Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 306 of 332
Found at i:100909182 original size:28 final size:28
Alignment explanation
Indices: 100909149--100909218 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
100909139 AATTATAAAA
100909149 AAAATTATTTTTAAAGT-TAAAAATCATT
1 AAAATTATTTTTAAAGTATAAAAATCA-T
* *
100909177 AAAATTA--TTAAGAAGTATAAAAATTAT
1 AAAATTATTTTTA-AAGTATAAAAATCAT
100909204 AAAATATATTTTTAA
1 AAAAT-TATTTTTAA
100909219 TATTTTTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
26 3 0.09
27 10 0.29
28 17 0.50
29 1 0.03
30 3 0.09
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.40
Consensus pattern (28 bp):
AAAATTATTTTTAAAGTATAAAAATCAT
Found at i:100910950 original size:44 final size:45
Alignment explanation
Indices: 100910852--100911239 Score: 229
Period size: 44 Copynumber: 8.4 Consensus size: 45
100910842 TATTCTACTG
* * * * * *
100910852 CAACTTCAGAGAAATAAGATCTACTATCTTC-AGTCTGCTCGACTA
1 CAACTTCAGGGAGATAAGA-CTTCTAGCTTCAACTCTGCTCCACTA
* * *
100910897 CAACTTTAGGGAGATAAGACTTGTAGCTTCAACT-TGCTCCACTG
1 CAACTTCAGGGAGATAAGACTTCTAGCTTCAACTCTGCTCCACTA
* * *
100910941 CAACATT-AGGGAGATAAGGTTTGTGATTTCTAGCTTCAA-TCTACTTCTACTA
1 CAAC-TTCAGGGAGATAA-------GACTTCTAGCTTCAACTCTGC-TCCACTA
* * * * *
100910993 AAACTTTAGGGAGATAAGATTTACTATCTTC-AGTCTGCTCCACTA
1 CAACTTCAGGGAGATAAGACTT-CTAGCTTCAACTCTGCTCCACTA
* * * *
100911038 CAACTTCAGGGAGACAAGACTTGTAACTTCAAC-CTGCTCCACTG
1 CAACTTCAGGGAGATAAGACTTCTAGCTTCAACTCTGCTCCACTA
* *
100911082 CAACTTCAGGGAGATAAGGTTTGTGATTTCTAGCTTCAA-TCTGCTCCGCTA
1 CAACTTCAGGGAGATAA-------GACTTCTAGCTTCAACTCTGCTCCACTA
* * * * *
100911133 CAACTTTAGGGAGATAAGA-TTCACTATCTTC-AGTCTACTCCACTG
1 CAACTTCAGGGAGATAAGACTT--CTAGCTTCAACTCTGCTCCACTA
* * * *
100911178 CGACTTCAGGGAGATAAGACTTGTAACTTCAAC-CTGCTCCACTG
1 CAACTTCAGGGAGATAAGACTTCTAGCTTCAACTCTGCTCCACTA
*
100911222 CAACTTCAGAGAGATAAG
1 CAACTTCAGGGAGATAAG
100911240 GTTTGTGATT
Statistics
Matches: 270, Mismatches: 45, Indels: 57
0.73 0.12 0.15
Matches are distributed among these distances:
43 2 0.01
44 97 0.36
45 85 0.31
46 13 0.05
50 1 0.00
51 54 0.20
52 18 0.07
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (45 bp):
CAACTTCAGGGAGATAAGACTTCTAGCTTCAACTCTGCTCCACTA
Found at i:100911189 original size:96 final size:96
Alignment explanation
Indices: 100911010--100911195 Score: 241
Period size: 96 Copynumber: 1.9 Consensus size: 96
100911000 AGGGAGATAA
* * * *
100911010 GATTTACTATCTTCAGTCTGCTCCACTACAACTTCAGGGAGACAAGACTTGTAACTTCAACCTGC
1 GATTTACTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGACAAGACTTCTAACTTCAACCTAC
100911075 TCCACTGCAACTTCAGGGAGATAAGGTTTGT
66 TCCACTGCAACTTCAGGGAGATAAGGTTTGT
* * * * **
100911106 GATTT-CTAGCTTCAATCTGCTCCGCTACAACTTTAGGGAGATAAGA-TTCACTATCTTCAGTCT
1 GATTTACTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGACAAGACTT--CTAACTTCAACCT
*
100911169 ACTCCACTGCGACTTCAGGGAGATAAG
64 ACTCCACTGCAACTTCAGGGAGATAAG
100911196 ACTTGTAACT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
94 2 0.03
95 36 0.47
96 39 0.51
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (96 bp):
GATTTACTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGACAAGACTTCTAACTTCAACCTAC
TCCACTGCAACTTCAGGGAGATAAGGTTTGT
Found at i:100911203 original size:140 final size:140
Alignment explanation
Indices: 100910820--100911330 Score: 702
Period size: 140 Copynumber: 3.6 Consensus size: 140
100910810 AAGTACAAGA
* * * * * * * * *
100910820 TTTGTGATTTGTATCTTTAATCTATTCTACTGCAACTTCAGAGAAATAAGA-TCTACTATCTTCA
1 TTTGTGATTTCTAGCTTCAATCTACTCCACTACAACTTTAGGGAGATAAGATTC-ACTATCTTCA
* * * * *
100910884 GTCTGCTCGACTACAACTTTAGGGAGATAAGACTTGTAGCTTCAACTTGCTCCACTGCAACATT-
65 GTCTACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAAC-TTC
100910948 AGGGAGATAAGG
129 AGGGAGATAAGG
* * *
100910960 TTTGTGATTTCTAGCTTCAATCTACTTCTACTAAAACTTTAGGGAGATAAGATTTACTATCTTCA
1 TTTGTGATTTCTAGCTTCAATCTAC-TCCACTACAACTTTAGGGAGATAAGATTCACTATCTTCA
* *
100911025 GTCTGCTCCACTACAACTTCAGGGAGACAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCA
65 GTCTACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCA
100911090 GGGAGATAAGG
130 GGGAGATAAGG
* *
100911101 TTTGTGATTTCTAGCTTCAATCTGCTCCGCTACAACTTTAGGGAGATAAGATTCACTATCTTCAG
1 TTTGTGATTTCTAGCTTCAATCTACTCCACTACAACTTTAGGGAGATAAGATTCACTATCTTCAG
* *
100911166 TCTACTCCACTGCGACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAG
66 TCTACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAG
*
100911231 AGAGATAAGG
131 GGAGATAAGG
* * * ** *
100911241 TTTGTGATTTTTAGCTTCAATCTACTCCACTGCAACTTCAATGAGATAAGATTCGCTATCTTCAG
1 TTTGTGATTTCTAGCTTCAATCTACTCCACTACAACTTTAGGGAGATAAGATTCACTATCTTCAG
*
100911306 TCTACTCCACTGCAACTTCAGGGAG
66 TCTACTCCACTACAACTTCAGGGAG
100911331 CTTCAATCGA
Statistics
Matches: 334, Mismatches: 34, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
140 210 0.63
141 123 0.37
142 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (140 bp):
TTTGTGATTTCTAGCTTCAATCTACTCCACTACAACTTTAGGGAGATAAGATTCACTATCTTCAG
TCTACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAG
GGAGATAAGG
Found at i:100911454 original size:24 final size:24
Alignment explanation
Indices: 100911427--100911472 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
100911417 GATGTCATGA
100911427 TTTAGAATGAATCAAATGCTCTAG
1 TTTAGAATGAATCAAATGCTCTAG
100911451 TTTAGAATGAATCAAATGCTCT
1 TTTAGAATGAATCAAATGCTCT
100911473 TAACTAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (24 bp):
TTTAGAATGAATCAAATGCTCTAG
Found at i:100917266 original size:130 final size:131
Alignment explanation
Indices: 100917029--100917485 Score: 721
Period size: 130 Copynumber: 3.5 Consensus size: 131
100917019 AAGAAACCGA
* * * *
100917029 AACCCAGCACGGTAAGGCACGATTCCTCGAATTTCCAAACATTAAACATTACCTT-GTTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATTAAACATTGCCTTCGTTTTAAAG
* * *
100917093 --TT-TTAGAAAACATGAGTGAAATT-CTAAGGAAATATTTGATTATTTTGAACAAACGGGAAAT
66 AATTCTTA-AAGACATGACTGAAATTCCAAAGG-AATATTTGATTATTTTGAACAAACGGGAAAT
100917154 TGC
129 TGC
* * *
100917157 AACCCAGCACGATAGGGCACGA-TCCCCGGATTTCCAAACTTTGAACATTGCCTTCGTTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATTAAACATTGCCTTCGTTTTAAAG
100917221 AATTCTTAAAGACATGACTGAAATTCCAAAGGAATATTTGATTATTTTGAACAAACGGGAAATTG
66 AATTCTTAAAGACATGACTGAAATTCCAAAGGAATATTTGATTATTTTGAACAAACGGGAAATTG
100917286 C
131 C
* * *
100917287 AACCCAGCACGATAGGGCACGA-TCCCCGGATTTCCAAACTTTGAACATTGCCTTCGTTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATTAAACATTGCCTTCGTTTTAAAG
100917351 AATTCTTAAAGACATGACTGAAATTCCAAAGGAATATTTGATTATTTTGAACAAACGGGAAATTG
66 AATTCTTAAAGACATGACTGAAATTCCAAAGGAATATTTGATTATTTTGAACAAACGGGAAATTG
100917416 C
131 C
*
100917417 AACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATCAAACATTGCCTTCGTTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATTAAACATTGCCTTCGTTTTAAAG
100917482 AATT
66 AATT
100917486 TTTTTAAATG
Statistics
Matches: 309, Mismatches: 14, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
127 27 0.09
128 29 0.09
130 203 0.66
131 50 0.16
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (131 bp):
AACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATTAAACATTGCCTTCGTTTTAAAG
AATTCTTAAAGACATGACTGAAATTCCAAAGGAATATTTGATTATTTTGAACAAACGGGAAATTG
C
Found at i:100919989 original size:46 final size:44
Alignment explanation
Indices: 100919936--100920086 Score: 137
Period size: 45 Copynumber: 3.4 Consensus size: 44
100919926 TTTACCGCAA
* * * *
100919936 CTGCTCTACTGCAACTTCAGGGAGATATGG-TTCATGTATTTTTAT
1 CTGCTCTACTGCAACTTCAGGGAGATAAGGATT-GTG-ACTTTGAT
* *
100919981 CCTGCTCTACTGCAACTTTAGAGAGATAAGGATTGTGACTTTGAT
1 -CTGCTCTACTGCAACTTCAGGGAGATAAGGATTGTGACTTTGAT
* * *
100920026 CTGCTCCACTGCAACTTCGGGGAGATAA-GATCTGCTAACTTT-AGT
1 CTGCTCTACTGCAACTTCAGGGAGATAAGGAT-TG-TGACTTTGA-T
*
100920071 CTGCTCCACTGCAACT
1 CTGCTCTACTGCAACT
100920087 GCTCCATTTC
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
43 3 0.03
44 27 0.30
45 29 0.32
46 29 0.32
47 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.33
Consensus pattern (44 bp):
CTGCTCTACTGCAACTTCAGGGAGATAAGGATTGTGACTTTGAT
Found at i:100920051 original size:44 final size:43
Alignment explanation
Indices: 100919936--100920086 Score: 135
Period size: 44 Copynumber: 3.4 Consensus size: 43
100919926 TTTACCGCAA
* * * *
100919936 CTGCTCTACTGCAACTTCAGGGAGATATGG-TTCATGTATTTTTAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGATT-GTG-A-CTTTAT
* * *
100919981 CCTGCTCTACTGCAACTTTAGAGAGATAAGGATTGTGACTTTGAT
1 -CTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGACTTT-AT
* *
100920026 CTGCTCCACTGCAACTTCGGGGAGATAA-GATCTGCTAACTTTAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGAT-TG-TGACTTTA-T
100920071 CTGCTCCACTGCAACT
1 CTGCTCCACTGCAACT
100920087 GCTCCATTTC
Statistics
Matches: 90, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 30 0.33
45 26 0.29
46 29 0.32
47 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.33
Consensus pattern (43 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGACTTTAT
Found at i:100920236 original size:88 final size:88
Alignment explanation
Indices: 100920128--100920292 Score: 267
Period size: 88 Copynumber: 1.9 Consensus size: 88
100920118 GTAATTTTCA
* * *
100920128 GCCTGTTACCCTACTTCTTAGGGGGTTAAGGCTCACCGTCTTCGATTTGCTCCACCACTGCTTAG
1 GCCTATTACCCTACTACTTAGGGGGTTAAGGATCACCGTCTTCGATTTGCTCCACCACTGCTTAG
*
100920193 GGAGGCAAGATCAGCAATCTTCG
66 GGAGACAAGATCAGCAATCTTCG
* * *
100920216 GCCTATTACCCTACTACTTAGGGGGTTAAGGATCACTGTCTTCGATTTGCTCCACTATTGCTTAG
1 GCCTATTACCCTACTACTTAGGGGGTTAAGGATCACCGTCTTCGATTTGCTCCACCACTGCTTAG
100920281 GGAGACAAGATC
66 GGAGACAAGATC
100920293 TATAATTCAC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 70 1.00
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (88 bp):
GCCTATTACCCTACTACTTAGGGGGTTAAGGATCACCGTCTTCGATTTGCTCCACCACTGCTTAG
GGAGACAAGATCAGCAATCTTCG
Found at i:100920280 original size:44 final size:44
Alignment explanation
Indices: 100920138--100920282 Score: 116
