Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 140 of 211
Found at i:44175167 original size:16 final size:17
Alignment explanation
Indices: 44175146--44175192 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
44175136 GGTATAGAAA
44175146 ACATATATATAA-AAGT
1 ACATATATATAAGAAGT
44175162 ACATATATA-AAGAAGT
1 ACATATATATAAGAAGT
* *
44175178 ATAGATATATAAGAA
1 ACATATATATAAGAA
44175193 AATATAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 2 0.07
16 20 0.74
17 5 0.19
ACGTcount: A:0.57, C:0.04, G:0.11, T:0.28
Consensus pattern (17 bp):
ACATATATATAAGAAGT
Found at i:44176470 original size:15 final size:15
Alignment explanation
Indices: 44176450--44176485 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
44176440 AGCTATAGGT
44176450 TTTGGGCTTAGGTGA
1 TTTGGGCTTAGGTGA
*
44176465 TTTGGGTTTAGGTGA
1 TTTGGGCTTAGGTGA
44176480 -TTGGGC
1 TTTGGGC
44176486 CTTGGGTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.11, C:0.06, G:0.42, T:0.42
Consensus pattern (15 bp):
TTTGGGCTTAGGTGA
Found at i:44176563 original size:19 final size:20
Alignment explanation
Indices: 44176539--44176597 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
44176529 CAAAATTTAA
*
44176539 AATTTTTATAAATT-TTTTG
1 AATTTTTAAAAATTATTTTG
*
44176558 AA-TTTTAAAAATTATTTTC
1 AATTTTTAAAAATTATTTTG
44176577 AATTTTTAAAAATTATTTTG
1 AATTTTTAAAAATTATTTTG
44176597 A
1 A
44176598 TTATTTTGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
18 10 0.29
19 8 0.23
20 17 0.49
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (20 bp):
AATTTTTAAAAATTATTTTG
Found at i:44190277 original size:19 final size:19
Alignment explanation
Indices: 44190253--44190301 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
44190243 CACTTCGTGT
*
44190253 GCCAATATGCGCTTTGTGC
1 GCCAATATGCGCTTTGAGC
**
44190272 GCCAATGATGATCTTTGAGC
1 GCCAAT-ATGCGCTTTGAGC
*
44190292 ACCAATATGC
1 GCCAATATGC
44190302 ACTATATGTG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (19 bp):
GCCAATATGCGCTTTGAGC
Found at i:44191654 original size:17 final size:19
Alignment explanation
Indices: 44191632--44191667 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
44191622 AAAATTTATG
44191632 AAAAATT-TT-AAAATATA
1 AAAAATTATTAAAAATATA
44191649 AAAAATTATTAAAAATATA
1 AAAAATTATTAAAAATATA
44191668 GAAAGTGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 2 0.12
19 8 0.47
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATTATTAAAAATATA
Found at i:44192166 original size:15 final size:16
Alignment explanation
Indices: 44192146--44192203 Score: 61
Period size: 15 Copynumber: 3.8 Consensus size: 16
44192136 TATTACAATT
44192146 TTTATATATTTT-TAA
1 TTTATATATTTTATAA
44192161 TTTATAT-TTTTATAA
1 TTTATATATTTTATAA
*
44192176 TATATA-ATTTATATAA
1 TTTATATATTT-TATAA
*
44192192 TTT-TTTATTTTA
1 TTTATATATTTTA
44192204 ATAAAGTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 4 0.11
15 21 0.58
16 11 0.31
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTATATATTTTATAA
Found at i:44192205 original size:22 final size:21
Alignment explanation
Indices: 44192143--44192189 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
44192133 AATTATTACA
44192143 ATTTTTATATATTTTTAATTTAT
1 ATTTTTATA-A-TTTTAATTTAT
*
44192166 ATTTTTATAATATATAATTTAT
1 ATTTTTATAAT-TTTAATTTAT
44192188 AT
1 AT
44192190 AATTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 12 0.55
23 9 0.41
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTTTATAATTTTAATTTAT
Found at i:44192307 original size:16 final size:16
Alignment explanation
Indices: 44192286--44192316 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44192276 ATGTTTTTTT
44192286 ATTTTTTTGAAATTTA
1 ATTTTTTTGAAATTTA
*
44192302 ATTTTTTTTAAATTT
1 ATTTTTTTGAAATTT
44192317 TTATGATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
ATTTTTTTGAAATTTA
Found at i:44192326 original size:17 final size:17
Alignment explanation
Indices: 44192306--44192347 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
44192296 AATTTAATTT
*
44192306 TTTTTAAATTTTTATGA
1 TTTTTAAATTTTAATGA
* *
44192323 TTTTTATAGTTTAATGA
1 TTTTTAAATTTTAATGA
44192340 -TTTTAAAT
1 TTTTTAAAT
44192348 GTAAAATACT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (17 bp):
TTTTTAAATTTTAATGA
Found at i:44192637 original size:16 final size:16
Alignment explanation
Indices: 44192616--44192646 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44192606 CATGTTAGAG
44192616 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
44192632 CATATATATTTGAAA
1 CATATAAATTTGAAA
44192647 AAAAAATTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:44192777 original size:29 final size:29
Alignment explanation
Indices: 44192737--44192803 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
44192727 TTTTAGAAAA
44192737 TTTTTAAAATTTTAAAT-TTTTAATATATT
1 TTTTTAAAATTTTAAATATTTT-ATATATT
* *
44192766 TTTTTAGAATTTTTAATATTTTATATA-T
1 TTTTTAAAATTTTAAATATTTTATATATT
44192794 TTTTTAAAAT
1 TTTTTAAAAT
44192804 ATAAATTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 10 0.29
29 20 0.59
30 4 0.12
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (29 bp):
TTTTTAAAATTTTAAATATTTTATATATT
Found at i:44192840 original size:19 final size:20
Alignment explanation
Indices: 44192808--44192860 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
44192798 TAAAATATAA
44192808 ATTTTGATATTTTT-ATAAA-T
1 ATTTTGA-ATTTTTGA-AAATT
44192828 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTTGAAAATT
*
44192848 ATTTTGACTTTTT
1 ATTTTGAATTTTT
44192861 TTGTAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 9 0.30
20 21 0.70
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.60
Consensus pattern (20 bp):
ATTTTGAATTTTTGAAAATT
Found at i:44200145 original size:22 final size:21
Alignment explanation
Indices: 44200117--44200169 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
44200107 AGCCTGCTAG
* *
44200117 GCACAAATCTCGAATATCATC
1 GCACAAAGCTCAAATATCATC
44200138 AGCACAAAGCTCAAATATCATC
1 -GCACAAAGCTCAAATATCATC
44200160 GACACAAAGC
1 G-CACAAAGC
44200170 CTGCTAGGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.43, C:0.28, G:0.11, T:0.17
Consensus pattern (21 bp):
GCACAAAGCTCAAATATCATC
Found at i:44200181 original size:38 final size:38
Alignment explanation
Indices: 44200139--44200380 Score: 276
Period size: 38 Copynumber: 6.4 Consensus size: 38
44200129 AATATCATCA
* *
44200139 GCACAAAGCTCAAATATCATCGACACAAAGCCTGCTAG
1 GCACAAAGCCCGAATATCATCGACACAAAGCCTGCTAG
* *
44200177 GCACAAAGCCTGAATATCA-CTGACACAAAGCCTACTAG
1 GCACAAAGCCCGAATATCATC-GACACAAAGCCTGCTAG
* * *
44200215 GCACAAAGCCCAAATACCATCGACACAAAACCTGCTAG
1 GCACAAAGCCCGAATATCATCGACACAAAGCCTGCTAG
* * * *
44200253 GCACAAAGCCCGAATGTCACCGGCACAAAGCTTGCTAG
1 GCACAAAGCCCGAATATCATCGACACAAAGCCTGCTAG
* * *
44200291 TG-ACAAAGCCCGAA-ACCA-CCAGCACAAAGCCTGCTAA
1 -GCACAAAGCCCGAATATCATCGA-CACAAAGCCTGCTAG
* *
44200328 GCACAAAGCCTGAATATCATCGGCACAAAGCCTGCTAG
1 GCACAAAGCCCGAATATCATCGACACAAAGCCTGCTAG
*
44200366 GCACAGAGCCCGAAT
1 GCACAAAGCCCGAAT
44200381 TAACATTACG
Statistics
Matches: 168, Mismatches: 29, Indels: 14
0.80 0.14 0.07
Matches are distributed among these distances:
36 2 0.01
37 27 0.16
38 136 0.81
39 3 0.02
ACGTcount: A:0.38, C:0.31, G:0.18, T:0.13
Consensus pattern (38 bp):
GCACAAAGCCCGAATATCATCGACACAAAGCCTGCTAG
Found at i:44200192 original size:60 final size:61
Alignment explanation
Indices: 44200076--44200208 Score: 175
Period size: 60 Copynumber: 2.2 Consensus size: 61
44200066 ACAACTACAC
* *
44200076 CAGCATAAAGCCCAAAATATCACTGACACAAAGCCTGCTAGGCACAAATCTCGAATATCAT
1 CAGCACAAAGCCCAAAATATCACTGACACAAAGCCTGCTAGGCACAAACCTCGAATATCAT
*
44200137 CAGCACAAAGCTC-AAATATCA-TCGACACAAAGCCTGCTAGGCACAAAGCCT-GAATATCA-
1 CAGCACAAAGCCCAAAATATCACT-GACACAAAGCCTGCTAGGCACAAA-CCTCGAATATCAT
*
44200196 CTGACACAAAGCC
1 CAG-CACAAAGCC
44200209 TACTAGGCAC
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
59 3 0.05
60 48 0.75
61 13 0.20
ACGTcount: A:0.41, C:0.29, G:0.14, T:0.16
Consensus pattern (61 bp):
CAGCACAAAGCCCAAAATATCACTGACACAAAGCCTGCTAGGCACAAACCTCGAATATCAT
Found at i:44200229 original size:76 final size:76
Alignment explanation
Indices: 44200139--44200376 Score: 304
Period size: 76 Copynumber: 3.1 Consensus size: 76
44200129 AATATCATCA
* * *
44200139 GCACAAAGCTCAAATATCATCGACACAAAGCCTGCTAGGCACAAAGCCTGAATATCACTGACACA
1 GCACAAAGCCCAAATACCATCGACACAAAGCCTGCTAGGCACAAAGCCTGAATATCACTGGCACA
*
44200204 AAGCCTACTAG
66 AAGCCTGCTAG
* * * *
44200215 GCACAAAGCCCAAATACCATCGACACAAAACCTGCTAGGCACAAAGCCCGAATGTCACCGGCACA
1 GCACAAAGCCCAAATACCATCGACACAAAGCCTGCTAGGCACAAAGCCTGAATATCACTGGCACA
*
44200280 AAGCTTGCTAG
66 AAGCCTGCTAG
* * *
44200291 TG-ACAAAGCCCGAA-ACCA-CCAGCACAAAGCCTGCTAAGCACAAAGCCTGAATATCA-TCGGC
1 -GCACAAAGCCCAAATACCATCGA-CACAAAGCCTGCTAGGCACAAAGCCTGAATATCACT-GGC
44200352 ACAAAGCCTGCTAG
63 ACAAAGCCTGCTAG
*
44200366 GCACAGAGCCC
1 GCACAAAGCCC
44200377 GAATTAACAT
Statistics
Matches: 140, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
74 3 0.02
75 58 0.41
76 78 0.56
77 1 0.01
ACGTcount: A:0.37, C:0.32, G:0.18, T:0.13
Consensus pattern (76 bp):
GCACAAAGCCCAAATACCATCGACACAAAGCCTGCTAGGCACAAAGCCTGAATATCACTGGCACA
AAGCCTGCTAG
Found at i:44203815 original size:19 final size:21
Alignment explanation
Indices: 44203778--44203829 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
44203768 ATTATTCTTA
*
44203778 TATATATATGTAATTA-TT-T
1 TATATATATGTAATAATTTAT
44203797 TATATATATGTACA-AATTTAT
1 TATATATATGTA-ATAATTTAT
44203818 TATATATATGTA
1 TATATATATGTA
44203830 TATGTAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (21 bp):
TATATATATGTAATAATTTAT
Found at i:44210320 original size:88 final size:89
Alignment explanation
Indices: 44210162--44210372 Score: 284
Period size: 88 Copynumber: 2.4 Consensus size: 89
44210152 GTAGATTTTA
* ** * *
44210162 CCTTCCTGTACCGGCAACGAAGCAGATC-AAAGACACCAGCCTTGCCTCCCTGGGCTGCAGCGGA
1 CCTTCCTGTACTGGCAGTGAAGCAGATCGAAAGACACCAGCCTTGCCTCCCTGAGCAGCAGCGGA
44210226 GCAGGTTAAAAATAGCAGATCTTG
66 GCAGGTTAAAAATAGCAGATCTTG
* * * * *
44210250 CCTTCCTGTACTGGCAGTGAAGCAGATCGAAA-ACTCCAGCCTTGTCTCCCTGAGCAGTAGTGGT
1 CCTTCCTGTACTGGCAGTGAAGCAGATCGAAAGACACCAGCCTTGCCTCCCTGAGCAGCAGCGGA
* * *
44210314 GTAGGTTGAAAATAGCAGGTCTTG
66 GCAGGTTAAAAATAGCAGATCTTG
44210338 CCTTCCTGTACTGGCAGTGAAGCAGATCG-AAGACA
1 CCTTCCTGTACTGGCAGTGAAGCAGATCGAAAGACA
44210373 TCAGTTTTAT
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
87 2 0.02
88 102 0.95
89 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.22
Consensus pattern (89 bp):
CCTTCCTGTACTGGCAGTGAAGCAGATCGAAAGACACCAGCCTTGCCTCCCTGAGCAGCAGCGGA
GCAGGTTAAAAATAGCAGATCTTG
Found at i:44210957 original size:44 final size:44
Alignment explanation
Indices: 44210889--44211213 Score: 206
Period size: 44 Copynumber: 7.5 Consensus size: 44
44210879 TGCAATGGGG
44210889 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * * **
44210933 AATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAA-ACTTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * *** *
