Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 150 of 185
Found at i:45434010 original size:33 final size:32
Alignment explanation
Indices: 45433938--45434014 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
45433928 TAGATACATG
** * * **
45433938 TGTAAGACCATAGTTGGGTTATGGCATTCTGA
1 TGTAAGACCATAACTGGGTTATGACATACAAA
45433970 TGATAAGACCATAACTGGGTTATGACACTACAAA
1 TG-TAAGACCATAACTGGGTTATGACA-TACAAA
45434004 TGTAAGACCAT
1 TGTAAGACCAT
45434015 GGCAGGGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
32 2 0.05
33 30 0.81
34 5 0.14
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (32 bp):
TGTAAGACCATAACTGGGTTATGACATACAAA
Found at i:45447875 original size:24 final size:25
Alignment explanation
Indices: 45447831--45447879 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
45447821 TTCGTTTATC
*
45447831 TTTTTCTCAGATTTTTAAATCTAAAA
1 TTTTTCTCAAATTTTTAAATC-AAAA
45447857 TTTTT-TCAAATTTTT-AATCAAAA
1 TTTTTCTCAAATTTTTAAATCAAAA
45447880 GCTTCTCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 4 0.18
24 4 0.18
25 9 0.41
26 5 0.23
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (25 bp):
TTTTTCTCAAATTTTTAAATCAAAA
Found at i:45453633 original size:36 final size:36
Alignment explanation
Indices: 45453592--45453782 Score: 229
Period size: 36 Copynumber: 5.0 Consensus size: 36
45453582 GGTAGCTTTA
45453592 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
45453628 GCTACACTTATCTGATCAAGTGACAAAGTGATGAGTGATAGCTTT
1 GCTACACTTATCTGATCAAGTGA-AAA-AG-TGA-T-A-AG---T
* *
45453673 AGCTACACTTATCTGATAAAGTGAAAAACTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
45453710 GTTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
45453746 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
45453782 G
1 G
45453783 GTAGCTTAAC
Statistics
Matches: 135, Mismatches: 10, Indels: 20
0.82 0.06 0.12
Matches are distributed among these distances:
36 90 0.67
37 4 0.03
38 1 0.01
39 3 0.02
40 3 0.02
41 2 0.01
42 3 0.02
43 3 0.02
45 4 0.03
46 22 0.16
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:45453695 original size:82 final size:82
Alignment explanation
Indices: 45453556--45453746 Score: 310
Period size: 82 Copynumber: 2.3 Consensus size: 82
45453546 TTTGAGTACT
* * * *
45453556 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATAAAGTGAAAAACT
45453621 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
*
45453638 TCTGATCAAGTGACAAAGTGATGAGTGATAGCTTTAGCTACACTTATCTGATAAAGTGAAAAACT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATAAAGTGAAAAACT
* *
45453703 GATAAGTGTTATACTTA
66 GATAAGTGCTACACTTA
*
45453720 TCTGATCAAGTGAAAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
45453747 CTATACTTAT
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 100 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATAAAGTGAAAAACT
GATAAGTGCTACACTTA
Found at i:45457306 original size:28 final size:28
Alignment explanation
Indices: 45457258--45457312 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
45457248 TAATTCTCTT
* ** *
45457258 TCACCTAACTTTTTACTTTTAGGTGTTA
1 TCACCCAACTTTTTAAGTTTAGCTGTTA
45457286 TCACCCAACTTTTTAAGTTTAGCTGTT
1 TCACCCAACTTTTTAAGTTTAGCTGTT
45457313 GGAAATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (28 bp):
TCACCCAACTTTTTAAGTTTAGCTGTTA
Found at i:45457689 original size:15 final size:16
Alignment explanation
Indices: 45457669--45457702 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
45457659 ACTAAAGTTC
45457669 AACTTTAAATTTAT-A
1 AACTTTAAATTTATCA
45457684 AACTTTAAATTTATCA
1 AACTTTAAATTTATCA
45457700 AAC
1 AAC
45457703 GCTTCATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (16 bp):
AACTTTAAATTTATCA
Found at i:45466115 original size:11 final size:11
Alignment explanation
Indices: 45466099--45466123 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
45466089 CCTATTTTCA
45466099 TTTTTTAAAAT
1 TTTTTTAAAAT
45466110 TTTTTTAAAAT
1 TTTTTTAAAAT
45466121 TTT
1 TTT
45466124 CTGTTTTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTTTAAAAT
Found at i:45471334 original size:70 final size:70
Alignment explanation
Indices: 45471247--45471523 Score: 324
Period size: 70 Copynumber: 3.8 Consensus size: 70
45471237 TGTTCATGTT
* *
45471247 ATTTTGATGTAAAAATGTTGCTCAATTTGGTATATATATGCTGCCTAAATTGTTGTATATATGCT
1 ATTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGCTGCCCAAATTGTTGTATATATGCT
45471312 GTCCA
66 GTCCA
* * * *
45471317 ATTTTGATGTAAAAATGTTGTTCAATTTGGTATATATATGCTGCCCAATTTGTTGCATATATGCT
1 ATTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGCTGCCCAAATTGTTGTATATATGCT
45471382 GTCCA
66 GTCCA
* *
45471387 ATTTTTGGTGTAAATGTAAAAATGCTGCTCAATTTTGTTGTATATATGCTGCCCAAATTGTTGTA
1 A--TTT--TG---ATGTAAAAATGCTGCTCAA-TTTGGTATATATATGCTGCCCAAATTGTTGTA
45471452 TATATGCTGTCCAA
58 TATATGCTGTCC-A
* * * * * *
45471466 ATTTTGGTGTGAAAATGCTG-TCTAGTTTGGTAT-TAAATGCTGTCCAAATTGATGTATA
1 ATTTTGATGTAAAAATGCTGCTC-AATTTGGTATATATATGCTGCCCAAATTGTTGTATA
45471524 AGGGCTGTCC
Statistics
Matches: 179, Mismatches: 18, Indels: 20
0.82 0.08 0.09
Matches are distributed among these distances:
70 89 0.50
71 8 0.04
72 16 0.09
74 2 0.01
75 2 0.01
77 20 0.11
78 40 0.22
79 2 0.01
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (70 bp):
ATTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGCTGCCCAAATTGTTGTATATATGCT
GTCCA
Found at i:45471365 original size:23 final size:23
Alignment explanation
Indices: 45471269--45471523 Score: 131
Period size: 23 Copynumber: 10.6 Consensus size: 23
45471259 AAATGTTGCT
*
45471269 CAATTTGGTATATATATGCTG-C
1 CAATTTGGTGTATATATGCTGTC
* *
45471291 CTAAATTGTTGTATATATGCTGTC
1 C-AATTTGGTGTATATATGCTGTC
* * * * *
45471315 CAATTTTGATGTAAAAATGTTGTT
1 CAA-TTTGGTGTATATATGCTGTC
* *
45471339 CAATTTGGTATATATATGCTGCC
1 CAATTTGGTGTATATATGCTGTC
* *
45471362 CAATTTGTTGCATATATGCTGTC
1 CAATTTGGTGTATATATGCTGTC
*
45471385 CAATTTTTGGTGTAAATGTAAAAATGCTG-C
1 CAA--TTTGGTGT--A--T--ATATGCTGTC
* *
45471415 TCAATTTTGTTGTATATATGCTGCC
1 -CAA-TTTGGTGTATATATGCTGTC
* *
45471440 CAAATTGTTGTATATATGCTGTC
1 CAATTTGGTGTATATATGCTGTC
*
45471463 CAAATTTTGGTGTGA-AAATGCTGTC
1 C-AA-TTTGGTGT-ATATATGCTGTC
* * * *
45471488 TAGTTTGGTAT-TAAATGCTGTC
1 CAATTTGGTGTATATATGCTGTC
* *
45471510 CAAATTGATGTATA
1 CAATTTGGTGTATA
45471524 AGGGCTGTCC
Statistics
Matches: 177, Mismatches: 38, Indels: 35
0.71 0.15 0.14
Matches are distributed among these distances:
22 17 0.10
23 82 0.46
24 32 0.18
25 22 0.12
26 2 0.01
27 1 0.01
28 1 0.01
29 1 0.01
30 9 0.05
31 10 0.06
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.42
Consensus pattern (23 bp):
CAATTTGGTGTATATATGCTGTC
Found at i:45471531 original size:148 final size:147
Alignment explanation
Indices: 45471253--45471535 Score: 383
Period size: 148 Copynumber: 1.9 Consensus size: 147
45471243 TGTTATTTTG
* *
45471253 ATGTAAAAATGTTGCTCAATTTGGTATATATATGCTGCCTAAATTGTTGTATATATGCTGTCCAA
1 ATGTAAAAATGCTGCTCAATTTGGTATATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAA
* * * * *
45471318 TTTTGATGTAAAAATGTTGTTCAATTTGGTATATATATGCTGCCCAATTTGTTGCATATATGCTG
66 TTTTGATGTAAAAATGCTGTTCAATTTGGTATATAAATGCTGCCCAAATTGATGCATATAGGCTG
45471383 TCCAATTTTTGGTGTAA
131 TCCAATTTTTGGTGTAA
* *
45471400 ATGTAAAAATGCTGCTCAATTTTGTTGTATATATGCTGCCCAAATTGTTGTATATATGCTGTCCA
1 ATGTAAAAATGCTGCTCAA-TTTGGTATATATATGCTGCCCAAATTGTTGTATATATGCTGTCC-
* * * * *
45471465 AATTTTGGTGTGAAAATGCTG-TCTAGTTTGGTAT-TAAATGCTGTCCAAATTGATGTATA-AGG
64 AATTTTGATGTAAAAATGCTGTTC-AATTTGGTATATAAATGCTGCCCAAATTGATGCATATA-G
45471527 GCTGTCCAA
127 GCTGTCCAA
45471536 ACAGGGTAGA
Statistics
Matches: 118, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
147 19 0.16
148 72 0.61
149 27 0.23
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (147 bp):
ATGTAAAAATGCTGCTCAATTTGGTATATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAA
TTTTGATGTAAAAATGCTGTTCAATTTGGTATATAAATGCTGCCCAAATTGATGCATATAGGCTG
TCCAATTTTTGGTGTAA
Found at i:45471979 original size:30 final size:30
Alignment explanation
Indices: 45471945--45472040 Score: 79
Period size: 30 Copynumber: 3.0 Consensus size: 30
45471935 ATTTTTTTTC
45471945 TTATATCAATATTCTTTTTAATTTTTAATT
1 TTATATCAATATTCTTTTTAATTTTTAATT
* *
45471975 TTATATCACATTTGATTTTTTTTAATTTTTAAATAA
1 TTATATCA-A--T-ATTCTTTTTAATTTTT-AAT-T
* *
45472011 TTGT-T-AATAATCTTTTATAATTTTTAATT
1 TTATATCAATATTCTTTT-TAATTTTTAATT
45472040 T
1 T
45472041 GTTTACCATT
Statistics
Matches: 53, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
29 1 0.02
30 17 0.32
31 10 0.19
33 2 0.04
34 16 0.30
35 4 0.08
36 3 0.06
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.61
Consensus pattern (30 bp):
TTATATCAATATTCTTTTTAATTTTTAATT
Found at i:45480885 original size:9 final size:10
Alignment explanation
Indices: 45480868--45480919 Score: 58
Period size: 9 Copynumber: 5.5 Consensus size: 10
45480858 TTTGGTTAAA
45480868 AATTACCCGG
1 AATTACCCGG
45480878 AA-TACCC-G
1 AATTACCCGG
*
45480886 AATTACCCGAA
1 AATTACCCG-G
45480897 AATTACCC-G
1 AATTACCCGG
45480906 AATTACCC-G
1 AATTACCCGG
45480915 AATTA
1 AATTA
45480920 AATCACTACA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
8 3 0.08
9 24 0.65
10 2 0.05
11 8 0.22
ACGTcount: A:0.38, C:0.29, G:0.12, T:0.21
Consensus pattern (10 bp):
AATTACCCGG
Found at i:45480905 original size:20 final size:19
Alignment explanation
Indices: 45480868--45480916 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 19
45480858 TTTGGTTAAA
*
45480868 AATTACCCG-GAATACCCG
1 AATTACCCGAAAATACCCG
45480886 AATTACCCGAAAATTACCCG
1 AATTACCCGAAAA-TACCCG
45480906 AATTACCCGAA
1 AATTACCCGAA
45480917 TTAAATCACT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 9 0.32
19 2 0.07
20 17 0.61
ACGTcount: A:0.39, C:0.31, G:0.12, T:0.18
Consensus pattern (19 bp):
AATTACCCGAAAATACCCG
Found at i:45480948 original size:17 final size:17
Alignment explanation
Indices: 45480926--45481023 Score: 70
Period size: 17 Copynumber: 5.4 Consensus size: 17
45480916 ATTAAATCAC
45480926 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
** *
45480943 TACATAAATCTTTAAATCAC
1 TACAT-AAT-TAAAAAT-AT
45480963 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
*** *
45480980 TACATAAGTCTTTGAATCAC
1 TACATAA-T-TAAAAAT-AT
*
45481000 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
45481017 TACATAA
1 TACATAA
45481024 GTCTTGAATT
Statistics
Matches: 60, Mismatches: 15, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
17 21 0.35
18 12 0.20
19 13 0.22
20 14 0.23
ACGTcount: A:0.51, C:0.13, G:0.02, T:0.34
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:45480963 original size:37 final size:37
Alignment explanation
Indices: 45480917--45481048 Score: 203
Period size: 37 Copynumber: 3.6 Consensus size: 37
45480907 ATTACCCGAA
*
45480917 TTAAATCACTACATAATTAAAAATATTACATAAATCT
1 TTAAATCACTACATAATTAAAAATATTACATAAGTCT
45480954 TTAAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTAAATCACTACATAATTAAAAATATTACATAAGTCT
* *
45480991 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTAAATCACTACATAATTAAAAATATTACATAAGTCT
* * *
45481028 TGAATTAAC-ACATAATTAAAA
1 TTAAATCACTACATAATTAAAA
45481049 TATAAGTCTT
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
36 12 0.14
37 76 0.86
ACGTcount: A:0.50, C:0.14, G:0.03, T:0.33
Consensus pattern (37 bp):
TTAAATCACTACATAATTAAAAATATTACATAAGTCT
Found at i:45480968 original size:20 final size:19
Alignment explanation
Indices: 45480917--45481006 Score: 62
Period size: 18 Copynumber: 4.8 Consensus size: 19
45480907 ATTACCCGAA
45480917 TTAAATCACTACAT-AATT
1 TTAAATCACTACATAAATT
** *
45480935 AAAAAT-ATTACATAAATCT
1 TTAAATCACTACATAAAT-T
45480954 TTAAATCACTACAT-AATT
1 TTAAATCACTACATAAATT
** * *
45480972 AAAAAT-ATTACATAAGTCT
1 TTAAATCACTACATAAAT-T
*
45480991 TTGAATCACTACATAA
1 TTAAATCACTACATAA
45481007 TTAAAAACAT
Statistics
Matches: 52, Mismatches: 14, Indels: 10
0.68 0.18 0.13