Period size: 44 Copynumber: 3.3 Consensus size: 44
100920128 GCCTGTTACC
* * *
100920138 CTACTTCTTAGGGGGTTAAGGCTCACCGTCTTCGATTTGCTCCA
1 CTACTGCTTAGGGGGTTAAGGATCACAGTCTTCGATTTGCTCCA
* * * *** **
100920182 CCACTGCTTAGGGAGG-CAA-GATCAGCAATCTTCGGCCTATTACC-
1 CTACTGCTTAGGG-GGTTAAGGATCA-CAGTCTTCGATTTGCT-CCA
* *
100920226 CTACTACTTAGGGGGTTAAGGATCACTGTCTTCGATTTGCTCCA
1 CTACTGCTTAGGGGGTTAAGGATCACAGTCTTCGATTTGCTCCA
*
100920270 CTATTGCTTAGGG
1 CTACTGCTTAGGG
100920283 AGACAAGATC
Statistics
Matches: 72, Mismatches: 23, Indels: 12
0.67 0.21 0.11
Matches are distributed among these distances:
43 8 0.11
44 55 0.76
45 9 0.12
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (44 bp):
CTACTGCTTAGGGGGTTAAGGATCACAGTCTTCGATTTGCTCCA
Found at i:100932019 original size:130 final size:132
Alignment explanation
Indices: 100931755--100932081 Score: 454
Period size: 130 Copynumber: 2.5 Consensus size: 132
100931745 AAACCGAAAT
* * * * * *
100931755 CCAGCACGGTAAGGCATGATTCCTCGAATTTCCAAACATT-GAATATTACCTT-GTTTTAAAG--
1 CCAGCACGATAGGGCACGATTCCCCGAATTTCCAAAC-TTCGAACATTGCCTTCGTTTTAAAGAA
*
100931816 -TTTTAGAAAACATGAGTGAAATTCTAAGGAAATATTCGATTATTTTGAACAAACGGGAAATTAC
65 TTTTTAGAAAACATGAGTGAAATTCAAAGGAAATATTCGATTATTTTGAACAAACGGGAAATTAC
100931880 AAC
130 AAC
*
100931883 CCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACTTCGAACACTGCCTTCGTTTTAAAGAAT
1 CCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACTTCGAACATTGCCTTCGTTTTAAAGAAT
* *
100931948 TTTTA-AAGACATGAGTGAAATTCCAAAGG-AATATTCGATTA-TTTGAACAAACGGGAAATTGC
66 TTTTAGAAAACATGAGTGAAATT-CAAAGGAAATATTCGATTATTTTGAACAAACGGGAAATTAC
100932010 AAC
130 AAC
* * * *
100932013 CCAGCACAATAGGGCACGATTCCCCGAATTGCCAAACATCAAACATTGCCTTCGTTTTAAAGAAT
1 CCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACTTCGAACATTGCCTTCGTTTTAAAGAAT
100932078 TTTT
66 TTTT
100932082 TTAAATGAAT
Statistics
Matches: 178, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
127 2 0.01
128 42 0.24
129 9 0.05
130 87 0.49
131 28 0.16
132 10 0.06
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (132 bp):
CCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACTTCGAACATTGCCTTCGTTTTAAAGAAT
TTTTAGAAAACATGAGTGAAATTCAAAGGAAATATTCGATTATTTTGAACAAACGGGAAATTACA
AC
Found at i:100936822 original size:12 final size:12
Alignment explanation
Indices: 100936805--100936830 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
100936795 TTTTAGCTAA
100936805 CTACTCTTGCAT
1 CTACTCTTGCAT
100936817 CTACTCTTGCAT
1 CTACTCTTGCAT
100936829 CT
1 CT
100936831 GTGCTTGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.35, G:0.08, T:0.42
Consensus pattern (12 bp):
CTACTCTTGCAT
Found at i:100937019 original size:19 final size:20
Alignment explanation
Indices: 100936995--100937056 Score: 83
Period size: 19 Copynumber: 3.2 Consensus size: 20
100936985 GGGCTTTTCG
* *
100936995 TGAAATTTAATGCATATG-A
1 TGAAATGTAATGCAAATGAA
100937014 TGAAATGTAATGCAAATGAA
1 TGAAATGTAATGCAAATGAA
*
100937034 TGAAATG-AACGCAAATGAA
1 TGAAATGTAATGCAAATGAA
100937053 TGAA
1 TGAA
100937057 TGCAAAAAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
19 31 0.79
20 8 0.21
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.26
Consensus pattern (20 bp):
TGAAATGTAATGCAAATGAA
Found at i:100940725 original size:127 final size:127
Alignment explanation
Indices: 100940462--100940820 Score: 465
Period size: 127 Copynumber: 2.8 Consensus size: 127
100940452 GTGTGGACAG
** * * *
100940462 AATTTTAAAGGGATGTTTGATAATTT-GAATAAACAAAAAATCGAAACCCAACACATTAGGGCAC
1 AATTTTAAAGGGAAATTTGATTATTTAG-ACAAACAAAAGATCGAAACCCAACACATTAGGGCAC
* * * * * *
100940526 GATT--TTCGAATTCCCAAACATCAATCATCGCTTTTGTTTTAAAGTTTAGAAAACGCAGACGA
65 G-TTCCCTCGAATTACTAAACATAAATCATCGCCTTTGTTTTAAAGTTTAGAAAACACAGACGA
* *
100940588 AATTTGAAAGGGAAATTTGATTATTTAGACAAACAAAAGATCGAAACCCAGCACATTAGGGCACG
1 AATTTTAAAGGGAAATTTGATTATTTAGACAAACAAAAGATCGAAACCCAACACATTAGGGCACG
* * * **
100940653 TTCCCTCGAATTTCTAAACATAAATCCTCACCTTTGTTTTAAAGTTTAGAAAACATGGACGA
66 TTCCCTCGAATTACTAAACATAAATCATCGCCTTTGTTTTAAAGTTTAGAAAACACAGACGA
* * *
100940715 AATTTTAAAGGGACATTTGATTATTTAGACAAACGAAAGATCGAAACCCAACACATTAGGGTACG
1 AATTTTAAAGGGAAATTTGATTATTTAGACAAACAAAAGATCGAAACCCAACACATTAGGGCACG
*
100940780 ATCCCTCGAATTACTAAACATCAAA-CATCGCCTTTGTTTTA
66 TTCCCTCGAATTACTAAACAT-AAATCATCGCCTTTGTTTTA
100940821 TAAAGTCGAC
Statistics
Matches: 203, Mismatches: 26, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
125 2 0.01
126 56 0.28
127 142 0.70
128 3 0.01
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (127 bp):
AATTTTAAAGGGAAATTTGATTATTTAGACAAACAAAAGATCGAAACCCAACACATTAGGGCACG
TTCCCTCGAATTACTAAACATAAATCATCGCCTTTGTTTTAAAGTTTAGAAAACACAGACGA
Found at i:100947142 original size:3 final size:3
Alignment explanation
Indices: 100947134--100947178 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
100947124 TACTTTAATT
100947134 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
100947179 CTACTTCTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:100947398 original size:20 final size:19
Alignment explanation
Indices: 100947375--100947420 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
100947365 AATACTACGC
* *
100947375 TATATATATTTTTGTATTAT
1 TATATATATTTTT-AAATAT
100947395 TATATATATTTTTAAATAT
1 TATATATATTTTTAAATAT
100947414 TATATAT
1 TATATAT
100947421 TGAGTATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TATATATATTTTTAAATAT
Found at i:100947662 original size:24 final size:26
Alignment explanation
Indices: 100947617--100947664 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
100947607 TTAATACATG
100947617 TTTTATATATGTATATATTATGTATA
1 TTTTATATATGTATATATTATGTATA
100947643 TTTTA-ATAT-TATAT-TATATGTA
1 TTTTATATATGTATATAT-TATGTA
100947665 CGTACTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 1 0.05
24 11 0.52
25 4 0.19
26 5 0.24
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (26 bp):
TTTTATATATGTATATATTATGTATA
Found at i:100960151 original size:86 final size:86
Alignment explanation
Indices: 100959991--100960151 Score: 207
Period size: 86 Copynumber: 1.9 Consensus size: 86
100959981 TTTATTTCTG
* * * * *
100959991 TTTCAAAATTCAACTCATACTGCGAGGGGTGAGTTGAGTCTCAGGACATGTTGAGGTATTTTCGA
1 TTTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCGA
* *
100960056 TTTCTGTTTTTCAATTTATGT
66 TCTCCGTTTTTCAATTTATGT
* * * *
100960077 TTTCAAAAATCAATTCATATTGCTATAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-G
1 TTTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTCG
100960141 ATCTCCGTTTT
65 ATCTCCGTTTT
100960152 CGAAAATCAA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
86 58 0.92
87 5 0.08
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.39
Consensus pattern (86 bp):
TTTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCGA
TCTCCGTTTTTCAATTTATGT
Found at i:100960161 original size:72 final size:72
Alignment explanation
Indices: 100960075--100960263 Score: 270
Period size: 72 Copynumber: 2.6 Consensus size: 72
100960065 TTCAATTTAT
* * *
100960075 GTTTTCAAAAATCAATTCATATTGCTATAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT
1 GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT
100960140 GATCTCC
66 GATCTCC
* *
100960147 GTTTTCGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT
* * *
100960212 AATTTCT
66 GATCTCC
***
100960219 GTTTGTCAAAAATCAACTCATATCAAGAGAGGTGAGTTGAGCCTC
1 GTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
100960264 GGCCCACATG
Statistics
Matches: 104, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
72 68 0.65
73 36 0.35
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (72 bp):
GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT
GATCTCC
Found at i:100960416 original size:89 final size:87
Alignment explanation
Indices: 100960208--100960616 Score: 414
Period size: 89 Copynumber: 4.6 Consensus size: 87
100960198 GCTGAGGTAA
* * * ***
100960208 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATCAAGAGAGGTGAGTTGAGCCTCGGCCCACAT
1 TTTCAATTTATGTTTTTCAAAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--CACAT
* *
100960273 GCTGAGTTCTTTTCAATTTCTATT
64 GCTGAGGTATTTTCAATTTCTATT
* * * *
100960297 TTT-AATTTCTGTTTTTCAAAAATCAACTCATACTGCGAAAGGTGAGTTGAGCCTCAGG-ACATG
1 TTTCAATTTATGTTTTTCAAAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCACATG
*
100960360 CTGAGGTAATTTT-AATTTCTGTT
65 CTGAGGT-ATTTTCAATTTCTATT
* *
100960383 TTCTCCAATTTATGTTTTTCAAAAATTAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
1 TT-T-CAATTTATGTTTTTCAAAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTC--GGCAC
*
100960448 --GCTAAGGTATTTTCAATTTCTATT
62 ATGCTGAGGTATTTTCAATTTCTATT
* * *
100960472 TTTCAATTTCTGCTTTTCAAAAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCAC
1 TTTCAATTTATGTTTTTC--AAAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--CAC
* *
100960537 ATGCTGAGGTATTTTCAATTTATGTTT
62 ATGCTGAGGTATTTTCAATTTCT-ATT
* * * * * **
100960564 TTTCAATTTATATTTTTCAAAGATCAATTCATATTACGAGAAATGAGTTGAGC
1 TTTCAATTTATGTTTTTCAAAAATAAACTCATATTGCGAGAGGTGAGTTGAGC
100960617 TCAGGACCAC
Statistics
Matches: 270, Mismatches: 35, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
86 22 0.08
87 20 0.07
88 52 0.19
89 108 0.40
90 30 0.11
91 21 0.08
92 17 0.06
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (87 bp):
TTTCAATTTATGTTTTTCAAAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACATGC
TGAGGTATTTTCAATTTCTATT
Found at i:100960488 original size:14 final size:14
Alignment explanation
Indices: 100960457--100960491 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
100960447 CGCTAAGGTA
*
100960457 TTTTCAATTTCTAT
1 TTTTCAATTTCTAC
*
100960471 TTTTCAATTTCTGC
1 TTTTCAATTTCTAC
100960485 TTTTCAA
1 TTTTCAA
100960492 AAAAAAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.20, C:0.17, G:0.03, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTAC
Found at i:100960568 original size:15 final size:15
Alignment explanation
Indices: 100960548--100960580 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