44210976 GAATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCGTA-TC--T
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * * *
44211017 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACT-AAG-TAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-T
* * * * *
44211060 AAGTCTTATC-CTCCTGAAGTTGTAGT-AAGGTAGACTGAAGATG-GAA-
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-GCCAAT
* *
44211106 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* ** *
44211150 AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
* * *
44211194 AATTTTATCTCTCTAAAGTT
1 AATCTTATCTCCCTGAAGTT
44211214 ACAAAGAGCA
Statistics
Matches: 214, Mismatches: 49, Indels: 36
0.72 0.16 0.12
Matches are distributed among these distances:
40 22 0.10
41 8 0.04
42 1 0.00
43 16 0.07
44 134 0.63
45 24 0.11
46 5 0.02
47 1 0.00
48 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
Found at i:44211268 original size:217 final size:218
Alignment explanation
Indices: 44210889--44211288 Score: 624
Period size: 217 Copynumber: 1.8 Consensus size: 218
44210879 TGCAATGGGG
*
44210889 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTG
**** * * * * *
44210954 CAGTGGAGCGGATTAAAACTTTGAATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGTATCTAG
66 CAGTGGAGCGGATTAAAACCACAAATCTTATCTCTCTAAAGTTACAAAGAGCAGATCGCATCCAG
*
44211019 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACT-AAGTAAGCAAGTCTTATCCTCCTGAAGTTGT
131 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATCCTCCTGAAGTTGT
44211083 AGTAAGGTAGACTGAAGATGGAA
196 AGTAAGGTAGACTGAAGATGGAA
* *
44211106 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTG
* *
44211171 CAGTGGAGTGGATTAAAACCACAAATTTTATCTCTCTAAAGTTACAAAGAGCAGATCGCATCCAG
66 CAGTGGAGCGGATTAAAACCACAAATCTTATCTCTCTAAAGTTACAAAGAGCAGATCGCATCCAG
* *
44211236 TCTTATCTCCCTGAAGTTGCAGT-GAGGCAGACTCATGAAAGCAAGTCTTATCC
131 TCTTATCTCCCTAAAGTTGCAGTGGA-GCAGACTCAAGAAAGCAAGTCTTATCC
44211289 CCCTAAAATT
Statistics
Matches: 164, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
216 2 0.01
217 145 0.88
218 17 0.10
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (218 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTG
CAGTGGAGCGGATTAAAACCACAAATCTTATCTCTCTAAAGTTACAAAGAGCAGATCGCATCCAG
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATCCTCCTGAAGTTGT
AGTAAGGTAGACTGAAGATGGAA
Found at i:44211334 original size:217 final size:217
Alignment explanation
Indices: 44210889--44211350 Score: 615
Period size: 217 Copynumber: 2.1 Consensus size: 217
44210879 TGCAATGGGG
*
44210889 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTG
**** * * * * *
44210954 CAGTGGAGCGGATTAAAACTTTGAATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGTATCTAG
66 CAGTGGAGCGGATTAAAACCACAAATCTTATCTCTCTAAAGTTACAAAGAGCAGATCGCATCCAG
* * * * *
44211019 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGTA
131 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGAAAGCAAGTCTTATCCCCCTAAAATTGCA
* **
44211084 GTAAGGTAGACTGAAGATGGAA
196 GTAAGGCAGACTGAAGATAAAA
* *
44211106 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTG
* *
44211171 CAGTGGAGTGGATTAAAACCACAAATTTTATCTCTCTAAAGTTACAAAGAGCAGATCGCATCCAG
66 CAGTGGAGCGGATTAAAACCACAAATCTTATCTCTCTAAAGTTACAAAGAGCAGATCGCATCCAG
* *
44211236 TCTTATCTCCCTGAAGTTGCAGT-GAGGCAGACTCATGAAAGCAAGTCTTATCCCCCTAAAATTG
131 TCTTATCTCCCTAAAGTTGCAGTGGA-GCAGACT-AAGAAAGCAAGTCTTATCCCCCTAAAATTG
*
44211300 CAGTAGGGCAGACT-AA-ATAAACA
194 CAGTAAGGCAGACTGAAGATAAA-A
* * * *
44211323 AATCCTATCTCCTTAAAGTTGTAGTGGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGA
44211351 GTGGATTAGA
Statistics
Matches: 213, Mismatches: 29, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
216 5 0.02
217 172 0.81
218 36 0.17
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (217 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTG
CAGTGGAGCGGATTAAAACCACAAATCTTATCTCTCTAAAGTTACAAAGAGCAGATCGCATCCAG
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGAAAGCAAGTCTTATCCCCCTAAAATTGCA
GTAAGGCAGACTGAAGATAAAA
Found at i:44212902 original size:4 final size:4
Alignment explanation
Indices: 44212895--44212961 Score: 52
Period size: 4 Copynumber: 17.8 Consensus size: 4
44212885 TATTATTATT
* * * *
44212895 TATA TATA TGTA -AT- TAT- TATA TATA TATA TGTA TAGA TTTA T-TA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* *
44212939 TATA TATG TATA TATA AATA TAT
1 TATA TATA TATA TATA TATA TAT
44212962 TTTTATATTT
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
3 9 0.18
4 40 0.82
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (4 bp):
TATA
Found at i:44212906 original size:27 final size:25
Alignment explanation
Indices: 44212859--44212914 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
44212849 ACACGCATAT
44212859 TTATTTTTTTAATATAGTGTAATCA
1 TTATTTTTTTAATATAGTGTAATCA
*
44212884 TTATTATTATTTATATATA-TGTAATTA
1 TTATT-TT-TTTA-ATATAGTGTAATCA
44212911 TTAT
1 TTAT
44212915 ATATATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 5 0.19
26 2 0.07
27 15 0.56
28 5 0.19
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (25 bp):
TTATTTTTTTAATATAGTGTAATCA
Found at i:44212929 original size:27 final size:27
Alignment explanation
Indices: 44212870--44212954 Score: 86
Period size: 25 Copynumber: 3.2 Consensus size: 27
44212860 TATTTTTTTA
* *
44212870 ATATAGTGTAATCATTAT-TATTATTTAT
1 ATATA-TGTAATTATTATATA-TATATAT
44212898 ATATATGTAATTATTATATATATATAT
1 ATATATGTAATTATTATATATATATAT
* * *
44212925 GTATA-G-ATTTATTATATATATGTAT
1 ATATATGTAATTATTATATATATATAT
44212950 ATATA
1 ATATA
44212955 AATATATTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
25 21 0.42
26 1 0.02
27 21 0.42
28 7 0.14
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.52
Consensus pattern (27 bp):
ATATATGTAATTATTATATATATATAT
Found at i:44212949 original size:21 final size:21
Alignment explanation
Indices: 44212888--44212950 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
44212878 TAATCATTAT
*
44212888 TATTATTTATATATATGTA-AT
1 TATTA-TTATATATATGTATAA
44212909 TATTATATATATATATGTATAGA
1 TATTAT-TATATATATGTATA-A
44212932 T-TTATTATATATATGTATA
1 TATTATTATATATATGTATA
44212951 TATAAATATA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
20 1 0.03
21 31 0.82
22 5 0.13
23 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (21 bp):
TATTATTATATATATGTATAA
Found at i:44212962 original size:25 final size:25
Alignment explanation
Indices: 44212885--44212962 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
44212875 GTGTAATCAT
* *
44212885 TATTAT-TATTTATATATATGTAAT-
1 TATTATATATATATATATAT-AAATA
* * *
44212909 TATTATATATATATATGTATAGATT
1 TATTATATATATATATATATAAATA
*
44212934 TATTATATATATGTATATATAAATA
1 TATTATATATATATATATATAAATA
44212959 TATT
1 TATT
44212963 TTTATATTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
24 8 0.18
25 36 0.82
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (25 bp):
TATTATATATATATATATATAAATA
Found at i:44227818 original size:13 final size:13
Alignment explanation
Indices: 44227800--44227825 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44227790 TGTAATAAGT
44227800 TTAAATAGAATCA
1 TTAAATAGAATCA
44227813 TTAAATAGAATCA
1 TTAAATAGAATCA
44227826 ACTTTTGCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
TTAAATAGAATCA
Found at i:44233745 original size:24 final size:25
Alignment explanation
Indices: 44233710--44233759 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 25
44233700 ATAAAGGGGA
44233710 AAATGAAGGGTTTA-TGAATGA-GAG
1 AAATGAAGGG-TTAGTGAATGATGAG
44233734 AAATG-AGAGGTTAGTGAATGATGAG
1 AAATGAAG-GGTTAGTGAATGATGAG
44233759 A
1 A
44233760 GGAAATAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
23 5 0.22
24 14 0.61
25 4 0.17
ACGTcount: A:0.42, C:0.00, G:0.34, T:0.24
Consensus pattern (25 bp):
AAATGAAGGGTTAGTGAATGATGAG
Found at i:44240323 original size:11 final size:11
Alignment explanation
Indices: 44240248--44240355 Score: 52
Period size: 11 Copynumber: 9.9 Consensus size: 11
44240238 ATTCCAAAAA
*
44240248 TAATATTATTT
1 TAATATTAATT
44240259 TAATATTTTAATAT
1 TAATA--TTAAT-T
44240273 TAA-ATTAAATT
1 TAATATT-AATT
44240284 TAATACTT-ATCT
1 TAATA-TTAAT-T
*
44240296 TAATAGT-ATT
1 TAATATTAATT
44240306 T--TATTAATT
1 TAATATTAATT
*
44240315 TAATATTAAAT
1 TAATATTAATT
* *
44240326 T--GATTATTT
1 TAATATTAATT
44240335 TAATATTAAATT
1 TAATATT-AATT
44240347 TAAT-TTAAT
1 TAATATTAAT
44240356 GTTTATCTTG
Statistics
Matches: 75, Mismatches: 9, Indels: 27
0.68 0.08 0.24
Matches are distributed among these distances:
8 3 0.04
9 10 0.13
10 5 0.07
11 29 0.39
12 17 0.23
13 7 0.09
14 4 0.05
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:44240336 original size:20 final size:20
Alignment explanation
Indices: 44240308--44240346 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
44240298 ATAGTATTTT
44240308 ATTAATTTAATATTAAATTG
1 ATTAATTTAATATTAAATTG
*
44240328 ATTATTTTAATATTAAATT
1 ATTAATTTAATATTAAATT
44240347 TAATTTAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
ATTAATTTAATATTAAATTG
Found at i:44241141 original size:25 final size:25
Alignment explanation
Indices: 44241108--44241268 Score: 162
Period size: 25 Copynumber: 6.4 Consensus size: 25
44241098 CGGCTAATTC
*
44241108 TTTGGAAAGCCCTTGTGGCGAATCC
1 TTTGGAAAGCCCTTGTGGCGAATCA
*
44241133 TTTGGAAAGCCTTTGTGGCGAATTC-
1 TTTGGAAAGCCCTTGTGGCGAA-TCA
* * *
44241158 TTTGGAAAGCCCTTCTAGCGTATCA
1 TTTGGAAAGCCCTTGTGGCGAATCA
* * * *
44241183 TTTGGAAAGCCTTTATGGTGAATTA
1 TTTGGAAAGCCCTTGTGGCGAATCA
*
44241208 TTTGGAAAGCCCTTGTGGCGTATCA
1 TTTGGAAAGCCCTTGTGGCGAATCA
* * * ** *
44241233 TTTGGAAAACCTTTATGGTAAATTA
1 TTTGGAAAGCCCTTGTGGCGAATCA
44241258 TTTGGAAAGCC
1 TTTGGAAAGCC
44241269 AATGTGGTAA
Statistics
Matches: 110, Mismatches: 24, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
24 2 0.02
25 106 0.96
26 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (25 bp):
TTTGGAAAGCCCTTGTGGCGAATCA
Found at i:44241261 original size:75 final size:76
Alignment explanation
Indices: 44241102--44241268 Score: 182
Period size: 75 Copynumber: 2.2 Consensus size: 76
44241092 TAGTATCGGC
* * * *
44241102 TAATTCTTTGGAAAGCCCTTGTGGCGAATCCTTTGGAAAGCCTTTGTGGCGAATTCTTTGGAAAG
1 TAATTATTTGGAAAGCCCTTATGGCGAATCATTTGGAAAGCCCTTGTGGCGAATTCTTTGGAAAG
*
44241167 CCCTTCTAGCG
66 ACCTTCTAGCG
* * * * *
44241178 T-ATCATTTGGAAAGCCTTTATGGTGAATTATTTGGAAAGCCCTTGTGGCGTA-TCATTTGGAAA
1 TAATTATTTGGAAAGCCCTTATGGCGAATCATTTGGAAAGCCCTTGTGGCGAATTC-TTTGGAAA
44241241 -ACCTT-TATG-G
65 GACCTTCTA-GCG
44241251 TAAATTATTTGGAAAGCC
1 T-AATTATTTGGAAAGCC
44241269 AATGTGGTAA
Statistics
Matches: 76, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
73 4 0.05
74 7 0.09
75 64 0.84
76 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (76 bp):
TAATTATTTGGAAAGCCCTTATGGCGAATCATTTGGAAAGCCCTTGTGGCGAATTCTTTGGAAAG
ACCTTCTAGCG
Found at i:44241275 original size:50 final size:50
Alignment explanation
Indices: 44241103--44241268 Score: 242
Period size: 50 Copynumber: 3.3 Consensus size: 50
44241093 AGTATCGGCT
* * * * *
