Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 17 of 196
Found at i:4860898 original size:18 final size:17
Alignment explanation
Indices: 4860870--4860904 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4860860 ATTATTAAGA
*
4860870 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
4860887 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
4860905 TTAATAATAA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:4861276 original size:45 final size:44
Alignment explanation
Indices: 4861181--4861277 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
4861171 CTATTATACC
*
4861181 TCCATTCCATTCAACCAAACACAAGAATACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACACAAGAATACTATTACGCCTCTAT
* * ** *
4861225 TTCATTACATTCAACCAAACA-ATTGAATTGTTATTACGCCTGTAT
1 TCCATTACATTCAACCAAACACA-AGAA-TACTATTACGCCTCTAT
4861270 TCCATTAC
1 TCCATTAC
4861278 GCCTCTATCC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.50
45 21 0.48
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (44 bp):
TCCATTACATTCAACCAAACACAAGAATACTATTACGCCTCTAT
Found at i:4861278 original size:16 final size:16
Alignment explanation
Indices: 4861257--4861305 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
4861247 TTGAATTGTT
*
4861257 ATTACGCCTGTATTCC
1 ATTACGCCTCTATTCC
*
4861273 ATTACGCCTCTATCCC
1 ATTACGCCTCTATTCC
4861289 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
4861305 A
1 A
4861306 ATACAGCGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.20, C:0.37, G:0.08, T:0.35
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:4862390 original size:30 final size:31
Alignment explanation
Indices: 4862315--4862391 Score: 84
Period size: 33 Copynumber: 2.5 Consensus size: 31
4862305 AAAGATGAAA
**
4862315 ATGTAACAAATTGATAACATTAATGACTACT
1 ATGTAACATTTTGATAACATTAATGACTACT
* * *
4862346 ATGTAACAAGTTTTGATAACATTAGTTACTATT
1 ATGTAAC-A-TTTTGATAACATTAATGACTACT
4862379 ATGTAAC-TTTTGA
1 ATGTAACATTTTGA
4862392 AAGTTGGGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 6 0.15
31 7 0.18
32 1 0.03
33 25 0.64
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (31 bp):
ATGTAACATTTTGATAACATTAATGACTACT
Found at i:4865371 original size:120 final size:118
Alignment explanation
Indices: 4865204--4865447 Score: 298
Period size: 120 Copynumber: 2.1 Consensus size: 118
4865194 TTTCACAGGC
* * * *
4865204 AAGCCTACAAGAAAATTACTAACTGATTCCATCTTTATGTTTCATGTATTAGC-AAATATTTCCT
1 AAGCCTACAAGAAAATTACTAACTGATTCCATCTTTATGGTTCATGTATTAACAAAAAAGTTCCT
*
4865268 TTAATCTTTCACTAATCTTT-TACACCATTTTTTTCTCATTCATTACCTTCAGAAAT
66 TTAATCTTTCACTAATCTTTCGA-ACC---TTTTTCTCATTCATTACCTTCAGAAAT
* * * *
4865324 AAGCCTGCAAGTAAA-TAGCTAATTGGTTCCATCTTTA-GGTTCAATGTATTAACAAAAAAGTTC
1 AAGCCTACAAGAAAATTA-CTAACTGATTCCATCTTTATGGTTC-ATGTATTAACAAAAAAGTTC
* * *
4865387 CTTTAATCTTTCATTAATCTTTCGAACCTTTTTCTCATTCATTACTTTCATAAAT
64 CTTTAATCTTTCACTAATCTTTCGAACCTTTTTCTCATTCATTACCTTCAGAAAT
4865442 AAGCCT
1 AAGCCT
4865448 TACTTCCAAT
Statistics
Matches: 108, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
118 31 0.29
119 6 0.06
120 39 0.36
121 31 0.29
122 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (118 bp):
AAGCCTACAAGAAAATTACTAACTGATTCCATCTTTATGGTTCATGTATTAACAAAAAAGTTCCT
TTAATCTTTCACTAATCTTTCGAACCTTTTTCTCATTCATTACCTTCAGAAAT
Found at i:4869228 original size:24 final size:24
Alignment explanation
Indices: 4869201--4869246 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
4869191 GAAAGAACAT
* *
4869201 GATAGAGATGAAGATTAAGATGGA
1 GATAGAGATGAAAATGAAGATGGA
*
4869225 GATAGAGGTGAAAATGAAGATG
1 GATAGAGATGAAAATGAAGATG
4869247 ATAAGAGGAA
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:0.46, C:0.00, G:0.35, T:0.20
Consensus pattern (24 bp):
GATAGAGATGAAAATGAAGATGGA
Found at i:4869835 original size:16 final size:17
Alignment explanation
Indices: 4869814--4869856 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
4869804 TTAATCATTT
4869814 TAATATTAAATT-AATA
1 TAATATTAAATTAAATA
* *
4869830 TAATA-TAGATTAAATT
1 TAATATTAAATTAAATA
4869846 TAATATTAAAT
1 TAATATTAAAT
4869857 CTTATTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 5 0.23
16 13 0.59
17 4 0.18
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
TAATATTAAATTAAATA
Found at i:4869941 original size:11 final size:11
Alignment explanation
Indices: 4869927--4870002 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
4869917 GATAATAACT
4869927 TTAATATTAAA
1 TTAATATTAAA
4869938 TTAATA--AAA
1 TTAATATTAAA
*
4869947 -TACTATTAAGA
1 TTAATATTAA-A
*
4869958 TAAATATTAAA
1 TTAATATTAAA
4869969 TTTAAT-TTAATA
1 -TTAATATTAA-A
4869981 TTAAATTATTAAA
1 TT-AA-TATTAAA
*
4869994 ATAATATTA
1 TTAATATTA
4870003 TTTTTGAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 2 0.04
11 19 0.37
12 16 0.31
13 3 0.06
14 4 0.08
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:4869942 original size:20 final size:19
Alignment explanation
Indices: 4869895--4869944 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
4869885 CAAAATAAAC
4869895 ATTAAATT-A-AATTTAAT
1 ATTAAATTAATAATTTAAT
4869912 ATTAAGA-TAATAACTTTAAT
1 ATTAA-ATTAATAA-TTTAAT
4869932 ATTAAATTAATAA
1 ATTAAATTAATAA
4869945 AATACTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 6 0.21
18 2 0.07
19 3 0.11
20 17 0.61
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
ATTAAATTAATAATTTAAT
Found at i:4870344 original size:3 final size:3
Alignment explanation
Indices: 4870336--4870367 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
4870326 GATAATCATG
4870336 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4870368 AATTTATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4873559 original size:19 final size:19
Alignment explanation
Indices: 4873535--4873574 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
4873525 AAAATATCAT
*
4873535 ATTAATTTTAATTAACTTG
1 ATTAATTTAAATTAACTTG
*
4873554 ATTAATTTAAATTTACTTG
1 ATTAATTTAAATTAACTTG
4873573 AT
1 AT
4873575 CAAAATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTAATTTAAATTAACTTG
Found at i:4876415 original size:18 final size:17
Alignment explanation
Indices: 4876392--4876427 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4876382 GATGGGTCGA
4876392 AATGGGCAGTGTGGGCCC
1 AATGGGC-GTGTGGGCCC
*
4876410 AATGGGCTTGTGGGCCC
1 AATGGGCGTGTGGGCCC
4876427 A
1 A
4876428 CACGGGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.17, C:0.22, G:0.42, T:0.19
Consensus pattern (17 bp):
AATGGGCGTGTGGGCCC
Found at i:4876687 original size:27 final size:27
Alignment explanation
Indices: 4876657--4876752 Score: 131
Period size: 27 Copynumber: 3.6 Consensus size: 27
4876647 CCTAATATTT
4876657 GTAAAATGATCGTAATGCCCCTGTAGG
1 GTAAAATGATCGTAATGCCCCTGTAGG
* *
4876684 GTAAAATGATCGTAATGCCTCTATAGG
1 GTAAAATGATCGTAATGCCCCTGTAGG
* * *
4876711 GTAAAATAACCGTGATGCCCCTGTA-G
1 GTAAAATGATCGTAATGCCCCTGTAGG
*
4876737 GTAAAATGATTGTAAT
1 GTAAAATGATCGTAAT
4876753 ACCTCTGTTA
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
26 13 0.22
27 45 0.78
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (27 bp):
GTAAAATGATCGTAATGCCCCTGTAGG
Found at i:4876758 original size:53 final size:54
Alignment explanation
Indices: 4876657--4876758 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
4876647 CCTAATATTT
* * *
4876657 GTAAAATGATCGTAATGCCCCTGTAGGGTAAAATGATCGTAATGCCTCTATAGG
1 GTAAAATAACCGTAATGCCCCTGTAGGGTAAAATGATCGTAATACCTCTATAGG
* *
4876711 GTAAAATAACCGTGATGCCCCTGTA-GGTAAAATGATTGTAATACCTCT
1 GTAAAATAACCGTAATGCCCCTGTAGGGTAAAATGATCGTAATACCTCT
4876759 GTTAGGTGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 21 0.49
54 22 0.51
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (54 bp):
GTAAAATAACCGTAATGCCCCTGTAGGGTAAAATGATCGTAATACCTCTATAGG
Found at i:4876851 original size:24 final size:24
Alignment explanation
Indices: 4876819--4876880 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
4876809 CCTTCGAGGT
* * *
4876819 TAAACGATTGATTTATCTATGGTG
1 TAAATGATTGATTTATCCATGATG
* *
4876843 TAAATGATTGATTTGTCCGTGATG
1 TAAATGATTGATTTATCCATGATG
*
4876867 TAAATGACTGATTT
1 TAAATGATTGATTT
4876881 GTTTGTGATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (24 bp):
TAAATGATTGATTTATCCATGATG
Found at i:4876881 original size:24 final size:24
Alignment explanation
Indices: 4876827--4876951 Score: 119
Period size: 24 Copynumber: 5.2 Consensus size: 24
4876817 GTTAAACGAT
* * * *
4876827 TGATTTATCTATGGTGTAAATGAT
1 TGATTTGTCTGTGATGTAAATGAC
*
4876851 TGATTTGTCCGTGATGTAAATGAC
1 TGATTTGTCTGTGATGTAAATGAC
* *
4876875 TGATTTGTTTGTGATTTAAATGAC
1 TGATTTGTCTGTGATGTAAATGAC
4876899 TGATTTGTCTGTGATTGGT--ATGAC
1 TGATTTGTCTGTGA-T-GTAAATGAC
* * **
4876923 TGATTTGTTTGTGATTTGTATGAC
1 TGATTTGTCTGTGATGTAAATGAC
4876947 TGATT
1 TGATT
4876952 CTGAGCATGG
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
24 81 0.95
25 1 0.01
26 1 0.01
ACGTcount: A:0.22, C:0.06, G:0.24, T:0.47
Consensus pattern (24 bp):
TGATTTGTCTGTGATGTAAATGAC
Found at i:4876891 original size:11 final size:11
Alignment explanation
Indices: 4876875--4876944 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 11
4876865 TGTAAATGAC
*
4876875 TGATTTGTTTG
1 TGATTTGTATG
**
4876886 TGATTTAAATG
1 TGATTTGTATG
*
4876897 ACTGATTTGTCTG
1 --TGATTTGTATG
*
4876910 TGATTGGTATG
1 TGATTTGTATG
*
4876921 ACTGATTTGTTTG
1 --TGATTTGTATG
4876934 TGATTTGTATG
1 TGATTTGTATG
4876945 ACTGATTCTG
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
11 27 0.61
13 17 0.39
ACGTcount: A:0.19, C:0.04, G:0.26, T:0.51
Consensus pattern (11 bp):
TGATTTGTATG
Found at i:4876895 original size:48 final size:48
Alignment explanation
Indices: 4876843--4876951 Score: 150
Period size: 48 Copynumber: 2.3 Consensus size: 48
4876833 ATCTATGGTG
*
4876843 TAAATGATTGATTTGTCCGTGA-T-GTAAATGACTGATTTGTTTGTGATT
1 TAAATGACTGATTTGTCCGTGATTGGT--ATGACTGATTTGTTTGTGATT
*
4876891 TAAATGACTGATTTGTCTGTGATTGGTATGACTGATTTGTTTGTGATT
1 TAAATGACTGATTTGTCCGTGATTGGTATGACTGATTTGTTTGTGATT
**
4876939 TGTATGACTGATT
1 TAAATGACTGATT
4876952 CTGAGCATGG
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
48 52 0.95
49 1 0.02
50 2 0.04
ACGTcount: A:0.23, C:0.06, G:0.24, T:0.47
Consensus pattern (48 bp):
TAAATGACTGATTTGTCCGTGATTGGTATGACTGATTTGTTTGTGATT
Found at i:4877105 original size:26 final size:26
Alignment explanation
Indices: 4877068--4877117 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
4877058 TGGTCACATA
*
4877068 TACTGTTACTGGCAGCTTTGCTGCAG
1 TACTGTTACTGGAAGCTTTGCTGCAG
*
4877094 TACTGTTGCTGGAAGCTTTGCTGC
1 TACTGTTACTGGAAGCTTTGCTGC
4877118 GATGCTACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.14, C:0.22, G:0.28, T:0.36
Consensus pattern (26 bp):
TACTGTTACTGGAAGCTTTGCTGCAG
Found at i:4877159 original size:32 final size:32
Alignment explanation
Indices: 4877122--4877215 Score: 91
Period size: 32 Copynumber: 2.9 Consensus size: 32
4877112 TGCTGCGATG
*
4877122 CTACTGATTGCTTTGTGCCGATCATATTACCA
1 CTACTGATAGCTTTGTGCCGATCATATTACCA
* * * * **
4877154 TTACTG-TAGGCTCTGTACCGATCATATCACTG
1 CTACTGATA-GCTTTGTGCCGATCATATTACCA
* *
4877186 CTATTGATAGCTTTGTGCCAATCATATTAC
1 CTACTGATAGCTTTGTGCCGATCATATTAC
4877216 TGTACTTATG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
31 1 0.02
32 44 0.94
33 2 0.04
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.37
Consensus pattern (32 bp):
CTACTGATAGCTTTGTGCCGATCATATTACCA
Found at i:4881394 original size:19 final size:19
Alignment explanation
Indices: 4881342--4881413 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
4881332 AAAATTACAA
* *
4881342 AAAAAATCAAAACAATTTT
1 AAAAATTCAAAATAATTTT
* *
4881361 CAAAATTTGAAAATAATTTT
1 -AAAAATTCAAAATAATTTT
*
4881381 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
4881400 AAAAATTCTAAAAT
1 AAAAATTC-AAAAT
4881414 TTTTATTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
18 4 0.10
19 18 0.43
20 20 0.48
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:4881402 original size:18 final size:20
Alignment explanation
Indices: 4881382--4881419 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4881372 AATAATTTTT
4881382 AAAATTC-AAAATATTTATA
1 AAAATTCTAAAATATTTATA
*
4881401 AAAATTCTAAAATTTTTAT
1 AAAATTCTAAAATATTTAT
4881420 TTTTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATTCTAAAATATTTATA
Found at i:4881430 original size:18 final size:18
Alignment explanation
Indices: 4881409--4881448 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
4881399 TAAAAATTCT
* *
4881409 AAAATTTTTATTTTTTTA
1 AAAATTTATAATTTTTTA
4881427 AAAA-TTATAATTTTTTA
1 AAAATTTATAATTTTTTA
4881444 AAAAT
1 AAAAT
4881449 ATAAAAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AAAATTTATAATTTTTTA
Found at i:4881440 original size:17 final size:16
Alignment explanation
Indices: 4881420--4881452 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
4881410 AAATTTTTAT
4881420 TTTTTTAAAAATTATAA