100960538 TGCTGAGGTA
*
100960548 TTTTCAATTTATGTT
1 TTTTCAATTTATATT
100960563 TTTTCAATTTATATT
1 TTTTCAATTTATATT
100960578 TTT
1 TTT
100960581 CAAAGATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.70
Consensus pattern (15 bp):
TTTTCAATTTATATT
Found at i:100960717 original size:45 final size:45
Alignment explanation
Indices: 100960649--100960735 Score: 102
Period size: 45 Copynumber: 1.9 Consensus size: 45
100960639 GAATGAAGAT
* * *
100960649 TGGAGCTGATTGAAGACACCAGATTTTGTCTCCCTAAAGTTGTAG
1 TGGAGCTGATCGAAGACACCAGATATTGCCTCCCTAAAGTTGTAG
* * * **
100960694 TGGAGCTGATCGAGGATATCAGATATTGCCTTTCTAAAGTTG
1 TGGAGCTGATCGAAGACACCAGATATTGCCTCCCTAAAGTTG
100960736 CAGAAGAGAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (45 bp):
TGGAGCTGATCGAAGACACCAGATATTGCCTCCCTAAAGTTGTAG
Found at i:100962657 original size:20 final size:19
Alignment explanation
Indices: 100962634--100962679 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
100962624 TACTACGCTA
* *
100962634 TATATATATTTTTGTATTAT
1 TATATATATTTTT-AAATAT
100962654 TATATATATTTTTAAATAT
1 TATATATATTTTTAAATAT
100962673 TATATAT
1 TATATAT
100962680 TGAGTATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TATATATATTTTTAAATAT
Found at i:100962925 original size:24 final size:26
Alignment explanation
Indices: 100962880--100962927 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
100962870 TTAATACATG
100962880 TTTTATATATGTATATATTATGTATA
1 TTTTATATATGTATATATTATGTATA
100962906 TTTTA-ATAT-TATAT-TATATGTA
1 TTTTATATATGTATATAT-TATGTA
100962928 CGTACTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 1 0.05
24 11 0.52
25 4 0.19
26 5 0.24
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (26 bp):
TTTTATATATGTATATATTATGTATA
Found at i:100966640 original size:16 final size:16
Alignment explanation
Indices: 100966619--100966653 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
100966609 ATAAAACGTG
100966619 AAAAATTAAATAAAAT
1 AAAAATTAAATAAAAT
*
100966635 AAAAATTAAATTAAAT
1 AAAAATTAAATAAAAT
100966651 AAA
1 AAA
100966654 CTAAAATCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAATTAAATAAAAT
Found at i:100969202 original size:88 final size:88
Alignment explanation
Indices: 100969053--100969225 Score: 346
Period size: 88 Copynumber: 2.0 Consensus size: 88
100969043 TGATATGTTC
100969053 TTTATAATGATATAGGAGAGGTACTGCCTGACACACTAGTAGTATCGCCCCCTCATCATTAGGCA
1 TTTATAATGATATAGGAGAGGTACTGCCTGACACACTAGTAGTATCGCCCCCTCATCATTAGGCA
100969118 ATCATCACATTTTAAAAAAAGTA
66 ATCATCACATTTTAAAAAAAGTA
100969141 TTTATAATGATATAGGAGAGGTACTGCCTGACACACTAGTAGTATCGCCCCCTCATCATTAGGCA
1 TTTATAATGATATAGGAGAGGTACTGCCTGACACACTAGTAGTATCGCCCCCTCATCATTAGGCA
100969206 ATCATCACATTTTAAAAAAA
66 ATCATCACATTTTAAAAAAA
100969226 AGTAATCTTT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 85 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (88 bp):
TTTATAATGATATAGGAGAGGTACTGCCTGACACACTAGTAGTATCGCCCCCTCATCATTAGGCA
ATCATCACATTTTAAAAAAAGTA
Found at i:100973437 original size:5 final size:5
Alignment explanation
Indices: 100973427--100973454 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
100973417 ACATTTTAAA
100973427 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
100973455 TAATATTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:100974433 original size:48 final size:48
Alignment explanation
Indices: 100974340--100974431 Score: 168
Period size: 47 Copynumber: 1.9 Consensus size: 48
100974330 GCAATTGACG
*
100974340 TATTTATCTAAATATTAAAAAAATGTTTAAATTTTTAATTATTTTACC
1 TATTTATCTAAATATTAAAAAAAGGTTTAAATTTTTAATTATTTTACC
100974388 TATTTATCTAAATATT-AAAAAAGGTTTAAATTTTTAATTATTTT
1 TATTTATCTAAATATTAAAAAAAGGTTTAAATTTTTAATTATTTT
100974432 TAAAAATAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 27 0.63
48 16 0.37
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.51
Consensus pattern (48 bp):
TATTTATCTAAATATTAAAAAAAGGTTTAAATTTTTAATTATTTTACC
Found at i:100976242 original size:16 final size:15
Alignment explanation
Indices: 100976197--100976249 Score: 52
Period size: 17 Copynumber: 3.3 Consensus size: 15
100976187 AAAAACATAA
*
100976197 AAAAATTTAAAAAAT
1 AAAAATTTTAAAAAT
*
100976212 GAAAATTTATGAAAAAT
1 AAAAATTT-T-AAAAAT
*
100976229 AAAAATCTTTAAAAGT
1 AAAAAT-TTTAAAAAT
100976245 AAAAA
1 AAAAA
100976250 AAATTAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
15 7 0.23
16 10 0.32
17 12 0.39
18 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (15 bp):
AAAAATTTTAAAAAT
Found at i:100977721 original size:23 final size:22
Alignment explanation
Indices: 100977695--100977783 Score: 83
Period size: 23 Copynumber: 3.9 Consensus size: 22
100977685 TTTGTACTAC
100977695 AAAATATTTATTATTAATATTTT
1 AAAATA-TTATTATTAATATTTT
*
100977718 AAAATATTAATATTGAATA-TTT
1 AAAATATTATTATT-AATATTTT
* *
100977740 ACAATATTATGTGAATAATATTATTT
1 AAAATATTAT-T-ATTAATA-T-TTT
100977766 AAAAT-TTATTATTAATAT
1 AAAATATTATTATTAATAT
100977784 AAAATTATTA
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
22 19 0.35
23 21 0.39
24 3 0.06
25 4 0.07
26 7 0.13
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (22 bp):
AAAATATTATTATTAATATTTT
Found at i:100977880 original size:14 final size:14
Alignment explanation
Indices: 100977848--100977874 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
100977838 TTATTATATG
100977848 ATTAAATATAAATA
1 ATTAAATATAAATA
100977862 ATTAAATATAAAT
1 ATTAAATATAAAT
100977875 GTTTAATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATTAAATATAAATA
Found at i:100977893 original size:25 final size:24
Alignment explanation
Indices: 100977865--100977923 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
100977855 ATAAATAATT
100977865 AAATATAAATGTTTAATAATATTAA
1 AAATATAAAT-TTTAATAATATTAA
*
100977890 AAATTATAATATTTTAATAATTTTAA
1 AAA-TATAA-ATTTTAATAATATTAA
100977916 AAA-ATAAA
1 AAATATAAA
100977924 AGTAAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
23 1 0.03
24 4 0.13
25 3 0.10
26 21 0.68
27 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
AAATATAAATTTTAATAATATTAA
Found at i:100977905 original size:26 final size:26
Alignment explanation
Indices: 100977868--100977918 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
100977858 AATAATTAAA
100977868 TATAAATGTTTAATAATATTAAAAAT
1 TATAAATGTTTAATAATATTAAAAAT
*
100977894 TATAATAT-TTTAATAATTTTAAAAA
1 TATAA-ATGTTTAATAATATTAAAAA
100977919 ATAAAAGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
TATAAATGTTTAATAATATTAAAAAT
Found at i:100982436 original size:21 final size:21
Alignment explanation
Indices: 100982410--100982450 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
100982400 CAGACGAGCA
* *
100982410 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
100982431 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
100982451 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:100988330 original size:43 final size:42
Alignment explanation
Indices: 100988282--100988439 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 42
100988272 TAACACATAT
* *
100988282 CGATGCCACTGTCCTAGACAGGGTCTTACACGAAATTGAT-TAA
1 CGATGCCA-TGTCCCAGACAGGGTCTTACACGAAA-TCATATAA
* * *
100988325 CGATGCTGATGTCCCAGACAGGGTCTTATACGTAATCATATAA
1 CGATGC-CATGTCCCAGACAGGGTCTTACACGAAATCATATAA
* * * *
100988368 TGATGCCAATGTCCCAGATATGGTCTTACAC-ATAATCACAGT-A
1 CGATGCC-ATGTCCCAGACAGGGTCTTACACGA-AATCATA-TAA
* *
100988411 CAATGCCAATGTCCCAGACATGGTCTTAC
1 CGATGCC-ATGTCCCAGACAGGGTCTTAC
100988440 GTGGAATCTC
Statistics
Matches: 95, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
42 3 0.03
43 90 0.95
44 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (42 bp):
CGATGCCATGTCCCAGACAGGGTCTTACACGAAATCATATAA
Found at i:100990133 original size:34 final size:31
Alignment explanation
Indices: 100990055--100990148 Score: 95
Period size: 31 Copynumber: 3.0 Consensus size: 31
100990045 ACTATATAAA
100990055 AAAAATA-ATGTATAATATAAATTTTAAAAC
1 AAAAATATATGTATAATATAAATTTTAAAAC
* *
100990085 -AATATATAAGGTATAATGTATAAATTTTGAAAAC
1 AAAAATAT-ATGTATAA--TATAAATTTT-AAAAC
*
100990119 AAAAATATATGTATAA-AGAAAATTTTAAAA
1 AAAAATATATGTATAATA-TAAATTTTAAAA
100990149 TAGAAATTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
29 5 0.10
31 12 0.23
32 7 0.13
33 10 0.19
34 12 0.23
35 6 0.12
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.33
Consensus pattern (31 bp):
AAAAATATATGTATAATATAAATTTTAAAAC
Found at i:100991432 original size:13 final size:14
Alignment explanation
Indices: 100991410--100991446 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
100991400 TATTATTTGG
100991410 ATTTTATTTTG-TT
1 ATTTTATTTTGCTT
*
100991423 ATTTTGTTTTGCTT
1 ATTTTATTTTGCTT
100991437 -TTTTATTTTG
1 ATTTTATTTTG
100991447 GTTCTGGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 19 0.90
14 2 0.10
ACGTcount: A:0.11, C:0.03, G:0.11, T:0.76
Consensus pattern (14 bp):
ATTTTATTTTGCTT
Found at i:100994399 original size:40 final size:40
Alignment explanation
Indices: 100994344--100994424 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
100994334 AATTTTCTTC
100994344 AGAATACTAATAAAAAATCTTTAAAGACTGCATAATTCAA
1 AGAATACTAATAAAAAATCTTTAAAGACTGCATAATTCAA
100994384 AGAATACTAATAAAAAATCTTTAAAGACTGCATAATTCAA
1 AGAATACTAATAAAAAATCTTTAAAGACTGCATAATTCAA
100994424 A
1 A
100994425 CATAACGTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.27
Consensus pattern (40 bp):
AGAATACTAATAAAAAATCTTTAAAGACTGCATAATTCAA
Found at i:100998114 original size:28 final size:28
Alignment explanation
Indices: 100998083--100998137 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
100998073 CAAGGCTGAA
100998083 TTTT-ATCT-CTTGATTTCAATTTCAATCT
1 TTTTAATCTACTTG-TTT-AATTTCAATCT
*
100998111 TTTTAATTTACTTGTTTAATTTCAATC
1 TTTTAATCTACTTGTTTAATTTCAATC
100998138 ATTTACTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 14 0.58
29 6 0.25
30 4 0.17
ACGTcount: A:0.24, C:0.15, G:0.04, T:0.58
Consensus pattern (28 bp):
TTTTAATCTACTTGTTTAATTTCAATCT
Found at i:100999975 original size:23 final size:22