Matches are distributed among these distances:
17 12 0.23
18 14 0.27
19 12 0.23
20 14 0.27
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.34
Consensus pattern (19 bp):
TTAAATCACTACATAAATT
Found at i:45483368 original size:20 final size:20
Alignment explanation
Indices: 45483343--45483384 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
45483333 TTCTGCAAGA
45483343 AAAAAAGTATATAATAAATT
1 AAAAAAGTATATAATAAATT
45483363 AAAAAAGTATATAATAAATT
1 AAAAAAGTATATAATAAATT
45483383 AA
1 AA
45483385 TTAGCCTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAAAAGTATATAATAAATT
Found at i:45484931 original size:19 final size:19
Alignment explanation
Indices: 45484907--45484947 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
45484897 TAAGTGTGTG
45484907 AGTGAAAATTGAAAGTGAA
1 AGTGAAAATTGAAAGTGAA
45484926 AGTGAAAATTGAAAGTGAA
1 AGTGAAAATTGAAAGTGAA
45484945 AGT
1 AGT
45484948 AGGGAGGGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.27, T:0.22
Consensus pattern (19 bp):
AGTGAAAATTGAAAGTGAA
Found at i:45486169 original size:49 final size:50
Alignment explanation
Indices: 45486090--45486305 Score: 181
Period size: 50 Copynumber: 4.3 Consensus size: 50
45486080 CATGTAACGG
* ** * * *
45486090 GAAGCTCATGTGAGCTGTATAACGGAAAGCTCTTGCGAGCTAATTATCGA
1 GAAGCTCATGAGAGCCATATAACGGAAAGCTCATGCGAGCAAAATATCGA
* *
45486140 GAAGCTTAT-ACGAGCCATA-AACGGAAAGCTCATGCGAGCAAAATATCGG
1 GAAGCTCATGA-GAGCCATATAACGGAAAGCTCATGCGAGCAAAATATCGA
* * * * *
45486189 GAAGCTCGTGAGAGCCATATAACGGGAAGCTCAAGAGAGTCATTAAT-T-GA
1 GAAGCTCATGAGAGCCATATAACGGAAAGCTCATGCGAG-CA-AAATATCGA
* * * * * *
45486239 GAAGCTCATGAGAGCTAAATAACAGAAAGCTCATGAGAGTC-AAGTATCGG
1 GAAGCTCATGAGAGCCATATAACGGAAAGCTCATGCGAG-CAAAATATCGA
*
45486289 GAAGCTCGTGAGAGCCA
1 GAAGCTCATGAGAGCCA
45486306 AATATCAGCA
Statistics
Matches: 133, Mismatches: 26, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
48 2 0.02
49 42 0.32
50 83 0.62
51 3 0.02
52 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (50 bp):
GAAGCTCATGAGAGCCATATAACGGAAAGCTCATGCGAGCAAAATATCGA
Found at i:45486311 original size:25 final size:25
Alignment explanation
Indices: 45486087--45486311 Score: 127
Period size: 25 Copynumber: 9.0 Consensus size: 25
45486077 AGCCATGTAA
* *** *
45486087 CGGGAAGCTCATGTGAGCTGTATAA
1 CGGGAAGCTCATGAGAGCCAAATAT
* * * * *
45486112 CGGAAAGCTCTTGCGAGCTAATTAT
1 CGGGAAGCTCATGAGAGCCAAATAT
* *
45486137 CGAGAAGCTTAT-ACGAGCCATAA-A-
1 CGGGAAGCTCATGA-GAGCCA-AATAT
* * *
45486161 CGGAAAGCTCATGCGAGCAAAATAT
1 CGGGAAGCTCATGAGAGCCAAATAT
* * *
45486186 CGGGAAGCTCGTGAGAGCCATATAA
1 CGGGAAGCTCATGAGAGCCAAATAT
* *
45486211 CGGGAAGCTCAAGAGAGTCATTAAT-T
1 CGGGAAGCTCATGAGAGCCA--AATAT
* * *
45486237 -GAGAAGCTCATGAGAGCTAAATAA
1 CGGGAAGCTCATGAGAGCCAAATAT
* * * *
45486261 CAGAAAGCTCATGAGAGTCAAGTAT
1 CGGGAAGCTCATGAGAGCCAAATAT
*
45486286 CGGGAAGCTCGTGAGAGCCAAATAT
1 CGGGAAGCTCATGAGAGCCAAATAT
45486311 C
1 C
45486312 AGCACGCTCA
Statistics
Matches: 144, Mismatches: 47, Indels: 18
0.69 0.22 0.09
Matches are distributed among these distances:
23 5 0.03
24 15 0.10
25 121 0.84
26 1 0.01
27 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.20
Consensus pattern (25 bp):
CGGGAAGCTCATGAGAGCCAAATAT
Found at i:45486320 original size:25 final size:25
Alignment explanation
Indices: 45486163--45486328 Score: 102
Period size: 25 Copynumber: 6.6 Consensus size: 25
45486153 GCCATAAACG
* * *
45486163 GAAAGCTCATGCGAGCAAAATATCG
1 GAAAGCTCATGAGAGCCAAATATCA
* * * * *
45486188 GGAAGCTCGTGAGAGCCATATAACG
1 GAAAGCTCATGAGAGCCAAATATCA
* * * *
45486213 GGAAGCTCAAGAGAGTCATTAAT-TGA
1 GAAAGCTCATGAGAGCCA--AATATCA
* *
45486239 G-AAGCTCATGAGAGCTAAATAACA
1 GAAAGCTCATGAGAGCCAAATATCA
* * *
45486263 GAAAGCTCATGAGAGTCAAGTATCG
1 GAAAGCTCATGAGAGCCAAATATCA
* *
45486288 GGAAGCTCGTGAGAGCCAAATATCA
1 GAAAGCTCATGAGAGCCAAATATCA
* * *
45486313 GCACGCTCATAAGAGC
1 GAAAGCTCATGAGAGC
45486329 TGTTGTGTGT
Statistics
Matches: 105, Mismatches: 32, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
23 3 0.03
24 2 0.02
25 97 0.92
26 1 0.01
27 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.27, T:0.17
Consensus pattern (25 bp):
GAAAGCTCATGAGAGCCAAATATCA
Found at i:45486321 original size:50 final size:49
Alignment explanation
Indices: 45486183--45486327 Score: 155
Period size: 50 Copynumber: 2.9 Consensus size: 49
45486173 GCGAGCAAAA
* * * * *
45486183 TATCGGGAAGCTCGTGAGAGCCATATAACGGGAAGCTCAAGAGAGTCAT
1 TATCGGGAAGCTCGTGAGAGCCAAATAACAGAAAGCTCATGAGAGTCAG
* * * *
45486232 TAATTGAGAAGCTCATGAGAGCTAAATAACAGAAAGCTCATGAGAGTCAAG
1 T-ATCGGGAAGCTCGTGAGAGCCAAATAACAGAAAGCTCATGAGAGTC-AG
* * * *
45486283 TATCGGGAAGCTCGTGAGAGCCAAATATCAGCACGCTCATAAGAG
1 TATCGGGAAGCTCGTGAGAGCCAAATAACAGAAAGCTCATGAGAG
45486328 CTGTTGTGTG
Statistics
Matches: 77, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
49 1 0.01
50 74 0.96
51 2 0.03
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.19
Consensus pattern (49 bp):
TATCGGGAAGCTCGTGAGAGCCAAATAACAGAAAGCTCATGAGAGTCAG
Found at i:45492758 original size:18 final size:17
Alignment explanation
Indices: 45492730--45492764 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45492720 ATTATTAAGA
*
45492730 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
45492747 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
45492765 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:45492914 original size:18 final size:17
Alignment explanation
Indices: 45492886--45492920 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45492876 AATTATAAGA
*
45492886 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
45492903 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
45492921 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:45492920 original size:16 final size:16
Alignment explanation
Indices: 45492886--45492943 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 16
45492876 AATTATAAGA
45492886 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
45492903 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
45492919 A-TTTAA-TAATAAT-T
1 ATTTTAATTAA-AATAT
45492933 ATGTTTAATTA
1 AT-TTTAATTA
45492944 TGATTAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 5 0.14
15 8 0.22
16 10 0.28
17 7 0.19
18 6 0.17
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:45493013 original size:156 final size:157
Alignment explanation
Indices: 45492718--45493033 Score: 571
Period size: 156 Copynumber: 2.0 Consensus size: 157
45492708 ATAAGAATAT
45492718 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
45492783 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
45492848 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
45492875 TAATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
45492939 AATTATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
45493004 TAATTATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
45493031 TAA
1 TAA
45493034 GGGTATTCTA
Statistics
Matches: 153, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
156 147 0.96
157 6 0.04
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:45499039 original size:20 final size:21
Alignment explanation
Indices: 45499014--45499059 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
45499004 AGAGTTCGAG
* *
45499014 GTTCAAGATTTGA-ATTTAAA
1 GTTCAAGATTCGAGATCTAAA
*
45499034 GTTCAAGGTTCGAGATCTAAA
1 GTTCAAGATTCGAGATCTAAA
45499055 GTTCA
1 GTTCA
45499060 GGGGTTAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (21 bp):
GTTCAAGATTCGAGATCTAAA
Found at i:45499903 original size:21 final size:21
Alignment explanation
Indices: 45499860--45499905 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
45499850 GATGAAGGAT
* *
45499860 GAAAACATGAAGCAAAGCGAC
1 GAAAACACGAAGCAAAGCAAC
*
45499881 GAAAACACGAAGCAAAGTAAC
1 GAAAACACGAAGCAAAGCAAC
45499902 GAAA
1 GAAA
45499906 TCCCCCCCCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.57, C:0.17, G:0.22, T:0.04
Consensus pattern (21 bp):
GAAAACACGAAGCAAAGCAAC
Found at i:45502839 original size:6 final size:6
Alignment explanation
Indices: 45502828--45502862 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
45502818 TCATTATTGT
45502828 AAATAA AAATAA AAATAA AAATAA AAATAA AAATA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATA
45502863 TATTAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:45503604 original size:114 final size:113
Alignment explanation
Indices: 45503284--45503837 Score: 910
Period size: 114 Copynumber: 4.9 Consensus size: 113
45503274 CAATAAGCAA
* * *
45503284 TAGCGGCGTTTTTTAAAAAGCGCCGCAAAAAACCTAATCCAAAACAACGCAGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
45503349 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
66 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
*
45503397 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
*
45503462 GTGGATTTAGCGGCATTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
66 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
*
45503510 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAATCCAAAACGATGCAGTTTTGTGAGCTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTT
*
45503575 TGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTT
65 TGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
* * **
45503624 TAGCGGCGTTTTTAAGATAGCGCCGCAAAAAACCTAATGTAAAACGACGCAGTTTTTGTGAGCTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAG-TTTTGTGAGCTT
* *
45503689 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
65 T-GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
* *
45503739 TAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
* * *
45503804 CGGGGATTTAGCGGCGTTTTTTAGAAAGCGCCGC
66 -GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGC
45503838 AAAAAACCTA
Statistics
Matches: 414, Mismatches: 24, Indels: 5
0.93 0.05 0.01
Matches are distributed among these distances:
113 157 0.38
114 166 0.40
115 91 0.22
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (113 bp):
TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
Found at i:45503678 original size:227 final size:228
Alignment explanation
Indices: 45503284--45503837 Score: 914
Period size: 227 Copynumber: 2.4 Consensus size: 228
45503274 CAATAAGCAA
* * *
45503284 TAGCGGCGTTTTTTAAAAAGCGCCGCAAAAAACCTAATCCAAAACAACGCAGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
* *
45503349 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGA
66 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTTTTAAGA
*
45503414 AAGCGCCGCAAAAAACATAATCCAAAACGACGCAG-TTTTGTGAGCTTT-GTGGATTTAGCGGCA
131 AAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTTGTGAGCTTTCGGGGATTTAGCGGCA
*
45503477 TTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
196 TTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
*
45503510 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAATCCAAAACGATGCAGTTTTGTGAGCTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTT
45503575 TGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTTTTAAG
65 TGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTTTTAAG
* * **
45503640 ATAGCGCCGCAAAAAACCTAATGTAAAACGACGCAGTTTTTGTGAGCTTTCGGGGATTTAGCGGC
130 AAAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTTGTGAGCTTTCGGGGATTTAGCGGC
*
45503705 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
195 ATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
* *
45503739 TAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
* * *
45503804 CGGGGATTTAGCGGCGTTTTTTAGAAAGCGCCGC
66 -GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGC
45503838 AAAAAACCTA
Statistics
Matches: 305, Mismatches: 19, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
226 24 0.08
227 131 0.43
228 50 0.16
229 100 0.33
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (228 bp):
TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTTTTAAGA
AAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTTGTGAGCTTTCGGGGATTTAGCGGCA
TTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
Found at i:45503822 original size:73 final size:73
Alignment explanation
Indices: 45503737--45503895 Score: 237
Period size: 73 Copynumber: 2.2 Consensus size: 73
45503727 TGCTCAGGGC
* * *
45503737 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
45503802 TTCGGGGA
66 TTCGGGGA
* * * * *
45503810 TTTAGCGGCGTTTTTTAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACACCTTTTTTTGCGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
45503875 TTCGGGGA
66 TTCGGGGA
*
45503883 TTTAGCGGTGTTT
1 TTTAGCGGCGTTT
45503896 AATTGATTTA
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
TTCGGGGA
Found at i:45504280 original size:17 final size:17
Alignment explanation
Indices: 45504249--45504292 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
45504239 TAGGGAGTAT
45504249 TTATGGATT--TAGGGA
1 TTATGGATTAATAGGGA
45504264 TTATGGATTAATAGGGA
1 TTATGGATTAATAGGGA
*
45504281 TTATGGTTTAAT
1 TTATGGATTAAT
45504293 TAAGGGTTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 9 0.35
17 17 0.65
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (17 bp):
TTATGGATTAATAGGGA
Found at i:45504603 original size:14 final size:15
Alignment explanation
Indices: 45504573--45504610 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
45504563 CTACTATATA
45504573 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
*
45504588 TATGGA-TTAGGTAT
1 TATGGATTTAGGGAT
45504602 TATGG-TTTA
1 TATGGATTTA
45504611 ATTAAGGGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:45504685 original size:14 final size:14
Alignment explanation
Indices: 45504640--45504688 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
45504630 GATTTAAGGT
45504640 TTAGGGGTTAAGAG
1 TTAGGGGTTAAGAG
45504654 TTTAGGGGTT-AGACG
1 -TTAGGGGTTAAGA-G
*
45504669 TTAGTGGTTAAGAG
1 TTAGGGGTTAAGAG
45504683 TTAGGG
1 TTAGGG
45504689 ATTTAGGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 17 0.57
15 13 0.43
ACGTcount: A:0.24, C:0.02, G:0.41, T:0.33
Consensus pattern (14 bp):
TTAGGGGTTAAGAG
Found at i:45504701 original size:29 final size:30
Alignment explanation
Indices: 45504630--45504701 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 30
45504620 CGTTGGTCGA
*
45504630 GATTTAAGGTTTAGGGGTTAAGAGTTTAGG
1 GATTTAGGGTTTAGGGGTTAAGAGTTTAGG
* * *
45504660 G-GTTAGACG-TTAGTGGTTAAGAG-TTAGG
1 GATTTAG-GGTTTAGGGGTTAAGAGTTTAGG
45504688 GATTTAGGGTTTAG
1 GATTTAGGGTTTAG
45504702 AGTTTTAGGG
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
28 7 0.21
29 24 0.73
30 2 0.06
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (30 bp):
GATTTAGGGTTTAGGGGTTAAGAGTTTAGG
Found at i:45505172 original size:47 final size:46
Alignment explanation
Indices: 45505107--45505207 Score: 157
Period size: 47 Copynumber: 2.2 Consensus size: 46
45505097 AATAATGAAA
* *
45505107 TAAAAACACTAAACTTTTAATTTTATCTAATTTTTATAAATATTACT
1 TAAAAA-ACTAAACTTTTAAATTTATCTAATTTTTATAAATATAACT
*
45505154 TAAAAAACTAAAATTTTTAAATTTATCTAATTTTTATAAATATAACT
1 TAAAAAACT-AAACTTTTAAATTTATCTAATTTTTATAAATATAACT
45505201 TAAAAAA
1 TAAAAAA
45505208 ACCTATGTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
46 3 0.06
47 47 0.94
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (46 bp):
TAAAAAACTAAACTTTTAAATTTATCTAATTTTTATAAATATAACT
Found at i:45508341 original size:14 final size:14
Alignment explanation
Indices: 45508322--45508351 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
45508312 ACATAAAGCA
45508322 ACTAACCTTTTCCC
1 ACTAACCTTTTCCC
45508336 ACTAACCTTTTCCC
1 ACTAACCTTTTCCC
45508350 AC
1 AC
45508352 ACCTAATCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.43, G:0.00, T:0.33
Consensus pattern (14 bp):
ACTAACCTTTTCCC
Found at i:45509536 original size:15 final size:15
Alignment explanation
Indices: 45509516--45509545 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45509506 GAGTTGAAAG
45509516 TGAAGAAGAAGATGA
1 TGAAGAAGAAGATGA
*
45509531 TGAAGATGAAGATGA
1 TGAAGAAGAAGATGA
45509546 AGATGATCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (15 bp):
TGAAGAAGAAGATGA
Found at i:45509803 original size:16 final size:16
Alignment explanation
Indices: 45509779--45509812 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45509769 TAATACTAAT
*
45509779 TAATTTTTTATATTAA
1 TAATGTTTTATATTAA
*
45509795 TAATGTTTTATTTTAA
1 TAATGTTTTATATTAA
45509811 TA
1 TA
45509813 TTTAATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TAATGTTTTATATTAA
Found at i:45510060 original size:43 final size:43
Alignment explanation
Indices: 45509884--45510063 Score: 191
Period size: 43 Copynumber: 4.2 Consensus size: 43
45509874 ATGGTGTTTT
* ** * * * *
45509884 TAGCGGCGTTTGTAATCAAAGCGTCGCTAAAGGTCTTTGATCTA
1 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATC-CTGAGCTA
* * * * *
45509928 TAGTGGCGTTTG-TGGTAAAAGCGTCGCTAAAGGTCTTGAGCTA
1 TAGCGGCGTTTGTTAG-AAAAGCGCCGCTAAAGATCCTGAGCTA
* **
45509971 TAGTGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCCAAGCTA
1 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCTGAGCTA
*
45510014 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCTGATCTA
1 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCTGAGCTA
45510057 TAGCGGC
1 TAGCGGC
45510064 TTTTATTTCT
Statistics
Matches: 118, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
43 87 0.74
44 31 0.26
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCTGAGCTA
Found at i:45513621 original size:21 final size:21
Alignment explanation
Indices: 45513595--45513634 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
45513585 TTTGGGTTGA
45513595 TCAGCTCTCAAGAGCTTCTGC
1 TCAGCTCTCAAGAGCTTCTGC
*
45513616 TCAGCTCTCACGAGCTTCT
1 TCAGCTCTCAAGAGCTTCT
45513635 ATTAGCGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.35, G:0.17, T:0.30
Consensus pattern (21 bp):
TCAGCTCTCAAGAGCTTCTGC
Found at i:45515399 original size:18 final size:18
Alignment explanation
Indices: 45515362--45515397 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45515352 TTAAAATCAT
*
45515362 ATAAAAGGATATAAATAA
1 ATAAAACGATATAAATAA
45515380 ATAAAACGATAT-AATAA
1 ATAAAACGATATAAATAA
45515397 A
1 A
45515398 ATGAATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (18 bp):
ATAAAACGATATAAATAA
Found at i:45516576 original size:16 final size:17
Alignment explanation
Indices: 45516538--45516577 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
45516528 TTATTTATTA
45516538 TTTATTTTTATTGTGGT
1 TTTATTTTTATTGTGGT
45516555 TTTATTTTT-TTG-GGT
1 TTTATTTTTATTGTGGT
45516570 TTCTATTT
1 TT-TATTT
45516578 GGGCCCGGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.23
16 8 0.36
17 9 0.41
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (17 bp):
TTTATTTTTATTGTGGT
Found at i:45516914 original size:45 final size:46
Alignment explanation
Indices: 45516842--45517464 Score: 324
Period size: 45 Copynumber: 13.8 Consensus size: 46
45516832 GGGTTTTAGT
* * * *
45516842 CTGCTCCACTGCAACATCAGGGAGATAATATTTGCTATA-TTCAGC
1 CTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATACTTCAAC
* ** * *
45516887 CTGCTCCGCTGTGACTTTAGGGCGATAAGACTTG-TA-ACTTCAAC
1 CTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATACTTCAAC
*
45516931 CTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGCTATGA--T----
1 CTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTAT-ACTTCAAC
* * * * * *
45516972 CTGCTCTACTGCAACTTCAGAGAGATAAAATAT-CTAATTTATGGCTTCAAT
1 CTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCT-A--TA---CTTCAAC
* * * * * **
45517023 CTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTAT-CTTCAGT
1 CTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATACTTCAAC
* * * *
45517068 CTGCTCCCCTGCAACTTCAGGGAGATAAGAATTGTGACTTTAAGCTTTAATC
1 CTGCTCCACTGCAACTTTAGGGAGATAAG-ATT-TG-CTAT-A-CTTCAA-C
* * * * * * *
45517120 C-GTTCCACTGCAACCTCAGGGAAATAAGATTCGC-GT-CTTCAAT
1 CTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATACTTCAAC
* * * * * * *
45517163 CTACTCCACTGCAGCTTCAGGGAGATAAGGTTT-ATA-ACTTTAAT
1 CTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATACTTCAAC
* * * * *
45517207 CTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTAT-CTTCGAT
1 CTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATACTTCAAC
* * * *
45517252 TTACTCCACTGCAACTTTAGGGAGATAAGA--T-CCATAACTTCAAT
1 CTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTAT-ACTTCAAC
* * * *
45517296 CTGTTCCACTGCAACTTTAGGGAAATAAGATTCGCTAT-CTTCAAT
1 CTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATACTTCAAC
* * * *
45517341 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTACTAT-CTTCAGTC
1 CTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATACTTCA-AC
* * * * ** * *
45517387 C-ACTCCACTGCAACTTTAGGTAGTTAAGACTTG-T-GGCTTTAAT
1 CTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATACTTCAAC
* *
45517430 CTGCTCCACTGCAACTTCAAGGAGATAAGATTTGC
1 CTGCTCCACTGCAACTTTAGGGAGATAAGATTTGC
45517465 AGTCTGTCCT
Statistics
Matches: 439, Mismatches: 101, Indels: 76
0.71 0.16 0.12
Matches are distributed among these distances:
40 2 0.00
41 28 0.06
42 4 0.01
43 5 0.01
44 161 0.37
45 163 0.37
46 4 0.01
47 7 0.02
48 4 0.01
49 2 0.00
50 3 0.01
51 53 0.12
52 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (46 bp):
CTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATACTTCAAC
Found at i:45517276 original size:89 final size:89
Alignment explanation
Indices: 45517112--45517370 Score: 349
Period size: 89 Copynumber: 2.9 Consensus size: 89
45517102 TGACTTTAAG
* * *
45517112 CTTTAATCCGTTCCACTGCAACCTCAGGGAAATAAGATTCGC-GTCTTCAATCTACTCCACTGCA
1 CTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTACTCCACTGCA
* * **
45517176 GCTTCAGGGAGATAAGGTTTATAA
66 ACTTCAGGGAGATAAGATCCATAA
* * * * * * *
45517200 CTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCGATTTACTCCACTGCA
1 CTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTACTCCACTGCA
*
45517265 ACTTTAGGGAGATAAGATCCATAA
66 ACTTCAGGGAGATAAGATCCATAA
* * *
45517289 CTTCAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCA
1 CTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTACTCCACTGCA
45517354 ACTTCAGGGAGATAAGA
66 ACTTCAGGGAGATAAGA
45517371 CTTACTATCT
Statistics
Matches: 144, Mismatches: 26, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
88 35 0.24
89 109 0.76
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (89 bp):
CTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTACTCCACTGCA
ACTTCAGGGAGATAAGATCCATAA
Found at i:45517431 original size:89 final size:89
Alignment explanation
Indices: 45517123--45517460 Score: 308
Period size: 89 Copynumber: 3.8 Consensus size: 89
45517113 TTTAATCCGT
* * * *
45517123 TCCACTGCAACCTCAGGGAAATAAGATTCGC--GTCTTCAATCTACTCCACTGCAGCTTCAGGGA
1 TCCACTGCAACTTTAGGGAAATAAGATTCGCTAG-CTTCAATCTGCTCCACTGCAACTTCAGGGA
* ** * **
45517186 GATAAGGTTTATAACTTTAATCTGC
65 GATAAGATACATAACTTCAATCCAC
* * * * * * * * * *
45517211 TCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCGATTTACTCCACTGCAACTTTAGGGAG
1 TCCACTGCAACTTTAGGGAAATAAGATTCGCTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* ***
45517276 ATAAGATCCATAACTTCAATCTGT
66 ATAAGATACATAACTTCAATCCAC
*
45517300 TCCACTGCAACTTTAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTTAGGGAAATAAGATTCGCTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* *
45517365 ATAAGACTTAC-TATCTTCAGTCCAC
66 ATAAGA--TACATAACTTCAATCCAC
* ** * * *
45517390 TCCACTGCAACTTTAGGTAGTTAAGACTT-G-TGGCTTTAATCTGCTCCACTGCAACTTCAAGGA
1 TCCACTGCAACTTTAGGGAAATAAGA-TTCGCTAGCTTCAATCTGCTCCACTGCAACTTCAGGGA
45517453 GATAAGAT
65 GATAAGAT
45517461 TTGCAGTCTG
Statistics
Matches: 208, Mismatches: 37, Indels: 11
0.81 0.14 0.04
Matches are distributed among these distances:
87 1 0.00
88 26 0.12
89 144 0.69
90 33 0.16
91 4 0.02
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (89 bp):