44241103 AATTCTTTGGAAAGCCCTTGTGGCGAATCCTTTGGAAAGCCTTTGTGGCG
1 AATTATTTGGAAAGCCCTTGTGGCGTATCATTTGGAAAGCCTTTATGGTG
* * *
44241153 AATTCTTTGGAAAGCCCTTCTAGCGTATCATTTGGAAAGCCTTTATGGTG
1 AATTATTTGGAAAGCCCTTGTGGCGTATCATTTGGAAAGCCTTTATGGTG
* *
44241203 AATTATTTGGAAAGCCCTTGTGGCGTATCATTTGGAAAACCTTTATGGTA
1 AATTATTTGGAAAGCCCTTGTGGCGTATCATTTGGAAAGCCTTTATGGTG
44241253 AATTATTTGGAAAGCC
1 AATTATTTGGAAAGCC
44241269 AATGTGGTAA
Statistics
Matches: 105, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 105 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.34
Consensus pattern (50 bp):
AATTATTTGGAAAGCCCTTGTGGCGTATCATTTGGAAAGCCTTTATGGTG
Found at i:44250968 original size:17 final size:16
Alignment explanation
Indices: 44250942--44250973 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
44250932 TGATAGATCT
44250942 CTGACGAGCTTCCAAA
1 CTGACGAGCTTCCAAA
44250958 CTGATCGAGCTTCCAA
1 CTGA-CGAGCTTCCAA
44250974 TAATCTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (16 bp):
CTGACGAGCTTCCAAA
Found at i:44255384 original size:32 final size:27
Alignment explanation
Indices: 44255325--44255379 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
44255315 CTTTCCTGAA
44255325 TCACGAGCCTCAAAATCAAATTTTCTC
1 TCACGAGCCTCAAAATCAAATTTTCTC
*
44255352 TCACGAGCCTCAGAATCAAATTTTCTC
1 TCACGAGCCTCAAAATCAAATTTTCTC
44255379 T
1 T
44255380 TCTCTTTGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (27 bp):
TCACGAGCCTCAAAATCAAATTTTCTC
Found at i:44273714 original size:41 final size:42
Alignment explanation
Indices: 44273636--44273716 Score: 128
Period size: 41 Copynumber: 1.9 Consensus size: 42
44273626 GAGAGATGTG
*
44273636 TCCAATGACACAACCACAAAAAAAATTAAAATCGGTGGTTGCA
1 TCCAACGACACAACCAC-AAAAAAATTAAAATCGGTGGTTGCA
*
44273679 TCCAACGACACAACCAC-AAAAAATTAAAATTGGTGGTT
1 TCCAACGACACAACCACAAAAAAATTAAAATCGGTGGTT
44273717 CCATACTCCT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 20 0.56
43 16 0.44
ACGTcount: A:0.46, C:0.21, G:0.14, T:0.20
Consensus pattern (42 bp):
TCCAACGACACAACCACAAAAAAATTAAAATCGGTGGTTGCA
Found at i:44277407 original size:18 final size:18
Alignment explanation
Indices: 44277386--44277425 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
44277376 ATTTTCGAAT
* *
44277386 TCAGATCCCTTTTCATTC
1 TCAGATCCCTCTTCATCC
*
44277404 TCAGCTCCCTCTTCATCC
1 TCAGATCCCTCTTCATCC
44277422 TCAG
1 TCAG
44277426 TTGCCTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.40, G:0.07, T:0.38
Consensus pattern (18 bp):
TCAGATCCCTCTTCATCC
Found at i:44289112 original size:13 final size:13
Alignment explanation
Indices: 44289094--44289118 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44289084 CAATAATAAA
44289094 AAGTTTAAAAATT
1 AAGTTTAAAAATT
44289107 AAGTTTAAAAAT
1 AAGTTTAAAAAT
44289119 ACTTATTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
AAGTTTAAAAATT
Found at i:44292768 original size:13 final size:13
Alignment explanation
Indices: 44292752--44292776 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44292742 GGCTCGTGAA
44292752 AAAAAAAGAAAAG
1 AAAAAAAGAAAAG
44292765 AAAAAAAGAAAA
1 AAAAAAAGAAAA
44292777 AAGAGAAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAG
Found at i:44306815 original size:12 final size:13
Alignment explanation
Indices: 44306784--44306808 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44306774 AAATAACAAA
44306784 AAGTTTAAAAATC
1 AAGTTTAAAAATC
44306797 AAGTTTAAAAAT
1 AAGTTTAAAAAT
44306809 ATGTTTATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (13 bp):
AAGTTTAAAAATC
Found at i:44316479 original size:89 final size:89
Alignment explanation
Indices: 44316328--44316492 Score: 262
Period size: 89 Copynumber: 1.9 Consensus size: 89
44316318 TAAGTAGAAG
*
44316328 AAATCAATGAGAGAATTAAAGAAAAGCAAGCTAAATCCAAGGAAAATCAAAGAACAAGTCAAATC
1 AAATCAATGAGAGAATTAAAGAAAAGCAAGATAAATCCAAGGAAAATCAAAGAACAAGTCAAATC
*
44316393 TTATTTTTCATTTGAAAATTTCAA
66 TAATTTTTCATTTGAAAATTTCAA
* *
44316417 AAATCAATGAGAGAATTAAAGGAAATCAAGATAAATCCAA-GAGAAATCCAAA-AACAAGTCAAA
1 AAATCAATGAGAGAATTAAAGAAAAGCAAGATAAATCCAAGGA-AAAT-CAAAGAACAAGTCAAA
44316480 TCTAATTTTTCAT
64 TCTAATTTTTCAT
44316493 AGTAAAGTAC
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
88 2 0.03
89 64 0.91
90 4 0.06
ACGTcount: A:0.52, C:0.13, G:0.12, T:0.24
Consensus pattern (89 bp):
AAATCAATGAGAGAATTAAAGAAAAGCAAGATAAATCCAAGGAAAATCAAAGAACAAGTCAAATC
TAATTTTTCATTTGAAAATTTCAA
Found at i:44337614 original size:28 final size:29
Alignment explanation
Indices: 44337572--44337639 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
44337562 AATTTTTAGA
*
44337572 TTTCAAAATTCAGG-TCATTGA-AATTTTTT
1 TTTC-AAATTTAGGTTCATT-ATAATTTTTT
44337601 TGTT-AAATTTAGGTTCATTATAATTTTTT
1 T-TTCAAATTTAGGTTCATTATAATTTTTT
44337630 TTTCAAATTT
1 TTTCAAATTT
44337640 TATTGCTATC
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
28 11 0.32
29 21 0.62
30 2 0.06
ACGTcount: A:0.29, C:0.07, G:0.09, T:0.54
Consensus pattern (29 bp):
TTTCAAATTTAGGTTCATTATAATTTTTT
Found at i:44349527 original size:25 final size:25
Alignment explanation
Indices: 44349499--44349654 Score: 76
Period size: 25 Copynumber: 6.2 Consensus size: 25
44349489 ATACACCACA
44349499 GCTCTTATGAGCTTCCCGATATATG
1 GCTCTTATGAGCTTCCCGATATATG
* *
44349524 GCTCTTCA-GAGCTTCTCGAT-TGAAG
1 GCTCTT-ATGAGCTTCCCGATAT-ATG
*
44349549 GCTCTTTCATGAGCTTCCTGAT-TAATTG
1 GCTC-TT-ATGAGCTTCCCGATAT-A-TG
***
44349577 GCTCTCCGGAGCTTCCCGATAT-TG
1 GCTCTTATGAGCTTCCCGATATATG
*
44349601 G--CTTACTTGAAGCTTCCCAATAT-TG
1 GCTCTTA--TG-AGCTTCCCGATATATG
* * * *
44349626 GCTCATATGAACTTCCTGTTA-ATG
1 GCTCTTATGAGCTTCCCGATATATG
44349650 GCTCT
1 GCTCT
44349655 CCGAAGCTTC
Statistics
Matches: 99, Mismatches: 20, Indels: 25
0.69 0.14 0.17
Matches are distributed among these distances:
22 2 0.02
24 19 0.19
25 40 0.40
26 16 0.16
27 17 0.17
28 5 0.05
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.36
Consensus pattern (25 bp):
GCTCTTATGAGCTTCCCGATATATG
Found at i:44349677 original size:49 final size:49
Alignment explanation
Indices: 44349609--44349704 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 49
44349599 TGGCTTACTT
* *
44349609 GAAGCTTCCCAATATTGGCTCATATGAACTTCCTGTTAATG-GCTCTCC
1 GAAGCTTCCCAATAATGGCTCACATGAACTTCCTGTTAATGTGCTCTCC
* * * *
44349657 GAAGCTTCCCATTACATGGCTCACATGAGCTTCTTGTTTATGTGCTCT
1 GAAGCTTCCCAATA-ATGGCTCACATGAACTTCCTGTTAATGTGCTCT
44349705 TATAAGCATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
48 13 0.32
49 22 0.55
50 5 0.12
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (49 bp):
GAAGCTTCCCAATAATGGCTCACATGAACTTCCTGTTAATGTGCTCTCC
Found at i:44350211 original size:33 final size:33
Alignment explanation
Indices: 44350165--44350230 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
44350155 TGGAAGCTCG
*
44350165 TTGGGTTGGAAGCTTGGCAGAGATATCATCACA
1 TTGGGTTGGAAGCTTAGCAGAGATATCATCACA
*
44350198 TTGGGTTGTAAGCTTAGCAGAGATATCATCACA
1 TTGGGTTGGAAGCTTAGCAGAGATATCATCACA
44350231 CTATCCATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (33 bp):
TTGGGTTGGAAGCTTAGCAGAGATATCATCACA
Found at i:44353673 original size:62 final size:60
Alignment explanation
Indices: 44353558--44353674 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 60
44353548 TTGTATAAAC
* ***
44353558 TATTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTCAATATTTTAATAGTCAAT
1 TATTTTTATATTGTTTCATTTAATAAAATAAAAGTTCTTTTCAATAAGGTAATAGTCAAT
* *
44353618 TATTTTTATATT-TTGTCGTATTTAATAAAATAGAAGTTCTTTTGAATAAGGTAATAG
1 TATTTTTATATTGTT-TC--ATTTAATAAAATAAAAGTTCTTTTCAATAAGGTAATAG
44353675 AAATAATGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
59 2 0.04
60 14 0.29
62 32 0.67
ACGTcount: A:0.36, C:0.04, G:0.10, T:0.50
Consensus pattern (60 bp):
TATTTTTATATTGTTTCATTTAATAAAATAAAAGTTCTTTTCAATAAGGTAATAGTCAAT
Found at i:44354728 original size:16 final size:15
Alignment explanation
Indices: 44354688--44354729 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
44354678 CTAGAATAAC
*
44354688 AAAAAAAA-AATAGA
1 AAAAAAAATAAAAGA
*
44354702 AAAAAATATAAAAGA
1 AAAAAAAATAAAAGA
44354717 AAAAATAAATAAA
1 AAAAA-AAATAAA
44354730 TAATTTTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 7 0.30
15 10 0.43
16 6 0.26
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (15 bp):
AAAAAAAATAAAAGA
Found at i:44356376 original size:26 final size:27
Alignment explanation
Indices: 44356308--44356398 Score: 82
Period size: 26 Copynumber: 3.4 Consensus size: 27
44356298 TTTTATATGA
* * *
44356308 TTATTTTAACTTGCTTTGTAAATTA-T
1 TTATTTTAAATTGATTTGTATATTATT
* *
44356334 TTATGTTAATTTGATTTGTATATTATT
1 TTATTTTAAATTGATTTGTATATTATT
44356361 TTATTTTAAATT-ATTT-TATA-TATT
1 TTATTTTAAATTGATTTGTATATTATT
*
44356385 AATTATTTAAAATT
1 --TTATTTTAAATT
44356399 ATTAAATTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
24 4 0.07
25 4 0.07
26 36 0.65
27 11 0.20
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.60
Consensus pattern (27 bp):
TTATTTTAAATTGATTTGTATATTATT
Found at i:44356406 original size:34 final size:35
Alignment explanation
Indices: 44356366--44356435 Score: 133
Period size: 34 Copynumber: 2.0 Consensus size: 35
44356356 TTATTTTATT
44356366 TTAAATTATTTTATATATTAATTA-TTTAAAATTA
1 TTAAATTATTTTATATATTAATTATTTTAAAATTA
44356400 TTAAATTATTTTATATATTAATTATTTTAAAATTA
1 TTAAATTATTTTATATATTAATTATTTTAAAATTA
44356435 T
1 T
44356436 CCAATACTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 24 0.69
35 11 0.31
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (35 bp):
TTAAATTATTTTATATATTAATTATTTTAAAATTA
Found at i:44357034 original size:17 final size:18
Alignment explanation
Indices: 44356996--44357039 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
44356986 ATTATTGCTC
* *
44356996 TTATGTGTATTGTATTGC
1 TTATTTGTATTGTATTGA
44357014 TTATTTGTATT-TATTGA
1 TTATTTGTATTGTATTGA
44357031 TTATTTGTA
1 TTATTTGTA
44357040 GTTCATTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.20, C:0.02, G:0.16, T:0.61
Consensus pattern (18 bp):
TTATTTGTATTGTATTGA
Found at i:44360243 original size:97 final size:98
Alignment explanation
Indices: 44360126--44360323 Score: 276
Period size: 97 Copynumber: 2.0 Consensus size: 98
44360116 TAAGGCAAAG
* *
44360126 CAAGAACTATTGTAGAAAAAGAGCGTCCTCGTGGGAG-TTTTTTTCAATAATTTTGCTGACAATG
1 CAAGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTT-AATAATTTTGCTGACAATG
*
44360190 CATCTTGCTTAAAGCA-TTTTGACACTATTTTTT
65 CATCCTGCTTAAAGCATTTTTGACACTATTTTTT
* * * * *
44360223 CAAGAACTACTGTA-AGAAAAGAGTGTCCACGTGGGAGCTTTTTTTAGTAATTTTGTTGATAGTG
1 CAAGAACTACTGTAGA-AAAAGAGCGTCCACGTGGGAGCTTTTTTTAATAATTTTGCTGACAATG
*
44360287 CATCCTGCTTGAAGCATTTTTGACACTATTTTTT
65 CATCCTGCTTAAAGCATTTTTGACACTATTTTTT
44360321 CAA
1 CAA
44360324 AACCGTCTTC
Statistics
Matches: 89, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
96 1 0.01
97 61 0.69
98 27 0.30
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (98 bp):
CAAGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTTAATAATTTTGCTGACAATGC
ATCCTGCTTAAAGCATTTTTGACACTATTTTTT
Found at i:44360409 original size:126 final size:126
