensus size: 45
19316589 TTATTCAACC
**
19316599 TAGGG-TTAGACGTTATTAGTCTTGAGAGAGATAATAATATAACT
1 TAGGGATTAGACGTTATTAGTCTCAAGAGAGATAATAATATAACT
*
19316643 TAGGGATTAGGCGTTATTAGTCTCAAGAGAGATAATAATATAACT
1 TAGGGATTAGACGTTATTAGTCTCAAGAGAGATAATAATATAACT
19316688 TAGGGATT
1 TAGGGATT
19316696 TCTACGGATC
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
44 5 0.10
45 44 0.90
ACGTcount: A:0.36, C:0.07, G:0.24, T:0.33
Consensus pattern (45 bp):
TAGGGATTAGACGTTATTAGTCTCAAGAGAGATAATAATATAACT
Found at i:19325081 original size:68 final size:70
Alignment explanation
Indices: 19325009--19325206 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
19324999 ACACCCTGTA
* * * *
19325009 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
19325071 ATAAAT
65 ATAAAT
*
19325077 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
19325142 ATAAAT
65 ATAAAT
*
19325148 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
19325207 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:19325120 original size:41 final size:41
Alignment explanation
Indices: 19325075--19325192 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
19325065 TGAAAGATAA
19325075 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
19325116 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
19325146 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
19325187 ATGTAG
1 ATGTAG
19325193 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:19325132 original size:71 final size:71
Alignment explanation
Indices: 19325043--19325206 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
19325033 GAGATGTATC
19325043 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
19325108 AGGACA
66 AGGACA
19325114 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
19325179 AGGACA
66 AGGACA
19325185 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
19325207 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:19328844 original size:49 final size:49
Alignment explanation
Indices: 19328717--19328926 Score: 347
Period size: 49 Copynumber: 4.4 Consensus size: 49
19328707 CCCTTCGGGA
* *
19328717 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19328764 CCTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19328811 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19328860 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19328909 CTTATCACATATATATAC
1 CTTATCACATATATATAC
19328927 CTCATACAAA
Statistics
Matches: 151, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
46 1 0.01
47 47 0.31
49 103 0.68
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19328921 original size:96 final size:94
Alignment explanation
Indices: 19328717--19328923 Score: 342
Period size: 96 Copynumber: 2.2 Consensus size: 94
19328707 CCCTTCGGGA
* * *
19328717 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
19328782 CTTCACATTCATCACATCGGCCATTAGGC
66 CTTCACATTCATCACATCGGCCATTAGGC
*
19328811 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
19328876 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 AC-C-TTCACATTCATCACATCGGCCATTAGGC
19328909 CTTATCACATATATA
1 CTTATCACATATATA
19328924 TACCTCATAC
Statistics
Matches: 105, Mismatches: 4, Indels: 6
0.91 0.03 0.05
Matches are distributed among these distances:
94 8 0.08
96 60 0.57
97 1 0.01
98 36 0.34
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTAGGC
Found at i:19338106 original size:68 final size:68
Alignment explanation
Indices: 19338034--19338209 Score: 184
Period size: 68 Copynumber: 2.6 Consensus size: 68
19338024 CATCATGTGT
** * * *
19338034 ACAAGAGAGCTACGAGACACTATGTAGTAGCTAGGTCACATGTGTGA-T-ACGGGATGTATC-CC
1 ACAAGAGAGCTACGAGACA-TAAAT-GTAGCTAGGTCACATGTGTGATTCAAGGGAAGGA-CACC
19338096 ATGTAG
63 ATGTAG
* *
19338102 ACAAGAGAGCTACGGGAGAGATAAATGTAGCTAGGTCACATGTGTGATTCCAAGTGAAGGACACC
1 ACAAGAGAGCTAC--GAGACATAAATGTAGCTAGGTCACATGTGTGATT-CAAGGGAAGGACACC
19338167 ATGTAG
63 ATGTAG
*
19338173 ACAAGAGAGCTACGAG--ATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGAGACATAAATGTAGCTAGGTCACATG
19338210 GGTGGTACTA
Statistics
Matches: 94, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
66 14 0.15
67 6 0.06
68 34 0.36
69 7 0.07
70 6 0.06
71 27 0.29
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.21
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGACATAAATGTAGCTAGGTCACATGTGTGATTCAAGGGAAGGACACCATG
TAG
Found at i:19353819 original size:189 final size:189
Alignment explanation
Indices: 19353474--19353843 Score: 537
Period size: 189 Copynumber: 2.0 Consensus size: 189
19353464 GTGAAACCAT
* * * * * * * *
19353474 AAATCCTATACCTCTGAAGTTGTAGTAGGTCGAATTAAGTCATCATGGTGAATCTTATCTCCCTG
1 AAATCCTATACCTCTAAACTTGCAGTAGGTCAAATTAAGCCAGCATGGCGAATCTCATCTCCCTG
* * *
19353539 AAGTTGCAGTGGGGCAGATTAAAGCCACAAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGAATG
66 AAGTTGCAGTAGAGCAGATTAAAGCCACAAGTCTTATCTCACTAAAGTTGCAGTGGAGCAGAATG
* *
19353604 AAGATAGCAAATCTCATTTCCCTAAAGTTACGGCAGAACAGATTAAAGCTATAAGTCAC
131 AAGAAAGCAAATCTCATTTCCCTAAAGTTACAGCAGAACAGATTAAAGCTATAAGTCAC
19353663 AAATCCTATACCTCTAAACTTGCAGTAGGTCAAATTAAGCCAGCATGGCGAATCTCATCTCCCTG
1 AAATCCTATACCTCTAAACTTGCAGTAGGTCAAATTAAGCCAGCATGGCGAATCTCATCTCCCTG
* *
19353728 AAGTTGCAGTAGAGCAGATTAAATCCACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCA-AACT
66 AAGTTGCAGTAGAGCAGATTAAAGCCACAAGTCTTATCTCACTAAAGTTGCAGTGGAGCAGAA-T
* * * *
19353792 GAAGAAAGTAAATCTTATCTT-CCTAAAGTTGCAGTAGAACAGATTAAAGCTA
130 GAAGAAAGCAAATCTCAT-TTCCCTAAAGTTACAGCAGAACAGATTAAAGCTA
19353844 CAAACCACTA
Statistics
Matches: 160, Mismatches: 19, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
188 2 0.01
189 156 0.98
190 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (189 bp):
AAATCCTATACCTCTAAACTTGCAGTAGGTCAAATTAAGCCAGCATGGCGAATCTCATCTCCCTG
AAGTTGCAGTAGAGCAGATTAAAGCCACAAGTCTTATCTCACTAAAGTTGCAGTGGAGCAGAATG
AAGAAAGCAAATCTCATTTCCCTAAAGTTACAGCAGAACAGATTAAAGCTATAAGTCAC
Found at i:19362777 original size:19 final size:19
Alignment explanation
Indices: 19362753--19362792 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
19362743 GGGTTTAGGG
*
19362753 TTTAAGAGATTTTGAGAGA
1 TTTAAGAGAGTTTGAGAGA
*
19362772 TTTAAGAGAGTTTGAGGGA
1 TTTAAGAGAGTTTGAGAGA
19362791 TT
1 TT
19362793 AGAGGTTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.38
Consensus pattern (19 bp):
TTTAAGAGAGTTTGAGAGA
Found at i:19369193 original size:20 final size:20
Alignment explanation
Indices: 19369161--19369198 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19369151 GTGGAATTTA
*
19369161 TATGAAAAGATAAGATTAAT
1 TATGAAAAGATAAAATTAAT
19369181 TATGAAGAA-ATAAAATTA
1 TATGAA-AAGATAAAATTA
19369199 GTCTCAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (20 bp):
TATGAAAAGATAAAATTAAT
Found at i:19369753 original size:41 final size:40
Alignment explanation
Indices: 19369666--19369763 Score: 108
Period size: 41 Copynumber: 2.4 Consensus size: 40
19369656 GACTTCGAGT
* * **
19369666 CGATGAAACACTGAGTGTCAATTTATTACTTCGGTTTAAC
1 CGATGAGACACTGAGTGTCAATTTACTACTTCGAATTAAC
* *
19369706 CAATGAGACACTG-GTGTCAATTTTTACTACTTCGAATTATC
1 CGATGAGACACTGAGTGTCAA--TTTACTACTTCGAATTAAC
*
19369747 CGATGAGGCACTGAGTG
1 CGATGAGACACTGAGTG
19369764 CCAAACTGGT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
39 7 0.15
40 11 0.23
41 26 0.55
42 3 0.06
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (40 bp):
CGATGAGACACTGAGTGTCAATTTACTACTTCGAATTAAC
Found at i:19370521 original size:21 final size:20
Alignment explanation
Indices: 19370479--19370521 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
19370469 ATTTAAAATG
* * *
19370479 ATGATTTGAATGATGTTTTA
1 ATGATATGAATGATGATATA
19370499 ATGATATGAAATGATGATATA
1 ATGATATG-AATGATGATATA
19370520 AT
1 AT
19370522 TGTGGTACCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.42
Consensus pattern (20 bp):
ATGATATGAATGATGATATA
Found at i:19372399 original size:28 final size:28
Alignment explanation
Indices: 19372334--19372434 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
19372324 ATAGTGAATC
*
19372334 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
19372363 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
19372391 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
19372421 CGCACACTTAGTGC
1 CGCACACTTAGTGC
19372435 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:19375925 original size:17 final size:17
Alignment explanation
Indices: 19375903--19375937 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
19375893 GGTGAAAACA
19375903 TGTCTACAATTAAATCT
1 TGTCTACAATTAAATCT
19375920 TGTCTACAATTAAATCT
1 TGTCTACAATTAAATCT
19375937 T
1 T
19375938 CTTTCCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (17 bp):
TGTCTACAATTAAATCT
Found at i:19379635 original size:27 final size:28
Alignment explanation
Indices: 19379589--19379657 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 28
19379579 ATTAATTAAT
* *
19379589 TTTTTAA-AAA-TTAAAAAACT-ATATA
1 TTTTTAATAAATTTTAATAACTCATATA
*
19379614 CTTTTTAAT-AATTTTAATAACTCTTATA
1 -TTTTTAATAAATTTTAATAACTCATATA
19379642 TTTTTAATAAATTTTA
1 TTTTTAATAAATTTTA
19379658 TAATATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 9 0.25
27 16 0.44
28 11 0.31
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (28 bp):
TTTTTAATAAATTTTAATAACTCATATA
Found at i:19379658 original size:18 final size:18
Alignment explanation
Indices: 19379625--19379659 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19379615 TTTTTAATAA
*
19379625 TTTTAATAACTCTTATAT
1 TTTTAATAAATCTTATAT
*
19379643 TTTTAATAAATTTTATA
1 TTTTAATAAATCTTATA
19379660 ATATTTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTAATAAATCTTATAT
Found at i:19393450 original size:42 final size:42
Alignment explanation
Indices: 19393384--19393483 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
19393374 ACGGGCAGAG
* * *
19393384 ACACAGGCGTGTGTCTCATCCGTGTGTTCTATATAG-CCTAGA
1 ACACGGGCGTGTGTCTCATCCGTGTGTGCTACA-AGACCTAGA
*
19393426 ACACGGGCGTGTGTCTCAGT-CGTGTGTGCTACACGACCTAGA
1 ACACGGGCGTGTGTCTCA-TCCGTGTGTGCTACAAGACCTAGA
* *
19393468 ACATGGGTGTGTGTCT
1 ACACGGGCGTGTGTCT
19393484 TGGCCTTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.02
42 48 0.96
43 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (42 bp):
ACACGGGCGTGTGTCTCATCCGTGTGTGCTACAAGACCTAGA
Found at i:19395513 original size:16 final size:16
Alignment explanation
Indices: 19395492--19395525 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
19395482 GACATGAATT
*
19395492 TGCAATGTTGGCTCTG
1 TGCAATGTTGGCACTG
19395508 TGCAATGTTGGCACTG
1 TGCAATGTTGGCACTG
19395524 TG
1 TG
19395526 TTTTTCTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.15, C:0.18, G:0.32, T:0.35
Consensus pattern (16 bp):
TGCAATGTTGGCACTG
Found at i:19397758 original size:12 final size:12
Alignment explanation
Indices: 19397741--19397770 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
19397731 ACCACACAGG
19397741 CGTGTGGTAGCC
1 CGTGTGGTAGCC
*
19397753 CGTGTGGTAGGC
1 CGTGTGGTAGCC
19397765 CGTGTG
1 CGTGTG
19397771 ATGGGATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.20, G:0.47, T:0.27
Consensus pattern (12 bp):
CGTGTGGTAGCC
Found at i:19399190 original size:14 final size:14
Alignment explanation
Indices: 19399168--19399197 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19399158 AAATTATTAT
*
19399168 TTAATTAATTGAAA
1 TTAAATAATTGAAA
19399182 TTAAATAATTGAAA
1 TTAAATAATTGAAA
19399196 TT
1 TT
19399198 CGAGCTGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (14 bp):
TTAAATAATTGAAA
Found at i:19411279 original size:27 final size:27
Alignment explanation
Indices: 19411201--19411556 Score: 303
Period size: 27 Copynumber: 13.2 Consensus size: 27
19411191 GGGCAAATCA
** * *
19411201 GTCATTTTACCTTACACGGG-TATTACA
1 GTCATTTTACCTTA-TGGGGATATTTCG
* ** *
19411228 GTCATTTTACCCTACAGGGATATTTTG
1 GTCATTTTACCTTATGGGGATATTTCG
* *
19411255 GTCATTTTACCTTACGGGGATATTTTG
1 GTCATTTTACCTTATGGGGATATTTCG
* *
19411282 GTCATTTTAACC-TGTGGGGGTATTTCG
1 GTCATTTT-ACCTTATGGGGATATTTCG
*
19411309 GTCATTTTATCC-TATGGGGCTATTTCG
1 GTCATTTTA-CCTTATGGGGATATTTCG
*
19411336 GTCATTTTACCCTATGGGGAT-TGTTCG
1 GTCATTTTACCTTATGGGGATAT-TTCG
* * * *
19411363 ATCATTTTACCCTCTAGGGATATTTCG
1 GTCATTTTACCTTATGGGGATATTTCG
* * * *
19411390 ATCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCTTATGGGGATATTTCG
* **
19411417 GTCATTTTACCATATAGGGG-TATTTTA
1 GTCATTTTACCTTAT-GGGGATATTTCG
* * *
19411444 GTCATTTTACCCTATGAGGATATTTCA
1 GTCATTTTACCTTATGGGGATATTTCG
*
19411471 ATCATTTTACCTTATGGAGG-TATTTCG
1 GTCATTTTACCTTATGG-GGATATTTCG
* * *
19411498 ATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCTTATGGGGATATTTCG
*
19411525 GTCATTTTACCCTATGAGGG-TATTTCG
1 GTCATTTTACCTTATG-GGGATATTTCG
19411552 GTCAT
1 GTCAT
19411557 CATCTCGGCC
Statistics
Matches: 284, Mismatches: 34, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
26 12 0.04
27 259 0.91
28 13 0.05
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCTTATGGGGATATTTCG
Found at i:19411339 original size:81 final size:80
Alignment explanation
Indices: 19411201--19411556 Score: 369
Period size: 81 Copynumber: 4.4 Consensus size: 80
19411191 GGGCAAATCA
* * * * * * *
19411201 GTCATTTTACCTTA-CACGGGTATTACAGTCATTTTACCCTACAGGGATATTTTGGTCATTTTAC
1 GTCATTTTACCCTATGA-GGGTATTTCGGTCATTTTACCCTA-TGGGGTATTTCGGTCATTTTAC
* * *
19411265 CTTACGGGGATATTTTG
64 CCTATGGGGATATTTCG
* * * *
19411282 GTCATTTTAACCTGTGGGGGTATTTCGGTCATTTTATCCTATGGGGCTATTTCGGTCATTTTACC
1 GTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGG-TATTTCGGTCATTTTACC
19411347 CTATGGGGAT-TGTTCG
65 CTATGGGGATAT-TTCG
* * * *
19411363 ATCATTTTACCCTCT-AGGGATATTTCGATCATTTTACCCTATGGGGGTATTTCAGTCATTTTAC
1 GTCATTTTACCCTATGAGGG-TATTTCGGTCATTTTACCCTAT-GGGGTATTTCGGTCATTTTAC
* **
19411427 CATATAGGGG-TATTTTA
64 CCTAT-GGGGATATTTCG
* ** * *
19411444 GTCATTTTACCCTATGAGGATATTTCAATCATTTTACCTTATGGAGGTATTTCGATCATTTTACC
1 GTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGG-GGTATTTCGGTCATTTTACC
*
19411509 CTATGGGGGTATTTCG
65 CTATGGGGATATTTCG
19411525 GTCATTTTACCCTATGAGGGTATTTCGGTCAT
1 GTCATTTTACCCTATGAGGGTATTTCGGTCAT
19411557 CATCTCGGCC
Statistics
Matches: 228, Mismatches: 37, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
80 13 0.06
81 203 0.89
82 12 0.05
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.42
Consensus pattern (80 bp):
GTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCC
TATGGGGATATTTCG
Found at i:19411547 original size:54 final size:54
Alignment explanation
Indices: 19411229--19411556 Score: 342
Period size: 54 Copynumber: 6.1 Consensus size: 54
19411219 GGTATTACAG
** * * * * *
19411229 TCATTTTACCCTACAGGGATATTTTGGTCATTTTACCTTACGGGGATATTTTGG
1 TCATTTTACCCTATGGGGATATTTCGGTCATTTTACCCTATGGGGATATTTCGA
* * * * * *
19411283 TCATTTTAACCTGTGGGGGTATTTCGGTCATTTTATCCTATGGGGCTATTTCGG
1 TCATTTTACCCTATGGGGATATTTCGGTCATTTTACCCTATGGGGATATTTCGA
* * *
19411337 TCATTTTACCCTATGGGGAT-TGTTCGATCATTTTACCCTCTAGGGATATTTCGA
1 TCATTTTACCCTATGGGGATAT-TTCGGTCATTTTACCCTATGGGGATATTTCGA
* * * *
19411391 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCATATAGGGG-TATTT-TA
1 TCATTTTACCCTATGGGGATATTTCGGTCATTTTACCCTAT-GGGGATATTTCGA
* ** *
19411444 GTCATTTTACCCTATGAGGATATTTCAATCATTTTACCTTATGGAGG-TATTTCGA
1 -TCATTTTACCCTATGGGGATATTTCGGTCATTTTACCCTATGG-GGATATTTCGA
* *
19411499 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGG-TATTTCGG
1 TCATTTTACCCTATGGGGATATTTCGGTCATTTTACCCTATG-GGGATATTTCGA
19411553 TCAT
1 TCAT
19411557 CATCTCGGCC
Statistics
Matches: 229, Mismatches: 38, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
53 4 0.02
54 219 0.96
55 6 0.03
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.42
Consensus pattern (54 bp):
TCATTTTACCCTATGGGGATATTTCGGTCATTTTACCCTATGGGGATATTTCGA
Found at i:19420968 original size:47 final size:45
Alignment explanation
Indices: 19420898--19421196 Score: 183
Period size: 47 Copynumber: 6.6 Consensus size: 45
19420888 TGTAATGCTA
* *
19420898 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATTAAGTCG
1 ATGCCATGTCCCAGACATTGTCTTACACTAGCTCAT-CATT-AGCCG
*
19420945 ATGCCATGTCCCAGACATTGTCTTACATTAG--C-TC-TTA-CCG
1 ATGCCATGTCCCAGACATTGTCTTACACTAGCTCATCATTAGCCG
* * * * * **
19420985 ATCCCATGTCCTAGACATGGTCTTACACTGGCACATCCCGTAGCCG
1 ATGCCATGTCCCAGACATTGTCTTACACTAGCTCAT-CATTAGCCG
* * **
19421031 ATG-CATGTCCTAGACA-TGTCTTA-ACTGGCTTACATCAAGAGGCCG
1 ATGCCATGTCCCAGACATTGTCTTACACTAGC-T-CATCATTA-GCCG
* *
19421076 ATG-CATGTCCCAGACA-TGTCTTACACTAGCTC-TCGTCTCAATACCG
1 ATGCCATGTCCCAGACATTGTCTTACACTAGCTCATCAT-T--A-GCCG
* * * * * *
19421122 ATGCCATATCCTAGACATGGTCTTACACTGGTTCTCATAATATGGCCG
1 ATGCCATGTCCCAGACATTGTCTTACACTAG--CTCATCAT-TAGCCG
*
19421170 ATG-CATGTCCTAGACA-TGTCTTACACT
1 ATGCCATGTCCCAGACATTGTCTTACACT
19421197 GGCACACAAA
Statistics
Matches: 201, Mismatches: 33, Indels: 37
0.74 0.12 0.14
Matches are distributed among these distances:
40 28 0.14
41 1 0.00
42 3 0.01
43 10 0.05
44 11 0.05
45 46 0.23
46 27 0.13
47 52 0.26
48 17 0.08
50 3 0.01
51 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (45 bp):
ATGCCATGTCCCAGACATTGTCTTACACTAGCTCATCATTAGCCG
Found at i:19421047 original size:45 final size:44
Alignment explanation
Indices: 19420989--19421202 Score: 191
Period size: 45 Copynumber: 4.7 Consensus size: 44
19420979 TTACCGATCC
* *
19420989 CATGTCCTAGACATGGTCTTACACTGGCACATCCCGTAGCCGATG
1 CATGTCCTAGACAT-GTCTTACACTGGCACATCACATAGCCGATG
*
19421034 CATGTCCTAGACATGTCTTA-ACTGGCTTACATCA-AGAGGCCGATG
1 CATGTCCTAGACATGTCTTACACTGGC--ACATCACATA-GCCGATG
* * * * *
19421079 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATA-CCGATG
1 CATGTCCTAGACATGTCTTACACT-G-GCACATCAC-ATAGCCGATG
* * * * *
19421125 CCATATCCTAGACATGGTCTTACACTGGTTCTCATAATATGGCCGATG
1 -CATGTCCTAGACAT-GTCTTACACTGG--CACATCACATAGCCGATG
19421173 CATGTCCTAGACATGTCTTACACTGGCACA
1 CATGTCCTAGACATGTCTTACACTGGCACA
19421203 CAAATAACCC
Statistics
Matches: 137, Mismatches: 19, Indels: 27
0.75 0.10 0.15
Matches are distributed among these distances:
43 6 0.04
44 10 0.07
45 45 0.33
46 24 0.18
47 29 0.21
48 23 0.17
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (44 bp):
CATGTCCTAGACATGTCTTACACTGGCACATCACATAGCCGATG
Found at i:19421173 original size:94 final size:91
Alignment explanation
Indices: 19421028--19421196 Score: 243
Period size: 94 Copynumber: 1.8 Consensus size: 91
19421018 CATCCCGTAG
*
19421028 CCGATGCATGTCCTAGACATGTCTTAACTGGCTTACATCAAGAGGCCGATGCATGTCCCAGACAT
1 CCGATGCATATCCTAGACATGTCTTAACTGGCTTACATCAAGAGGCCGATGCATGTCCCAGACAT
19421093 GTCTTACACTAGCTCTCGTCTCAATA
66 GTCTTACACTAGCTCTCGTCTCAATA
* * *
19421119 CCGATGCCATATCCTAGACATGGTCTTACACTGG-TTCTCAT-AATATGGCCGATGCATGTCCTA
1 CCGATG-CATATCCTAGACAT-GTCTTA-ACTGGCTT-ACATCAAGA-GGCCGATGCATGTCCCA
19421182 GACATGTCTTACACT
61 GACATGTCTTACACT
19421197 GGCACACAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
91 6 0.09
92 13 0.19
93 11 0.16
94 39 0.57
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (91 bp):
CCGATGCATATCCTAGACATGTCTTAACTGGCTTACATCAAGAGGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCTCTCGTCTCAATA
Found at i:19423026 original size:27 final size:27
Alignment explanation
Indices: 19422995--19423049 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
19422985 AGGAGAGAGA
19422995 TCGCCACATTTAAACAACTAGAAGGAG