TCCACTGCAACTTTAGGGAAATAAGATTCGCTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
ATAAGATACATAACTTCAATCCAC
Found at i:45519067 original size:50 final size:50
Alignment explanation
Indices: 45518878--45519124 Score: 194
Period size: 50 Copynumber: 4.8 Consensus size: 50
45518868 GATAATGACA
* * * ** * *
45518878 TGCCAAAGCCATGTTCCAAACATGGTCTTACATGGGATGTTTCATGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * ** * *
45518927 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
45518977 TGCCCATGTCATGTCCCAGACATGATCTTAC-GGGGTACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGG-ACCTCTCATCTCGG
* * * * *
45519027 TGCCAACGACATGTCCCAAACATGGTTTTACATGGGACCTCTAATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTC---TCATCTC--GG
*
45519082 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
45519125 TTACCCAAAT
Statistics
Matches: 155, Mismatches: 33, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
49 41 0.26
50 66 0.43
51 3 0.02
53 7 0.05
55 2 0.01
56 36 0.23
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:45521916 original size:46 final size:46
Alignment explanation
Indices: 45521849--45522033 Score: 280
Period size: 46 Copynumber: 4.0 Consensus size: 46
45521839 ACATTGCTAT
* *
45521849 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* * * * *
45521895 AACTCAATATGGTTTTCTTCACTGAAACATCATACCTACATTTCAT
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
*
45521941 AACTCAGTATGGTTTTCTTCACCGAAACACTATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* *
45521987 AACTCGGTATGGTTTCCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
45522033 A
1 A
45522034 CTTTTCCATG
Statistics
Matches: 124, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 124 1.00
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
Found at i:45523308 original size:16 final size:17
Alignment explanation
Indices: 45523262--45523309 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
45523252 AAATTCTTTT
45523262 TAAATCACAAAATTCAA
1 TAAATCACAAAATTCAA
*
45523279 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
45523296 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
45523310 TTCTAAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:45531354 original size:46 final size:46
Alignment explanation
Indices: 45531301--45531390 Score: 162
Period size: 46 Copynumber: 2.0 Consensus size: 46
45531291 CCATGGCAAA
*
45531301 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGCG
1 TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGCG
*
45531347 TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGGAAACCATACTG
1 TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTG
45531391 AGTTATAGCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGCG
Found at i:45536056 original size:12 final size:13
Alignment explanation
Indices: 45536041--45536077 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
45536031 ATTTTGTTCA
45536041 TCTTTTTTT-TTT
1 TCTTTTTTTCTTT
45536053 TCTTTTTTTCTTT
1 TCTTTTTTTCTTT
*
45536066 T-TTTTTTACTTT
1 TCTTTTTTTCTTT
45536078 CCCCAAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 19 0.83
13 4 0.17
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (13 bp):
TCTTTTTTTCTTT
Found at i:45541392 original size:27 final size:26
Alignment explanation
Indices: 45541362--45541415 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
45541352 GAATGTTTTG
45541362 ATTTTGGTT-ATAATGGCATGTATATGT
1 ATTTTGGTTAATAATGGC-T-TATATGT
* *
45541389 ATTTTGTTTAATGATGGCTTATATGT
1 ATTTTGGTTAATAATGGCTTATATGT
45541415 A
1 A
45541416 GTGTTTTGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 8 0.33
27 9 0.38
28 7 0.29
ACGTcount: A:0.26, C:0.04, G:0.20, T:0.50
Consensus pattern (26 bp):
ATTTTGGTTAATAATGGCTTATATGT
Found at i:45551456 original size:18 final size:18
Alignment explanation
Indices: 45551435--45551469 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45551425 TTATTTCACC
*
45551435 ATTTTTTTTTACAATTTT
1 ATTTTTATTTACAATTTT
*
45551453 ATTTTTATTTATAATTT
1 ATTTTTATTTACAATTT
45551470 CTAATAACTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTATTTACAATTTT
Found at i:45560489 original size:15 final size:15
Alignment explanation
Indices: 45560469--45560501 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
45560459 AGAATTTAAT
45560469 TTTAAAGATTT-AGGA
1 TTTAAAG-TTTAAGGA
45560484 TTTAAAGTTTAAGGA
1 TTTAAAGTTTAAGGA
45560499 TTT
1 TTT
45560502 TGTTGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (15 bp):
TTTAAAGTTTAAGGA
Found at i:45563778 original size:20 final size:20
Alignment explanation
Indices: 45563753--45563800 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
45563743 TTTTAAAAAC
*
45563753 AATTTTTTTTAGTTTAATGT
1 AATTTTTTTTAATTTAATGT
45563773 AATTTTTTTTAATTTAATGT
1 AATTTTTTTTAATTTAATGT
*
45563793 GATTTTTT
1 AATTTTTT
45563801 AATTTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (20 bp):
AATTTTTTTTAATTTAATGT
Found at i:45567965 original size:43 final size:43
Alignment explanation
Indices: 45567892--45568070 Score: 209
Period size: 43 Copynumber: 4.1 Consensus size: 43
45567882 CATAAATGCT
* * * *
45567892 GCTAAAGAACATGACGTTTAACAGCGCTTTTATAACAAACGTC
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACGTC
* * *
45567935 GCTAAAGATCATGACCTTTAGCGGCACTTTTATCACAATCGTC
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACGTC
* *
45567978 GCTAAAGAACATGACATTTAGCGGCGCTTTTTATCACAAACGCC
1 GCTAAAGAACATGACCTTTAGCGGCGC-TTTTATCACAAACGTC
* * *
45568022 GCTAAATAACATGACCTTTAGCGACG-TTTTATTTACAAACG-C
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTA-TCACAAACGTC
45568064 TGCTAAA
1 -GCTAAA
45568071 AGTACCGTTC
Statistics
Matches: 117, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
42 6 0.05
43 74 0.63
44 37 0.32
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (43 bp):
GCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACGTC
Found at i:45568069 original size:87 final size:86
Alignment explanation
Indices: 45567889--45568070 Score: 226
Period size: 87 Copynumber: 2.1 Consensus size: 86
45567879 CCACATAAAT
* * *
45567889 GCTGCTAAAGAACATGACGTTTAACAGCGCTTTTATAACAAACGTCGCTAAAGATCATGACCTTT
1 GCTGCTAAAGAACATGACATTTAACAGCGCTTTTATAACAAACGCCGCTAAAGAACATGACCTTT
*
45567954 AGCGGCACTTTTATCACAATC
66 AGCGGCACTTTTATCACAAAC
* * * *
45567975 G-TCGCTAAAGAACATGACATTTAGCGGCGCTTTTTATCACAAACGCCGCTAAATAACATGACCT
1 GCT-GCTAAAGAACATGACATTTAACAGCGC-TTTTATAACAAACGCCGCTAAAGAACATGACCT
*
45568039 TTAGC-G-ACGTTTTATTTACAAAC
64 TTAGCGGCAC-TTTTA-TCACAAAC
45568062 GCTGCTAAA
1 GCTGCTAAA
45568071 AGTACCGTTC
Statistics
Matches: 82, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
85 3 0.04
86 31 0.38
87 47 0.57
88 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (86 bp):
GCTGCTAAAGAACATGACATTTAACAGCGCTTTTATAACAAACGCCGCTAAAGAACATGACCTTT
AGCGGCACTTTTATCACAAAC
Found at i:45573920 original size:9 final size:9
Alignment explanation
Indices: 45573906--45574693 Score: 290
Period size: 9 Copynumber: 86.3 Consensus size: 9
45573896 TAAGTATAAA
45573906 TAAGTTATG
1 TAAGTTATG
45573915 TAAGTTATG
1 TAAGTTATG
* * *
45573924 ATATGATATA
1 -TAAGTTATG
*
45573934 T-ATTTATG
1 TAAGTTATG
45573942 TAAGTTATG
1 TAAGTTATG
*
45573951 TGAGTTATG
1 TAAGTTATG
*
45573960 TGAGTTATG
1 TAAGTTATG
* * *
45573969 ATATGATATA
1 -TAAGTTATG
*
45573979 T-ATTTATG
1 TAAGTTATG
45573987 T-A-TTATG
1 TAAGTTATG
45573994 TAAGTTATG
1 TAAGTTATG
*
45574003 TGAGTTATG
1 TAAGTTATG
45574012 TAAGTTATG
1 TAAGTTATG
* *
45574021 -ATA-TGATA
1 TA-AGTTATG
*
45574029 TAGATTTATG
1 TA-AGTTATG
45574039 T-A-TTATG
1 TAAGTTATG
45574046 TAAG---T-
1 TAAGTTATG
45574051 TAAGTTATG
1 TAAGTTATG
*
45574060 TGAGTTATG
1 TAAGTTATG
45574069 TAAGTTATG
1 TAAGTTATG
* *
45574078 ATATGATATATA
1 -TAAG-T-TATG
45574090 TAAGTTAT-
1 TAAGTTATG
45574098 TAAGTTATG
1 TAAGTTATG
45574107 TAAGTTATG
1 TAAGTTATG
*
45574116 TGAGTTATG
1 TAAGTTATG
* *
45574125 ATATGATATATA
1 -TAAG-T-TATG
*
45574137 TAAGTTGT-
1 TAAGTTATG
45574145 TAAGTTATG
1 TAAGTTATG
*
45574154 TATG-TATG
1 TAAGTTATG
*
45574162 TGAGTTATG
1 TAAGTTATG
*
45574171 TAAGTTAAG
1 TAAGTTATG
* *
45574180 ATATGATATATA
1 -TAAG-T-TATG
45574192 TAAGTTAT-
1 TAAGTTATG
*
45574200 TATGTTATG
1 TAAGTTATG
45574209 TAAGTTATG
1 TAAGTTATG
*
45574218 TGAGTTATG
1 TAAGTTATG
* *
45574227 ATATGATATATA
1 -TAAG-T-TATG
45574239 TAAGTTAT-
1 TAAGTTATG
45574247 TAAGTTATG
1 TAAGTTATG
*
45574256 TATG-TATG
1 TAAGTTATG
*
45574264 TGAGTTATG
1 TAAGTTATG
45574273 TAAGTTATG
1 TAAGTTATG
* * *
45574282 ATATGGTATA
1 -TAAGTTATG
*
45574292 T-ATTTATG
1 TAAGTTATG
45574300 T-A-TTATG
1 TAAGTTATG
45574307 TAAGTTATGG
1 TAAGTTAT-G
* * *
45574317 TATGATATA
1 TAAGTTATG
45574326 TAAGTTAT-
1 TAAGTTATG
45574334 TAAGTTATG
1 TAAGTTATG
45574343 TAAGTTATG
1 TAAGTTATG
*
45574352 TGAGTTATG
1 TAAGTTATG
* * *
45574361 ATATGATATA
1 -TAAGTTATG
*
45574371 TATA-TATATA
1 TA-AGT-TATG
45574381 TAAGTTAT-
1 TAAGTTATG
**
45574389 TAAGTTACA
1 TAAGTTATG
45574398 TAAG-TATG
1 TAAGTTATG
*
45574406 TGAGTTATG
1 TAAGTTATG
45574415 TAAGTTATG
1 TAAGTTATG
** *
45574424 ATCTGATATATA
1 -TAAG-T-TATG
45574436 TAAGTTAT-
1 TAAGTTATG
*
45574444 TAAGTTAAG
1 TAAGTTATG
* *
45574453 ATCCAAAGTTTTTT
1 -T---AAG-TTATG
* *
45574467 TAA-TTCTT
1 TAAGTTATG
45574475 TAAAGTTATG
1 T-AAGTTATG
*
45574485 TAAATTATG
1 TAAGTTATG
*
45574494 TAACTTATG
1 TAAGTTATG
*
45574503 ATATGGTTAT-
1 -TA-AGTTATG
45574513 TAAGTTATG
1 TAAGTTATG
45574522 TAAGTTATG
1 TAAGTTATG
*
45574531 TGAGTTATG
1 TAAGTTATG
*
45574540 TGAGTTATG
1 TAAGTTATG
* * *
45574549 ATATGATATA
1 -TAAGTTATG
*
45574559 TATA-TATATA
1 TA-AGT-TATG
45574569 TAAGTTAT-
1 TAAGTTATG
*
45574577 TAAGTTAAG
1 TAAGTTATG
* *
45574586 ATCCAAAGTTTTTT
1 -T---AAG-TTATG
* *
45574600 TAA-TTCTT
1 TAAGTTATG
45574608 TAAAGTTATG
1 T-AAGTTATG
*
45574618 TAAATTATG
1 TAAGTTATG
*
45574627 TAACTTATG
1 TAAGTTATG
*
45574636 ATATGGTTAT-
1 -TA-AGTTATG
45574646 TAAGTTATG
1 TAAGTTATG
45574655 TAAGTTATG
1 TAAGTTATG
*
45574664 TGAGTTATG
1 TAAGTTATG
* *
45574673 TAAATTATA
1 TAAGTTATG
45574682 TAAGTTATG
1 TAAGTTATG
45574691 TAA
1 TAA
45574694 AATTTGATAT
Statistics
Matches: 585, Mismatches: 122, Indels: 144
0.69 0.14 0.17
Matches are distributed among these distances:
5 4 0.01
6 1 0.00
7 18 0.03
8 119 0.20
9 303 0.52
10 87 0.15
11 27 0.05
12 14 0.02
13 8 0.01
14 4 0.01
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:45574023 original size:47 final size:49
Alignment explanation
Indices: 45573908--45574315 Score: 311
Period size: 47 Copynumber: 8.0 Consensus size: 49
45573898 AGTATAAATA
*
45573908 AGTTATGTAAGTTATGATATGATA--TA--TATTTATGTAAGTTATGTG
1 AGTTATGTAAGTTATGATATGATATTTATGTAGTTATGTAAGTTATGTG
*
45573953 AGTTATGTGAGTTATGATATGATATATATTTATGTA-TTATGTAAGTTATGTG
1 AGTTATGTAAGTTATGATATG----ATATTTATGTAGTTATGTAAGTTATGTG
45574005 AGTTATGTAAGTTATGATATGATATAGATTTATGTA-TTATGTAAGTTAAGTTATGTG
1 AGTTATGTAAGTTATGATATG--AT--ATTTATGTAGTTA--T--G-TAAGTTATGTG
* * *
45574062 AGTTATGTAAGTTATGATATGATATATAT-AAGTTAT-TAAGTTATGTA
1 AGTTATGTAAGTTATGATATGATATTTATGTAGTTATGTAAGTTATGTG
* *
45574109 AGTTATGTGAGTTATGATATGATATATATAAGTTGTTAAGTTATGTATG-TATGTG
1 AGTTATGTAAGTTATGATATGATAT-T-T-A--TG-T-AGTTATGTAAGTTATGTG
* * * * *
45574164 AGTTATGTAAGTTAAGATATGATATATAT-AAGTTAT-TATGTTATGTA
1 AGTTATGTAAGTTATGATATGATATTTATGTAGTTATGTAAGTTATGTG
* * *
45574211 AGTTATGTGAGTTATGATATGATATATATAAGTTATTAAGTTATGTATG-TATGTG
1 AGTTATGTAAGTTATGATATGATAT-T-T-A--T-GT-AGTTATGTAAGTTATGTG
45574266 AGTTATGTAAGTTATGATATGGTATATATTTATGTA-TTATGTAAGTTATG
1 AGTTATGTAAGTTATGATAT-G---ATATTTATGTAGTTATGTAAGTTATG
45574316 GTATGATATA
Statistics
Matches: 300, Mismatches: 23, Indels: 73
0.76 0.06 0.18
Matches are distributed among these distances:
45 20 0.07
46 4 0.01
47 68 0.23
49 5 0.02
50 7 0.02
51 11 0.04
52 57 0.19
53 12 0.04
54 2 0.01
55 66 0.22
56 10 0.03
57 33 0.11
58 1 0.00
59 4 0.01
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (49 bp):
