Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold113
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: 3764034
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Warning! 4009 characters in sequence are not A, C, G, or T
File 2 of 23
Found at i:203139 original size:19 final size:19
Alignment explanation
Indices: 203114--203170 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
203104 TTGTATCGAT
* *
203114 ACATTGTATCAATACATGT
1 ACATTGTATCGATACATGG
* *
203133 TCATTGTATTGATACATGG
1 ACATTGTATCGATACATGG
203152 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
203171 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:203216 original size:13 final size:13
Alignment explanation
Indices: 203198--203246 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
203188 CTACCACTGT
203198 TTGTATCGATACA
1 TTGTATCGATACA
203211 TTGTATCGATACA
1 TTGTATCGATACA
203224 -TG-AT---TA-A
1 TTGTATCGATACA
203231 TTGTATCGATACA
1 TTGTATCGATACA
203244 TTG
1 TTG
203247 CTTGTAACGG
Statistics
Matches: 30, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
7 1 0.03
8 4 0.13
9 2 0.07
11 2 0.07
12 4 0.13
13 17 0.57
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:209593 original size:12 final size:12
Alignment explanation
Indices: 209576--209607 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
209566 ACTAGAATCA
209576 CACAAATTGTCC
1 CACAAATTGTCC
209588 CACAAATTGTCC
1 CACAAATTGTCC
*
209600 CATAAATT
1 CACAAATT
209608 TCATTCTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.28, G:0.06, T:0.28
Consensus pattern (12 bp):
CACAAATTGTCC
Found at i:214113 original size:142 final size:144
Alignment explanation
Indices: 213825--214123 Score: 418
Period size: 142 Copynumber: 2.1 Consensus size: 144
213815 AAATAATAAT
*
213825 ATTTAATA--AATTTTAAAAATTAAAAACCAAGAAAAATCTCCTCTAAAAAAATTACGGAGTAGA
1 ATTTAATATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCCTC-AAAAAAATTACAGAGTAGA
* * * *
213888 AAACTTCGTATTTCGAAAAAAAAGGGAGTTTCAAGGAAAAAATAAAAATTTTATGAAAATTAATG
65 AAACTTCGCATTTCGAAAAAAAAGGAAGTTTCAAGGAAAAAATAAAAATTTTATGAAAATGAATC
*
213953 AATTTTTGAGAACTG
130 AATTTTTGAGAACAG
213968 ATTTAATATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCC-C-AAAAAATTACAGAGTAGA
1 ATTTAATATGAATTTTAAAAATTAAAAACCAAGAAAAAT-CTCCTCAAAAAAATTACAGAGTAGA
214031 AAAC-TCTGCATTTC--AAAAAAAGAGAAGTTTCAA-GAAAAAATTCAAAAA-TTTATGAAAATG
65 AAACTTC-GCATTTCGAAAAAAAAG-GAAGTTTCAAGGAAAAAA-T-AAAAATTTTATGAAAATG
214091 AATCAATTTTTGAGAACAG
126 AATCAATTTTTGAGAACAG
*
214110 ATTTACTATGAATT
1 ATTTAATATGAATT
214124 AAAAATAAAA
Statistics
Matches: 142, Mismatches: 7, Indels: 15
0.87 0.04 0.09
Matches are distributed among these distances:
141 15 0.11
142 53 0.37
143 40 0.28
145 30 0.21
146 4 0.03
ACGTcount: A:0.51, C:0.10, G:0.11, T:0.28
Consensus pattern (144 bp):
ATTTAATATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCCTCAAAAAAATTACAGAGTAGAA
AACTTCGCATTTCGAAAAAAAAGGAAGTTTCAAGGAAAAAATAAAAATTTTATGAAAATGAATCA
ATTTTTGAGAACAG
Found at i:214266 original size:165 final size:166
Alignment explanation
Indices: 213975--214366 Score: 515
Period size: 167 Copynumber: 2.4 Consensus size: 166
213965 CTGATTTAAT
*
213975 ATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCC-AAAAAATTAC-AGAGTAGAAAACTCT
1 ATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCCAAAAAAATTACGA-AGTAGAAAACTCC
* *
214038 GCATTTCAAAAAAAGAGAAGTTTCAAGAAAAAATTCAAAAATTTATGAAAATGAATCAA-TTTTT
65 ACATTTCAAAAAAAGAGAAGTCTCAAGAAAAAATTCAAAAATTTATGAAAATGAATCAATTTTTT
*
214102 GAGAACAGATTTACTATGAATTAAA-AATAAAATTTA
130 GAGAACAGATTTAATATGAATTAAATAATAAAATTTA
*
214138 ATGAATTTTAAAAATTAAAAACGAAGAAAAATCCTCCCAAAAAAATTACGAAGTAGAAAACTCCA
1 ATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCCAAAAAAATTACGAAGTAGAAAACTCCA
* *** * *
214203 TATTTTGGAAAAAGA-AATGTCTCATGGAAAAAATTCAAAAATTTATGAAAATGAATGAATTTTT
66 CATTTCAAAAAAAGAGAA-GTCTCA-AGAAAAAATTCAAAAATTTATGAAAATGAATCAATTTTT
* * *
214267 TGAGAACTGATTTAATATGAATTAAATAATAATATTTG
129 TGAGAACAGATTTAATATGAATTAAATAATAAAATTTA
* * * * * * * *
214305 ATGAATTTGAAAGATTAAAAACTAGGAAAAATCCTCCCGAAGAAATTTACGGAGAAGAAAAC
1 ATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCC-AAAAAAATTACGAAGTAGAAAAC
214367 CTTGTAATTT
Statistics
Matches: 200, Mismatches: 22, Indels: 9
0.87 0.10 0.04
Matches are distributed among these distances:
163 39 0.19
164 38 0.19
165 33 0.17
166 28 0.14
167 43 0.22
168 19 0.09
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.27
Consensus pattern (166 bp):
ATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCCAAAAAAATTACGAAGTAGAAAACTCCA
CATTTCAAAAAAAGAGAAGTCTCAAGAAAAAATTCAAAAATTTATGAAAATGAATCAATTTTTTG
AGAACAGATTTAATATGAATTAAATAATAAAATTTA
Found at i:215405 original size:20 final size:20
Alignment explanation
Indices: 215360--215417 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 20
215350 TGTATCAATA
**
215360 AATTGTATCAATACATGTTC
1 AATTGTATCAATACATGAAC
215380 -ATTGTATCAATACATGAAC
1 AATTGTATCAATACATGAAC
*
215399 AATTGTATCGATACATGAA
1 AATTGTATCAATACATGAA
215418 ACTGGCAGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (20 bp):
AATTGTATCAATACATGAAC
Found at i:215479 original size:13 final size:13
Alignment explanation
Indices: 215461--215490 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
215451 GATACATGGC
215461 ACATTGTATCGAT
1 ACATTGTATCGAT
215474 ACATTGTATCGAT
1 ACATTGTATCGAT
215487 ACAT
1 ACAT