Alignment explanation
Indices: 44360215--44360746 Score: 746
Period size: 126 Copynumber: 4.2 Consensus size: 126
44360205 ATTTTGACAC
* * * * *
44360215 TATTTTTTCAAGAACTACTGTA-AGAAAAGAGTGTCCACGTGGGAGCTTTTTTTAGTAATTTTGT
1 TATTTTTTCAGGAACTACTGTAGA-AAAAGAGCGTCCACGTGGGAGCCTTTTTCAGTAATTTTGC
* *
44360279 TGATAGTGCATCCTGCTTGAAGCATTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAAT
65 TGATAGTGCATCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAAT
*
44360341 TATTTTTTCAGGAACTA-TAGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGC
1 TATTTTTTCAGGAACTACT-GTAGAAAAAGAGCGTCCACGTGGGAGCCTTTTTCAGTAATTTTGC
* *
44360405 TGATAGTGCATCCTACTTGAAGCGTTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAAT
65 TGATAGTGCATCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAAT
* * * * * *
44360467 TATTTTTTCAGGAACTACTGTATAAAAAGAGAGTCCACGTGGTAGCCTTTTTCAGGACTTTTGTT
1 TATTTTTTCAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCCTTTTTCAGTAATTTTGCT
* * * * *
44360532 GACATTGCATACTGCTTGAAGCATTTTTGACATTATTTTTTCAGAACTGCCTTCTCAAAAT
66 GATAGTGCATCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAAT
* * * * *
44360593 TATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCCATGTGGGAGCCCTTTTCAGTACTTTTGCT
1 TATTTTTTCAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCCTTTTTCAGTAATTTTGCT
* *
44360658 GACT-GTGCATCCAGCTTGAAGCATTTTTGTCACTATTTTTTCAGAACTGTCTTCTCAAAAT
66 GA-TAGTGCATCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAAT
* *
44360719 TAATTTTTCAGAAACTACTGTAGAAAAA
1 TATTTTTTCAGGAACTACTGTAGAAAAA
44360747 AGATCAAAAT
Statistics
Matches: 363, Mismatches: 39, Indels: 8
0.89 0.10 0.02
Matches are distributed among these distances:
125 1 0.00
126 360 0.99
127 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (126 bp):
TATTTTTTCAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCCTTTTTCAGTAATTTTGCT
GATAGTGCATCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAAT
Found at i:44360911 original size:34 final size:33
Alignment explanation
Indices: 44360831--44360912 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 33
44360821 TTAAACACAA
* *
44360831 AATTATTTTTAAAAACCTTAAACCCTAATTTAATT
1 AATT-TTTTT-AAAACCCTAAAACCTAATTTAATT
**
44360866 AATTTACTTAAAACCACTAAAACCTAATTTAATT
1 AATTTTTTTAAAACC-CTAAAACCTAATTTAATT
44360900 AATTTTTTTAAAA
1 AATTTTTTTAAAA
44360913 AAATTCTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
33 6 0.15
34 30 0.75
35 4 0.10
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.41
Consensus pattern (33 bp):
AATTTTTTTAAAACCCTAAAACCTAATTTAATT
Found at i:44361405 original size:23 final size:23
Alignment explanation
Indices: 44361375--44361421 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
44361365 TCACTTAACT
44361375 TCAAAAAGTTACAAAA-ATGTCAC
1 TCAAAAAGTTACAAAATA-GTCAC
44361398 TCAAAAAGTTACAAAATAGTCAC
1 TCAAAAAGTTACAAAATAGTCAC
44361421 T
1 T
44361422 GAATTATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.51, C:0.17, G:0.09, T:0.23
Consensus pattern (23 bp):
TCAAAAAGTTACAAAATAGTCAC
Found at i:44363032 original size:23 final size:23
Alignment explanation
Indices: 44363006--44363050 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
44362996 ATAAATTTCT
* * *
44363006 TTAAAAATTATAACATTAAAAAA
1 TTAAAAAATATAAAAATAAAAAA
44363029 TTAAAAAATATAAAAATAAAAA
1 TTAAAAAATATAAAAATAAAAA
44363051 TCTTTGAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (23 bp):
TTAAAAAATATAAAAATAAAAAA
Found at i:44365248 original size:53 final size:53
Alignment explanation
Indices: 44365143--44365249 Score: 187
Period size: 53 Copynumber: 2.0 Consensus size: 53
44365133 TAAGGAGACC
* *
44365143 TTTTTAATGTTGTGGATTATTGTTGGATCATTAGTTGTCTGATGAACGGTCTA
1 TTTTTAATGTTGTGGATTATTGTTGGATCATTAGTTGTCTAATGAACAGTCTA
*
44365196 TTTTTAATGTTGTGGATTATTGTTGGATCATTAGTTGTCTAATGAATAGTCTA
1 TTTTTAATGTTGTGGATTATTGTTGGATCATTAGTTGTCTAATGAACAGTCTA
44365249 T
1 T
44365250 CCATAACATG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.49
Consensus pattern (53 bp):
TTTTTAATGTTGTGGATTATTGTTGGATCATTAGTTGTCTAATGAACAGTCTA
Found at i:44366106 original size:159 final size:155
Alignment explanation
Indices: 44365817--44366275 Score: 508
Period size: 159 Copynumber: 2.9 Consensus size: 155
44365807 TATGCCATCC
* * * * * * *
44365817 TTTTTTGGCTTCTAGTTCTCATACTCGTACCAAACTGAGAACAAAAACCATAACCCTAAATTAGA
1 TTTTTTGGCTTCTAGTTCTCGTACTCGTACCAGACTAAGAAAAAAAATCAGAACCCCAAATTAGA
* * *
44365882 TTTAAATAATTTGGAATTGACATTAAAAAAGTGTTTACGATATAAATGTGATCCAGCTGTGTTAG
66 TTTAAATATTTTGGAATTGACATT-AAAAAGTGTTTACGATATACATGTGATCCAGTTGTGTTAG
* *
44365947 GTTGAATGCATGGAGTTATGTTATTCT
130 GTTGAATACATGGA-TTATGTTATTAT
44365974 TTTTTTGGCTTCTAGTTCAT-GTACTCGTACCAGACTAAGACCAAAAAAATCAGAACCCCAAATT
1 TTTTTTGGCTTCTAGTTC-TCGTACTCGTACCAGACTAAGA--AAAAAAATCAGAACCCCAAATT
* * * * * * *
44366038 AGATTAAAATATTTTTGAGTTGACATTAAAATAGTGTATACGATATACCTATGATCCAGTTGTAT
63 AGATTTAAATATTTTGGAATTGACATTAAAA-AGTGTTTACGATATACATGTGATCCAGTTGTGT
* * *
44366103 TAGGCTGAATACATTGTATTATGTTGTTAT
127 TAGGTTGAATACA-TGGATTATGTTATTAT
* * * * * *
44366133 TTTTTGGGCTTTTAGTTCTCGTACCCGTATCAGACTAAGATAAAAAAAGTTAGAA-CCCAAATAA
1 TTTTTTGGCTTCTAGTTCTCGTACTCGTACCAGACTAAGA-AAAAAAA-TCAGAACCCCAAATTA
* * * * * *
44366197 GATTTTAATATTTTGGAATTGACAATGAAAAAGTGTTTATGATATACTTGTGTTCCCGTTGTGTT
64 GATTTAAATATTTTGGAATTGAC-ATTAAAAAGTGTTTACGATATACATGTGATCCAGTTGTGTT
44366262 AGGTTGAATACATG
128 AGGTTGAATACATG
44366276 ATCTTTTGTT
Statistics
Matches: 252, Mismatches: 42, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
157 37 0.15
158 78 0.31
159 134 0.53
160 3 0.01
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (155 bp):
TTTTTTGGCTTCTAGTTCTCGTACTCGTACCAGACTAAGAAAAAAAATCAGAACCCCAAATTAGA
TTTAAATATTTTGGAATTGACATTAAAAAGTGTTTACGATATACATGTGATCCAGTTGTGTTAGG
TTGAATACATGGATTATGTTATTAT
Found at i:44375821 original size:34 final size:34
Alignment explanation
Indices: 44375777--44375844 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
44375767 AGATATTGAG
44375777 TTTCACATTAGGGATCGAATGTTTTTGAAAGTAT
1 TTTCACATTAGGGATCGAATGTTTTTGAAAGTAT
*
44375811 TTTCAGATTAGGGATCGAATGTTTTTGAAAGTAT
1 TTTCACATTAGGGATCGAATGTTTTTGAAAGTAT
44375845 CTCCGTGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (34 bp):
TTTCACATTAGGGATCGAATGTTTTTGAAAGTAT
Found at i:44377451 original size:40 final size:39
Alignment explanation
Indices: 44377406--44377544 Score: 136
Period size: 40 Copynumber: 3.4 Consensus size: 39
44377396 ACTATGTTTA
* *
44377406 GCACTTAGTGTGCGATTCGAGATAGCTTCGACTATTTATG
1 GCACTTAGTATGCGATT-GAGATAGCTTCGGCTATTTATG
44377446 GCACTTAGTATGCGATTG-GTAATAGCTTCGGCTATATATATATG
1 GCACTTAGTATGCGATTGAG--ATAGCTTCGGC--TAT-T-TATG
* * *
44377490 ACACTTAGTATGCAAGACTGAGATAGCTTCGGCTATGTATG
1 GCACTTAGTATGC--GATTGAGATAGCTTCGGCTATTTATG
*
44377531 GCACTTAGTGTGCG
1 GCACTTAGTATGCG
44377545 GGATTATAAT
Statistics
Matches: 83, Mismatches: 7, Indels: 19
0.76 0.06 0.17
Matches are distributed among these distances:
38 1 0.01
39 2 0.02
40 26 0.31
41 15 0.18
42 3 0.04
43 4 0.05
44 16 0.19
45 11 0.13
46 4 0.05
47 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (39 bp):
GCACTTAGTATGCGATTGAGATAGCTTCGGCTATTTATG
Found at i:44386959 original size:19 final size:19
Alignment explanation
Indices: 44386922--44386959 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
44386912 CTAATTAAGT
*
44386922 TTTAATTAGATGAATTTAG
1 TTTAATTAGATGAAATTAG
44386941 TTTAATTAAGA-GAAATTAG
1 TTTAATT-AGATGAAATTAG
44386960 GAAAATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (19 bp):
TTTAATTAGATGAAATTAG
Found at i:44388474 original size:23 final size:20
Alignment explanation
Indices: 44388447--44388508 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 20
44388437 GCCTTGCCAA
44388447 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCAC-TTATGTGTCG--TT
**
44388470 TCAGGCACCTCGTGTGTCGTT
1 TCAGGCA-CTTATGTGTCGTT
44388491 TCAGGCACTTATGTGTCG
1 TCAGGCACTTATGTGTCG
44388509 AAAACTGATC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
20 9 0.26
21 9 0.26
23 15 0.44
24 1 0.03
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.37
Consensus pattern (20 bp):
TCAGGCACTTATGTGTCGTT
Found at i:44391769 original size:44 final size:44
Alignment explanation
Indices: 44391682--44391836 Score: 137
Period size: 42 Copynumber: 3.6 Consensus size: 44
44391672 TGTTATCGTG
* *
44391682 TAAGACCACGTCTGGGACGTTGGCATTGAT-TTGAGATTT-ATGTA
1 TAAGACCACGTCTGGGACATTGGCATT-ATATT-TGATTTCATGTA
* *
44391726 TAAGACCATGTCTGGGACATCGGCATTATATTTGATTTCATG--
1 TAAGACCACGTCTGGGACATTGGCATTATATTTGATTTCATGTA
* * * *
44391768 TAAGACC-CTGTTTGGGACAGTGGCATCGATA-TTGATTACATGTA
1 TAAGACCAC-GTCTGGGACATTGGCAT-TATATTTGATTTCATGTA
*
44391812 -AA-ACCACGTCTGGGACGTTGGCATT
1 TAAGACCACGTCTGGGACATTGGCATT
44391837 GTACGAGTTT
Statistics
Matches: 90, Mismatches: 14, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
42 48 0.53
43 13 0.14
44 29 0.32
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (44 bp):
TAAGACCACGTCTGGGACATTGGCATTATATTTGATTTCATGTA
Found at i:44392177 original size:17 final size:18
Alignment explanation
Indices: 44392133--44392177 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
44392123 TATGAAATTT
44392133 TGATATGAAATGTGAGTA
1 TGATATGAAATGTGAGTA
*
44392151 TGAT-TAAAATGATGA-TA
1 TGATATGAAATG-TGAGTA
44392168 T-ATATGAAAT
1 TGATATGAAAT
44392178 ATATGATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 2 0.09
17 14 0.61
18 7 0.30
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (18 bp):
TGATATGAAATGTGAGTA
Found at i:44394357 original size:20 final size:20
Alignment explanation
Indices: 44394332--44394370 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
44394322 CATTCATTTA
44394332 TTTATAAATATTTTTATAAT
1 TTTATAAATATTTTTATAAT
**
44394352 TTTATATGTATTTTTATAA
1 TTTATAAATATTTTTATAA
44394371 AATCTTATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTATAAATATTTTTATAAT
Found at i:44396305 original size:17 final size:17
Alignment explanation
Indices: 44396267--44396309 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
44396257 GTTTAAAACG
*
44396267 ATTTTTATTTTTAATAA
1 ATTTTTAATTTTAATAA
*
44396284 TTTTTTAATTTT-ATGAA
1 ATTTTTAATTTTAAT-AA
44396301 ATTTTTAAT
1 ATTTTTAAT
44396310 GATTTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 2 0.09
17 20 0.91
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
ATTTTTAATTTTAATAA
Found at i:44401662 original size:9 final size:9
Alignment explanation
Indices: 44401648--44401684 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
44401638 TATAGTTTGA
44401648 TATTCGAAT
1 TATTCGAAT
44401657 TATTCGAAT
1 TATTCGAAT
* *
44401666 TATTAGAGT
1 TATTCGAAT
44401675 TATTCGAAT
1 TATTCGAAT
44401684 T
1 T
44401685 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:44403562 original size:20 final size:20
Alignment explanation
Indices: 44403524--44403562 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
44403514 AAACTTTATC
* * *
44403524 TATTTTGGTTTTATTTGAAG
1 TATTTTGATTCTATATGAAG
44403544 TATTTTGATTCTATATGAA