Alignment explanation
Indices: 100999917--100999976 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 22
100999907 TCCACAAGTA
*
100999917 CCGAAGAAGCAAATGACGCCAATC
1 CCGAAGAA--AAATGACGCCAAAC
100999941 CC-AAGAGGAAAATGACGCCACAAC
1 CCGAAGA--AAAATGACGCCA-AAC
100999965 CCGAAGAAAAAT
1 CCGAAGAAAAAT
100999977 AATGAATCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
23 20 0.65
24 6 0.19
25 5 0.16
ACGTcount: A:0.47, C:0.27, G:0.20, T:0.07
Consensus pattern (22 bp):
CCGAAGAAAAATGACGCCAAAC
Found at i:101006704 original size:28 final size:28
Alignment explanation
Indices: 101006672--101006726 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
101006662 CAAGGCTGAC
101006672 TTTT-ATCT-CTTGATTTCAATTTCAATCT
1 TTTTAATCTACTTG-TTT-AATTTCAATCT
*
101006700 TTTTAATTTACTTGTTTAATTTCAATC
1 TTTTAATCTACTTGTTTAATTTCAATC
101006727 ATTTACTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 14 0.58
29 6 0.25
30 4 0.17
ACGTcount: A:0.24, C:0.15, G:0.04, T:0.58
Consensus pattern (28 bp):
TTTTAATCTACTTGTTTAATTTCAATCT
Found at i:101010265 original size:26 final size:26
Alignment explanation
Indices: 101010234--101010341 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
101010224 TGAAATTCCC
*
101010234 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
101010260 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
101010286 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
101010312 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
101010338 ATCA
1 ATCA
101010342 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:101010917 original size:19 final size:21
Alignment explanation
Indices: 101010879--101010918 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
101010869 TACCTTTTTC
*
101010879 AACTCATACTTTTCATTTAAT
1 AACTCATACATTTCATTTAAT
101010900 AACTCA-ACATTT-ATTTAAT
1 AACTCATACATTTCATTTAAT
101010919 TCATACTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.45
Consensus pattern (21 bp):
AACTCATACATTTCATTTAAT
Found at i:101015909 original size:10 final size:10
Alignment explanation
Indices: 101015890--101015921 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
101015880 TTTTAAGATT
101015890 TTAT-TTTAA
1 TTATCTTTAA
101015899 TTATCTTTAA
1 TTATCTTTAA
101015909 TTATCTTTAA
1 TTATCTTTAA
101015919 TTA
1 TTA
101015922 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:101021231 original size:24 final size:23
Alignment explanation
Indices: 101021198--101021267 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
101021188 TGAGTTTATT
* *
101021198 TTTTTCTTTTTCTTTTTCGTTTTA
1 TTTTTATTTTT-TTTTTAGTTTTA
* *
101021222 TTTTTATTTTTATTTTAGCTTTA
1 TTTTTATTTTTTTTTTAGTTTTA
*
101021245 TTTTTGTTTTTGTTTTTAGTTTT
1 TTTTTATTTTT-TTTTTAGTTTT
101021268 TTTATTTTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
23 19 0.50
24 19 0.50
ACGTcount: A:0.09, C:0.06, G:0.07, T:0.79
Consensus pattern (23 bp):
TTTTTATTTTTTTTTTAGTTTTA
Found at i:101021276 original size:6 final size:6
Alignment explanation
Indices: 101021198--101021268 Score: 54
Period size: 6 Copynumber: 11.8 Consensus size: 6
101021188 TGAGTTTATT
* * * * **
101021198 TTTTTC TTTTTC TTTTTC GTTTTA TTTTTA TTTTTA -TTTTA GCTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* *
101021245 TTTTTG TTTTTG TTTTTA GTTTTT
1 TTTTTA TTTTTA TTTTTA -TTTTT
101021269 TTATTTTTGT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
5 5 0.09
6 45 0.82
7 5 0.09
ACGTcount: A:0.08, C:0.06, G:0.07, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:101021281 original size:12 final size:12
Alignment explanation
Indices: 101021198--101021281 Score: 64
Period size: 12 Copynumber: 6.8 Consensus size: 12
101021188 TGAGTTTATT
* *
101021198 TTTTTCTTTTTC
1 TTTTTGTTTTTA
101021210 TTTTTCG-TTTTA
1 TTTTT-GTTTTTA
*
101021222 TTTTTATTTTTA
1 TTTTTGTTTTTA
* *
101021234 TTTTAG-CTTTA
1 TTTTTGTTTTTA
*
101021245 TTTTTGTTTTTG
1 TTTTTGTTTTTA
101021257 TTTTTAGTTTTTTTA
1 TTTTT-G--TTTTTA
101021272 TTTTTGTTTT
1 TTTTTGTTTT
101021282 CTTAGACTTA
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
11 9 0.16
12 35 0.62
13 1 0.02
14 1 0.02
15 10 0.18
ACGTcount: A:0.08, C:0.05, G:0.07, T:0.80
Consensus pattern (12 bp):
TTTTTGTTTTTA
Found at i:101021662 original size:76 final size:76
Alignment explanation
Indices: 101021536--101021678 Score: 259
Period size: 76 Copynumber: 1.9 Consensus size: 76
101021526 CTATTTGTAC
* *
101021536 ATTGAGGATAGTGTACATCTTAAGTGTGGGGAGGTTATTTATAAAATTATTAGAAAATACCTAAA
1 ATTGAGGACAATGTACATCTTAAGTGTGGGGAGGTTATTTATAAAATTATTAGAAAATACCTAAA
101021601 TTATGTCTTTT
66 TTATGTCTTTT
*
101021612 ATTGAGGACAATGTACATCTTAAGTGTGGGGAGGTTATTTATAAAATTATTAGAAAATACCTGAA
1 ATTGAGGACAATGTACATCTTAAGTGTGGGGAGGTTATTTATAAAATTATTAGAAAATACCTAAA
101021677 TT
66 TT
101021679 TTTTTTTATT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 64 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.37
Consensus pattern (76 bp):
ATTGAGGACAATGTACATCTTAAGTGTGGGGAGGTTATTTATAAAATTATTAGAAAATACCTAAA
TTATGTCTTTT
Found at i:101029304 original size:100 final size:100
Alignment explanation
Indices: 101029131--101029315 Score: 289
Period size: 100 Copynumber: 1.8 Consensus size: 100
101029121 CATAAATAGT
* * * * *
101029131 AAAGAAATACATGAATATTGGTAATCTTCATTGAAATAAACAGAAAAAAAACGGCCACCCACATA
1 AAAGAAATACATGAACATTGATAATCTTCATTGAAATAAACAGAAAAAAAAAGGCCAACCACAGA
*
101029196 AACAAAAAAGTCTTGTATTCTTAATTTTTACGTAA
66 AACAAAAAAGTCTGGTATTCTTAATTTTTACGTAA
* *
101029231 AAAGAAATACATGAACATTGATTATCTTCATTGAAATAAACAGGAAAAAAAAATGCCAACCACAG
1 AAAGAAATACATGAACATTGATAATCTTCATTGAAATAAACA-GAAAAAAAAAGGCCAACCACAG
101029296 AAACAAAAAAGTCTGGTATT
65 AAACAAAAAAGTCTGGTATT
101029316 GCCAACCATA
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
100 39 0.51
101 37 0.49
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (100 bp):
AAAGAAATACATGAACATTGATAATCTTCATTGAAATAAACAGAAAAAAAAAGGCCAACCACAGA
AACAAAAAAGTCTGGTATTCTTAATTTTTACGTAA
Found at i:101029319 original size:31 final size:31
Alignment explanation
Indices: 101029284--101029346 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
101029274 GAAAAAAAAA
101029284 TGCCAACCACAGAAACAAAAAAGTCTGGTAT
1 TGCCAACCACAGAAACAAAAAAGTCTGGTAT
* *
101029315 TGCCAACCATAGAAACAAAAAAGTCTTGTAT
1 TGCCAACCACAGAAACAAAAAAGTCTGGTAT
101029346 T
1 T
101029347 CTTAATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.21
Consensus pattern (31 bp):
TGCCAACCACAGAAACAAAAAAGTCTGGTAT
Found at i:101040306 original size:40 final size:40
Alignment explanation
Indices: 101040256--101040365 Score: 127
Period size: 39 Copynumber: 2.8 Consensus size: 40
101040246 CCCGAGTCCA
* * * *
101040256 ATTTCTAGCACAAAGCCTGCGGGACTTTAAG-CCTAGATAT
1 ATTTCCAGCACATAGCCTGCGGGACCTCAAGTCC-AGATAT
*
101040296 ATTTCCAGCACATAGCCTGC-GGACCTCAAGTCCGGATAT
1 ATTTCCAGCACATAGCCTGCGGGACCTCAAGTCCAGATAT
* *
101040335 GTTTCCAGCACGTAGCCTGC-GGACCTCAAGT
1 ATTTCCAGCACATAGCCTGCGGGACCTCAAGT
101040366 TCGGATGTGT
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
39 42 0.68
40 20 0.32
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
ATTTCCAGCACATAGCCTGCGGGACCTCAAGTCCAGATAT
Found at i:101040345 original size:39 final size:39
Alignment explanation
Indices: 101040291--101040380 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 39
101040281 TTTAAGCCTA
*
101040291 GATATATTTCCAGCACATAGCCTGCGGACCTCAAGTCCG
1 GATATGTTTCCAGCACATAGCCTGCGGACCTCAAGTCCG
* *
101040330 GATATGTTTCCAGCACGTAGCCTGCGGACCTCAAGTTCG
1 GATATGTTTCCAGCACATAGCCTGCGGACCTCAAGTCCG
*
101040369 GATGTGTTTCCA
1 GATATGTTTCCA
101040381 AGTATCATGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (39 bp):
GATATGTTTCCAGCACATAGCCTGCGGACCTCAAGTCCG
Found at i:101049319 original size:25 final size:23
Alignment explanation
Indices: 101049267--101049321 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
101049257 TATAAATAGT
101049267 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
101049290 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
101049315 AATAGTG
1 AATAGTG
101049322 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:101049880 original size:10 final size:11
Alignment explanation
Indices: 101049859--101049909 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
101049849 ATGATATTAG
101049859 AAATATGTATA
1 AAATATGTATA
101049870 AAATA-GTATA
1 AAATATGTATA
*
101049880 AAACATGTATA
1 AAATATGTATA
101049891 ACTAATAATGT-TA
1 A--AAT-ATGTATA
101049904 AAATAT
1 AAATAT
101049910 ATACACAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
10 11 0.32
11 14 0.41
13 5 0.15
14 4 0.12
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (11 bp):
AAATATGTATA
Found at i:101049963 original size:24 final size:24
Alignment explanation
Indices: 101049922--101049977 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
101049912 ACACAATAAT
*
101049922 ATATATAACATACAATAT-TGAAAA
1 ATATAT-ACATACAATATACGAAAA
101049946 CATATATACATA-ATATATACGAAAA
1 -ATATATACATACA-ATATACGAAAA
101049971 ATATATA
1 ATATATA
101049978 GATATACATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 16 0.57
25 11 0.39
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (24 bp):
ATATATACATACAATATACGAAAA
Found at i:101050002 original size:30 final size:30
Alignment explanation
Indices: 101049949--101050023 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
101049939 TTGAAAACAT
*
101049949 ATATACATAATATATACGAAAAATATATAG
1 ATATACATAATATATACGAAAAATATATAC
** *
101049979 ATATACATAATATAATA-TTAAAATATTTAC
1 ATATACATAATAT-ATACGAAAAATATATAC
101050009 ATAATACATAA-ATAT
1 AT-ATACATAATATAT
101050024 TAGGGATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 2 0.05
30 26 0.67
31 11 0.28
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.35
Consensus pattern (30 bp):
ATATACATAATATATACGAAAAATATATAC
Found at i:101050069 original size:12 final size:12
Alignment explanation
Indices: 101050052--101050100 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
101050042 ATAATAATGC
*
101050052 TACATAAGTATA
1 TACATAAATATA
101050064 TACATAAATATA