215491 AATGAATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:215481 original size:33 final size:32
Alignment explanation
Indices: 215444--215511 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
215434 CTACCACTAT
215444 TTGTACCGATACAT-GGCACATTGTATCGATACA
1 TTGTACCGATACATAGG-A-ATTGTATCGATACA
* *
215477 TTGTATCGATACATAATGAATTGTATCGATACA
1 TTGTACCGATACAT-AGGAATTGTATCGATACA
215510 TT
1 TT
215512 ACTTCAAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (32 bp):
TTGTACCGATACATAGGAATTGTATCGATACA
Found at i:219629 original size:13 final size:13
Alignment explanation
Indices: 219611--219635 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
219601 ATAATGCACA
219611 GTATCGATACATT
1 GTATCGATACATT
219624 GTATCGATACAT
1 GTATCGATACAT
219636 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:219754 original size:13 final size:13
Alignment explanation
Indices: 219736--219761 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
219726 ACACACAATA
219736 TGTATCGATACAT
1 TGTATCGATACAT
219749 TGTATCGATACAT
1 TGTATCGATACAT
219762 CCCAAAATGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:219777 original size:33 final size:32
Alignment explanation
Indices: 219716--219783 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
219706 CCTTAACTGT
*
219716 TTGTATCGATACACACAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
219748 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
219781 TTG
1 TTG
219784 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:223339 original size:33 final size:32
Alignment explanation
Indices: 223297--223364 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
223287 CGTTACAAGC
** *
223297 CAATGTATCGATACATTTTATGGTTTATCGATA
1 CAATGTATCGATACATACTAT-GTGTATCGATA
223330 CAATGTATCGATACATACTATGTGTATCGATA
1 CAATGTATCGATACATACTATGTGTATCGATA
223362 CAA
1 CAA
223365 GTTTAGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (32 bp):
CAATGTATCGATACATACTATGTGTATCGATA
Found at i:225617 original size:20 final size:21
Alignment explanation
Indices: 225588--225628 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
225578 TGTTTTTGAA
225588 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
225607 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
225629 AAGAATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:231988 original size:33 final size:32
Alignment explanation
Indices: 231941--232008 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
231931 CGTTACAAGC
* **
231941 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCAATACATACTAT-GTGTATCGATA
*
231974 CAATGTATCAATACATACTATGTGTATTGATA
1 CAATGTATCAATACATACTATGTGTATCGATA
232006 CAA
1 CAA
232009 GTTTAGCTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (32 bp):
CAATGTATCAATACATACTATGTGTATCGATA
Found at i:232104 original size:20 final size:20
Alignment explanation
Indices: 232062--232111 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
232052 TCTTTTTCAA
*
232062 GTATCGATACAATGCAACAT
1 GTATCGATACAATGAAACAT
* **
232082 GTATCGATACAATTAAATGT
1 GTATCGATACAATGAAACAT
232102 GTATCGATAC
1 GTATCGATAC
232112 TTTTCAGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (20 bp):
GTATCGATACAATGAAACAT
Found at i:235752 original size:13 final size:13
Alignment explanation
Indices: 235734--235758 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
235724 CAGCATTCTC
235734 TGTATCGATACAG
1 TGTATCGATACAG
235747 TGTATCGATACA
1 TGTATCGATACA
235759 AAGGGTTTTT
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:238236 original size:13 final size:13
Alignment explanation
Indices: 238218--238242 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
238208 ATAATGCACA
238218 GTATCGATACATT
1 GTATCGATACATT
238231 GTATCGATACAT
1 GTATCGATACAT
238243 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:238255 original size:20 final size:21
Alignment explanation
Indices: 238230--238282 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
238220 ATCGATACAT
*
238230 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
*
238250 TGTATCGATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
238271 TGTATCGATACA
1 TGTATCGATACA
238283 AGTGATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Found at i:238359 original size:32 final size:33
Alignment explanation
Indices: 238323--238390 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
238313 CCTTAACTGT
*
238323 TTGTATCGATACA-CACAATATGTATCGATACA
1 TTGTATCGATACATCACAAAATGTATCGATACA
* *
238355 TTGTATCGATACATCCCAAAATGTATTGATACA
1 TTGTATCGATACATCACAAAATGTATCGATACA
238388 TTG
1 TTG
238391 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACATCACAAAATGTATCGATACA
Found at i:238361 original size:13 final size:13
Alignment explanation
Indices: 238343--238368 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
238333 ACACACAATA
238343 TGTATCGATACAT
1 TGTATCGATACAT
238356 TGTATCGATACAT
1 TGTATCGATACAT
238369 CCCAAAATGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:244964 original size:21 final size:22
Alignment explanation
Indices: 244940--244981 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
244930 AAGATTATGA
244940 AAGAATATTTCAAT-TAAGCTT
1 AAGAATATTTCAATATAAGCTT
* *
244961 AAGATTATTTCATTATAAGCT
1 AAGAATATTTCAATATAAGCT
244982 AGCCAAACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (22 bp):
AAGAATATTTCAATATAAGCTT
Found at i:248619 original size:21 final size:21
Alignment explanation
Indices: 248595--248644 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
