Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 70 of 199
Found at i:19714273 original size:23 final size:25
Alignment explanation
Indices: 19714247--19714298 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
19714237 TTTCTTTTCT
*
19714247 TCTTTCTTTTC-ATTTTTTT-CTTC
1 TCTTTCTTGTCGATTTTTTTCCTTC
*
19714270 TC-TTGTTGTCGATTTTTTTCCTTC
1 TCTTTCTTGTCGATTTTTTTCCTTC
19714294 TCTTT
1 TCTTT
19714299 TCCCTCTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 6 0.25
23 10 0.42
24 6 0.25
25 2 0.08
ACGTcount: A:0.04, C:0.21, G:0.06, T:0.69
Consensus pattern (25 bp):
TCTTTCTTGTCGATTTTTTTCCTTC
Found at i:19715268 original size:27 final size:27
Alignment explanation
Indices: 19715182--19715590 Score: 413
Period size: 27 Copynumber: 15.2 Consensus size: 27
19715172 CGATTTGTGA
*
19715182 TAAAATTACCGAAGTACCC-CTGAAGGG
1 TAAAATTACCGAAATACCCTC-GAAGGG
* * * *
19715209 TAAAATTATCAAAATATCC-CAAAGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
19715235 TAAAATTACCGAAATACCCTCGAAGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
* * *
19715262 TAAAATTATCAAAATATCCTCGAAGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
** *
19715289 TAAAATTACTAAAATA-CCTCCAAAGGG
1 TAAAATTACCGAAATACCCT-CGAAGGG
* *
19715316 TAAAATTACCAAAATACCC-CTAAAGGG
1 TAAAATTACCGAAATACCCTC-GAAGGG
* *
19715343 TAAAATTACCGAAATACCCTCAAAAGG
1 TAAAATTACCGAAATACCCTCGAAGGG
19715370 TAAAATTACCGAAAT-CCTCTCGAAGGG
1 TAAAATTACCGAAATACC-CTCGAAGGG
* * *
19715397 TAAAATTACC-AAATACCCCCGAAAGA
1 TAAAATTACCGAAATACCCTCGAAGGG
* *
19715423 TAAAATTATCGAAATA-CCTCCAAAGGG
1 TAAAATTACCGAAATACCCT-CGAAGGG
* *
19715450 TAAAATTATCGAAATACCCTCGAAGAG
1 TAAAATTACCGAAATACCCTCGAAGGG
* * **
19715477 TAAAATGACTGTTATACCCTCAGAA-GG
1 TAAAATTACCGAAATACCCTC-GAAGGG
* *
19715504 TAAAATTATCGAAATCCCCTCGAAGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
*
19715531 TAAAATTAGCGAAATA-CCTCCGAAGGG
1 TAAAATTACCGAAATACCCT-CGAAGGG
* *
19715558 TAAAATTATCGAAATACCCTCAAAGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
19715585 TAAAAT
1 TAAAAT
19715591 GACTAATATA
Statistics
Matches: 322, Mismatches: 46, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
26 54 0.17
27 256 0.80
28 12 0.04
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTCGAAGGG
Found at i:19715783 original size:26 final size:26
Alignment explanation
Indices: 19715747--19715798 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
19715737 AAGTATATTG
*
19715747 TACTGTTACTAGTAGCCTTGCTGCGT
1 TACTGTTACTAGCAGCCTTGCTGCGT
*
19715773 TACTGTTACTAGCAGCTTTGCTGCGT
1 TACTGTTACTAGCAGCCTTGCTGCGT
19715799 CATTATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
TACTGTTACTAGCAGCCTTGCTGCGT
Found at i:19721517 original size:38 final size:38
Alignment explanation
Indices: 19721466--19721544 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
19721456 TATTAGCATG
19721466 AAGGGCTTTTGAGTCTCTTCCGTATAGGGTCCAATTAT
1 AAGGGCTTTTGAGTCTCTTCCGTATAGGGTCCAATTAT
19721504 AAGGGCTTTTGAGTCTCTTCCGTATAGGGTCCAATTAT
1 AAGGGCTTTTGAGTCTCTTCCGTATAGGGTCCAATTAT
19721542 AAG
1 AAG
19721545 TACATCCTGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (38 bp):
AAGGGCTTTTGAGTCTCTTCCGTATAGGGTCCAATTAT
Found at i:19731996 original size:34 final size:35
Alignment explanation
Indices: 19731930--19731998 Score: 95
Period size: 36 Copynumber: 2.0 Consensus size: 35
19731920 TGGTCTGATA
* *
19731930 TGACATTCTGATATGATATATGTGTTTCTGAAAATT
1 TGACAATCTGATATGATATA-GTGTTTATGAAAATT
*
19731966 TGACAATCTGGTATGATATA-TGTTTATGAAAAT
1 TGACAATCTGATATGATATAGTGTTTATGAAAAT
19731999 ATGATATTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 12 0.40
36 18 0.60
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (35 bp):
TGACAATCTGATATGATATAGTGTTTATGAAAATT
Found at i:19734963 original size:16 final size:16
Alignment explanation
Indices: 19734925--19734958 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
19734915 AAACCTTCTT
19734925 TTATAAATGTTATATA
1 TTATAAATGTTATATA
19734941 TTATAAAT-TT-TATA
1 TTATAAATGTTATATA
19734955 TTAT
1 TTAT
19734959 TTAAAACTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 2 0.11
16 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TTATAAATGTTATATA
Found at i:19738520 original size:21 final size:21
Alignment explanation
Indices: 19738494--19738555 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
19738484 ATCTGCTCAA
* *
19738494 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
19738515 ACTCCACCTGCTGTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
19738536 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
19738556 TTGCTCGTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.19, C:0.31, G:0.23, T:0.27
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:19743553 original size:3 final size:3
Alignment explanation
Indices: 19743545--19743581 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
19743535 ATACATGGCG
*
19743545 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA TTA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
19743582 GATGTTATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:19744913 original size:27 final size:27
Alignment explanation
Indices: 19744883--19744939 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
19744873 TCTACTGTGT
*
19744883 CTTGTTGCTTCAATCTACTCCACTGCA
1 CTTGTTGCTTCAATCCACTCCACTGCA
*
19744910 CTTGTTGCTTCGATCCACTCCACTGCA
1 CTTGTTGCTTCAATCCACTCCACTGCA
19744937 CTT
1 CTT
19744940 CAGAAAGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.16, C:0.35, G:0.12, T:0.37
Consensus pattern (27 bp):
CTTGTTGCTTCAATCCACTCCACTGCA
Found at i:19745088 original size:44 final size:44
Alignment explanation
Indices: 19745025--19745316 Score: 173
Period size: 44 Copynumber: 6.5 Consensus size: 44
19745015 TCCACTACTA
* *
19745025 CAACTTCAGAGG-TATAAGATTCATCGTTTTAATCCGCTCCACTG
1 CAACTTCAG-GGAGATAAGATTCATCGTTTCAATCCGCTCCACTG
* *
19745069 CAACTTCAAGGAGATAAGATTGGTATC--TTCAA-CCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATT--CATCGTTTCAATCC-GCTCCACTG
* ** ** * *
19745113 CAACTTCAGGGAGATAAGGTTGGTTATCTTCAGTCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATTCATCGT-TTCAATCCGCTCCACTG
* * * * *
19745158 CAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCAAC-CTACTG
1 CAACTTCAGGGAGATAAGA--T-TCATCGT---TTCAATCC-GCTCCACTG
* * * * * * *
19745208 TAACTTCAGAGG-TATAGGATTCATCATTTTAATCTGCTCCATTG
1 CAACTTCAG-GGAGATAAGATTCATCGTTTCAATCCGCTCCACTG
* * * * *
19745252 CAACTTCAGGGAGATATGATTAATAGCTTCAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATTCATCGTTTCAATCCGCTCCACTG
19745296 CAACTTCAGGGAGATAAGATT
1 CAACTTCAGGGAGATAAGATT
19745317 GGTATCCTCA
Statistics
Matches: 189, Mismatches: 42, Indels: 34
0.71 0.16 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.04
44 111 0.59
45 31 0.16
46 4 0.02
47 5 0.03
48 4 0.02
50 23 0.12
51 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATTCATCGTTTCAATCCGCTCCACTG
Found at i:19745171 original size:89 final size:88
Alignment explanation
Indices: 19745060--19745450 Score: 304
Period size: 89 Copynumber: 4.3 Consensus size: 88
19745050 GTTTTAATCC
* *
19745060 GCTCCACTGCAACTTCAAGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTAGCTTCAACCTGCTCCACTGCAACTTCAGGGA
*
19745125 GATAAGGTTGGTTATCTTCAGTCT
66 GATAAGATTGGTTATCTTCA-TCT
* * ** * *
19745149 GCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCAAC-CTACTGTAACT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-----T-TGGTAGCTTCAA-CCTGCTCCACTGCAACT
* * ** * * *
19745213 TCAGAGG-TATAGGATTCATCATTTTAATCT
59 TCAG-GGAGATAAGATTGGTTATCTTCATCT
* * ** *
19745243 GCTCCATTGCAACTTCAGGGAGATATGATTAATAGCTTCAATCTGCTCCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTAGCTTCAACCTGCTCCACTGCAACTTCAGGGA
* *
19745308 GATAAGATTGG-TATCCTCAACTT
66 GATAAGATTGGTTATCTTCATC-T
* * * * * **
19745331 GTTCCACT-CTAACTTCAGGGAGACAAGGTTGGTTATCTTTAGTCTGCTCCACTGCAACTTCAGG
1 GCTCCACTGC-AACTTCAGGGAGATAAGATTGG-TAGCTTCAACCTGCTCCACTGCAACTTCAGG
* * * *
19745395 GAGATAAGACTAGTTATGGTGTGATCT
64 GAGATAAGATTGGTTAT-CT-TCATCT
* *
19745422 GCTCTACTGCAACTTCAGAGAGATAAGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGAT
19745451 CTACTATCTT
Statistics
Matches: 228, Mismatches: 57, Indels: 32
0.72 0.18 0.10
Matches are distributed among these distances:
87 10 0.04
88 52 0.23
89 67 0.29
90 3 0.01
91 23 0.10
92 4 0.02
94 30 0.13
95 34 0.15
96 5 0.02
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (88 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGGTAGCTTCAACCTGCTCCACTGCAACTTCAGGGA
GATAAGATTGGTTATCTTCATCT
Found at i:19745337 original size:44 final size:44
Alignment explanation
Indices: 19745055--19745450 Score: 262
Period size: 44 Copynumber: 8.8 Consensus size: 44
19745045 TCATCGTTTT
* * *
19745055 AATCCGCTCCACTGCAACTTCAAGGAGATAAGATTGGTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCCTC
* * *
19745099 AACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTGGTTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGG-TATCCTC
* * **
19745144 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTATCCTC
* * * * * * ** * *
19745188 AGATTTAATCCAACCTACTGTAACTTCAGAGG-TATAGGATTCATCAT-TTT
1 A-A--T-CTGC-TCC-ACTGCAACTTCAG-GGAGATAAGATTGGT-ATCCTC
* * ** * *
19745238 AATCTGCTCCATTGCAACTTCAGGGAGATATGATTAATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCCTC
19745282 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCCTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCCTC
* * * * *
19745326 AA-CTTGTTCCACT-CTAACTTCAGGGAGACAAGGTTGGTTATCTTT
1 AATC-TGCTCCACTGC-AACTTCAGGGAGATAAGATTGG-TATCCTC
* * * ** *
19745371 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTTATGGTGT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTATCCT-C
* * *
19745417 GATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
19745451 CTACTATCTT
Statistics
Matches: 279, Mismatches: 53, Indels: 39
0.75 0.14 0.11
Matches are distributed among these distances:
43 5 0.02
44 124 0.44
45 78 0.28
46 39 0.14
47 2 0.01
48 2 0.01
49 7 0.03
50 20 0.07
51 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCCTC
Found at i:19746051 original size:123 final size:123
Alignment explanation
Indices: 19745832--19746060 Score: 325
Period size: 123 Copynumber: 1.9 Consensus size: 123
19745822 GATTCACTGC
* * * *
19745832 CTTCAGCTTTAATCTGCTCCGCTGCAATGTCAGGAAAACAAGATTCGCTACCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTACTCCACTACAATGCCAGGAAAACAAGATTCGCTACCTTTAGCTTTAATC
* * *
19745897 TATTCCACTGTAACGCTAAGGAGATAGGATTCGATGCCTTCAACTTTAATCCGCTTCA
66 TATTCCACTGTAAAGCTAAGGAAATAAGATTCGATGCCTTCAACTTTAATCCGCTTCA
* * *
19745955 CTTCAGCTTTAATCTATTCCACTACAATGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTACTCCACTACAATGCCAGGAAAACAAGATTCGCTACCTTTAGCTTTAATC
* * *
19746020 TGTTCCACTGTAAAG-TCAGGGAAATAAGATTCGATGTCTTC
66 TATTCCACTGTAAAGCT-AAGGAAATAAGATTCGATGCCTTC
19746061 GATCTGCTCC
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
122 1 0.01
123 91 0.99
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (123 bp):
CTTCAGCTTTAATCTACTCCACTACAATGCCAGGAAAACAAGATTCGCTACCTTTAGCTTTAATC
TATTCCACTGTAAAGCTAAGGAAATAAGATTCGATGCCTTCAACTTTAATCCGCTTCA
Found at i:19746289 original size:132 final size:131
Alignment explanation
Indices: 19746038--19746274 Score: 314
Period size: 132 Copynumber: 1.8 Consensus size: 131
19746028 TGTAAAGTCA
* * **
19746038 GGGAAATAAGATTCGATGTCTTCGATCTGCTCCACAACTGCTTAAGGAGGCAGGATCTGTAATCT
1 GGGAAATAAGATTCGACGTCTTCGATCTGCTCCACAACTGCTTAAGGAGACAGGATCTACAATCT
* * *
19746103 TCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCT
66 TCAACCTACTCCACTGCTACTCAAGGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTACCT
19746168 T
131 T
* * *
19746169 GGGAAGATAAGATTC-ACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAAT
1 GGGAA-ATAAGATTCGA-CGTCTTCGATCTGCTCCACAACTGCTTAAGGAGACAGGATCTACAAT
* ** * *
19746233 CTTCGACCTACTTTACTGCTACTTAAGGAGATAGGGCTAGTG
64 CTTCAACCTACTCCACTGCTACTCAAGGAGATAGGACTAGTG
19746275 TTTTCGATCT
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
131 6 0.07
132 83 0.93
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (131 bp):
GGGAAATAAGATTCGACGTCTTCGATCTGCTCCACAACTGCTTAAGGAGACAGGATCTACAATCT
TCAACCTACTCCACTGCTACTCAAGGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTACCT
T
Found at i:19746313 original size:132 final size:132
Alignment explanation
Indices: 19746055--19746313 Score: 286
Period size: 132 Copynumber: 2.0 Consensus size: 132
19746045 AAGATTCGAT
* **