1 TATTTTGATTCTATATGAA
44403563 ATGAATTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.15, T:0.56
Consensus pattern (20 bp):
TATTTTGATTCTATATGAAG
Found at i:44403875 original size:20 final size:21
Alignment explanation
Indices: 44403847--44403901 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
44403837 GTTTTTGTCA
* * *
44403847 TAGGCATCGATATCGGAG-GC
1 TAGGTATCGATACCGGAGACC
*
44403867 TAGGTATCGATACCGTAGACC
1 TAGGTATCGATACCGGAGACC
44403888 TAGGTATCGATACC
1 TAGGTATCGATACC
44403902 TTCACAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (21 bp):
TAGGTATCGATACCGGAGACC
Found at i:44406777 original size:41 final size:43
Alignment explanation
Indices: 44406688--44406768 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 43
44406678 TATGTATTTT
* *
44406688 ATATATGTTCTTTATATTTTATGAATCATTTATATACCTATAA
1 ATATATGTTCTTTATATTTTATGAATCAGTTACATACCTATAA
*
44406731 ATATAT-TT-TTTATATTTTATG-AT-AGTTACATACGTATA
1 ATATATGTTCTTTATATTTTATGAATCAGTTACATACCTATA
44406769 TAGGTATATG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 12 0.34
40 2 0.06
41 13 0.37
42 2 0.06
43 6 0.17
ACGTcount: A:0.35, C:0.07, G:0.06, T:0.52
Consensus pattern (43 bp):
ATATATGTTCTTTATATTTTATGAATCAGTTACATACCTATAA
Found at i:44407135 original size:16 final size:17
Alignment explanation
Indices: 44407102--44407146 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 17
44407092 TACATGATTG
44407102 ATTCGTTTTT-TT-ATT
1 ATTCGTTTTTGTTCATT
44407117 ATTCGTTTTTGTTCA-T
1 ATTCGTTTTTGTTCATT
*
44407133 ATT-ATTTTTGTTCA
1 ATTCGTTTTTGTTCA
44407147 CATTATCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 20 0.74
16 6 0.22
17 1 0.04
ACGTcount: A:0.16, C:0.09, G:0.09, T:0.67
Consensus pattern (17 bp):
ATTCGTTTTTGTTCATT
Found at i:44407140 original size:15 final size:15
Alignment explanation
Indices: 44407122--44407152 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44407112 TTATTATTCG
*
44407122 TTTTTGTTCATATTA
1 TTTTTGTTCACATTA
44407137 TTTTTGTTCACATTA
1 TTTTTGTTCACATTA
44407152 T
1 T
44407153 CATATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTTTGTTCACATTA
Found at i:44407403 original size:109 final size:109
Alignment explanation
Indices: 44407212--44407635 Score: 640
Period size: 109 Copynumber: 3.9 Consensus size: 109
44407202 AAAGAAAAGT
* *
44407212 TTTCAAAGTAAGGCAATATTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
44407277 CGATTTTTCTTGTTCAACCAAATAGCTAAATATCCTTTTAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAA
* * * *
44407321 TTTCAAAATAAGACAATGTTTTACGTTTAGAAATTCGAGAAAACGTGCCCTAATGTGCTAGTTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
44407386 CGATTTTTCTCGTTCAACCAAATAACTAAATATCCTTTTAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAA
* * * *
44407430 TTT-TAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAAACGTGCCCTAATGTGTTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
44407494 CGATTTTTCTCGTTCAACCAAATAGTTAAATATCCTTTTAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAA
* * * *
44407538 TTTCAAAGTAAGGCAATGTTTTGCGTTTGGAAATTTGAG-GAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* * *
44407602 CGA--TTTCTCATTTAACCAAATAGCCAAATATCCT
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCT
44407636 CTTGAATTTT
Statistics
Matches: 287, Mismatches: 27, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
106 27 0.09
108 124 0.43
109 136 0.47
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (109 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAA
Found at i:44411956 original size:17 final size:16
Alignment explanation
Indices: 44411896--44411956 Score: 61
Period size: 17 Copynumber: 3.7 Consensus size: 16
44411886 TCAGATTCAC
*
44411896 AAAACAAAAAAGAAATA
1 AAAAGAAAAAAGAAA-A
* *
44411913 AAGAGGAAAAAGAAAA
1 AAAAGAAAAAAGAAAA
44411929 AAAA-AAGAAAAGAAAA
1 AAAAGAA-AAAAGAAAA
44411945 GAAAAGAAAAAA
1 -AAAAGAAAAAA
44411957 AATGAAGGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
15 1 0.03
16 13 0.36
17 20 0.56
18 2 0.06
ACGTcount: A:0.82, C:0.02, G:0.15, T:0.02
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAA
Found at i:44413254 original size:44 final size:44
Alignment explanation
Indices: 44413191--44413404 Score: 257
Period size: 44 Copynumber: 4.9 Consensus size: 44
44413181 AACAAATCAG
* * * *
44413191 GGAAGATTGTAAATCCTAGCTCCCTGACCAGCATTGGAATAGGT
1 GGAAGACTGTAAGTCCTAGCTCCCTGACCAGCAGTGGAATAGGC
* * *
44413235 GGAAGACTGCAAGTCCTAGCTCCCTGAACAGTAGTGGAATAGGC
1 GGAAGACTGTAAGTCCTAGCTCCCTGACCAGCAGTGGAATAGGC
* *
44413279 GGAAGATTGTAATTCCTAGCTCCCTGACCAGCAGTGGAATAGGC
1 GGAAGACTGTAAGTCCTAGCTCCCTGACCAGCAGTGGAATAGGC
* * * * *
44413323 AGAAGATTGTAAATCCTAGCTCCCTGACCAGCTGTGGAATAGGT
1 GGAAGACTGTAAGTCCTAGCTCCCTGACCAGCAGTGGAATAGGC
* * * * *
44413367 GGAAGACTTTAAGTCTTAGCTCCTTGAACAGTAGTGGA
1 GGAAGACTGTAAGTCCTAGCTCCCTGACCAGCAGTGGA
44413405 GCAAATCGAA
Statistics
Matches: 145, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 145 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.24
Consensus pattern (44 bp):
GGAAGACTGTAAGTCCTAGCTCCCTGACCAGCAGTGGAATAGGC
Found at i:44413493 original size:132 final size:132
Alignment explanation
Indices: 44413356--44414132 Score: 982
Period size: 132 Copynumber: 5.9 Consensus size: 132
44413346 CTGACCAGCT
* * * * *
44413356 GTGGAATAGGTGGAAGACTTTAAG-TCTTAGCTCCTTGAA-CAGTAGTGGAGCAAATCGAAGATG
1 GTGGAATAGATTGAAGA-TTTAAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGATG
* * * *
44413419 ACAGATTTTACTTTCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCTTGGTT
64 ACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGTT
44413484 GGCA
129 GGCA
* * * * *
44413488 ATGGAAAAGATTAAAGATTTCAGATATTATCTCCCT----A--AGTGGAGCAGATCGAAGATGAC
1 GTGGAATAGATTGAAGATTTAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGAC
* * * *
44413547 GGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCTAGTAATTCTATCTCCCTGTTTGG
66 AGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGTTGG
*
44413612 AA
131 CA
* * * *
44413614 CTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGC
1 GTGGAATAGATTGAAGATTTAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGAC
* **
44413679 AGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTCGG-CA
66 AGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCT-GGTTG
44413743 GCA
130 GCA
* * * * *
44413746 GTGGAATAGATTGAATA-TTACAGATTTTATCTCCCTTAGCAGTAGTGGAGCAGATCAAAGATGG
1 GTGGAATAGATTGAAGATTTA-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGA
* * * ***
44413810 CAGATTTTACCTCCTTGTGGTTACAGTAGAGTACATTGAAGCCAATAATTCTATCTCCCTGGGCA
65 CAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGTTG
44413875 GCA
130 GCA
* *
44413878 GTGGAATAGATTGAAGA-TTACAGATCTTATCTCCCTAAGTAGTAGTGGAACAGATCGAAGATGA
1 GTGGAATAGATTGAAGATTTA-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGA
* * * *
44413942 CAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTATATCTCCCTGGTTG
65 CAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGTTG
44414007 GCA
130 GCA
* * * *
44414010 GTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAAATGGC
1 GTGGAATAGATTGAAGATTTAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGAC
* * *
44414075 AAATTTTACCTCTCTGTGACTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCC
66 AGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCC
44414133 CGACGTTGCG
Statistics
Matches: 566, Mismatches: 68, Indels: 22
0.86 0.10 0.03
Matches are distributed among these distances:
126 113 0.20
128 1 0.00
130 1 0.00
131 9 0.02
132 439 0.78
133 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (132 bp):
GTGGAATAGATTGAAGATTTAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGAC
AGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGTTGG
CA
Found at i:44413668 original size:44 final size:43
Alignment explanation
Indices: 44413615--44414064 Score: 141
Period size: 44 Copynumber: 10.2 Consensus size: 43
44413605 TGTTTGGAAC
* *
44413615 TGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
1 TGGAGTAGATTGAAGATTTCAGATTTTATCTCCCT-AGCAGTAG
* ** * **
44413659 TGGAGTAGATCGAAGATGGCAGATTTTACCTCCCT-GTGGTTACAG
1 TGGAGTAGATTGAAGATTTCAGATTTTATCTCCCTAGCAG-T--AG
* * * * *
44413704 TGGAGTACATTGAAGCCA-AT-A-ATTCTATCTCCCTCGGCAGCAG
1 TGGAGTAGATTGAAG--ATTTCAGATTTTATCTCCCT-AGCAGTAG
* * *
44413747 TGGAATAGATTGAATATTACAGATTTTATCTCCCTTAGCAGTAG
1 TGGAGTAGATTGAAGATTTCAGATTTTATCTCCC-TAGCAGTAG
* ** ** * * **
44413791 TGGAGCAGATCAAAGATGGCAGATTTTACCT-CCTTGTGGTTACAG
1 TGGAGTAGATTGAAGATTTCAGATTTTATCTCCCTAGCAG-T--AG
* * * * * *
44413836 TAGAGTACATTGAAGCCA-AT-A-ATTCTATCTCCCTGGGCAGCAG
1 TGGAGTAGATTGAAG--ATTTCAGATTTTATCTCCCT-AGCAGTAG
* * * *
44413879 TGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAG
1 TGGAGTAGATTGAAGATTTCAGATTTTATCTCCCT-AGCAGTAG
** * ** * **
44413923 TGGAACAGATCGAAGATGACAGATTTTACCTCCCT-GTGGTTATAG
1 TGGAGTAGATTGAAGATTTCAGATTTTATCTCCCTAGCAG---TAG
* * * * ** *
44413968 TGGAGTACATTGAAG---CCAGTAATTATATCTCCCTGGTTGGCAG
1 TGGAGTAGATTGAAGATTTCAG--ATTTTATCTCCCTAG-CAGTAG
* * *
44414011 TGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGTAG
1 TGGAGTAGATTGAAGATTTCAGATTTTATCTCCCT-AGCAGTAG
44414055 TGGAGTAGAT
1 TGGAGTAGAT
44414065 CGAAAATGGC
Statistics
Matches: 289, Mismatches: 85, Indels: 64
0.66 0.19 0.15
Matches are distributed among these distances:
41 2 0.01
42 11 0.04
43 49 0.17
44 167 0.58
45 49 0.17
46 9 0.03
47 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (43 bp):
TGGAGTAGATTGAAGATTTCAGATTTTATCTCCCTAGCAGTAG
Found at i:44414043 original size:396 final size:390
Alignment explanation
Indices: 44413395--44414132 Score: 1127
Period size: 396 Copynumber: 1.9 Consensus size: 390
44413385 GCTCCTTGAA
* * *
44413395 CAGTAGTGGAGCAAATCGAAGATGACAGATTTTACTTTCCTGTGATTACAGTGGAGTACATTGAA
1 CAGTAGTGGAGCAAATCAAAGATGACAGATTTTACTCTCCTGTGATTACAGTAGAGTACATTGAA
* * *** *
44413460 GCCAGTAATTCTATCTCCTTGGTTGGCAATGGAAAAGATTAAAGATTTCAGATATTATCTCCCTA
66 GCCAATAATTCTATCTCCCTGGGCAGCAATGGAAAAGATTAAAGATTACAGATATTATCTCCCTA
* * *
44413525 AGTGGAGCAGATCGAAGATGACGGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCTA
131 AGTGGAACAGATCGAAGATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCA
* *
44413590 GTAATTCTATCTCCCTGTTTGGAACTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
196 GTAATTATATCTCCCTGGTTGGAACTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
* * **
44413655 GTAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
261 GTAGTGGAGTAGATCGAAAATGGCAAATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGC
44413720 CAATAATTCTATCTCCCTCGGCAGCAGTGGAATAGATTGAATATTACAGATTTTATCTCCCTTAG
326 CAATAATTCTATCTCCCTCGGCAGCAGTGGAATAGATTGAATATTACAGATTTTATCTCCCTTAG
* * *
44413785 CAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC-CTCCTTGTGGTTACAGTAGAGTACATTGA
1 CAGTAGTGGAGCAAATCAAAGATGACAGATTTTACTCTCC-TGTGATTACAGTAGAGTACATTGA
* * * *
44413849 AGCCAATAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCT
65 AGCCAATAATTCTATCTCCCTGGGCAGCAATGGAAAAGATTAAAGATTACAGATATTATCTCCC-
* *