1 TTTTTTAAAAA-TATAA
4881437 TTTTTTAAAAATATAA
1 TTTTTTAAAAATATAA
4881453 AAAACATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTTTAAAAATATAA
Found at i:4881446 original size:16 final size:17
Alignment explanation
Indices: 4881420--4881452 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4881410 AAATTTTTAT
*
4881420 TTTTTTAAAAATTATAA
1 TTTTTTAAAAAATATAA
4881437 TTTTTT-AAAAATATAA
1 TTTTTTAAAAAATATAA
4881453 AAAACATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTTTAAAAAATATAA
Found at i:4881489 original size:9 final size:9
Alignment explanation
Indices: 4881475--4881499 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4881465 AAAGTTGAAA
4881475 TTTAAAAAT
1 TTTAAAAAT
4881484 TTTAAAAAT
1 TTTAAAAAT
4881493 TTTAAAA
1 TTTAAAA
4881500 TGTTATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TTTAAAAAT
Found at i:4881492 original size:17 final size:18
Alignment explanation
Indices: 4881472--4881510 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
4881462 AAAAAAGTTG
*
4881472 AAATTTAAAAATTTTA-A
1 AAATTTAAAAATGTTATA
*
4881489 AAATTTTAAAATGTTATA
1 AAATTTAAAAATGTTATA
4881507 AAAT
1 AAAT
4881511 GATAAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
AAATTTAAAAATGTTATA
Found at i:4883822 original size:16 final size:16
Alignment explanation
Indices: 4883799--4883837 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
4883789 TAGCTAATAG
4883799 AAAA-AAATTC-AAAA
1 AAAATAAATTCTAAAA
4883813 ATAAATAAATTCTAAAA
1 A-AAATAAATTCTAAAA
4883830 AAAATAAA
1 AAAATAAA
4883838 AAATCATCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 1 0.05
15 3 0.14
16 13 0.59
17 5 0.23
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAATAAATTCTAAAA
Found at i:4884812 original size:21 final size:21
Alignment explanation
Indices: 4884765--4884812 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
4884755 AAGTAGGATG
*
4884765 AAAGAAGCAAGAAAAGGGAAA
1 AAAGAAGCAAGAAAAGAGAAA
*
4884786 AGAAGAAG-AGGAAAAGAGAACA
1 A-AAGAAGCAAGAAAAGAGAA-A
4884808 AAAGA
1 AAAGA
4884813 GGTGAAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.67, C:0.04, G:0.29, T:0.00
Consensus pattern (21 bp):
AAAGAAGCAAGAAAAGAGAAA
Found at i:4892251 original size:22 final size:21
Alignment explanation
Indices: 4892223--4892292 Score: 83
Period size: 22 Copynumber: 3.4 Consensus size: 21
4892213 GTTCACATAG
4892223 AACATACATAAAACACCGTTCA
1 AACATACATAAAACACC-TTCA
*
4892245 AACATACATAAAACA---TAA
1 AACATACATAAAACACCTTCA
4892263 AACATACATAAAACACCATTCA
1 AACATACATAAAACACC-TTCA
*
4892285 AGCATACA
1 AACATACA
4892293 CCAACATTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
18 17 0.41
22 24 0.59
ACGTcount: A:0.56, C:0.24, G:0.03, T:0.17
Consensus pattern (21 bp):
AACATACATAAAACACCTTCA
Found at i:4892272 original size:40 final size:40
Alignment explanation
Indices: 4892217--4892292 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
4892207 CCTTAAGTTC
* *
4892217 ACATAGAACATACATAAAACACCGTTCAAACATACATAAA
1 ACATAAAACATACATAAAACACCATTCAAACATACATAAA
*
4892257 ACATAAAACATACATAAAACACCATTCAAGCATACA
1 ACATAAAACATACATAAAACACCATTCAAACATACA
4892293 CCAACATTCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.55, C:0.24, G:0.04, T:0.17
Consensus pattern (40 bp):
ACATAAAACATACATAAAACACCATTCAAACATACATAAA
Found at i:4894750 original size:19 final size:20
Alignment explanation
Indices: 4894713--4894750 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4894703 AAATTATTCT
4894713 CTTCTAGTTTAGTAAAATAG
1 CTTCTAGTTTAGTAAAATAG
4894733 CTTCTAGTTTAG-AAAATA
1 CTTCTAGTTTAGTAAAATA
4894751 ATGTAGTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (20 bp):
CTTCTAGTTTAGTAAAATAG
Found at i:4905533 original size:7 final size:7
Alignment explanation
Indices: 4905521--4905553 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
4905511 CCGGTAGGGT
4905521 ATATAAA
1 ATATAAA
4905528 ATATAAA
1 ATATAAA
4905535 ATATAAA
1 ATATAAA
4905542 ATATAAA
1 ATATAAA
4905549 ATATA
1 ATATA
4905554 CATTATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
ATATAAA
Found at i:4908877 original size:28 final size:27
Alignment explanation
Indices: 4908825--4908904 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 27
4908815 ATAAATAGGG
*
4908825 AAATAAAAATATAATCAAATATAATAATAT
1 AAAT-AAAA-ATAAT-AAATATAATAATAA
* *
4908855 CAATAACAATAATAAATATTAATAATAA
1 AAATAAAAATAATAAATA-TAATAATAA
*
4908883 AAATAAAAATATATAAAAATAA
1 AAATAAAAATA-ATAAATATAA
4908905 ATTAATTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
27 5 0.12
28 25 0.60
29 9 0.21
30 3 0.07
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (27 bp):
AAATAAAAATAATAAATATAATAATAA
Found at i:4908878 original size:13 final size:12
Alignment explanation
Indices: 4908826--4908915 Score: 53
Period size: 13 Copynumber: 7.3 Consensus size: 12
4908816 TAAATAGGGA
*
4908826 AATAAAAAT-AT
1 AATAAATATAAT
4908837 AATCAAATATAAT
1 AAT-AAATATAAT
*
4908850 AATATCAATAACAAT
1 AATA--AAT-ATAAT
4908865 AATAAATATTAAT
1 AATAAATA-TAAT
*
4908878 AATAAAAATAA-
1 AATAAATATAAT
* *
4908889 AA-ATATATAAA
1 AATAAATATAAT
4908900 AATAAAT-TAATT
1 AATAAATATAA-T
4908912 AATA
1 AATA
4908916 GAAAAAATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
10 6 0.10
11 10 0.16
12 17 0.27
13 18 0.29
14 3 0.05
15 8 0.13
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (12 bp):
AATAAATATAAT
Found at i:4908878 original size:19 final size:19
Alignment explanation
Indices: 4908845--4908889 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
4908835 ATAATCAAAT
4908845 ATAAT-AATATCAATAACA
1 ATAATAAATATCAATAACA
* *
4908863 ATAATAAATATTAATAATA
1 ATAATAAATATCAATAACA
*
4908882 AAAATAAA
1 ATAATAAA
4908890 AATATATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (19 bp):
ATAATAAATATCAATAACA
Found at i:4908898 original size:16 final size:15
Alignment explanation
Indices: 4908875--4908905 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
4908865 AATAAATATT
4908875 AATAATAAAAATAAA
1 AATAATAAAAATAAA
4908890 AATATATAAAAATAAA
1 AATA-ATAAAAATAAA
4908906 TTAATTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAATAAAAATAAA
Found at i:4908903 original size:22 final size:22
Alignment explanation
Indices: 4908856--4908905 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
4908846 TAATAATATC
* *
4908856 AATAACAATAATAAATATTAAT
1 AATAAAAATAATAAATATTAAA
4908878 AATAAAAATAA-AAATATATAAA
1 AATAAAAATAATAAATAT-TAAA
4908900 AATAAA
1 AATAAA
4908906 TTAATTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (22 bp):
AATAAAAATAATAAATATTAAA
Found at i:4911042 original size:87 final size:87
Alignment explanation
Indices: 4910890--4911062 Score: 193
Period size: 87 Copynumber: 2.0 Consensus size: 87
4910880 CTTCGCAACG
* * * *
4910890 CCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAATGCCAGAGAAATAAGA
1 CCAGGGAAACAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACTGCAATGCCAGAAAAACAAGA
* * *
4910955 TTCGCTATCTTCAGCTTTAATA
66 TCCACTACCTTCAGCTTTAATA
* * ** * * * * *
4910977 CCAGGGAGATAAGATTCGCTGTCTTCAGTTTTAATTTGCTCCGCTGTAATGTCAGAAAAACAAGA
1 CCAGGGAAACAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACTGCAATGCCAGAAAAACAAGA
*
4911042 TCCACTACCTTTAGCTTTAAT
66 TCCACTACCTTCAGCTTTAAT
4911063 CTGTTCCACC
Statistics
Matches: 69, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (87 bp):
CCAGGGAAACAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACTGCAATGCCAGAAAAACAAGA
TCCACTACCTTCAGCTTTAATA
Found at i:4911226 original size:51 final size:51
Alignment explanation
Indices: 4911121--4911227 Score: 115
Period size: 51 Copynumber: 2.1 Consensus size: 51
4911111 CCACTTCAGT
* * * * *
4911121 TTTAATCTATTTCACTACAATGCCAGGGAAACGAGATTTGCTACCTTTAGC
1 TTTAATCTATTTCACTACAACGCCAGGGAAACAAGATTCGCTACCTTCAAC
* * * * * *
4911172 TTTAATCTGTTTCACTGCAACGCTAGGGAAATAAGATTCGTTATCTTCAAC
1 TTTAATCTATTTCACTACAACGCCAGGGAAACAAGATTCGCTACCTTCAAC
4911223 TTTAA
1 TTTAA
4911228 CGCCAGGGAG
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.36
Consensus pattern (51 bp):
TTTAATCTATTTCACTACAACGCCAGGGAAACAAGATTCGCTACCTTCAAC
Found at i:4911256 original size:36 final size:36
Alignment explanation
Indices: 4911190--4911263 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
4911180 GTTTCACTGC
* * *
4911190 AACGCTAGGGAAATAAGATTCGTTATCTTCAACTTT
1 AACGCCAGGGAAATAAGATTCGCTACCTTCAACTTT
* * *
4911226 AACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTT
1 AACGCCAGGGAAATAAGATTCGCTACCTTCAACTTT
4911262 AA
1 AA
4911264 TCTGCTCCAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (36 bp):
AACGCCAGGGAAATAAGATTCGCTACCTTCAACTTT
Found at i:4911311 original size:51 final size:51
Alignment explanation
Indices: 4911225--4911376 Score: 214
Period size: 51 Copynumber: 3.0 Consensus size: 51
4911215 TCTTCAACTT
4911225 TAACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTG
1 TAACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTG
* * * * *
4911276 TAACGCTAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTG
1 TAACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTG
* * * **
4911327 TAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCACTCCACT
1 TAACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACT
4911377 TTAGCTTTAA
Statistics
Matches: 86, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 86 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (51 bp):
TAACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTG
Found at i:4911313 original size:87 final size:87
Alignment explanation
Indices: 4911154--4911314 Score: 232
Period size: 87 Copynumber: 1.9 Consensus size: 87
4911144 CAGGGAAACG
* * * * * *
4911154 AGATTTGCTACCTTTAGCTTTAATCTGTTTCACTGCAACGCTAGGGAAATAAGATTCGTTATCTT
1 AGATTCGCTACCTTCAGCTTTAATCTGCTCCACTGCAACGCTAGGGAAATAAGATTCGCTACCTT
4911219 CAACTTTAACGCCAGGGAGATA
66 CAACTTTAACGCCAGGGAGATA
* *
4911241 AGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGTAACGCTAGGGAAATAAGATTCGCTACCTT
1 AGATTCGCTACCTTCAGCTTTAATCTGCTCCACTGCAACGCTAGGGAAATAAGATTCGCTACCTT
* *
4911306 TAGCTTTAA
66 CAACTTTAA
4911315 TCTGTTCCAC
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
87 64 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (87 bp):
AGATTCGCTACCTTCAGCTTTAATCTGCTCCACTGCAACGCTAGGGAAATAAGATTCGCTACCTT
CAACTTTAACGCCAGGGAGATA
Found at i:4911364 original size:138 final size:138
Alignment explanation
Indices: 4911145--4911626 Score: 519
Period size: 138 Copynumber: 3.6 Consensus size: 138
4911135 CTACAATGCC
** * * * *
4911145 AGGGAAACGAGATTTGCTACCTTTAGCTTTAATCTGTTTCACTGCAACGCTAGGGAAATAAGATT
1 AGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATT
** * *
4911210 CGTTATCTTCAACTTTAACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACT
66 CACTACCTTCAGCTTTAACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACT
*
4911275 GTAACGCT
131 GCAACGCT
* * * *
4911283 AGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGTAACACCAAGGAGATAGGATT
1 AGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATT
* * * * * * *
4911348 CGCTGCCTTCAGCTTTAA-TCC-----------ACTC-C--ACTTTAGCTTTAATCT-CTTCCAT
66 CACTACCTTCAGCTTTAACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGC-TCCAC
* *
4911397 TGCGACGCC
130 TGCAACGCT
* * *
4911406 AGGGAAATGAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGTCAGGGAAATAAGATT
1 AGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATT
** ** *
4911471 CACTGTCTTCAGCTTTAACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCTGCG
66 CACTACCTTCAGCTTTAACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACT
4911536 GCAACGCT
131 GCAACGCT
* * * *
4911544 AGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACCGTAACGCCAAGGAGATAGGATT
1 AGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATT
4911609 CACTACCTTCAGCTTTAA
66 CACTACCTTCAGCTTTAA
4911627 TCCGCTCCAT
Statistics
Matches: 277, Mismatches: 50, Indels: 34
0.77 0.14 0.09
Matches are distributed among these distances:
122 1 0.00
123 98 0.35
124 2 0.01
125 1 0.00
126 3 0.01
135 3 0.01
136 1 0.00
137 2 0.01
138 165 0.60
139 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (138 bp):
AGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATT
CACTACCTTCAGCTTTAACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACT
GCAACGCT
Found at i:4911435 original size:261 final size:261
Alignment explanation
Indices: 4910664--4911689 Score: 1314
Period size: 261 Copynumber: 4.0 Consensus size: 261
4910654 CAACTTCAGA
* * * ** *
4910664 TTTAATCTATTTCACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGTA-TTT-ATGCCAGG
1 TTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCA--ACTTTAACGCCAGG
* * * *
4910727 GAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACACCAGGGAAACAATATTTGC
64 GAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGATTCGC
* * * * *
4910792 TACCTTTAGCTTTAATCTATTTCATTGTAACGCCAAGGAGATAGGATTCGCAGCCTTCAGCTTTA