248585 GAAATTGAAG
248595 AAGAAGAATTTAAATAAGCCA
1 AAGAAGAATTTAAATAAGCCA
*
248616 AAGAAGAATTTAAATAAGCCG
1 AAGAAGAATTTAAATAAGCCA
248637 AAGAAGAA
1 AAGAAGAA
248645 GGCTATGATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.58, C:0.08, G:0.18, T:0.16
Consensus pattern (21 bp):
AAGAAGAATTTAAATAAGCCA
Found at i:255628 original size:20 final size:21
Alignment explanation
Indices: 255589--255666 Score: 61
Period size: 20 Copynumber: 3.7 Consensus size: 21
255579 AACAAAAAAG
* *
255589 AGGGAGAGATATTTTTTTAAA
1 AGGGAGAGAAATTTTATTAAA
*
255610 AGGGA-AGAAATTTTATTAAG
1 AGGGAGAGAAATTTTATTAAA
* * *
255630 GGGGAGAAAAAAATTTTATTAAG
1 AGGGAG--AGAAATTTTATTAAA
*
255653 GGGGAGA-AAATTTT
1 AGGGAGAGAAATTTT
255667 TTTTAATTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
20 23 0.47
21 6 0.12
23 20 0.41
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (21 bp):
AGGGAGAGAAATTTTATTAAA
Found at i:255647 original size:23 final size:23
Alignment explanation
Indices: 255617--255662 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
255607 AAAAGGGAAG
255617 AAATTTTATTAAGGGGGAGAAAA
1 AAATTTTATTAAGGGGGAGAAAA
255640 AAATTTTATTAAGGGGGAGAAAA
1 AAATTTTATTAAGGGGGAGAAAA
255663 TTTTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (23 bp):
AAATTTTATTAAGGGGGAGAAAA
Found at i:256312 original size:13 final size:13
Alignment explanation
Indices: 256294--256318 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
256284 AATATTGCTT
256294 TGTATCGATACAC
1 TGTATCGATACAC
256307 TGTATCGATACA
1 TGTATCGATACA
256319 TGATCTTGGT
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:261566 original size:30 final size:29
Alignment explanation
Indices: 261519--261587 Score: 95
Period size: 28 Copynumber: 2.3 Consensus size: 29
261509 TTAAAGTAAA
*
261519 AAAAATTGATATGACTCAAAATTCGGGAGAG
1 AAAAATAGATATGACTCAAAATTC--GAGAG
261550 AAAAATAGATA-GACTCAAAATTCGAGAG
1 AAAAATAGATATGACTCAAAATTCGAGAG
*
261578 AAAAAAAGAT
1 AAAAATAGAT
261588 TTAATTTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 14 0.39
30 12 0.33
31 10 0.28
ACGTcount: A:0.54, C:0.09, G:0.19, T:0.19
Consensus pattern (29 bp):
AAAAATAGATATGACTCAAAATTCGAGAG
Found at i:261761 original size:96 final size:96
Alignment explanation
Indices: 261613--261945 Score: 311
Period size: 96 Copynumber: 3.4 Consensus size: 96
261603 AAAATGGGGC
* * * *
261613 TGGAGTATCACCTCAAAAGAGTGGGGTTGGAATATCCCTAACGATAAT---AATTTAGGCAAAAA
1 TGGAGTATCTCCTC-GAAGAATGGGGTTGGAGTAT-CCT--CGATAATGACAATTTAGGCAAAAA
* * * * * *
261675 TAAAATTAAAAGCTTGATAATTTTAAAAATGAGTT
62 CAAGATTTAAACCTTGATAATTTTAAAACTGAGGT
** * *
261710 TCTAGTATCTCCTCGAAAAATGGGGTTAGAGTATCCTCGATAATGACAATTTAGGCAAAAACAAG
1 TGGAGTATCTCCTCGAAGAATGGGGTTGGAGTATCCTCGATAATGACAATTTAGGCAAAAACAAG
* * * *
261775 ATTTAAATCTTGACAA-GTTAAAACTGAGGG
66 ATTTAAACCTTGATAATTTTAAAACTGAGGT
* * * *
261805 TGGAGTTTC-CTCTCAGAAGAATAGGGTTGGAGTATCTTCGATGATGACAATTTAGGCAAAAACA
1 TGGAGTATCTC-CTC-GAAGAATGGGGTTGGAGTATCCTCGATAATGACAATTTAGGCAAAAACA
*
261869 AGATTTAAACCTT--TAATAGTTTAAAACTGGGGT
64 AGATTTAAACCTTGATAAT--TTTAAAACTGAGGT
* *
261902 TGGAGTATCTCCTTGGAAGAATGGGGTTGGAGTATCCCCGATAA
1 TGGAGTATCTCC-TCGAAGAATGGGGTTGGAGTATCCTCGATAA
261946 ATAAAATTTT
Statistics
Matches: 190, Mismatches: 36, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
93 7 0.04
94 3 0.02
95 22 0.12
96 100 0.53
97 56 0.29
98 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (96 bp):
TGGAGTATCTCCTCGAAGAATGGGGTTGGAGTATCCTCGATAATGACAATTTAGGCAAAAACAAG
ATTTAAACCTTGATAATTTTAAAACTGAGGT
Found at i:266412 original size:52 final size:52
Alignment explanation
Indices: 266347--266659 Score: 228
Period size: 52 Copynumber: 6.0 Consensus size: 52
266337 GGACTTAAAG
* * *
266347 ATGA-GAAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTAGGA
1 ATGATGAAG-ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAGGA
* * * * * *
266399 ATGTTAAAGATGCCAATATGCTAATTCAAGGCCAACGATATCGGGCTTAGGG
1 ATGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAGGA
* * ** *
266451 ATG-TCGAAGATGCTAATATGCTGGTTCAAGGCCAGCGATATCAGACTTA--A
1 ATGAT-GAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAGGA
* * * * * *
266501 A-GATGAAGGTGCCAATGTGCTGATTCAAGACCAGCGACATTAGACTTAAAGATAAGAA
1 ATGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT--AG----G-A
* *
266559 GGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA--A
1 --ATGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAGGA
* * * * *
266611 A-GATGAAGGTGCTAATGTGCTGATTCAAGGCCAGCGGTATTGGGTTTAG
1 ATGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAG
266660 AAGGGTTGCC
Statistics
Matches: 212, Mismatches: 33, Indels: 34
0.76 0.12 0.12
Matches are distributed among these distances:
49 79 0.37
50 3 0.01
51 2 0.01
52 82 0.39
53 3 0.01
58 1 0.00
59 1 0.00
60 1 0.00
61 40 0.19
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.24
Consensus pattern (52 bp):
ATGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAGGA
Found at i:266536 original size:49 final size:49
Alignment explanation
Indices: 266311--266651 Score: 187
Period size: 52 Copynumber: 6.5 Consensus size: 49
266301 AATTTGCTAG
* * * * * * *
266311 TGTGCAGATTCAAGGCCTGCAACACTGGACTTAAAGATGAGAAGAATGCCAA
1 TGTGCTGATTCAAGGCCAGCGATATTAGACTTAAAGAT--GAAG-GTGCCAA
* * * * * * *
266363 TGTGCTGATTCAAGGCCAACGACATTGGGCTTAGGAATGTTAAAGATGCCAA
1 TGTGCTGATTCAAGGCCAGCGATATTAGACTTA--AA-GATGAAGGTGCCAA
* * * ** * ** * *