44413914 AAGTAGTAGTGGAACAGATCGAAGATGACAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATT
129 ---TA--AGTGGAACAGATCGAAGATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATT
* * *
44413979 GAAGCCAGTAATTATATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTTAGATCTTATCTCC
189 GAAGCCAGTAATTATATCTCCCTGGTTGGAACTGGAATAGATTGAAGATTTCAGATCTTATCTCC
*
44414044 CTAAGCAGTAGTGGAGTAGATCGAAAATGGCAAATTTTACCTCTCTGTGACTACAGTGGAGTACA
254 CTAAGCAGTAGTGGAGTAGATCGAAAATGGCAAATTTTACCTCCCTGTGACTACAGTGGAGTACA
44414109 TTGAAGCCAATAATTCTATCTCCC
319 TTGAAGCCAATAATTCTATCTCCC
44414133 CGACGTTGCG
Statistics
Matches: 310, Mismatches: 31, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
389 3 0.01
390 108 0.35
394 2 0.01
396 197 0.64
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (390 bp):
CAGTAGTGGAGCAAATCAAAGATGACAGATTTTACTCTCCTGTGATTACAGTAGAGTACATTGAA
GCCAATAATTCTATCTCCCTGGGCAGCAATGGAAAAGATTAAAGATTACAGATATTATCTCCCTA
AGTGGAACAGATCGAAGATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCA
GTAATTATATCTCCCTGGTTGGAACTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
GTAGTGGAGTAGATCGAAAATGGCAAATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGC
CAATAATTCTATCTCCCTCGGCAGCAGTGGAATAGATTGAATATTACAGATTTTATCTCCCTTAG
Found at i:44415475 original size:3 final size:3
Alignment explanation
Indices: 44415467--44415496 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
44415457 AAGTTAGTAC
*
44415467 TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
44415497 CATCATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:44415481 original size:12 final size:12
Alignment explanation
Indices: 44415464--44415496 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
44415454 ATTAAGTTAG
44415464 TACTATTATTAT
1 TACTATTATTAT
44415476 TACTATTATTAT
1 TACTATTATTAT
*
44415488 TATTATTAT
1 TACTATTAT
44415497 CATCATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (12 bp):
TACTATTATTAT
Found at i:44416232 original size:16 final size:17
Alignment explanation
Indices: 44416198--44416243 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
44416188 TACATGATTG
*
44416198 ATTCGTTTTT-TTTATT
1 ATTCGTTTTTGTTCATT
44416214 ATTCGTTTTTGTTCA-T
1 ATTCGTTTTTGTTCATT
*
44416230 ATT-ATTTTTGTTCA
1 ATTCGTTTTTGTTCA
44416244 CATTATCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 10 0.37
16 14 0.52
17 3 0.11
ACGTcount: A:0.15, C:0.09, G:0.09, T:0.67
Consensus pattern (17 bp):
ATTCGTTTTTGTTCATT
Found at i:44416237 original size:15 final size:15
Alignment explanation
Indices: 44416219--44416249 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44416209 TTATTATTCG
*
44416219 TTTTTGTTCATATTA
1 TTTTTGTTCACATTA
44416234 TTTTTGTTCACATTA
1 TTTTTGTTCACATTA
44416249 T
1 T
44416250 CATATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTTTGTTCACATTA
Found at i:44416488 original size:109 final size:109
Alignment explanation
Indices: 44416293--44416721 Score: 677
Period size: 109 Copynumber: 4.0 Consensus size: 109
44416283 ATACTTCAAA
* *
44416293 AAAAATTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
*
44416358 GTTTTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTT
66 GGTTTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTT
* *
44416402 AAAAATTTCAAAATAAGACAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCCG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
* *
44416467 GGTTTCGATTTTTCTCATTCAACCAAATAGCTAAATATCCTTGT
66 GGTTTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTT
* * * *
44416511 AAAAGTTT-TAAATAAGGCAATGTTTTGCGTTTGGAAATTCAAGGAAACGTGCCCTAATGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
44416575 GGTTTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTT
66 GGTTTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTT
* * * *
44416619 AAAAATTTCAAAGTAAGGCAATGTTTTGCGTTTCGAAATTCGAG-GAACGTACCCTAATGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
* *
44416683 GGTTTCGA--TTTCTCGTTTAACCAAATAGCCAAATATCCT
66 GGTTTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCT
44416722 CTTGAATTTT
Statistics
Matches: 295, Mismatches: 24, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
106 29 0.10
108 126 0.43
109 140 0.47
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (109 bp):
AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
GGTTTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTT
Found at i:44432635 original size:29 final size:29
Alignment explanation
Indices: 44432603--44432674 Score: 126
Period size: 29 Copynumber: 2.5 Consensus size: 29
44432593 ACACACAAGA
*
44432603 GTGTCCTAGGTCGTTTGGCATACAGGGGC
1 GTGTCCTAGGTCGTTCGGCATACAGGGGC
*
44432632 GTGTCCTAAGTCGTTCGGCATACAGGGGC
1 GTGTCCTAGGTCGTTCGGCATACAGGGGC
44432661 GTGTCCTAGGTCGT
1 GTGTCCTAGGTCGT
44432675 ATGTGTACTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.14, C:0.22, G:0.36, T:0.28
Consensus pattern (29 bp):
GTGTCCTAGGTCGTTCGGCATACAGGGGC
Found at i:44435259 original size:6 final size:6
Alignment explanation
Indices: 44435231--44435301 Score: 56
Period size: 6 Copynumber: 11.5 Consensus size: 6
44435221 TGATCATTGA
* *
44435231 TTTTAT TTTTTT CTTTCTAT TTTTGT TTTTAT TTTTAT TTTTAT ATTTT-T
1 TTTTAT TTTTAT -TTT-TAT TTTTAT TTTTAT TTTTAT TTTTAT -TTTTAT
* *
44435281 TAGTTA- TTTTAT TCTTAT TTT
1 T-TTTAT TTTTAT TTTTAT TTT
44435302 CTTAAACTTC
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
5 4 0.08
6 35 0.69
7 10 0.20
8 2 0.04
ACGTcount: A:0.14, C:0.04, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:44435266 original size:26 final size:26
Alignment explanation
Indices: 44435231--44435280 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
44435221 TGATCATTGA
*
44435231 TTTTATTTTT-TTCTTTCTATTTTTGT
1 TTTTATTTTTATT-TTTATATTTTTGT
44435257 TTTTATTTTTATTTTTATATTTTT
1 TTTTATTTTTATTTTTATATTTTT
44435281 TAGTTATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.12, C:0.04, G:0.02, T:0.82
Consensus pattern (26 bp):
TTTTATTTTTATTTTTATATTTTTGT
Found at i:44435617 original size:59 final size:59
Alignment explanation
Indices: 44435524--44435637 Score: 183
Period size: 59 Copynumber: 1.9 Consensus size: 59
44435514 CCTCTCTTAT
* *
44435524 GATATTTTATTTATTTTATGTTTATATATGTTTGTACATTGAGAATAATGTACATTGAG
1 GATATTATATTTATTTTATGTTTATATATATTTGTACATTGAGAATAATGTACATTGAG
* * *
44435583 GATATTATGTTTATTTTATGTTTATATCTATTTGTACATTGAGGATAATGTACAT
1 GATATTATATTTATTTTATGTTTATATATATTTGTACATTGAGAATAATGTACAT
44435638 CTTAAGTGTG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.51
Consensus pattern (59 bp):
GATATTATATTTATTTTATGTTTATATATATTTGTACATTGAGAATAATGTACATTGAG
Found at i:44441116 original size:16 final size:17
Alignment explanation
Indices: 44441097--44441129 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
44441087 TATATAATGT
44441097 ACTACTATTAT-ATATA
1 ACTACTATTATAATATA
*
44441113 ACTATTATTATAATATA
1 ACTACTATTATAATATA
44441130 GATTATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (17 bp):
ACTACTATTATAATATA
Found at i:44441405 original size:20 final size:19
Alignment explanation
Indices: 44441376--44441429 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
44441366 ATAGTATGTG
44441376 ATATAGTTTTATAATGAAATA
1 ATATA-TTTTATAA-GAAATA
* *
44441397 ATATATTTTATAAGTATTA
1 ATATATTTTATAAGAAATA
44441416 ATATATATTTATAA
1 ATATAT-TTTATAA
44441430 CTATTATCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 10 0.33
20 15 0.50
21 5 0.17
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (19 bp):
ATATATTTTATAAGAAATA
Found at i:44441434 original size:20 final size:19
Alignment explanation
Indices: 44441395--44441435 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
44441385 TATAATGAAA
*
44441395 TAATATATTTTATAAGTAT
1 TAATATATTTTATAACTAT
44441414 TAATATATATTTATAACTAT
1 TAATATAT-TTTATAACTAT
44441434 TA
1 TA
44441436 TCATATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (19 bp):
TAATATATTTTATAACTAT
Found at i:44447325 original size:13 final size:11
Alignment explanation
Indices: 44447290--44447320 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
44447280 CCGCCCGTAT
44447290 TAATTTTTATA
1 TAATTTTTATA
*
44447301 TTATTTTTATA
1 TAATTTTTATA
44447312 TAATTTTTA
1 TAATTTTTA
44447321 AATATTTCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:44447435 original size:30 final size:30
Alignment explanation
Indices: 44447401--44447460 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
44447391 ACTTAACAAG
44447401 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
44447431 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
44447461 TAATAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.57, C:0.15, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:44447518 original size:22 final size:22
Alignment explanation
Indices: 44447493--44447535 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
44447483 TATCCAAACA
44447493 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
44447515 ATAATAGTAAAATCGTAGCAA
1 ATAACAATAAAATAGTAGCAA
44447536 AAATAGGGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:44456250 original size:94 final size:94
Alignment explanation
Indices: 44456137--44456738 Score: 618
Period size: 94 Copynumber: 6.4 Consensus size: 94
44456127 TACAATGGTG
* *
44456137 AATCTTATCTCCCTGAAGTTGCAATGGAGTAAGATGAAGCTACAAATCCTATACCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTG
* * * *
44456202 TAGTGGGTTGAAAGGAAATTACAATAACA
66 CAGTGGGTTGAAATGAAACTACAATAGCA
* * * * **
44456231 AATCTTATCTCTCTGAAGTTGCAATTGAGAAAGATGAAGCTACAAATCCTATACCCCAAAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTG
* * * ** * * *
44456296 TAGTAGG-TCAGCTTAAAGCTATAATAGCG
66 CAGTGGGTTGAAATGAAA-CTACAATAGCA
* *
44456325 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTG
* * * **
44456390 CAATGGGTTGGAATGAAGCTACAATAGTG
66 CAGTGGGTTGAAATGAAACTACAATAGCA
* * ** *
44456419 AATCTTGTCTCCCTAAAGTTATAGTGGAGCAAGATTAAGCTACAAATCCTATACCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTG
* *
44456484 CAGTGGGTT-AGAAT-AAAGCTACCATAGCG
66 CAGTGGGTTGA-AATGAAA-CTACAATAGCA
* * *
44456513 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGATAAAGATACAAATCCTATACCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTG
* * * * *
44456578 CAATAGGTTGGAATGAAATTACAATGGCA
66 CAGTGGGTTGAAATGAAACTACAATAGCA
* * * * *
44456607 AA-CTTTATCTCCTTGAAGTTACAGTAGAGCAAGATGAAGCTACAAATCCTATATCCCTAAAGTT
1 AATC-TTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTT
** * * * * *
44456671 GCAGTGGAATGGATTAAAACTACAACAACA
65 GCAGTGGGTTGAAATGAAACTACAATAGCA
** * *
44456701 AATCTTATCTCTTTGAAGTTGCAATAGAGCAAGATGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAA
44456739 ACTATAACAC
Statistics
Matches: 423, Mismatches: 77, Indels: 16
0.82 0.15 0.03
Matches are distributed among these distances:
93 8 0.02
94 407 0.96
95 8 0.02
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (94 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTG
CAGTGGGTTGAAATGAAACTACAATAGCA
Found at i:44456365 original size:50 final size:48
Alignment explanation
Indices: 44456317--44456547 Score: 153