129 TACCTTTAGCTTTAATCTGTTCCACTGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTA
*
4910857 ATCTGCTCCA-TTTCAGCTTTAATC--TT---C-GCAACGCCAGGGAAACAAGATTCGCTACCTT
194 ATCCGCTCCACTTT-AGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTT
4910915 TAGC
258 TAGC
* * * **
4910919 TTTAATCTGTTCCACTGCAATGCCAGAGAAATAAGATTCGCTATCTTCAGCTTTAATACCAGGGA
1 TTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAACTTTAACGCCAGGGA
* * * * * ** * *
4910984 GATAAGATTCGCTGTCTTCAGTTTTAATTTGCTCCGCTGTAATG-TCAGAAAAACAAGATCCACT
66 GATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCT-AGGGAAACAAGATTCGCT
*
4911048 ACCTTTAGCTTTAATCTGTT---C-----CACCAAGAAGATAGGATTCGCTGCCTTCAGCTTTAA
130 ACCTTTAGCTTTAATCTGTTCCACTGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAA
* * * * * * *
4911105 TCCGCTCCACTTCAGTTTTAATCTATTTCACTACAATGCCAGGGAAACGAGATTTGCTACCTTTA
195 TCCGCTCCACTTTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTA
4911170 GC
260 GC
* * *
4911172 TTTAATCTGTTTCACTGCAACGCTAGGGAAATAAGATTCGTTATCTTCAACTTTAACGCCAGGGA
1 TTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAACTTTAACGCCAGGGA
* * *
4911237 GATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGTAACGCTAGGGAAATAAGATTCGCTA
66 GATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGATTCGCTA
4911302 CCTTTAGCTTTAATCTGTTCCACTGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAAT
131 CCTTTAGCTTTAATCTGTTCCACTGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAAT
* * * * **
4911367 CCACTCCACTTTAGCTTTAATCTCTTCCATTGCGACGCCAGGGAAATGAGATTCGCTACCTTTAG
196 CCGCTCCACTTTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAG
4911432 C
261 C
* * * *
4911433 TTTAATCTGTTCCACTGCAACGTCAGGGAAATAAGATTCACTGTCTTCAGCTTTAACGCCAGGGA
1 TTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAACTTTAACGCCAGGGA
* * *
4911498 GATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCTGCGGCAACGCTAGGGAAATAAGATTCGCTA
66 GATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGATTCGCTA
* * * *
4911563 CCTTTAGCTTTAATCTGTTCCACCGTAACGCCAAGGAGATAGGATTCACTACCTTCAGCTTTAAT
131 CCTTTAGCTTTAATCTGTTCCACTGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAAT
* * *
4911628 CCGCTCCATTTTAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCGCTGCCTT
196 CCGCTCCACTTTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTT
4911690 CAGTCTTAAC
Statistics
Matches: 664, Mismatches: 88, Indels: 32
0.85 0.11 0.04
Matches are distributed among these distances:
247 50 0.08
248 2 0.00
249 2 0.00
252 1 0.00
253 160 0.24
254 4 0.01
255 120 0.18
256 1 0.00
261 324 0.49
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (261 bp):
TTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAACTTTAACGCCAGGGA
GATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGATTCGCTA
CCTTTAGCTTTAATCTGTTCCACTGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAAT
CCGCTCCACTTTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAG
C
Found at i:4911448 original size:72 final size:72
Alignment explanation
Indices: 4911303--4911439 Score: 177
Period size: 72 Copynumber: 1.9 Consensus size: 72
4911293 GATTCGCTAC
* * * *
4911303 CTTTAGCTTTAATCTGTTCCACTGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATC
1 CTTTAGCTTTAATCTCTTCCACTGCAACACCAAGGAAATAGGATTCGCTACCTTCAGCTTTAATC
4911368 CACTCCA
66 CACTCCA
* * * * *
4911375 CTTTAGCTTTAATCTCTTCCATTGCGACGCCAGGGAAAT-GAGATTCGCTACCTTTAGCTTTAAT
1 CTTTAGCTTTAATCTCTTCCACTGCAACACCAAGGAAATAG-GATTCGCTACCTTCAGCTTTAAT
4911439 C
65 C
4911440 TGTTCCACTG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
71 1 0.02
72 54 0.98
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (72 bp):
CTTTAGCTTTAATCTCTTCCACTGCAACACCAAGGAAATAGGATTCGCTACCTTCAGCTTTAATC
CACTCCA
Found at i:4911460 original size:51 final size:51
Alignment explanation
Indices: 4911375--4911471 Score: 149
Period size: 51 Copynumber: 1.9 Consensus size: 51
4911365 ATCCACTCCA
* * *
4911375 CTTTAGCTTTAATCTCTTCCATTGCGACGCCAGGGAAATGAGATTCGCTAC
1 CTTTAGCTTTAATCTCTTCCACTGCAACGCCAGGGAAATAAGATTCGCTAC
* *
4911426 CTTTAGCTTTAATCTGTTCCACTGCAACGTCAGGGAAATAAGATTC
1 CTTTAGCTTTAATCTCTTCCACTGCAACGCCAGGGAAATAAGATTC
4911472 ACTGTCTTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (51 bp):
CTTTAGCTTTAATCTCTTCCACTGCAACGCCAGGGAAATAAGATTCGCTAC
Found at i:4911481 original size:123 final size:124
Alignment explanation
Indices: 4911256--4911689 Score: 444
Period size: 123 Copynumber: 3.4 Consensus size: 124
4911246 CGCTGCCTTC
* *
4911256 AGCTTTAATCTGC-TCCACTGTAACGCTAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGT
1 AGCTTTAATCTGCTTCCACTGCAACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGT
* *
4911320 TCCACTGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCACTCCACTTT
66 TCCACTGTAACGCCAAGGAGATAGGATTCACTGCCTTCAGCTTTAATCCACTCCACTTT
* * *
4911379 AGCTTTAATCT-CTTCCATTGCGACGCCAGGGAAATGAGATTCGCTACCTTTAGCTTTAATCTGT
1 AGCTTTAATCTGCTTCCACTGCAACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGT
* * * * * * * *
4911443 TCCACTGCAACGTCAGGGAAATAAGATTCACTGTCTTCAGCTTTAACGCCAGGGAGATAAGATTC
66 TCCACTGTAACGCCAAGGAGATAGGATTCACTGCCTTCAGCTTTAA-TCC-----------ACTC
* *
4911508 GCTGCCTTC
119 -C--ACTTT
** * *
4911517 AGCTTTAATCTGC-TCTGCGGCAACGCTAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGT
1 AGCTTTAATCTGCTTCCACTGCAACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGT
* * * *
4911581 TCCACCGTAACGCCAAGGAGATAGGATTCACTACCTTCAGCTTTAATCCGCTCCATTTT
66 TCCACTGTAACGCCAAGGAGATAGGATTCACTGCCTTCAGCTTTAATCCACTCCACTTT
* * * *
4911640 AGCTTTAATCT-ATTCCACTGCAATGCCAGGGAAACAAGATTCGCTGCCTT
1 AGCTTTAATCTGCTTCCACTGCAACGCCAGGGAAATAAGATTCGCTACCTT
4911690 CAGTCTTAAC
Statistics
Matches: 247, Mismatches: 46, Indels: 36
0.75 0.14 0.11
Matches are distributed among these distances:
122 1 0.00
123 138 0.56
124 2 0.01
125 1 0.00
126 2 0.01
135 3 0.01
136 1 0.00
137 2 0.01
138 96 0.39
139 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (124 bp):
AGCTTTAATCTGCTTCCACTGCAACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGT
TCCACTGTAACGCCAAGGAGATAGGATTCACTGCCTTCAGCTTTAATCCACTCCACTTT
Found at i:4911485 original size:51 final size:51
Alignment explanation
Indices: 4911379--4911488 Score: 139
Period size: 51 Copynumber: 2.2 Consensus size: 51
4911369 ACTCCACTTT
* * * * *
4911379 AGCTTTAATCTCTTCCATTGCGACGCCAGGGAAATGAGATTCGCTACCTTT
1 AGCTTTAATCTCTTCCACTGCAACGCCAGGGAAATAAGATTCACTACCTTC
* * **
4911430 AGCTTTAATCTGTTCCACTGCAACGTCAGGGAAATAAGATTCACTGTCTTC
1 AGCTTTAATCTCTTCCACTGCAACGCCAGGGAAATAAGATTCACTACCTTC
4911481 AGCTTTAA
1 AGCTTTAA
4911489 CGCCAGGGAG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (51 bp):
AGCTTTAATCTCTTCCACTGCAACGCCAGGGAAATAAGATTCACTACCTTC
Found at i:4911503 original size:36 final size:36
Alignment explanation
Indices: 4911451--4911524 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
4911441 GTTCCACTGC
* *
4911451 AACGTCAGGGAAATAAGATTCACTGTCTTCAGCTTT
1 AACGCCAGGGAAATAAGATTCACTGCCTTCAGCTTT
* *
4911487 AACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTT
1 AACGCCAGGGAAATAAGATTCACTGCCTTCAGCTTT
4911523 AA
1 AA
4911525 TCTGCTCTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (36 bp):
AACGCCAGGGAAATAAGATTCACTGCCTTCAGCTTT
Found at i:4911572 original size:51 final size:51
Alignment explanation
Indices: 4911487--4911635 Score: 181
Period size: 51 Copynumber: 2.9 Consensus size: 51
4911477 CTTCAGCTTT
* ** *
4911487 AACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCTGCGGC
1 AACGCCAGGGAGATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACCGC
* * * * *
4911538 AACGCTAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACCGT
1 AACGCCAGGGAGATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACCGC
* * * *
4911589 AACGCCAAGGAGATAGGATTCACTACCTTCAGCTTTAATCCGCTCCA
1 AACGCCAGGGAGATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCA
4911636 TTTTAGCTTT
Statistics
Matches: 81, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 81 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (51 bp):
AACGCCAGGGAGATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACCGC
Found at i:4911572 original size:87 final size:87
Alignment explanation
Indices: 4911401--4911575 Score: 226
Period size: 87 Copynumber: 2.0 Consensus size: 87
4911391 TTCCATTGCG
* * * *
4911401 ACGCCAGGGAAATGAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGTCAGGGAAATA
1 ACGCCAGGGAAATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACGGCAACGTCAGGGAAATA
**
4911466 AGATTCACTGTCTTCAGCTTTA
66 AGATTCACTACCTTCAGCTTTA
* * **
4911488 ACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCTGCGGCAACG-CTAGGGAAAT
1 ACGCCAGGGAAATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACGGCAACGTC-AGGGAAAT
* *
4911552 AAGATTCGCTACCTTTAGCTTTA
65 AAGATTCACTACCTTCAGCTTTA
4911575 A
1 A
4911576 TCTGTTCCAC
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
86 1 0.01
87 74 0.99
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (87 bp):
ACGCCAGGGAAATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACGGCAACGTCAGGGAAATA
AGATTCACTACCTTCAGCTTTA
Found at i:4927229 original size:33 final size:30
Alignment explanation
Indices: 4927171--4927232 Score: 79
Period size: 33 Copynumber: 2.0 Consensus size: 30
4927161 ATAAATATAT
4927171 ATATGTACTTACATATTCTTCATATTTTAA
1 ATATGTACTTACATATTCTTCATATTTTAA
* *
4927201 ATATGTATCTTATATATGTTCTTTATATTTTA
1 ATATGTA-CTTACATA--TTCTTCATATTTTA
4927233 TGAATCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 7 0.26
31 7 0.26
33 13 0.48
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.55
Consensus pattern (30 bp):
ATATGTACTTACATATTCTTCATATTTTAA
Found at i:4927796 original size:111 final size:110
Alignment explanation
Indices: 4927669--4928075 Score: 559
Period size: 112 Copynumber: 3.7 Consensus size: 110
4927659 ATATTTAGTA
* *
4927669 TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTTTCTCGTTCAACCAAATGG
1 TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGG
* * * *
4927734 CTTAATATCCTTTTAAAAAGTGTTAAAATAAGGCAATGTTTTGTG
66 CTAAATATCCTTTTAAAAAATATTAAAATAAGGCAATGTTTTGCG
4927779 TTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATG
1 TTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATG
* * *
4927844 GCAAAATATCATTTTAAAAAATTTTTAAAATAAGGCAATGTTTTGCG
65 GCTAAATATCCTTTTAAAAAA-TATTAAAATAAGGCAATGTTTTGCG
*
4927891 TTTGGAAAATTCTAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATG
1 TTTGG-AAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATG
*
4927956 GCTAAATATCCTTTTAAAAAAAATTCAAAATAAGGCAATGTTTTGCG
65 GCTAAATATCCTTTTAAAAAATATT-AAAATAAGGCAATGTTTTGCG
* * * * * * * * * *
4928003 TTTGGAAATTTGAG-GAACGTACCCTAAGGTGTTGGGTTTCCA--TTTCTCGTTTAACCAAATAG
1 TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGG
*
4928065 CCAAATATCCT
66 CTAAATATCCT
4928076 CTCGAATTTC
Statistics
Matches: 268, Mismatches: 25, Indels: 10
0.88 0.08 0.03
Matches are distributed among these distances:
108 27 0.10
110 25 0.09
111 87 0.32
112 129 0.48
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
Consensus pattern (110 bp):
TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGG
CTAAATATCCTTTTAAAAAATATTAAAATAAGGCAATGTTTTGCG
Found at i:4930917 original size:50 final size:50
Alignment explanation
Indices: 4930694--4931798 Score: 572
Period size: 50 Copynumber: 22.2 Consensus size: 50
4930684 AGGCCCGACC
* ** ****
4930694 AAGATTGAAGCCACAACGGCGAATCTTACTT-CCAAACGA-TGCAGCGGAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC-ATTGCAATTCAA
* * * * * *
4930743 CAGATTGAAGCTACAACAGCGAATCTTGCTTCCTCGATATTACAATTCAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAA
* * * * ** * ****
4930793 AAGATCGAAGCCACAACGGCGAATCTTGCTT-CCAGACGGTGTAGCGGAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAA
* * * *
4930842 CAGATTGAAGCTACGACGGCAAATCTCACTTCCCCGACATTGCAATTCAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAA
* * * * * * *
4930892 AAGATTGAAGCTACAACAGCGAATCTCACCTCTCTGGCGA-TGC-A-GCGAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC-ATTGCAATTC-AA
* * *
4930941 ACAGATTGAAGCTACGACGGTGAATCTCACTAT-CCCGACATTGCAATTCAA
1 A-AGATTGAAGCTACAACGGCGAATCTTACT-TCCCCGACATTGCAATTCAA
* * * ** ****
4930992 AAGATTGAAGCTACAACAGCGAATCTCACCTCCCTAACGA-TGCAGCGGAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC-ATTGCAATTCAA
* *** * * * * *
4931042 CAGAACAAAGCTACGACGGCGAATCTCACTTCCCCGATATTGCAGTTTAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAA
* * * * * * *
4931092 AAGATCGAAGCCACAACGGTGAGTCTTACTT-CCAGGCGA-TGC-A-GCAGA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC-ATTGCAATTCA-A
* * *
4931140 ATAGATTGAAGCGACAACTGCGAATCTTGCTTCCCCGACATTGCAATTCAA
1 A-AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAA
* * * ** ** *
4931191 AAGATCGAAGCCACAACGGCGAATCTTGCTTCCAGGTGA-TGC-A-GCGAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTC-AA