266415 TATGCTAATTCAAGGCCAACGATATCGGGCTTAGGGATGTCGAAGATGCTAA
1 TGTGCTGATTCAAGGCCAGCGATATTAGACTTAAAGA--T-GAAGGTGCCAA
* * *
266467 TATGCTGGTTCAAGGCCAGCGATATCAGACTTAAAGATGAAGGTGCCAA
1 TGTGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGCCAA
* *
266516 TGTGCTGATTCAAGACCAGCGACATTAGACTTAAAGATAAGAAGGATGATAAAGGTGCCAA
1 TGTGCTGATTCAAGGCCAGCGATATTAGAC-T-----T-A-AA-GATG---AAGGTGCCAA
* * * *
266577 TATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGAAGGTGCTAA
1 TGTGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGCCAA
*
266626 TGTGCTGATTCAAGGCCAGCGGTATT
1 TGTGCTGATTCAAGGCCAGCGATATT
266652 GGGTTTAGAA
Statistics
Matches: 232, Mismatches: 39, Indels: 39
0.75 0.13 0.13
Matches are distributed among these distances:
49 68 0.29
50 2 0.01
51 1 0.00
52 106 0.46
53 5 0.02
54 3 0.01
55 4 0.02
56 1 0.00
57 2 0.01
58 4 0.02
60 1 0.00
61 35 0.15
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.24
Consensus pattern (49 bp):
TGTGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGCCAA
Found at i:266702 original size:32 final size:30
Alignment explanation
Indices: 266664--266742 Score: 95
Period size: 32 Copynumber: 2.6 Consensus size: 30
266654 GTTTAGAAGG
266664 GTTGCCACCAACTTGTGTGGGCTTTAGAAAAA
1 GTTGCCACCAACTTGTGTGGGCTTT--AAAAA
* * *
266696 GTTGCCATCGACTTGTGTGGGCTTTAAAAG
1 GTTGCCACCAACTTGTGTGGGCTTTAAAAA
* *
266726 GATGCCACTAACTTGTG
1 GTTGCCACCAACTTGTG
266743 GGTTTTGAGA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 17 0.43
32 23 0.57
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (30 bp):
GTTGCCACCAACTTGTGTGGGCTTTAAAAA
Found at i:266759 original size:28 final size:27
Alignment explanation
Indices: 266711--267218 Score: 489
Period size: 28 Copynumber: 18.2 Consensus size: 27
266701 CATCGACTTG
* *
266711 TGTGGGCTTTAAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAA-GATGCCACTGACT
* * * *
266739 TGTGGGTTTTGAGAAGGTGCCTCTAACT
1 TGTGGGCTTTGA-AAGATGCCACTGACT
266767 TGTGGGCTTTGAAGAGATGCCACTGACT
1 TGTGGGCTTTGAA-AGATGCCACTGACT
266795 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAA-GATGCCACTGACT
* * *
266823 CGTGGGCTTTGGAATGATTCCACTGACT
1 TGTGGGCTTT-GAAAGATGCCACTGACT
* * * *
266851 CGTGGGCTTTGGAAGAATACCACTAACT
1 TGTGGGCTTTGAAAG-ATGCCACTGACT
* *
266879 TGTGGGCTTTGAAGAGATGCCATTGACC
1 TGTGGGCTTTGAA-AGATGCCACTGACT
* *
266907 TGTGAGCTTTAGAAGGATGCCACTGACT
1 TGTGGGCTTT-GAAAGATGCCACTGACT
* * *
266935 TATGGGCTTTGAAGATATGCCATTGACT
1 TGTGGGCTTTGAA-AGATGCCACTGACT
266963 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAA-GATGCCACTGACT
* * *
266991 CGTGGACTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTG-AAAGATGCCACTGACT
* *
267019 CGTGGGCTTTGGAAGGATGCCACTGACT
1 TGTGGGCTTT-GAAAGATGCCACTGACT
** *
267047 CATGGGCTTTGAAAAAGATGTCACTGACT
1 TGTGGGCTTTG--AAAGATGCCACTGACT
267076 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAA-GATGCCACTGACT
267104 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAA-GATGCCACTGACT
* * * * *
267132 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAA-GATGCCACTGACT
* * *
267159 TGTGGAC-TTAAAATGATGCGACTGACT
1 TGTGGGCTTTGAAA-GATGCCACTGACT
* *
267186 TGTGGGCTTTAAAAAGGTGCCACTGACT
1 TGTGGGCTTT-GAAAGATGCCACTGACT
267214 TGTGG
1 TGTGG
267219 ACTTAAAAGG
Statistics
Matches: 405, Mismatches: 59, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
27 56 0.14
28 308 0.76
29 41 0.10
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (27 bp):
TGTGGGCTTTGAAAGATGCCACTGACT
Found at i:267161 original size:27 final size:27
Alignment explanation
Indices: 267121--268297 Score: 1334
Period size: 27 Copynumber: 42.9 Consensus size: 27
267111 TTTGAAATGA
* *
267121 TGCCACTGACTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
267148 TGCCACGGAGTTGTGGACTTAAAATGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * * * *
267175 TGCGACTGACTTGTGGGCTTTAAAAAGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* *
267203 TGCCACTGACTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
267230 TGCCACGGGGTTGTGGACTTAAAAAGGG
1 TGCCACGGAGTTGTGGACTT-AAAAGGG
* ** *
267258 CTACCGTGGAGTTATGGACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
* *
267286 TGCCATGGAGTTATGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
267313 TGCCACGGAGTTGTGGACTTAAAAAGGG
1 TGCCACGGAGTTGTGGACTT-AAAAGGG
* *
267341 CTACCACGGAGTTATGGACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
* *
267369 TGCCACGGAGTTATGGACTTGAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * * *
267396 TACCACGAAGTTGTGGACTTTAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * *
267423 TGCTACAGAGTTGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
** * *
267451 TGCCACAAAATTATGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* *
267479 TGTCACAGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
*
267507 TGCCACGGGGTTGTGGACTTTAAAA-GG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
267534 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
267561 TGCCACGGATTTGTGGACTTAAAA-GG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
267587 TGCCACGGATTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
267614 TGCCACGGAGTTATGGACTTAAAAGGT
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
267641 TGCCACGGAGTTGTGGACTTAAAAGGT
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
267668 TGCCACGAAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
267695 TGCCACGGAGTTGTGGACTTTGAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* * *
267723 TGCCACCGAGTTGTAGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* * *
267751 TGCCACAGAGTTATGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* *
267779 TGCCACAGAG-TGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* *
267806 TGCCACAGAGCTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
267833 TGCCACGGAGCTGTGGACTTACAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
267860 TGCCACGGAGTTGTGGACTTTAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* **
267887 ATGCCACGGTGTTGTATACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
** * *
267915 TGCCACAAAGTTGTGGAATTAAAAGGT
1 TGCCACGGAGTTGTGGACTTAAAAGGG
267942 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * *
267969 TGCCACGAAGTTGTGGACTTTGAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* * *
267997 TGCCATGGAGCTGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* * * * *
268025 AGCCCCAGAGTTGTGGACTTTAAAAAGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
268053 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * *
268080 TGCCACGGAGCTGTGGACTTAAATGGT
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
268107 TGCCACGGAGTTGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* *
268135 TGCCATGGAGCTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
268162 TACCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* *
268190 TGCCATGGAGTTGTGAACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * *
268217 TGCCATGGAGTTGTAGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
268244 TGCCACGGAGTTGTGGACTTAAAAAGGG
1 TGCCACGGAGTTGTGGACTT-AAAAGGG
* *
268272 CTACCACGGAGTTGTGGACTTTAAAG
1 -TGCCACGGAGTTGTGGACTTAAAAG
268298 AGGTTACATT
Statistics
Matches: 1002, Mismatches: 132, Indels: 31
0.86 0.11 0.03
Matches are distributed among these distances:
26 32 0.03
27 568 0.57
28 350 0.35
29 52 0.05
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.25
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:267325 original size:165 final size:164
Alignment explanation
Indices: 267119--268297 Score: 1329
Period size: 165 Copynumber: 7.2 Consensus size: 164
267109 GCTTTGAAAT
* * * * * *
267119 GATGCCACTGACTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAATGATGCGACTGA
1 GATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGA
* * * * * *
267184 CTTGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGACTTAAAAGGGTGCCACGGGGTTGTGGACT
66 GTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
* ** *
267249 TAAAAAGGGCTACCGTGGAGTTATGGACTTAAAAG
131 T-AAAAGGGCTGCCACGGAGTTGTGGACTTAAAAG
* * * *
267284 GGTGCCATGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGGCTACCACG
1 GATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGG-TGCCACG
* * * * *
267349 GAGTTATGGAC-TTAAAAGGGTGCCACGGAGTTATGGACTTGAAAGGGTACCACGAAGTTGTGGA
64 GAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
* * * *
267413 CTTTAAA-GGATGCTACAGAGTTGTGGACTTTAAAAG
129 CTTAAAAGGGCTGCCACGGAGTTGTGGAC-TTAAAAG
** * * * *
267449 GATGCCACAAAATTATGGACTTTAAAAGGGTGTCACAGAGTTGTGGACTTTAAAAGGGTGCCACG
1 GATGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
* *
267514 GGGTTGTGGACTTTAAAA-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGATTTGTGGA
64 GAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
*
267578 CTTAAAA-GG-TGCCACGGATTTGTGGACTTAAAAG
129 CTTAAAAGGGCTGCCACGGAGTTGTGGACTTAAAAG
* * * *
267612 GATGCCACGGAGTTATGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGTTGCCACGAA
1 GATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGA
* * * *
267677 GTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTTGAAAGGATGCCACCGAGTTGTAGAC
66 GTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC
* * *
267741 TTTAAAA-GGATGCCACAGAGTTATGGACTTTAAAAG
130 -TTAAAAGGGCTGCCACGGAGTTGTGGAC-TTAAAAG
* * * *
267777 GATGCCACAGAG-TGTGGACTTTAAAAGGATGCCACAGAGCTGTGGACTTAAAAGGGTGCCACGG
1 GATGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* * * * **
267841 AGCTGTGGAC-TTACAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGATGCCACGGTGTTGTATA
65 AGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGA
** *
267905 CTTAAAAGGG-TGCCACAAAGTTGTGGAATTAAAAG
129 CTTAAAAGGGCTGCCACGGAGTTGTGGACTTAAAAG
* * * * *
267940 GTTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTTGAAAGGATGCCATGG
1 GATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGG
* ** * * * *
268005 AGCTGTGGACTTTAAAAGGAAGCCCCAGAGTTGTGGACTTTAAAAAGATGCCACGGAGTTGTGGA
65 AGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGA
* *
268070 CTTAAAAGGG-TGCCACGGAGCTGTGGACTTAAATG
129 CTTAAAAGGGCTGCCACGGAGTTGTGGACTTAAAAG
* * * * *
268105 GTTGCCACGGAGTTGTGGACTTTAAAAGGATGCCATGGAGCTGTGGACTTAAAAGGGTACCACGG
1 GATGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* * * *
268170 AGTTGTGGACTTTAAAAGGGTGCCATGGAGTTGTGAACTTAAAAGGGTGCCATGGAGTTGTAGAC
65 AGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
*
268235 TTAAAA-GGATGCCACGGAGTTGTGGACTTAAAAAGG
130 TTAAAAGGGCTGCCACGGAGTTGTGGACTT-AAAA-G
* * *
268271 GCTACCACGGAGTTGTGGACTTTAAAG
1 GATGCCACGGAGTTGTGGACTTAAAAG
268298 AGGTTACATT
Statistics
Matches: 861, Mismatches: 131, Indels: 44
0.83 0.13 0.04
Matches are distributed among these distances:
160 6 0.01
161 44 0.05
162 46 0.05
163 74 0.09
164 157 0.18
165 381 0.44
166 139 0.16
167 14 0.02
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.25
Consensus pattern (164 bp):
GATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGA
GTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
TAAAAGGGCTGCCACGGAGTTGTGGACTTAAAAG
Found at i:268250 original size:82 final size:82
Alignment explanation
Indices: 267091--268297 Score: 1327
Period size: 82 Copynumber: 14.7 Consensus size: 82
267081 GCTTTGAAAT
* * * * * * * *
267091 GATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGACTTAAAAGGGTGCCACGG
1 GATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
267156 AGTTGTGGACTTAAAAT
66 AGTTGTGGACTTAAAAG
* * * * * * *
267173 GATGCGACTGACTTGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGACTTAAAAGGGTGCCACGG
1 GATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
267238 GGTTGTGGACTTAAAAAGG
66 AGTTGTGGACTT-AAAA-G
* * ** * * *
267257 GCTACCGTGGAGTTATGGAC-TTAAAAGGGTGCCATGGAGTTATGGACTTAAAAGGGTGCCACGG
1 GATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
267321 AGTTGTGGACTTAAAAAGG
66 AGTTGTGGACTT-AAAA-G
* * * * * * *
267340 GCTACCACGGAGTTATGGAC-TTAAAAGGGTGCCACGGAGTTATGGACTTGAAAGGGTACCACGA
1 GATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
267404 AGTTGTGGACTTTAAAG
66 AGTTGTGGACTTAAAAG
* * * ** * * * *
267421 GATGCTACAGAGTTGTGGACTTTAAAAGGATGCCACAAAATTATGGACTTTAAAAGGGTGTCACA
1 GATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
267486 GAGTTGTGGACTTTAAAAG
65 GAGTTGTGGAC-TTAAAAG
* *
267505 GGTGCCACGGGGTTGTGGACTTTAAAA-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
267569 ATTTGTGGACTTAAAAG
66 AGTTGTGGACTTAAAAG
* * * *
267586 G-TGCCACGGATTTGTGGAC-TTAAAAGGATGCCACGGAGTTATGGACTTAAAAGGTTGCCACGG
1 GATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
267649 AGTTGTGGACTTAAAAG
66 AGTTGTGGACTTAAAAG
* * * * *
267666 GTTGCCACGAAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTTGAAAGGATGCCACC
1 GATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
*
267730 GAGTTGTAGACTTTAAAAG
65 GAGTTGTGGAC-TTAAAAG
* * * * * *
267749 GATGCCACAGAGTTATGGACTTTAAAAGGATGCCACAGAG-TGTGGACTTTAAAAGGATGCCACA
1 GATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
*
267813 GAGCTGTGGACTTAAAAG
65 GAGTTGTGGACTTAAAAG
* * * *
267831 GGTGCCACGGAGCTGTGGAC-TTACAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGATGCCACG
1 GATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACG
* **
267895 GTGTTGTATACTTAAAAG
65 GAGTTGTGGACTTAAAAG
* ** * * *
267913 GGTGCCACAAAGTTGTGGA-ATTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGA
1 GATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
267977 AGTTGTGGACTTTGAAAG
66 AGTTGTGGAC-TTAAAAG
* * ** * * * *
267995 GATGCCATGGAGCTGTGGACTTTAAAAGGAAGCCCCAGAGTTGTGGACTTTAAAAAGATGCCACG
1 GATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
268060 GAGTTGTGGACTTAAAAG
65 GAGTTGTGGACTTAAAAG
* * * * * *
268078 GGTGCCACGGAGCTGTGGAC-TTAAATGGTTGCCACGGAGTTGTGGACTTTAAAAGGATGCCATG
1 GATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
*
268142 GAGCTGTGGACTTAAAAG
65 GAGTTGTGGACTTAAAAG
* * * * *
268160 GGTACCACGGAGTTGTGGACTTTAAAAGGGTGCCATGGAGTTGTGAACTTAAAAGGGTGCCATGG
1 GATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
268225 AGTTGTAGACTTAAAAG
66 AGTTGTGGACTTAAAAG
* * *
268242 GATGCCACGGAGTTGTGGACTTAAAAAGGGCTACCACGGAGTTGTGGACTTTAAAG
1 GATGCCACGGAGTTGTGGACTTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAG
268298 AGGTTACATT
Statistics
Matches: 963, Mismatches: 144, Indels: 35
0.84 0.13 0.03
Matches are distributed among these distances:
79 6 0.01
80 67 0.07
81 102 0.11
82 394 0.41
83 313 0.33
84 81 0.08
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.25
Consensus pattern (82 bp):
GATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAAG
Found at i:275301 original size:24 final size:24
Alignment explanation
Indices: 275274--275356 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 24
275264 ATGATCTGGG
275274 GGTAAAAATGTATCGATACATCTA
1 GGTAAAAATGTATCGATACATCTA
*
275298 GGTAAAAAGACAGAATGTATCGATAAAT-T-
1 GGT----A-A-A-AATGTATCGATACATCTA
275327 -G-AAAAATGTATCGATACATCTA
1 GGTAAAAATGTATCGATACATCTA
275349 GGTAAAAA
1 GGTAAAAA
275357 GACAGAATGT
Statistics
Matches: 46, Mismatches: 2, Indels: 22
0.66 0.03 0.31
Matches are distributed among these distances:
20 14 0.30
21 2 0.04
22 1 0.02
23 2 0.04
24 8 0.17
28 2 0.04
29 1 0.02
30 2 0.04
31 14 0.30
ACGTcount: A:0.47, C:0.10, G:0.18, T:0.25
Consensus pattern (24 bp):
GGTAAAAATGTATCGATACATCTA
Found at i:275337 original size:51 final size:51
Alignment explanation
Indices: 275277--275407 Score: 235
Period size: 51 Copynumber: 2.6 Consensus size: 51
275267 ATCTGGGGGT
275277 AAAAATGTATCGATACATCTAGGTAAAAAGACAGAATGTATCGATAAATTG
1 AAAAATGTATCGATACATCTAGGTAAAAAGACAGAATGTATCGATAAATTG
*
275328 AAAAATGTATCGATACATCTAGGTAAAAAGACAGAATGTATCGATACATTG
1 AAAAATGTATCGATACATCTAGGTAAAAAGACAGAATGTATCGATAAATTG
* *
275379 AAAAATGTATCGATACATTTGGGTAAAAA
1 AAAAATGTATCGATACATCTAGGTAAAAA
275408 TTTGACTTTT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 77 1.00
ACGTcount: A:0.47, C:0.10, G:0.18, T:0.26
Consensus pattern (51 bp):
AAAAATGTATCGATACATCTAGGTAAAAAGACAGAATGTATCGATAAATTG
Found at i:278408 original size:52 final size:51
Alignment explanation
Indices: 278352--278523 Score: 164
Period size: 52 Copynumber: 3.3 Consensus size: 51
278342 GACACTAGAT
*
278352 TTAAAGATGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATGA-AAAGGTGCCAATGTGCTGATTCAAAGCCAGCGACATTGGAC
* * * * * * * *
278404 TTAAAGATTACAAGGGTGCTAATATGCTAATTCAAAGCTAGCGATATCGGAC
1 TTAAAGATGA-AAAGGTGCCAATGTGCTGATTCAAAGCCAGCGACATTGGAC
* * * * * *