19746055 GTCTTCGATCTGCTCCACAACTGCTTAAGGAGGCAGGATCTGTAATCTTCAACCTACTCCACTGC
1 GTCTTCGATCTGCTCCACAACTGCTTAAGGAGACAGGATCTACAATCTTCAACCTACTCCACTGC
* * * * * * *
19746120 TGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCA
66 TACTCAAGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACCACCTTAGGAAGACAAGATTCA
19746185 CC
131 CC
* * * * **
19746187 GTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCGACCTACTTTACTGC
1 GTCTTCGATCTGCTCCACAACTGCTTAAGGAGACAGGATCTACAATCTTCAACCTACTCCACTGC
* * ** ** * *
19746252 TACTTAAGGAGATAGGGCTAGTGTTTTCGATCTGCTTCACTGCCA-GTATAGGAAGACAAGAT
66 TACTCAAGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACCACCT-TAGGAAGACAAGAT
19746314 CTACAATCTT
Statistics
Matches: 102, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
131 1 0.01
132 101 0.99
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (132 bp):
GTCTTCGATCTGCTCCACAACTGCTTAAGGAGACAGGATCTACAATCTTCAACCTACTCCACTGC
TACTCAAGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACCACCTTAGGAAGACAAGATTCA
CC
Found at i:19746315 original size:88 final size:88
Alignment explanation
Indices: 19746217--19746676 Score: 668
Period size: 88 Copynumber: 5.2 Consensus size: 88
19746207 CTGCTTAGGG
* * ** * * * * *
19746217 AGACAGGATCTACAATCTTCGACCTACTTTACTGCTACTTAAGGAGATAGGGCTAGTGTTTTCGA
1 AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGTTTTCGA
* *
19746282 TCTGCTTCACTGCCAGTATAGGA
66 TCTACTTCACTGCCAGTACAGGA
* * *
19746305 AGACAAGATCTACAATCTTCAACCTACTCCACTGTTACTCAGGGAGATAAAGCTGGTGTTTTCGA
1 AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGTTTTCGA
*
19746370 TCTACTTCATTGCCAGTACAGGA
66 TCTACTTCACTGCCAGTACAGGA
*
19746393 AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGTTATCGA
1 AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGTTTTCGA
* *
19746458 TCTACTTCACTGCTAGTACAAGA
66 TCTACTTCACTGCCAGTACAGGA
* * * *
19746481 AGACAAGATCTACAATCTTCAACCTACTCCATTACTGCTTAGGGAGATAAGGCTAGTGTTTTCGA
1 AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGTTTTCGA
19746546 TCTACTTCACTGCCAGTACAGGA
66 TCTACTTCACTGCCAGTACAGGA
* * *
19746569 AGGCAAGATCTATAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCCGGTGTTTTCGA
1 AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGTTTTCGA
* *
19746634 TCTACTTCATTGCCAGTATAGGA
66 TCTACTTCACTGCCAGTACAGGA
*
19746657 AAACAAGATCTACAATCTTC
1 AGACAAGATCTACAATCTTC
19746677 TTCAATCCAT
Statistics
Matches: 333, Mismatches: 39, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 333 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (88 bp):
AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGTTTTCGA
TCTACTTCACTGCCAGTACAGGA
Found at i:19747021 original size:24 final size:24
Alignment explanation
Indices: 19746987--19747043 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
19746977 TTGCCCCCAC
*
19746987 TGTAATCTTCAAGGTCCAATCCAT
1 TGTAATTTTCAAGGTCCAATCCAT
*
19747011 TGTAATTTTCAAGGTTCAATCCAT
1 TGTAATTTTCAAGGTCCAATCCAT
*
19747035 TGTGATTTT
1 TGTAATTTT
19747044 GGGACATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (24 bp):
TGTAATTTTCAAGGTCCAATCCAT
Found at i:19754077 original size:47 final size:47
Alignment explanation
Indices: 19754012--19754102 Score: 137
Period size: 47 Copynumber: 1.9 Consensus size: 47
19754002 CACATTTCAT
*
19754012 TGAAACCGTAATTAAGCTTTGTCTACAATCTTGCAAACTCATTTGCC
1 TGAAACAGTAATTAAGCTTTGTCTACAATCTTGCAAACTCATTTGCC
* * * *
19754059 TGAAACAGTAATTGAGCTTTGTCTATACTTTTGCAAACTCATTT
1 TGAAACAGTAATTAAGCTTTGTCTACAATCTTGCAAACTCATTT
19754103 TTTTAAACCG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (47 bp):
TGAAACAGTAATTAAGCTTTGTCTACAATCTTGCAAACTCATTTGCC
Found at i:19756568 original size:72 final size:72
Alignment explanation
Indices: 19756451--19756595 Score: 281
Period size: 72 Copynumber: 2.0 Consensus size: 72
19756441 GTGTTACATA
19756451 TGCTCAAGTCTACACAAAACCTAACATTGCATTTGCAATTGGAATGTTTGGAAGATATCAGAGTA
1 TGCTCAAGTCTACACAAAACCTAACATTGCATTTGCAATTGGAATGTTTGGAAGATATCAGAGTA
19756516 ATCCAAG
66 ATCCAAG
*
19756523 TGCTCAAGTCTACACAAAACCTAACATTGCATTTGCAATTTGAATGTTTGGAAGATATCAGAGTA
1 TGCTCAAGTCTACACAAAACCTAACATTGCATTTGCAATTGGAATGTTTGGAAGATATCAGAGTA
19756588 ATCCAAG
66 ATCCAAG
19756595 T
1 T
19756596 ACTGGCCATT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (72 bp):
TGCTCAAGTCTACACAAAACCTAACATTGCATTTGCAATTGGAATGTTTGGAAGATATCAGAGTA
ATCCAAG
Found at i:19762220 original size:46 final size:47
Alignment explanation
Indices: 19762168--19762262 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 47
19762158 ATCATATATA
*
19762168 TGTGGTCAAGCCACTAT-ATTGCAGCCAAGCTGCCAAAACAGAAATG
1 TGTGGTCAAGCCACTATAACTGCAGCCAAGCTGCCAAAACAGAAATG
* * *
19762214 TGTGGTCGAGCCACTATAACTGCAGTCAAGCTGCCATAACAGAAATG
1 TGTGGTCAAGCCACTATAACTGCAGCCAAGCTGCCAAAACAGAAATG
19762261 TG
1 TG
19762263 GTTAAATCAC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
46 16 0.36
47 28 0.64
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (47 bp):
TGTGGTCAAGCCACTATAACTGCAGCCAAGCTGCCAAAACAGAAATG
Found at i:19766630 original size:15 final size:15
Alignment explanation
Indices: 19766610--19766641 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
19766600 GAACGATCAG
19766610 CTGAAAGATCCTCCT
1 CTGAAAGATCCTCCT
19766625 CTGAAAGATCCTCCT
1 CTGAAAGATCCTCCT
19766640 CT
1 CT
19766642 AAGGGGATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.34, G:0.12, T:0.28
Consensus pattern (15 bp):
CTGAAAGATCCTCCT
Found at i:19778578 original size:37 final size:37
Alignment explanation
Indices: 19778526--19778618 Score: 143
Period size: 37 Copynumber: 2.5 Consensus size: 37
19778516 TAGTGCTGAA
* *
19778526 GCGTGTTATTGGTTGGATTAGCTCTTATGAGCGTTTG
1 GCGTGTTATCGGTTGGATTAGCTCTCATGAGCGTTTG
*
19778563 GCGTGTTATCAGTTGGATTAGCTCTCATGAGCGTTTG
1 GCGTGTTATCGGTTGGATTAGCTCTCATGAGCGTTTG
*
19778600 GTGTGTT-TCGGTTGGATTA
1 GCGTGTTATCGGTTGGATTA
19778619 CTTAGTACTC
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
36 11 0.22
37 40 0.78
ACGTcount: A:0.14, C:0.12, G:0.32, T:0.42
Consensus pattern (37 bp):
GCGTGTTATCGGTTGGATTAGCTCTCATGAGCGTTTG
Found at i:19779209 original size:13 final size:13
Alignment explanation
Indices: 19779191--19779217 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19779181 TCTTCCCTAT
19779191 CAACATGTTTTCA
1 CAACATGTTTTCA
19779204 CAACATGTTTTCA
1 CAACATGTTTTCA
19779217 C
1 C
19779218 GTCAATTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (13 bp):
CAACATGTTTTCA
Found at i:19780390 original size:40 final size:41
Alignment explanation
Indices: 19780320--19780424 Score: 167
Period size: 40 Copynumber: 2.6 Consensus size: 41
19780310 ACTGGCAATT
* * * *
19780320 AGCCTGCTAGACGTAAAGTCCGAAATATTTCACTGGCGTCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
19780361 AGCCTGCT-GACGTAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
19780401 AGCCTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
19780425 TTATCTCATT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 36 0.61
41 23 0.39
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
Found at i:19788531 original size:10 final size:10
Alignment explanation
Indices: 19788518--19788562 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
19788508 ATAAAAGCAT
19788518 AAAAAGAAAC
1 AAAAAGAAAC
*
19788528 AAAAAGAAAT
1 AAAAAGAAAC
*
19788538 AGAAAGAAAC
1 AAAAAGAAAC
*
19788548 AGAATAGAAAC
1 A-AAAAGAAAC
19788559 AAAA
1 AAAA
19788563 CAGGGAGAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
10 20 0.71
11 8 0.29
ACGTcount: A:0.76, C:0.07, G:0.13, T:0.04
Consensus pattern (10 bp):
AAAAAGAAAC
Found at i:19788551 original size:16 final size:15
Alignment explanation
Indices: 19788522--19788562 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
19788512 AAGCATAAAA
19788522 AGAAACAAAAAGAAAT
1 AGAAACAAAAAG-AAT
* *
19788538 AGAAAGAAACAGAAT
1 AGAAACAAAAAGAAT
19788553 AGAAACAAAA
1 AGAAACAAAA
19788563 CAGGGAGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.73, C:0.07, G:0.15, T:0.05
Consensus pattern (15 bp):
AGAAACAAAAAGAAT
Found at i:19788563 original size:16 final size:17
Alignment explanation
Indices: 19788522--19788565 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
19788512 AAGCATAAAA
19788522 AGAAACAAAA-AGAAAT
1 AGAAACAAAACAGAAAT
*
19788538 AGAAA-GAAACAG-AAT
1 AGAAACAAAACAGAAAT
19788553 AGAAACAAAACAG
1 AGAAACAAAACAG
19788566 GGAGAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.70, C:0.09, G:0.16, T:0.05
Consensus pattern (17 bp):
AGAAACAAAACAGAAAT
Found at i:19794352 original size:19 final size:20
Alignment explanation
Indices: 19794306--19794352 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
19794296 GAGTTGATTA
*
19794306 AAGTTTAAGCCTAATTAATT
1 AAGTTTAAGCCTAATTAACT
*
19794326 ATAG-TTAAG-TTAATTAACT
1 A-AGTTTAAGCCTAATTAACT
19794345 AAGTTTAA
1 AAGTTTAA
19794353 CTAAAATAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 2 0.09
19 13 0.57
20 6 0.26
21 2 0.09
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (20 bp):
AAGTTTAAGCCTAATTAACT
Found at i:19796814 original size:16 final size:16
Alignment explanation
Indices: 19796793--19796824 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19796783 TAATTGGTTG
*
19796793 ATTTTTAGTTTAATTA
1 ATTTTTAGGTTAATTA
19796809 ATTTTTAGGTTAATTA
1 ATTTTTAGGTTAATTA
19796825 GATTAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (16 bp):
ATTTTTAGGTTAATTA
Found at i:19798027 original size:68 final size:69
Alignment explanation
Indices: 19797930--19798120 Score: 230
Period size: 68 Copynumber: 2.8 Consensus size: 69
19797920 GACCTCGAAA
* *
19797930 GAGTTT-TAATATGTAAGACCATAGCTAGGCTATGA-CAACATATGGAGTCCACCAAGACAATAA
1 GAGTTTATATTATGTAAGACCATAGCTAGGCTATGAGCAACATATGAAGTCCACCAAGACAATAA
19797993 ACAT
66 ACAT
* * ** * * *
19797997 GGGTTTATATTGA-GTAAGACCGTAGCTAGGCTAT-AGCAACATATGAAGTCTGCCAGGATAGTA
1 GAGTTTATATT-ATGTAAGACCATAGCTAGGCTATGAGCAACATATGAAGTCCACCAAGACAATA
19798060 AACAT
65 AACAT
* * *
19798065 GAGTTTATATTATGTAAGACCATAGCTAGGCTATG-GTAACAAATGAAGTCCGCCAA
1 GAGTTTATATTATGTAAGACCATAGCTAGGCTATGAGCAACATATGAAGTCCACCAA
19798121 AGTGGAAAAA
Statistics
Matches: 104, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
67 7 0.07
68 96 0.92
69 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (69 bp):
GAGTTTATATTATGTAAGACCATAGCTAGGCTATGAGCAACATATGAAGTCCACCAAGACAATAA
ACAT
Found at i:19799572 original size:17 final size:17
Alignment explanation
Indices: 19799540--19799574 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19799530 TTAATAATCC
19799540 ATTTTGTTGTTCTTTTA
1 ATTTTGTTGTTCTTTTA
*
19799557 ATTTTAGTTGTTTTTTTA
1 ATTTT-GTTGTTCTTTTA
19799575 TATGTGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.14, C:0.03, G:0.11, T:0.71
Consensus pattern (17 bp):
ATTTTGTTGTTCTTTTA
Found at i:19802088 original size:18 final size:18
Alignment explanation
Indices: 19802065--19802105 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
19802055 GTGTAGATTT
* * *
19802065 TTTGTCTATTTTGTTTCG
1 TTTGTCAATTTTCTTTAG
19802083 TTTGTCAATTTTCTTTAG
1 TTTGTCAATTTTCTTTAG
19802101 TTTGT
1 TTTGT
19802106 TTGTTTTGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.10, G:0.15, T:0.66
Consensus pattern (18 bp):
TTTGTCAATTTTCTTTAG
Found at i:19802820 original size:38 final size:38
Alignment explanation
Indices: 19802778--19802850 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 38
19802768 TTGAGTGAGC
** **
19802778 AAAAGCATTTTCAAGGTTAAAAGCATTGAGAGAGACAT
1 AAAAGCATGGTCAAGGTTAAAAGCAAAGAGAGAGACAT
* *
19802816 AAAAGCATGGTGAGGGTTAAAAGCAAAGAGAGAGA
1 AAAAGCATGGTCAAGGTTAAAAGCAAAGAGAGAGA
19802851 GAAATGGAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 29 1.00
ACGTcount: A:0.47, C:0.08, G:0.27, T:0.18
Consensus pattern (38 bp):
AAAAGCATGGTCAAGGTTAAAAGCAAAGAGAGAGACAT
Found at i:19805392 original size:27 final size:26
Alignment explanation
Indices: 19805362--19805419 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
19805352 AATTATTTTT
*
19805362 ATTTAATTTA-TAATAAATAATTTTTAA
1 ATTTAATTTATTAA-AAAT-ATTTGTAA
*
19805389 ATTTTATTTTATTAAAAATATTTGTAA
1 A-TTTAATTTATTAAAAATATTTGTAA
19805416 ATTT
1 ATTT
19805420 TTACAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
26 3 0.11
27 9 0.33
28 12 0.44
29 3 0.11
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (26 bp):
ATTTAATTTATTAAAAATATTTGTAA
Found at i:19805422 original size:28 final size:28
Alignment explanation
Indices: 19805363--19805420 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
19805353 ATTATTTTTA