* * *
4931239 ACAGATTGAAGCTACAACAGCGAACCTTACTTCCCCGACATTGCAATTTAA
1 A-AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAA
* * * * * *
4931290 AAGATTGAAGCTACAACAGTGAATCTCACCTCCCTGACGA-TGC-A-GCAGA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC-ATTGCAATTCA-A
* * * * * * * *
4931339 ATAGATCGAAGCTACGACAGCGAATCTCACTTCCCCAACTTTGCAGTTTAA
1 A-AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAA
* * * * * ****
4931390 AAGATCGAAGCCACAACGGCGAATCTTGC-TCCCAGGCGA-TGCAGCGGAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC-ATTGCAATTCAA
* * * *
4931439 CAGATTGAAGCTATAACAGCAAATCTTACTTCCCCGACATTGCAATTCAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAA
* * * * * *
4931489 AAGATTGAAG-TCACAACAGCAAATCTCA-TTTCCCTAGCGA-TGC-A-GCGAA
1 AAGATTGAAGCT-ACAACGGCGAATCTTACTTCCCCGA-C-ATTGCAATTC-AA
* * *
4931538 ACAGATTGAAGCTACGACGGCGAATCTCACTTCCCCGACATTGCAATTTAA
1 A-AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAA
* * * * * * * *
4931589 AAGATCGAAGCCACAACGGTGAATCTTATTTCCCAGGCAGTGCAATTGAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAA
* * * * * *
4931639 CAGATTGAAGCTACAACAGCGGATCTTGCTTCCTCGACATTGCAATTTAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAA
* * * * ****
4931689 AAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGACGA-TGTAGCGGAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC-ATTGCAATTCAA
* * * *
4931739 TAGATTGAAGCTACGATGGCGAATCTTACTTCCCCGACATTGCAGTT-AA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAA
4931788 ACAGATTGAAG
1 A-AGATTGAAG
4931799 AAGCCAATCC
Statistics
Matches: 783, Mismatches: 226, Indels: 93
0.71 0.21 0.08
Matches are distributed among these distances:
47 2 0.00
48 9 0.01
49 182 0.23
50 556 0.71
51 30 0.04
52 4 0.01
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (50 bp):
AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAA
Found at i:4930978 original size:100 final size:100
Alignment explanation
Indices: 4930694--4931798 Score: 1147
Period size: 100 Copynumber: 11.1 Consensus size: 100
4930684 AGGCCCGACC
** * *
4930694 AAGATTGAAGCCACAACGGCGAATCTTACTT-CCAAACGATGCAGCGGAACAGATTGAAGCTACA
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGAAACAGATTGAAGCTACG
* * * *
4930758 ACAGCGAATCTTGCTTCCTCGATATTACAATTCAA
66 ACAGCGAATCTTACTTCCCCGACATTGCAATTCAA
* * * * * *
4930793 AAGATCGAAGCCACAACGGCGAATCTTGCTT-CCAGACGGTGTAGCGGAACAGATTGAAGCTACG
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGAAACAGATTGAAGCTACG
* * *
4930857 ACGGCAAATCTCACTTCCCCGACATTGCAATTCAA
66 ACAGCGAATCTTACTTCCCCGACATTGCAATTCAA
* * * * * *
4930892 AAGATTGAAGCTACAACAGCGAATCTCACCTCTCTGGCGATGCAGCGAAACAGATTGAAGCTACG
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGAAACAGATTGAAGCTACG
* * *
4930957 ACGGTGAATCTCACTAT-CCCGACATTGCAATTCAA
66 ACAGCGAATCTTACT-TCCCCGACATTGCAATTCAA
* * * * * * ***
4930992 AAGATTGAAGCTACAACAGCGAATCTCACCTCCCTA-ACGATGCAGCGGAACAGAACAAAGCTAC
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCC-AGGCGATGCAGCGAAACAGATTGAAGCTAC
* * * * *
4931056 GACGGCGAATCTCACTTCCCCGATATTGCAGTTTAA
65 GACAGCGAATCTTACTTCCCCGACATTGCAATTCAA
* * * * *
4931092 AAGATCGAAGCCACAACGGTGAGTCTTACTT-CCAGGCGATGCAGC-AGAATAGATTGAAGCGAC
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGA-AACAGATTGAAGCTAC
* * *
4931155 AACTGCGAATCTTGCTTCCCCGACATTGCAATTCAA
65 GACAGCGAATCTTACTTCCCCGACATTGCAATTCAA
* * * *
4931191 AAGATCGAAGCCACAACGGCGAATCTTGCTT-CCAGGTGATGCAGCGAAACAGATTGAAGCTACA
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGAAACAGATTGAAGCTACG
* *
4931255 ACAGCGAACCTTACTTCCCCGACATTGCAATTTAA
66 ACAGCGAATCTTACTTCCCCGACATTGCAATTCAA
* * * * * * * * *
4931290 AAGATTGAAGCTACAACAGTGAATCTCACCTCCCTGACGATGCAGC-AGAATAGATCGAAGCTAC
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGA-AACAGATTGAAGCTAC
* * * * *
4931354 GACAGCGAATCTCACTTCCCCAACTTTGCAGTTTAA
65 GACAGCGAATCTTACTTCCCCGACATTGCAATTCAA
* * * **
4931390 AAGATCGAAGCCACAACGGCGAATCTTGC-TCCCAGGCGATGCAGCGGAACAGATTGAAGCTATA
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGAAACAGATTGAAGCTACG
*
4931454 ACAGCAAATCTTACTTCCCCGACATTGCAATTCAA
66 ACAGCGAATCTTACTTCCCCGACATTGCAATTCAA
* * * * *
4931489 AAGATTGAAGTCACAACAGCAAATCTCATTTCCCTA-GCGATGCAGCGAAACAGATTGAAGCTAC
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCC-AGGCGATGCAGCGAAACAGATTGAAGCTAC
* * *
4931553 GACGGCGAATCTCACTTCCCCGACATTGCAATTTAA
65 GACAGCGAATCTTACTTCCCCGACATTGCAATTCAA
* * * **
4931589 AAGATCGAAGCCACAACGGTGAATCTTATTTCCCAGGC-AGTGCAATTG-AACAGATTGAAGCTA
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGC-AGCGAAACAGATTGAAGCTA
* * * * *
4931652 CAACAGCGGATCTTGCTTCCTCGACATTGCAATTTAA
64 CGACAGCGAATCTTACTTCCCCGACATTGCAATTCAA
* * * * *
4931689 AAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGACGATGTAGCGGAATAGATTGAAGCTACG
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGAAACAGATTGAAGCTACG
** *
4931754 ATGGCGAATCTTACTTCCCCGACATTGCAGTT-AA
66 ACAGCGAATCTTACTTCCCCGACATTGCAATTCAA
4931788 ACAGATTGAAG
1 A-AGATTGAAG
4931799 AAGCCAATCC
Statistics
Matches: 838, Mismatches: 150, Indels: 35
0.82 0.15 0.03
Matches are distributed among these distances:
98 1 0.00
99 360 0.43
100 472 0.56
101 5 0.01
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (100 bp):
AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGAAACAGATTGAAGCTACG
ACAGCGAATCTTACTTCCCCGACATTGCAATTCAA
Found at i:4931132 original size:199 final size:198
Alignment explanation
Indices: 4930694--4931782 Score: 1218
Period size: 199 Copynumber: 5.5 Consensus size: 198
4930684 AGGCCCGACC
* * * * *
4930694 AAGATTGAAGCCACAACGGCGAATCTTACTTCCAAACGATGCAGCGGAACAGATTGAAGCTACAA
1 AAGATTGAAGCCACAACAGCGAATCTCACTTCCAGACGATGCAGCGAAACAGATTGAAGCTACGA
* ** * * * *
4930759 CAGCGAATCTTGCTTCCTCGATATTACAATTCAAAAGATCGAAGCCACAACGGCGAATCTTGCTT
66 CGGCGAATCTCACTTCCCCGACATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTGCTC
* * * * * *
4930824 CCAGACGGTGTAGCGGAACAGATTGAAGCTACGACGGCAAATCTCACTTCCCCGACATTGCAATT
131 CCAGACGATGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACATTGCAATT
*
4930889 CAA
196 TAA
* * * *
4930892 AAGATTGAAGCTACAACAGCGAATCTCACCTCTCTGGCGATGCAGCGAAACAGATTGAAGCTACG
1 AAGATTGAAGCCACAACAGCGAATCTCACTTC-CAGACGATGCAGCGAAACAGATTGAAGCTACG
* * * * **
4930957 ACGGTGAATCTCACTAT-CCCGACATTGCAATTCAAAAGATTGAAGCTACAACAGCGAATCTCAC
65 ACGGCGAATCTCACT-TCCCCGACATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCT-TG
*** * * * *
4931021 CTCCCTA-ACGATGCAGCGGAACAGAACAAAGCTACGACGGCGAATCTCACTTCCCCGATATTGC
128 CTCCC-AGACGATGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACATTGC
*
4931085 AGTTTAA
192 AATTTAA
* * * * * * * * *
4931092 AAGATCGAAGCCACAACGGTGAGTCTTACTTCCAGGCGATGCAGC-AGAATAGATTGAAGCGACA
1 AAGATTGAAGCCACAACAGCGAATCTCACTTCCAGACGATGCAGCGA-AACAGATTGAAGCTACG
* **
4931156 ACTGCGAATCTTGCTTCCCCGACATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTGCT
65 ACGGCGAATCTCACTTCCCCGACATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTGCT
* ** * *
4931221 TCCAGGTGATGCAGCGAAACAGATTGAAGCTACAACAGCGAACCTTACTTCCCCGACATTGCAAT
130 CCCAGACGATGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACATTGCAAT
4931286 TTAA
195 TTAA
* * * * * *
4931290 AAGATTGAAGCTACAACAGTGAATCTCACCTCCCTGACGATGCAGC-AGAATAGATCGAAGCTAC
1 AAGATTGAAGCCACAACAGCGAATCTCA-CTTCCAGACGATGCAGCGA-AACAGATTGAAGCTAC
* * * * *
4931354 GACAGCGAATCTCACTTCCCCAACTTTGCAGTTTAAAAGATCGAAGCCACAACGGCGAATCTTGC
64 GACGGCGAATCTCACTTCCCCGACATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTGC
* * *
4931419 TCCCAGGCGATGCAGCGGAACAGATTGAAGCTATAACAGCAAATCTTACTTCCCCGACATTGCAA
129 TCCCAGACGATGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACATTGCAA
*
4931484 TTCAA
194 TTTAA
* * *
4931489 AAGATTGAAGTCACAACAGCAAATCTCATTTCCCTAG-CGATGCAGCGAAACAGATTGAAGCTAC
1 AAGATTGAAGCCACAACAGCGAATCTCACTT-CC-AGACGATGCAGCGAAACAGATTGAAGCTAC
* * *
4931553 GACGGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATCGAAGCCACAACGGTGAATCTTAT
64 GACGGCGAATCTCACTTCCCCGACATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTT-G
* * *** * * *
4931618 TTCCCAGGC-AGTGCAATTGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCTCGACATTGC
128 CTCCCAGACGA-TGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACATTGC
4931682 AATTTAA
192 AATTTAA
* * * * *
4931689 AAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGACGATGTAGCGGAATAGATTGAAGCTACG
1 AAGATTGAAGCCACAACAGCGAATCTCACTTC-CAGACGATGCAGCGAAACAGATTGAAGCTACG
* *
4931754 ATGGCGAATCTTACTTCCCCGACATTGCA
65 ACGGCGAATCTCACTTCCCCGACATTGCA
4931783 GTTAAACAGA
Statistics
Matches: 752, Mismatches: 124, Indels: 28
0.83 0.14 0.03
Matches are distributed among these distances:
197 1 0.00
198 110 0.15
199 415 0.55
200 225 0.30
201 1 0.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (198 bp):
AAGATTGAAGCCACAACAGCGAATCTCACTTCCAGACGATGCAGCGAAACAGATTGAAGCTACGA
CGGCGAATCTCACTTCCCCGACATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTGCTC
CCAGACGATGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACATTGCAATT
TAA
Found at i:4931938 original size:85 final size:84
Alignment explanation
Indices: 4931802--4931957 Score: 192
Period size: 85 Copynumber: 1.8 Consensus size: 84
4931792 ATTGAAGAAG
**
4931802 CCAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAACCAAAGATCTTA-TCTCTCTGAAG
1 CCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACC-AAGATCTTATTCTC-CTGAAG
*
4931866 TTGCAGTAGAGCAGATCGTAT
64 TTACAGTAGAGCAGATCGTAT
* * *
4931887 CCAATCTTATCTCCCTGAAGTTTCAGTGGAGCAGATTGAAGAAACC-A-ATCTTATTTTCCTGAA
1 CCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATT--A-AAACCAAGATCTTATTCTCCTGAA
4931950 GTTACAGT
63 GTTACAGT
4931958 GAAGCGGATT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
85 51 0.84
86 4 0.07
87 1 0.02
88 5 0.08
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (84 bp):
CCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCAAGATCTTATTCTCCTGAAGTT
ACAGTAGAGCAGATCGTAT
Found at i:4931990 original size:129 final size:129
Alignment explanation
Indices: 4931778--4932132 Score: 460
Period size: 129 Copynumber: 2.8 Consensus size: 129
4931768 TTCCCCGACA
* * *
4931778 TTGCAGTTAAACAGATTGAAGAAGCCAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAA
1 TTGCAGTGAAGCAGATTGAAGAAGCCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA
** ** * *
4931843 CCAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGTATCCAATCTTATCTCCCTGAAG
66 TGATGGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCCCTAAAG
* * * * * * *
4931907 TTTCAGTGGAGCAGATTGAAGAAACCAATCTTATTTTCCTGAAGTTACAGTGAAGCGGATTAAAA
1 TTGCAGTGAAGCAGATTGAAGAAGCCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA
* *
4931972 TGATGGATCTTATCTCTCTGGAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAG
66 TGATGGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCCCTAAAG
* ** * * *
4932036 TTGCAGTGAAGTAGACAGAAGAAGCTAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA
1 TTGCAGTGAAGCAGATTGAAGAAGCCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA
* *
4932101 TGATGAATCCTATAC-CTCTGAAGTTGCAGTAG
66 TGATGGATCTTAT-CTCTCTGAAGTTGCAGTAG
4932133 GTCGGATTAA
Statistics
Matches: 191, Mismatches: 34, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
129 190 0.99
130 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (129 bp):
TTGCAGTGAAGCAGATTGAAGAAGCCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA
TGATGGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCCCTAAAG
Found at i:4932110 original size:44 final size:44
Alignment explanation
Indices: 4931804--4932223 Score: 161
Period size: 44 Copynumber: 9.5 Consensus size: 44
4931794 TGAAGAAGCC
* * ** ** *
4931804 AATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAACCA-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGATG
* * ** *
4931847 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T--CGT-ATCC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGAT-G
* **
4931889 AATCTTATCTCCCTGAAGTTTCAGTGGAGCAGATTGAAGAA--ACC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-AATGATG
* * * * *
4931933 AATCTTATTTTCCTGAAGTTACAGTGAAGCGGATTAAAATGATG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGATG
* * * * *** *
4931977 GATCTTATCTCTCTGGAGTTGCAGTAGAGCAGA-TCGCATCCA-G
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAT-GATG
* * * * * *
4932020 --TCTTATCTCCCTAAAGTTGCAGTGAAGTAGA-CAGAA-GAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGATG
*
4932060 CTAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGATG
1 --AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGATG
* * * * *
4932106 AATCCTATAC-CTCTGAAGTTGCAGTAGG-TCGGATTAAAACTATCATAG
1 AATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATT-AAA--ATGAT-G
* * **
4932154 CAAGTCTTATCTCCCT-AACGTTGCAGTGGAACAGACTAAAACCATG
1 -AA-TCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTAAAATGATG
** *
4932200 AATCTCGTCCCCCTGAAGTTGCAG
1 AATCTTATCTCCCTGAAGTTGCAG