1 TCGCCACATTTAAACAACTAGAAGGAG
19423022 TCGCCACATTTAAACAACTAGAAGGAG
1 TCGCCACATTTAAACAACTAGAAGGAG
19423049 T
1 T
19423050 AATCTTTCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (27 bp):
TCGCCACATTTAAACAACTAGAAGGAG
Found at i:19436976 original size:9 final size:9
Alignment explanation
Indices: 19436962--19436997 Score: 72
Period size: 9 Copynumber: 4.0 Consensus size: 9
19436952 GTAATTGAGT
19436962 CTTCAACTC
1 CTTCAACTC
19436971 CTTCAACTC
1 CTTCAACTC
19436980 CTTCAACTC
1 CTTCAACTC
19436989 CTTCAACTC
1 CTTCAACTC
19436998 TGTTGGAGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.22, C:0.44, G:0.00, T:0.33
Consensus pattern (9 bp):
CTTCAACTC
Found at i:19440769 original size:47 final size:46
Alignment explanation
Indices: 19440475--19440788 Score: 241
Period size: 47 Copynumber: 6.7 Consensus size: 46
19440465 GTGTAATGTT
* * * *
19440475 GATGCCATCTCCCAGACATGGTCTTACACTGGCTCATCCATCA-AGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTC-T-CATAATAGCC
* * * * *
19440522 GATGCCATGTCCCAAACATCGTCTTACACT-GACTATCAAAATCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATAAT--A-GCC
* *
19440571 GACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCAT-ATCCGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--CATAAT---AGCC
* * * *
19440621 GATGCCATTTCCCAGACATGGTCTTACACTGGCACATC-TACTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCATAATAGCC
** *
19440667 GAT-TAATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAAT-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC--AT-AATAGCC
19440713 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATATGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATA--GCC
*
19440761 GATG-CATGTCCCAGATAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
19440789 GGCACACAAA
Statistics
Matches: 216, Mismatches: 31, Indels: 41
0.75 0.11 0.14
Matches are distributed among these distances:
43 2 0.01
44 13 0.06
45 18 0.08
46 26 0.12
47 57 0.26
48 26 0.12
49 33 0.15
50 36 0.17
51 5 0.02
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATAGCC
Found at i:19440774 original size:94 final size:94
Alignment explanation
Indices: 19440475--19440788 Score: 304
Period size: 94 Copynumber: 3.3 Consensus size: 94
19440465 GTGTAATGTT
* * * *
19440475 GATGCCATCTCCCAGACATGGTCTTACACTGGCTCATC--CATCAA-GTCGATGCCATGTCCCAA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCGTC-TCAATGCCGATGCCATGTCCCAG
* * * *
19440537 ACATCGTCTTACACTGACTATCAAAATCGAGGCT
64 ACATGGTCTTACACTG-CTCTCATAAT--AGGCC
* * ** *
19440571 GACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCCGTGCCGATGCCATTTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCG--TCTCAATGCCGATGCCATGTCCCAG
* *
19440636 ACATGGTCTTACACTGGCACATC-TACTA-GCC
64 ACATGGTCTTACACT-GCTC-TCATAATAGGCC
**
19440667 GAT-TAATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGAC
19440730 ATGGTCTTACACTAGCTCTCATAATATGGCC
66 ATGGTCTTACACT-GCTCTCATAATA-GGCC
*
19440761 GATG-CATGTCCCAGATAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
19440789 GGCACACAAA
Statistics
Matches: 180, Mismatches: 27, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
91 2 0.01
92 43 0.24
94 46 0.26
95 15 0.08
96 36 0.20
97 1 0.01
98 2 0.01
99 32 0.18
100 3 0.02
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (94 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTGCTCTCATAATAGGCC
Found at i:19444060 original size:30 final size:30
Alignment explanation
Indices: 19444026--19444088 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
19444016 AATCAAAGGT
*
19444026 AGATACTGTTCCCACGTACCTTCAAACTCG
1 AGATACTGTTCCCACGCACCTTCAAACTCG
19444056 AGATACTGTTCCCACGCACCTTCAAACTCG
1 AGATACTGTTCCCACGCACCTTCAAACTCG
19444086 AGA
1 AGA
19444089 ATGCAACATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (30 bp):
AGATACTGTTCCCACGCACCTTCAAACTCG
Found at i:19449390 original size:43 final size:44
Alignment explanation
Indices: 19449334--19449441 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 44
19449324 CAATGCCAAC
* * *
19449334 GTCCCGGATATGGTCTCACATGT-AAT-TCAATATCG-ATGCCTCT
1 GTCCCAGACATGGTCTTACATGTAAATCTCAA-ATCGAAT-CCTCT
* *
19449377 GTCCCAGACATGGTCTTACACGTAAATCTCAAATCGAATCCTGT
1 GTCCCAGACATGGTCTTACATGTAAATCTCAAATCGAATCCTCT
*
19449421 GTCCCAGACACGGTCTTACAT
1 GTCCCAGACATGGTCTTACAT
19449442 AATATTTCAG
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
43 19 0.35
44 30 0.55
45 6 0.11
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.29
Consensus pattern (44 bp):
GTCCCAGACATGGTCTTACATGTAAATCTCAAATCGAATCCTCT
Found at i:19456979 original size:49 final size:50
Alignment explanation
Indices: 19456855--19457038 Score: 141
Period size: 49 Copynumber: 3.8 Consensus size: 50
19456845 TACGAGATGT
* *
19456855 GTCAGTATAAGACCATGTCTAGGACATGGAATCGGCATAGATATGTGAGA
1 GTCAGTGTAAGACCATGTCTAGGACATGGAATCGGCATACATATGTGAGA
** * * *
19456905 G-CTAGTGTAAGACCATGTC-AGGGACATGGCGTCGGCCTCCAT-T-TCGATA
1 GTC-AGTGTAAGACCATGTCTA-GGACATGGAATCGGCATACATATGT-GAGA
* * * *
19456954 GTCAGTGTAAGACCATGTCTAGGACATCGCATCGAC-T--AGATG-GATGA
1 GTCAGTGTAAGACCATGTCTAGGACATGGAATCGGCATACATATGTGA-GA
* * * *
19457001 GCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCAT
1 GTCAGTGTAAGACCATGTCTAGGACATGGAATCGGCAT
19457039 TATACCCTAT
Statistics
Matches: 108, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
46 3 0.03
47 33 0.31
48 3 0.03
49 35 0.32
50 34 0.31
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
GTCAGTGTAAGACCATGTCTAGGACATGGAATCGGCATACATATGTGAGA
Found at i:19457033 original size:47 final size:47
Alignment explanation
Indices: 19456768--19457034 Score: 185
Period size: 46 Copynumber: 5.7 Consensus size: 47
19456758 TGTGTGTGCT
* * *
19456768 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATTGAGA-CGA-GAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACT-AGATGGATGAGCC
* *
19456814 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACTACGA--GATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTA-GATGGATGAGCC
* * * * *
19456858 AGTATAAGACCATGTCTAGGACATGGAATCGGCATAGATATGTGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TAG--ATG-GATGAGCC
* * * ** * *
19456908 AGTGTAAGACCATGTCAGGGACATGGCGTCGGCCTCCATTTCGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACT--AGATGGATGAGCC
* *
19456957 AGTGTAAGACCATGTCTAGGACATCGCATCGACTAGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTAGATGGATGAGCC
*
19457004 AGTGTAAGACCATGTCTGGGATATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
19457035 GCATTATACC
Statistics
Matches: 174, Mismatches: 32, Indels: 29
0.74 0.14 0.12
Matches are distributed among these distances:
43 3 0.02
44 16 0.09
45 14 0.08
46 40 0.23
47 33 0.19
48 4 0.02
49 30 0.17
50 29 0.17
51 4 0.02
52 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTAGATGGATGAGCC
Found at i:19457036 original size:96 final size:98
Alignment explanation
Indices: 19456855--19457036 Score: 253
Period size: 96 Copynumber: 1.9 Consensus size: 98
19456845 TACGAGATGT
* * *
19456855 GTCAGTATAAGACCATGTCTAGGACATGGAATCGGCATAGATATGTGAGAGCTAGTGTAAGACCA
1 GTCAGTATAAGACCATGTCTAGGACATCGAATCGACATAGA-ATGTGAGAGCCAGTGTAAGACCA
*
19456920 TGTCAGGGACATGGCGTCGGCCTCCATTTCGATA
65 TGTCAGGGACATGGCATCGGCCTCCATTTCGATA
* *
19456954 GTCAGTGTAAGACCATGTCTAGGACATCGCATCGAC-TAG-ATG-GATGAGCCAGTGTAAGACCA
1 GTCAGTATAAGACCATGTCTAGGACATCGAATCGACATAGAATGTGA-GAGCCAGTGTAAGACCA
* *
19457016 TGTCTGGGATATGGCATCGGC
65 TGTCAGGGACATGGCATCGGC
19457037 ATTATACCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
95 2 0.03
96 37 0.50
98 3 0.04
99 32 0.43
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (98 bp):
GTCAGTATAAGACCATGTCTAGGACATCGAATCGACATAGAATGTGAGAGCCAGTGTAAGACCAT
GTCAGGGACATGGCATCGGCCTCCATTTCGATA
Found at i:19463555 original size:14 final size:14
Alignment explanation
Indices: 19463532--19463561 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19463522 TTGAAAATAT
19463532 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
19463546 GTTGATTTGGATTG
1 GTTGAATTGGATTG
19463560 GT
1 GT
19463562 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:19468124 original size:40 final size:40
Alignment explanation
Indices: 19468069--19468206 Score: 276
Period size: 40 Copynumber: 3.5 Consensus size: 40
19468059 TGTCTCCTTN
19468069 GTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGG
1 GTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGG
19468109 GTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGG
1 GTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGG
19468149 GTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGG
1 GTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGG
19468189 GTCTTAGCCCGGATATAT
1 GTCTTAGCCCGGATATAT
19468207 TTCCAATGTT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 98 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.26
Consensus pattern (40 bp):
GTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGG
Found at i:19476240 original size:40 final size:40
Alignment explanation
Indices: 19476132--19476341 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
19476122 CGGGATTTAA
* * * * *
19476132 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
19476172 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
19476212 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
19476252 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
19476292 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
19476332 CCGGATATAT
1 CCGGATATAT
19476342 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:19487673 original size:21 final size:21
Alignment explanation