*
19805363 TTTAATTTATAATAAATAATTTTTAAAT
1 TTTAATTTATAATAAATAATTTGTAAAT
*
19805391 TTTATTTTATTAA-AAAT-ATTTGTAAAT
1 TTTAATTTA-TAATAAATAATTTGTAAAT
19805418 TTT
1 TTT
19805421 TACAAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 12 0.44
28 12 0.44
29 3 0.11
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (28 bp):
TTTAATTTATAATAAATAATTTGTAAAT
Found at i:19806751 original size:113 final size:112
Alignment explanation
Indices: 19806389--19806794 Score: 338
Period size: 113 Copynumber: 3.6 Consensus size: 112
19806379 TTTCTTATAA
* * * * * * * * *
19806389 TTTTTCTAATTGGAGTAGGTATGATCCTAAGTTAACAC-CAATTAACTTACTTTTCTATGGTACA
1 TTTTTTTAAATGGATTAGGTATGATCCTAAATTAACACTGAGTTAACATACCTTT-T-TGGTATA
* * **
19806453 AAGTTTAAATAAAATAATTGAT-AATA-TATTCTTCTCCTTGCAA-TTTTT
64 AAGTTTAAATAAAATAATTGATCAATACTTTTTTTCTCAAT--AAGTTTTT
* * * **
19806501 TTTTTTTTAA-GAATTAGGTTTGATCCTAAATTAACACATGAGTTAACACATA-C--AAT-GT-T
1 TTTTTTTAAATGGATTAGGTATGATCCTAAATTAACAC-TGAGTT-A-ACATACCTTTTTGGTAT
* *
19806560 CAAA--TAAAATTAAAATAATTGATCAAATAC-TTTTTTCAT-GATAAGTTTTT
63 -AAAGTTTAAA-TAAAATAATTGATC-AATACTTTTTTTC-TCAATAAGTTTTT
*
19806610 TTTTTTTAAATGGATTAGGTATGGTCCTAAATTAACAC-GAGTTAACATACCTTTTTGGTATAAA
1 TTTTTTTAAATGGATTAGGTATGATCCTAAATTAACACTGAGTTAACATACCTTTTTGGTATAAA
*
19806674 GTTTAAATAAAACAATTGATCCAATACTTTTTTTCTCAATAAGTGTTTT
66 GTTTAAATAAAATAATTGAT-CAATACTTTTTTTCTCAATAAGT-TTTT
* *
19806723 TTTTTTTAAATGGATTAGGTATGATCCTAAATTAACACTTAGTTAAAATATTCTGCTTTTTGGTA
1 TTTTTTTAAATGGATTAGGTATGATCCTAAATTAACACTGAGTTAACATA--C--CTTTTTGGTA
19806788 TAAAGTT
62 TAAAGTT
19806795 GAAGAAAATG
Statistics
Matches: 235, Mismatches: 31, Indels: 50
0.74 0.10 0.16
Matches are distributed among these distances:
106 5 0.02
107 6 0.03
108 20 0.09
109 20 0.09
110 40 0.17
111 43 0.18
112 25 0.11
113 44 0.19
114 10 0.04
115 4 0.02
116 1 0.00
118 17 0.07
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (112 bp):
TTTTTTTAAATGGATTAGGTATGATCCTAAATTAACACTGAGTTAACATACCTTTTTGGTATAAA
GTTTAAATAAAATAATTGATCAATACTTTTTTTCTCAATAAGTTTTT
Found at i:19808658 original size:14 final size:15
Alignment explanation
Indices: 19808634--19808662 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19808624 CATTTGAGAG
19808634 AAAAAAGAAAAAAAC
1 AAAAAAGAAAAAAAC
19808649 AAAAAA-AAAAAAAC
1 AAAAAAGAAAAAAAC
19808663 CATCATGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.90, C:0.07, G:0.03, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAC
Found at i:19816329 original size:32 final size:32
Alignment explanation
Indices: 19816293--19816354 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
19816283 TCATAAACTT
* * *
19816293 ATAAATTGATTACTTGAACTTAATAACTCATG
1 ATAAATTAATTAATTCAACTTAATAACTCATG
* *
19816325 ATAAATTAATTAATTCAATTTTATAACTCA
1 ATAAATTAATTAATTCAACTTAATAACTCA
19816355 AACCGATTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (32 bp):
ATAAATTAATTAATTCAACTTAATAACTCATG
Found at i:19817508 original size:19 final size:19
Alignment explanation
Indices: 19817468--19817522 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 19
19817458 CTTGTGTTAT
* * *
19817468 AATTAAAAGA-TATTTATT
1 AATTAAATGATTATTAATA
19817486 AATTAAATGATTATTAATA
1 AATTAAATGATTATTAATA
* *
19817505 AATTATATTATTA-TAATA
1 AATTAAATGATTATTAATA
19817523 TAAAGTAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (19 bp):
AATTAAATGATTATTAATA
Found at i:19823019 original size:12 final size:12
Alignment explanation
Indices: 19823002--19823028 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
19822992 TAACACCCTT
19823002 TACTTGAGTTTG
1 TACTTGAGTTTG
19823014 TACTTGAGTTTG
1 TACTTGAGTTTG
19823026 TAC
1 TAC
19823029 CGAGTTAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.11, G:0.22, T:0.48
Consensus pattern (12 bp):
TACTTGAGTTTG
Found at i:19824061 original size:13 final size:13
Alignment explanation
Indices: 19824039--19824083 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
19824029 TTTCTATGCA
*
19824039 AAAATCTTATAAT
1 AAAATATTATAAT
19824052 AAAATATTATGAA-
1 AAAATATTAT-AAT
19824065 AAAATA-T-TAAT
1 AAAATATTATAAT
19824076 AAAATATT
1 AAAATATT
19824084 TTAACCAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
10 2 0.07
11 7 0.25
12 2 0.07
13 15 0.54
14 2 0.07
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (13 bp):
AAAATATTATAAT
Found at i:19829628 original size:21 final size:25
Alignment explanation
Indices: 19829582--19829649 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 25
19829572 CTTAACATTG
*
19829582 TTTTAAATTTATCATTAGT--T-TTA
1 TTTTAAA-TTATCATAAGTACTATTA
19829605 TTTT-AA-TATCAT-A-TACTATTA
1 TTTTAAATTATCATAAGTACTATTA
19829626 TTTTAAATTATCATAAGTACTATT
1 TTTTAAATTATCATAAGTACTATT
19829650 TAAATTTATC
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 7 0.18
21 7 0.18
22 4 0.11
23 10 0.26
24 1 0.03
25 7 0.18
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.54
Consensus pattern (25 bp):
TTTTAAATTATCATAAGTACTATTA
Found at i:19829658 original size:22 final size:21
Alignment explanation
Indices: 19829583--19829662 Score: 72
Period size: 22 Copynumber: 3.7 Consensus size: 21
19829573 TTAACATTGT
* *
19829583 TTTAAATTTATCATTAGTTTTA
1 TTTAAA-TTATCATAAGTATTA
* *
19829605 TTTTAA-TATCATATACTATTA
1 TTTAAATTATCATA-AGTATTA
*
19829626 TTTTAAATTATCATAAGTACTA
1 -TTTAAATTATCATAAGTATTA
19829648 TTTAAATTTATCATA
1 TTTAAA-TTATCATA
19829663 TATCATAATT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
20 6 0.13
21 11 0.23
22 23 0.49
23 7 0.15
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (21 bp):
TTTAAATTATCATAAGTATTA
Found at i:19829682 original size:24 final size:23
Alignment explanation
Indices: 19829647--19829733 Score: 90
Period size: 24 Copynumber: 3.8 Consensus size: 23
19829637 CATAAGTACT
19829647 ATTTAAATTTATCATATATCATA
1 ATTTAAATTTATCATATATCATA
*
19829670 ATTTAAAATTTATCATGTA-CTATA
1 ATTT-AAATTTATCATATATC-ATA
* *
19829694 ATATTAAACTTATC--ATATCATT
1 AT-TTAAATTTATCATATATCATA
*
19829716 ATTTAGATTTATCATATA
1 ATTTAAATTTATCATATA
19829734 CTATTTTTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
21 9 0.17
22 6 0.12
23 9 0.17
24 26 0.50
25 2 0.04
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTTAAATTTATCATATATCATA
Found at i:19829893 original size:34 final size:35
Alignment explanation
Indices: 19829855--19829932 Score: 85
Period size: 34 Copynumber: 2.3 Consensus size: 35
19829845 TCTAAAGAAC
*
19829855 TATATGATAGTATTTTCATACAT---TATTATTAT
1 TATATGATAGTATTTTCATACATAAAAATTATTAT
* *
19829887 TATAT-ATA-TATTTTTTATATATAAAAATTATTAT
1 TATATGATAGTA-TTTTCATACATAAAAATTATTAT
19829921 TATATGATAGTA
1 TATATGATAGTA
19829933 ATTTATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
30 2 0.05
31 12 0.32
32 5 0.14
34 13 0.35
35 3 0.08
36 2 0.05
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (35 bp):
TATATGATAGTATTTTCATACATAAAAATTATTAT
Found at i:19829924 original size:17 final size:17
Alignment explanation
Indices: 19829879--19829925 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
19829869 TTCATACATT
* *
19829879 ATTATTATTATATATAT
1 ATTATTATTATATAAAA
*
19829896 ATT-TTTTATATATAAAA
1 ATTATTAT-TATATAAAA
19829913 ATTATTATTATAT
1 ATTATTATTATAT
19829926 GATAGTAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
16 3 0.12
17 18 0.75
18 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTATTATTATATAAAA
Found at i:19835329 original size:123 final size:122
Alignment explanation
Indices: 19835230--19835723 Score: 307
Period size: 123 Copynumber: 4.1 Consensus size: 122
19835220 GACTGGTGGT
* * ** * * *
19835230 GGTGGGGACTTATGGATGTAGGGTGGTGGTGGTGAGTGGACTGGTGGTGGTGGAGACTTGTAG-A
1 GGTGGAGACTTATAGACATAGGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGACTTGT-GTA
* ** **
19835294 CATATGGTGGAGGTGGGGAGTGGACTGGTGGTGGAGGGGACTTGTATTTATAGGGAGGG
65 CATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGAGGGGACGAGTATGGATA-GGAGGG
* * * *
19835353 GGTGGAGATTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGATTTGTGTAC
1 GGTGGAGACTTATAGACATAGGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGACTTGTGTAC
* ** **
19835418 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGGGACTTGTATTTATAGGGAGGG
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGAGGGGACGAGTATGGATA-GGAGGG
* * * * * *
19835476 GGTGGAGA---ATGGAC-T--GGTGGGGGTGGAGATTTGTGAACATATGGTGGAGGTGG-GA--A
1 GGTGGAGACTTATAGACATAGGGTGGAGGTGGGGA---GTGGAC---TGGTGGGGGTGGAGACTT
* * * * * * * * ** ** * * *
19835532 GTGGAC---TGGTGGTGGAGGGGACTTGTATTTGT-AAGGAGGTGGTGGTGAATGGACT-GGTGG
60 GTGTACATATGGAGGAGGTGGGGA-GTGGACTGGTGGTGGAGG-GGACGAGTATGGA-TAGGAGG
*
19835592 T
122 G
* * *
19835593 GGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGATTTGTGTAC
1 GGTGGAGACTTATAGACATAGGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGACTTGTGTAC
* ** **
19835658 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGGGACTTGTATTTATAAGGAGGG
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGAGGGGACGAGTATGGAT-AGGAGGG
19835716 GGTGGAGA
1 GGTGGAGA
19835724 ATGGACTGGT
Statistics
Matches: 281, Mismatches: 65, Indels: 50
0.71 0.16 0.13
Matches are distributed among these distances:
117 51 0.18
118 15 0.05
119 2 0.01
120 28 0.10
121 2 0.01
122 16 0.06
123 167 0.59
ACGTcount: A:0.19, C:0.04, G:0.50, T:0.26
Consensus pattern (122 bp):
GGTGGAGACTTATAGACATAGGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGACTTGTGTAC
ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGAGGGGACGAGTATGGATAGGAGGG
Found at i:19835356 original size:219 final size:219
Alignment explanation
Indices: 19835131--19835576 Score: 662
Period size: 219 Copynumber: 2.0 Consensus size: 219
19835121 GTGGACTGGT
* * *
19835131 GGGGGTGGAGATTTGTAGACATATGGAGGTGGTGGGGAGTGGACTGGTGGTGGTGGGGACTTGTA
1 GGGGGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGACTTGT-
* * * *
19835196 G-ACATATGGAGGAGGAGGAGAGTGGACTGGTGGTGGTGGGGACTTATGGATGTAGGGTGGTGGT
65 GTACATATGGAGGAGGAGGAGAGTGGACTGGTGGTGGTGGGGACTTATAGATATAGGGAGGGGGT
* * * *
19835260 GGTGAGTGGACTGGTGGTGGTGGAGACTTGT-AGACATATGGTGGAGGTGGGGAGTGGACTGGTG
130 GGAGAATGGACTGGTGGGGGTGGAGACTTGTGA-ACATATGGTGGAGGTGGGAAGTGGACTGGTG
*
19835324 GTGGAGGGGACTTGTATTTATAGGGA
194 GTGGAGGGGACTTGTATTTATAAGGA
* *
19835350 GGGGGTGGAGATTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGATTTGTG
1 GGGGGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGACTTGTG
* * * **
19835415 TACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGGGACTTGTATTTATAGGGAGGGGGTG
66 TACATATGGAGGAGGAGGAGAGTGGACTGGTGGTGGTGGGGACTTATAGATATAGGGAGGGGGTG
*
19835480 GAGAATGGACTGGTGGGGGTGGAGATTTGTGAACATATGGTGGAGGTGGGAAGTGGACTGGTGGT
131 GAGAATGGACTGGTGGGGGTGGAGACTTGTGAACATATGGTGGAGGTGGGAAGTGGACTGGTGGT
*
19835545 GGAGGGGACTTGTATTTGTAAGGA
196 GGAGGGGACTTGTATTTATAAGGA
*
19835569 GGTGGTGG
1 GGGGGTGG
19835577 TGAATGGACT
Statistics
Matches: 203, Mismatches: 22, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
218 1 0.00
219 201 0.99
220 1 0.00
ACGTcount: A:0.19, C:0.04, G:0.51, T:0.26
Consensus pattern (219 bp):
GGGGGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGACTTGTG
TACATATGGAGGAGGAGGAGAGTGGACTGGTGGTGGTGGGGACTTATAGATATAGGGAGGGGGTG
GAGAATGGACTGGTGGGGGTGGAGACTTGTGAACATATGGTGGAGGTGGGAAGTGGACTGGTGGT
GGAGGGGACTTGTATTTATAAGGA
Found at i:19835357 original size:48 final size:48
Alignment explanation
Indices: 19834648--19835339 Score: 715
Period size: 48 Copynumber: 14.4 Consensus size: 48
19834638 ATAAGGTACA
* * ** * * * * *
19834648 GGTGGGGGTGGAGACTTGTAAATGTAAGGAGGGGGCGGTGAATGGACT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
* * * * * *
19834696 GGTGGTGGAGGGGACTTGTATATATATGGAGGAGGTGGAGAATGGACT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
* * * *
19834744 GGTGGTGGTGGAGACTTATAAACATATGGTGGAGGTGGGGAGTTGACT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
* * * *
19834792 GGTGGGGGTGGAGATTTGT-GTACATATGGAGGAGGTGAGGAGTGGATT
1 GGTGGTGGTGGAGACTTGTAG-ACATATGGAGGAGGTGGGGAGTGGACT
* * * *
19834840 GGTGGTGGTGGAGACTTGTAAATATATGGTGGAGGTGGGGAGTGGAGT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
* *
19834888 GGTGGGGGTGGAGATTTGT-GTACATATGGAGGAGGTGGGGAGTGGACT
1 GGTGGTGGTGGAGACTTGTAG-ACATATGGAGGAGGTGGGGAGTGGACT
* *** * * * * *
19834936 GGTGGTGGTGGGGACTTGTATTTATAGGGAGGGGGTGGAGAATGGATT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
* *
19834984 GGTAGG-GGTGGAGATTTGTGGACATATGGAGGAGGTGGGGAGTGGACT
1 GGT-GGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
* * **** * * * *