4932224 CAGAGTGGAT
Statistics
Matches: 281, Mismatches: 66, Indels: 59
0.69 0.16 0.15
Matches are distributed among these distances:
39 1 0.00
40 2 0.01
41 56 0.20
42 4 0.01
43 8 0.03
44 153 0.54
45 14 0.05
46 4 0.01
47 8 0.03
48 1 0.00
49 10 0.04
50 20 0.07
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGATG
Found at i:4933911 original size:33 final size:30
Alignment explanation
Indices: 4933853--4933914 Score: 79
Period size: 33 Copynumber: 2.0 Consensus size: 30
4933843 ATAAATATAT
4933853 ATATGTACTTACATATTCTTCATATTTTAA
1 ATATGTACTTACATATTCTTCATATTTTAA
* *
4933883 ATATGTATCTTATATATGTTCTTTATATTTTA
1 ATATGTA-CTTACATA--TTCTTCATATTTTA
4933915 TGAATCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 7 0.26
31 7 0.26
33 13 0.48
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.55
Consensus pattern (30 bp):
ATATGTACTTACATATTCTTCATATTTTAA
Found at i:4934619 original size:111 final size:110
Alignment explanation
Indices: 4934337--4934870 Score: 743
Period size: 109 Copynumber: 4.8 Consensus size: 110
4934327 TATTTCTAAT
* * * * *
4934337 TAAGGCAATATTTAGTATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGTGTGTCGTTTTTT
1 TAAGGCAATGTTTTGTGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTT
* *
4934402 CTCGTTCAACCAAATGGATTAATATCCTTTT-AAAAATTTTAAAA
66 CTCGTTCAACCAAATGGCTAAATATCCTTTTAAAAAATTTTAAAA
** * *
4934446 TAAGGCAATGTTTTACGTTTGAAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTT
1 TAAGGCAATGTTTTGTGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTT
*
4934511 CTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAAATTTTAAAA
66 CTCGTTCAACCAAATGGCTAAATATCCTTTTAAAAAATTTTAAAA
4934556 TAAGGCAATGTTTTGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTT
1 TAAGGCAATGTTTTGTGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTT
*
4934621 TCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAATTTTCAAAA
65 TCTCGTTCAACCAAATGGCTAAATATCCTTTTAAAAAATTTT-AAAA
* * *
4934668 TAAGGCAATGTTTTGCGTTTGGGAAATTAGAGAAAACAAGCCCTAAGGTGCTGGGTGTCGATTTT
1 TAAGGCAATGTTTTGTGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTT
* * *
4934733 TCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAAAAATTCAAAA
65 TCTCGTTCAACCAAATGGCTAAATATCCTTTT--AAAAAATTTTAAAA
* * * * * *
4934781 TAAGGCAATGTTTTGTGTTTGGAAATTTGAG-GAACGTACCCTAAGGGGCTGGGTTTCGA--TTT
1 TAAGGCAATGTTTTGTGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTT
* * *
4934843 CTCGTTTAACCAAATAGCCAAATATCCT
66 CTCGTTCAACCAAATGGCTAAATATCCT
4934871 CTCGAATTTC
Statistics
Matches: 387, Mismatches: 33, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
109 113 0.29
110 31 0.08
111 104 0.27
112 108 0.28
113 23 0.06
114 8 0.02
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (110 bp):
TAAGGCAATGTTTTGTGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTT
CTCGTTCAACCAAATGGCTAAATATCCTTTTAAAAAATTTTAAAA
Found at i:4934735 original size:112 final size:110
Alignment explanation
Indices: 4934354--4934870 Score: 736
Period size: 112 Copynumber: 4.7 Consensus size: 110
4934344 ATATTTAGTA
* *
4934354 TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGTGTGTCGTTTTTTCTCGTTCAACCAAATGG
1 TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGG
* * *
4934419 ATTAATATCCTTTT-AAAAATTTTAAAATAAGGCAATGTTTTACG
66 CTAAATATCCTTTTAAAAAATTTTAAAATAAGGCAATGTTTTGCG
* *
4934463 TTTGAAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGG
1 TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGG
* *
4934528 CTTAATATCCTTTTAAAAAATTTTAAAATAAGGCAATGTTTTGTG
66 CTAAATATCCTTTTAAAAAATTTTAAAATAAGGCAATGTTTTGCG
*
4934573 TTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATG
1 TTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATG
4934638 GCTAAATATCCTTTTAAAAAATTTTCAAAATAAGGCAATGTTTTGCG
65 GCTAAATATCCTTTTAAAAAATTTT-AAAATAAGGCAATGTTTTGCG
* * *
4934685 TTTGGGAAATTAGAGAAAACAAGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATG
1 TTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATG
* * *
4934750 GCTAAATATCCTTTTAAAAAAAAATTCAAAATAAGGCAATGTTTTGTG
65 GCTAAATATCCTTTT--AAAAAATTTTAAAATAAGGCAATGTTTTGCG
* * * * * * * *
4934798 TTTGGAAATTTGAG-GAACGTACCCTAAGGGGCTGGGTTTCGA--TTTCTCGTTTAACCAAATAG
1 TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGG
*
4934860 CCAAATATCCT
66 CTAAATATCCT
4934871 CTCGAATTTC
Statistics
Matches: 375, Mismatches: 28, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
109 101 0.27
110 31 0.08
111 104 0.28
112 108 0.29
113 23 0.06
114 8 0.02
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (110 bp):
TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGG
CTAAATATCCTTTTAAAAAATTTTAAAATAAGGCAATGTTTTGCG
Found at i:4935949 original size:19 final size:19
Alignment explanation
Indices: 4935912--4935950 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
4935902 TATTTTAAAA
***
4935912 TATTTTTAAAATTCTTTTT
1 TATTTTTAAAATAAATTTT
4935931 TATTTTTAAAATAAATTTT
1 TATTTTTAAAATAAATTTT
4935950 T
1 T
4935951 GGTGTTTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTTTAAAATAAATTTT
Found at i:4938579 original size:23 final size:21
Alignment explanation
Indices: 4938552--4938596 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
4938542 CCAACTCAAT
*
4938552 TAAATACTTAAAAATAATATAAA
1 TAAATAATT-AAAAT-ATATAAA
4938575 TAAATAATTAAAATATATAAA
1 TAAATAATTAAAATATATAAA
4938596 T
1 T
4938597 TACTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 5 0.24
23 8 0.38
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAATAATTAAAATATATAAA
Found at i:4940348 original size:16 final size:16
Alignment explanation
Indices: 4940327--4940357 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4940317 CAAATTTTAT
*
4940327 TTGGATTTGGATTTTC
1 TTGGATTTGAATTTTC
4940343 TTGGATTTGAATTTT
1 TTGGATTTGAATTTT
4940358 TTAGAGCCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.03, G:0.23, T:0.58
Consensus pattern (16 bp):
TTGGATTTGAATTTTC
Found at i:4940472 original size:22 final size:22
Alignment explanation
Indices: 4940425--4940473 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
4940415 CATTTTTTTG
*
4940425 GGCTCAAATTTTTTCAAGTTCG
1 GGCTCAAATTTTTTCAAGTTCA
*
4940447 GGCTCAAATTTTTT-AGGATTCA
1 GGCTCAAATTTTTTCAAG-TTCA
4940469 GGCTC
1 GGCTC
4940474 GGATCGAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.39
Consensus pattern (22 bp):
GGCTCAAATTTTTTCAAGTTCA
Found at i:4951253 original size:11 final size:12
Alignment explanation
Indices: 4951224--4951255 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
4951214 CACTTGTTAA
4951224 CAAT-ACTTTCT
1 CAATCACTTTCT
4951235 CAATCACTTTCT
1 CAATCACTTTCT
4951247 CAA-CACTTT
1 CAATCACTTT
4951256 TAATGCACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (12 bp):
CAATCACTTTCT
Found at i:4956067 original size:22 final size:21
Alignment explanation
Indices: 4956042--4956083 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
4956032 TAACATGTTG
*
4956042 AATTTTAATTAATTTTATATTA
1 AATTTTAATCAATTTT-TATTA
*
4956064 AATTTTTATCAATTTTTATT
1 AATTTTAATCAATTTTTATT
4956084 TATTTTCAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
AATTTTAATCAATTTTTATTA
Found at i:4970102 original size:23 final size:23
Alignment explanation
Indices: 4970076--4970144 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
4970066 GGACTCACCA
4970076 CAGCTTGTATGAGCTTACCGTTT
1 CAGCTTGTATGAGCTTACCGTTT
* * *
4970099 CAGC-TCTACAGAGCTTACTGTTT
1 CAGCTTGTA-TGAGCTTACCGTTT
*
4970122 CAGCTCG-ATAGAGCTTACCGTTT
1 CAGCTTGTAT-GAGCTTACCGTTT
4970145 ATCAACTCGG
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
22 3 0.08
23 33 0.92
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (23 bp):
CAGCTTGTATGAGCTTACCGTTT
Found at i:4976895 original size:23 final size:23
Alignment explanation
Indices: 4976869--4976960 Score: 71
Period size: 23 Copynumber: 3.9 Consensus size: 23
4976859 GGACTCACCA
4976869 CAGCTTGTATGAGCTTACCGTTT
1 CAGCTTGTATGAGCTTACCGTTT
* *
4976892 CAGC-TCTACAGAGCTTACCGTTT
1 CAGCTTGTA-TGAGCTTACCGTTT
* *
4976915 CAGCTCG-ATAGAGCTTACCTTTTAT
1 CAGCTTGTAT-GAGCTTACC-GTT-T
* *
4976940 CAGCTCGGAATGAGCTTACCG
1 CAGCT-TGTATGAGCTTACCG
4976961 ATCATGGCTC
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
22 3 0.06
23 31 0.57
24 2 0.04
25 6 0.11
26 10 0.19
27 2 0.04
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.32
Consensus pattern (23 bp):
CAGCTTGTATGAGCTTACCGTTT
Found at i:4978277 original size:12 final size:12
Alignment explanation
Indices: 4978262--4978295 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4978252 AAAAGATTAT
4978262 GAAAAAGAAAAC
1 GAAAAAGAAAAC
**
4978274 GAAAAAGAAATT
1 GAAAAAGAAAAC
4978286 GAAAAAGAAA
1 GAAAAAGAAA
4978296 GTGAGAGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.74, C:0.03, G:0.18, T:0.06
Consensus pattern (12 bp):
GAAAAAGAAAAC
Found at i:4984164 original size:19 final size:19
Alignment explanation
Indices: 4984142--4984181 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
4984132 ATAAATAATG
4984142 TAATTATTAT-TTTCATATA
1 TAATTATTATCTTTC-TATA
*
4984161 TAATTATTTTCTTTCTATA
1 TAATTATTATCTTTCTATA
4984180 TA
1 TA
4984182 TTTGTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (19 bp):
TAATTATTATCTTTCTATA
Found at i:4985552 original size:18 final size:18
Alignment explanation
Indices: 4985530--4985571 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4985520 ATACTTTACC
*
4985530 TTTTTTAAAATATATATAA
1 TTTTCTAAAA-ATATATAA
4985549 TTTTCTAAAAATATATAA
1 TTTTCTAAAAATATATAA
*
4985567 ATTTC
1 TTTTC
4985572 AGAATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTTCTAAAAATATATAA
Found at i:4989783 original size:125 final size:125
Alignment explanation
Indices: 4989555--4989826 Score: 424
Period size: 125 Copynumber: 2.2 Consensus size: 125
4989545 TTATTTCGAG
* ** *
4989555 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGTATGCTATTAGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCACTGATACCAGGATGCTATTAGAGAAGAAATTGT
* *
4989619 GAAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAAAT-TTTT
65 GAAATCGCGCCCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAAGAAATAAATATTTT
4989679 TTGACGTTTTCTGAGCAAATAGTATAAAATCACTGATACCAGGATGCTA-TATGAGAAGAAATTG
1 TTGACG-TTTCTGAGCAAATAGTATAAAATCACTGATACCAGGATGCTATTA-GAGAAGAAATTG
* *
4989743 TGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAGGAAATAATTATTTT
64 TGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAAGAAATAAATATTTT
4989805 TTGACGTTTCTGAGCAAATAGT
1 TTGACGTTTCTGAGCAAATAGT
4989827 GTCAAATCGC
Statistics
Matches: 136, Mismatches: 8, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
124 8 0.06
125 117 0.86
126 11 0.08
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCACTGATACCAGGATGCTATTAGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAAGAAATAAATATTTT
Found at i:4993072 original size:29 final size:29
Alignment explanation
Indices: 4993030--4993666 Score: 658
Period size: 29 Copynumber: 22.1 Consensus size: 29
4993020 TTTTGTTAAT
* * *
4993030 GGTTAGGGTTTTTAATTAAAATGGGCTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* **
4993059 GGTTAGGGCTTTTAATTAAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* **
4993088 GGTTAGAGTTTTTAATTAAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
**
4993117 GGTTAGGGTTTTTAATTAAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
**
4993146 GGTTAGGGTTTTTAATTAAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* **
4993175 GTTTAGGGTTTTTAATTAAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
4993204 GGTTAGGGTTTTTAATTAAAATAGGTTAGGGTTAG
1 GGTTAGGGTTTTTAATT--AA-A--TTA-GGTTAG
* **
4993239 GGTTTAGGGTTCTTAATTAAATTAAATTAG
1 GG-TTAGGGTTTTTAATTAAATTAGGTTAG
* *
4993269 GGTTAGGGTTTTTAATTAAAATGGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
4993298 GGTTAGTGTTTTTAATTTAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* * *
4993327 GATTTAGGGTTTTTAATTAAAATGGGTTAG
1 G-GTTAGGGTTTTTAATTAAATTAGGTTAG
* * * *
4993357 GGTTTAAGGTTTTTAATTAAAATGGGTTTG
1 GG-TTAGGGTTTTTAATTAAATTAGGTTAG
*
4993387 GGTTAGGGTTTTTAATTAAATTAAGTTTA-
1 GGTTAGGGTTTTTAATTAAATT-AGGTTAG
* *
4993416 GGTTAGGGTTTTTAATTAAAATGGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* **
4993445 GGTTAGGGTTTTTAATTAATTTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
4993473 GGTTAGGGTTTTTAATTAAAATGGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
4993502 GGTTAGGGTTTTTAATTTAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
4993531 GGTTTAGGGTTTTTAATT-AA--A--TTA-
1 GG-TTAGGGTTTTTAATTAAATTAGGTTAG
**
4993555 GGTTAGGGTTTTTAATTAAATTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
4993583 GGTTAGGGTTTTTAATTAAA--A---T-G
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* * **
4993606 GGTTAGGGGTTTTAATTAATTTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
4993634 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