AGTTATGTAAGTTATGATATGATATTTATGTAGTTATGTAAGTTATGTG
Found at i:45574060 original size:57 final size:52
Alignment explanation
Indices: 45573920--45574315 Score: 360
Period size: 52 Copynumber: 7.6 Consensus size: 52
45573910 TTATGTAAGT
* * *
45573920 TATGATAT-GATATATAT-TTATGTAAGTTATGTGAGTTATGTGAGTTATGA
1 TATGATATAGATTTATGTATTATGTAAGTTATGTGAGTTATGTAAGTTATGA
*
45573970 TATGATATATATTTATGTATTATGTAAGTTATGTGAGTTATGTAAGTTATGA
1 TATGATATAGATTTATGTATTATGTAAGTTATGTGAGTTATGTAAGTTATGA
45574022 TATGATATAGATTTATGTATTATGTAAGTTAAGTTATGTGAGTTATGTAAGTTATGA
1 TATGATATAGATTTATGTATTA--T--G-TAAGTTATGTGAGTTATGTAAGTTATGA
* * * *
45574079 TATGATAT--ATATAAG--TTAT-TAAGTTATGTAAGTTATGTGAGTTATGA
1 TATGATATAGATTTATGTATTATGTAAGTTATGTGAGTTATGTAAGTTATGA
* * * *
45574126 TATGATATATA-TAAGTTGTTAAGTTATGTATG-TATGTGAGTTATGTAAGTTAAGA
1 TATGATATAGATTTA--TG-T-A-TTATGTAAGTTATGTGAGTTATGTAAGTTATGA
*
45574181 TATGATATATATAAGTTAT-TATGTTATGTAAGTTATGTGAGTTATG--A--TATGA
1 TATGATATAGAT---TTATGTA--TTATGTAAGTTATGTGAGTTATGTAAGTTATGA
* *
45574233 TAT-ATATA-AGTTAT-TAAGTTATGTATG-TATGTGAGTTATGTAAGTTATGA
1 TATGATATAGATTTATGT-A-TTATGTAAGTTATGTGAGTTATGTAAGTTATGA
* *
45574283 TATGGTATATATTTATGTATTATGTAAGTTATG
1 TATGATATAGATTTATGTATTATGTAAGTTATG
45574316 GTATGATATA
Statistics
Matches: 290, Mismatches: 24, Indels: 62
0.77 0.06 0.16
Matches are distributed among these distances:
46 13 0.04
47 48 0.17
48 3 0.01
49 1 0.00
50 18 0.06
51 24 0.08
52 70 0.24
53 4 0.01
54 3 0.01
55 50 0.17
56 17 0.06
57 37 0.13
59 2 0.01
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (52 bp):
TATGATATAGATTTATGTATTATGTAAGTTATGTGAGTTATGTAAGTTATGA
Found at i:45574200 original size:102 final size:102
Alignment explanation
Indices: 45573937--45574450 Score: 530
Period size: 102 Copynumber: 5.0 Consensus size: 102
45573927 TGATATATAT
* * *
45573937 TTATGTAAGTTATGTGAGTTATGTGAGTTATGATATGATATATATTTATGTATTATGTAAGTTAT
1 TTATGTATG-TATGTGAGTTATGTAAGTTATGATATGATATATA--TAAG--TTAT-TAAGTTAT
* * * *
45574002 GTGAGTTATGTAAGTTATGATATGATATAGATTTATGTATTATGTAAG
60 GTAAGTTATGTGAGTTATGATATGATAT--ATATAAG--TTAT-TAAG
*
45574050 TTAAG--T-TATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATGTAAGT
1 TTATGTATGTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATGTAAGT
*
45574112 TATGTGAGTTATGATATGATATATATAAGTTGTTAAG
66 TATGTGAGTTATGATATGATATATATAAGTTATTAAG
* *
45574149 TTATGTATGTATGTGAGTTATGTAAGTTAAGATATGATATATATAAGTTATTATGTTATGTAAGT
1 TTATGTATGTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATGTAAGT
45574214 TATGTGAGTTATGATATGATATATATAAGTTATTAAG
66 TATGTGAGTTATGATATGATATATATAAGTTATTAAG
*
45574251 TTATGTATGTATGTGAGTTATGTAAGTTATGATATGGTATATAT---TTATGT-A-TTATGTAAG
1 TTATGTATGTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTAT-TAAGTTATGTAAG
45574311 TTA--T--G----G-TATG--ATATATAAGTTATTAAG
65 TTATGTGAGTTATGATATGATATATATAAGTTATTAAG
* * *
45574338 TTATGTAAGTTATGTGAGTTATGATATGATAT-ATAT-ATATATATAAGTTATTAAGTTACATAA
1 TTATGTATG-TATGTGAGTTATG-TAAGTTATGATATGATATATATAAGTTATTAAGTT--AT--
* *
45574401 GTATGTGAGTTATGTAAGTTATGATCTGATATATATAAGTTATTAAG
60 GTA----AGTTATGTGAGTTATGATATGATATATATAAGTTATTAAG
45574448 TTA
1 TTA
45574451 AGATCCAAAG
Statistics
Matches: 350, Mismatches: 21, Indels: 63
0.81 0.05 0.15
Matches are distributed among these distances:
87 32 0.09
88 17 0.05
89 11 0.03
90 6 0.02
91 2 0.01
93 2 0.01
94 1 0.00
95 3 0.01
96 1 0.00
98 12 0.03
99 17 0.05
100 4 0.01
101 2 0.01
102 137 0.39
103 1 0.00
104 34 0.10
105 4 0.01
107 4 0.01
108 3 0.01
109 33 0.09
110 20 0.06
113 4 0.01
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (102 bp):
TTATGTATGTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATGTAAGT
TATGTGAGTTATGATATGATATATATAAGTTATTAAG
Found at i:45574331 original size:19 final size:18
Alignment explanation
Indices: 45574273--45574333 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
45574263 GTGAGTTATG
*
45574273 TAAGTTATGATATGGTATA
1 TAAGTTATGGTAT-GTATA
* *
45574292 T-ATTTAT-GTAT-TATG
1 TAAGTTATGGTATGTATA
45574307 TAAGTTATGGTATGATATA
1 TAAGTTATGGTATG-TATA
45574326 TAAGTTAT
1 TAAGTTAT
45574334 TAAGTTATGT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 4 0.12
16 5 0.15
17 7 0.21
18 5 0.15
19 12 0.36
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (18 bp):
TAAGTTATGGTATGTATA
Found at i:45574385 original size:134 final size:140
Alignment explanation
Indices: 45574050--45574436 Score: 393
Period size: 134 Copynumber: 2.7 Consensus size: 140
45574040 ATTATGTAAG
* *
45574050 TTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATGTAAGTTAT
1 TTAAGTTATGTAAGTTATGTGAGTTATGATATGATATATATAAGTTATTAAGTTAT-T-AGTTA-
* * * * * * * *
45574115 GTGAGTTATGAT-ATGATATATATAAG-T-TGTTAAGTTATGTATGTATGTGAGT-TATGTAAGT
63 AT-AG-TATG-TGA-G-T-TATGTAAGTTATGATATGATATATATTTATGT-ATTAT--GTAAGT
45574176 TAAGATATGATATATATAAGTTA
119 TAAGATATGA-ATATATAAGTTA
*
45574199 TTATGTTATGTAAGTTATGTGAGTTATGATATGATATATATAAGTTATTAAGTTA-T-G-T-AT-
1 TTAAGTTATGTAAGTTATGTGAGTTATGATATGATATATATAAGTTATTAAGTTATTAGTTAATA
* * *
45574259 GTATGTGAGTTATGTAAGTTATGATATGGTATATATTTATGTATTATGTAAGTTATGGTATG-AT
66 GTATGTGAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTAAGATATGAAT
45574323 ATATAAGTTA
131 ATATAAGTTA
45574333 TTAAGTTATGTAAGTTATGTGAGTTATGATATGATATATAT-A-TATATATAAGTTATTAAGTTA
1 TTAAGTTATGTAAGTTATGTGAGTTATGATATGATATATATAAGT-TAT-TAAGTTATT-AGTTA
*
45574396 CATAAGTATGTGAGTTATGTAAGTTATGATCTGATATATAT
63 -AT-AGTATGTGAGTTATGTAAGTTATGATATGATATATAT
45574437 AAGTTATTAA
Statistics
Matches: 208, Mismatches: 16, Indels: 35
0.80 0.06 0.14
Matches are distributed among these distances:
132 1 0.00
133 4 0.02
134 59 0.28
135 1 0.00
136 20 0.10
137 5 0.02
138 20 0.10
139 5 0.02
140 3 0.01
142 35 0.17
144 1 0.00
145 1 0.00
147 1 0.00
149 52 0.25
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.45
Consensus pattern (140 bp):
TTAAGTTATGTAAGTTATGTGAGTTATGATATGATATATATAAGTTATTAAGTTATTAGTTAATA
GTATGTGAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTAAGATATGAAT
ATATAAGTTA
Found at i:45574386 original size:55 final size:55
Alignment explanation
Indices: 45574302--45574450 Score: 189
Period size: 55 Copynumber: 2.7 Consensus size: 55
45574292 TATTTATGTA
* * **
45574302 TTATGTAAGTTATGGTATG--ATATATAAGTTATTAAGTTATGTAAGTTATGTGAG
1 TTATGTAAGATATGATATGATATATATAAGTTATTAAGTTACATAAG-TATGTGAG
*
45574356 TTATGATATGATAT-ATAT-ATATATATAAGTTATTAAGTTACATAAGTATGTGAG
1 TTATG-TAAGATATGATATGATATATATAAGTTATTAAGTTACATAAGTATGTGAG
* *
45574410 TTATGTAAGTTATGATCTGATATATATAAGTTATTAAGTTA
1 TTATGTAAGATATGATATGATATATATAAGTTATTAAGTTA
45574451 AGATCCAAAG
Statistics
Matches: 82, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
53 6 0.07
54 24 0.29
55 52 0.63
ACGTcount: A:0.37, C:0.01, G:0.17, T:0.44
Consensus pattern (55 bp):
TTATGTAAGATATGATATGATATATATAAGTTATTAAGTTACATAAGTATGTGAG
Found at i:45574662 original size:133 final size:134
Alignment explanation
Indices: 45574381--45574673 Score: 495
Period size: 133 Copynumber: 2.2 Consensus size: 134
45574371 TATATATATA
** * * *
45574381 TAAGTTAT-TAAGTTACATAAG-TATGTGAGTTATGTAAGTTATGATCTGATATATATAAGTTAT
1 TAAGTTATGTAAGTTATGTGAGTTATGTGAGTTATGTAAGATATGATATGATATATATAAGTTAT
45574444 TAAGTTAAGATCCAAAGTTTTTTTAATTCTTTAAAGTTATGTAAATTATGTAACTTATGATATGG
66 TAAGTTAAGATCCAAAGTTTTTTTAATTCTTTAAAGTTATGTAAATTATGTAACTTATGATATGG
45574509 TTAT
131 TTAT
*
45574513 TAAGTTATGTAAGTTATGTGAGTTATGTGAGTTATGATATGATAT-ATAT-ATATATATAAGTTA
1 TAAGTTATGTAAGTTATGTGAGTTATGTGAGTTATG-TAAGATATGATATGATATATATAAGTTA
45574576 TTAAGTTAAGATCCAAAGTTTTTTTAATTCTTTAAAGTTATGTAAATTATGTAACTTATGATATG
65 TTAAGTTAAGATCCAAAGTTTTTTTAATTCTTTAAAGTTATGTAAATTATGTAACTTATGATATG
45574641 GTTAT
130 GTTAT
45574646 TAAGTTATGTAAGTTATGTGAGTTATGT
1 TAAGTTATGTAAGTTATGTGAGTTATGT
45574674 AAATTATATA
Statistics
Matches: 152, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
132 8 0.05
133 122 0.80
134 16 0.11
135 6 0.04
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.45
Consensus pattern (134 bp):
TAAGTTATGTAAGTTATGTGAGTTATGTGAGTTATGTAAGATATGATATGATATATATAAGTTAT
TAAGTTAAGATCCAAAGTTTTTTTAATTCTTTAAAGTTATGTAAATTATGTAACTTATGATATGG
TTAT
Found at i:45574671 original size:18 final size:18
Alignment explanation
Indices: 45574610--45574734 Score: 103
Period size: 18 Copynumber: 6.9 Consensus size: 18
45574600 TAATTCTTTA
45574610 AAGTTATGTAAATTATGT
1 AAGTTATGTAAATTATGT
* **
45574628 AACTTATGATATGGTTAT-T
1 AAGTTATG-TA-AATTATGT
*
45574647 AAGTTATGTAAGTTATGT
1 AAGTTATGTAAATTATGT
* *
45574665 GAGTTATGTAAATTATAT
1 AAGTTATGTAAATTATGT
45574683 AAGTTATGTAAAATT-TGAT
1 AAGTTATGT-AAATTATG-T
* * * *
45574702 ATGATATAT-ATTTATGT
1 AAGTTATGTAAATTATGT
45574719 AAGTTATGTAAATTAT
1 AAGTTATGTAAATTAT
45574735 ATATTAATTT
Statistics
Matches: 82, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
17 15 0.18
18 41 0.50
19 22 0.27
20 4 0.05
ACGTcount: A:0.38, C:0.01, G:0.16, T:0.46
Consensus pattern (18 bp):
AAGTTATGTAAATTATGT
Found at i:45574974 original size:73 final size:73
Alignment explanation
Indices: 45574888--45575181 Score: 498
Period size: 73 Copynumber: 4.0 Consensus size: 73
45574878 GGAAGAAATT
45574888 AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTAAAAAAATAAGACTTTGAGTT
1 AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTAAAAAAATAAGACTTTGAGTT
*
45574953 GGCATTAC
66 GGCATCAC
* *
45574961 AAAATATAATTAATTTGTCGATATTTATCAAAATAAGTAAAATTAAAAAAAAAAGACTTTGAGTT
1 AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTAAAAAAATAAGACTTTGAGTT
45575026 GGCATCAC
66 GGCATCAC
45575034 AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTTAAAAAAAAAAATAAGACTTT
1 AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAA-TT----AAAAAAATAAGACTTT
45575099 GAGTTGGCATCAC
61 GAGTTGGCATCAC
* *
45575112 AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTAAAAAGATAAGACTTTCAGTT
1 AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTAAAAAAATAAGACTTTGAGTT
45575177 GGCAT
66 GGCAT
45575182 TAGAAAATCA
Statistics
Matches: 209, Mismatches: 7, Indels: 10
0.92 0.03 0.04
Matches are distributed among these distances:
73 135 0.65
74 2 0.01
77 2 0.01
78 70 0.33
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (73 bp):
AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTAAAAAAATAAGACTTTGAGTT
GGCATCAC
Found at i:45575189 original size:151 final size:146
Alignment explanation
Indices: 45574888--45575181 Score: 498
Period size: 151 Copynumber: 2.0 Consensus size: 146
45574878 GGAAGAAATT
45574888 AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTAAAAAAATAAGACTTTGAGTT
1 AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTAAAAAAATAAGACTTTGAGTT
*
45574953 GGCATTACAAAATATAATTAATTTGTCGATATTTATCAAAATAAGTAAAATTAAAAAAAAAAGAC
66 GGCATCACAAAATATAATTAATTTGTCGATATTTATCAAAATAAGTAAAATTAAAAAAAAAAGAC
*
45575018 TTTGAGTTGGCATCAC
131 TTTCAGTTGGCATCAC
45575034 AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTTAAAAAAAAAAATAAGACTTT
1 AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAA-TT----AAAAAAATAAGACTTT
* * *
45575099 GAGTTGGCATCACAAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTAAAAAGAT
61 GAGTTGGCATCACAAAATATAATTAATTTGTCGATATTTATCAAAATAAGTAAAATTAAAAAAAA
45575164 AAGACTTTCAGTTGGCAT
126 AAGACTTTCAGTTGGCAT
45575182 TAGAAAATCA
Statistics
Matches: 138, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
146 42 0.30
147 2 0.01
151 94 0.68
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (146 bp):
AAAATATAATTAATTTGTCTATATTTATCAAAATAAGTAAAATTAAAAAAATAAGACTTTGAGTT
GGCATCACAAAATATAATTAATTTGTCGATATTTATCAAAATAAGTAAAATTAAAAAAAAAAGAC
TTTCAGTTGGCATCAC
Found at i:45575418 original size:66 final size:64
Alignment explanation
Indices: 45575340--45575472 Score: 194
Period size: 66 Copynumber: 2.0 Consensus size: 64
45575330 AATTAAGTAA
* *
45575340 AAAATTGTTAATTTATTCACATAAAATCAAATAAACTAATCAAACATAATTAAATCAATTAAATC
1 AAAATTGATAATTTATTCACATAAAACCAAATAAACTAATCAAACATAATTAAATCAATT-AATC