19835032 GGTGGTGGAGGGGACTTGTATTTGTAGGGAGGGGGTGGTGAATGGACT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
*
19835080 GGTGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
* * *
19835128 GGTGGGGGTGGAGATTTGTAGACATATGGAGGTGGTGGGGAGTGGACT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
* * *
19835176 GGTGGTGGTGGGGACTTGTAGACATATGGAGGAGGAGGAGAGTGGACT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
* * * ** * * * *
19835224 GGTGGTGGTGGGGACTTATGGATGTAGGGTGGTGGTGGTGAGTGGACT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
*
19835272 GGTGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
* *
19835320 GGTGGTGGAGGGGACTTGTA
1 GGTGGTGGTGGAGACTTGTA
19835340 TTTATAGGGA
Statistics
Matches: 525, Mismatches: 113, Indels: 12
0.81 0.17 0.02
Matches are distributed among these distances:
47 2 0.00
48 521 0.99
49 2 0.00
ACGTcount: A:0.20, C:0.04, G:0.50, T:0.25
Consensus pattern (48 bp):
GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT
Found at i:19835397 original size:21 final size:21
Alignment explanation
Indices: 19835373--19835456 Score: 69
Period size: 21 Copynumber: 3.7 Consensus size: 21
19835363 TGTAGACATA
19835373 TGGTGGAGGTGGGGAGTGGAC
1 TGGTGGAGGTGGGGAGTGGAC
* * *
19835394 TGGTGGGGGTGGAGATTTGTGTAC
1 TGGTGGAGGTGGGGA---GTGGAC
*
19835418 ATATGGAGGAGGTGGGGAGTGGAC
1 ---TGGTGGAGGTGGGGAGTGGAC
*
19835442 TGGTGGTGGTGGGGA
1 TGGTGGAGGTGGGGA
19835457 CTTGTATTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
21 26 0.54
24 10 0.21
27 12 0.25
ACGTcount: A:0.15, C:0.04, G:0.57, T:0.24
Consensus pattern (21 bp):
TGGTGGAGGTGGGGAGTGGAC
Found at i:19835426 original size:75 final size:75
Alignment explanation
Indices: 19835134--19835432 Score: 240
Period size: 75 Copynumber: 4.1 Consensus size: 75
19835124 GACTGGTGGG
* * *
19835134 GGTGGAGATTTGTAGACATATGGAGGTGGTGGGGAGTGGACTGGTGGTGGTGGGGACTTGTAG-A
1 GGTGGAGATTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGGGACTTGT-GTA
19835198 CATATGGAGGA
65 CATATGGAGGA
* * * * * * *** *
19835209 GGAGGAGA---GTGGAC---TGGTGGTGGTGGGGACT-TA-TGGATGTAGGGTGGTGGTGGTGAG
1 GGTGGAGATTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGG-TG-GGGGTGG-GGACTTGTG
** * * *
19835266 TGGA-CTGGTGGT
63 TACATATGGAGGA
* * * * **
19835278 GGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGTGGAGGGGACTTGTATTT
1 GGTGGAGATTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGGGACTTGTGTAC
* *
19835343 ATAGGGAGGG
66 ATATGGAGGA
* *
19835353 GGTGGAGATTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGATTTGTGTAC
1 GGTGGAGATTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGGGACTTGTGTAC
19835418 ATATGGAGGA
66 ATATGGAGGA
19835428 GGTGG
1 GGTGG
19835433 GGAGTGGACT
Statistics
Matches: 166, Mismatches: 45, Indels: 26
0.70 0.19 0.11
Matches are distributed among these distances:
67 3 0.02
68 3 0.02
69 33 0.20
70 5 0.03
72 10 0.06
74 6 0.04
75 100 0.60
76 3 0.02
77 3 0.02
ACGTcount: A:0.19, C:0.05, G:0.51, T:0.26
Consensus pattern (75 bp):
GGTGGAGATTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGGGACTTGTGTAC
ATATGGAGGA
Found at i:19835453 original size:96 final size:96
Alignment explanation
Indices: 19835353--19836796 Score: 1342
Period size: 96 Copynumber: 15.1 Consensus size: 96
19835343 ATAGGGAGGG
* * *
19835353 GGTGGAGATTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGATTTGTGTAC
1 GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGACTTGTGTAC
*
19835418 ATATGGAGGAGGTGGGGAGTGGACTGGTGGT
66 ATATGGTGGAGGTGGGGAGTGGACTGGTGGT
* *** * * * * * *
19835449 GGTGGGGACTTGTATTTATAGGGAGGGGGTGGAGAATGGACTGGTGGGGGTGGAGATTTGTGAAC
1 GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGACTTGTGTAC
*
19835514 ATATGGTGGAGGTGGGAAGTGGACTGGTGGT
66 ATATGGTGGAGGTGGGGAGTGGACTGGTGGT
* * **** * * * * *
19835545 GGAGGGGACTTGTATTTGTAAGGAGGTGGTGGTGAATGGACTGGTGGTGGTGGAGACTTGTAG-A
1 GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGACTTGT-GTA
*
19835609 CATATGGTGGAGGTGGGGAGTGGACTGGTGGG
65 CATATGGTGGAGGTGGGGAGTGGACTGGTGGT
* * * * *
19835641 GGTGGAGATTTGT-GTACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGGGACTTGTATT
1 GGTGGAGACTTGTAG-ACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGACTTGTGTA
* * * * * * *
19835705 TATAAGGAGGGGGTGGAGAATGGACTGGTGGG
65 CATATGGTGGAGGTGGGGAGTGGACTGGTGGT
* * * * * * *
19835737 GGTGGAGATTTGT-GAACATATGGTGGAGGTGGGGAGTGGACTGGTGGTGGAGGGGACTTGTATT
1 GGTGGAGACTTGTAG-ACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGACTTGTGTA
** * * * * * *
19835801 TGTAAGGAGGTGGTGGTGAATGGACTAGTGGT
65 CATATGGTGGAGGTGGGGAGTGGACTGGTGGT
* * *
19835833 GGTGGAGACTTGTAGAGATATGGTGGAGGTGGGGAGTGGACTGGT-GGGGTGGAGATTTGTGTAC
1 GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGACTTGTGTAC
*
19835897 ATATGGAGGAGGTGGGGAGTGGACTGGTGGT
66 ATATGGTGGAGGTGGGGAGTGGACTGGTGGT
* * *** * * * * *
19835928 GGTGGGGACTTAT-GTTTGTAGGGAGGTGGTGGTGAATGGACTGGTGGTGGTGGAGACTTGTAG-
1 GGTGGAGACTTGTAG-ACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGACTTGT-GT
*
19835991 ACATATGGTGGAGGTGGGGAGTGGACTAGAAT-G-
64 ACATATGGTGGAGGTGGGGAGTGGACT-G-GTGGT
* * * * * * **
19836024 GGTGGAGATTTGTGGACATATGGTGGAGGTGGGGAGTGGACTGGTGGAGGAGGAGACTTGTATTT
1 GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGACTTGTGTAC
* * * * * *
19836089 GTAGGGAGGAGGTGGAGAATGGACTGGTGGG
66 ATATGGTGGAGGTGGGGAGTGGACTGGTGGT
* * * * * * * **
19836120 GGTGGAGATTTATGGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGAGGGGACTTGTATTT
1 GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGACTTGTGTAC
* * * * * *
19836185 GTAAGGAGGTGGTGGTGAATGGACTGGTGGT
66 ATATGGTGGAGGTGGGGAGTGGACTGGTGGT
* *
19836216 GGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGATTTGTGTAC
1 GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGACTTGTGTAC
* *
19836281 ATATGGTGGAGGTGGGGAATGGACTGGTGGA
66 ATATGGTGGAGGTGGGGAGTGGACTGGTGGT
* **** * * * * * *
19836312 GGAGGAGACTTGTATTTGTAGGGAGGAGGTGGTGAATGGATTGGTGGGGGTGGAGATTTGTGGAC
1 GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGACTTGTGTAC
19836377 ATATGGTGGAGGTGGGGAGTGGACTGGTGGT
66 ATATGGTGGAGGTGGGGAGTGGACTGGTGGT
* * * ** * * * * * *
19836408 GGTGGGGACTTATGGATGTAGGGTGGTGGTGGTGAATGGACTGGTGGTGGTGGAGACTTGTAG-A
1 GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGACTTGT-GTA
*
19836472 CATATGGTGGAGGTGGGGAGTGGACTGGTGGG
65 CATATGGTGGAGGTGGGGAGTGGACTGGTGGT
* * * * * * * *
19836504 GGTGGAGATTTGT-GTACATAAGGAGGAGGTGGGGAGTGGACTTGTGGTGGTGGGGACTTATATT
1 GGTGGAGACTTGTAG-ACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGACTTGTGTA
** * * * * *
19836568 TGTAAGGAGGTGGTGGTGAATGGACTGGTGGT
65 CATATGGTGGAGGTGGGGAGTGGACTGGTGGT
* * *
19836600 GGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGATTTGTGGAC
1 GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGACTTGTGTAC
19836665 ATATGGTGGAGGTGGGGAGTGGACTGGTGGT
66 ATATGGTGGAGGTGGGGAGTGGACTGGTGGT
* **** * * * * * *
19836696 GGAGGAGACTTGTATTTGTAGGGAGGAGGTGGTGAATGGATTGGTGGGGGTGGAGATTTGTGGAC
1 GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGACTTGTGTAC
*
19836761 ATATGGTGGAGGTGTGGAGTGGACTGGTGGT
66 ATATGGTGGAGGTGGGGAGTGGACTGGTGGT
19836792 GGTGG
1 GGTGG
19836797 TGAATGGACT
Statistics
Matches: 1127, Mismatches: 204, Indels: 34
0.83 0.15 0.02
Matches are distributed among these distances:
94 2 0.00
95 73 0.06
96 1043 0.93
97 8 0.01
98 1 0.00
ACGTcount: A:0.19, C:0.04, G:0.50, T:0.26
Consensus pattern (96 bp):
GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGACTTGTGTAC
ATATGGTGGAGGTGGGGAGTGGACTGGTGGT
Found at i:19835637 original size:21 final size:21
Alignment explanation
Indices: 19835613--19835696 Score: 69
Period size: 21 Copynumber: 3.7 Consensus size: 21
19835603 TGTAGACATA
19835613 TGGTGGAGGTGGGGAGTGGAC
1 TGGTGGAGGTGGGGAGTGGAC
* * *
19835634 TGGTGGGGGTGGAGATTTGTGTAC
1 TGGTGGAGGTGGGGA---GTGGAC
*
19835658 ATATGGAGGAGGTGGGGAGTGGAC
1 ---TGGTGGAGGTGGGGAGTGGAC
*
19835682 TGGTGGTGGTGGGGA
1 TGGTGGAGGTGGGGA
19835697 CTTGTATTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
21 26 0.54
24 10 0.21
27 12 0.25
ACGTcount: A:0.15, C:0.04, G:0.57, T:0.24
Consensus pattern (21 bp):
TGGTGGAGGTGGGGAGTGGAC
Found at i:19835877 original size:21 final size:21
Alignment explanation
Indices: 19835853--19835935 Score: 69
Period size: 21 Copynumber: 3.7 Consensus size: 21
19835843 TGTAGAGATA
19835853 TGGTGGAGGTGGGGAGTGGAC
1 TGGTGGAGGTGGGGAGTGGAC
* *
19835874 TGGTGG-GGTGGAGATTTGTGTAC
1 TGGTGGAGGTGGGGA---GTGGAC
*
19835897 ATATGGAGGAGGTGGGGAGTGGAC
1 ---TGGTGGAGGTGGGGAGTGGAC
*
19835921 TGGTGGTGGTGGGGA
1 TGGTGGAGGTGGGGA
19835936 CTTATGTTTG
Statistics
Matches: 48, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
20 7 0.15
21 19 0.40
23 5 0.10
24 5 0.10
26 5 0.10
27 7 0.15
ACGTcount: A:0.16, C:0.04, G:0.57, T:0.24
Consensus pattern (21 bp):
TGGTGGAGGTGGGGAGTGGAC
Found at i:19836054 original size:27 final size:26
Alignment explanation
Indices: 19835969--19836055 Score: 69
Period size: 27 Copynumber: 3.5 Consensus size: 26
19835959 GTGAATGGAC
* *
19835969 TGGTGGTGGTGGAGACTTGTAGACATA
1 TGGTGGAGGTGGAGA-TTGTGGACATA
*
19835996 TGGTGGAGGTGGGGA--GTGGAC-TA
1 TGGTGGAGGTGGAGATTGTGGACATA
*
19836019 -GAAT-G-GGTGGAGATTTGTGGACATA
1 TG-GTGGAGGTGGAGA-TTGTGGACATA
19836044 TGGTGGAGGTGG
1 TGGTGGAGGTGG
19836056 GGAGTGGACT
Statistics
Matches: 46, Mismatches: 6, Indels: 16
0.68 0.09 0.24
Matches are distributed among these distances:
21 7 0.15
22 2 0.04
23 3 0.07
24 11 0.24
25 3 0.07
26 2 0.04
27 18 0.39
ACGTcount: A:0.21, C:0.05, G:0.48, T:0.26
Consensus pattern (26 bp):
TGGTGGAGGTGGAGATTGTGGACATA
Found at i:19836062 original size:24 final size:24
Alignment explanation
Indices: 19835990--19836064 Score: 68
Period size: 24 Copynumber: 3.1 Consensus size: 24
19835980 GAGACTTGTA
19835990 GACATATGGTGGAGGTGGGGAGTG
1 GACATATGGTGGAGGTGGGGAGTG
* *
19836014 GAC-TA-GAAT-G-GGTGGAGATTTGTG
1 GACATATG-GTGGAGGTGGGGA---GTG
19836038 GACATATGGTGGAGGTGGGGAGTG
1 GACATATGGTGGAGGTGGGGAGTG
19836062 GAC
1 GAC
19836065 TGGTGGAGGA
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
21 7 0.18
22 2 0.05
23 3 0.08
24 15 0.38
25 3 0.08
26 2 0.05
27 7 0.18
ACGTcount: A:0.23, C:0.05, G:0.49, T:0.23
Consensus pattern (24 bp):
GACATATGGTGGAGGTGGGGAGTG
Found at i:19836247 original size:27 final size:25
Alignment explanation
Indices: 19836209--19836295 Score: 74
Period size: 27 Copynumber: 3.5 Consensus size: 25
19836199 GTGAATGGAC
*
19836209 TGGTGGTGGTGGAGACTTGTAGACATA
1 TGGTGGAGGTGGAGA-TTGT-GACATA
* *
19836236 TGGTGGAGGTGGGGAGTG-GAC---
1 TGGTGGAGGTGGAGATTGTGACATA
*
19836257 TGGTGGGGGTGGAGATTTGTGTACATA
1 TGGTGGAGGTGGAGA-TTGTG-ACATA
19836284 TGGTGGAGGTGG
1 TGGTGGAGGTGG
19836296 GGAATGGACT
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
21 13 0.28
22 2 0.04
23 1 0.02
24 5 0.11
26 2 0.04
27 24 0.51
ACGTcount: A:0.17, C:0.05, G:0.51, T:0.28
Consensus pattern (25 bp):
TGGTGGAGGTGGAGATTGTGACATA
Found at i:19836260 original size:21 final size:21
Alignment explanation
Indices: 19836236--19836313 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 21
19836226 TGTAGACATA
19836236 TGGTGGAGGTGGGGAGTGGAC
1 TGGTGGAGGTGGGGAGTGGAC
* * *
19836257 TGGTGGGGGTGGAGATTTGTGTAC
1 TGGTGGAGGTGGGGA---GTGGAC
*
19836281 ATATGGTGGAGGTGGGGAATGGAC
1 ---TGGTGGAGGTGGGGAGTGGAC
19836305 TGGTGGAGG
1 TGGTGGAGG
19836314 AGGAGACTTG
Statistics
Matches: 44, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
21 22 0.50
24 9 0.20
27 13 0.30
ACGTcount: A:0.17, C:0.04, G:0.55, T:0.24
Consensus pattern (21 bp):
TGGTGGAGGTGGGGAGTGGAC
Found at i:19836398 original size:24 final size:22
Alignment explanation
Indices: 19836371--19836697 Score: 67
Period size: 21 Copynumber: 13.7 Consensus size: 22
19836361 GTGGAGATTT
*
19836371 GTGGACATATGGTGGAGGTGGGGA
1 GTGGAC-T-TGGTGGTGGTGGGGA
19836395 GTGGAC-TGGTGGTGGTGGGGA
1 GTGGACTTGGTGGTGGTGGGGA
* *
19836416 CTTATGGA-TGTAGGGTGGTGGTGGTGA
1 ---GTGGACT-T--GGTGGTGGTGGGGA
* *
19836443 ATGGAC-TGGTGGTGGTGGAGA
1 GTGGACTTGGTGGTGGTGGGGA
* *
19836464 CTTGTAGACATATGGTGGAGGTGGGGA
1 ---GTGGAC-T-TGGTGGTGGTGGGGA
* *
19836491 GTGGAC-TGGTGGGGGTGGAGA
1 GTGGACTTGGTGGTGGTGGGGA
* * * *
19836512 TTTGTGTACATAAGGAGGAGGTGGGGA
1 ---GTGGAC-T-TGGTGGTGGTGGGGA
19836539 GTGGACTT-GTGGTGGTGGGGA
1 GTGGACTTGGTGGTGGTGGGGA
* ** * * *
19836560 CTTATATTTGTAAGGAGGTGGTGGTGA
1 -GTGGA-CT-T--GGTGGTGGTGGGGA
* *
19836587 ATGGAC-TGGTGGTGGTGGAGA
1 GTGGACTTGGTGGTGGTGGGGA
* *
19836608 CTTGTAGACATATGGTGGAGGTGGGGA
1 ---GTGGAC-T-TGGTGGTGGTGGGGA
* *
19836635 GTGGAC-TGGTGGGGGTGGAGA
1 GTGGACTTGGTGGTGGTGGGGA
*
19836656 TTTGTGGACATATGGTGGAGGTGGGGA