1 TACATAAATATA
* *
101050076 T-CAAAAACATA
1 TACATAAATATA
*
101050087 TACATATATATA
1 TACATAAATATA
101050099 TA
1 TA
101050101 AAAGAAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
11 9 0.30
12 21 0.70
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (12 bp):
TACATAAATATA
Found at i:101050087 original size:23 final size:22
Alignment explanation
Indices: 101050061--101050103 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
101050051 CTACATAAGT
101050061 ATATACATAAATATATCAAAAAC
1 ATATACATAAATATAT-AAAAAC
*
101050084 ATATACATATATATATAAAA
1 ATATACATAAATATATAAAA
101050104 GAAAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.30
Consensus pattern (22 bp):
ATATACATAAATATATAAAAAC
Found at i:101051325 original size:19 final size:20
Alignment explanation
Indices: 101051301--101051349 Score: 68
Period size: 17 Copynumber: 2.6 Consensus size: 20
101051291 AGGGTTTCTT
*
101051301 GGTTTTTTTTTTTTG-GTTA
1 GGTTTTTTTTTTTGGAGTTA
101051320 GG--TTTTTTTTTGGAGTTA
1 GGTTTTTTTTTTTGGAGTTA
101051338 GGTTTTTTTTTT
1 GGTTTTTTTTTT
101051350 GGGCTTAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 10 0.38
18 6 0.23
19 2 0.08
20 8 0.31
ACGTcount: A:0.06, C:0.00, G:0.22, T:0.71
Consensus pattern (20 bp):
GGTTTTTTTTTTTGGAGTTA
Found at i:101051327 original size:16 final size:18
Alignment explanation
Indices: 101051305--101051348 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
101051295 TTTCTTGGTT
*
101051305 TTTTTTTTTTG-GTTAGG
1 TTTTTTTTTGGAGTTAGG
101051322 TTTTTTTTTGGAGTTAGG
1 TTTTTTTTTGGAGTTAGG
101051340 TTTTTTTTT
1 TTTTTTTTT
101051349 TGGGCTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.07, C:0.00, G:0.20, T:0.73
Consensus pattern (18 bp):
TTTTTTTTTGGAGTTAGG
Found at i:101051350 original size:19 final size:18
Alignment explanation
Indices: 101051304--101051352 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 18
101051294 GTTTCTTGGT
*
101051304 TTTTTTTTTTTGGTTAGG
1 TTTTTTTTTTGGGTTAGG
101051322 -TTTTTTTTTGGAGTTAGG
1 TTTTTTTTTTGG-GTTAGG
101051340 TTTTTTTTTTGGG
1 TTTTTTTTTTGGG
101051353 CTTAATGGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 10 0.36
18 7 0.25
19 11 0.39
ACGTcount: A:0.06, C:0.00, G:0.24, T:0.69
Consensus pattern (18 bp):
TTTTTTTTTTGGGTTAGG
Found at i:101053415 original size:41 final size:41
Alignment explanation
Indices: 101053358--101053440 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
101053348 ATTAATTACA
*
101053358 CGGGGAGTTCCTCTACATGTTTTTCTCCTATTTTATTTATT
1 CGGGGAGTTCCTCTACACGTTTTTCTCCTATTTTATTTATT
101053399 CGGGGAGTTCCTCTACACGTTTTTCTCCTATTTTATTTATT
1 CGGGGAGTTCCTCTACACGTTTTTCTCCTATTTTATTTATT
101053440 C
1 C
101053441 TACATCGAGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.14, C:0.22, G:0.14, T:0.49
Consensus pattern (41 bp):
CGGGGAGTTCCTCTACACGTTTTTCTCCTATTTTATTTATT
Found at i:101054187 original size:96 final size:97
Alignment explanation
Indices: 101054023--101054209 Score: 313
Period size: 96 Copynumber: 1.9 Consensus size: 97
101054013 TAATTTTTAA
**
101054023 GAATGTGCTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGTGTCAAAAGGT
1 GAATGTGCTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGT
*
101054088 TCAATATGTTCTTAAG-AAAAATAAAAATTAG
66 TCAATATATTCTTAAGTAAAAATAAAAATTAG
* * *
101054119 GAATGTGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGTTGTCATCTCTCTTCACGTCAAAAGGT
1 GAATGTGCTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGT
101054184 TCAATATATTCTTAAGTAAAAATAAA
66 TCAATATATTCTTAAGTAAAAATAAA
101054210 TAAATAGAAT
Statistics
Matches: 84, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
96 75 0.89
97 9 0.11
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (97 bp):
GAATGTGCTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGT
TCAATATATTCTTAAGTAAAAATAAAAATTAG
Found at i:101054875 original size:10 final size:10
Alignment explanation
Indices: 101054860--101054909 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
101054850 TAATTTTAGG
101054860 ATTTAT-TTT
1 ATTTATCTTT
101054869 CATTTATCTTT
1 -ATTTATCTTT
*
101054880 AATTATCTTT
1 ATTTATCTTT
101054890 ATTTAT-TTGT
1 ATTTATCTT-T
101054900 ATTTATCTTT
1 ATTTATCTTT
101054910 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:101054962 original size:17 final size:17
Alignment explanation
Indices: 101054940--101054973 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
101054930 ACTAGGTTTT
101054940 CTAGTAATATAAATAGG
1 CTAGTAATATAAATAGG
*
101054957 CTAGTACTATAAATAGG
1 CTAGTAATATAAATAGG
101054974 GGATGGAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.09, G:0.18, T:0.29
Consensus pattern (17 bp):
CTAGTAATATAAATAGG
Found at i:101059820 original size:35 final size:35
Alignment explanation
Indices: 101059769--101059843 Score: 134
Period size: 35 Copynumber: 2.2 Consensus size: 35
101059759 TTAATTTAAC
101059769 TCGAA-TAAATATATTCAATTCAATTCGATTCGAA
1 TCGAATTAAATATATTCAATTCAATTCGATTCGAA
*
101059803 TTGAATTAAATATATTCAATTCAATTCGATTCGAA
1 TCGAATTAAATATATTCAATTCAATTCGATTCGAA
101059838 TCGAAT
1 TCGAAT
101059844 CGAATTTCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 4 0.11
35 34 0.89
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.37
Consensus pattern (35 bp):
TCGAATTAAATATATTCAATTCAATTCGATTCGAA
Found at i:101060660 original size:31 final size:31
Alignment explanation
Indices: 101060623--101060726 Score: 163
Period size: 31 Copynumber: 3.3 Consensus size: 31
101060613 TAAAAATAGG
* *
101060623 AACAAACTTTGACACAAACAACTTAACAAAA
1 AACAAACTTTGACATAATCAACTTAACAAAA
101060654 AACAAACTTTGACATAATCAACTTAACAAAAAA
1 AACAAACTTTGACATAATCAACTTAAC--AAAA
101060687 AACAAACTTTGACATAATCAACTTAACAAAA
1 AACAAACTTTGACATAATCAACTTAACAAAA
*
101060718 AAAAAACTT
1 AACAAACTT
101060727 AAAGGGATTT
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
31 37 0.54
33 31 0.46
ACGTcount: A:0.58, C:0.19, G:0.03, T:0.20
Consensus pattern (31 bp):
AACAAACTTTGACATAATCAACTTAACAAAA
Found at i:101060692 original size:33 final size:33
Alignment explanation
Indices: 101060623--101060721 Score: 166
Period size: 33 Copynumber: 3.1 Consensus size: 33
101060613 TAAAAATAGG
* *
101060623 AACAAACTTTGACACAAACAACTTAAC--AAAA
1 AACAAACTTTGACATAATCAACTTAACAAAAAA
101060654 AACAAACTTTGACATAATCAACTTAACAAAAAA
1 AACAAACTTTGACATAATCAACTTAACAAAAAA
101060687 AACAAACTTTGACATAATCAACTTAACAAAAAA
1 AACAAACTTTGACATAATCAACTTAACAAAAAA
101060720 AA
1 AA
101060722 AACTTAAAGG
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 25 0.39
33 39 0.61
ACGTcount: A:0.59, C:0.19, G:0.03, T:0.19
Consensus pattern (33 bp):
AACAAACTTTGACATAATCAACTTAACAAAAAA
Found at i:101063932 original size:11 final size:11
Alignment explanation
Indices: 101063916--101063958 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
101063906 ATATATATTT
101063916 TTTATTATATA
1 TTTATTATATA
101063927 TTTATTATATA
1 TTTATTATATA
* *
101063938 TATATATATCTA
1 TTTAT-TATATA
101063950 TTT-TTATAT
1 TTTATTATAT
101063959 GTTATATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 4 0.15
11 16 0.59
12 7 0.26
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTATTATATA
Found at i:101064027 original size:14 final size:13
Alignment explanation
Indices: 101064008--101064073 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 13
101063998 TGCAAAATAC
101064008 TTATTATATTATTA
1 TTATTATATTA-TA
*
101064022 TTATTATTTTATA
1 TTATTATATTATA
* *
101064035 TTATATTTCCTTATA
1 TTAT-TAT-ATTATA
101064050 TTTTATTCATATTATA
1 --TTATT-ATATTATA
101064066 TTATTATA
1 TTATTATA
101064074 CATAACTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
13 9 0.21
14 17 0.40
15 5 0.12
16 6 0.14
17 5 0.12
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:101070388 original size:77 final size:74
Alignment explanation
Indices: 101070287--101070724 Score: 450
Period size: 77 Copynumber: 5.7 Consensus size: 74
101070277 TGATGTTTTT
101070287 ATTTCTG-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAG
101070351 GTATTTTCA
66 GTATTTTCA
* ** *
101070360 ATTTCTGCTTTTCAAAAAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACACGTT
1 ATTTCTG-TTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATT
*
101070425 GAGGTATTGTCA
63 GAGGTATTTTCA
* * * **
101070437 ATTTCTGTTCAATTTATGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
1 ATTTCTGTT---TTCA-------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
*
101070502 ACACGTTGAGGTATTTTCA
56 ACACATTGAGGTATTTTCA
* * *
101070521 ATTTCTGTTTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCT
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACACAT--T
*
101070584 GAGGTATTTTTA
63 GAGGTATTTTCA
* * * *
101070596 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCTTCAGATCACACACT
1 ATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-A-GACACATT
*
101070661 GGGGTATTTTTTCA
63 GAGGTA--TTTTCA
* * *
101070675 ATTTATATTTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
1 ATTTCT-GTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
101070725 TTTTTAATTT
Statistics
Matches: 307, Mismatches: 33, Indels: 44
0.80 0.09 0.11
Matches are distributed among these distances:
72 1 0.00
73 45 0.15
75 24 0.08
76 6 0.02
77 107 0.35
79 55 0.18
80 1 0.00
81 2 0.01
84 66 0.21
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (74 bp):
ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAG
GTATTTTCA
Found at i:101071551 original size:18 final size:19
Alignment explanation
Indices: 101071530--101071579 Score: 84
Period size: 18 Copynumber: 2.7 Consensus size: 19
101071520 GCCCATTAAG
*
101071530 CCAAAAAAAAACCTAA-CT
1 CCAAAAAAAAACCTAACCC
101071548 CCAAAAAAAAACCTAACCC
1 CCAAAAAAAAACCTAACCC
101071567 CCAAAAAAAAACC
1 CCAAAAAAAAACC
101071580 AAGAAACCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 16 0.53
19 14 0.47
ACGTcount: A:0.62, C:0.32, G:0.00, T:0.06
Consensus pattern (19 bp):
CCAAAAAAAAACCTAACCC
Found at i:101072878 original size:23 final size:22
Alignment explanation
Indices: 101072841--101072883 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