* * * *
45575405 AAAATTCGATAATTTATTCACATTAAACCGAATAAACTAATCAAACATAATTTATTCAATTAATC
1 AAAATT-GATAATTTATTCACATAAAACCAAATAAACTAATCAAACATAATTAAATCAATTAATC
45575470 AAA
1 AAA
45575473 TATATAAAGT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
65 13 0.21
66 48 0.79
ACGTcount: A:0.52, C:0.14, G:0.02, T:0.32
Consensus pattern (64 bp):
AAAATTGATAATTTATTCACATAAAACCAAATAAACTAATCAAACATAATTAAATCAATTAATC
Found at i:45577630 original size:24 final size:24
Alignment explanation
Indices: 45577583--45577630 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
45577573 GAACAAAAGG
*
45577583 GAAAATGAGAAGGAAAAGTTGAGA
1 GAAAATGAGAAGGAAAAGTAGAGA
*
45577607 GAAAGTGAGAGAGGAAAAG-AGAGA
1 GAAAATGAGA-AGGAAAAGTAGAGA
45577631 ATGAGAGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.54, C:0.00, G:0.38, T:0.08
Consensus pattern (24 bp):
GAAAATGAGAAGGAAAAGTAGAGA
Found at i:45577959 original size:368 final size:368
Alignment explanation
Indices: 45577282--45578017 Score: 1472
Period size: 368 Copynumber: 2.0 Consensus size: 368
45577272 CAATTTCAAT
45577282 AATTCAAGCAGGAAAAATATAATCAACCCAACACAGATTAAATTCAAGCTAGATTTATTAAAACA
1 AATTCAAGCAGGAAAAATATAATCAACCCAACACAGATTAAATTCAAGCTAGATTTATTAAAACA
45577347 ACCATTTAAATAGCATAAATATTCATAAACATGTTTGTCAAAACAACAACGAAATTTAAAGAGAT
66 ACCATTTAAATAGCATAAATATTCATAAACATGTTTGTCAAAACAACAACGAAATTTAAAGAGAT
45577412 AGGGAACAAGAAGCAAATCCGGTGTTTCTCTATGGCTTGACTGATTTCTCCGTTCTTCGTTCTCC
131 AGGGAACAAGAAGCAAATCCGGTGTTTCTCTATGGCTTGACTGATTTCTCCGTTCTTCGTTCTCC
45577477 GTTGTCCTCGGCTATTAGGGTGGCTTATGAACACTTTAATTGCTGCTCAAAAATGGCTGATGAGG
196 GTTGTCCTCGGCTATTAGGGTGGCTTATGAACACTTTAATTGCTGCTCAAAAATGGCTGATGAGG
45577542 ACCTCTTTCCCAAGAGAAGAAATCGGCACTTGAACAAAAGGGAAAATGAGAAGGAAAAGTTGAGA
261 ACCTCTTTCCCAAGAGAAGAAATCGGCACTTGAACAAAAGGGAAAATGAGAAGGAAAAGTTGAGA
45577607 GAAAGTGAGAGAGGAAAAGAGAGAATGAGAGTGTGAGGGCTGG
326 GAAAGTGAGAGAGGAAAAGAGAGAATGAGAGTGTGAGGGCTGG
45577650 AATTCAAGCAGGAAAAATATAATCAACCCAACACAGATTAAATTCAAGCTAGATTTATTAAAACA
1 AATTCAAGCAGGAAAAATATAATCAACCCAACACAGATTAAATTCAAGCTAGATTTATTAAAACA
45577715 ACCATTTAAATAGCATAAATATTCATAAACATGTTTGTCAAAACAACAACGAAATTTAAAGAGAT
66 ACCATTTAAATAGCATAAATATTCATAAACATGTTTGTCAAAACAACAACGAAATTTAAAGAGAT
45577780 AGGGAACAAGAAGCAAATCCGGTGTTTCTCTATGGCTTGACTGATTTCTCCGTTCTTCGTTCTCC
131 AGGGAACAAGAAGCAAATCCGGTGTTTCTCTATGGCTTGACTGATTTCTCCGTTCTTCGTTCTCC
45577845 GTTGTCCTCGGCTATTAGGGTGGCTTATGAACACTTTAATTGCTGCTCAAAAATGGCTGATGAGG
196 GTTGTCCTCGGCTATTAGGGTGGCTTATGAACACTTTAATTGCTGCTCAAAAATGGCTGATGAGG
45577910 ACCTCTTTCCCAAGAGAAGAAATCGGCACTTGAACAAAAGGGAAAATGAGAAGGAAAAGTTGAGA
261 ACCTCTTTCCCAAGAGAAGAAATCGGCACTTGAACAAAAGGGAAAATGAGAAGGAAAAGTTGAGA
45577975 GAAAGTGAGAGAGGAAAAGAGAGAATGAGAGTGTGAGGGCTGG
326 GAAAGTGAGAGAGGAAAAGAGAGAATGAGAGTGTGAGGGCTGG
45578018 GTTGAATGAT
Statistics
Matches: 368, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
368 368 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (368 bp):
AATTCAAGCAGGAAAAATATAATCAACCCAACACAGATTAAATTCAAGCTAGATTTATTAAAACA
ACCATTTAAATAGCATAAATATTCATAAACATGTTTGTCAAAACAACAACGAAATTTAAAGAGAT
AGGGAACAAGAAGCAAATCCGGTGTTTCTCTATGGCTTGACTGATTTCTCCGTTCTTCGTTCTCC
GTTGTCCTCGGCTATTAGGGTGGCTTATGAACACTTTAATTGCTGCTCAAAAATGGCTGATGAGG
ACCTCTTTCCCAAGAGAAGAAATCGGCACTTGAACAAAAGGGAAAATGAGAAGGAAAAGTTGAGA
GAAAGTGAGAGAGGAAAAGAGAGAATGAGAGTGTGAGGGCTGG
Found at i:45577998 original size:24 final size:24
Alignment explanation
Indices: 45577951--45577998 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
45577941 GAACAAAAGG
*
45577951 GAAAATGAGAAGGAAAAGTTGAGA
1 GAAAATGAGAAGGAAAAGTAGAGA
*
45577975 GAAAGTGAGAGAGGAAAAG-AGAGA
1 GAAAATGAGA-AGGAAAAGTAGAGA
45577999 ATGAGAGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.54, C:0.00, G:0.38, T:0.08
Consensus pattern (24 bp):
GAAAATGAGAAGGAAAAGTAGAGA
Found at i:45579939 original size:124 final size:125
Alignment explanation
Indices: 45579716--45580014 Score: 381
Period size: 124 Copynumber: 2.4 Consensus size: 125
45579706 TTTCTGTAGT
* * * *
45579716 GAAACGGCACCG-TTCTGAGAAATTTTAATACATAGTTGCAGCGTTTTTTGGTCCAAACGCCGAT
1 GAAACGGCGCCGCTT-TTAGAAATTTAAATACATAGTTGCAGCGTTTTTTGCTCCAAACGCCGAT
* * *
45579780 ACTGATTACCATTTGCAACGTTTTCAGCAAAAATGCCACTAAAAAATTAAATTCCTATACC
65 ACTGAATACCATTTGCAACATTTTCAGCAAAAATGCCACTAAAAAATTAAATTCCTATACA
* * * *
45579841 GAAACGGCGCTGCTTTTAGAAATTTAAATACATAGTTGCGGCGTTTTTT-CTCCAAATGCCGCTA
1 GAAACGGCGCCGCTTTTAGAAATTTAAATACATAGTTGCAGCGTTTTTTGCTCCAAACGCCGATA
* ***
45579905 -TTACATACCATTTGTGGCATTTTCTAG-AAAAATGCCACTAAAAAATTAAATTCCTATACA
66 CTGA-ATACCATTTGCAACATTTTC-AGCAAAAATGCCACTAAAAAATTAAATTCCTATACA
* * *
45579965 GAAACGGCTCCGTTTTTAGAAATTTAAATACATAGTTGCAACGTTTTTTG
1 GAAACGGCGCCGCTTTTAGAAATTTAAATACATAGTTGCAGCGTTTTTTG
45580015 GACAAAACAC
Statistics
Matches: 150, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
123 2 0.01
124 103 0.69
125 43 0.29
126 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.32
Consensus pattern (125 bp):
GAAACGGCGCCGCTTTTAGAAATTTAAATACATAGTTGCAGCGTTTTTTGCTCCAAACGCCGATA
CTGAATACCATTTGCAACATTTTCAGCAAAAATGCCACTAAAAAATTAAATTCCTATACA
Found at i:45580069 original size:82 final size:85
Alignment explanation
Indices: 45579939--45580097 Score: 218
Period size: 82 Copynumber: 1.9 Consensus size: 85
45579929 TAGAAAAATG
* *
45579939 CCACTAAAAAATTAAATTCCTATACAGAAACGGCTCCGTTTTTAGAAATTTAAATACATAGTTGC
1 CCACTAAAAAATTAAATTCCTATACAGAAACGGCTCCGTTTTAAGAAATTTAAATACATAATTGC
*
45580004 AACGTTTTTTGGACAAAACA
66 AACATTTTTTGGACAAAACA
** *
45580024 CCACTAAAAAATTAAATT-CT-TGTA-AAACGG-TGCCGTTTTAAGAAATTTTAATACATAATTG
1 CCACTAAAAAATTAAATTCCTATACAGAAACGGCT-CCGTTTTAAGAAATTTAAATACATAATTG
*
45580085 CGACATTTTTTGG
65 CAACATTTTTTGG
45580098 TCCAAACGCC
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
81 1 0.02
82 43 0.65
83 2 0.03
84 2 0.03
85 18 0.27
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (85 bp):
CCACTAAAAAATTAAATTCCTATACAGAAACGGCTCCGTTTTAAGAAATTTAAATACATAATTGC
AACATTTTTTGGACAAAACA
Found at i:45580232 original size:14 final size:14
Alignment explanation
Indices: 45580215--45580413 Score: 86
Period size: 14 Copynumber: 14.2 Consensus size: 14
45580205 ACTAATTAAT
45580215 CTAAACCTTAAACC
1 CTAAACCTTAAACC
* *
45580229 CT-AA-CTCATATCC
1 CTAAACCTTA-AACC
* *
45580242 TTTAAACCATAAACC
1 CT-AAACCTTAAACC
45580257 CTAAACCTTAAACC
1 CTAAACCTTAAACC
*
45580271 C-CAACCTTAAACC
1 CTAAACCTTAAACC
*
45580284 CTAAACCCTAAACC
1 CTAAACCTTAAACC
* * *
45580298 ATAATCCCTAAACCC
1 CTAAACCTTAAA-CC
*
45580313 CT-AA-CTTATATCC
1 CTAAACCTTA-AACC
* *
45580326 CTTAAACCTTGAATC
1 C-TAAACCTTAAACC
* * * **
45580341 ATAAAACATAAATT
1 CTAAACCTTAAACC
* *
45580355 ATAAACCCTAAACCC
1 CTAAACCTTAAA-CC
* *
45580370 CTAAACCCTAACCC
1 CTAAACCTTAAACC
45580384 CT-AACCTTAAACC
1 CTAAACCTTAAACC
* * *
45580397 ATAAACCATAATCC
1 CTAAACCTTAAACC
45580411 CTA
1 CTA
45580414 TCCCCTGTCC
Statistics
Matches: 136, Mismatches: 37, Indels: 24
0.69 0.19 0.12
Matches are distributed among these distances:
12 3 0.02
13 34 0.25
14 71 0.52
15 23 0.17
16 5 0.04
ACGTcount: A:0.42, C:0.35, G:0.01, T:0.23
Consensus pattern (14 bp):
CTAAACCTTAAACC
Found at i:45580256 original size:7 final size:7
Alignment explanation
Indices: 45580244--45580413 Score: 78
Period size: 7 Copynumber: 24.3 Consensus size: 7
45580234 TCATATCCTT
*
45580244 TAAACCA
1 TAAACCC
45580251 TAAACCC
1 TAAACCC
*
45580258 TAAACCT
1 TAAACCC
45580265 TAAACCC
1 TAAACCC
* *
45580272 -CAACCT
1 TAAACCC
45580278 TAAACCC
1 TAAACCC
45580285 TAAACCC
1 TAAACCC
*
45580292 TAAACCA
1 TAAACCC
*
45580299 TAATCCC
1 TAAACCC
45580306 TAAACCCC
1 TAAA-CCC
*
45580314 T-AA-CT
1 TAAACCC
*
45580319 TATATCCC
1 TA-AACCC
*
45580327 TTAAACCT
1 -TAAACCC
* * *
45580335 TGAATCA
1 TAAACCC
* *
45580342 TAAAACA
1 TAAACCC
***
45580349 TAAATTA
1 TAAACCC
45580356 TAAACCC
1 TAAACCC
45580363 TAAACCCC
1 TAAA-CCC
45580371 TAAACCC
1 TAAACCC
*
45580378 TAACCCC
1 TAAACCC
*
45580385 T-AACCT
1 TAAACCC
*
45580391 TAAACCA
1 TAAACCC
*
45580398 TAAACCA
1 TAAACCC
*
45580405 TAATCCC
1 TAAACCC
45580412 TA
1 TA
45580414 TCCCCTGTCC
Statistics
Matches: 123, Mismatches: 32, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
5 2 0.02
6 8 0.07
7 96 0.78
8 15 0.12
9 2 0.02
ACGTcount: A:0.43, C:0.35, G:0.01, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:45580278 original size:13 final size:14
Alignment explanation
Indices: 45580244--45580413 Score: 87
Period size: 14 Copynumber: 12.1 Consensus size: 14
45580234 TCATATCCTT
*
45580244 TAAACCATAAACCC
1 TAAACCTTAAACCC
45580258 TAAACCTTAAACCC
1 TAAACCTTAAACCC
*
45580272 -CAACCTTAAACCC
1 TAAACCTTAAACCC
* *
45580285 TAAACCCTAAACCA
1 TAAACCTTAAACCC
* *
45580299 TAATCCCTAAACCCC
1 TAAACCTTAAA-CCC
*
45580314 T-AA-CTTATATCCC
1 TAAACCTTA-AACCC
* * *
45580327 TTAAACCTTGAATCA
1 -TAAACCTTAAACCC
* * ***
45580342 TAAAACATAAATTA
1 TAAACCTTAAACCC
*
45580356 TAAACCCTAAACCCC
1 TAAACCTTAAA-CCC
* *
45580371 TAAACCCTAACCCC
1 TAAACCTTAAACCC
*
45580385 T-AACCTTAAACCA
1 TAAACCTTAAACCC
* *
45580398 TAAACCATAATCCC
1 TAAACCTTAAACCC
45580412 TA
1 TA
45580414 TCCCCTGTCC
Statistics
Matches: 118, Mismatches: 30, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
13 28 0.24
14 70 0.59
15 17 0.14
16 3 0.03
ACGTcount: A:0.43, C:0.35, G:0.01, T:0.22
Consensus pattern (14 bp):
TAAACCTTAAACCC
Found at i:45580281 original size:20 final size:20
Alignment explanation
Indices: 45580253--45580313 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
45580243 TTAAACCATA
*
45580253 AACCCTAAACCTTAAACCCC
1 AACCCTAAACCCTAAACCCC
* *
45580273 AACCTTAAACCCTAAACCCTA
1 AACCCTAAACCCTAAACCC-C
* *
45580294 AACCATAATCCCTAAACCCC
1 AACCCTAAACCCTAAACCCC
45580314 TAACTTATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 17 0.50
21 17 0.50
ACGTcount: A:0.41, C:0.43, G:0.00, T:0.16
Consensus pattern (20 bp):
AACCCTAAACCCTAAACCCC
Found at i:45580283 original size:27 final size:27
Alignment explanation
Indices: 45580246--45580297 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
45580236 ATATCCTTTA
*
45580246 AACCATAAACCCTAAACCTTAAACCCC
1 AACCATAAACCCTAAACCCTAAACCCC
*
45580273 AACCTTAAACCCTAAACCCTAAACC
1 AACCATAAACCCTAAACCCTAAACC
45580298 ATAATCCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.15
Consensus pattern (27 bp):
AACCATAAACCCTAAACCCTAAACCCC
Found at i:45580312 original size:21 final size:21
Alignment explanation
Indices: 45580223--45580413 Score: 70
Period size: 21 Copynumber: 9.1 Consensus size: 21
45580213 ATCTAAACCT
*
45580223 TAAACCCT-AACTCAT-ATCCTT
1 TAAACCCTAAAC-CATAATCC-C
* * * *
45580244 TAAACCATAAACCCTAAACCT
1 TAAACCCTAAACCATAATCCC
* * *
45580265 TAAACCC-CAACCTTAAACCC
1 TAAACCCTAAACCATAATCCC
45580285 TAAACCCTAAACCATAATCCC
1 TAAACCCTAAACCATAATCCC
*
45580306 TAAACCCCT-AA-CTTATATCCC
1 TAAA-CCCTAAACCATA-ATCCC
* * * ** *
45580327 TTAAACCTTGAATCATAAAACA
1 -TAAACCCTAAACCATAATCCC
*** * *
45580349 TAAATTATAAACCCTAAACCCC
1 TAAACCCTAAACCAT-AATCCC
* * *
45580371 TAAACCCTAACCCCTAA-CCT
1 TAAACCCTAAACCATAATCCC
*
45580391 TAAACCATAAACCATAATCCC
1 TAAACCCTAAACCATAATCCC
45580412 TA
1 TA
45580414 TCCCCTGTCC
Statistics
Matches: 126, Mismatches: 34, Indels: 20
0.70 0.19 0.11
Matches are distributed among these distances:
20 36 0.29
21 55 0.44
22 32 0.25
23 3 0.02
ACGTcount: A:0.42, C:0.35, G:0.01, T:0.23
Consensus pattern (21 bp):
TAAACCCTAAACCATAATCCC
Found at i:45580433 original size:98 final size:99
Alignment explanation
Indices: 45580323--45580506 Score: 275
Period size: 98 Copynumber: 1.9 Consensus size: 99
45580313 CTAACTTATA
* *
45580323 TCCCTTAAACCTTGAATCATAAAACATAAATTATAAACCCTAAACCCCTAAACCC-T-AACCCCT
1 TCCCCTAAACCTTGAATCATAAAACATAAACTATAAACCCTAAACCCCT-AACCCTTAAACCCC-
* *
45580386 AA-CCTTAAACCATAAACCATAATCCCTATCCCCTG
64 AACCCTTAAACAATAAACAATAATCCCTATCCCCTG
* *
45580421 TCCCCTAAACCTTGAATTATAAAACATAAACTATAAACCCTAAATCCCTAACCCTTAAACCCCAA