1 ---GTGGAC-T-TGGTGGTGGTGGGGA
19836683 GTGGAC-TGGTGGTGG
1 GTGGACTTGGTGGTGG
19836698 AGGAGACTTG
Statistics
Matches: 223, Mismatches: 42, Indels: 79
0.65 0.12 0.23
Matches are distributed among these distances:
21 84 0.38
22 2 0.01
23 4 0.02
24 56 0.25
25 1 0.00
26 2 0.01
27 74 0.33
ACGTcount: A:0.18, C:0.05, G:0.51, T:0.26
Consensus pattern (22 bp):
GTGGACTTGGTGGTGGTGGGGA
Found at i:19836404 original size:21 final size:21
Alignment explanation
Indices: 19836380--19836559 Score: 72
Period size: 21 Copynumber: 7.7 Consensus size: 21
19836370 TGTGGACATA
*
19836380 TGGTGGAGGTGGGGAGTGGAC
1 TGGTGGTGGTGGGGAGTGGAC
* *
19836401 TGGTGGTGGTGGGGACTTATGGATG
1 TGGTGGTGGTGGGGA---GTGGA-C
* *
19836426 TAGGGTGGTGGTGGTGAATGGAC
1 T--GGTGGTGGTGGGGAGTGGAC
* *
19836449 TGGTGGTGGTGGAGACTTGTAGAC
1 TGGTGGTGGTGGGGA---GTGGAC
*
19836473 ATATGGTGGAGGTGGGGAGTGGAC
1 ---TGGTGGTGGTGGGGAGTGGAC
* * *
19836497 TGGTGGGGGTGGAGATTTGTGTAC
1 TGGTGGTGGTGGGGA---GTGGAC
* *
19836521 ATAAGGAGGAGGTGGGGAGTGGAC
1 -T--GGTGGTGGTGGGGAGTGGAC
*
19836545 TTGTGGTGGTGGGGA
1 TGGTGGTGGTGGGGA
19836560 CTTATATTTG
Statistics
Matches: 120, Mismatches: 21, Indels: 36
0.68 0.12 0.20
Matches are distributed among these distances:
21 51 0.43
23 2 0.02
24 28 0.23
25 2 0.02
27 37 0.31
ACGTcount: A:0.17, C:0.04, G:0.53, T:0.26
Consensus pattern (21 bp):
TGGTGGTGGTGGGGAGTGGAC
Found at i:19836631 original size:27 final size:26
Alignment explanation
Indices: 19836593--19836679 Score: 85
Period size: 27 Copynumber: 3.5 Consensus size: 26
19836583 GTGAATGGAC
* *
19836593 TGGTGGTGGTGGAGACTTGTAGACATA
1 TGGTGGAGGTGGAGA-TTGTGGACATA
*
19836620 TGGTGGAGGTGGGGA--GTGGAC---
1 TGGTGGAGGTGGAGATTGTGGACATA
*
19836641 TGGTGGGGGTGGAGATTTGTGGACATA
1 TGGTGGAGGTGGAGA-TTGTGGACATA
19836668 TGGTGGAGGTGG
1 TGGTGGAGGTGG
19836680 GGAGTGGACT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
21 13 0.27
24 11 0.23
27 24 0.50
ACGTcount: A:0.17, C:0.05, G:0.52, T:0.26
Consensus pattern (26 bp):
TGGTGGAGGTGGAGATTGTGGACATA
Found at i:19836644 original size:21 final size:21
Alignment explanation
Indices: 19836620--19836694 Score: 78
Period size: 21 Copynumber: 3.3 Consensus size: 21
19836610 TGTAGACATA
19836620 TGGTGGAGGTGGGGAGTGGAC
1 TGGTGGAGGTGGGGAGTGGAC
* *
19836641 TGGTGGGGGTGGAGATTTGTGGAC
1 TGGTGGAGGTGGGGA---GTGGAC
19836665 ATATGGTGGAGGTGGGGAGTGGAC
1 ---TGGTGGAGGTGGGGAGTGGAC
19836689 TGGTGG
1 TGGTGG
19836695 TGGAGGAGAC
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
21 19 0.43
24 12 0.27
27 13 0.30
ACGTcount: A:0.15, C:0.04, G:0.57, T:0.24
Consensus pattern (21 bp):
TGGTGGAGGTGGGGAGTGGAC
Found at i:19836698 original size:24 final size:24
Alignment explanation
Indices: 19836620--19836700 Score: 80
Period size: 24 Copynumber: 3.4 Consensus size: 24
19836610 TGTAGACATA
19836620 TGGTGGAGGTGGGGAGTGGACTGG
1 TGGTGGAGGTGGGGAGTGGACTGG
* *
19836644 T-G-GG-GGTGGAGATTTGTGGACAT-A
1 TGGTGGAGGTGGGGA---GTGGAC-TGG
19836668 TGGTGGAGGTGGGGAGTGGACTGG
1 TGGTGGAGGTGGGGAGTGGACTGG
19836692 TGGTGGAGG
1 TGGTGGAGG
19836701 AGACTTGTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
21 7 0.16
22 2 0.04
23 2 0.04
24 23 0.51
25 2 0.04
26 2 0.04
27 7 0.16
ACGTcount: A:0.15, C:0.04, G:0.58, T:0.23
Consensus pattern (24 bp):
TGGTGGAGGTGGGGAGTGGACTGG
Found at i:19836762 original size:144 final size:144
Alignment explanation
Indices: 19835350--19836796 Score: 1422
Period size: 144 Copynumber: 10.1 Consensus size: 144
19835340 TTTATAGGGA
* * *
19835350 GGGGGTGGAGATTTGTAG-ACATATGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGATTTGT
1 GGGGGTGGAGATTTGT-GTACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGT
* *** * * *** * * *
19835414 GTACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGGGACTTGTATTTATAGGGAGGGGGT
65 ATTTGTATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGACATATGGTGGAGGT
* *
19835479 GGAGAATGGACTGGT
130 GGGGAGTGGACTGGT
* * * * *
19835494 GGGGGTGGAGATTTGTGAACATATGGTGGAGGTGGGAAGTGGACTGGTGGTGGAGGGGACTTGTA
1 GGGGGTGGAGATTTGTGTACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTA
* * *
19835559 TTTGTAAGGAGGTGGTGGTGAATGGACTGGTGGTGGTGGAGACTTGTAGACATATGGTGGAGGTG
66 TTTGTATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGACATATGGTGGAGGTG
19835624 GGGAGTGGACTGGT
131 GGGAGTGGACTGGT
*
19835638 GGGGGTGGAGATTTGTGTACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGGGACTTGTA
1 GGGGGTGGAGATTTGTGTACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTA
* * * * * *
19835703 TTTATAAGGAGGGGGTGGAGAATGGACTGGTGGGGGTGGAGATTTGT-GAACATATGGTGGAGGT
66 TTTGTATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAG-ACATATGGTGGAGGT
19835767 GGGGAGTGGACTGGT
130 GGGGAGTGGACTGGT
* * * * * *** * * * * *
19835782 GGTGGAGGGGACTTGTATTTGTAAGGAGGTGGTGGTGAATGGACTAGTGGTGGTGGAGACTTGTA
1 GGGGGTGGAGATTTGTGTACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTA
** * * * *
19835847 -GAGATATGGTGGAGGTGGGGAGTGGACTGGTGG-GGTGGAGATTTGT-GTACATATGGAGGAGG
66 TTTG-TATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAG-ACATATGGTGGAGG
19835909 TGGGGAGTGGACTGGT
129 TGGGGAGTGGACTGGT
* * * * *** * * * *
19835925 GGTGGTGGGGACTTATGTTTGTAGGGAGGTGGTGGTGAATGGACTGGTGGTGGTGGAGACTTGTA
1 GGGGGTGGAGATTTGTGTACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTA
**** * * * * *
19835990 GACATATGGTGGAGGTGGGGAGTGGACTAGAAT-G-GGTGGAGATTTGTGGACATATGGTGGAGG
66 TTTGTATGGAGGAGGTGGGGAATGGACT-G-GTGGTGGTGGAGACTTGTAGACATATGGTGGAGG
19836053 TGGGGAGTGGACTGGT
129 TGGGGAGTGGACTGGT
* * * * *** * * * *
19836069 GGAGGAGGAGACTTGTATTTGTAGGGAGGAGGTGGAGAATGGACTGGTGGGGGTGGAGA-TT-TA
1 GGGGGTGGAGATTTGTGTACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTA
* * * * **** * * *
19836132 -TGGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGAGGGGACTTGTATTTGTAAGGAGGTG
66 TTTG---TATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGACATATGGTGGAG
* *
19836196 GTGGTGAATGGACTGGT
128 GTGGGGAGTGGACTGGT
* * * * *
19836213 GGTGGTGGAGACTTGTAG-ACATATGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGATTTGT
1 GGGGGTGGAGATTTGT-GTACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGT
* *** * * * **** * *
19836277 GTACATATGGTGGAGGTGGGGAATGGACTGGTGGAGGAGGAGACTTGTATTTGTAGGGAGGAGGT
65 ATTTGTATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGACATATGGTGGAGGT
* * *
19836342 GGTGAATGGATTGGT
130 GGGGAGTGGACTGGT
* * * * *
19836357 GGGGGTGGAGATTTGTGGACATATGGTGGAGGTGGGGAGTGGACTGGTGGTGGTGGGGACTTATG
1 GGGGGTGGAGATTTGTGTACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTA
** * * * *
19836422 GATGTAGGGTGGTGGTGGTGAATGGACTGGTGGTGGTGGAGACTTGTAGACATATGGTGGAGGTG
66 TTTGTATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGACATATGGTGGAGGTG
19836487 GGGAGTGGACTGGT
131 GGGAGTGGACTGGT
* * * *
19836501 GGGGGTGGAGATTTGTGTACATAAGGAGGAGGTGGGGAGTGGACTTGTGGTGGTGGGGACTTATA
1 GGGGGTGGAGATTTGTGTACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTA
* * *
19836566 TTTGTAAGGAGGTGGTGGTGAATGGACTGGTGGTGGTGGAGACTTGTAGACATATGGTGGAGGTG
66 TTTGTATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGACATATGGTGGAGGTG
19836631 GGGAGTGGACTGGT
131 GGGAGTGGACTGGT
* * *
19836645 GGGGGTGGAGATTTGTGGACATATGGTGGAGGTGGGGAGTGGACTGGTGGTGGAGGAGACTTGTA
1 GGGGGTGGAGATTTGTGTACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTA
* * * * * *
19836710 TTTGTAGGGAGGAGGTGGTGAATGGATTGGTGGGGGTGGAGATTTGTGGACATATGGTGGAGGTG
66 TTTGTATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGACATATGGTGGAGGTG
*
19836775 TGGAGTGGACTGGT
131 GGGAGTGGACTGGT
*
19836789 GGTGGTGG
1 GGGGGTGG
19836797 TGAATGGACT
Statistics
Matches: 1127, Mismatches: 159, Indels: 34
0.85 0.12 0.03
Matches are distributed among these distances:
142 3 0.00
143 134 0.12
144 985 0.87
145 4 0.00
146 1 0.00
ACGTcount: A:0.19, C:0.04, G:0.50, T:0.26
Consensus pattern (144 bp):
GGGGGTGGAGATTTGTGTACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTA
TTTGTATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGACATATGGTGGAGGTG
GGGAGTGGACTGGT
Found at i:19842844 original size:21 final size:21
Alignment explanation
Indices: 19842818--19842858 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19842808 ATCTGCTTAA
* *
19842818 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
19842839 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
19842859 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:19847987 original size:40 final size:40
Alignment explanation
Indices: 19847932--19848114 Score: 312
Period size: 40 Copynumber: 4.6 Consensus size: 40
19847922 AGGCTTGTGC
19847932 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
19847972 CTAGCAGGCTTAATGCCGGTGAAATATTCAGATTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
19848012 CTAGCAGGCTTAATGCCAGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
* * *
19848052 CTAGCAGGTTTAATGCCAGTGAAATATTCAGACTATACAT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
19848092 CTAGCAGGCTTCATGCCGGTGAA
1 CTAGCAGGCTTAATGCCGGTGAA
19848115 CGGAATCAGG
Statistics
Matches: 135, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 135 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
Found at i:19852913 original size:26 final size:26
Alignment explanation
Indices: 19852884--19852935 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
19852874 AATATTAAGA
19852884 TAAATAATATTTATATTTATGATAAT
1 TAAATAATATTTATATTTATGATAAT
19852910 TAAATAATATTTATATTTATGATAAT
1 TAAATAATATTTATATTTATGATAAT
19852936 ATTATTTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (26 bp):
TAAATAATATTTATATTTATGATAAT
Found at i:19852941 original size:21 final size:22
Alignment explanation
Indices: 19852882--19852961 Score: 81
Period size: 26 Copynumber: 3.5 Consensus size: 22
19852872 TAAATATTAA
* *
19852882 GATAAATAATATTTATATTTAT
1 GATAAGTATTATTTATATTTAT
*
19852904 GATAATTAAATAATATTTATATTTAT
1 GATAAGT--AT--TATTTATATTTAT
*
19852930 GATAA-TATTATTTATCTTTAT
1 GATAAGTATTATTTATATTTAT
19852951 GATAAGTATTA
1 GATAAGTATTA
19852962 AATATTAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
21 17 0.34
22 11 0.22
23 2 0.04
24 1 0.02
25 1 0.02
26 18 0.36
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.50
Consensus pattern (22 bp):
GATAAGTATTATTTATATTTAT
Found at i:19852966 original size:47 final size:47
Alignment explanation
Indices: 19852872--19852984 Score: 113
Period size: 47 Copynumber: 2.4 Consensus size: 47
19852862 GATTATGAAG
* * * *
19852872 TAAATATTAAGATAAATAATATTTATATTTATGATAATTAAATAATATT
1 TAAAT-TTATGATTAATATTATTTATATTTATGATAAGTAAATAATA-T
* * *
19852921 TATATTTATGA-TAATATTATTTATCTTTATGATAAGT-ATTAAATAT
1 TAAATTTATGATTAATATTATTTATATTTATGATAAGTAAAT-AATAT
*
19852967 TAAATTTATTATTAATAT
1 TAAATTTATGATTAATAT
19852985 AAGTATTATT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
46 12 0.23
47 32 0.60
48 5 0.09
49 4 0.08
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (47 bp):
TAAATTTATGATTAATATTATTTATATTTATGATAAGTAAATAATAT
Found at i:19852992 original size:53 final size:47
Alignment explanation
Indices: 19852875--19853010 Score: 139
Period size: 53 Copynumber: 2.7 Consensus size: 47
19852865 TATGAAGTAA
* * * *
19852875 ATATTAAGATAAATAATATTTATATTTATGAT-AATTAAATAATATTT
1 ATATTAATAT-AATATTATTTATCTTTATGATAAATTAAATAAAATTT
*
19852922 ATATTTATGATAATATTATTTATCTTTATGATAAGTATTAAATATTAAATTT
1 ATATTAAT-ATAATATTATTTATCTTTATGATAA--ATTAAATA--AAATTT
*
19852974 ATTATTAATATAAGTATTATTTATCTTTATCATAAAT
1 A-TATTAATATAA-TATTATTTATCTTTATGATAAAT
19853011 AATACATTAT
Statistics
Matches: 74, Mismatches: 7, Indels: 12
0.80 0.08 0.13
Matches are distributed among these distances:
47 25 0.34
48 3 0.04
50 8 0.11
51 2 0.03
52 10 0.14
53 26 0.35
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (47 bp):
ATATTAATATAATATTATTTATCTTTATGATAAATTAAATAAAATTT
Found at i:19862454 original size:23 final size:22
Alignment explanation
Indices: 19862397--19862441 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
19862387 AATATTCAAG
*
19862397 TAAAAATATTTTTGCATATTGC
1 TAAAAAGATTTTTGCATATTGC
19862419 TAAAAAGATTTTTGCATATTGC
1 TAAAAAGATTTTTGCATATTGC
19862441 T
1 T
19862442 CTGAAAGGTT
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:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (22 bp):
TAAAAAGATTTTTGCATATTGC
Found at i:19862990 original size:12 final size:12
Alignment explanation
Indices: 19862973--19862998 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19862963 CAGATTGAAG
19862973 ATAGCAAATCTT
1 ATAGCAAATCTT
19862985 ATAGCAAATCTT
1 ATAGCAAATCTT