Indices: 19487647--19487686 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19487637 TTACTCGAAG
*
19487647 GAAGCC-GATTGATCCATCTCA
1 GAAGCCAGATTCAT-CATCTCA
19487668 GAAGCCAGATTCATCATCT
1 GAAGCCAGATTCATCATCT
19487687 AGACTGTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (21 bp):
GAAGCCAGATTCATCATCTCA
Found at i:19490044 original size:2 final size:2
Alignment explanation
Indices: 19490037--19490068 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
19490027 GCTTCGTCAC
19490037 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19490069 CTGTTCTGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19491477 original size:44 final size:44
Alignment explanation
Indices: 19491413--19491524 Score: 145
Period size: 44 Copynumber: 2.5 Consensus size: 44
19491403 GGATTACATC
* * *
19491413 AAGATTACCCATCCGGGCTAAATCCTTTCTATAACGAGGC-CAAT
1 AAGATTACTCGTCCGAGCTAAATCCTTTCTATAACGA-GCTCAAT
* ** *
19491457 AAGATTACTCGTCTGAGCTAAAAACTTTCTATAATGAGCTCAAT
1 AAGATTACTCGTCCGAGCTAAATCCTTTCTATAACGAGCTCAAT
19491501 AAGATTACTCGTCCGAGCTAAATC
1 AAGATTACTCGTCCGAGCTAAATC
19491525 TCGTCAGCAA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 2 0.04
44 55 0.96
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (44 bp):
AAGATTACTCGTCCGAGCTAAATCCTTTCTATAACGAGCTCAAT
Found at i:19493166 original size:39 final size:38
Alignment explanation
Indices: 19493119--19493195 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 38
19493109 TGTATGTTGG
**
19493119 GCCACTGGT-AGGATATGTTAGTTGTTAACCAAGTTGGCA
1 GCCACTGGTAAGG-TATGTTAGTTACTAACC-AGTTGGCA
19493158 GCCACTGGTAAGGTATGTTAGTTACTAACCAGTTGGCA
1 GCCACTGGTAAGGTATGTTAGTTACTAACCAGTTGGCA
19493196 TGAGTGCTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
38 8 0.23
39 24 0.69
40 3 0.09
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (38 bp):
GCCACTGGTAAGGTATGTTAGTTACTAACCAGTTGGCA
Found at i:19502825 original size:15 final size:16
Alignment explanation
Indices: 19502797--19502826 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19502787 CAACCATGCT
19502797 TTAACACAATATCAAA
1 TTAACACAATATCAAA
19502813 TTAACAC-ATATCAA
1 TTAACACAATATCAA
19502827 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (16 bp):
TTAACACAATATCAAA
Found at i:19505334 original size:2 final size:2
Alignment explanation
Indices: 19505327--19505367 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
19505317 TCTCATGTCT
19505327 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19505368 TATCCATTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19512299 original size:13 final size:13
Alignment explanation
Indices: 19512283--19512308 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19512273 ATAATAATAA
19512283 AATAAAATAAAAT
1 AATAAAATAAAAT
19512296 AATAAAATAAAAT
1 AATAAAATAAAAT
19512309 TTAAGAGATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AATAAAATAAAAT
Found at i:19522178 original size:68 final size:70
Alignment explanation
Indices: 19522106--19522303 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
19522096 ACACCCTGTA
* * * *
19522106 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
19522168 ATAAAT
65 ATAAAT
*
19522174 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
19522239 ATAAAT
65 ATAAAT
*
19522245 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
19522304 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:19522217 original size:41 final size:41
Alignment explanation
Indices: 19522172--19522289 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
19522162 TGAAAGATAA
19522172 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
19522213 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
19522243 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
19522284 ATGTAG
1 ATGTAG
19522290 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:19522229 original size:71 final size:71
Alignment explanation
Indices: 19522140--19522303 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
19522130 GAGATGTATC
19522140 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
19522205 AGGACA
66 AGGACA
19522211 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
19522276 AGGACA
66 AGGACA
19522282 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
19522304 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:19536105 original size:40 final size:40
Alignment explanation
Indices: 19536041--19536231 Score: 208
Period size: 39 Copynumber: 4.8 Consensus size: 40
19536031 GCTACTCGTT
* * * ***
19536041 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
19536081 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * *
19536121 CAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * *
19536160 CCATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
*
19536199 CAATTGCCTTCGGG-CTTAGCCCGGATATCACAA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAA
19536232 TTCGCACATT
Statistics
Matches: 134, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 89 0.66
40 45 0.34
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:19536158 original size:39 final size:39
Alignment explanation
Indices: 19536077--19536239 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
19536067 TATGGTAACC
* *
19536077 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
19536117 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
19536156 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
19536195 CACACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
19536234 CGCACA
1 CGCACA
19536240 TTCATACACA
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 95 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:19539763 original size:24 final size:24
Alignment explanation
Indices: 19539718--19539763 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
19539708 CCACTTCCTA
*
19539718 GCTTTTCAGCCTTTAGGCTTTTTG
1 GCTTTTCAGCCTTTAAGCTTTTTG
19539742 GCTTTTCAGCCTTTGAAG-TTTT
1 GCTTTTCAGCCTTT-AAGCTTTT
19539764 ACACCTAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.50
Consensus pattern (24 bp):
GCTTTTCAGCCTTTAAGCTTTTTG
Found at i:19542588 original size:28 final size:29
Alignment explanation
Indices: 19542556--19542654 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
19542546 ATAATAAGCC
*
19542556 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
19542584 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
19542612 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
19542641 CGCACACTTAGTGC
1 CGCACACTTAGTGC
19542655 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:19547460 original size:15 final size:15
Alignment explanation
Indices: 19547428--19547456 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19547418 ATTTTCTGTG
19547428 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
19547443 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
19547457 ATTTTCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:19557948 original size:47 final size:47
Alignment explanation
Indices: 19557895--19558164 Score: 414
Period size: 47 Copynumber: 5.7 Consensus size: 47
19557885 AAGATATGTA
19557895 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATG
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATG
* * *
19557942 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATG
*
19557989 TATATGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATG
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATG
*
19558036 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
1 --TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATG
* * *
19558085 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG-AAG-GTGTATG
* *
19558134 TATATGATAAGGCCGAATGGTCAATGTGATG
1 TATGTGATAAGGCCGAATGGCCAATGTGATG
19558165 GAAGTGGAAG
Statistics
Matches: 204, Mismatches: 15, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
47 124 0.61
48 2 0.01
49 78 0.38
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATG
Found at i:19558068 original size:96 final size:96
Alignment explanation
Indices: 19557893--19558191 Score: 462
Period size: 96 Copynumber: 3.1 Consensus size: 96
19557883 ACAAGATATG
19557893 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATG--TATGTGATAAGGCC
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATATGTGATAAGGCC
19557956 GAATGGCCAATGTGATGAATGTGAAAGTATA
66 GAATGGCCAATGTGATGAATGTGAAAGTATA
*
19557987 TATATATGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATATGTGATAAGGCC
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATATGTGATAAGGCC
*
19558052 GAATGGCCAATGTGATGAATGTGAAAGTGTA
66 GAATGGCCAATGTGATGAATGTGAAAGTATA
* * * * *
19558083 TGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATATGATAAGGCC
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATATGTGATAAGGCC
* * *
19558148 GAATGGTCAATGTGATGGAA-GTGGAAGTGTA
66 GAATGGCCAATGTGAT-GAATGTGAAAGTATA
19558179 TA-AGTGTGATAAG
1 TATA-TGTGATAAG
19558192 TCCCGAAGGA
Statistics
Matches: 190, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
94 48 0.25
95 1 0.01
96 138 0.73
97 3 0.02
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (96 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATATGTGATAAGGCC
GAATGGCCAATGTGATGAATGTGAAAGTATA
Found at i:19558191 original size:143 final size:142
Alignment explanation
Indices: 19557892--19558164 Score: 501
Period size: 143 Copynumber: 1.9 Consensus size: 142
19557882 TACAAGATAT
*
19557892 GTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATGTGATAAGGCCG
1 GTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCG
19557957 AATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGCCAATGTGATGAA
66 AATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGCCAATGTGATGAA
19558022 TGTGAAGGTGTA
131 TGTGAAGGTGTA
19558034 TGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCC
1 -GTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCC
*
19558099 GAATGGCCAATGTGATGAATGTGAAAGTATATATATATATGATAAGGCCGAATGGTCAATGTGAT
65 GAATGGCCAATGTGATGAATGTGAAAG--TATATATATATGATAAGGCCGAATGGCCAATGTGAT
19558164 G
128 G
19558165 GAAGTGGAAG
Statistics
Matches: 126, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
143 90 0.71
145 36 0.29
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (142 bp):
GTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCG
AATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGCCAATGTGATGAA
TGTGAAGGTGTA
Found at i:19559636 original size:22 final size:22
Alignment explanation
Indices: 19559607--19559663 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
19559597 TGTAGGGCTC
*
19559607 ACACGCCCGTGTTGTCCAAGGG
1 ACACGCCCGTGTTGACCAAGGG
* **
19559629 ACATGCCCGTG-TGACCCTGGG
1 ACACGCCCGTGTTGACCAAGGG
19559650 ACACGCCCGTGTTG
1 ACACGCCCGTGTTG
19559664 GAGGCCGTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.16, C:0.33, G:0.32, T:0.19
Consensus pattern (22 bp):
ACACGCCCGTGTTGACCAAGGG
Found at i:19560986 original size:58 final size:57
Alignment explanation
Indices: 19560851--19560987 Score: 134
Period size: 58 Copynumber: 2.4 Consensus size: 57
19560841 CAAGATTACT
* * * *
19560851 AGGCTAAATCCTTTATATAACATATGCTCAGAGGGGTTCGATTAGGATTACCAGCCC
1 AGGCTAAATCCTTTCTATAACATATGCTCAGAGGGATTAGATCAGGATTACCAGCCC
* * * * * * *
19560908 AGACTAAACCCTAATC-ATAACATATGCTCGAGAGGTATTATATCGGGATTACCCA-TCC
1 AGGCTAAATCCT-TTCTATAACATATGCTC-AGAGGGATTAGATCAGGATTA-CCAGCCC
19560966 AGGCTAAATCCTTTCTATAACA
1 AGGCTAAATCCTTTCTATAACA
19560988 AGGTCAATGG
Statistics
Matches: 62, Mismatches: 14, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
57 25 0.40
58 34 0.55
59 3 0.05
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (57 bp):
AGGCTAAATCCTTTCTATAACATATGCTCAGAGGGATTAGATCAGGATTACCAGCCC
Found at i:19579761 original size:20 final size:20
Alignment explanation
Indices: 19579733--19579784 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
19579723 CAGGCTGTGG
*
19579733 ACACGGGCGTGTCCCAAGCT
1 ACACAGGCGTGTCCCAAGCT
19579753 ACACAGGCGTGTCCCAAGCT
1 ACACAGGCGTGTCCCAAGCT
19579773 ACACAGGCGTGT
1 ACACAGGCGTGT
19579785 ACGATCTCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.23, C:0.33, G:0.29, T:0.15
Consensus pattern (20 bp):
ACACAGGCGTGTCCCAAGCT
Found at i:19592941 original size:64 final size:64
Alignment explanation
Indices: 19592865--19593034 Score: 175
Period size: 67 Copynumber: 2.6 Consensus size: 64
19592855 ACATTATGAC
*
19592865 GTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATATAT
1 GTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAAAT
** * * * *
19592929 GTAGCTAGGTCGCATGCATGGCT-CCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGGGATA
1 GTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGGGATA
19592993 AAT
62 AAT
* * * *
19592996 -TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT
1 GTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGT
19593035 GTAAAAGAGA
Statistics
Matches: 84, Mismatches: 16, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
63 9 0.11
64 20 0.24
65 4 0.05
66 17 0.20
67 34 0.40
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.24
Consensus pattern (64 bp):
GTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAAAT
Found at i:19597947 original size:39 final size:39
Alignment explanation
Indices: 19597862--19598124 Score: 275
Period size: 40 Copynumber: 6.7 Consensus size: 39
19597852 GCTACTCGTT
* * *
19597862 CAAATGCCTTCGGGACATAGCTCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
* *
19597902 CAAATGCCTTCGGGACTTAACCCGGATTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
* *
19597941 CCAATGCCTTCAGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTAGTAACTCGCA
* * *
19597980 CAAATGTCTTC-AGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-TTAGTAACTCGCA
* *
19598020 CCAATGCCTTCGGG-CTTACCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTAGTAACTCGCA
* * * *
19598059 CAAATGCCTTC-GGATCTTAGTCCAGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
19598100 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19598125 CATCATTCGA
Statistics
Matches: 186, Mismatches: 26, Indels: 22
0.79 0.11 0.09
Matches are distributed among these distances:
38 12 0.06
39 79 0.42
40 83 0.45
41 12 0.06
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:19598026 original size:79 final size:79
Alignment explanation
Indices: 19597864--19598124 Score: 314
Period size: 79 Copynumber: 3.3 Consensus size: 79
19597854 TACTCGTTCA
* * * **
19597864 AATGCCTTCGGGACATAGCTCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
*
19597927 A-TTAATAACTCGCACC
63 ATTTAGTAACTCGCACC
* * *
19597943 AATGCCTTCAGGCTTAGCCCGGAATTAGTAACTCGCACAAATGTCTTCAGATCTTAGTCCGGATT
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
19598008 TAGTAACTCGCACC
66 TAGTAACTCGCACC
* * *
19598022 AATGCCTTCGGGCTTACCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCAGATA
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* *
19598087 TAGTCACTTAGCA-C
66 TAGTAAC-TCGCACC
*
19598101 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGA
19598125 CATCATTCGA
Statistics
Matches: 158, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
77 2 0.01
78 39 0.25
79 103 0.65
80 14 0.09
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (79 bp):
AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
TAGTAACTCGCACC
Found at i:19611798 original size:22 final size:22
Alignment explanation
Indices: 19611770--19611813 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
19611760 CGACTTCGAC
19611770 TTTGACAATCCCAAGTCCGATA
1 TTTGACAATCCCAAGTCCGATA
19611792 TTTGACAATCCCAAGTCCGATA
1 TTTGACAATCCCAAGTCCGATA
19611814 GCTGACGAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (22 bp):
TTTGACAATCCCAAGTCCGATA
Found at i:19611819 original size:22 final size:22
Alignment explanation
Indices: 19611772--19611819 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
19611762 ACTTCGACTT
**
19611772 TGACAATCCCAAGTCCGATATT
1 TGACAATCCCAAGTCCGATAGC
19611794 TGACAATCCCAAGTCCGATAGC
1 TGACAATCCCAAGTCCGATAGC
19611816 TGAC
1 TGAC
19611820 GAACAAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (22 bp):
TGACAATCCCAAGTCCGATAGC
Found at i:19612341 original size:80 final size:80
Alignment explanation
Indices: 19612174--19612375 Score: 300
Period size: 80 Copynumber: 2.5 Consensus size: 80
19612164 ACCCAAGTAT
* * * * *
19612174 CTTCGGGATTTAG-CCGAATATCGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
19612238 CACTAGCATAAATGC
66 CACTAGCATAAATGC
* *
19612253 CTTTGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
19612317 TCACTAGCATAAATGC
65 TCACTAGCATAAATGC
* *
19612333 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAATTGCCTT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTT
19612376 TAGATCTTAG
Statistics
Matches: 110, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
79 12 0.11
80 97 0.88
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCATAAATGC
Found at i:19612374 original size:40 final size:40
Alignment explanation
Indices: 19612203--19612375 Score: 267
Period size: 40 Copynumber: 4.3 Consensus size: 40
19612193 ATCGCAACTC
*
19612203 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
* *
19612243 GCATAAATGCCTTTGGGACTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
*
19612283 GCACAAATGCCTTCGGGACTTAGCCCGGGTATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
* *
19612323 GCATAAATGCCTTCGGGACTTAGCCCGGATATAG-CAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC-ACTA
*
19612363 GCACAATTGCCTT
1 GCACAAATGCCTT
19612376 TAGATCTTAG
Statistics
Matches: 121, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
39 1 0.01
40 120 0.99
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
Found at i:19614241 original size:29 final size:28
Alignment explanation
Indices: 19614207--19614309 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 28
19614197 TAATCGATCA
*
19614207 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
* **
19614236 CGCACACATAGTGCCATATAATTTAAATT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
19614265 CGCACACTTAGTGCCATACT-TTTCAAGCT
1 CGCACACTTAGTGCCATA-TATTT-AAGCT
*
19614294 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
19614310 ATCTTGTCAC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
28 3 0.05
29 59 0.94
30 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTAAGCT
Found at i:19633951 original size:40 final size:40
Alignment explanation
Indices: 19633898--19634296 Score: 591
Period size: 40 Copynumber: 10.0 Consensus size: 40
19633888 TTGAGAGTTA
19633898 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
19633938 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
19633978 TATATCTGGGCTAAGTCCCAAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
19634018 TATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
19634058 TATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * *
19634098 TATGTCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
** *
19634138 TATATCAAGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * * *
19634178 TATGTCCGGGCTAAGTCTCGAAGAGCATTCATGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
19634218 TATATCAGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
19634258 TATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
19634297 ATGTGTATTC
Statistics