Period size: 44 Copynumber: 4.9 Consensus size: 48
44456307 CTTAAAGCTA
44456317 TAATAGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGC
1 TAATAGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGC
* * * ***
44456365 ---TA-CAAATCTTATAC-CCCTGAAGTTGCAATGG-GTTGGAATGAAGC
1 TAATAGCGAATCTTAT-CTCCCTGAAGTTGTAGTGGAGCAAG-ATGAAGC
* * * * *
44456409 TACAATAGTGAATCTTGTCTCCCTAAAGTTATAGTGGAGCAAGATTAAGC
1 T--AATAGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGC
* * * ** *
44456459 ---TA-CAAATCCTATAC-CCCTGAAGTTGCAGTGG-GTTAGAATAAAGC
1 TAATAGCGAATCTTAT-CTCCCTGAAGTTGTAGTGGAGCAAG-ATGAAGC
44456503 TACCATAGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGAT
1 TA--ATAGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGAT
44456548 AAAGATACAA
Statistics
Matches: 131, Mismatches: 32, Indels: 38
0.65 0.16 0.19
Matches are distributed among these distances:
43 5 0.04
44 57 0.44
45 6 0.05
49 6 0.05
50 52 0.40
51 5 0.04
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (48 bp):
TAATAGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGC
Found at i:44456461 original size:188 final size:187
Alignment explanation
Indices: 44456097--44456675 Score: 712
Period size: 188 Copynumber: 3.1 Consensus size: 187
44456087 ACTCTCATAT
* * ** * * * *
44456097 CCCTAAAGATGCAGTAGATCAG-ATCAAATTTACAATGGTGAATCTTATCTCCCTGAAGTTGCAA
1 CCCTAAAGTTGCAGTAGGTCAGAAT-AAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGTAG
* * * * *
44456161 TGGAGTAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTTGAAAGGAAATTACAA
65 TGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAATGGGTTGGAATGAAATTACAA
** * * * * *
44456226 TAACAAATCTTATCTCTCTGAAGTTGCAATTGAGAAAGATGAAGCTACAAATCCTATAC
130 T-AGGAATCTTATCTCCCTGAAGTTACAGTAGAGCAAGATGAAGCTACAAATCCTATAC
* * ** *
44456285 CCCAAAAGTTGTAGTAGGTCAGCTTAAAGCTATAATAGCGAATCTTATCTCCCTGAAGTTGTAGT
1 CCCTAAAGTTGCAGTAGGTCAGAATAAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGTAGT
* **
44456350 GGAGCAAGATGAAGCTACAAATCTTATACCCCTGAAGTTGCAATGGGTTGGAATGAAGCTACAAT
66 GGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAATGGGTTGGAATGAAATTACAAT
* * * * *
44456415 AGTGAATCTTGTCTCCCTAAAGTTATAGTGGAGCAAGATTAAGCTACAAATCCTATAC
131 AG-GAATCTTATCTCCCTGAAGTTACAGTAGAGCAAGATGAAGCTACAAATCCTATAC
* * * *
44456473 CCCTGAAGTTGCAGTGGGTTAGAATAAAGCTACCATAGCGAATCTTATCTCCCTGAAGTTGTAGT
1 CCCTAAAGTTGCAGTAGGTCAGAATAAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGTAGT
* * *
44456538 GGAGCAAGATAAAGATACAAATCCTATACCCCTGAAGTTGCAATAGGTTGGAATGAAATTACAAT
66 GGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAATGGGTTGGAATGAAATTACAAT
* * *
44456603 -GGCAAACTTTATCTCCTTGAAGTTACAGTAGAGCAAGATGAAGCTACAAATCCTATAT
131 AGG-AATC-TTATCTCCCTGAAGTTACAGTAGAGCAAGATGAAGCTACAAATCCTATAC
44456661 CCCTAAAGTTGCAGT
1 CCCTAAAGTTGCAGT
44456676 GGAATGGATT
Statistics
Matches: 332, Mismatches: 55, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
186 1 0.00
187 5 0.02
188 325 0.98
189 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (187 bp):
CCCTAAAGTTGCAGTAGGTCAGAATAAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGTAGT
GGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAATGGGTTGGAATGAAATTACAAT
AGGAATCTTATCTCCCTGAAGTTACAGTAGAGCAAGATGAAGCTACAAATCCTATAC
Found at i:44456550 original size:50 final size:48
Alignment explanation
Indices: 44456309--44456556 Score: 169
Period size: 50 Copynumber: 5.2 Consensus size: 48
44456299 TAGGTCAGCT
*
44456309 TAAAGCTATAATAGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGA
1 TAAAGCTA-CATAG-GAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGA
* * * ***
44456359 TGAAGCTAC--A--AATCTTATAC-CCCTGAAGTTGCAATGG-GTTGGAA
1 TAAAGCTACATAGGAATCTTAT-CTCCCTGAAGTTGTAGTGGAGCAAG-A
* * * *
44456403 TGAAGCTACAATAGTGAATCTTGTCTCCCTAAAGTTATAGTGGAGCAAGA
1 TAAAGCTAC-ATAG-GAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGA
* * * **
44456453 TTAAGCTAC--A--AATCCTATAC-CCCTGAAGTTGCAGTGG-GTTAGAA
1 TAAAGCTACATAGGAATCTTAT-CTCCCTGAAGTTGTAGTGGAGCAAG-A
44456497 TAAAGCTACCATAGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGA
1 TAAAGCTA-CATAG-GAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGA
*
44456547 TAAAGATACA
1 TAAAGCTACA
44456557 AATCCTATAC
Statistics
Matches: 149, Mismatches: 29, Indels: 41
0.68 0.13 0.19
Matches are distributed among these distances:
43 5 0.03
44 61 0.41
45 3 0.02
47 4 0.03
49 4 0.03
50 67 0.45
51 5 0.03
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (48 bp):
TAAAGCTACATAGGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGA
Found at i:44456707 original size:188 final size:186
Alignment explanation
Indices: 44456127--44456738 Score: 692
Period size: 188 Copynumber: 3.3 Consensus size: 186
44456117 AGATCAAATT
* * *
44456127 TACAATGGTGAATCTTATCTCCCTGAAGTTGCAATGGAGTAAGATGAAGCTACAAATCCTATACC
1 TACAATAGCGAATCTTATCTCCCTGAAGTTGCAATGGAGCAAGATGAAGCTACAAATCCTATACC
* * * * ** * *
44456192 CCTGAAGTTGTAGTGGGTTGAAAGGAAATTACAATAACAAA-TCTTATCT-CTCTGAAGTTGCAA
66 CCTGAAGTTGCAATGGGTTGGAATGAAATTACAATGGCAAACT-TTATCTCCT-TGAAGTTACAG
* * * * *
44456255 TTGAGAAAGATGAAGCTACAAATCCTATACCCCAAAAGTTGTAGTAGGTCAGCTTAAAGC
129 TAGAGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTGCAGT-GGT-AGATTAAAGC
* * * *
44456315 TATAATAGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACC
1 TACAATAGCGAATCTTATCTCCCTGAAGTTGCAATGGAGCAAGATGAAGCTACAAATCCTATACC
** * * * * *
44456380 CCTGAAGTTGCAATGGGTTGGAATGAAGCTACAATAGTG-AATC-TTGTCTCCCTAAAGTTATAG
66 CCTGAAGTTGCAATGGGTTGGAATGAAATTACAAT-G-GCAAACTTTATCTCCTTGAAGTTACAG
* * * *
44456443 TGGAGCAAGATTAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTAGAATAAAGC
129 TAGAGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTGCAGT-GG-TAGATTAAAGC
* * * * *
44456503 TACCATAGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGATAAAGATACAAATCCTATACC
1 TACAATAGCGAATCTTATCTCCCTGAAGTTGCAATGGAGCAAGATGAAGCTACAAATCCTATACC
*
44456568 CCTGAAGTTGCAATAGGTTGGAATGAAATTACAATGGCAAACTTTATCTCCTTGAAGTTACAGTA
66 CCTGAAGTTGCAATGGGTTGGAATGAAATTACAATGGCAAACTTTATCTCCTTGAAGTTACAGTA
* * *
44456633 GAGCAAGATGAAGCTACAAATCCTATATCCCTAAAGTTGCAGTGGAATGGATTAAAAC
131 GAGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTGCAGTGG--TAGATTAAAGC
* * * ** *
44456691 TACAACAACAAATCTTATCTCTTTGAAGTTGCAATAGAGCAAGATGAA
1 TACAATAGCGAATCTTATCTCCCTGAAGTTGCAATGGAGCAAGATGAA
44456739 ACTATAACAC
Statistics
Matches: 354, Mismatches: 62, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
186 1 0.00
187 6 0.02
188 343 0.97
189 4 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (186 bp):
TACAATAGCGAATCTTATCTCCCTGAAGTTGCAATGGAGCAAGATGAAGCTACAAATCCTATACC
CCTGAAGTTGCAATGGGTTGGAATGAAATTACAATGGCAAACTTTATCTCCTTGAAGTTACAGTA
GAGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTGCAGTGGTAGATTAAAGC
Found at i:44458620 original size:13 final size:13
Alignment explanation
Indices: 44458540--44458624 Score: 57
Period size: 13 Copynumber: 6.1 Consensus size: 13
44458530 AATTATCATA
44458540 TATTT-TTA-TAT
1 TATTTATTATTAT
44458551 TATTTCATTATTAT
1 TATTT-ATTATTAT
*
44458565 TATCATTATTATCAT
1 TAT--TTATTATTAT
*
44458580 ATAGTATTATTAATTGAA
1 -TA-T-TTATT-ATT-AT
44458598 TATTTATTATTAT
1 TATTTATTATTAT
*
44458611 TATTTCTTATTAT
1 TATTTATTATTAT
44458624 T
1 T
44458625 GTATTCACTA
Statistics
Matches: 60, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
11 5 0.08
13 17 0.28
14 9 0.15
15 12 0.20
16 11 0.18
17 5 0.08
18 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (13 bp):
TATTTATTATTAT
Found at i:44467287 original size:20 final size:20
Alignment explanation
Indices: 44467264--44467306 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
44467254 CACAACATGA
*
44467264 CATTATTTATGAAGTAACAC
1 CATTATTCATGAAGTAACAC
44467284 CATTATTCATGAAGTAACAC
1 CATTATTCATGAAGTAACAC
44467304 CAT
1 CAT
44467307 CATACTCTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (20 bp):
CATTATTCATGAAGTAACAC
Found at i:44469368 original size:22 final size:23
Alignment explanation
Indices: 44469322--44469369 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
44469312 AATATAAATG
44469322 TTTGTTTATACTAATTTATTTTA
1 TTTGTTTATACTAATTTATTTTA
44469345 TTTGTTTATA-TAA-TTATTTATA
1 TTTGTTTATACTAATTTATTT-TA
44469367 TTT
1 TTT
44469370 ATATTTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 6 0.25
22 8 0.33
23 10 0.42
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (23 bp):
TTTGTTTATACTAATTTATTTTA
Found at i:44471049 original size:20 final size:18
Alignment explanation
Indices: 44471019--44471070 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
44471009 AAATAATGTT
* *
44471019 TTTTATCATTTATATAAAA
1 TTTTATTATTTAAAT-AAA
44471038 TTTTAATTATTTAAATAAA
1 TTTT-ATTATTTAAATAAA
*
44471057 TTTTATTATATAAA
1 TTTTATTATTTAAA
44471071 ATATTTTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 9 0.31
19 11 0.38
20 9 0.31
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTATTATTTAAATAAA
Found at i:44471070 original size:18 final size:19
Alignment explanation
Indices: 44471035--44471070 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
44471025 CATTTATATA
*
44471035 AAATTTTAATTATTTAAAT
1 AAATTTTAATTATATAAAT
44471054 AAATTTT-ATTATATAAA
1 AAATTTTAATTATATAAA
44471071 ATATTTTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AAATTTTAATTATATAAAT
Found at i:44471078 original size:18 final size:17
Alignment explanation
Indices: 44471028--44471078 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
44471018 TTTTTATCAT
*
44471028 TTATATAAA-ATTTTAA
1 TTATATAAATATTTTTA
* *
44471044 TTATTTAAATAAATTTTA
1 TTATATAAAT-ATTTTTA
44471062 TTATATAAAATATTTTT
1 TTATAT-AAATATTTTT
44471079 CAACTTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 8 0.30
18 15 0.56
19 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTATATAAATATTTTTA
Found at i:44474213 original size:22 final size:23
Alignment explanation
Indices: 44474170--44474214 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
44474160 TGTTGGGTTA
44474170 GTCGAATATGATGTGTAGAGGATG
1 GTCGAATATGATGTGTA-AGGATG
*
44474194 GTCGAATATGGTGTGT-AGGAT
1 GTCGAATATGATGTGTAAGGAT
44474215 TCTGCATAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
24 15 0.75
ACGTcount: A:0.27, C:0.04, G:0.38, T:0.31
Consensus pattern (23 bp):
GTCGAATATGATGTGTAAGGATG
Found at i:44476370 original size:17 final size:16
Alignment explanation
Indices: 44476348--44476399 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 16
44476338 TATAAGCTTT
44476348 TAAAAATTATCAAAATA
1 TAAAAATTAT-AAAATA
*
44476365 TAAAAATTCTAATAAATTA
1 TAAAAA-T-T-ATAAAATA
44476384 TAAAAAATTATAAAAT
1 T-AAAAATTATAAAAT
44476400 TAATAAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 12 0.41
18 2 0.07
19 8 0.28
20 7 0.24
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAAAATTATAAAATA
Found at i:44476400 original size:8 final size:9
Alignment explanation
Indices: 44476348--44476459 Score: 75
Period size: 10 Copynumber: 11.7 Consensus size: 9
44476338 TATAAGCTTT
44476348 TAAAAATTA
1 TAAAAATTA
*