101072831 TTATTTTTTC
101072841 TTTTATATATATATGTATATGT
1 TTTTATATATATATGTATATGT
*
101072863 TTTTGATATATTTATGTATAT
1 TTTT-ATATATATATGTATAT
101072884 ACTTATGTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.60
Consensus pattern (22 bp):
TTTTATATATATATGTATATGT
Found at i:101072976 original size:30 final size:30
Alignment explanation
Indices: 101072921--101072995 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
101072911 TTTATCCCTA
*
101072921 ATAT-TTATGTATTATGTAAATA-TTTTAAT
1 ATATATTATGTA-TATCTAAATATTTTTAAT
* **
101072950 ATTATATTATGTATATCTATATATTTTTCGT
1 A-TATATTATGTATATCTAAATATTTTTAAT
101072981 ATATATTATGTATAT
1 ATATATTATGTATAT
101072996 ATGTTTTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 1 0.03
30 25 0.64
31 13 0.33
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.56
Consensus pattern (30 bp):
ATATATTATGTATATCTAAATATTTTTAAT
Found at i:101073008 original size:24 final size:25
Alignment explanation
Indices: 101072967--101073022 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
101072957 TATGTATATC
*
101072967 TATATATTTTTCGTATATAT-TATG-
1 TATATATTTTTCGAATAT-TGTATGT
101072991 TATATATGTTTTC-AATATTGTATGT
1 TATATAT-TTTTCGAATATTGTATGT
101073016 TATATAT
1 TATATAT
101073023 ATTATTGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 15 0.54
25 12 0.43
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (25 bp):
TATATATTTTTCGAATATTGTATGT
Found at i:101073077 original size:10 final size:11
Alignment explanation
Indices: 101073035--101073085 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
101073025 TATTGTGTAT
101073035 ATATTTTA-AC
1 ATATTTTATAC
101073045 ATTATTAGTTATAC
1 A-TATT--TTATAC
*
101073059 ATGTTTTATAC
1 ATATTTTATAC
101073070 -TATTTTATAC
1 ATATTTTATAC
101073080 ATATTT
1 ATATTT
101073086 CTAATATCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
10 10 0.29
11 15 0.44
13 6 0.18
14 3 0.09
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (11 bp):
ATATTTTATAC
Found at i:101073219 original size:20 final size:18
Alignment explanation
Indices: 101073183--101073222 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
101073173 ATTTCTAATA
*
101073183 TATATATTATATGTATTT
1 TATATATTATATATATTT
101073201 TATATATTATGTATATATTT
1 TATATATTA--TATATATTT
101073221 TA
1 TA
101073223 ATGTTATTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (18 bp):
TATATATTATATATATTT
Found at i:101073299 original size:24 final size:24
Alignment explanation
Indices: 101073272--101073317 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
101073262 ATATATTTTT
*
101073272 ATATCATCTTATGTACATATATAA
1 ATATCATCTTATATACATATATAA
* *
101073296 ATATTATGTTATATACATATAT
1 ATATCATCTTATATACATATAT
101073318 GTAATATGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (24 bp):
ATATCATCTTATATACATATATAA
Found at i:101073511 original size:37 final size:35
Alignment explanation
Indices: 101073446--101073515 Score: 81
Period size: 37 Copynumber: 1.9 Consensus size: 35
101073436 TTATATATAG
101073446 TATTATTTTCATACATTATCATATTTATTATTATACC
1 TATTATTTTCATA-ATTATCATATTTATT-TTATACC
101073483 TATTATTTTCACT-ATTATCACT-TATTATTTTAT
1 TATTATTTTCA-TAATTATCA-TAT-TTATTTTAT
101073516 TTTAATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
36 12 0.40
37 17 0.57
38 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (35 bp):
TATTATTTTCATAATTATCATATTTATTTTATACC
Found at i:101073651 original size:25 final size:24
Alignment explanation
Indices: 101073623--101073678 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
101073613 GTTATATTTT
*
101073623 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
101073648 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
101073671 CACTATTA
1 CACTATTA
101073679 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:101075964 original size:96 final size:97
Alignment explanation
Indices: 101075842--101076028 Score: 313
Period size: 96 Copynumber: 1.9 Consensus size: 97
101075832 ATTCTATTTA
* **
101075842 TTTATTTTTACTTAAGAATATATTGAACCTTTTGACGTGAAGAGAGATGACAACCAAGCACCCCA
1 TTTATTTTTACTTAAGAACATATTGAACCTTTTGACACGAAGAGAGATGACAACCAAGCACCCCA
101075907 CCCCGGTTACTCAGCCCAACACATTCCTAATT
66 CCCCGGTTACTCAGCCCAACACATTCCTAATT
* *
101075939 TTTATTTTT-CTTAAGAACATATTGAACCTTTTGACACGAAGAGAGATGACAGCCAAGCACCTCA
1 TTTATTTTTACTTAAGAACATATTGAACCTTTTGACACGAAGAGAGATGACAACCAAGCACCCCA
*
101076003 CCCCGGTTACTCAGCCCAGCACATTC
66 CCCCGGTTACTCAGCCCAACACATTC
101076029 TTAAAAATTA
Statistics
Matches: 84, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
96 75 0.89
97 9 0.11
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATTGAACCTTTTGACACGAAGAGAGATGACAACCAAGCACCCCA
CCCCGGTTACTCAGCCCAACACATTCCTAATT
Found at i:101076656 original size:41 final size:41
Alignment explanation
Indices: 101076611--101076693 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
101076601 CCTCGATGTA
*
101076611 GAATAAATAAAATAGGAGAAAAACGTGTAGAGGAACTCCCC
1 GAATAAATAAAATAGGAGAAAAACATGTAGAGGAACTCCCC
101076652 GAATAAATAAAATAGGAGAAAAACATGTAGAGGAACTCCCC
1 GAATAAATAAAATAGGAGAAAAACATGTAGAGGAACTCCCC
101076693 G
1 G
101076694 TGTAATTAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.49, C:0.14, G:0.22, T:0.14
Consensus pattern (41 bp):
GAATAAATAAAATAGGAGAAAAACATGTAGAGGAACTCCCC
Found at i:101078723 original size:18 final size:18
Alignment explanation
Indices: 101078698--101078749 Score: 95
Period size: 19 Copynumber: 2.8 Consensus size: 18
101078688 GCCCATTAAG
101078698 CCCAAAAAAAAAACCTAA
1 CCCAAAAAAAAAACCTAA
101078716 CTCCAAAAAAAAAACCTAA
1 C-CCAAAAAAAAAACCTAA
101078735 CCCAAAAAAAAAACC
1 CCCAAAAAAAAAACC
101078750 AAGAAACCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.65, C:0.29, G:0.00, T:0.06
Consensus pattern (18 bp):
CCCAAAAAAAAAACCTAA
Found at i:101079972 original size:21 final size:21
Alignment explanation
Indices: 101079946--101079986 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
101079936 TTTATTTTTC
101079946 TTTTATATATATATGTATATT
1 TTTTATATATATATGTATATT
*
101079967 TTTTATATATTTATGTATAT
1 TTTTATATATATATGTATAT
101079987 ACTTATGTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (21 bp):
TTTTATATATATATGTATATT
Found at i:101080079 original size:30 final size:30
Alignment explanation
Indices: 101080024--101080098 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
101080014 TTTATCCCTA
*
101080024 ATAT-TTATGTAATATGTAAATA-TTTTAAT
1 ATATATTATGT-ATATCTAAATATTTTTAAT
* **
101080053 ATTATATTATGTATATCTATATATTTTTCGT
1 A-TATATTATGTATATCTAAATATTTTTAAT
101080084 ATATATTATGTATAT
1 ATATATTATGTATAT
101080099 ATGTTTTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 1 0.03
30 26 0.67
31 12 0.31
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.55
Consensus pattern (30 bp):
ATATATTATGTATATCTAAATATTTTTAAT
Found at i:101080111 original size:24 final size:25
Alignment explanation
Indices: 101080070--101080125 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
101080060 TATGTATATC
*
101080070 TATATATTTTTCGTATATAT-TATG-
1 TATATATTTTTCGAATAT-TGTATGT
101080094 TATATATGTTTTC-AATATTGTATGT
1 TATATAT-TTTTCGAATATTGTATGT
101080119 TATATAT
1 TATATAT
101080126 ATTATTGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 15 0.54
25 12 0.43
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (25 bp):
TATATATTTTTCGAATATTGTATGT
Found at i:101080323 original size:20 final size:18
Alignment explanation
Indices: 101080287--101080326 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
101080277 ATTTCTAATA
*
101080287 TATATATTATATGTATTT
1 TATATATTATATATATTT
101080305 TATATATTATGTATATATTT
1 TATATATTA--TATATATTT
101080325 TA
1 TA
101080327 ATGTTATTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (18 bp):
TATATATTATATATATTT
Found at i:101080403 original size:24 final size:24
Alignment explanation
Indices: 101080376--101080421 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
101080366 ATATATTTTT
*
101080376 ATATCATCTTATGTACATATATAA
1 ATATCATCTTATATACATATATAA
* *
101080400 ATATTATGTTATATACATATAT
1 ATATCATCTTATATACATATAT
101080422 GTAATATGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (24 bp):
ATATCATCTTATATACATATATAA
Found at i:101080615 original size:37 final size:35
Alignment explanation
Indices: 101080550--101080619 Score: 81
Period size: 37 Copynumber: 1.9 Consensus size: 35
101080540 TTATATATAG
101080550 TATTATTTTCATACATTATCATATTTATTATTATACC
1 TATTATTTTCATA-ATTATCATATTTATT-TTATACC
101080587 TATTATTTTCACT-ATTATCACT-TATTATTTTAT
1 TATTATTTTCA-TAATTATCA-TAT-TTATTTTAT
101080620 TTTAATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
36 12 0.40
37 17 0.57
38 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (35 bp):
TATTATTTTCATAATTATCATATTTATTTTATACC
Found at i:101080756 original size:25 final size:24
Alignment explanation
Indices: 101080728--101080783 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
101080718 GTTATATTTT
*
101080728 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
101080753 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
101080776 CACTATTA
1 CACTATTA
101080784 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:101084400 original size:21 final size:22
Alignment explanation
Indices: 101084360--101084403 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
101084350 TTTTAGGCGC
101084360 TCCTATTAATAATCATTTTCAT
1 TCCTATTAATAATCATTTTCAT
* *
101084382 TCCTTTTAA-AATTATTTTCAT
1 TCCTATTAATAATCATTTTCAT
101084403 T
1 T
101084404 TTGGTCACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.55
Consensus pattern (22 bp):
TCCTATTAATAATCATTTTCAT
Found at i:101088782 original size:41 final size:41
Alignment explanation
Indices: 101088722--101088808 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 41
101088712 CGGAGAAGAC
* *
101088722 TACTTGATCAAAGCGTTCATCTTAAACCAATCGAAAAAGTA
1 TACTTAATCAAAGCATTCATCTTAAACCAATCGAAAAAGTA
* * * *
101088763 TACTTAATCGAAGCATTCATCTTAATCTAATCGAAAATGTA
1 TACTTAATCAAAGCATTCATCTTAAACCAATCGAAAAAGTA
*
101088804 CACTT