Matches: 316, Mismatches: 43, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 316 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:19634510 original size:25 final size:25
Alignment explanation
Indices: 19634460--19634510 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
19634450 CGTGTAACAA
* *
19634460 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
19634485 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
19634510 C
1 C
19634511 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:19641906 original size:64 final size:64
Alignment explanation
Indices: 19641826--19641997 Score: 186
Period size: 67 Copynumber: 2.7 Consensus size: 64
19641816 AGACATTATG
* *
19641826 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * **
19641890 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTATTAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
19641955 AA
63 AA
* * *
19641957 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGT
19641998 GTACAAAAGA
Statistics
Matches: 87, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
63 9 0.10
64 25 0.29
66 21 0.24
67 32 0.37
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:19649135 original size:40 final size:40
Alignment explanation
Indices: 19649090--19649184 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
19649080 CGGTTATTTG
* *
19649090 TGGCACTTAGTGTGTGATACGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATACGACATAGCTTCGACTATATA
** * *
19649130 TGGCACTTAGTGTGCGATTTGAGATAGCTTCGACTATGTA
1 TGGCACTTAGTGTGCGATACGACATAGCTTCGACTATATA
*
19649170 CGGCACTTAGTGTGC
1 TGGCACTTAGTGTGC
19649185 AAGATATTGA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATACGACATAGCTTCGACTATATA
Found at i:19652775 original size:33 final size:33
Alignment explanation
Indices: 19652738--19652807 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
19652728 CCCACAATGC
* *
19652738 TACTGTATAGGGCTAAGGCCCAGACTGTACTGT
1 TACTGAATAGGGCTAAGGCCCAGACTGTACTGA
**
19652771 TACTGAATAGGGCTTTGGCCCAGACTGTACTGA
1 TACTGAATAGGGCTAAGGCCCAGACTGTACTGA
19652804 TACT
1 TACT
19652808 ATATTGTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (33 bp):
TACTGAATAGGGCTAAGGCCCAGACTGTACTGA
Found at i:19657741 original size:28 final size:28
Alignment explanation
Indices: 19657701--19657801 Score: 141
Period size: 28 Copynumber: 3.6 Consensus size: 28
19657691 TGCATGACTG
* *
19657701 TGAATGTGATTGGGCCTGACGGGCCATA
1 TGAAAGTGATTGGGCCTGATGGGCCATA
*
19657729 TGAAAGTGATTGGGCCTGATGCGCCATA
1 TGAAAGTGATTGGGCCTGATGGGCCATA
*
19657757 TGAATGTGATTGGGCCTGATGGGCCATA
1 TGAAAGTGATTGGGCCTGATGGGCCATA
*
19657785 TGAATA-AGATTGGGCCT
1 TGAA-AGTGATTGGGCCT
19657802 AAATGGGTCA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.27
Consensus pattern (28 bp):
TGAAAGTGATTGGGCCTGATGGGCCATA
Found at i:19657817 original size:29 final size:28
Alignment explanation
Indices: 19657708--19657821 Score: 95
Period size: 28 Copynumber: 4.0 Consensus size: 28
19657698 CTGTGAATGT
* * * *
19657708 GATTGGGCCTGACGGGCCATATGAA-AGT
1 GATTGGGCCTAATGGGCCAAATGAATA-A
* * * **
19657736 GATTGGGCCTGATGCGCCATATGAATGT
1 GATTGGGCCTAATGGGCCAAATGAATAA
* *
19657764 GATTGGGCCTGATGGGCCATATGAATAA
1 GATTGGGCCTAATGGGCCAAATGAATAA
*
19657792 GATTGGGCCTAAATGGGTCAAATGAATAA
1 GATTGGGCCT-AATGGGCCAAATGAATAA
19657821 G
1 G
19657822 TATGGATCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
28 59 0.79
29 16 0.21
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (28 bp):
GATTGGGCCTAATGGGCCAAATGAATAA
Found at i:19665031 original size:21 final size:21
Alignment explanation
Indices: 19664997--19665036 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
19664987 AATGGTCATG
*
19664997 GATGATTTAAGAGTGACTTAA
1 GATGATTTAAGAGTCACTTAA
**
19665018 GATGATTTTTGAGTCACTT
1 GATGATTTAAGAGTCACTT
19665037 TTTGTTTAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (21 bp):
GATGATTTAAGAGTCACTTAA
Found at i:19665624 original size:28 final size:28
Alignment explanation
Indices: 19665534--19665638 Score: 140
Period size: 28 Copynumber: 3.8 Consensus size: 28
19665524 ATTGCATGAC
19665534 TATGAATGTGATTGGGCCTAATGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
* **
19665562 CATGAAAATGATTGGGCCTAATGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
*
19665590 TATGAATGTTATTGGGCC-AGATGGGCCA
1 TATGAATGTGATTGGGCCTA-ATGGGCCA
* *
19665618 TATGAATGAGATTGGGGCTAA
1 TATGAATGTGATTGGGCCTAA
19665639 AGGGGGCCAA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
27 1 0.02
28 63 0.97
29 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAATGGGCCA
Found at i:19670842 original size:40 final size:40
Alignment explanation
Indices: 19670798--19670894 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
19670788 ATCAGTTATT
* * *
19670798 TATGGCACTTAATGTGTGATACGACATAGCTTCGGCTATA
1 TATGGCACTTAATGTGCGATACGAAATAGCTTCGACTATA
* ** *
19670838 TATGGCACTTAGTGTGCGATTTGAAATAGCTTCGACTATG
1 TATGGCACTTAATGTGCGATACGAAATAGCTTCGACTATA
* * *
19670878 TACGACACTTAGTGTGC
1 TATGGCACTTAATGTGC
19670895 AAGATTTCGA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (40 bp):
TATGGCACTTAATGTGCGATACGAAATAGCTTCGACTATA
Found at i:19682819 original size:27 final size:27
Alignment explanation
Indices: 19682798--19683220 Score: 419
Period size: 27 Copynumber: 15.7 Consensus size: 27
19682788 AAGGGTATTT
*
19682798 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
19682825 CAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
19682852 CAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * *
19682879 TGGAAATACTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
19682906 TTGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * *
19682933 -CGATAATTATGTAAATCGGGGGTAAAA
1 TAG-TAATTCTGTAAATCGAGGGTAAAA
* * *
19682960 TGGTAATTATGTAAAT-TAGGGGTAAAA
1 TAGTAATTCTGTAAATCGA-GGGTAAAA
* *
19682987 TGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
19683014 TAGTAATTCTGTAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
**
19683041 CGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
**
19683068 CGGTAATT-T-TACAGATCGAGGGTAAAA
1 TAGTAATTCTGTA-A-ATCGAGGGTAAAA
** *
19683095 CGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * **
19683122 -CGATAATTTTACAAATCGAGGGTAAAA
1 TAG-TAATTCTGTAAATCGAGGGTAAAA
* *
19683149 CAGTAATTCTATAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
** *
19683176 CGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
**
19683203 CGGTAATTCTGTAAATCG
1 TAGTAATTCTGTAAATCG
19683221 GGAGTACTTT
Statistics
Matches: 348, Mismatches: 34, Indels: 28
0.85 0.08 0.07
Matches are distributed among these distances:
25 2 0.01
26 6 0.02
27 331 0.95
28 7 0.02
29 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:19683237 original size:54 final size:54
Alignment explanation
Indices: 19682800--19683220 Score: 506
Period size: 54 Copynumber: 7.8 Consensus size: 54
19682790 GGGTATTTTA
* * * * *
19682800 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * **
19682854 GTAATTCTATAAATCGAGGGTAAAATGGAAATACTGTAAATCGAGGGTAAAATT
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * * *
19682908 GTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * * * **
19682962 GTAATTATGTAAAT-TAGGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGA-GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
*
19683016 GTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * *
19683070 GTAATTTTACAGATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * * *
19683124 ATAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAA-CTGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACG
19683178 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
19683221 GGAGTACTTT
Statistics
Matches: 317, Mismatches: 44, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
53 2 0.01
54 312 0.98
55 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.28
Consensus pattern (54 bp):
GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:19683237 original size:81 final size:81
Alignment explanation
Indices: 19682800--19683220 Score: 515
Period size: 81 Copynumber: 5.2 Consensus size: 81
19682790 GGGTATTTTA
* ** * * *
19682800 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATA
*
19682865 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAACG
* * * * * * *
19682881 GAAATACTGTAAATCGAGGGTAAAATTGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTA
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATA
* *
19682946 AATCGGGGGTAAAATG
66 AATCGAGGGTAAAACG
* * ** *
19682962 GTAATTATGTAAAT-TAGGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGT
1 GTAATTCTGTAAATCGA-GGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTAT
19683026 AAA-CTGAGGGTAAAACG
65 AAATC-GAGGGTAAAACG
* * * *
19683043 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAGATCGAGGGTAAAACGGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATA
19683108 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
* * ** **
19683124 ATAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTAT
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAACGGTAATTCTAT
19683188 AAATCGAGGGTAAAACG
65 AAATCGAGGGTAAAACG
19683205 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
19683221 GGAGTACTTT
Statistics
Matches: 291, Mismatches: 44, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
80 3 0.01
81 286 0.98
82 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.28
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATA
AATCGAGGGTAAAACG
Found at i:19687256 original size:27 final size:27
Alignment explanation
Indices: 19687226--19687672 Score: 553
Period size: 27 Copynumber: 16.6 Consensus size: 27