19862997 AT
1 AT
19862999 CTCTCTAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATAGCAAATCTT
Found at i:19863022 original size:57 final size:56
Alignment explanation
Indices: 19862934--19863042 Score: 139
Period size: 57 Copynumber: 1.9 Consensus size: 56
19862924 TTAAAGCCAC
* * * *
19862934 AATCTTATCTCCTTAAAGTTACAGTGGAGCAGATTGAAGATAGCAAATCTTATAGCA
1 AATCTTATCTCCTTAAAGTTACAATAGAGCAGATTAAACATA-CAAATCTTATAGCA
* *
19862991 AATCTTATCT-CTCTAAAGTTGCAATAGAGCAGATTAAACCTACAAATCTTAT
1 AATCTTATCTCCT-TAAAGTTACAATAGAGCAGATTAAACATACAAATCTTAT
19863043 CTCCTTGAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
56 12 0.27
57 33 0.73
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (56 bp):
AATCTTATCTCCTTAAAGTTACAATAGAGCAGATTAAACATACAAATCTTATAGCA
Found at i:19863054 original size:44 final size:44
Alignment explanation
Indices: 19862989--19863543 Score: 374
Period size: 44 Copynumber: 12.1 Consensus size: 44
19862979 AATCTTATAG
* * * * *
19862989 CAAATCTTATCTCTCTAAAGTTGCAATAGAGCAGATTAAACCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * *
19863033 CAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAAATTGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
** ** **
19863077 GTGAATCTTATCTTTCTGAAGTTGCAGCAGAGCAGATTGAAA-CTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTA
* * * * *
19863122 CAAATCTTATCTACATGAAGTTGCAGTGAAGCAGATTGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
** * * ** * *
19863166 GTGAATCTTATCTCCCTAAAGTTGCAATGGAATAGATTGAAGATA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* *
19863211 GCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * *
19863256 CAAGTTATAAATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATTGAAGATG
1 C-------AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * *
19863307 CAAATCTTATTTCCCTGAAGTTGCAGTAGAACAGATTAAAGCTTAAAGCCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-T------A
* * * ** *
19863358 CAAATCTTATCTCCCTGAAATTGCAATGGAGCAGATTGAATATG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * *
19863402 CGAATCTTATTTCCCTGAAGTTGTACTGGAACAGATTAAAGCTACAAGCCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-------A
*
19863453 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * *
19863497 CAAATCTTATTTCTCTGAAGTTCCAGTGGAACAGATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
19863541 CAA
1 CAA
19863544 GTTACAAGTC
Statistics
Matches: 392, Mismatches: 94, Indels: 50
0.73 0.18 0.09
Matches are distributed among these distances:
43 2 0.01
44 176 0.45
45 103 0.26
46 2 0.01
50 1 0.00
51 108 0.28
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
Found at i:19863071 original size:101 final size:100
Alignment explanation
Indices: 19862891--19863087 Score: 263
Period size: 101 Copynumber: 2.0 Consensus size: 100
19862881 CATCGTGGCG
* * *
19862891 AATCTTATCTCCTTAAAGTTATAGTGGAGCAGATTAAAGCCACAATCTTATCTCCTTAAAGTTAC
1 AATCTTATCTCCTTAAAGTTACAATAGAGCAGATTAAAGCCACAATCTTATCTCCTTAAAGTTAC
*
19862956 AGTGGAGCAGATTGAAGATAGCAAATCTTATAGCA
66 AGTGGAGCAAATTGAAGATAGCAAATCTTATAGCA
* *
19862991 AATCTTATCT-CTCTAAAGTTGCAATAGAGCAGATTAAA-CCTACAAATCTTATCTCCTTGAAGT
1 AATCTTATCTCCT-TAAAGTTACAATAGAGCAGATTAAAGCC-AC-AATCTTATCTCCTTAAAGT
** **
19863054 TGTAGTGGAGCAAATTGAAGATAGTGAATCTTAT
63 TACAGTGGAGCAAATTGAAGATAGCAAATCTTAT
19863088 CTTTCTGAAG
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
99 4 0.05
100 33 0.39
101 47 0.56
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (100 bp):
AATCTTATCTCCTTAAAGTTACAATAGAGCAGATTAAAGCCACAATCTTATCTCCTTAAAGTTAC
AGTGGAGCAAATTGAAGATAGCAAATCTTATAGCA
Found at i:19863203 original size:89 final size:89
Alignment explanation
Indices: 19862991--19863248 Score: 324
Period size: 89 Copynumber: 2.9 Consensus size: 89
19862981 TCTTATAGCA
*
19862991 AATCTTATCTCTCTAAAGTTGCAATAGAGCAGATT-AAACCTACAAATCTTATCTCCTTGAAGTT
1 AATCTTATCTCTCTAAAGTTGCAATAGAGCAGATTGAAA-CTACAAATCTTATCTCCATGAAGTT
* * *
19863055 GTAGTGGAGCAAATTGAAGATAGTG
65 GCAGTGAAGCAGATTGAAGATAGTG
* * ** *
19863080 AATCTTATCTTTCTGAAGTTGCAGCAGAGCAGATTGAAACTACAAATCTTATCTACATGAAGTTG
1 AATCTTATCTCTCTAAAGTTGCAATAGAGCAGATTGAAACTACAAATCTTATCTCCATGAAGTTG
19863145 CAGTGAAGCAGATTGAAGATAGTG
66 CAGTGAAGCAGATTGAAGATAGTG
* * ** * *
19863169 AATCTTATCTCCCTAAAGTTGCAATGGAATAGATTGAAGA-TAGCAAATCTTATTTCCCTGAAGT
1 AATCTTATCTCTCTAAAGTTGCAATAGAGCAGATTGAA-ACTA-CAAATCTTATCTCCATGAAGT
19863233 TGCAGTGGAA-CAGATT
64 TGCAGT-GAAGCAGATT
19863249 AAAGCTACAA
Statistics
Matches: 145, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
89 108 0.74
90 34 0.23
91 3 0.02
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (89 bp):
AATCTTATCTCTCTAAAGTTGCAATAGAGCAGATTGAAACTACAAATCTTATCTCCATGAAGTTG
CAGTGAAGCAGATTGAAGATAGTG
Found at i:19863230 original size:134 final size:134
Alignment explanation
Indices: 19863033--19863331 Score: 325
Period size: 134 Copynumber: 2.2 Consensus size: 134
19863023 ATTAAACCTA
* * * * ** *
19863033 CAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAAATTGAAGATAGTGAATCTTATCTTTCTGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAATGGAACAAATTGAAGATAGCAAATCTTATCTTCCTGAAG
*
19863098 TTGCAGCAGAGCAGATTGAAA-CTAC-AAATCTTATCTACATGAAGTTGCAGTGAAGCAGATTGA
66 TTGCAGCAGAACAGATT-AAAGCTACAAAATCTTATCTACATGAAGTTGCAGTGAAGCAGATTGA
19863161 AGATAG
130 AGAT-G
** * * *
19863167 TGAATCTTATCTCCCTAAAGTTGCAATGGAATAGATTGAAGATAGCAAATCTTAT-TTCCCTGAA
1 CAAATCTTATCTCCCTGAAGTTGCAATGGAACAAATTGAAGATAGCAAATCTTATCTT-CCTGAA
** * * *
19863231 GTTGCAGTGGAACAGATTAAAGCTACAAGTTATAAATCTTATCTCCCTGAAGTTGTAGTGAAGCA
65 GTTGCAGCAGAACAGATTAAAGCTAC-----A-AAATCTTATCTACATGAAGTTGCAGTGAAGCA
19863296 GATTGAAGATG
124 GATTGAAGATG
*
19863307 CAAATCTTATTTCCCTGAAGTTGCA
1 CAAATCTTATCTCCCTGAAGTTGCA
19863332 GTAGAACAGA
Statistics
Matches: 134, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
133 5 0.04
134 68 0.51
140 22 0.16
141 39 0.29
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (134 bp):
CAAATCTTATCTCCCTGAAGTTGCAATGGAACAAATTGAAGATAGCAAATCTTATCTTCCTGAAG
TTGCAGCAGAACAGATTAAAGCTACAAAATCTTATCTACATGAAGTTGCAGTGAAGCAGATTGAA
GATG
Found at i:19863298 original size:51 final size:50
Alignment explanation
Indices: 19863119--19863577 Score: 303
Period size: 51 Copynumber: 9.7 Consensus size: 50
19863109 CAGATTGAAA
* * * *
19863119 CTACAAATCTTATCTACATGAAGTTGCAGT-GAAGCAGATTGAAG--ATAG
1 CTACAAATCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATTAAAGCTAAAG
* * * * * *
19863167 -T--GAATCTTATCTCCCTAAAGTTGCAATGGAATAGATTGAAG--ATAG
1 CTACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAAG
*
19863212 ---CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAG
1 CTACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTA-AAG
* * *
19863260 TTATAAATCTTATCTCCCTGAAGTTGTAGT-GAAGCAGATT---G---AAG
1 CTACAAATCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATTAAAGCTAAAG
* * * *
19863304 ATGCAAATCTTATTTCCCTGAAGTTGCAGTAGAACAGATTAAAGCTTAAAG
1 CTACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGC-TAAAG
* * * * *
19863355 CCACAAATCTTATCTCCCTGAAATTGCAATGGAGCAGATTGAA--T--A-
1 CTACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAAG
* * * * *
19863400 -TGCGAATCTTATTTCCCTGAAGTTGTACTGGAACAGATTAAAGCTACAAG
1 CTACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTA-AAG
* * *
19863450 CCACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T-----TAAAG
1 CTACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAAG
* * * *
19863494 CTACAAATCTTATTTCTCTGAAGTTCCAGTGGAACAGATTGAAGCTACAAG
1 CTACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTA-AAG
* * * *
19863545 TTACAAGTCTTATCTCCTTAAAGTTGCAGTGGA
1 CTACAAATCTTATCTCCCTGAAGTTGCAGTGGA
19863578 GAAGATTGAA
Statistics
Matches: 320, Mismatches: 60, Indels: 59
0.73 0.14 0.13
Matches are distributed among these distances:
44 102 0.32
45 74 0.23
46 5 0.02
47 3 0.01
48 4 0.01
49 1 0.00
50 6 0.02
51 125 0.39
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (50 bp):
CTACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAAG
Found at i:19863339 original size:95 final size:95
Alignment explanation
Indices: 19863169--19863588 Score: 554
Period size: 95 Copynumber: 4.4 Consensus size: 95
19863159 GAAGATAGTG
* * **
19863169 AATCTTATCTCCCTAAAGTTGCAATGGAATAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-GCAAATCTTATTTCCCTGAAGTT
** *
19863234 GCAGTGGAACAGATTAAAGCTACAAGTTATA
65 GCAGTGGAACAGATTAAAGCTACAAGCCACA
* *
19863265 AATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATTGAAGATGCAAATCTTATTTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGCAAATCTTATTTCCCTGAAGTTG
*
19863330 CAGTAGAACAGATTAAAGCTTA-AAGCCACA
66 CAGTGGAACAGATTAAAGC-TACAAGCCACA
* * * *
19863360 AATCTTATCTCCCTGAAATTGCAATGGAGCAGATTGAATATGCGAATCTTATTTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGCAAATCTTATTTCCCTGAAGTTG
* *
19863425 TACTGGAACAGATTAAAGCTACAAGCCACA
66 CAGTGGAACAGATTAAAGCTACAAGCCACA
* * * * * *
19863455 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATTTCTCTGAAGTTC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGCAAATCTTATTTCCCTGAAGTTG
* **
19863520 CAGTGGAACAGATTGAAGCTACAAGTTACA
66 CAGTGGAACAGATTAAAGCTACAAGCCACA
* * * *
19863550 AGTCTTATCTCCTTAAAGTTGCAGTGGAGAAGATTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
19863589 CAACAATCTT
Statistics
Matches: 282, Mismatches: 40, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
94 2 0.01
95 243 0.86
96 37 0.13
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (95 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGCAAATCTTATTTCCCTGAAGTTG
CAGTGGAACAGATTAAAGCTACAAGCCACA
Found at i:19865369 original size:14 final size:15
Alignment explanation
Indices: 19865319--19865373 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
19865309 TTGTTCGTGT
*
19865319 TATTATTATTATACG
1 TATTATTATTATGCG
*
19865334 TTCATATTTTATTATGCG
1 -T-AT-TATTATTATGCG
19865352 TATTATTATTATGC-
1 TATTATTATTATGCG
19865366 TATTATTA
1 TATTATTA
19865374 CTACAAATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 8 0.24
15 10 0.29
16 3 0.09
17 3 0.09
18 10 0.29
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.56
Consensus pattern (15 bp):
TATTATTATTATGCG
Found at i:19867465 original size:26 final size:26
Alignment explanation
Indices: 19867427--19867478 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
19867417 CTGACTCTCA
*
19867427 GAATGAACCCGAGGACTTTACTGATG
1 GAATGAACCCGAGGACTTCACTGATG
*
19867453 GAATGAACTCGAGGACTTCACTGATG
1 GAATGAACCCGAGGACTTCACTGATG
19867479 ATGCCCCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (26 bp):
GAATGAACCCGAGGACTTCACTGATG
Found at i:19875455 original size:12 final size:13
Alignment explanation
Indices: 19875435--19875463 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
19875425 AAGCATCATT
19875435 AAATACAAAATAA
1 AAATACAAAATAA
19875448 AAAT-CAAAATAA
1 AAATACAAAATAA
19875460 AAAT
1 AAAT
19875464 GATAAGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (13 bp):
AAATACAAAATAA
Found at i:19877214 original size:179 final size:178
Alignment explanation
Indices: 19876913--19877989 Score: 1641
Period size: 179 Copynumber: 6.0 Consensus size: 178
19876903 GAATTGGTGT
* * * * * **
19876913 TTCGATCCGCTCTAATGTAATTTTAGGGAGAACAGACTTGTAGCTTCGATCTACTCCGCTATAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
* * * * *
19876978 TCCAAAGAGATAAGAATTGGTAATTTCAACCTCCTCCACTGCAATTTCAGCGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAG-GAGATAAGGTTTGT
* *
19877043 ATATTTTTATCTTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
130 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
* * * *
19877092 TTCGATCTGCTCTAATGTAATTTTAGGGAGAAGAGATTTGTAGCTTCGATCTATTCCACTGGAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
*
19877157 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGTAACTTCATGGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCA-GGAGATAAGGTTTGT
*
19877222 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGGTAAGGATTGTGGC
130 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
* * * * *
19877271 TTCTATCTGCTCCAATATAATTTCAGGGAGAAGAGATTTGTAGCATCAATCTACTCCGCTGTAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
*
19877336 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAGAAAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAG-GAGATAAGGTTTGT
19877401 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
130 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
* * **