1 TACTT
101088809 TTGATTAAGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (41 bp):
TACTTAATCAAAGCATTCATCTTAAACCAATCGAAAAAGTA
Found at i:101100637 original size:18 final size:19
Alignment explanation
Indices: 101100616--101100676 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
101100606 TTTAAAAAAA
101100616 TATAAAT-TTTGGAATTTT
1 TATAAATATTTGGAATTTT
*
101100634 TATAAATATTTTGAA-TTT
1 TATAAATATTTGGAATTTT
* *
101100652 TAAAAATTATTTTGAATTTT
1 TATAAA-TATTTGGAATTTT
101100672 T-TAAA
1 TATAAA
101100677 ATTATTTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 15 0.41
19 18 0.49
20 4 0.11
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:101100679 original size:10 final size:9
Alignment explanation
Indices: 101100628--101100693 Score: 51
Period size: 10 Copynumber: 6.9 Consensus size: 9
101100618 TAAATTTTGG
101100628 AATTTTTATA
1 AATTTTT-TA
* *
101100638 AATATTTTG
1 AATTTTTTA
**
101100647 AATTTTAAA
1 AATTTTTTA
*
101100656 AATTATTTTG
1 AATT-TTTTA
101100666 AATTTTTTAA
1 AATTTTTT-A
101100676 AATTATTTTA
1 AATT-TTTTA
101100686 AATTTTTT
1 AATTTTTT
101100694 TGTAATTTTG
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
9 18 0.42
10 21 0.49
11 4 0.09
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (9 bp):
AATTTTTTA
Found at i:101100693 original size:20 final size:20
Alignment explanation
Indices: 101100621--101100693 Score: 89
Period size: 20 Copynumber: 3.7 Consensus size: 20
101100611 AAAAATATAA
101100621 ATTTTGGAA-TTTTTATAAA-T
1 ATTTT-GAATTTTTTA-AAATT
*
101100641 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTTAAAATT
101100660 ATTTTGAATTTTTTAAAATT
1 ATTTTGAATTTTTTAAAATT
*
101100680 ATTTTAAATTTTTT
1 ATTTTGAATTTTTT
101100694 TGTAATTTTG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
18 3 0.06
19 17 0.35
20 28 0.58
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
ATTTTGAATTTTTTAAAATT
Found at i:101105227 original size:130 final size:129
Alignment explanation
Indices: 101104968--101105437 Score: 513
Period size: 131 Copynumber: 3.6 Consensus size: 129
101104958 CCAACGAAAA
* * * * * * * *
101104968 AAATCGAAACCCAGCAC-AGTAGGGCACGATTCCTCGAATTTCTAGACATCGGATATTGCCTT-A
1 AAATCGCAACCCAGCACGA-TAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCG
** *
101105031 TTTT--AGAATTTAGAAAACAT-GAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACCAACA
65 TTTTAAAGAATTTTTAAAACATGGA-TGAAATTCTAAAGGAATATTCGATTATTTTGAA-CAACG
101105093 GG
128 GG
* *
101105095 AAATCGCAACCCAGCACGATAGGGCACGATTCCCCGAATTGCC-AACATCGAACATTACTTTCGT
1 AAATCGCAACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGT
* * *
101105159 TTTAGAGAATTTTTAAAGACATGGATGAAATTCCAAAGGAATATTCGATTGTTTTGAACAACCGG
66 TTTAAAGAATTTTTAAA-ACATGGATGAAATTCTAAAGGAATATTCGATTATTTTGAACAA-CGG
101105224 G
129 G
* * * * * *
101105225 AAATTGCAACCCAGCACGATAGGGCACGACTCCCTGAATTGCCAAACATCTAACGTT-CTTTCGT
1 AAATCGCAACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGT
* * * * *
101105289 TTTAAAGAGTTTTTAGAAAACATGAATGAAATTCTAAAGGGACATTCGATTATTTTGAGCAAACG
66 TTTAAAGAATTTTT--AAAACATGGATGAAATTCTAAAGGAATATTCGATTATTTTGAAC-AACG
*
101105354 AG
128 GG
* * ** * *
101105356 AAATTGCAACCCAGCACGTTAGGGCACGATTCCGTGAATTGCCAAATATCGAACATCGCCTTCGT
1 AAATCGCAACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGT
101105421 TTTAAAGAATTTTTAAA
66 TTTAAAGAATTTTTAAA
101105438 TGAATAATTA
Statistics
Matches: 293, Mismatches: 38, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
126 13 0.04
127 41 0.14
128 1 0.00
129 13 0.04
130 100 0.34
131 101 0.34
132 24 0.08
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (129 bp):
AAATCGCAACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGT
TTTAAAGAATTTTTAAAACATGGATGAAATTCTAAAGGAATATTCGATTATTTTGAACAACGGG
Found at i:101105366 original size:131 final size:131
Alignment explanation
Indices: 101105039--101105435 Score: 539
Period size: 131 Copynumber: 3.0 Consensus size: 131
101105029 TATTTTAGAA
* * *
101105039 TTTAGAAAACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACCAAC-AGGAAATCGCA
1 TTTAGAAAACATGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGA-GAAATTGCA
* *
101105103 ACCCAGCACGATAGGGCACGATTCCCCGAATTGCC-AACATCGAACATTACTTTCGTTTTAGAGA
65 ACCCAGCACGATAGGGCACGATTCCCTGAATTGCCAAACATCGAACATT-CTTTCGTTTTAAAGA
101105167 ATT
129 ATT
* * * * * *
101105170 TTTA-AAGACATGGATGAAATTCCAAAGGAATATTCGATTGTTTTGAACAACCGGGAAATTGCAA
1 TTTAGAAAACATGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGAGAAATTGCAA
* * * *
101105234 CCCAGCACGATAGGGCACGACTCCCTGAATTGCCAAACATCTAACGTTCTTTCGTTTTAAAGAGT
66 CCCAGCACGATAGGGCACGATTCCCTGAATTGCCAAACATCGAACATTCTTTCGTTTTAAAGAAT
101105299 T
131 T
* * *
101105300 TTTAGAAAACATGAATGAAATTCTAAAGGGACATTCGATTATTTTGAGCAAACGAGAAATTGCAA
1 TTTAGAAAACATGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGAGAAATTGCAA
* * * * *
101105365 CCCAGCACGTTAGGGCACGATTCCGTGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAA
66 CCCAGCACGATAGGGCACGATTCCCTGAATTGCCAAACATCGAACAT-TCTTTCGTTTTAAAGAA
101105430 TT
130 TT
101105432 TTTA
1 TTTA
101105436 AATGAATAAT
Statistics
Matches: 229, Mismatches: 33, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
130 102 0.45
131 107 0.47
132 20 0.09
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (131 bp):
TTTAGAAAACATGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGAGAAATTGCAA
CCCAGCACGATAGGGCACGATTCCCTGAATTGCCAAACATCGAACATTCTTTCGTTTTAAAGAAT
T
Found at i:101110200 original size:10 final size:10
Alignment explanation
Indices: 101110185--101110216 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
101110175 TAAATACATT
101110185 TAATTAAAGA
1 TAATTAAAGA
101110195 TAATTAAAGA
1 TAATTAAAGA
101110205 TAATTAAA-A
1 TAATTAAAGA
101110214 TAA
1 TAA
101110217 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:101110242 original size:27 final size:26
Alignment explanation
Indices: 101110212--101110273 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
101110202 AGATAATTAA
101110212 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
101110239 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
101110266 AATAAAAT
1 AATAAAAT
101110274 AGAGTCTTCC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 9 0.31
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:101111162 original size:118 final size:118
Alignment explanation
Indices: 101111002--101111215 Score: 392
Period size: 118 Copynumber: 1.8 Consensus size: 118
101110992 TATTTCCGGT
101111002 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
101111067 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
****
101111120 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
101111185 CCTACCCCGGTTACTCAGTCAGTCACGATTT
66 CCTACCCCGGTTACTCAGTCAGTCACGATTT
101111216 AAGCTGTACT
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 92 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
Found at i:101112217 original size:7 final size:7
Alignment explanation
Indices: 101112205--101112265 Score: 58
Period size: 7 Copynumber: 8.9 Consensus size: 7
101112195 AAATAAAATA
101112205 AAATAAT
1 AAATAAT
101112212 AAATAAT
1 AAATAAT
101112219 AAATAAT
1 AAATAAT
101112226 AAATAA-
1 AAATAAT
*
101112232 AAGA-AAGGA
1 AA-ATAA--T
101112241 AAATAAT
1 AAATAAT
101112248 AAATAA-
1 AAATAAT
101112254 AAATAA-
1 AAATAAT
101112260 AAATAA
1 AAATAA
101112266 AAAGAAAGAT
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
6 16 0.33
7 27 0.56
8 1 0.02
9 4 0.08
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (7 bp):
AAATAAT
Found at i:101112228 original size:22 final size:20
Alignment explanation
Indices: 101112201--101112265 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 20
101112191 ACTAAAATAA
101112201 AATAAAATAATAAATAATAAAT
1 AATAAAATAA-AAATAA-AAAT
*
101112223 AAT-AAATAAAAGAAAGGAAAAT
1 AATAAAATAAAA-ATA--AAAAT
101112245 AAT-AAATAAAAATAAAAAT
1 AATAAAATAAAAATAAAAAT
101112264 AA
1 AA
101112266 AAAGAAAGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 7 0.18
20 2 0.05
21 10 0.26
22 18 0.47
23 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (20 bp):
AATAAAATAAAAATAAAAAT
Found at i:101118637 original size:10 final size:10
Alignment explanation
Indices: 101118622--101118653 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
101118612 TAAGTACATT
101118622 TAATTAAAGA
1 TAATTAAAGA
101118632 TAATTAAAGA
1 TAATTAAAGA
101118642 TAATTAAA-A
1 TAATTAAAGA
101118651 TAA
1 TAA
101118654 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:101118679 original size:27 final size:26
Alignment explanation
Indices: 101118649--101118710 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
101118639 AGATAATTAA
101118649 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
101118676 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
101118703 AATAAAAT
1 AATAAAAT
101118711 AGAGTCTTCC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 9 0.31
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:101127677 original size:33 final size:33
Alignment explanation
Indices: 101127590--101127679 Score: 119
Period size: 33 Copynumber: 2.7 Consensus size: 33
101127580 TGTATATATG
*
101127590 TAAGACCATAGCTAGGTTATGACATATTAATGA
1 TAAGACCATAGCTAGGTTATGGCATATTAATGA
* *
101127623 TAAGACCATAGCTGGGCTATGGCAT-TCTAATGA
1 TAAGACCATAGCTAGGTTATGGCATAT-TAATGA
**
101127656 TAAGACCATAATTAGGTTATGGCA
1 TAAGACCATAGCTAGGTTATGGCA
101127680 CAATAGACAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
32 1 0.02
33 48 0.98
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (33 bp):
TAAGACCATAGCTAGGTTATGGCATATTAATGA
Found at i:101129471 original size:10 final size:10
Alignment explanation
Indices: 101129455--101129487 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
101129445 AAAGATGCTG
101129455 AAAGAAA-AA
1 AAAGAAAGAA
101129464 AAATGAAAGAA
1 AAA-GAAAGAA
101129475 AAAGAAAGAA
1 AAAGAAAGAA
101129485 AAA
1 AAA
101129488 AAGTTGCAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 3 0.14
10 14 0.64
11 5 0.23