4993663 GGTT
1 GGTT
4993667 TTTAATTAAA
Statistics
Matches: 522, Mismatches: 60, Indels: 52
0.82 0.09 0.08
Matches are distributed among these distances:
23 34 0.07
24 4 0.01
25 4 0.01
26 2 0.00
27 1 0.00
28 75 0.14
29 295 0.57
30 75 0.14
31 5 0.01
32 1 0.00
33 1 0.00
34 5 0.01
35 6 0.01
36 14 0.03
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:4993677 original size:23 final size:23
Alignment explanation
Indices: 4993413--4993689 Score: 212
Period size: 23 Copynumber: 10.6 Consensus size: 23
4993403 TAAATTAAGT
4993413 TTAGGTTAGGGTTTTTAATTAAAA
1 TTAGGTTAGGGTTTTTAATT-AAA
4993437 TGGGTTAGGGTTAGGGTTTTTAATTAATTTAAA
1 ----TTA-GGTTAGGG-TT-T--TTAA-TTAAA
4993470 TTAGGTTAGGGTTTTTAATTAAAA
1 TTAGGTTAGGGTTTTTAATT-AAA
4993494 TGGGTTAGGGTTAGGGTTTTTAATTTAATTA
1 ----TTA-GGTTAGGGTTTTTAA-TTAA--A
4993525 GGTTAGGGTTTAGGGTTTTTAATTAAA
1 --TTA-GG-TTAGGGTTTTTAATTAAA
4993552 TTAGGTTAGGGTTTTTAATTAAATTAAA
1 TTAGGTTAGGG--TTT--TT-AATTAAA
4993580 TTAGGTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
* *
4993603 ATGGGTTAGGGGTTTTAATTAATTTAAA
1 TTAGGTTA-GGG-TTT--TTAA-TTAAA
4993631 TTAGGTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
4993654 TTAGGTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
**
4993677 TTAAATTAGGGTT
1 TTAGGTTAGGGTT
4993690 GGGTTTTTAA
Statistics
Matches: 217, Mismatches: 6, Indels: 57
0.77 0.02 0.20
Matches are distributed among these distances:
23 60 0.28
24 18 0.08
25 9 0.04
26 7 0.03
27 12 0.06
28 43 0.20
29 40 0.18
30 17 0.08
31 2 0.01
33 7 0.03
34 2 0.01
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (23 bp):
TTAGGTTAGGGTTTTTAATTAAA
Found at i:4999378 original size:13 final size:13
Alignment explanation
Indices: 4999360--4999385 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4999350 TCACCTTAGG
4999360 CTTGCTTCTGAAC
1 CTTGCTTCTGAAC
4999373 CTTGCTTCTGAAC
1 CTTGCTTCTGAAC
4999386 TAGCCTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.15, T:0.38
Consensus pattern (13 bp):
CTTGCTTCTGAAC
Found at i:5000794 original size:9 final size:9
Alignment explanation
Indices: 5000780--5000807 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
5000770 TTTGTATTAA
5000780 TATTGTTAT
1 TATTGTTAT
5000789 TATTGTTAT
1 TATTGTTAT
5000798 TATTGTTAT
1 TATTGTTAT
5000807 T
1 T
5000808 TTATTCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.68
Consensus pattern (9 bp):
TATTGTTAT
Found at i:5000984 original size:22 final size:20
Alignment explanation
Indices: 5000944--5000984 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
5000934 ACATATTTAC
*
5000944 TTATATTTTTTTTACATACT
1 TTATATTTTTTATACATACT
5000964 TTATAATTTATTTATACATAC
1 TTAT-ATTT-TTTATACATAC
5000985 ATACATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 4 0.22
22 10 0.56
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (20 bp):
TTATATTTTTTATACATACT
Found at i:5003660 original size:23 final size:23
Alignment explanation
Indices: 5003616--5003661 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
5003606 GGGATTAGTA
* * *
5003616 AATTTACAATTTGATTATTCAAT
1 AATTTACAATTTAATCACTCAAT
*
5003639 AATTTATAATTTAATCACTCAAT
1 AATTTACAATTTAATCACTCAAT
5003662 TATTAGTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.46
Consensus pattern (23 bp):
AATTTACAATTTAATCACTCAAT
Found at i:5003665 original size:31 final size:31
Alignment explanation
Indices: 5003629--5003689 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
5003619 TTACAATTTG
*
5003629 ATTATTCAAT-AATTTATAATTTAATCACTCA
1 ATTATT-AATAAATTTATAACTTAATCACTCA
* *
5003660 ATTATTAGTAAATTTATAACTTGATCACTC
1 ATTATTAATAAATTTATAACTTAATCACTC
5003690 CCATGTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.39, C:0.13, G:0.03, T:0.44
Consensus pattern (31 bp):
ATTATTAATAAATTTATAACTTAATCACTCA
Found at i:5003779 original size:15 final size:15
Alignment explanation
Indices: 5003758--5003788 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
5003748 GAAATCTTAG
5003758 ATTTTTTTT-CTTTA
1 ATTTTTTTTGCTTTA
5003772 ATTTTTTTTGCTTTA
1 ATTTTTTTTGCTTTA
5003787 AT
1 AT
5003789 CCAACTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.74
Consensus pattern (15 bp):
ATTTTTTTTGCTTTA
Found at i:5015673 original size:10 final size:10
Alignment explanation
Indices: 5015658--5015684 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
5015648 CAAAAATCCA
5015658 CCCGCCCCAC
1 CCCGCCCCAC
5015668 CCCGCCCCAC
1 CCCGCCCCAC
5015678 CCCGCCC
1 CCCGCCC
5015685 TATTTCCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.81, G:0.11, T:0.00
Consensus pattern (10 bp):
CCCGCCCCAC
Found at i:5015921 original size:18 final size:20
Alignment explanation
Indices: 5015898--5015940 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
5015888 TTATTATTAT
5015898 TTTTTTGAAT-TT-TTAAAA
1 TTTTTTGAATGTTCTTAAAA
*
5015916 TTTTTTGAATGTTCTTATAA
1 TTTTTTGAATGTTCTTAAAA
5015936 TTTTT
1 TTTTT
5015941 ACATTATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
19 2 0.09
20 10 0.45
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (20 bp):
TTTTTTGAATGTTCTTAAAA
Found at i:5017901 original size:296 final size:300
Alignment explanation
Indices: 5017219--5018063 Score: 813
Period size: 296 Copynumber: 2.8 Consensus size: 300
5017209 ATTACACATT
* * *
5017219 TTATCTATACTATTATTTAAA-CCTCTGACTGAGTTGTTGGTGTCATAAGCCAACCAGG-CACCA
1 TTATCTATATTATTATTTAAACCCT-TGACTGA---GTTGGTGTCATGAGTCAACC-GGACACCA
* * * *
5017282 ACTCGATTAGAAAAATTACTAAAATATCCTTTCATATTTAAAATAAGTTATGTTATTTGAAGATA
61 ACTTGATTAGAGAAATTACTAAAATATCCTTTCATATTTAAAATAAGTTATATTATTTAAAGATA
** * * *
5017347 CTTTGGTTTTTTTATTATTGAAAAACAATAAAAAATATACATATGATAGGATTTGAATTCATGCC
126 CTTTAATCTTTTTATTATTGAAAAACAATAAAAAATATACATATGATAGGATTTAAATCCATGCC
* * * *
5017412 AATTACATTAGAAAAATCTTAAATTTACCACTCAATCAAAGCTTTGTTTTGATATTATTATACAT
191 AATTACATTAGAAAAATCTTAAAGTTACCACTCAACCAAAGCTTTATTTTGATATTATTAAACAT
* * * *
5017477 TACAATTTTATTATACACACTTTTATTACCTTCATCAATTGTATA
256 TACAATTTTACTATACACACTTTTATTACCATCATCAAATCTATA
* * * * * * *
5017522 TTTATTTATATTATTATTTAAACCCTTGACTGAATTGGTATTATGAGTCAACC-AAGCACTAATT
1 -TTATCTATATTATTATTTAAACCCTTGACTGAGTTGGTGTCATGAGTCAACCGGA-CACCAACT
* * * *
5017586 TGATTAG-GTAGATTACTAAAATATCCTCTCGTATTTAAAATAAGTTATATTA-TTAAACGGTAC
64 TGATTAGAG-AAATTACTAAAATATCCTTTCATATTTAAAATAAGTTATATTATTTAAA-GATAC
* * * *
5017649 TTTAATCTTTTTATT-TTTAAAAACAAT-AAAAATATGCATATTAT-GATATTTAAATCCATGCC
127 TTTAATCTTTTTATTATTGAAAAACAATAAAAAATATACATATGATAG-GATTTAAATCCATGCC
** * *
5017711 AATTGTATTAG-AAAATCTTAAAGTTACCATTCAACCACAA-CTTTATTTTGATAACTTTTTAAA
191 AATTACATTAGAAAAATCTTAAAGTTACCACTCAACCA-AAGCTTTATTTTGAT-A-TTATTAAA
** *
5017774 CATTTTAATTTTACTATTCACAC-TTTATTA-CATCATCAAATCTATA
253 CATTACAATTTTACTATACACACTTTTATTACCATCATCAAATCTATA
** ** *
5017820 -TATCTATATTATTATTTAAATTCTTGGGTGAGTTGGTGTCACGAGTCAACCGGACACCAACTTG
1 TTATCTATATTATTATTTAAACCCTTGACTGAGTTGGTGTCATGAGTCAACCGGACACCAACTTG
* * * * * * *
5017884 ATTAGAGAAATTACTAAAATATCATTTCATATTTAAAATAAATTATATTCTTTGAGGCTATTTTA
66 ATTAGAGAAATTACTAAAATATCCTTTCATATTTAAAATAAGTTATATTATTTAAAGATACTTTA
* * * * * * * * *
5017949 AT-ATTTTAAT-TTAAAATAATAATAAAAAATATACATTTGAT-GAGATATGAATTCATACCAAT
131 ATCTTTTTATTATTGAAA-AACAATAAAAAATATACATATGATAG-GATTTAAATCCATGCCAAT
* * * * ** *
5018011 TGCATTAGAAAAACCTTAAATTTATCGTTCAACCAAAGCTTTATTTTAATATT
194 TACATTAGAAAAATCTTAAAGTTACCACTCAACCAAAGCTTTATTTTGATATT
5018064 TTTTACACAT
Statistics
Matches: 443, Mismatches: 82, Indels: 40
0.78 0.15 0.07
Matches are distributed among these distances:
295 11 0.02
296 108 0.24
297 45 0.10
298 81 0.18
299 47 0.11
300 40 0.09
301 82 0.19
304 26 0.06
305 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (300 bp):
TTATCTATATTATTATTTAAACCCTTGACTGAGTTGGTGTCATGAGTCAACCGGACACCAACTTG
ATTAGAGAAATTACTAAAATATCCTTTCATATTTAAAATAAGTTATATTATTTAAAGATACTTTA
ATCTTTTTATTATTGAAAAACAATAAAAAATATACATATGATAGGATTTAAATCCATGCCAATTA
CATTAGAAAAATCTTAAAGTTACCACTCAACCAAAGCTTTATTTTGATATTATTAAACATTACAA
TTTTACTATACACACTTTTATTACCATCATCAAATCTATA
Found at i:5018760 original size:841 final size:835
Alignment explanation
Indices: 5016915--5018776 Score: 1938
Period size: 840 Copynumber: 2.2 Consensus size: 835
5016905 TAAAGTTTTA
* * *
5016915 TTTTAATATATTTTAATTCTATTATGCACACTTTATTACATCTATCAAATGTATATATCTATATT
1 TTTTTATACATTTTAATTTTATT-TGCACACTTTATTACATC-ATCAAATGTATATATCTATATT
** * * *
5016980 ATTATTTAAATCTCTGACCAAGTTGGTGTCAAAAGTC-AACGAAGCACCAACTCGGTTAGAAAAA
64 ATTATTTAAATCT-TGACTGAGTTGGTGTCAAGAGTCAAACG-AGCACCAACTTGGTTAGGAAAA
* * * *
5017044 TTACTAAAATGTCCTTTTATGTTTAAAATAAGTTA-AGTTATTCAAGGATACTTTAGTTTTTTAT
127 TTACTAAAATGTCCTTTCATATTTAAAATAAGTTATA-TTATTCAAGGATACTTTAATTTTTAAT
* * * * *
5017108 TTAAAAAGAATAAAAATATACACAAGATATTTGAATTCATGCCAATTGCACTAGTAAAGCCTTAA
191 TTAAAAAGAATAAAAATATACACAAGAGATATGAATTCATACCAATTGCACTAGAAAAACCTTAA
* * *
5017173 ATTTATCACTTAACCAAAGTTTTACTTTAATATTTTATTACACATTTTATCTATACTATTATTTA
256 ATTTATCACTTAACCAAAGCTTTACTTTAATATTTTATTACACATTATATATATACTATTATTTA
* *
5017238 AACCTCTGACTGAGTTGTTGGTGTCATAAGCCAACCAGGCACCAACTCGATTAGAAAAATTACTA
321 AACCTCTAACTGAG-TGTTGGTGTCATAAGCCAACCAGGCACCAACTAGATTAGAAAAATTACTA
* ** * *
5017303 AAATATCCTTTCATATTTAAAATAAGTTATGTTATTTGAAGATACTTTGGTTTTTTTATTATTGA
385 AAATATCCTTTCACATTTAAAATAAGTTACATTATTTGAAG------TGGTTATTTTAATATTGA
* * ** * *
5017368 AAAACAATAAAAAATATACATATGATAGGATTTGAATTCATGCCAATTACATTAGAAAAATCTTA
444 AAAACAAT----AATATACATAGGATAGGATTTGAATCCATGCCAACCACATTAAAAAAACCTTA
* *
5017433 AATTTACCACTCAATCAAAGCTTTGTTTTGATATTATTATACATTACAATTTTATTATACACACT
505 AATTTACCACTCAACCAAAGCTTTATTTTGATATTATTATACATTACAATTTTATTATACACA--
* ** * * * * *
5017498 TTTATTACCTTCATCAATTGTATATTTATTTATATTATTATTTAAACCCTTGACTGAATTGGTAT
568 TATATTACCCCCATCAACTGTATATCTATTTATACTATTATTTAAACCCCTAACTGAATTGGTAT
* ** * * * * * *
5017563 TATGAGTCAACCAAGCACTAATTTGATTAGGTAGATTACTAAAATATCCTCTCGTATTTAAAATA
633 CACAAGTCAACCAAGCACCAACTCGATTAAGTAAATTACTAAAATATCCTCTCGTATTTAAAACA
* * * * *
5017628 AGTTATATTATTAAACGGTACTTTAATCTTTTTATTTTTAAAAACAATAAAAATATGCATATTAT
698 AGTTATATTATTAAACGGTAATTTAATCTTTTTATATTAAAAAACAATAAAAAAATGCATATGAT
* *
5017693 GATATTTAAATCCATGCCAATTGTATTAGAAAATCTTAAAGTTACCATTCAACCACAACTTTATT
763 GATATTTAAATCCATGCCAATTGCATTAGAAAATCTTAAAGTTAACATTCAACCACAACTTTATT
5017758 TTGATAAC
828 TTGATAAC
* *
5017766 TTTTTAAACATTTTAATTTTACTATT-CACACTTTATTACATCATCAAATCTATATATCTATATT
1 TTTTTATACATTTTAATTTTA-T-TTGCACACTTTATTACATCATCAAATGTATATATCTATATT
** * * *
5017830 ATTATTTAAATTCTTGGGTGAGTTGGTGTCACGAGTCAACCG-GACACCAACTTGATTA-GAGAA
64 ATTATTTAAA-TCTTGACTGAGTTGGTGTCAAGAGTCAAACGAG-CACCAACTTGGTTAGGA-AA
* * * * ** * *
5017893 ATTACTAAAATATCATTTCATATTTAAAATAAATTATATTCTTTGAGGCTATTTTAATATTTTAA
126 ATTACTAAAATGTCCTTTCATATTTAAAATAAGTTATATTATTCAAGGATACTTTAAT-TTTTAA
* * * *
5017958 TTTAAAATAATAATAAAAAATATACATTTGATGAGATATGAATTCATACCAATTGCATTAGAAAA
190 TTT-AAA-AAGAAT-AAAAATATACA---CAAGAGATATGAATTCATACCAATTGCACTAGAAAA
* * *
5018023 ACCTTAAATTTATC-GTTCAACCAAAGCTTTATTTTAATATTTT-TTACACATTATATATATATT
249 ACCTTAAATTTATCACTT-AACCAAAGCTTTACTTTAATATTTTATTACACATTATATATATACT
* * * * *
5018086 ATTATTTAAACC-CATAACTGA-T-TTGGTGTGATAAGTCAACCTA-GCACCAATTAGGTTAGCA
313 ATTATTTAAACCTC-TAACTGAGTGTTGGTGTCATAAGCCAACC-AGGCACCAACTAGATTAGAA
* * * *
5018147 AAATTACTAAAGTGTCTTTTCGCATTTAAAATAAGTTACATTATTTG-AG-GG-TATTTTAATAT
376 AAATTACTAAAATATCCTTTCACATTTAAAATAAGTTACATTATTTGAAGTGGTTATTTTAATAT
* * * * * *
5018209 TTATAAAA-GAT-ATGTGCATAGGAT-GAGATTTGAATCCATGCTAACCGCATTAAAAAAACCTT
441 TGA-AAAACAATAATATACATAGGATAG-GATTTGAATCCATGCCAACCACATTAAAAAAACCTT
* * * * * ** *
5018271 AAATTTACCACTTAGCCAAAGTTTTATTTTGATATTGTTTATATATTTTAATTTTATTATGCACA
504 AAATTTACCACTCAACCAAAGCTTTATTTTGATATT-ATTATACATTACAATTTTATTATACACA
* * *
5018336 -AT-TTACCCCCATCAACTGTATATCTATCTATACTCACTATTATTTGAACCCCTAACTGAGTTT
568 TATATTACCCCCATCAACTGTATATCTAT-T-TA-T-ACTATTATTTAAACCCCTAACTGAATTG
* *
5018399 GTATCACAAGTCAACTC-AGCACCAACTCGATTAAGTAAATTACTAAAATGTCCTCTTGTATTTA
629 GTATCACAAGTCAAC-CAAGCACCAACTCGATTAAGTAAATTACTAAAATATCCTCTCGTATTTA
* * * *
5018463 AAACAAGTTATATTATTAGAGGGTAATTTAGTCTTTTT-TATTAAAAAATAATAAAAAAATGTAC
693 AAACAAGTTATATTATTAAACGGTAATTTAATCTTTTTATATTAAAAAACAATAAAAAAATG--C
* * *
5018527 ATATGATGA-AGTTTTAAATCCATGGCAATTGCATTAGAAAA-CTTTAAATTTAACATTCAATCA
756 ATATGATGATA--TTTAAATCCATGCCAATTGCATTAGAAAATC-TTAAAGTTAACATTCAACCA
* *
5018590 -AAGTTTTATTTTGAT-AT
818 CAA-CTTTATTTTGATAAC
* * * *
5018607 TTTTTATACATTTTAATTTTATTTGCACCCTTTATTACATTCATCAATTGTATATATCTAAACTA
1 TTTTTATACATTTTAATTTTATTTGCACACTTTATTACA-TCATCAAATGTATATATCTATATTA
* * *
5018672 TTATTTAAACCCTTGACTGAGATGGTGTCATGAGTCAAACGAGCACCAACTTGGTTAGGAAAATT
65 TTATTTAAA-TCTTGACTGAGTTGGTGTCAAGAGTCAAACGAGCACCAACTTGGTTAGGAAAATT
* * * * *
5018737 ACGAATATGTCCTTCCGTATTTAAAAGAAGTTATATTATT
129 ACTAAAATGTCCTTTCATATTTAAAATAAGTTATATTATT
5018777 TTAGGGTATG
Statistics
Matches: 835, Mismatches: 141, Indels: 80
0.79 0.13 0.08