19877450 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTTGATCTACACTTCTGGAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
*
19877515 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGTAACTTCAAGGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTC-AGGAGATAAGGTTTGT
* *
19877580 GTATTTTTATCCTGCTCCATTACAACTTCAGGGAGATAAGGATTGTGGC
130 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
* * * * * *
19877629 TTCGATCTTCTCCAATGTAATTTTAGGGAGAAGAGATTTGAAGCTTCGATTTAATCTGCTGGAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
** * * *
19877694 TTCAAGGAGATAAGAATTTATAAGTTCAACCTGCTCTACTGTAACTTCAGGGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCA-GGAGATAAGGTTTGT
* * *
19877759 GTATTTTTGTCCTGCTCCAATGCAACCTCAGGGAGATAAGGATTGTGGC
130 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
* * *
19877808 TTCGATCTTCTCCAATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTTCGCTGGAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
19877873 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCA-GGAGATAAGGTTTGT
*
19877938 GTATTTTTATCCTGCTCCACTACAACTTCAGGGAGATAAGGATTGTGGC
130 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
19877987 TTC
1 TTC
19877990 ACCAATCTGT
Statistics
Matches: 821, Mismatches: 73, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
178 2 0.00
179 816 0.99
180 3 0.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (178 bp):
TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAGGAGATAAGGTTTGTG
TATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
Found at i:19877296 original size:44 final size:44
Alignment explanation
Indices: 19877055--19877990 Score: 447
Period size: 44 Copynumber: 20.9 Consensus size: 44
19877045 ATTTTTATCT
* *
19877055 TGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGCTTCGATC
1 TGCTCCACTGTAACTTCAGGGAGATAAGGATTGTGGCTTCAATC
* * * * * *
19877099 TGCTCTAATGTAATTTTAGGGAG--AAGAGATTTGTAGCTTCGATC
1 TGCTCCACTGTAACTTCAGGGAGATAAG-GA-TTGTGGCTTCAATC
** * * * ** *
19877143 TATTCCACTGGAACTTCAAGGAGATAAGAATTGGTAACTTCAACC
1 TGCTCCACTGTAACTTCAGGGAGATAAGGATT-GTGGCTTCAATC
* * ** **
19877188 TGCTCCACTGTAACTTCATGGAGATAAGGTTTGTGTATTTTTATCC
1 TGCTCCACTGTAACTTCAGGGAGATAAGGATTGTG-GCTTCAAT-C
* * *
19877234 TGCTCCACTGCAACTTCAGGGAGGTAAGGATTGTGGCTTCTATC
1 TGCTCCACTGTAACTTCAGGGAGATAAGGATTGTGGCTTCAATC
* * * * *
19877278 TGCTCCAATATAATTTCAGGGAG--AAGAGATTTGTAGCATCAATC
1 TGCTCCACTGTAACTTCAGGGAGATAAG-GA-TTGTGGCTTCAATC
* * * * ** *
19877322 TACTCCGCTGTAACTTCAAGGAGATAAGAATTGGTAACTTCAACC
1 TGCTCCACTGTAACTTCAGGGAGATAAGGATT-GTGGCTTCAATC
* ** * ** **
19877367 TGCTCCACTGCAACTTCAGAAAGATAAGGTTTGTGTATTTTTATCC
1 TGCTCCACTGTAACTTCAGGGAGATAAGGATTGTG-GCTTCAAT-C
* *
19877413 TGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGCTTCGATC
1 TGCTCCACTGTAACTTCAGGGAGATAAGGATTGTGGCTTCAATC
* * * **
19877457 TGCTCCAATGTAATTTCAGGGAG--AAGAGATTTGTAGCTTTGATC
1 TGCTCCACTGTAACTTCAGGGAGATAAG-GA-TTGTGGCTTCAATC
* * ** * * * ** *
19877501 TACACTTCTGGAACTTCAAGGAGATAAGAATTGGTAACTTCAACC
1 TGCTCCACTGTAACTTCAGGGAGATAAGGATT-GTGGCTTCAATC
* * ** **
19877546 TGCTCCACTGTAACTTCAAGGAGATAAGGTTTGTGTATTTTTATCC
1 TGCTCCACTGTAACTTCAGGGAGATAAGGATTGTG-GCTTCAAT-C
* ** *
19877592 TGCTCCATTACAACTTCAGGGAGATAAGGATTGTGGCTTCGATC
1 TGCTCCACTGTAACTTCAGGGAGATAAGGATTGTGGCTTCAATC
* * * * * *
19877636 TTCTCCAATGTAATTTTAGGGAG--AAGAGATT-TGAAGCTTCGATT
1 TGCTCCACTGTAACTTCAGGGAGATAAG-GATTGTG--GCTTCAATC
** ** * * * * * *
19877680 TAATCTGCTGGAACTTCAAGGAGATAAGAATTTATAAG-TTCAACC
1 TGCTCCACTGTAACTTCAGGGAGATAAGGA-TTGT-GGCTTCAATC
* * ** ***
19877725 TGCTCTACTGTAACTTCAGGGAGATAAGGTTTGTGTATTTTTGTCC
1 TGCTCCACTGTAACTTCAGGGAGATAAGGATTGTG-GCTTCAAT-C
* * * *
19877771 TGCTCCAATGCAACCTCAGGGAGATAAGGATTGTGGCTTCGATC
1 TGCTCCACTGTAACTTCAGGGAGATAAGGATTGTGGCTTCAATC
* * * * * *
19877815 TTCTCCAATGTAATTTCAAGGAG--AAGAGATTTGTAGCTTCGATC
1 TGCTCCACTGTAACTTCAGGGAGATAAG-GA-TTGTGGCTTCAATC
* * * * * * ** *
19877859 TACTTCGCTGGAACTTCAAGGAGATAAGAATTGGTAACTTCAACC
1 TGCTCCACTGTAACTTCAGGGAGATAAGGATT-GTGGCTTCAATC
* * ** **
19877904 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCC
1 TGCTCCACTGTAACTTCAGGGAGATAAGGATTGTG-GCTTCAAT-C
**
19877950 TGCTCCACTACAACTTCAGGGAGATAAGGATTGTGGCTTCA
1 TGCTCCACTGTAACTTCAGGGAGATAAGGATTGTGGCTTCA
19877991 CCAATCTGTT
Statistics
Matches: 662, Mismatches: 191, Indels: 77
0.71 0.21 0.08
Matches are distributed among these distances:
42 17 0.03
43 12 0.02
44 250 0.38
45 203 0.31
46 179 0.27
47 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (44 bp):
TGCTCCACTGTAACTTCAGGGAGATAAGGATTGTGGCTTCAATC
Found at i:19878849 original size:24 final size:25
Alignment explanation
Indices: 19878815--19878861 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
19878805 TGGCCTCTCT
*
19878815 TTTTTCTTTTTCTTTTCTTTTTTTG
1 TTTTTCTTTTTATTTTCTTTTTTTG
19878840 TTTTTC-TTTTATTTTCTTTTTT
1 TTTTTCTTTTTATTTTCTTTTTT
19878862 CTTTTCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.85
Consensus pattern (25 bp):
TTTTTCTTTTTATTTTCTTTTTTTG
Found at i:19883203 original size:22 final size:23
Alignment explanation
Indices: 19883156--19883201 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
19883146 TTTTTTTAAA
19883156 CACATTTCTTTTCCCGTCCCCCC
1 CACATTTCTTTTCCCGTCCCCCC
19883179 CACATTTCTTTTCCCGTCCCCCC
1 CACATTTCTTTTCCCGTCCCCCC
19883202 ACTCCCAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.52, G:0.04, T:0.35
Consensus pattern (23 bp):
CACATTTCTTTTCCCGTCCCCCC
Found at i:19883470 original size:20 final size:20
Alignment explanation
Indices: 19883445--19883485 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
19883435 AAGTTTGTTT
19883445 TATTTTTTCTTTCTCTGATA
1 TATTTTTTCTTTCTCTGATA
19883465 TATTTTTTCTTTCTCTGATA
1 TATTTTTTCTTTCTCTGATA
19883485 T
1 T
19883486 CCCAGTACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.05, T:0.66
Consensus pattern (20 bp):
TATTTTTTCTTTCTCTGATA
Found at i:19884589 original size:13 final size:13
Alignment explanation
Indices: 19884573--19884622 Score: 68
Period size: 13 Copynumber: 3.9 Consensus size: 13
19884563 ATAGCCATTA
*
19884573 TTTCTTACATTTG
1 TTTCTTACATTTC
19884586 TTTCTGTA-ATTTC
1 TTTCT-TACATTTC
19884599 TTTCTTACA-TTC
1 TTTCTTACATTTC
19884611 TTTCTTACATTT
1 TTTCTTACATTT
19884623 GTAATTATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 14 0.42
13 17 0.52
14 2 0.06
ACGTcount: A:0.16, C:0.18, G:0.04, T:0.62
Consensus pattern (13 bp):
TTTCTTACATTTC
Found at i:19884613 original size:12 final size:12
Alignment explanation
Indices: 19884568--19884621 Score: 56
Period size: 12 Copynumber: 4.3 Consensus size: 12
19884558 TATGCATAGC
*
19884568 CATTATTTCTTA
1 CATTCTTTCTTA
*
19884580 CATTTGTTTCTGTA
1 CA-TTCTTTCT-TA
19884594 -ATTTCTTTCTTA
1 CA-TTCTTTCTTA
19884606 CATTCTTTCTTA
1 CATTCTTTCTTA
19884618 CATT
1 CATT
19884622 TGTAATTATC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
12 18 0.49
13 17 0.46
14 2 0.05
ACGTcount: A:0.19, C:0.19, G:0.04, T:0.59
Consensus pattern (12 bp):
CATTCTTTCTTA
Found at i:19886365 original size:18 final size:19
Alignment explanation
Indices: 19886320--19886365 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
19886310 CATTATATTA
*
19886320 ATAATA-AATAATTGAATG
1 ATAATATAATAATTAAATG
19886338 ATACATTATAA-AATTAAATG
1 ATA-A-TATAATAATTAAATG
19886358 ATAATATA
1 ATAATATA
19886366 TGATAAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 7 0.29
19 2 0.08
20 13 0.54
21 2 0.08
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.35
Consensus pattern (19 bp):
ATAATATAATAATTAAATG
Found at i:19893588 original size:43 final size:43
Alignment explanation
Indices: 19893477--19893588 Score: 122
Period size: 44 Copynumber: 2.6 Consensus size: 43
19893467 GTTATCGTGT
* * * *
19893477 AAGACCATGTATGGGACGTTGGCATCGACTTGTGTTTACGTGT
1 AAGACCATGTCTGGGACGTTGGCATCGACTTGTGATTACATGC
19893520 AAGACTC-TGTTCTGGGACAG-TGGCATCGA-TATGTGATTACATGC
1 AAGAC-CATG-TCTGGGAC-GTTGGCATCGACT-TGTGATTACATGC
*
19893564 AAGACCACGTCTGGGACGTTGGCAT
1 AAGACCATGTCTGGGACGTTGGCAT
19893589 TGTACGAGTT
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
42 1 0.02
43 23 0.40
44 33 0.57
45 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (43 bp):
AAGACCATGTCTGGGACGTTGGCATCGACTTGTGATTACATGC
Found at i:19900947 original size:9 final size:9
Alignment explanation
Indices: 19900935--19900964 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
19900925 TAATAAAAAA
19900935 TTCCCTTTT
1 TTCCCTTTT
*
19900944 TTCCTTTTT
1 TTCCCTTTT
19900953 TTCCCTTTT
1 TTCCCTTTT
19900962 TTC
1 TTC
19900965 TTATTCTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (9 bp):
TTCCCTTTT
Found at i:19903849 original size:21 final size:21
Alignment explanation
Indices: 19903823--19903881 Score: 118
Period size: 21 Copynumber: 2.8 Consensus size: 21
19903813 ACACACCAAG
19903823 AGAAGCTCATAAGAGCTAAGC
1 AGAAGCTCATAAGAGCTAAGC
19903844 AGAAGCTCATAAGAGCTAAGC
1 AGAAGCTCATAAGAGCTAAGC
19903865 AGAAGCTCATAAGAGCT
1 AGAAGCTCATAAGAGCT
19903882 GATCCACTCG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.15
Consensus pattern (21 bp):
AGAAGCTCATAAGAGCTAAGC
Found at i:19904575 original size:18 final size:18
Alignment explanation
Indices: 19904552--19904589 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
19904542 CAAAATTACT
19904552 TAACAA-AATACTTATAAA
1 TAACAACAATACTT-TAAA
19904570 TAACAACTAATACTTTAAA
1 TAACAAC-AATACTTTAAA
19904589 T
1 T
19904590 TCATCAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 5 0.28
20 7 0.39
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (18 bp):
TAACAACAATACTTTAAA
Found at i:19907216 original size:108 final size:108
Alignment explanation
Indices: 19907089--19907283 Score: 259
Period size: 108 Copynumber: 1.8 Consensus size: 108
19907079 AAATTAGCAA
* * *** *
19907089 CACCTAAAAACAGTTAATTTTTACTGACATCGATGTTG-TCTGACAAGTAGGCAGAATCCAAAAA
1 CACCTAAAAACAATTAATTTTTACTGACACCGATACAGCT-TGACAAGTAGGCAGAACCCAAAAA
*
19907153 AATATTTTTTTTAACTGACACTAGTGTCACCTAATAGACCGGCG
65 AATATTTTTTTTAACTAACACTAGTGTCACCTAATAGACCGGCG
* * *
19907197 CACCTAAAAA-AATTGAATTTTTACTGACACCGATACAGCTTGACAGGTAGGCGGCACCCAAAAA
1 CACCTAAAAACAATT-AATTTTTACTGACACCGATACAGCTTGACAAGTAGGCAGAACCCAAAAA
*
19907261 AATATTTTTTTTAATTAACACTA
65 AATATTTTTTTTAACTAACACTA
19907284 ATTCCTCCTA
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
107 3 0.04
108 70 0.95
109 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.29
Consensus pattern (108 bp):
CACCTAAAAACAATTAATTTTTACTGACACCGATACAGCTTGACAAGTAGGCAGAACCCAAAAAA
ATATTTTTTTTAACTAACACTAGTGTCACCTAATAGACCGGCG
Found at i:19907294 original size:108 final size:108
Alignment explanation
Indices: 19907089--19907326 Score: 248
Period size: 108 Copynumber: 2.2 Consensus size: 108
19907079 AAATTAGCAA
* * *** *
19907089 CACCTAAAAACAGTTAATTTTTACTGACATCGATGTTGTCTGACAAGTAGGCAGAATCCAAAAAA
1 CACCTAAAAA-AATTAATTTTTACTGACACCGATACAGTCTGACAAGTAGGCAGAACCCAAAAAA
* * * *
19907154 ATATTTTTTTTAACTGACACTAGTGTCACCTAATAGACCGGC-G
65 ATATTTTTTTTAACTAACACTAATGTCACCTAAGAAACCGGCGG
* * *
19907197 CACCTAAAAAAATTGAATTTTTACTGACACCGATACAG-CTTGACAGGTAGGCGGCACCCAAAAA
1 CACCTAAAAAAATT-AATTTTTACTGACACCGATACAGTC-TGACAAGTAGGCAGAACCCAAAAA
* * **
19907261 AATATTTTTTTTAATTAACACTAAT-TCCTCCTAAGAAACTTGCGG
64 AATATTTTTTTTAACTAACACTAATGT-CACCTAAGAAACCGGCGG
* *
19907306 CACCTAAAAAAAATCATTTTT
1 CACCTAAAAAAATTAATTTTT
19907327 TTACTAACAT
Statistics
Matches: 107, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
107 5 0.05
108 88 0.82
109 14 0.13
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.29
Consensus pattern (108 bp):
CACCTAAAAAAATTAATTTTTACTGACACCGATACAGTCTGACAAGTAGGCAGAACCCAAAAAAA
TATTTTTTTTAACTAACACTAATGTCACCTAAGAAACCGGCGG
Found at i:19910292 original size:18 final size:18
Alignment explanation
Indices: 19910269--19910305 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
19910259 TTTTGTTGAT
19910269 TTTGATTATGAGGGTTTG
1 TTTGATTATGAGGGTTTG
* *
19910287 TTTGATTTTGTGGGTTTG
1 TTTGATTATGAGGGTTTG
19910305 T
1 T
19910306 GTTCTGGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.00, G:0.32, T:0.57
Consensus pattern (18 bp):
TTTGATTATGAGGGTTTG
Found at i:19914496 original size:29 final size:30
Alignment explanation
Indices: 19914462--19914526 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
19914452 CCAAATTAAC
*
19914462 CAAAATTAA-TTCGG-TCAGTTAATAGTTTT
1 CAAAATTAATTTCGGTTCAGTTAA-AGGTTT
19914491 CAAAA-TAATTTCGGTTCAGTTAAAGGTTT
1 CAAAATTAATTTCGGTTCAGTTAAAGGTTT
19914520 CAAAATT
1 CAAAATT
19914527 TCAGTTAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
28 3 0.09