19687216 AGGGTATTTT
*
19687226 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
19687253 AGTAATTCTGTAAATCAAAGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
19687280 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
19687307 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
19687334 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
19687361 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
19687388 AGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
19687415 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
19687442 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
19687469 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
19687496 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
19687523 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
19687550 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
19687577 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
19687604 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
19687631 AGTAATTCTATAAA-CTTAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
19687658 AGTAATTCTGTAAAT
1 AGTAATTCTGTAAAT
19687673 TGGGAGTACT
Statistics
Matches: 367, Mismatches: 43, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
26 4 0.01
27 359 0.98
28 4 0.01
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:19688988 original size:45 final size:45
Alignment explanation
Indices: 19688929--19689025 Score: 160
Period size: 45 Copynumber: 2.2 Consensus size: 45
19688919 TTATTCAACC
**
19688929 TAGGG-TTAGACGTTATTAGTCTTGAGAGAGATAATAATATAACT
1 TAGGGATTAGACGTTATTAGTCTCAAGAGAGATAATAATATAACT
*
19688973 TAGGGATTAGGCGTTATTAGTCTCAAGAGAGATAATAATATAACT
1 TAGGGATTAGACGTTATTAGTCTCAAGAGAGATAATAATATAACT
19689018 TAGGGATT
1 TAGGGATT
19689026 TCTACGGATC
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
44 5 0.10
45 44 0.90
ACGTcount: A:0.36, C:0.07, G:0.24, T:0.33
Consensus pattern (45 bp):
TAGGGATTAGACGTTATTAGTCTCAAGAGAGATAATAATATAACT
Found at i:19701528 original size:14 final size:14
Alignment explanation
Indices: 19701520--19701559 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
19701510 CTATATCTAT
19701520 ATAGATATATATAG
1 ATAGATATATATAG
*
19701534 ATAGATAGATAGATAG
1 ATAGAT--ATATATAG
19701550 ATAGATATAT
1 ATAGATATAT
19701560 CTTTATTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 9 0.41
16 13 0.59
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (14 bp):
ATAGATATATATAG
Found at i:19701537 original size:4 final size:4
Alignment explanation
Indices: 19701530--19701556 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
19701520 ATAGATATAT
19701530 ATAG ATAG ATAG ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATA
19701557 TATCTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.22, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:19708123 original size:42 final size:42
Alignment explanation
Indices: 19708052--19708157 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 42
19708042 GAGTTACATG
* * * * *
19708052 GCCTGAACACATGCCCACGTCCTTGCCCGTGTGGCTCACACG
1 GCCTGAGCACATGCTCATGTCCTTACCCGTGTGGCTCACACA
*
19708094 GCTTGAGCACATGCTCATGTCCTTACCCGTGTGGCTCACACA
1 GCCTGAGCACATGCTCATGTCCTTACCCGTGTGGCTCACACA
* * *
19708136 GCCTGGGCACACGCTTATGTCC
1 GCCTGAGCACATGCTCATGTCC
19708158 CTAGCCATGT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.17, C:0.37, G:0.24, T:0.23
Consensus pattern (42 bp):
GCCTGAGCACATGCTCATGTCCTTACCCGTGTGGCTCACACA
Found at i:19708169 original size:42 final size:42
Alignment explanation
Indices: 19708081--19708169 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
19708071 TCCTTGCCCG
* * * * *
19708081 TGTGGCTCACACGGCTTGAGCACATGCTCATGTCCTTACCCG
1 TGTGGCTCACACAGCCTGAGCACACGCTCATGTCCCTACCCA
* * *
19708123 TGTGGCTCACACAGCCTGGGCACACGCTTATGTCCCTAGCCA
1 TGTGGCTCACACAGCCTGAGCACACGCTCATGTCCCTACCCA
19708165 TGTGG
1 TGTGG
19708170 TTCCAAAGCG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.17, C:0.33, G:0.26, T:0.25
Consensus pattern (42 bp):
TGTGGCTCACACAGCCTGAGCACACGCTCATGTCCCTACCCA
Found at i:19708221 original size:146 final size:146
Alignment explanation
Indices: 19707953--19708241 Score: 339
Period size: 146 Copynumber: 2.0 Consensus size: 146
19707943 CACACAGTCT
* * * * * *
19707953 AGCACATGCCCATGTGCTTGCCCGTGTGTCTTACACAGCCTGACACACGCCTATGTCACTTCCTT
1 AGCACATGCCCATGTCCTTACCCGTGTGGCTCACACAGCCTGACACACGCCTATGTCACTGCCAT
** * * * * * * *
19708018 GTGTGGTCCTAATTCGCAAACAGTGAGTTACATGGCCTGAACACATGCCCACGTCCTTGCCCGTG
66 GTGTGGTCCTAAAGCGCAAACAGTGAGTTACACGACCTGAACAAAAGACCACATCCTTGCCCGTA
19708083 TGGCTCACACGGCTTG
131 TGGCTCACACGGCTTG
* * * *
19708099 AGCACATGCTCATGTCCTTACCCGTGTGGCTCACACAGCCTGGGCACACGCTTATGTCCCTAGCC
1 AGCACATGCCCATGTCCTTACCCGTGTGGCTCACACAGCCT-GACACACGCCTATGTCACT-GCC
* * * *
19708164 ATGTG-GTTCC-AAAGCGTAAACAGTGAGTTACACGACCTGGACAAAAGACCATATCCTTGCCCG
64 ATGTGTGGTCCTAAAGCGCAAACAGTGAGTTACACGACCTGAACAAAAGACCACATCCTTGCCCG
19708227 TATGGCTCACACGGC
129 TATGGCTCACACGGC
19708242 CTGGTCACAC
Statistics
Matches: 118, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
146 92 0.78
147 20 0.17
148 6 0.05
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (146 bp):
AGCACATGCCCATGTCCTTACCCGTGTGGCTCACACAGCCTGACACACGCCTATGTCACTGCCAT
GTGTGGTCCTAAAGCGCAAACAGTGAGTTACACGACCTGAACAAAAGACCACATCCTTGCCCGTA
TGGCTCACACGGCTTG
Found at i:19711751 original size:13 final size:13
Alignment explanation
Indices: 19711733--19711757 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19711723 AAACTAAACA
19711733 TTAACTAAGAAAT
1 TTAACTAAGAAAT
19711746 TTAACTAAGAAA
1 TTAACTAAGAAA
19711758 AAAAATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (13 bp):
TTAACTAAGAAAT
Found at i:19716992 original size:16 final size:16
Alignment explanation
Indices: 19716971--19717003 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
19716961 CTTCAAATTC
19716971 AAGTATACAACATCGA
1 AAGTATACAACATCGA
19716987 AAGTATACAACATCGA
1 AAGTATACAACATCGA
19717003 A
1 A
19717004 GGATATCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (16 bp):
AAGTATACAACATCGA
Found at i:19719740 original size:43 final size:43
Alignment explanation
Indices: 19719676--19719780 Score: 165
Period size: 43 Copynumber: 2.4 Consensus size: 43
19719666 AGATTACCTG
19719676 TCCGGGCTAAATCCTTTCTATAATAATATCAATGGACTACCCA
1 TCCGGGCTAAATCCTTTCTATAATAATATCAATGGACTACCCA
* * * *
19719719 TCTGGGCTAAATCCTTTCTATAATGATATCAATGGATTACCCG
1 TCCGGGCTAAATCCTTTCTATAATAATATCAATGGACTACCCA
*
19719762 TCCGGGCTAAATCCGTTCT
1 TCCGGGCTAAATCCTTTCT
19719781 GCAACACATG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (43 bp):
TCCGGGCTAAATCCTTTCTATAATAATATCAATGGACTACCCA
Found at i:19735753 original size:16 final size:16
Alignment explanation
Indices: 19735716--19735746 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19735706 CAAGAGAAAG
*
19735716 AAAAAGTAAATTAAAA
1 AAAAATTAAATTAAAA
19735732 AAAAATTAAATTAAA
1 AAAAATTAAATTAAA
19735747 TTAAAATGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAAATTAAATTAAAA
Found at i:19736250 original size:22 final size:22
Alignment explanation
Indices: 19736222--19736265 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
19736212 TTATGTTACT
19736222 ATCCCTATTCAAGACTAATAAC
1 ATCCCTATTCAAGACTAATAAC
19736244 ATCCCTATTCAAGACTAATAAC
1 ATCCCTATTCAAGACTAATAAC
19736266 GTCTAATCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.27, G:0.05, T:0.27
Consensus pattern (22 bp):
ATCCCTATTCAAGACTAATAAC
Found at i:19740213 original size:29 final size:29
Alignment explanation
Indices: 19740098--19740213 Score: 151
Period size: 29 Copynumber: 4.0 Consensus size: 29
19740088 TGAAAATAAG
* * * *
19740098 GTGATTTGGGCCTAACGGGCCATATAAAG
1 GTGAATTGGGCCTAATGGGCCATATGAAT
* *
19740127 GTGATTTGGGCCTAATTGGCCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
* *
19740156 ATGAATTGGGCCTAATGGGTCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
*
19740185 GTGAATTGGGCCTAATGGGTCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
19740214 TAGATGGGCC
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 78 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (29 bp):
GTGAATTGGGCCTAATGGGCCATATGAAT
Found at i:19751694 original size:13 final size:13
Alignment explanation
Indices: 19751676--19751700 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19751666 CCAAGCACAC
19751676 GCCCGTGTCCCTG
1 GCCCGTGTCCCTG
19751689 GCCCGTGTCCCT
1 GCCCGTGTCCCT
19751701 CACAGGGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.48, G:0.28, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCCTG
Found at i:19770356 original size:58 final size:57
Alignment explanation
Indices: 19770209--19770356 Score: 156
Period size: 57 Copynumber: 2.6 Consensus size: 57
19770199 CGTATAACAG
* * * * * *
19770209 GATTACCATTCCAGGCTAAATCCTTTATATAACGTAAGCTCAGAGGAGTTCGATTAG
1 GATTACCAGTCCAGGCTAAATCCTTTCTATAACGTAAGCTCAGAGGAATTAGATCAA
* * *
19770266 GATTACCAGTCCAGGCTAAACCCTAATC-ATAACGTAAGCTC-GAGAGATATTATATCAA
1 GATTACCAGTCCAGGCTAAATCCT-TTCTATAACGTAAGCTCAGAG-GA-ATTAGATCAA
* *
19770324 GATTACCCGTCCGGGCTAAATCCTTTCTATAAC
1 GATTACCAGTCCAGGCTAAATCCTTTCTATAAC
19770357 AAGGTCAATA
Statistics
Matches: 74, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
56 3 0.04
57 39 0.53
58 32 0.43
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (57 bp):
GATTACCAGTCCAGGCTAAATCCTTTCTATAACGTAAGCTCAGAGGAATTAGATCAA
Found at i:19770928 original size:20 final size:20
Alignment explanation
Indices: 19770899--19770943 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
19770889 AACACATGTA
* *
19770899 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