44476357 TCAAAA-TA
1 TAAAAATTA
*
44476365 TAAAAATTC
1 TAAAAATTA
44476374 TAATAAATTA
1 TAA-AAATTA
44476384 TAAAAAATTA
1 T-AAAAATTA
44476394 T-AAAATTAA
1 TAAAAATT-A
*
44476403 TAAAACATATT
1 TAAAA-AT-TA
*
44476414 TAAAATTTTA
1 TAAAA-ATTA
44476424 TAAAAATGTA
1 TAAAAAT-TA
*
44476434 TTAAAATTATA
1 -TAAAAAT-TA
*
44476445 TAAAAATCA
1 TAAAAATTA
44476454 TAAAAA
1 TAAAAA
44476460 CTTTAATTGG
Statistics
Matches: 81, Mismatches: 13, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
8 13 0.16
9 19 0.23
10 30 0.37
11 18 0.22
12 1 0.01
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:44476428 original size:21 final size:20
Alignment explanation
Indices: 44476381--44476451 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 20
44476371 TTCTAATAAA
44476381 TTATAAAAA-ATTATAAAA-T
1 TTATAAAAATATT-TAAAATT
*
44476400 TAATAAAACATATTTAAAATT
1 TTATAAAA-ATATTTAAAATT
*
44476421 TTATAAAAATGTATTAAAATT
1 TTATAAAAATAT-TTAAAATT
*
44476442 ATATAAAAAT
1 TTATAAAAAT
44476452 CATAAAAACT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
19 7 0.16
20 9 0.20
21 28 0.64
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (20 bp):
TTATAAAAATATTTAAAATT
Found at i:44477001 original size:20 final size:21
Alignment explanation
Indices: 44476969--44477022 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 21
44476959 CTTTAAATAA
*
44476969 TTTTAT-A-ATTTATTA-TAT
1 TTTTATAATATTTATAAGTAT
*
44476987 TTTTATAATATTTATAAGTTT
1 TTTTATAATATTTATAAGTAT
44477008 TTTTATAAT-TTTATA
1 TTTTATAATATTTATA
44477023 TCAATTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 6 0.19
19 1 0.03
20 13 0.42
21 11 0.35
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTATAATATTTATAAGTAT
Found at i:44477012 original size:58 final size:54
Alignment explanation
Indices: 44476960--44477088 Score: 125
Period size: 58 Copynumber: 2.3 Consensus size: 54
44476950 TTTTAAATAC
* *
44476960 TTTAAAT-AATTTTATAATTTATTATATTTTTATAATATTTATAAGTTTTTTTATAAT
1 TTTAAATCAATTTTATAATTTATTAAATATTTAT-AT-TTTAT-A-TTTTTTTATAAT
* * * * *
44477017 TTTATATCAATTTTATTATTTTTTAAATATTTATATTTTATATTTTTTTCTATT
1 TTTAAATCAATTTTATAATTTATTAAATATTTATATTTTATATTTTTTTATAAT
* *
44477071 TTTACAATTATTTTTATA
1 TTTA-AATCAATTTTATA
44477089 GGAAAAATAT
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
54 14 0.24
55 10 0.17
56 5 0.08
57 8 0.14
58 22 0.37
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (54 bp):
TTTAAATCAATTTTATAATTTATTAAATATTTATATTTTATATTTTTTTATAAT
Found at i:44477013 original size:29 final size:26
Alignment explanation
Indices: 44476965--44477079 Score: 106
Period size: 25 Copynumber: 4.2 Consensus size: 26
44476955 AATACTTTAA
*
44476965 ATAATTTTATAATTTATTATATTTTT
1 ATAATTTTATAATTTTTTATATTTTT
44476991 ATAATATTTATAAGTTTTTTTATAATTTTAT
1 ATAAT-TTTATAA--TTTTTTAT-ATTTT-T
* * *
44477022 ATCAATTTTATTATTTTTTAAATATTT
1 AT-AATTTTATAATTTTTTATATTTTT
* *
44477049 AT-ATTTTATATTTTTTTCTATTTTT
1 ATAATTTTATAATTTTTTATATTTTT
*
44477074 ACAATT
1 ATAATT
44477080 ATTTTTATAG
Statistics
Matches: 72, Mismatches: 10, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
25 19 0.26
26 8 0.11
27 10 0.14
28 4 0.06
29 14 0.19
30 5 0.07
31 9 0.12
32 3 0.04
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (26 bp):
ATAATTTTATAATTTTTTATATTTTT
Found at i:44477030 original size:19 final size:18
Alignment explanation
Indices: 44477008--44477059 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
44476998 TTATAAGTTT
*
44477008 TTTTATAATTTTATATCAA
1 TTTTAT-ATTTTATATAAA
44477027 TTTTATTATTTT-T-TAAA
1 TTTTA-TATTTTATATAAA
44477044 TATTTATATTTTATAT
1 T-TTTATATTTTATAT
44477060 TTTTTTCTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
17 10 0.36
18 6 0.21
19 11 0.39
20 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTATATTTTATATAAA
Found at i:44482911 original size:19 final size:18
Alignment explanation
Indices: 44482887--44482925 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
44482877 AAACAAATAA
44482887 AGAAAAGGAATCCTATTCT
1 AGAAAAGGAATCCTA-TCT
44482906 AGAAAAGGAATCCTATCT
1 AGAAAAGGAATCCTATCT
44482924 AG
1 AG
44482926 GAATAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (18 bp):
AGAAAAGGAATCCTATCT
Found at i:44488546 original size:56 final size:50
Alignment explanation
Indices: 44488320--44488556 Score: 174
Period size: 50 Copynumber: 4.6 Consensus size: 50
44488310 TAATAACATA
* * * * *
44488320 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGA--TGT-TTCTTGTACTA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG-A-TT
* * * * * ** * *
44488369 CCAATGTCATATCCCAGATATGGTTTTACATAGGAGTTCTCATATCGGTT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATT
* * ** * *
44488419 CCCATGTCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATT
* * *
44488469 CCAACGCCATATCCCAAACATGGTCTTACATGGGACCTCTCATAACTTCAATGATT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT--C-TC---GATT
44488525 CCAATGCCATGTCCCAGACATGGTCTTACATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATG
44488557 AGATCTCTTT
Statistics
Matches: 144, Mismatches: 35, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
49 29 0.20
50 76 0.53
51 2 0.01
52 4 0.03
53 2 0.01
56 31 0.22
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATT
Found at i:44490299 original size:12 final size:12
Alignment explanation
Indices: 44490273--44490306 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
44490263 TAATGATACA
44490273 AATAGTAAC-AT
1 AATAGTAACAAT
44490284 AATAGTAACAAT
1 AATAGTAACAAT
*
44490296 AATAATAACAA
1 AATAGTAACAA
44490307 CAAAAGCCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.62, C:0.09, G:0.06, T:0.24
Consensus pattern (12 bp):
AATAGTAACAAT
Found at i:44494205 original size:35 final size:36
Alignment explanation
Indices: 44494140--44494217 Score: 104
Period size: 35 Copynumber: 2.2 Consensus size: 36
44494130 GCGTGACGAT
*
44494140 GGCGTGCGAGGAGATGGAACGACGCGCATGGGCAGA
1 GGCGTGCGAGGAGATGGAACGACGCACATGGGCAGA
* * *
44494176 GGCG-GCGAGGAGCTGGAGCGGCGCACATGGGCAGA
1 GGCGTGCGAGGAGATGGAACGACGCACATGGGCAGA
*
44494211 GGTGTGC
1 GGCGTGC
44494218 ATGCGGCTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
35 30 0.83
36 6 0.17
ACGTcount: A:0.21, C:0.21, G:0.50, T:0.09
Consensus pattern (36 bp):
GGCGTGCGAGGAGATGGAACGACGCACATGGGCAGA
Found at i:44498818 original size:87 final size:87
Alignment explanation
Indices: 44498672--44498851 Score: 333
Period size: 87 Copynumber: 2.1 Consensus size: 87
44498662 TTACTCCATT
*
44498672 AATATTGGACAGAATATTTACCTTACTAAAAATCTATTATTTATACCAAACAACAAATAATATTT
1 AATATTGGACAGAATATTTACCCTACTAAAAATCTATTATTTATACCAAACAACAAATAATATTT
*
44498737 AAGAATGTTTTTATTTGAAATA
66 AAGAATATTTTTATTTGAAATA
*
44498759 AATATTGGACAGAATATTTACCCTACTAAAAATCTATTATTTATACCAAACAATAAATAATATTT
1 AATATTGGACAGAATATTTACCCTACTAAAAATCTATTATTTATACCAAACAACAAATAATATTT
44498824 AAGAATATTTTTATTTGAAATA
66 AAGAATATTTTTATTTGAAATA
44498846 AATATT
1 AATATT
44498852 ATTTTAAAGA
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 90 1.00
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (87 bp):
AATATTGGACAGAATATTTACCCTACTAAAAATCTATTATTTATACCAAACAACAAATAATATTT
AAGAATATTTTTATTTGAAATA
Found at i:44500824 original size:42 final size:42
Alignment explanation
Indices: 44500695--44500965 Score: 325
Period size: 42 Copynumber: 6.4 Consensus size: 42
44500685 ACGTCGCTAA
* * *
44500695 CTTTTGCGGCGCTTACAGAAAAAAACGCTGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGGAAAAAACGCCGCTAAAGATCATGTT
*
44500739 CTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAA-AAACGCCGCTAAAGATCATGTT
*
44500782 CTTTAGCGGCGCTTAGGAAAAAACACCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
* * *
44500824 CTTTAGCAGCGCTTAGAAAAAAATGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
*
44500866 CTTTAGCGGCGCTTAGGAAGAAAACGCCGCTAAA-AGTAATGTT
1 CTTTAGCGGCGCTTAGGAA-AAAACGCCGCTAAAGA-TCATGTT
* * *
44500909 CTATAGCGGCTCTT-GGTCAAAAACGCCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTAGG-AAAAAACGCCGCTAAAGA-TCA-TGTT
*
44500951 CTTTAGCGGTGCTTA
1 CTTTAGCGGCGCTTA
44500966 TTTCACAAAC
Statistics
Matches: 201, Mismatches: 20, Indels: 13
0.86 0.09 0.06
Matches are distributed among these distances:
41 1 0.00
42 116 0.58
43 72 0.36
44 12 0.06
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
Found at i:44500890 original size:85 final size:84
Alignment explanation
Indices: 44500695--44500965 Score: 323
Period size: 85 Copynumber: 3.2 Consensus size: 84
44500685 ACGTCGCTAA
* * * * *
44500695 CTTTTGCGGCGCTTACAGAAAAAAACGCTGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAAT
1 CTTTAGCGGCGCTT--AGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA-GAAAA
44500760 AAACGCCGCTAAAGATCATGTT
63 AAACGCCGCTAAAGATCATGTT
* *
44500782 CTTTAGCGGCGCTTAGGAAAAAACACCGCTAAAGATCATGTTCTTTAGCAGCGCTTAGAAAAAAA
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAA
*
44500847 TGCCGCTAAAGATCATGTT
66 CGCCGCTAAAGATCATGTT
* * * * **
44500866 CTTTAGCGGCGCTTAGGAAGAAAACGCCGCTAAA-AGTAATGTTCTATAGCGGCTCTTGGTCAAA
1 CTTTAGCGGCGCTTAGGAA-AAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTAGAAAAA
44500930 AACGCCGCTAAA-AGT-AGTGTT
64 AACGCCGCTAAAGA-TCA-TGTT
*
44500951 CTTTAGCGGTGCTTA
1 CTTTAGCGGCGCTTA
44500966 TTTCACAAAC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
84 47 0.29
85 102 0.63
87 13 0.08
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (84 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAA
CGCCGCTAAAGATCATGTT
Found at i:44500965 original size:127 final size:127
Alignment explanation
Indices: 44500711--44500957 Score: 342
Period size: 127 Copynumber: 1.9 Consensus size: 127
44500701 CGGCGCTTAC
*
44500711 AGAAAAAAACGCTGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGAT
1 AGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGAT
* *
44500776 CATGTTCTTTAGCGGCGCTTAGGAAAAAACACCGCTAAAGATCATGTTCTTTAGCAGCGCTT
66 AATGTTCTATAGCGGCGCTTAGGAAAAAACACCGCTAAAGATCATGTTCTTTAGCAGCGCTT
* *
44500838 AGAAAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAGA-AAACGCCGCTAAA-A
1 AGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAA-ATAAACGCCGCTAAAGA
* * *
44500901 GTAATGTTCTATAGCGGCTCTT-GGTCAAAAACGCCGCTAAA-AGT-AGTGTTCTTTAGC
65 -TAATGTTCTATAGCGGCGCTTAGG-AAAAAACACCGCTAAAGA-TCA-TGTTCTTTAGC
44500958 GGTGCTTATT
Statistics
Matches: 107, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
126 5 0.05
127 101 0.94
128 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (127 bp):
AGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGAT
AATGTTCTATAGCGGCGCTTAGGAAAAAACACCGCTAAAGATCATGTTCTTTAGCAGCGCTT
Found at i:44501433 original size:12 final size:12
Alignment explanation
Indices: 44501401--44501440 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
44501391 TTTTGAACCT
*
44501401 CTGCTTCTATCG
1 CTGCTTCTCTCG
44501413 CTGCTTCTCTCG
1 CTGCTTCTCTCG
*
44501425 CTGCTTCTCTTG
1 CTGCTTCTCTCG
44501437 CTGC
1 CTGC
44501441 GGCCTCTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.03, C:0.38, G:0.17, T:0.42
Consensus pattern (12 bp):
CTGCTTCTCTCG
Done.