1 TCCCCTAAACCTTGAATCATAAAACATAAACTATAAACCCTAAACCCCTAACCCTTAAACCCCAA
45580486 CCCTTAAACAATAAACAATAA
66 CCCTTAAACAATAAACAATAA
45580507 ATTATAATCC
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
97 5 0.06
98 48 0.62
99 24 0.31
ACGTcount: A:0.43, C:0.33, G:0.02, T:0.23
Consensus pattern (99 bp):
TCCCCTAAACCTTGAATCATAAAACATAAACTATAAACCCTAAACCCCTAACCCTTAAACCCCAA
CCCTTAAACAATAAACAATAATCCCTATCCCCTG
Found at i:45580550 original size:15 final size:15
Alignment explanation
Indices: 45580510--45580550 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
45580500 ACAATAAATT
45580510 ATAATCCCT-AAACC
1 ATAATCCCTAAAACC
**
45580524 ATAATCTGTAAAACC
1 ATAATCCCTAAAACC
45580539 ATAATCCCTAAA
1 ATAATCCCTAAA
45580551 CTGCTAATGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.46, C:0.27, G:0.02, T:0.24
Consensus pattern (15 bp):
ATAATCCCTAAAACC
Found at i:45583572 original size:20 final size:21
Alignment explanation
Indices: 45583526--45583573 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
45583516 TATTTTTAGC
45583526 AATTTTTAGATATTGTTTTAT
1 AATTTTTAGATATTGTTTTAT
**
45583547 TGTTTTTAG-TATTGTTTGTA-
1 AATTTTTAGATATTGTTT-TAT
45583567 AATTTTT
1 AATTTTT
45583574 TTAAAATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (21 bp):
AATTTTTAGATATTGTTTTAT
Found at i:45584225 original size:23 final size:23
Alignment explanation
Indices: 45584199--45584243 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
45584189 CAAAAATTAA
45584199 AAAAAATAACA-TTTTAAAAAATG
1 AAAAAA-AACATTTTTAAAAAATG
* *
45584222 AAAACAAATATTTTTAAAAAAT
1 AAAAAAAACATTTTTAAAAAAT
45584244 ATTTATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAAAAAACATTTTTAAAAAATG
Found at i:45584225 original size:25 final size:23
Alignment explanation
Indices: 45584190--45584243 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 23
45584180 TGCACGTAAC
*
45584190 AAAAATTAAAAAAAATAACATTTTA
1 AAAAATGAAAAAAAAT-A-ATTTTA
* *
45584215 AAAAATGAAAACAAATATTTTTA
1 AAAAATGAAAAAAAATAATTTTA
45584238 AAAAAT
1 AAAAAT
45584244 ATTTATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 11 0.42
24 1 0.04
25 14 0.54
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (23 bp):
AAAAATGAAAAAAAATAATTTTA
Found at i:45584372 original size:20 final size:19
Alignment explanation
Indices: 45584349--45584388 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
45584339 AAAAACCTAT
* *
45584349 AATTTGTAAAACATTATTAA
1 AATTTATAAAA-AATATTAA
45584369 AATTTATAAAAAATATTAA
1 AATTTATAAAAAATATTAA
45584388 A
1 A
45584389 TAAAATTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (19 bp):
AATTTATAAAAAATATTAA
Found at i:45621450 original size:27 final size:26
Alignment explanation
Indices: 45621409--45621461 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
45621399 AATGCGTTCA
*
45621409 TGCTTATATGTAGGTGCTGAAAGATTC
1 TGCTTATATGAAGGTGCTGAAA-ATTC
*
45621436 TGCTTATGTGAAGGTGCTGAAAATTC
1 TGCTTATATGAAGGTGCTGAAAATTC
45621462 CAAGAAACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.36
Consensus pattern (26 bp):
TGCTTATATGAAGGTGCTGAAAATTC
Found at i:45629334 original size:16 final size:16
Alignment explanation
Indices: 45629313--45629382 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
45629303 TTTGGTTCGC
45629313 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
45629329 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
* *
45629345 TGTAATAGAATAGATG
1 TGTAATGGAATAGAGG
*
45629361 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
45629377 CGTAAT
1 TGTAAT
45629383 AGGTAATTCT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.39, C:0.03, G:0.33, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:45629451 original size:44 final size:46
Alignment explanation
Indices: 45629364--45629452 Score: 128
Period size: 44 Copynumber: 2.0 Consensus size: 46
45629354 ATAGATGCGT
*
45629364 AATGGAATAGAGGCGTAATAGGTAATTCTTTTATTTCGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTATTTCGTTGAATGG
* * *
45629410 AATGGAATATAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTATTTCGTTGAATG
45629453 TAATAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 18 0.46
45 3 0.08
46 18 0.46
ACGTcount: A:0.28, C:0.06, G:0.28, T:0.38
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTATTTCGTTGAATGG
Found at i:45629662 original size:15 final size:16
Alignment explanation
Indices: 45629642--45629671 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
45629632 ATATATAATT
45629642 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
45629657 TAATAAATATTCTTA
1 TAATAAATATTCTTA
45629672 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:45629910 original size:119 final size:118
Alignment explanation
Indices: 45629609--45630038 Score: 743
Period size: 119 Copynumber: 3.6 Consensus size: 118
45629599 AACATAATTA
45629609 TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATA
1 TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATA
* * *
45629674 TGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTCAAAATAAGTA
66 TGAATTTACTAAAATCATAATATATAATACTATAAAATATAATT--TAATTAGTT
*
45629729 TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTTTA
1 TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATA
*
45629794 TGAATTTACTAAAATCATAATATATAATACTATAAAATAAAATTTAATTAGTTT
66 TGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAATTAG-TT
*
45629848 TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTTTA
1 TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATA
45629913 TGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAATTAGTT
66 TGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAATTAGTT
* * *
45629966 TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAATTTTTAGTAATAAATATTCATAT
1 TTATTAAATATAATTTAATAAAAATATATAATTTAAT-AAAATTCTTAATAATAAATATTCTTAT
45630031 ATGAATTT
65 ATGAATTT
45630039 GTATAATTTA
Statistics
Matches: 298, Mismatches: 10, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
118 44 0.15
119 147 0.49
120 107 0.36
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (118 bp):
TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATA
TGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAATTAGTT
Found at i:45629957 original size:38 final size:38
Alignment explanation
Indices: 45629796--45629958 Score: 91
Period size: 38 Copynumber: 4.2 Consensus size: 38
45629786 TTCTTTTATG
*
45629796 AATTTACTAAAATCATAATATATAATACTATAAAATAA
1 AATTTACTAAAATCATAATATATAATACTATAAAATAT
* *** * * *
45629834 AATTTAATTAGTTTTTATTAA-ATATAATTTAATAAAAATATAT
1 AATTT-ACTA-AAATCA-TAATATATAA--TACTATAAA-ATAT
* * ****
45629877 AATTTAATAAAATTCTTAATA-ATAA-A-TATTCTTTTAT
1 AATTTACTAAAA-TCATAATATATAATACTA-TAAAATAT
45629914 GAATTTACTAAAATCATAATATATAATACTATAAAATAT
1 -AATTTACTAAAATCATAATATATAATACTATAAAATAT
45629953 AATTTA
1 AATTTA
45629959 ATTAGTTTTA
Statistics
Matches: 87, Mismatches: 25, Indels: 26
0.63 0.18 0.19
Matches are distributed among these distances:
37 12 0.14
38 27 0.31
39 8 0.09
40 10 0.11
41 10 0.11
42 12 0.14
43 8 0.09
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (38 bp):
AATTTACTAAAATCATAATATATAATACTATAAAATAT
Found at i:45629996 original size:18 final size:18
Alignment explanation
Indices: 45629973--45630008 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
45629963 GTTTTATTAA
45629973 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
45629991 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
45630009 TTTTAGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:45630156 original size:91 final size:91
Alignment explanation
Indices: 45629950--45630311 Score: 593
Period size: 91 Copynumber: 4.0 Consensus size: 91
45629940 TACTATAAAA
* * * * *
45629950 TATAATTT-AATTAGTT-TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAATTTTT
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCAT-AAAATTCTT
* * * *
45630013 AGTAATAAATATTCATATATGAATTTG
65 ACTAATAAATTTTCTTATACGAATTTG
45630040 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTA
*
45630105 CTAATGAATTTTCTTATACGAATTTG
66 CTAATAAATTTTCTTATACGAATTTG
45630131 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTA
*
45630196 CTAATGAATTTTCTTATACGAATTTG
66 CTAATAAATTTTCTTATACGAATTTG
45630222 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTA
*
45630287 CTAATAAATTTTCTTATATGAATTT
66 CTAATAAATTTTCTTATACGAATTT
45630312 TCTAAAATCA
Statistics
Matches: 258, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
90 8 0.03
91 215 0.83
92 35 0.14
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (91 bp):
TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTA
CTAATAAATTTTCTTATACGAATTTG
Found at i:45634069 original size:21 final size:21
Alignment explanation
Indices: 45634025--45634085 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
45634015 ATGCCCGTGC
* ** *
45634025 GAAGGCCACTCACGCTTGTGT
1 GAAGGCCACACACGCCCGTAT
*
45634046 GAAGGCCACACGCGCCCGTAT
1 GAAGGCCACACACGCCCGTAT
*
45634067 GAAGGCCATACACGCCCGT
1 GAAGGCCACACACGCCCGT
45634086 GTGGAGGGGC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.23, C:0.34, G:0.28, T:0.15
Consensus pattern (21 bp):
GAAGGCCACACACGCCCGTAT
Found at i:45637625 original size:17 final size:16
Alignment explanation
Indices: 45637599--45637630 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
45637589 TTTTACTTCC
45637599 AAAAATAAAATAAATT
1 AAAAATAAAATAAATT
45637615 AAAAATCAAAATAAAT
1 AAAAAT-AAAATAAAT
45637631 AACTAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAATAAAATAAATT
Found at i:45643941 original size:21 final size:21
Alignment explanation
Indices: 45643915--45644019 Score: 68
Period size: 21 Copynumber: 5.0 Consensus size: 21
45643905 CTAGGTTTTT
*
45643915 AGTTTAGCTCTTTTGAGCTTC
1 AGTTTAGCTCTTATGAGCTTC
* * * * * *
45643936 AGTTTAACCCTAATGGGTTTT
1 AGTTTAGCTCTTATGAGCTTC
*
45643957 AGTTTAGCTCTTCTGAGCTTC
1 AGTTTAGCTCTTATGAGCTTC
* * * *
45643978 AGATTCACCT-TTATGGGTTTC
1 AG-TTTAGCTCTTATGAGCTTC
* *
45643999 CGTTCAGCTCTTATGAGCTTC
1 AGTTTAGCTCTTATGAGCTTC
45644020 CGTTCAACCC
Statistics
Matches: 59, Mismatches: 23, Indels: 4
0.69 0.27 0.05
Matches are distributed among these distances:
20 6 0.10
21 48 0.81
22 5 0.08
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (21 bp):
AGTTTAGCTCTTATGAGCTTC
Found at i:45643974 original size:42 final size:42
Alignment explanation
Indices: 45643883--45644039 Score: 179
Period size: 42 Copynumber: 3.7 Consensus size: 42
45643873 AGTCAACTCA
* * *
45643883 TATGAGTTTCAGTTTAACCCTTCTAGGTTTTTAGTTTAGCTCT
1 TATGAGCTTCAGTTTAACCCTTAT-GGGTTTTAGTTTAGCTCT
* *
45643926 TTTGAGCTTCAGTTTAACCCTAATGGGTTTTAGTTTAGCTCT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTTAGTTTAGCTCT
* * * * ** *
45643968 TCTGAGCTTCAGATTCACCTTTATGGGTTTCCGTTCAGCTCT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTTAGTTTAGCTCT
* *
45644010 TATGAGCTTCCGTTCAACCCTTATGGGTTT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTT
45644040 CTTTTTAGCA
Statistics
Matches: 95, Mismatches: 19, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
42 75 0.79
43 20 0.21
ACGTcount: A:0.17, C:0.20, G:0.18, T:0.44
Consensus pattern (42 bp):
TATGAGCTTCAGTTTAACCCTTATGGGTTTTAGTTTAGCTCT
Found at i:45644020 original size:21 final size:21
Alignment explanation
Indices: 45643962--45644034 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
45643952 GTTTTAGTTT
* *
45643962 AGCTCTTCTGAGCTTCAGATTC
1 AGCTCTTATGAGCTTCCG-TTC
* * *
45643984 ACCT-TTATGGGTTTCCGTTC
1 AGCTCTTATGAGCTTCCGTTC
45644004 AGCTCTTATGAGCTTCCGTTC
1 AGCTCTTATGAGCTTCCGTTC
* *
45644025 AACCCTTATG
1 AGCTCTTATG
45644035 GGTTTCTTTT
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
20 6 0.15
21 31 0.77
22 3 0.08
ACGTcount: A:0.16, C:0.27, G:0.18, T:0.38
Consensus pattern (21 bp):
AGCTCTTATGAGCTTCCGTTC
Found at i:45646270 original size:20 final size:21
Alignment explanation
Indices: 45646234--45646272 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