19770919 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
19770939 TTCAT
1 TTCAT
19770944 TTTAGTTCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:19774238 original size:51 final size:51
Alignment explanation
Indices: 19774161--19774300 Score: 133
Period size: 51 Copynumber: 2.7 Consensus size: 51
19774151 CGGATGCCCG
* * * *
19774161 GTGGCCTGCACATTGTACCACCCTTGT-AGTCAAAGCTACCTTCTT-CACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTACCTT-TTACACAAA
* *
19774212 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTTACACATA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTACCTTTTACACAAA
* * * * *
19774263 GTGG-CTTGCACTTAGCACCACACATGTGATCGAAGCTA
1 GTGGCCTT-CACATAGTACCACACTTGTGACCAAAGCTA
19774301 TCGTACGCAT
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
50 5 0.07
51 69 0.92
52 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTACCTTTTACACAAA
Found at i:19774301 original size:51 final size:51
Alignment explanation
Indices: 19774191--19774391 Score: 160
Period size: 51 Copynumber: 4.0 Consensus size: 51
19774181 CCCTTGTAGT
* * * *
19774191 CAAAGCTACCTTCTT-CACAAAGTGGCCTT-CACATAGTACCACACTTGTGAC
1 CAAAGCTATCTT-TTACACATAGTGG-CTTGCACTTAGTACCACACATGTGAC
* *
19774242 CAAAGCTATCTTTTACACATAGTGGCTTGCACTTAGCACCACACATGTGAT
1 CAAAGCTATCTTTTACACATAGTGGCTTGCACTTAGTACCACACATGTGAC
* * * * * *
19774293 CGAAGCTATC--GTACGCATAGTAGCTTGCACTTAGTACTACACACGTGAC
1 CAAAGCTATCTTTTACACATAGTGGCTTGCACTTAGTACCACACATGTGAC
* * * * * * *
19774342 CTAAAACCAT-TTTAAACACATAGTAGTTTGCACATAGTACTACACATGTG
1 C-AAAGCTATCTTT-TACACATAGTGGCTTGCACTTAGTACCACACATGTG
19774392 TTCTCACAAC
Statistics
Matches: 121, Mismatches: 23, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
49 33 0.27
50 10 0.08
51 47 0.39
52 31 0.26
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (51 bp):
CAAAGCTATCTTTTACACATAGTGGCTTGCACTTAGTACCACACATGTGAC
Found at i:19776563 original size:42 final size:42
Alignment explanation
Indices: 19776501--19776584 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
19776491 AAACCAAGAG
*
19776501 ATACAATTATCATTCATCACTTAATAATTATTTTCCAACAAT
1 ATACAATTATCATTCATCACTCAATAATTATTTTCCAACAAT
*
19776543 ATACAATTATCATTCTTCACTCAATAATTATTTTCCAACAAT
1 ATACAATTATCATTCATCACTCAATAATTATTTTCCAACAAT
19776585 GGTTCTTCTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.40
Consensus pattern (42 bp):
ATACAATTATCATTCATCACTCAATAATTATTTTCCAACAAT
Found at i:19778518 original size:9 final size:9
Alignment explanation
Indices: 19778504--19778545 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
19778494 TTACATAAAC
19778504 TTATAAATA
1 TTATAAATA
19778513 TTATAAA-A
1 TTATAAATA
* *
19778521 ATATAAGTA
1 TTATAAATA
19778530 TTATAAATA
1 TTATAAATA
19778539 TTATAAA
1 TTATAAA
19778546 AATATCCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 6 0.21
9 22 0.79
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (9 bp):
TTATAAATA
Found at i:19778524 original size:11 final size:11
Alignment explanation
Indices: 19778508--19778618 Score: 51
Period size: 11 Copynumber: 10.4 Consensus size: 11
19778498 ATAAACTTAT
19778508 AAATATTATAA
1 AAATATTATAA
*
19778519 AAATATAAGTATTAT
1 AAATAT---TA-TAA
19778534 AAATATTATAA
1 AAATATTATAA
*
19778545 AAATATCCA-AA
1 AAATAT-TATAA
*
19778556 AAA-A-TCTAA
1 AAATATTATAA
*
19778565 TAA-ATTATAA
1 AAATATTATAA
19778575 AAA-ATT-TAGA
1 AAATATTATA-A
* *
19778585 AAAAATAATAA
1 AAATATTATAA
19778596 AAATATT-T-A
1 AAATATTATAA
19778605 AAAT-TTATAA
1 AAATATTATAA
19778615 AAAT
1 AAAT
19778619 GTATTAAAAT
Statistics
Matches: 77, Mismatches: 11, Indels: 25
0.68 0.10 0.22
Matches are distributed among these distances:
8 2 0.03
9 13 0.17
10 20 0.26
11 27 0.35
12 5 0.06
14 2 0.03
15 8 0.10
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (11 bp):
AAATATTATAA
Found at i:19778634 original size:21 final size:20
Alignment explanation
Indices: 19778592--19778659 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
19778582 AGAAAAAATA
*
19778592 ATAAAAATAT-TTAAAATTT
1 ATAAAAATGTATTAAAATTT
19778611 ATAAAAATGTATTAAAATTCT
1 ATAAAAATGTATTAAAATT-T
* *
19778632 ATAAAAA-GCATTAAAATTA
1 ATAAAAATGTATTAAAATTT
19778651 ATATAAAAT
1 ATA-AAAAT
19778660 TATAAAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 12 0.29
20 22 0.52
21 8 0.19
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (20 bp):
ATAAAAATGTATTAAAATTT
Found at i:19778638 original size:11 final size:10
Alignment explanation
Indices: 19778569--19778638 Score: 54
Period size: 10 Copynumber: 6.9 Consensus size: 10
19778559 ATCTAATAAA
19778569 TTATAAAAAAT
1 TTAT-AAAAAT
* *
19778580 TTAGAAAAAA
1 TTATAAAAAT
*
19778590 TAATAAAAAT
1 TTATAAAAAT
19778600 ATT-T-AAAAT
1 -TTATAAAAAT
19778609 TTATAAAAAT
1 TTATAAAAAT
* *
19778619 GTATTAAAAT
1 TTATAAAAAT
19778629 TCTATAAAAA
1 T-TATAAAAA
19778639 GCATTAAAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
8 2 0.04
9 6 0.13
10 26 0.58
11 11 0.24
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (10 bp):
TTATAAAAAT
Found at i:19781097 original size:18 final size:18
Alignment explanation
Indices: 19781049--19781099 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
19781039 TTAACTTCAA
19781049 AAAAATCAAATAA-TTTG
1 AAAAATCAAATAACTTTG
* ** *
19781066 AATAATTGATTAACTTTG
1 AAAAATCAAATAACTTTG
19781084 AAAAATCAAATAACTT
1 AAAAATCAAATAACTT
19781100 GCATAACTCA
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (18 bp):
AAAAATCAAATAACTTTG
Found at i:19781835 original size:5 final size:6
Alignment explanation
Indices: 19781820--19781844 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
19781810 TTGTAATGGT
19781820 AAAAAG AAAAAG AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG A
19781845 TATTTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:19782771 original size:14 final size:13
Alignment explanation
Indices: 19782752--19782795 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 13
19782742 TAATTTATTT
19782752 TAAATAAAATATAA
1 TAAATAAAATA-AA
19782766 TAAATAAAATAAA
1 TAAATAAAATAAA
*
19782779 TTAAT-AAATAAA
1 TAAATAAAATAAA
*
19782791 AAAAT
1 TAAAT
19782796 TTCAGCATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 10 0.37
13 6 0.22
14 11 0.41
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
TAAATAAAATAAA
Found at i:19782785 original size:17 final size:17
Alignment explanation
Indices: 19782753--19782796 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 17
19782743 AATTTATTTT
19782753 AAATAAAATATAATAAATA
1 AAAT-AAAT-TAATAAATA
19782772 AAATAAATTAATAAATA
1 AAATAAATTAATAAATA
19782789 AAA-AAATT
1 AAATAAATT
19782797 TCAGCATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.20
17 12 0.48
18 4 0.16
19 4 0.16
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATAAATTAATAAATA
Found at i:19787174 original size:11 final size:11
Alignment explanation
Indices: 19787142--19787182 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
19787132 GAATAAAAAG
*
19787142 TATATACATAG
1 TATATACATAA
*
19787153 TAT-TA-AAAA
1 TATATACATAA
19787162 TATATACATAA
1 TATATACATAA
19787173 TATATACATA
1 TATATACATA
19787183 TTAGAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
9 5 0.20
10 4 0.16
11 16 0.64
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (11 bp):
TATATACATAA
Found at i:19787238 original size:2 final size:2
Alignment explanation
Indices: 19787233--19787270 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
19787223 ATATACACAC
19787233 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19787271 TGAAAATTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19787553 original size:25 final size:26
Alignment explanation
Indices: 19787525--19787589 Score: 87
Period size: 25 Copynumber: 2.5 Consensus size: 26
19787515 AATAATGTGA
*
19787525 TATTAAAAATATATACAATATATA-G
1 TATTAAAAATATACACAATATATAGG
* *
19787550 TATTAAGAATATACGCAATATATATGG
1 TATTAAAAATATACACAATATATA-GG
19787577 TATTAAAAATATA
1 TATTAAAAATATA
19787590 GTATTAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 21 0.62
27 13 0.38
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (26 bp):
TATTAAAAATATACACAATATATAGG
Found at i:19787659 original size:23 final size:21
Alignment explanation
Indices: 19787628--19787670 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
19787618 GTATTGATTA
19787628 AAAAAACTAATAATAGTAATAGT
1 AAAAAACTAATAA-A-TAATAGT
*
19787651 AAAATACTAATAAATAATAG
1 AAAAAACTAATAAATAATAG
19787671 ATATAGTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 12 0.63
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.26
Consensus pattern (21 bp):
AAAAAACTAATAAATAATAGT
Found at i:19787944 original size:2 final size:2
Alignment explanation
Indices: 19787895--19787925 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
19787885 AATATTAGAC
19787895 AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19787926 GGTAATATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19788040 original size:26 final size:26
Alignment explanation
Indices: 19787949--19788040 Score: 73
Period size: 26 Copynumber: 3.5 Consensus size: 26
19787939 TATATAACTA
*
19787949 ATAATATTTAAGAA-TGTATACATAAT
1 ATAATA-TTAAGAATTATATACATAAT
* ** *
19787975 ATAGTAAGAA-ATATATATATACGTAAT
1 ATAATATTAAGA-AT-TATATACATAAT
*
19788002 ATAGA-ATTTAGAATTATATACATAAT
1 ATA-ATATTAAGAATTATATACATAAT
19788028 ATAATATTAAGAA
1 ATAATATTAAGAA
19788041 AATTAATAAT
Statistics
Matches: 49, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
24 1 0.02
25 4 0.08
26 26 0.53
27 17 0.35
28 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.09, T:0.36
Consensus pattern (26 bp):
ATAATATTAAGAATTATATACATAAT
Done.