278456 TTTAAGATGAGAAGAATGCCAATGTGCTGATTTAAAGCCAGCAACATTAGAC
1 TTAAAGATGAAAAG-GTGCCAATGTGCTGATTCAAAGCCAGCGACATTGGAC
* *
278508 TTAAAAATGAGAAGGT
1 TTAAAGATGAAAAGGT
278524 TTAACAAGTT
Statistics
Matches: 92, Mismatches: 27, Indels: 3
0.75 0.22 0.02
Matches are distributed among these distances:
51 3 0.03
52 89 0.97
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (51 bp):
TTAAAGATGAAAAGGTGCCAATGTGCTGATTCAAAGCCAGCGACATTGGAC
Found at i:278610 original size:58 final size:58
Alignment explanation
Indices: 278545--278689 Score: 195
Period size: 58 Copynumber: 2.5 Consensus size: 58
278535 CAATATGCTA
* *
278545 ATTCAAGGCCAATGACATTGGGCTTGAGAAAAAAGATTTGATAAGTGAC-AATGTATTG
1 ATTCAAGGCCAATGACATTGGGCTTGAGAAAAAAGAGTTGACAAGTG-CTAATGTATTG
* * * * *
278603 ATTCAAGGCCAATAACATTGGACTTGAGAAAGAAGGGTTGACAAGTGCTAATGTGTTG
1 ATTCAAGGCCAATGACATTGGGCTTGAGAAAAAAGAGTTGACAAGTGCTAATGTATTG
*
278661 ATTTAAGGCCAATGACATTGGGCTT-AGAA
1 ATTCAAGGCCAATGACATTGGGCTTGAGAA
278690 GGAGATGCGA
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
57 5 0.07
58 71 0.93
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.27
Consensus pattern (58 bp):
ATTCAAGGCCAATGACATTGGGCTTGAGAAAAAAGAGTTGACAAGTGCTAATGTATTG
Found at i:278779 original size:32 final size:32
Alignment explanation
Indices: 278701--279059 Score: 273
Period size: 33 Copynumber: 11.2 Consensus size: 32
278691 GAGATGCGAT
* *
278701 CAACTTGTGTAGGCTTTTG-AGAGGGTTGCCA-
1 CAACTTGTGTGGGC-TTTGAAAAGGGTTGCCAC
* * * *
278732 CTACTTATGTGGGCTTTGAAAAGGATTGCCAT
1 CAACTTGTGTGGGCTTTGAAAAGGGTTGCCAC
* *
278764 CGACTTGTGTGGGCTTTCGAAAAAGGTTGCCAC
1 CAACTTGTGTGGGCTTT-GAAAAGGGTTGCCAC
* * *
278797 CAACTTGTATGGCCTTTAAAAAGGGTTGCCAC
1 CAACTTGTGTGGGCTTTGAAAAGGGTTGCCAC
* * * * *
278829 CGACTTCTATGGGCTTTTGAAAGGGGTT-ACAC
1 CAACTTGTGTGGGC-TTTGAAAAGGGTTGCCAC
* *
278861 CAATTTATGTGGGCTTTG-AAAGGGTTGCCAC
1 CAACTTGTGTGGGCTTTGAAAAGGGTTGCCAC
* * *
278892 CAACTTGTATGGGCTTTTGAAAAGAGTTACCAC
1 CAACTTGTGTGGGC-TTTGAAAAGGGTTGCCAC
* * **
278925 CAACTTGTGTGGGCTTTAAAAAAGGTTGTGAC
1 CAACTTGTGTGGGCTTTGAAAAGGGTTGCCAC
* * ** *
278957 CGACTTATGTAGTCCTTTG-AAAGGGATTTCCAC
1 CAACTTGTGT-GGGCTTTGAAAAGGG-TTGCCAC
**
278990 TGACTTGTGTGGG-TGTTG-AAAGGGTTGCCAC
1 CAACTTGTGTGGGCT-TTGAAAAGGGTTGCCAC
* * *
279021 CAACTTATGTGGACTTTTGAGAAGGGTTGCCAC
1 CAACTTGTGTGGGC-TTTGAAAAGGGTTGCCAC
*
279054 TAACTT
1 CAACTT
279060 TTGTAAGCTT
Statistics
Matches: 256, Mismatches: 59, Indels: 24
0.76 0.17 0.07
Matches are distributed among these distances:
30 11 0.04
31 55 0.21
32 94 0.37
33 96 0.38
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (32 bp):
CAACTTGTGTGGGCTTTGAAAAGGGTTGCCAC
Found at i:279059 original size:129 final size:127
Alignment explanation
Indices: 278710--279059 Score: 378
Period size: 128 Copynumber: 2.7 Consensus size: 127
278700 TCAACTTGTG
* * * * * *
278710 TAGGCTTTTGAGAGGGTTGCCACTACTTATGTGGGCTTTGAAAAGGATTGCCATCGACTTGTGTG
1 TAGGCCTTTGAAAGGGTTTCCACTACTTATGTGGGCTTTG-AAAGGGTTGCCACCAACTTGTGTG
* * * *
278775 GGCTTTCGAAAAAGGTTGCCACCAACTTGTATGGCCTTTAAAAAGGGTTGCCACCGACTTCTA
65 GGCTTTTGAAAAGGGTTGCCACCAACTTGTATGGCCTTTAAAAAAGGTTGCCACCGACTTATA
* * * * * * *
278838 TGGGCTTTTGAAAGGGGTTACACCAATTTATGTGGGCTTTGAAAGGGTTGCCACCAACTTGTATG
1 TAGGCCTTTGAAAGGGTTTCCA-CTACTTATGTGGGCTTTGAAAGGGTTGCCACCAACTTGTGTG
* * * * ** *
278903 GGCTTTTGAAAAGAGTTACCACCAACTTGTGTGGGCTTTAAAAAAGGTTGTGACCGACTTATG
65 GGCTTTTGAAAAGGGTTGCCACCAACTTGTATGGCCTTTAAAAAAGGTTGCCACCGACTTATA
* * *
278966 TAGTCCTTTGAAAGGGATTTCCACTGACTTGTGTGGG-TGTTGAAAGGGTTGCCACCAACTTATG
1 TAGGCCTTTGAAAGGG-TTTCCACT-ACTTATGTGGGCT-TTGAAAGGGTTGCCACCAACTTGTG
* * *
279030 TGGACTTTTGAGAAGGGTTGCCACTAACTT
63 TGGGCTTTTGAAAAGGGTTGCCACCAACTT
279060 TTGTAAGCTT
Statistics
Matches: 181, Mismatches: 37, Indels: 7
0.80 0.16 0.03
Matches are distributed among these distances:
128 104 0.57
129 77 0.43
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (127 bp):
TAGGCCTTTGAAAGGGTTTCCACTACTTATGTGGGCTTTGAAAGGGTTGCCACCAACTTGTGTGG
GCTTTTGAAAAGGGTTGCCACCAACTTGTATGGCCTTTAAAAAAGGTTGCCACCGACTTATA
Found at i:279124 original size:31 final size:30
Alignment explanation
Indices: 279069--279227 Score: 153
Period size: 31 Copynumber: 5.3 Consensus size: 30
279059 TTTGTAAGCT
* * *
279069 TTTG-AAAAAGGTGTCATAGAGTTGTAGAC
1 TTTGAAAAAAGGTGCCACAGAGTTGTGGAC
*
279098 TTTAAAAAAAGGGTGCCACAGAGTTGTGGAC
1 TTTGAAAAAA-GGTGCCACAGAGTTGTGGAC
**
279129 TTT-AAAAGGGGTGCCACAGAGTTGTGGAC
1 TTTGAAAAAAGGTGCCACAGAGTTGTGGAC
*
279158 TTTTGAAAAAAGGTGCCAC-GAAGTTGTGAAC
1 -TTTGAAAAAAGGTGCCACAG-AGTTGTGGAC
* * ** *
279189 TTTTAAAAAATGATGCCATGGAGTTGTTGAC
1 TTTGAAAAAA-GGTGCCACAGAGTTGTGGAC
279220 TTTGAAAA
1 TTTGAAAA
279228 GGTACTCCAC
Statistics
Matches: 108, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
29 23 0.21
30 22 0.20
31 62 0.57
32 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.28
Consensus pattern (30 bp):
TTTGAAAAAAGGTGCCACAGAGTTGTGGAC
Found at i:280549 original size:21 final size:21
Alignment explanation
Indices: 280525--280580 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
280515 TTTATTATTA
280525 TTTTATTATTTTATGATTTTT
1 TTTTATTATTTTATGATTTTT
* *
280546 TTTTATTTTTTTGTGATTTTT
1 TTTTATTATTTTATGATTTTT
280567 TTAATTATTATTTT
1 TT--TTATTATTTT
280581 TGTTGATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 21 0.70
23 9 0.30
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (21 bp):
TTTTATTATTTTATGATTTTT
Found at i:280565 original size:19 final size:19
Alignment explanation