45646224 GTTGTATTAA
*
45646234 AAATAGATAAATGAATAAAGT
1 AAATAGATAAATAAATAAAGT
45646255 AAATAGA-AAATAAATAAA
1 AAATAGATAAATAAATAAA
45646273 TAGGGGTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (21 bp):
AAATAGATAAATAAATAAAGT
Found at i:45658229 original size:27 final size:27
Alignment explanation
Indices: 45658199--45658251 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
45658189 GCATAACAGA
*
45658199 TTTTTATTTGAATTTGTTTATTTTGTC
1 TTTTTATTTGAATTTGTTTACTTTGTC
45658226 TTTTTATTTGAATTTGTTTACTTTGT
1 TTTTTATTTGAATTTGTTTACTTTGT
45658252 GTTTGATTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.15, C:0.04, G:0.11, T:0.70
Consensus pattern (27 bp):
TTTTTATTTGAATTTGTTTACTTTGTC
Found at i:45659849 original size:51 final size:51
Alignment explanation
Indices: 45659735--45659950 Score: 344
Period size: 51 Copynumber: 4.3 Consensus size: 51
45659725 CTTATGTATG
* *
45659735 ATCACTTATCACTTGTCCCTGATCAGATAAGTGTAGC-AAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
*
45659785 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
* *
45659836 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
* * * *
45659887 ATCAATTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
45659938 ATCACTTGTCACT
1 ATCACTTGTCACT
45659951 GATCAGAAAT
Statistics
Matches: 153, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 34 0.22
51 119 0.78
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
Found at i:45660353 original size:21 final size:20
Alignment explanation
Indices: 45660324--45660363 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
45660314 ACACCAAAAC
*
45660324 AGGCTTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCG-TTTTT
45660345 AGGCCTTTAGCGGCGTTTT
1 AGGCCTTTAGCGGCGTTTT
45660364 GAGAAGCGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.10, C:0.20, G:0.30, T:0.40
Consensus pattern (20 bp):
AGGCCTTTAGCGGCGTTTTT
Found at i:45660524 original size:43 final size:43
Alignment explanation
Indices: 45660473--45660566 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 43
45660463 TTTGGAAAAG
*
45660473 CGCCGCTAAAGACCA-TGACCTATAGCGGCACTTCTCTAACAAA
1 CGCCGCTAAAGA-CATTGACCTATAGCGGCACTTCTCCAACAAA
* * * *
45660516 CGCCGCTAAAGACATTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAGACATTGACCTATAGCGGCACTTCTCCAACAAA
45660559 CGCCGCTA
1 CGCCGCTA
45660567 TAACTCGATA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
42 2 0.04
43 43 0.96
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (43 bp):
CGCCGCTAAAGACATTGACCTATAGCGGCACTTCTCCAACAAA
Found at i:45665520 original size:19 final size:19
Alignment explanation
Indices: 45665498--45665534 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
45665488 AAATTTTAGT
*
45665498 TTTTTTTATTTCATTTTTA
1 TTTTTGTATTTCATTTTTA
*
45665517 TTTTTGTATTTTATTTTT
1 TTTTTGTATTTCATTTTT
45665535 TTCTTATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (19 bp):
TTTTTGTATTTCATTTTTA
Found at i:45666770 original size:14 final size:15
Alignment explanation
Indices: 45666753--45666785 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
45666743 CTTAAATCAG
45666753 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
45666767 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
45666782 AATC
1 AATC
45666786 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:45667217 original size:88 final size:89
Alignment explanation
Indices: 45667077--45667242 Score: 307
Period size: 88 Copynumber: 1.9 Consensus size: 89
45667067 TTATTTCTAC
*
45667077 GTGTCATTATTTCAAATTTATCCATTTTTAACAAATATTCAATTAAAAATAAATTGAATTTTAAT
1 GTGTCATTATTTCAAATTTATCCATTTTTAACAAATATTAAATTAAAAATAAATTGAATTTTAAT
45667142 TAATATAAATAAACAAATTAAATA
66 TAATATAAATAAACAAATTAAATA
*
45667166 GTGTCATTATTTCAAATTTATCTA-TTTTAACAAATATTAAATTAAAAATAAATTGAATTTTAAT
1 GTGTCATTATTTCAAATTTATCCATTTTTAACAAATATTAAATTAAAAATAAATTGAATTTTAAT
45667230 TAATATAAATAAA
66 TAATATAAATAAA
45667243 TTAAATAGTA
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
88 52 0.69
89 23 0.31
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.42
Consensus pattern (89 bp):
GTGTCATTATTTCAAATTTATCCATTTTTAACAAATATTAAATTAAAAATAAATTGAATTTTAAT
TAATATAAATAAACAAATTAAATA
Found at i:45667464 original size:19 final size:20
Alignment explanation
Indices: 45667436--45667478 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
45667426 AAATTATAAA
*
45667436 TTTTAGTTTTTTTATTTCAT
1 TTTTAGTTTTTGTATTTCAT
*
45667456 TTTTA-TTTTTGTATTTTAT
1 TTTTAGTTTTTGTATTTCAT
45667475 TTTT
1 TTTT
45667479 TTCTTATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTAGTTTTTGTATTTCAT
Found at i:45667860 original size:7 final size:7
Alignment explanation
Indices: 45667850--45667891 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
45667840 TAACTTCTAG
45667850 CCCCTAA
1 CCCCTAA
45667857 CCCCTAA
1 CCCCTAA
*
45667864 CTCCTAA
1 CCCCTAA
45667871 CCCCTAA
1 CCCCTAA
*
45667878 CTCCTAA
1 CCCCTAA
45667885 CCCCTAA
1 CCCCTAA
45667892 ACCATAATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.29, C:0.52, G:0.00, T:0.19
Consensus pattern (7 bp):
CCCCTAA
Found at i:45667865 original size:21 final size:21
Alignment explanation
Indices: 45667839--45667891 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
45667829 CCTAATTAAT
* *
45667839 CTAACTTCTAGCCCCTAACCC
1 CTAACTCCTAACCCCTAACCC
*
45667860 CTAACTCCTAACCCCTAACTC
1 CTAACTCCTAACCCCTAACCC
*
45667881 CTAACCCCTAA
1 CTAACTCCTAA
45667892 ACCATAATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.28, C:0.47, G:0.02, T:0.23
Consensus pattern (21 bp):
CTAACTCCTAACCCCTAACCC
Found at i:45667869 original size:14 final size:14
Alignment explanation
Indices: 45667852--45667891 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
45667842 ACTTCTAGCC
45667852 CCTAACCCCTAACT
1 CCTAACCCCTAACT
45667866 CCTAACCCCTAACT
1 CCTAACCCCTAACT
45667880 CCTAACCCCTAA
1 CCTAACCCCTAA
45667892 ACCATAATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.30, C:0.50, G:0.00, T:0.20
Consensus pattern (14 bp):
CCTAACCCCTAACT
Found at i:45668560 original size:81 final size:81
Alignment explanation
Indices: 45668469--45668699 Score: 426
Period size: 81 Copynumber: 2.8 Consensus size: 81
45668459 ACCCTGACAA
*
45668469 CTAACCCCTAAACCTTATTTAATATATAAATTAAAAACACTAATTAATCTAAATCCTAAACCCTA
1 CTAACCCCTAAACATTATTTAATATATAAATTAAAAACACTAATTAATCTAAATCCTAAACCCTA
45668534 ACCCGACCCCGAATCT
66 ACCCGACCCCGAATCT
45668550 CTAACCCCTAAACATTATTTAATATATAAATTAAAAACACTAATTAATCTAAATCCTAAACCCTA
1 CTAACCCCTAAACATTATTTAATATATAAATTAAAAACACTAATTAATCTAAATCCTAAACCCTA
45668615 ACCCGACCCCGAATCT
66 ACCCGACCCCGAATCT
* *
45668631 CTAACCCCTAAACATTATTTAATATATAAATTAAAATACACTAATTAATCTAAACCCTAAATCCT
1 CTAACCCCTAAACATTATTTAATATATAAATTAAAA-ACACTAATTAATCTAAATCCTAAACCCT
45668696 AACC
65 AACC
45668700 TGTCACTAAA
Statistics
Matches: 146, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
81 116 0.79
82 30 0.21
ACGTcount: A:0.44, C:0.26, G:0.02, T:0.28
Consensus pattern (81 bp):
CTAACCCCTAAACATTATTTAATATATAAATTAAAAACACTAATTAATCTAAATCCTAAACCCTA
ACCCGACCCCGAATCT
Found at i:45668787 original size:14 final size:14
Alignment explanation
Indices: 45668768--45668797 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
45668758 AACCCATAAA
45668768 CCTTAAATCACAAC
1 CCTTAAATCACAAC
*
45668782 CCTTAAATCAGAAC
1 CCTTAAATCACAAC
45668796 CC
1 CC
45668798 CTAATCCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.37, G:0.03, T:0.20
Consensus pattern (14 bp):
CCTTAAATCACAAC
Found at i:45668830 original size:22 final size:21
Alignment explanation
Indices: 45668796--45668837 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
45668786 AAATCAGAAC
45668796 CCCTAATCCATAATCCATAAG
1 CCCTAATCCATAATCCATAAG
*
45668817 CCCTAATTCCATAATCTATAA
1 CCCTAA-TCCATAATCCATAA
45668838 ACCTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.38, C:0.31, G:0.02, T:0.29
Consensus pattern (21 bp):
CCCTAATCCATAATCCATAAG
Found at i:45669227 original size:89 final size:89
Alignment explanation
Indices: 45669124--45669303 Score: 333
Period size: 89 Copynumber: 2.0 Consensus size: 89
45669114 TTATTTCTAC
*
45669124 GTGTCATTATTTCAAATTTATCCATTTTTAACAAATATTCAATTAAAAATAAATTGAATTTTAAT
1 GTGTCATTATTTCAAATTTATCCATTTTTAACAAATATTAAATTAAAAATAAATTGAATTTTAAT
45669189 TAATATAAATAAACAAATTAAATA
66 TAATATAAATAAACAAATTAAATA
*
45669213 GTGTCATTATTTCAAATTTATCTATTTTTAACAAATATTAAATTAAAAATAAATTGAATTTTAAT
1 GTGTCATTATTTCAAATTTATCCATTTTTAACAAATATTAAATTAAAAATAAATTGAATTTTAAT
*
45669278 TAATATAAATAAATAAATTAAATA
66 TAATATAAATAAACAAATTAAATA
45669302 GT
1 GT
45669304 AAATAGACAG
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (89 bp):
GTGTCATTATTTCAAATTTATCCATTTTTAACAAATATTAAATTAAAAATAAATTGAATTTTAAT
TAATATAAATAAACAAATTAAATA
Found at i:45669384 original size:41 final size:41
Alignment explanation
Indices: 45669327--45669561 Score: 346
Period size: 41 Copynumber: 5.7 Consensus size: 41
45669317 AAATGTTCTT
*
45669327 GCGGCGCTTTTCCAAAAACGCCGCTAAAGAACTGAGTATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGAACTGAGCATTA
* *
45669368 GCGGCGCTGTTACAAAAACGCCGCTAAAGAACTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGAACTGAGCATTA
* * *
45669409 GCGGCGCTTATCCAAAAACGCCACTAAAGATCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGAACTGAGCATTA
* * *
45669450 GCGGCGCTTCTCCATAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGAACTGAGCATTA
45669491 GCGGCGCTTTTCCAAAAACGCCGCTAAA-AATCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGAA-CTGAGCATTA
**
45669532 GCGGCGCTTTTTTTAAAAACGCCGCTAAAG
1 GCGGCGC-TTTTCCAAAAACGCCGCTAAAG
45669562 CTCGAAAGGC
Statistics
Matches: 175, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
40 1 0.01
41 155 0.89
42 19 0.11
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGAACTGAGCATTA
Found at i:45669653 original size:40 final size:39
Alignment explanation
Indices: 45669598--45669734 Score: 166
Period size: 40 Copynumber: 3.4 Consensus size: 39
45669588 GGGCTTAGGG
* *
45669598 TTTTTTGCGGCGTTTTTCCAAAAATCGCCGCTAATGCTCA
1 TTTTTAGCGGCGTTTTT-CAAAAAGCGCCGCTAATGCTCA
* *
45669638 TTTTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTC-A
* * ** *
45669678 TCTTTAGCGGCGTTTTACGTAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGC-TCA
45669718 TTTTTAGCGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
45669735 TGTCCAAACG
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 19 0.23
40 62 0.76
41 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCA
Found at i:45670250 original size:39 final size:39
Alignment explanation
Indices: 45670207--45670290 Score: 152
Period size: 39 Copynumber: 2.2 Consensus size: 39
45670197 TCTCATGATT
45670207 TACAACTTTATTGCTTACACCGTTTCTTCTTTGAGAAAC
1 TACAACTTTATTGCTTACACCGTTTCTTCTTTGAGAAAC
*
45670246 TACAATTTTATTGCTTACACCGTTTCTTCTTTGAGAAAC
1 TACAACTTTATTGCTTACACCGTTTCTTCTTTGAGAAAC
45670285 TA-AACT
1 TACAACT
45670291 CAATAAGCTT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
38 3 0.07
39 40 0.93
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (39 bp):
TACAACTTTATTGCTTACACCGTTTCTTCTTTGAGAAAC
Found at i:45680524 original size:45 final size:45
Alignment explanation
Indices: 45680460--45680664 Score: 392
Period size: 45 Copynumber: 4.6 Consensus size: 45
45680450 TGTCCTGAAG
45680460 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
45680505 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
45680550 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
*
45680595 ACAAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
*
45680640 ACTAGGAAGGAACCTGAGGATGGTG
1 ACTAGGAAGGAGCCTGAGGATGGTG
45680665 AGAACAGAAG
Statistics
Matches: 157, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 157 1.00
ACGTcount: A:0.26, C:0.09, G:0.48, T:0.17
Consensus pattern (45 bp):
ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
Done.