Matches are distributed among these distances:
836 21 0.03
837 2 0.00
838 3 0.00
839 92 0.11
840 145 0.17
841 138 0.17
842 58 0.07
844 13 0.02
845 6 0.01
849 2 0.00
850 107 0.13
851 48 0.06
852 7 0.01
853 77 0.09
854 13 0.02
855 1 0.00
856 37 0.04
857 65 0.08
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (835 bp):
TTTTTATACATTTTAATTTTATTTGCACACTTTATTACATCATCAAATGTATATATCTATATTAT
TATTTAAATCTTGACTGAGTTGGTGTCAAGAGTCAAACGAGCACCAACTTGGTTAGGAAAATTAC
TAAAATGTCCTTTCATATTTAAAATAAGTTATATTATTCAAGGATACTTTAATTTTTAATTTAAA
AAGAATAAAAATATACACAAGAGATATGAATTCATACCAATTGCACTAGAAAAACCTTAAATTTA
TCACTTAACCAAAGCTTTACTTTAATATTTTATTACACATTATATATATACTATTATTTAAACCT
CTAACTGAGTGTTGGTGTCATAAGCCAACCAGGCACCAACTAGATTAGAAAAATTACTAAAATAT
CCTTTCACATTTAAAATAAGTTACATTATTTGAAGTGGTTATTTTAATATTGAAAAACAATAATA
TACATAGGATAGGATTTGAATCCATGCCAACCACATTAAAAAAACCTTAAATTTACCACTCAACC
AAAGCTTTATTTTGATATTATTATACATTACAATTTTATTATACACATATATTACCCCCATCAAC
TGTATATCTATTTATACTATTATTTAAACCCCTAACTGAATTGGTATCACAAGTCAACCAAGCAC
CAACTCGATTAAGTAAATTACTAAAATATCCTCTCGTATTTAAAACAAGTTATATTATTAAACGG
TAATTTAATCTTTTTATATTAAAAAACAATAAAAAAATGCATATGATGATATTTAAATCCATGCC
AATTGCATTAGAAAATCTTAAAGTTAACATTCAACCACAACTTTATTTTGATAAC
Found at i:5019923 original size:304 final size:306
Alignment explanation
Indices: 5019368--5019949 Score: 739
Period size: 304 Copynumber: 1.9 Consensus size: 306
5019358 TATTATTCTA
* **
5019368 AATATGATGTATTTACATGTTGAAATTTTTTTTACTCACAATTTAATCTAATTTTTTTATTTTAA
1 AATATGATGTATTTACATGTTCAAATTCATTTTACTCACAATTTAATCTAATTTTTTTATTTTAA
* * *
5019433 TATCGTACATATTGCATATGTTATTATAAATTAGTTTCAAACTTACGTTTCATTATTTATTGTAT
66 TATCGTACATATTGCATATATTATTATAAATTAGTTGCAAACATACGTTTCATTATTTATTGTA-
* ** *
5019498 GTTATTTTTAAACACACCCCCTATGTTCTAAATACATAGTTTCCACATGCATATGCATGTGACAG
130 -TTATTTTTAAACACACCCCCTATGTTCTAAACACATAGTTTCCACACACATATGCAGGTGACAG
* * * * * * *
5019563 AATTTCTAGTGTTAATAATTTTGTTGATTGATTTGGTGTCATAAATTAACTCAACACTAACCTAA
194 AATTTCTAATATTAATAATGTTGTTGATTGAGTAGGTGTCACAAATTAACTCAACACCAACCTAA
*
5019628 AATTGATAACAATACCATAATAAATAATTGTATTCATTTAGTATAATT
259 AATTGATAACAACACCATAATAAATAATTGTATTCATTTAGTATAATT
** *
5019676 AATATGATGTATTTATGTGTTCAAATTCCATTTTACTCACAATTTAATCT-CTTTTTTTCATTTT
1 AATATGATGTATTTACATGTTCAAATT-CATTTTACTCACAATTTAATCTAATTTTTTT-ATTTT
* * * * *
5019740 AATATCGTACATATTTCGTTTATTATTATTAATTAGTTGCAAATCATATGTTTCATTATTTA-T-
64 AATATCGTACATATTGCATATATTATTATAAATTAGTTGCAAA-CATACGTTTCATTATTTATTG
* * *
5019803 TA-TATTTTTAAACACA-CCTCTATGTTCTAAACATATGGTTTCCACACACATATGTGCGAGGT-
128 TATTATTTTTAAACACACCCCCTATGTTCTAAACACATAGTTTCCACACACATA--TGC-AGGTG
*
5019865 A-A-AATTTTTAATATTAATAATGTTGTTGATTGAGTAGGTGTCACAAATTAACTCAACACCAAC
190 ACAGAATTTCTAATATTAATAATGTTGTTGATTGAGTAGGTGTCACAAATTAACTCAACACCAAC
* * *
5019928 TTATAATTGATGACAACACCAT
255 CTAAAATTGATAACAACACCAT
5019950 GATGTCGAAA
Statistics
Matches: 235, Mismatches: 33, Indels: 16
0.83 0.12 0.06
Matches are distributed among these distances:
304 101 0.43
305 15 0.06
306 4 0.02
307 3 0.01
308 33 0.14
309 63 0.27
310 16 0.07
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.43
Consensus pattern (306 bp):
AATATGATGTATTTACATGTTCAAATTCATTTTACTCACAATTTAATCTAATTTTTTTATTTTAA
TATCGTACATATTGCATATATTATTATAAATTAGTTGCAAACATACGTTTCATTATTTATTGTAT
TATTTTTAAACACACCCCCTATGTTCTAAACACATAGTTTCCACACACATATGCAGGTGACAGAA
TTTCTAATATTAATAATGTTGTTGATTGAGTAGGTGTCACAAATTAACTCAACACCAACCTAAAA
TTGATAACAACACCATAATAAATAATTGTATTCATTTAGTATAATT
Found at i:5024431 original size:19 final size:18
Alignment explanation
Indices: 5024396--5024431 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
5024386 GAAGCAAGCA
*
5024396 ATGATTGAAGAAATCAGG
1 ATGATTGAAAAAATCAGG
5024414 ATGATTGAAAAGAATCAG
1 ATGATTGAAAA-AATCAG
5024432 ACCTGGAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (18 bp):
ATGATTGAAAAAATCAGG
Found at i:5029849 original size:22 final size:21
Alignment explanation
Indices: 5029824--5029870 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
5029814 CTATTTACTT
5029824 TTTTATTATTATATATTAT-TAG
1 TTTTA-TATT-TATATTATATAG
*
5029846 TTTTATATTTATATTTTATAG
1 TTTTATATTTATATTATATAG
5029867 TTTT
1 TTTT
5029871 TATAATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 7 0.30
21 11 0.48
22 5 0.22
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (21 bp):
TTTTATATTTATATTATATAG
Found at i:5029871 original size:22 final size:23
Alignment explanation
Indices: 5029823--5029884 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
5029813 GCTATTTACT
*
5029823 TTTTTAT-TATTATATATTATTAG
1 TTTTTATAT-TTATATTTTATTAG
5029846 -TTTTATATTTATATTTTA-TAG
1 TTTTTATATTTATATTTTATTAG
5029867 TTTTTATAATTT-TATTTT
1 TTTTTAT-ATTTATATTTT
5029885 TTAATAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
21 3 0.09
22 27 0.77
23 5 0.14
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.69
Consensus pattern (23 bp):
TTTTTATATTTATATTTTATTAG
Found at i:5030741 original size:10 final size:9
Alignment explanation
Indices: 5030720--5030753 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
5030710 AATTCAAATA
5030720 TTATTTTTT
1 TTATTTTTT
5030729 TTATTTTTAT
1 TTATTTTT-T
5030739 TTATTTATTT
1 TTATTT-TTT
5030749 TTATT
1 TTATT
5030754 AAAATATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.35
10 13 0.57
11 2 0.09
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (9 bp):
TTATTTTTT
Found at i:5030925 original size:59 final size:58
Alignment explanation
Indices: 5030782--5030953 Score: 152
Period size: 58 Copynumber: 2.9 Consensus size: 58
5030772 TTAATATACC
* * * * * *
5030782 ATTTGATATTTGAACTTGACA-TTTTTTTCTAGTTTGGTACCTAAATTTTTTTAGCCGA
1 ATTTGGTAATTGAACTTGACACATTTTCT-TAATTTGGTACCTAAATTTTTTTTGCCGA
* *
5030840 GTTTGGTATTTGAACTTGACACATTTTCTTAATTTGGTACCTAAATTTTTTTTGTCTC-A
1 ATTTGGTAATTGAACTTGACACATTTTCTTAATTTGGTACCTAAATTTTTTTTG-C-CGA
* * * * *
5030899 ATTTGGTAATTGAATTTGATATATTTT-TTAAAATTCGGTACCTAAGCTTTTTTTT
1 ATTTGGTAATTGAACTTGACACATTTTCTT--AATTTGGTACCTAA-ATTTTTTTT
5030954 AAGATCAATT
Statistics
Matches: 95, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
58 44 0.46
59 29 0.31
60 14 0.15
61 8 0.08
ACGTcount: A:0.24, C:0.11, G:0.13, T:0.51
Consensus pattern (58 bp):
ATTTGGTAATTGAACTTGACACATTTTCTTAATTTGGTACCTAAATTTTTTTTGCCGA
Found at i:5031334 original size:19 final size:18
Alignment explanation
Indices: 5031304--5031361 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 18
5031294 ACTATCTTAT
5031304 AAAATATATAAAACTTTAA
1 AAAATATATAAAA-TTTAA
*
5031323 AAACAT-TATAAAATTGAA
1 AAA-ATATATAAAATTTAA
5031341 ATAAATATATAAAATTTAA
1 A-AAATATATAAAATTTAA
5031360 AA
1 AA
5031362 TTAAAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
18 8 0.24
19 24 0.71
20 2 0.06
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (18 bp):
AAAATATATAAAATTTAA
Found at i:5031370 original size:20 final size:19
Alignment explanation
Indices: 5031305--5031376 Score: 67
Period size: 19 Copynumber: 3.6 Consensus size: 19
5031295 CTATCTTATA
5031305 AAATATATAAAACTTTAAAA-
1 AAATATATAAAA--TTAAAAT
* *
5031325 ACAT-TATAAAATTGAAAT
1 AAATATATAAAATTAAAAT
5031343 AAATATATAAAATTTAAAATT
1 AAATATATAAAA-TTAAAA-T
5031364 AAAATATATAAAA
1 -AAATATATAAAA
5031377 ATTATAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
17 5 0.12
18 3 0.07
19 14 0.33
20 8 0.19
21 1 0.02
22 12 0.28
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (19 bp):
AAATATATAAAATTAAAAT
Found at i:5031375 original size:30 final size:30
Alignment explanation
Indices: 5031341--5031404 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
5031331 TAAAATTGAA
* *
5031341 ATAAATATATAAAATTTAAAAT-TAAAATAT
1 ATAAAAAT-TAAAATATAAAATCTAAAATAT
* *
5031371 ATAAAAATTATAATATAAAGTCTAAAATAT
1 ATAAAAATTAAAATATAAAATCTAAAATAT
5031401 ATAA
1 ATAA
5031405 GAAAATATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (30 bp):
ATAAAAATTAAAATATAAAATCTAAAATAT
Found at i:5035150 original size:24 final size:25
Alignment explanation
Indices: 5035119--5035167 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
5035109 AGATCTTTCA
*
5035119 AAAATAAAA-TATTTTTATAATCTT
1 AAAATAAAAGAATTTTTATAATCTT
5035143 AAAATAAAAGAATTTTTATAATCTT
1 AAAATAAAAGAATTTTTATAATCTT
5035168 GGTTTATCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (25 bp):
AAAATAAAAGAATTTTTATAATCTT
Found at i:5041472 original size:3 final size:3
Alignment explanation
Indices: 5041464--5041515 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
5041454 TTAGTTTTTG
* * *
5041464 TTA TTA TTA TTA TTA CTA TTA TCA TTA TTA -TA TTA TATA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*
5041509 TAA TTA T
1 TTA TTA T
5041516 ACTTACATAT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.90
4 2 0.05
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:5041507 original size:24 final size:24
Alignment explanation
Indices: 5041464--5041515 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
5041454 TTAGTTTTTG
*
5041464 TTATTATTATTATTACTATTATCA
1 TTATTATTATTATTACTATTATAA
*
5041488 TTATTA-TATTATATAGTATTATAA
1 TTATTATTATTAT-TACTATTATAA
5041512 TTAT
1 TTAT
5041516 ACTTACATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (24 bp):
TTATTATTATTATTACTATTATAA
Found at i:5046733 original size:24 final size:24
Alignment explanation
Indices: 5046701--5046748 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
5046691 AACAAAGAGC
5046701 AAATTTCAAAAGAGCTCTTAGTAA
1 AAATTTCAAAAGAGCTCTTAGTAA
5046725 AAATTTCAAAAGAGCTCTTAGTAA
1 AAATTTCAAAAGAGCTCTTAGTAA
5046749 CCTTTCGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.29
Consensus pattern (24 bp):
AAATTTCAAAAGAGCTCTTAGTAA
Found at i:5063164 original size:69 final size:69
Alignment explanation
Indices: 5063053--5063184 Score: 239
Period size: 69 Copynumber: 1.9 Consensus size: 69
5063043 TTTCTTATAC
*
5063053 TTTGAACTCAAGACCATGTTACAATTCTTGAAAGTCTATCTTTGATCTTCAAATTAAAAAGTACA
1 TTTGAACTCAAGACCAGGTTACAATTCTTGAAAGTCTATCTTTGATCTTCAAATTAAAAAGTACA
5063118 GCAG
66 GCAG
5063122 TTTGAACTCAAGACCAGGTTACAACTT-TTGAAAGTCTATCTTTGATCTTCAAATTAAAAAGTA
1 TTTGAACTCAAGACCAGGTTACAA-TTCTTGAAAGTCTATCTTTGATCTTCAAATTAAAAAGTA
5063185 AAGCTTTCAA
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
69 59 0.97
70 2 0.03
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (69 bp):
TTTGAACTCAAGACCAGGTTACAATTCTTGAAAGTCTATCTTTGATCTTCAAATTAAAAAGTACA
GCAG
Found at i:5065096 original size:10 final size:10
Alignment explanation
Indices: 5065081--5065253 Score: 82
Period size: 10 Copynumber: 17.3 Consensus size: 10
5065071 GAAGGAGAGG
5065081 GAAAGAAGAA
1 GAAAGAAGAA
5065091 GAAAG-A-AA
1 GAAAGAAGAA
5065099 GAAAGAAAGAAA
1 GAAAG-AAG-AA
5065111 GAAAGAA-AA
1 GAAAGAAGAA
5065120 GGAAAGAA-AA
1 -GAAAGAAGAA
* *
5065130 GGAAAGGAGAG
1 -GAAAGAAGAA
5065141 GAAAGAAAGAA
1 GAAAG-AAGAA
5065152 -AAAGAAGGAAA
1 GAAAGAA-G-AA
*
5065163 GATAAGGA-AA
1 GA-AAGAAGAA
*
5065173 G-GAGAAGAA
1 GAAAGAAGAA
*
5065182 GAAAAAAGAAA
1 GAAAGAAG-AA
*
5065193 GAAA-AAGGAG
1 GAAAGAA-GAA
5065203 GAAAGAA-AA
1 GAAAGAAGAA
*
5065212 GGAAAGGAGAA
1 -GAAAGAAGAA
5065223 GAGAAG-AGAA
1 GA-AAGAAGAA
*
5065233 -AAA-AAAAA
1 GAAAGAAGAA
5065241 GAAAGAAGAA
1 GAAAGAAGAA
5065251 GAA
1 GAA
5065254 GAGGGAAGGA
Statistics
Matches: 127, Mismatches: 14, Indels: 44
0.69 0.08 0.24
Matches are distributed among these distances:
8 15 0.12
9 13 0.10
10 65 0.51
11 22 0.17
12 8 0.06
13 4 0.03
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.01
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:5065160 original size:38 final size:40
Alignment explanation
Indices: 5065080--5065289 Score: 192
Period size: 38 Copynumber: 5.3 Consensus size: 40
5065070 AGAAGGAGAG
*
5065080 GGAAAGAAGAA-GAAAGAAAGAA-AGAAAGAAAGAAAGAA-AA
1 GGAAAGAA-AAGGAAAG-GAGAAGAGAAAGAAAGAAA-AAGAA
5065120 GGAAAGAAAAGGAAAGGAG-AG-GAAAGAAAGAAAAAGAA
1 GGAAAGAAAAGGAAAGGAGAAGAGAAAGAAAGAAAAAGAA
* *
5065158 GGAAAGATAAGGAAAGGAGAAGAAGAAAAAAGAAAGAAAAAGGA
1 GGAAAGAAAAGGAAAGGAGAAG-AG---AAAGAAAGAAAAAGAA
5065202 GGAAAGAAAAGGAAAGGAGAAGAGAAGAGAAA-AAAAA-AA
1 GGAAAGAAAAGGAAAGGAGAAGAGAA-AGAAAGAAAAAGAA
*
5065241 -GAAAGAAGAA-GAAGAGG-GAAG-GAAGGAAA-AAAAAGAA
1 GGAAAGAA-AAGGAA-AGGAGAAGAGAAAGAAAGAAAAAGAA
* *
5065278 AGAAAAAAAAGG
1 GGAAAGAAAAGG
5065290 TAATTTTTAT
Statistics
Matches: 148, Mismatches: 7, Indels: 32
0.79 0.04 0.17
Matches are distributed among these distances:
36 9 0.06
37 9 0.06
38 54 0.36
39 12 0.08
40 20 0.14
41 6 0.04
43 2 0.01
44 36 0.24
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.00
Consensus pattern (40 bp):
GGAAAGAAAAGGAAAGGAGAAGAGAAAGAAAGAAAAAGAA
Found at i:5065191 original size:44 final size:44
Alignment explanation
Indices: 5065097--5065289 Score: 187
Period size: 44 Copynumber: 4.5 Consensus size: 44
5065087 AGAAGAAAGA
5065097 AAGAAAGAAAGAAAGAAAGAA-AAGGAAAGAAAAGGAAAGGAG-AG
1 AAGAAA-AAAGAAAGAAA-AAGAAGGAAAGAAAAGGAAAGGAGAAG
*
5065141 --G---AAAGAAAGAAAAAGAAGGAAAGATAAGGAAAGGAGAAG