29 20 0.62
30 9 0.28
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (30 bp):
CAAAATTAATTTCGGTTCAGTTAAAGGTTT
Found at i:19915976 original size:18 final size:17
Alignment explanation
Indices: 19915928--19915977 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
19915918 TCAGGGGAAG
19915928 AAGAAAAAATAAAAGAGAA
1 AAGAAAAAA-AAAAGA-AA
**
19915947 AATTAAAAAAAAAGAAA
1 AAGAAAAAAAAAAGAAA
*
19915964 AAGAAAAAGAAAAG
1 AAGAAAAAAAAAAG
19915978 GAAATCTGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 13 0.50
18 6 0.23
19 7 0.27
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (17 bp):
AAGAAAAAAAAAAGAAA
Found at i:19925768 original size:24 final size:24
Alignment explanation
Indices: 19925723--19925768 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
19925713 TAAATAAATT
*
19925723 TTTTCATTTTTTTTGAAATTATAG
1 TTTTCATTTTTTTTCAAATTATAG
* *
19925747 TTTTGATTTTTTTTCAATTTAT
1 TTTTCATTTTTTTTCAAATTAT
19925769 TTTAAAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (24 bp):
TTTTCATTTTTTTTCAAATTATAG
Found at i:19926044 original size:18 final size:18
Alignment explanation
Indices: 19926017--19926058 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
19926007 CTCGATGATC
* *
19926017 CCATCTGCCAGCGTACCA
1 CCATCAGCCAGCCTACCA
*
19926035 CCATCAGCCATCCTACCA
1 CCATCAGCCAGCCTACCA
19926053 CCATCA
1 CCATCA
19926059 ACTACCACGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.48, G:0.10, T:0.17
Consensus pattern (18 bp):
CCATCAGCCAGCCTACCA
Found at i:19930801 original size:10 final size:10
Alignment explanation
Indices: 19930788--19930823 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
19930778 AATTTTTTGA
19930788 ATTTTTAAAG
1 ATTTTTAAAG
19930798 ATTTTTAAAG
1 ATTTTTAAAG
*
19930808 ATTGTTAAAG
1 ATTTTTAAAG
19930818 ATTTTT
1 ATTTTT
19930824 TTTATATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (10 bp):
ATTTTTAAAG
Found at i:19932209 original size:39 final size:39
Alignment explanation
Indices: 19932154--19932232 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
19932144 AGTCTCCCGG
*
19932154 GGGTAATACTATAATTGTTTGCTCAAGAAGTATGCAATT
1 GGGTAATACTAAAATTGTTTGCTCAAGAAGTATGCAATT
*
19932193 GGGTAATACTAAAATTGTTTGTTCAAGAAGTATGCAATT
1 GGGTAATACTAAAATTGTTTGCTCAAGAAGTATGCAATT
19932232 G
1 G
19932233 ATAAGCTAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (39 bp):
GGGTAATACTAAAATTGTTTGCTCAAGAAGTATGCAATT
Found at i:19946415 original size:18 final size:19
Alignment explanation
Indices: 19946394--19946434 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
19946384 AAAAAAATAA
19946394 AAAAAT-ATTAAAACTTAT
1 AAAAATCATTAAAACTTAT
* *
19946412 -AAAATCATTAGAAGTTAT
1 AAAAATCATTAAAACTTAT
19946430 AAAAA
1 AAAAA
19946435 AAATCATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 5 0.26
18 10 0.53
19 4 0.21
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (19 bp):
AAAAATCATTAAAACTTAT
Found at i:19946447 original size:21 final size:22
Alignment explanation
Indices: 19946412--19946455 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
19946402 TAAAACTTAT
*
19946412 AAAATCATTAGAAGTTATAAAA
1 AAAATCATTAAAAGTTATAAAA
19946434 AAAATCA-TAAAAGTTATAAAA
1 AAAATCATTAAAAGTTATAAAA
19946455 A
1 A
19946456 CCATAACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.25
Consensus pattern (22 bp):
AAAATCATTAAAAGTTATAAAA
Found at i:19948754 original size:38 final size:38
Alignment explanation
Indices: 19948700--19948788 Score: 151
Period size: 38 Copynumber: 2.3 Consensus size: 38
19948690 TGGCTAGAAG
* *
19948700 ATGGTTATCTACTATCTCTACGAAGCGACACCATGAAA
1 ATGGTTATCTACTATCTCCACGAAACGACACCATGAAA
*
19948738 ATGGTTATCTATTATCTCCACGAAACGACACCATGAAA
1 ATGGTTATCTACTATCTCCACGAAACGACACCATGAAA
19948776 ATGGTTATCTACT
1 ATGGTTATCTACT
19948789 GAGTATATGG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (38 bp):
ATGGTTATCTACTATCTCCACGAAACGACACCATGAAA
Found at i:19950541 original size:27 final size:27
Alignment explanation
Indices: 19950511--19950597 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 27
19950501 ACGTAGTGAC
*
19950511 AGTGGCATTTCGGTGCAAATCAATGAT
1 AGTGGCACTTCGGTGCAAATCAATGAT
* *
19950538 AGTGGTACTTCAGTGCAAATCAATGAT
1 AGTGGCACTTCGGTGCAAATCAATGAT
* * * * *
19950565 AATGGCACCTCGGTACAACTCAGTGAT
1 AGTGGCACTTCGGTGCAAATCAATGAT
19950592 AGTGGC
1 AGTGGC
19950598 TCATTGTAAC
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (27 bp):
AGTGGCACTTCGGTGCAAATCAATGAT
Found at i:19952835 original size:13 final size:13
Alignment explanation
Indices: 19952817--19952863 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
19952807 CATGATATGA
19952817 AAAATGAAATTAG
1 AAAATGAAATTAG
19952830 AAAATGAAA-T-G
1 AAAATGAAATTAG
*
19952841 GAAATGAAATTAG
1 AAAATGAAATTAG
19952854 AAAATGAAAT
1 AAAATGAAAT
19952864 GGAATTAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 9 0.30
12 2 0.07
13 19 0.63
ACGTcount: A:0.62, C:0.00, G:0.17, T:0.21
Consensus pattern (13 bp):
AAAATGAAATTAG
Found at i:19952845 original size:24 final size:24
Alignment explanation
Indices: 19952818--19952867 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
19952808 ATGATATGAA
19952818 AAATGAAATTAGAAAATGAAATGG
1 AAATGAAATTAGAAAATGAAATGG
19952842 AAATGAAATTAGAAAATGAAATGG
1 AAATGAAATTAGAAAATGAAATGG
19952866 AA
1 AA
19952868 TTAACTTGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (24 bp):
AAATGAAATTAGAAAATGAAATGG
Found at i:19955284 original size:37 final size:37
Alignment explanation
Indices: 19955238--19955322 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
19955228 TGGACATACG
* * *
19955238 CAAGATAAGATAGTCCACTGGACTTGTCCATATGTTT
1 CAAGCTAAGATAGTCCACTGGACTTATCCATACGTTT
* ** *
19955275 CAAGCTAAGACAGTCCGTTGGACTTATCCTTACGTTT
1 CAAGCTAAGATAGTCCACTGGACTTATCCATACGTTT
19955312 CAAGCTAAGAT
1 CAAGCTAAGAT
19955323 CGTTTGTCAG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (37 bp):
CAAGCTAAGATAGTCCACTGGACTTATCCATACGTTT
Found at i:19955489 original size:28 final size:28
Alignment explanation
Indices: 19955458--19955571 Score: 74
Period size: 28 Copynumber: 4.1 Consensus size: 28
19955448 ATATAAATAT
*
19955458 ACATATATGATTCCGTA-CGTATGAATTC
1 ACATATAAGATTCCGTATC-TATGAATTC
*
19955486 ACATATAAGATTTCGTATCTATGAATCTGC
1 ACATATAAGATTCCGTATCTATGAAT-T-C
** * *
19955516 -C-TATGTGATTTCGTATCTATGAATTT
1 ACATATAAGATTCCGTATCTATGAATTC
* * **
19955542 GCCTATGTGA-TCACGTATCTATGAATTC
1 ACATATAAGATTC-CGTATCTATGAATTC
19955570 AC
1 AC
19955572 CAATGTGATT
Statistics
Matches: 72, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
27 3 0.04
28 65 0.90
29 3 0.04
30 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.39
Consensus pattern (28 bp):
ACATATAAGATTCCGTATCTATGAATTC
Found at i:19955577 original size:28 final size:28
Alignment explanation
Indices: 19955499--19955580 Score: 103
Period size: 28 Copynumber: 2.9 Consensus size: 28
19955489 TATAAGATTT
**
19955499 CGTATCTATGAA-TCTGCCTATGTGATTT
1 CGTATCTATGAATTC-GCCTATGTGATCA
*
19955527 CGTATCTATGAATTTGCCTATGTGATCA
1 CGTATCTATGAATTCGCCTATGTGATCA
* *
19955555 CGTATCTATGAATTCACCAATGTGAT
1 CGTATCTATGAATTCGCCTATGTGAT
19955581 TTTGCATCTA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 46 0.98
29 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (28 bp):
CGTATCTATGAATTCGCCTATGTGATCA
Found at i:19960768 original size:12 final size:12
Alignment explanation
Indices: 19960751--19960775 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19960741 TGTTCAAATC
19960751 AATTAATTCTTG
1 AATTAATTCTTG
19960763 AATTAATTCTTG
1 AATTAATTCTTG
19960775 A
1 A
19960776 TAAATTGGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (12 bp):
AATTAATTCTTG
Found at i:19966561 original size:27 final size:27
Alignment explanation
Indices: 19966439--19966558 Score: 156
Period size: 27 Copynumber: 4.4 Consensus size: 27
19966429 ATCGCTTTAA
19966439 AGGGTAAAATGATCGAAATACCCTCGA-
1 AGGGTAAAATGATCGAAATACCCTC-AT
* *
19966466 AGGATAAAATGATCGAAATACCCTCAA
1 AGGGTAAAATGATCGAAATACCCTCAT
* *
19966493 AGGATAAAATGATCGAAATACCCCCAT
1 AGGGTAAAATGATCGAAATACCCTCAT
19966520 AGGGTAAAATGA-CTGAAATACACC-CAT
1 AGGGTAAAATGATC-GAAATAC-CCTCAT
19966547 AGGGTAAAATGA
1 AGGGTAAAATGA
19966559 CTGTTATGCC
Statistics
Matches: 86, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
26 2 0.02
27 82 0.95
28 2 0.02
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.18
Consensus pattern (27 bp):
AGGGTAAAATGATCGAAATACCCTCAT
Found at i:19966788 original size:26 final size:26
Alignment explanation
Indices: 19966736--19966790 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
19966726 TTTGCCACAT
* *
19966736 ATACTGTTACTGGTAGCTTCGCGGCG
1 ATACTATTACTGGTAGCTTCACGGCG
* *
19966762 ATACTATTACTGGTAGCTTTACTGCG
1 ATACTATTACTGGTAGCTTCACGGCG
19966788 ATA
1 ATA
19966791 TTGGTGTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (26 bp):
ATACTATTACTGGTAGCTTCACGGCG
Found at i:19973984 original size:27 final size:27
Alignment explanation
Indices: 19973954--19974121 Score: 157
Period size: 27 Copynumber: 6.3 Consensus size: 27
19973944 ATTCGTGGGC
* *
19973954 AAATGACCGAAATACCTTCGA-AGGGTA
1 AAATGACCAAAATACC-TCCATAGGGTA
* * * *
19973981 AAATGATCGAAATACC-CTCAAAGGATA
1 AAATGACCAAAATACCTC-CATAGGGTA
* *
19974008 AAATGACCGAAATACCTTCGA-AGGGTA
1 AAATGACCAAAATACC-TCCATAGGGTA
* *
19974035 AAATGATCAAAATACCCCCATAGGGTA
1 AAATGACCAAAATACCTCCATAGGGTA
*
19974062 AAATGACCAAAATACC-CCATATGGTA
1 AAATGACCAAAATACCTCCATAGGGTA
*
19974088 AAATGACCAAAATACC-CTCATAGGATA
1 AAATGACCAAAATACCTC-CATAGGGTA
19974115 AAATGAC
1 AAATGAC
19974122 TGTTATACCC
Statistics
Matches: 121, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
25 1 0.01
26 29 0.24
27 89 0.74
28 1 0.01
29 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.18
Consensus pattern (27 bp):
AAATGACCAAAATACCTCCATAGGGTA
Found at i:19974018 original size:54 final size:54
Alignment explanation
Indices: 19973954--19974121 Score: 241
Period size: 54 Copynumber: 3.1 Consensus size: 54
19973944 ATTCGTGGGC
* *
19973954 AAATGACCGAAATACCTTCGAAGGGTAAAATGATCGAAATACCCTCAAAGGATA
1 AAATGACCGAAATACCTTCGAAGGGTAAAATGATCAAAATACCCTCATAGGATA
* *
19974008 AAATGACCGAAATACCTTCGAAGGGTAAAATGATCAAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCTTCGAAGGGTAAAATGATCAAAATACCCTCATAGGATA
* * * *
19974062 AAATGACCAAAATACC--CCATATGGTAAAATGACCAAAATACCCTCATAGGATA
1 AAATGACCGAAATACCTTCGA-AGGGTAAAATGATCAAAATACCCTCATAGGATA
19974115 AAATGAC
1 AAATGAC
19974122 TGTTATACCC
Statistics
Matches: 103, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
52 2 0.02
53 36 0.35
54 65 0.63
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.18
Consensus pattern (54 bp):
AAATGACCGAAATACCTTCGAAGGGTAAAATGATCAAAATACCCTCATAGGATA
Found at i:19974087 original size:26 final size:26
Alignment explanation
Indices: 19973975--19974121 Score: 161
Period size: 27 Copynumber: 5.5 Consensus size: 26
19973965 ATACCTTCGA
* * *
19973975 AGGGTAAAATGATCGAAATACCCTCAA
1 AGGGTAAAATGACCAAAATACCC-CAT
* * *
19974002 AGGATAAAATGACCGAAATACCTTCGA-
1 AGGGTAAAATGACCAAAATACC--CCAT
*
19974029 AGGGTAAAATGATCAAAATACCCCCAT
1 AGGGTAAAATGACCAAAATA-CCCCAT
19974056 AGGGTAAAATGACCAAAATACCCCAT
1 AGGGTAAAATGACCAAAATACCCCAT
*
19974082 ATGGTAAAATGACCAAAATACCCTCAT
1 AGGGTAAAATGACCAAAATACCC-CAT
*
19974109 AGGATAAAATGAC
1 AGGGTAAAATGAC
19974122 TGTTATACCC
Statistics
Matches: 104, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
26 30 0.29
27 70 0.67
28 3 0.03
29 1 0.01
ACGTcount: A:0.46, C:0.20, G:0.16, T:0.18
Consensus pattern (26 bp):
AGGGTAAAATGACCAAAATACCCCAT
Found at i:19974324 original size:26 final size:26
Alignment explanation
Indices: 19974295--19974349 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
19974285 TTTGCCACAT
* *
19974295 ATACTGTTACTGTCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
19974321 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
19974347 ATA
1 ATA
19974350 TTAGTGTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:19974500 original size:28 final size:28
Alignment explanation
Indices: 19974454--19974517 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
19974444 TGCATTGTAT
* *
19974454 TGTTACTGTATTGGGCTAAGGCCCACAC
1 TGTTACTGTATCGAGCTAAGGCCCACAC
* *
19974482 TGTTACTGTATCGATCTAAGGCCTACAC
1 TGTTACTGTATCGAGCTAAGGCCCACAC
19974510 TG-TACTGT
1 TGTTACTGT
19974518 TACTGTATAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 6 0.19
28 26 0.81
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (28 bp):
TGTTACTGTATCGAGCTAAGGCCCACAC
Done.