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:101129472 original size:14 final size:15
Alignment explanation
Indices: 101129453--101129489 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
101129443 GTAAAGATGC
101129453 TGAAAGAAAAA-AAA
1 TGAAAGAAAAAGAAA
101129467 TGAAAGAAAAAGAAA
1 TGAAAGAAAAAGAAA
101129482 -GAAA-AAAA
1 TGAAAGAAAA
101129490 GTTGCAGCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.18
14 15 0.68
15 3 0.14
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.05
Consensus pattern (15 bp):
TGAAAGAAAAAGAAA
Found at i:101131105 original size:19 final size:20
Alignment explanation
Indices: 101131076--101131114 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
101131066 TCGTGTTATA
101131076 TTTATTTATTT-TCTTGTATT
1 TTTATTTATTTCTC-TGTATT
101131096 TTTA-TTATTTCTCTGTATT
1 TTTATTTATTTCTCTGTATT
101131115 GTATGTCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.15, C:0.08, G:0.05, T:0.72
Consensus pattern (20 bp):
TTTATTTATTTCTCTGTATT
Found at i:101131531 original size:69 final size:69
Alignment explanation
Indices: 101131420--101131557 Score: 204
Period size: 69 Copynumber: 2.0 Consensus size: 69
101131410 TTTGGCGATC
* * * * * **
101131420 TGCATAAGATGAGGCTACCTAGTCACTTTATGAGTCGTCTTATTAATAATTTGTCGTGTTTATTA
1 TGCATAAGACGAGACTACCCAGTCACTTTATGAGTCGCCTTATTAATAATTTATCGTGTCCATTA
101131485 GAAA
66 GAAA
*
101131489 TGCATAAGACGAGACTACCCAGTCATTTTATGAGTCGCCTTATTAATAATTTATCGTGTCCATTA
1 TGCATAAGACGAGACTACCCAGTCACTTTATGAGTCGCCTTATTAATAATTTATCGTGTCCATTA
101131554 GAAA
66 GAAA
101131558 AACAGATGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.36
Consensus pattern (69 bp):
TGCATAAGACGAGACTACCCAGTCACTTTATGAGTCGCCTTATTAATAATTTATCGTGTCCATTA
GAAA
Found at i:101132389 original size:21 final size:22
Alignment explanation
Indices: 101132351--101132391 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
101132341 GGTTTAAATT
*
101132351 TTTTGTCTCTTCATTTTTTTTG
1 TTTTGTCTCTTCAGTTTTTTTG
*
101132373 TTTT-TCTTTTCAGTTTTTT
1 TTTTGTCTCTTCAGTTTTTT
101132392 ACGAATCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.76
Consensus pattern (22 bp):
TTTTGTCTCTTCAGTTTTTTTG
Found at i:101133630 original size:27 final size:29
Alignment explanation
Indices: 101133583--101133639 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
101133573 TTAATTTAGC
* *
101133583 ATTATTTACTATTATTATTGTTAT-TTTT
1 ATTATTTACTACTATTATTGTCATCTTTT
*
101133611 ATTA-TTACTACTATTTTTGTCATCTTTT
1 ATTATTTACTACTATTATTGTCATCTTTT
101133639 A
1 A
101133640 AACTGTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.63
Consensus pattern (29 bp):
ATTATTTACTACTATTATTGTCATCTTTT
Found at i:101135654 original size:25 final size:25
Alignment explanation
Indices: 101135624--101135708 Score: 77
Period size: 26 Copynumber: 3.4 Consensus size: 25
101135614 AAAATCGTTC
*
101135624 ACATATAAAATGGTATAACAAAATA
1 ACATATAAAATAGTATAACAAAATA
*
101135649 ACATATAAAA-ACT-TAA-AACAGATA
1 ACATATAAAATAGTATAACAA-A-ATA
* *
101135673 ATATATAAAATAGTTTAACAAGAATA
1 ACATATAAAATAGTATAACAA-AATA
*
101135699 ACGTATAAAA
1 ACATATAAAA
101135709 ATATTTAGAA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
22 2 0.04
23 4 0.08
24 13 0.27
25 12 0.25
26 14 0.29
27 3 0.06
ACGTcount: A:0.60, C:0.08, G:0.07, T:0.25
Consensus pattern (25 bp):
ACATATAAAATAGTATAACAAAATA
Found at i:101135699 original size:26 final size:24
Alignment explanation
Indices: 101135639--101135728 Score: 62
Period size: 26 Copynumber: 3.6 Consensus size: 24
101135629 TAAAATGGTA
* *
101135639 TAACAAAATAACATATAAAA-ACT
1 TAACAAAATAATATATAAAATATT
101135662 TAA-AACAGATAATATATAAAATAGTT
1 TAACAA-A-ATAATATATAAAATA-TT
101135688 TAACAAGAATAACGTATA-AAAATATT
1 TAACAA-AATAA--TATATAAAATATT
101135714 TAGA-ATAAATAATAT
1 TA-ACA-AAATAATAT
101135729 GAAAAGAGAT
Statistics
Matches: 55, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
22 2 0.04
23 4 0.07
24 15 0.27
25 1 0.02
26 18 0.33
27 11 0.20
28 4 0.07
ACGTcount: A:0.60, C:0.07, G:0.06, T:0.28
Consensus pattern (24 bp):
TAACAAAATAATATATAAAATATT
Found at i:101136928 original size:15 final size:15
Alignment explanation
Indices: 101136908--101136937 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
101136898 CTGTTACCAT
*
101136908 TTGTTTTTTTGTTTG
1 TTGTTTGTTTGTTTG
101136923 TTGTTTGTTTGTTTG
1 TTGTTTGTTTGTTTG
101136938 CTGCTTGCGT
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:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (15 bp):
TTGTTTGTTTGTTTG
Found at i:101137567 original size:44 final size:44
Alignment explanation
Indices: 101137511--101137765 Score: 157
Period size: 44 Copynumber: 5.6 Consensus size: 44
101137501 TTGATCTGAC
* *
101137511 CTACTGTAACTTCAGAGGTATAGGATTTATAGCCTTAATCTGCT
1 CTACTGCAACTTCAGAGGTATAAGATTTATAGCCTTAATCTGCT
* * *
101137555 CTACTGCAACTTCAGAGAG-ATAAGATTTGCTA-TCTTCGATCTGCT
1 CTACTGCAACTTCAGAG-GTATAAGATTT-ATAGCCTT-AATCTGCT
* * * * *
101137600 GC-ACTGTAACTTTAG-GG-AGATA-ATGTTAAAGACTTTAATCTGCT
1 -CTACTGCAACTTCAGAGGTATA-AGAT-TTATAG-CCTTAATCTGCT
** ** * *
101137644 CTACTGCAACTTCAGAGAAATAAGATTTGCCATGGTAGATTTGATCCGAC-
1 CTACTGCAACTTCAGAGGTATAAGATTT---A---TAGCCTTAATCTG-CT
* *
101137694 CTACTGCAACTTCAGAGGTATAGGATTTATAGCCTTAATCTACT
1 CTACTGCAACTTCAGAGGTATAAGATTTATAGCCTTAATCTGCT
101137738 CTACTGCAACTTCAGAGAG-ATAAGATTT
1 CTACTGCAACTTCAGAG-GTATAAGATTT
101137766 GCTATCTTCA
Statistics
Matches: 160, Mismatches: 30, Indels: 42
0.69 0.13 0.18
Matches are distributed among these distances:
43 8 0.05
44 82 0.51
45 28 0.17
46 5 0.03
47 1 0.01
48 1 0.01
50 32 0.20
51 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (44 bp):
CTACTGCAACTTCAGAGGTATAAGATTTATAGCCTTAATCTGCT
Found at i:101137646 original size:89 final size:87
Alignment explanation
Indices: 101137535--101137805 Score: 276
Period size: 89 Copynumber: 3.0 Consensus size: 87
101137525 GAGGTATAGG
*
101137535 ATTTATAGCCTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCGATCTGCT
1 ATTTAAAGCCTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCGATCTGCT
* *
101137600 GCACTGTAACTTTAGGGAGATA
66 GCACTGCAACTTCAGGGAGATA
* * * ** * *
101137622 ATGTTAAAGACTTTAATCTGCTCTACTGCAACTTCAGAGAAATAAGATTTGCCATGGTAGATTTG
1 AT-TTAAAG-CCTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCGATCTG
* *
101137687 ATCCGACCTACTGCAACTTCAGAGG-TATA
64 --CTG--C-ACTGCAACTTCAG-GGAGATA
* *
101137716 GGATTTATAGCCTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTC-AGTCT
1 --ATTTAAAGCCTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCGA-TCT
** *
101137780 ATTCCACTGCAACTTCAGGGAGATA
63 GCTGCACTGCAACTTCAGGGAGATA
101137805 A
1 A
101137806 GGTTTGCTAT
Statistics
Matches: 146, Mismatches: 26, Indels: 24
0.74 0.13 0.12
Matches are distributed among these distances:
87 3 0.02
88 7 0.05
89 64 0.44
90 1 0.01
91 2 0.01
93 2 0.01
94 58 0.40
95 7 0.05
96 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (87 bp):
ATTTAAAGCCTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCGATCTGCT
GCACTGCAACTTCAGGGAGATA
Found at i:101137718 original size:183 final size:182
Alignment explanation
Indices: 101137417--101137805 Score: 557
Period size: 183 Copynumber: 2.1 Consensus size: 182
101137407 TTTAACCTAT
* * *** * * *
101137417 TCCACTGCAACTTCAGGGAAATAAGGTTTGTGACTTCAATCTGCTCCACTGCAACTTTAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAATGTTAAAGACTTCAATCTGCTCCACTGCAACTTCAGAGAAA
* * *
101137482 TGAGATTCTCCATGGTAACTTGATCTGACCTACTGTAACTTCAGAGGTATAGGATTTATAGCCTT
66 TAAGATTCTCCATGGTAACTTGATCCGACCTACTGCAACTTCAGAGGTATAGGATTTATAGCCTT
* *
101137547 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTC-GATCTGC
131 AATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAG-TCTAC
* * * * *
101137599 TGCACTGTAACTTTAGGGAGATAATGTTAAAGACTTTAATCTGCTCTACTGCAACTTCAGAGAAA
1 TCCACTGCAACTTCAGGGAGATAATGTTAAAGACTTCAATCTGCTCCACTGCAACTTCAGAGAAA
*
101137664 TAAGATT-TGCCATGGTAGATTTGATCCGACCTACTGCAACTTCAGAGGTATAGGATTTATAGCC
66 TAAGATTCT-CCATGGTA-ACTTGATCCGACCTACTGCAACTTCAGAGGTATAGGATTTATAGCC
*
101137728 TTAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTAT
129 TTAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTAC
101137782 TCCACTGCAACTTCAGGGAGATAA
1 TCCACTGCAACTTCAGGGAGATAA
101137806 GGTTTGCTAT
Statistics
Matches: 181, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
181 1 0.01
182 66 0.36
183 113 0.62
184 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (182 bp):
TCCACTGCAACTTCAGGGAGATAATGTTAAAGACTTCAATCTGCTCCACTGCAACTTCAGAGAAA
TAAGATTCTCCATGGTAACTTGATCCGACCTACTGCAACTTCAGAGGTATAGGATTTATAGCCTT
AATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTAC
Found at i:101137837 original size:46 final size:45
Alignment explanation
Indices: 101137740--101137886 Score: 163
Period size: 46 Copynumber: 3.3 Consensus size: 45
101137730 AATCTACTCT
*
101137740 ACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTATTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTATTCC
*
101137785 ACTGCAACTTCAGGGAGATAAGGTTTGCTATTCTTC-GATCTATTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGCTA-TCTTCAG-TCTATTCC
* * * * * * *
101137831 GCTGCAACTTCAAGGAGATGAGATCTG-TAACTTCAATCTACTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTATTCC
* *
101137875 TCTGTAACTTCA
1 ACTGCAACTTCA
101137887 ATCTACTCCT
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
44 21 0.24
45 31 0.36
46 35 0.40
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (45 bp):
ACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTATTCC
Found at i:101137880 original size:21 final size:21
Alignment explanation
Indices: 101137854--101137929 Score: 143
Period size: 21 Copynumber: 3.6 Consensus size: 21
101137844 GGAGATGAGA
101137854 TCTGTAACTTCAATCTACTCC
1 TCTGTAACTTCAATCTACTCC
101137875 TCTGTAACTTCAATCTACTCC
1 TCTGTAACTTCAATCTACTCC
*
101137896 TCTGTAACTTCAAGCTACTCC
1 TCTGTAACTTCAATCTACTCC
101137917 TCTGTAACTTCAA
1 TCTGTAACTTCAA
101137930 GGAGATAAGA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.25, C:0.32, G:0.07, T:0.37
Consensus pattern (21 bp):
TCTGTAACTTCAATCTACTCC
Done.