1 AAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAG
*
5065180 AAGAAAAAAGAAAGAAAAAGGAGGAAAGAAAAGGAAAGGAGAAGAG
1 AAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAG-A-AG
* * *
5065226 AAGAGAAAAA-AAA-AAGAAAGAA-G-AAGAAGAGGGAAGGA-AGG
1 AAGA-AAAAAGAAAGAA-AAAGAAGGAAAGAAAAGGAAAGGAGAAG
*
5065267 AA-AAAAAAGAAAGAAAAAAAAGG
1 AAGAAAAAAGAAAGAAAAAGAAGG
5065290 TAATTTTTAT
Statistics
Matches: 127, Mismatches: 8, Indels: 31
0.77 0.05 0.19
Matches are distributed among these distances:
37 2 0.02
38 31 0.24
39 7 0.06
40 9 0.07
41 7 0.06
42 2 0.02
44 46 0.36
45 4 0.03
46 14 0.11
47 5 0.04
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (44 bp):
AAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAG
Found at i:5065801 original size:158 final size:158
Alignment explanation
Indices: 5065626--5066145 Score: 583
Period size: 158 Copynumber: 3.3 Consensus size: 158
5065616 TATTTAATAA
* * * *
5065626 ATTTCAAACATAATGCACTAAAATAATGTAAAATGATAAAATTAAAAATTACGATATTTTTTAAA
1 ATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAATTAAAAATTACGATATTTTTTAAA
*
5065691 ATAATATAATGCGGATAAAAAAATACGAACAACTGGCCGAAGTAAGAGTGTATTACTAACTTTTT
66 ATAATATAATGCGGATAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTAACTTTTT
5065756 TAAAAATTCAGAAATAATTAATACAAAT
131 TAAAAATTCAGAAATAATTAATACAAAT
* **
5065784 ATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAATATGAAAA-TAAAATATTTTTATT
1 ATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAAT-TAAAAATTACGATA-TTTT-TT
* * * * * * * * * * *
5065848 GAAAGTAATAAAAAT-CGG-GAAAATAATACGAGCAAAGGGCAG-AGATAAGGGTTTTTTTCTTA
63 -AAAATAAT-ATAATGCGGATAAAAAAATACGAACAAATGGCCGAAG-TAAGAGTGTATTAC-TA
* * * *
5065910 CACCAAATTAATTTAAAAA-ACA-CACTAAATTAAT--AAAT
124 -A-C---TT-TTTTAAAAATTCAGAAAT-AATTAATACAAAT
** * * *
5065948 -TTT-AAACATTATGCACTGAAATAATGTAAAATGATAAAATTAGAAATTACGATATTTTTTAAA
1 ATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAATTAAAAATTACGATATTTTTTAAA
5066011 ATAATATAATGCGGATAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTAACTTTTT
66 ATAATATAATGCGGATAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTAACTTTTT
5066076 TAAAAATTCAGAAATAATTAATACAAAT
131 TAAAAATTCAGAAATAATTAATACAAAT
*
5066104 ATTTTAAACAAAATGCACTGAAATAATATAAAATAATAAAAT
1 ATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAAT
5066146 ACGAAAATAA
Statistics
Matches: 288, Mismatches: 50, Indels: 48
0.75 0.13 0.12
Matches are distributed among these distances:
153 8 0.03
154 11 0.04
155 2 0.01
156 4 0.01
157 4 0.01
158 81 0.28
159 23 0.08
160 61 0.21
161 22 0.08
162 43 0.15
163 4 0.01
164 4 0.01
165 2 0.01
166 11 0.04
167 8 0.03
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.30
Consensus pattern (158 bp):
ATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAATTAAAAATTACGATATTTTTTAAA
ATAATATAATGCGGATAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTAACTTTTT
TAAAAATTCAGAAATAATTAATACAAAT
Found at i:5066134 original size:320 final size:318
Alignment explanation
Indices: 5065619--5066380 Score: 1237
Period size: 320 Copynumber: 2.4 Consensus size: 318
5065609 AATTATATAT
*
5065619 TTAATAAATTTCAAACATAATGCACTAAAATAATGTAAAATGATAAAATTAAAAATTACGATATT
1 TTAATAAATTTTAAACAT-ATGCACT-AAATAATGTAAAATGATAAAATTAAAAATTACGATATT
*
5065684 TTTTAAAATAATATAATGCGGATAAAAAAATACGAACAACTGGCCGAAGTAAGAGTGTATTACTA
64 TTTTAAAATAATATAATGCGGATAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTA
5065749 ACTTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATATA
129 ACTTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATATA
*
5065814 AAATAATAAAATATGAAAATAAAATATTTTTATTGAAAGTAATAAAAATCGGGAAAATAATACGA
194 AAATAATAAAATACGAAAATAAAATATTTTTATTGAAAGTAATAAAAATCGGGAAAATAATACGA
5065879 GCAAAGGGCAGAGATAAGGGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAA
259 GCAAAGGGCAGAGATAAGGGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAA
*
5065939 TTAATAAATTTTAAACATTATGCACTGAAATAATGTAAAATGATAAAATTAGAAATTACGATATT
1 TTAATAAATTTTAAACA-TATGCACT-AAATAATGTAAAATGATAAAATTAAAAATTACGATATT
5066004 TTTTAAAATAATATAATGCGGATAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTA
64 TTTTAAAATAATATAATGCGGATAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTA
*
5066069 ACTTTTTTAAAAATTCAGAAATAATTAATACAAATATTTTAAACAAAATGCACTGAAATAATATA
129 ACTTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATATA
5066134 AAATAATAAAATACGAAAATAAAATATTTTTATTGAAAGTAATAAAAATCGGGAAAATAATACGA
194 AAATAATAAAATACGAAAATAAAATATTTTTATTGAAAGTAATAAAAATCGGGAAAATAATACGA
* *
5066199 GCAAAGGGCAGGGATAAGGGTTTTTTTCTTATACCAAATTAATTTAAAAAACACACTAAA
259 GCAAAGGGCAGAGATAAGGGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAA
* * *
5066259 TTAATAAA-TTT---CA-A---AC-----AATGTAAAATTATAAAATTATAAATTAAGATA-TTT
1 TTAATAAATTTTAAACATATGCACTAAATAATGTAAAATGATAAAATTAAAAATTACGATATTTT
* * ** * * *
5066310 TTAAAGTAATAAAATGCTAAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTTTTTTACTAAC
66 TTAAAATAATATAATGCGGATAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTAAC
5066375 TTTTTT
131 TTTTTT
5066381 TTTCAACTTG
Statistics
Matches: 423, Mismatches: 18, Indels: 18
0.92 0.04 0.04
Matches are distributed among these distances:
304 67 0.16
305 29 0.07
311 2 0.00
314 1 0.00
316 2 0.00
319 3 0.01
320 318 0.75
321 1 0.00
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (318 bp):
TTAATAAATTTTAAACATATGCACTAAATAATGTAAAATGATAAAATTAAAAATTACGATATTTT
TTAAAATAATATAATGCGGATAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTAAC
TTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATATAAA
ATAATAAAATACGAAAATAAAATATTTTTATTGAAAGTAATAAAAATCGGGAAAATAATACGAGC
AAAGGGCAGAGATAAGGGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAA
Found at i:5068589 original size:11 final size:11
Alignment explanation
Indices: 5068573--5068599 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
5068563 TTTATAACTT
5068573 AATTTGGATAC
1 AATTTGGATAC
5068584 AATTTGGATAC
1 AATTTGGATAC
5068595 AATTT
1 AATTT
5068600 AAGCATAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (11 bp):
AATTTGGATAC
Found at i:5070904 original size:18 final size:18
Alignment explanation
Indices: 5070868--5070906 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
5070858 ATGATCGCCG
**
5070868 CCACCTTCTTCTTTGCCA
1 CCACCTTCTTCTTCACCA
5070886 CCACCTTCTTCTTCACCA
1 CCACCTTCTTCTTCACCA
5070904 CCA
1 CCA
5070907 ACCATATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.49, G:0.03, T:0.33
Consensus pattern (18 bp):
CCACCTTCTTCTTCACCA
Found at i:5071771 original size:3 final size:3
Alignment explanation
Indices: 5071753--5071790 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
5071743 AATAACATCT
* *
5071753 TAA TAC TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
5071791 CTAACTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:5072076 original size:27 final size:27
Alignment explanation
Indices: 5072036--5072096 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
5072026 ATGAGTAGTC
* *
5072036 CCGCCAATCAGTATGGCACCATTGGTG
1 CCGCCAAGCAGTATGGCACCATCGGTG
*
5072063 CTGCCAAGCAGTATGGCACCATCGGTG
1 CCGCCAAGCAGTATGGCACCATCGGTG
5072090 CCGCCAA
1 CCGCCAA
5072097 TTAAAAACCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.23, C:0.33, G:0.26, T:0.18
Consensus pattern (27 bp):
CCGCCAAGCAGTATGGCACCATCGGTG
Found at i:5073613 original size:35 final size:36
Alignment explanation
Indices: 5073530--5073617 Score: 92
Period size: 35 Copynumber: 2.4 Consensus size: 36
5073520 TAATTTTTTA
* *
5073530 TTTTAGACTTT-AATATCCTTAGATTTAATTTATGT
1 TTTTAGATTTTAAATATCCTTAGATTTAACTTATGT
*
5073565 TTGATATAAATTTTAAATATTCCTTAGATTT-ACTTAT-T
1 TT--T-TAGATTTTAAATA-TCCTTAGATTTAACTTATGT
5073603 TTTTAGATTTTAAAT
1 TTTTAGATTTTAAAT
5073618 TTTTGGTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
35 13 0.30
36 1 0.02
37 1 0.02
38 9 0.20
39 9 0.20
40 11 0.25
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.55
Consensus pattern (36 bp):
TTTTAGATTTTAAATATCCTTAGATTTAACTTATGT
Found at i:5079232 original size:18 final size:18
Alignment explanation
Indices: 5079209--5079253 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
5079199 CTCAAGGGAT
5079209 TTACAAGAT-TTCCTAAGA
1 TTACAAGATCTT-CTAAGA
*
5079227 TTACAAAATCTTCTAAGA
1 TTACAAGATCTTCTAAGA
5079245 TTACAAGAT
1 TTACAAGAT
5079254 ATTGGTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 22 0.92
19 2 0.08
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (18 bp):
TTACAAGATCTTCTAAGA
Found at i:5081734 original size:27 final size:27
Alignment explanation
Indices: 5081697--5081750 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
5081687 AAGGGTTGTA
5081697 AAACAAGAGCCCCCAACAGAGTAGGCT
1 AAACAAGAGCCCCCAACAGAGTAGGCT
5081724 AAACAAGAGCCCCCAACAGAGTAGGCT
1 AAACAAGAGCCCCCAACAGAGTAGGCT
5081751 TGGTTTTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.30, G:0.22, T:0.07
Consensus pattern (27 bp):
AAACAAGAGCCCCCAACAGAGTAGGCT
Found at i:5082115 original size:49 final size:48
Alignment explanation
Indices: 5082012--5082116 Score: 122
Period size: 49 Copynumber: 2.2 Consensus size: 48
5082002 TGCCACACGG
* * ** *
5082012 CCGTGTGGTAGGCTGTGTGTGGCACATGGCCGTGTGAAACTCTGTAGA
1 CCGTGTGGTAGGCTATGTGTGGCACATGACCGTGTGAAACTCTACAAA
* *
5082060 CTGTGTGGCTAGGCTATGTGTGGCACATGACTGTGTGAAACT-TCACAAA
1 CCGTGTGG-TAGGCTATGTGTGGCACATGACCGTGTGAAACTCT-ACAAA
5082109 CCGTGTGG
1 CCGTGTGG
5082117 GTAGATAGTG
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
48 8 0.17
49 39 0.83
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (48 bp):
CCGTGTGGTAGGCTATGTGTGGCACATGACCGTGTGAAACTCTACAAA
Found at i:5085421 original size:49 final size:49
Alignment explanation
Indices: 5085292--5085427 Score: 148
Period size: 49 Copynumber: 2.8 Consensus size: 49
5085282 TATAATGATT
* ** * *
5085292 TAAAA-CCATCATTGTCTGGCCAATCAAGATGATAGAATATGCAAAGAG
1 TAAAAGCCATCATTGTCGGGCCACCCGAGATGGTAGAATATGCAAAGAG
* ** *
5085340 TAAAAGCCGTCATTGTCGGGCCACTTGAGATGGTAGAATATGCAAATAG
1 TAAAAGCCATCATTGTCGGGCCACCCGAGATGGTAGAATATGCAAAGAG
* * * *
5085389 TGAAAGTCATCATTGTTGGGCCACCCGGGATGGTAGAAT
1 TAAAAGCCATCATTGTCGGGCCACCCGAGATGGTAGAAT
5085428 GTACAAGTTC
Statistics
Matches: 73, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
48 5 0.07
49 68 0.93
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (49 bp):
TAAAAGCCATCATTGTCGGGCCACCCGAGATGGTAGAATATGCAAAGAG
Found at i:5086520 original size:19 final size:18
Alignment explanation
Indices: 5086473--5086526 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 18
5086463 ATACTAAAAA
5086473 TAAACTTTAATTAATTATAAT
1 TAAA-TTTAATTAA-T-TAAT
5086494 TAAA-TTAATTAATTAAT
1 TAAATTTAATTAATTAAT
*
5086511 TAATATTTAACTAATT
1 TAA-ATTTAATTAATT
5086527 TTAACCTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
17 7 0.23
18 2 0.07
19 17 0.57
21 4 0.13
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATTTAATTAATTAAT
Found at i:5086525 original size:23 final size:23
Alignment explanation
Indices: 5086479--5086526 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
5086469 AAAATAAACT
*
5086479 TTAATTAATTATAATTAAATTAA
1 TTAATTAATTATAATTAAACTAA
*
5086502 TTAATTAATTA-ATATTTAACTAA
1 TTAATTAATTATA-ATTAAACTAA
5086525 TT
1 TT
5086527 TTAACCTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TTAATTAATTATAATTAAACTAA
Found at i:5086851 original size:19 final size:20
Alignment explanation
Indices: 5086827--5086866 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
5086817 AGATTAAACT
5086827 TTAATTAATT-ATAATTAAC
1 TTAATTAATTAATAATTAAC
5086846 TTAATTAATTAATAATTAAC
1 TTAATTAATTAATAATTAAC
5086866 T
1 T
5086867 AATGTTAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAATTAATTAATAATTAAC
Found at i:5087818 original size:49 final size:49
Alignment explanation
Indices: 5087694--5087834 Score: 149
Period size: 49 Copynumber: 2.9 Consensus size: 49
5087684 ATAATGATTC
* * ** * *
5087694 AAAA-CCATCATTGTTAGGCCACTCAAGATGATAGAATATGCAAATAGT
1 AAAAGCCATCATCGTTGGGCCACTCGGGATGGTAGAATATACAAATAGT
* *
5087742 CAAAGCCATCATCGTTGTGCCACTCGGGATGGTAGAATATACAAATAGT
1 AAAAGCCATCATCGTTGGGCCACTCGGGATGGTAGAATATACAAATAGT
* * * * * *
5087791 AAAAGTCATCATTGTTGGGTCATTCGGGATGGTTGAATGTACAA
1 AAAAGCCATCATCGTTGGGCCACTCGGGATGGTAGAATATACAA
5087835 GTTCTACATG
Statistics
Matches: 76, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
48 3 0.04
49 73 0.96
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (49 bp):
AAAAGCCATCATCGTTGGGCCACTCGGGATGGTAGAATATACAAATAGT
Found at i:5088985 original size:4 final size:4
Alignment explanation
Indices: 5088976--5089030 Score: 101
Period size: 4 Copynumber: 13.8 Consensus size: 4
5088966 ATTTCATTTA
*
5088976 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATA TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5089024 TATG TAT
1 TATG TAT
5089031 ATTTGATTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (4 bp):
TATG
Done.