Indices: 280511--280569 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
280501 TTTTCTTTCT
* *
280511 TTTTTTTATTATTATTTTA
1 TTTTTTTATGATTTTTTTA
*
280530 TTATTTTATGATTTTTTTTTA
1 TTTTTTTATGA--TTTTTTTA
*
280551 TTTTTTTGTGATTTTTTTA
1 TTTTTTTATGATTTTTTTA
280570 ATTATTATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 17 0.52
21 16 0.48
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (19 bp):
TTTTTTTATGATTTTTTTA
Found at i:281433 original size:20 final size:19
Alignment explanation
Indices: 281383--281439 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
281373 CTGTATCGAT
* *
281383 ACATTGTATCGATACGTGT
1 ACATTGTATCGATACATGG
* *
281402 TCATTATATCGATACATGG
1 ACATTGTATCGATACATGG
281421 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
281440 AAACTAGCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:281493 original size:20 final size:20
Alignment explanation
Indices: 281468--281554 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
281458 CTACCACTAT
*
281468 TTGTATTGATACATGGCACA
1 TTGTATCGATACATGGCACA
281488 TTGTATCGAT--A---CA-A
1 TTGTATCGATACATGGCACA
281502 -TGTATCGATACATGGCACA
1 TTGTATCGATACATGGCACA
** *
281521 TTGTATCGATACATGTTAAA
1 TTGTATCGATACATGGCACA
*
281541 TTGTATCAATACAT
1 TTGTATCGATACAT
281555 TGCTTCTAAC
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
13 9 0.16
14 1 0.02
15 3 0.05
18 3 0.05
19 1 0.02
20 38 0.69
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (20 bp):
TTGTATCGATACATGGCACA
Found at i:281507 original size:13 final size:13
Alignment explanation
Indices: 281489--281513 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
281479 CATGGCACAT
281489 TGTATCGATACAA
1 TGTATCGATACAA
281502 TGTATCGATACA
1 TGTATCGATACA
281514 TGGCACATTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:281512 original size:33 final size:33
Alignment explanation
Indices: 281469--281533 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
281459 TACCACTATT
*
281469 TGTATTGATACATGGCACATTGTATCGATACAA
1 TGTATCGATACATGGCACATTGTATCGATACAA
281502 TGTATCGATACATGGCACATTGTATCGATACA
1 TGTATCGATACATGGCACATTGTATCGATACA
281534 TGTTAAATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATGGCACATTGTATCGATACAA
Found at i:283177 original size:3 final size:3
Alignment explanation
Indices: 283128--283161 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
283118 CACCAAAGAC
*
283128 GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
283162 GTGACTCGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:287830 original size:21 final size:22
Alignment explanation
Indices: 287806--287855 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
287796 ATCAAATCTT
* *
287806 CTTCAAATTTCTT-ATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
287827 CTTCAAAATACTTCATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
287849 --TCAAAAT
1 CTTCAAAAT
287856 CATCAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 11 0.42
22 8 0.31
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (22 bp):
CTTCAAAATACTTCATTTTTCA
Found at i:289592 original size:21 final size:23
Alignment explanation
Indices: 289552--289595 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
289542 TTTTAACCGA
*
289552 TTATCAAGGGGGAGAAATTTTTT
1 TTATCAAGAGGGAGAAATTTTTT
289575 TTATCAA-AGGGA-AAATTTTTT
1 TTATCAAGAGGGAGAAATTTTTT
289596 AACAAGAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 4 0.20
23 7 0.35
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (23 bp):
TTATCAAGAGGGAGAAATTTTTT
Found at i:290186 original size:13 final size:13
Alignment explanation
Indices: 290168--290193 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
290158 CATTATGCTA
290168 TGTATCGATACAT
1 TGTATCGATACAT
290181 TGTATCGATACAT
1 TGTATCGATACAT
290194 GGACAATTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:290281 original size:33 final size:32
Alignment explanation
Indices: 290244--290308 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 32
290234 TACCACTGTT
290244 TGTATCGATAC-GTGGCATATTGTATCGATACAA
1 TGTATCGATACAGTGG-A-ATTGTATCGATACAA
* *
290277 TGTATTGATACATGTTGAATTGTATCGATACA
1 TGTATCGATACA-GTGGAATTGTATCGATACA
290309 TTACTTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 24 0.86
34 1 0.04
35 3 0.11
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAGTGGAATTGTATCGATACAA
Found at i:295813 original size:6 final size:7
Alignment explanation
Indices: 295798--295823 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
295788 ACAATTTTTA
295798 TTTAATT
1 TTTAATT
295805 TTTAATT
1 TTTAATT
295812 TTTAATT
1 TTTAATT
295819 TTTAA
1 TTTAA
295824 AAAATTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTAATT
Found at i:297476 original size:10 final size:10
Alignment explanation
Indices: 297463--297493 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
297453 CATTTTAAGG
297463 AAATAAATGA
1 AAATAAATGA
297473 AAATAAATGA
1 AAATAAATGA
297483 AAATAAATGA
1 AAATAAATGA
297493 A
1 A
297494 TTTTTCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (10 bp):
AAATAAATGA
Found at i:297608 original size:165 final size:163
Alignment explanation
Indices: 297316--297735 Score: 449
Period size: 165 Copynumber: 2.5 Consensus size: 163
297306 CAAAACTCAT
** * * ** ** *
297316 AAAATAAATTGAATTTCTCAAAACTAATTTAATGGGAGTTCAATGAAAATATCAGATGTAT-TAT
1 AAAATAAA-TGAATTT-TCAAAACTAATTTAATATGAATTAAATGATGATATTTGATGAATAT-T
* * * * ** * * *
297380 AAAAATTTTAAACTAAAGAAAATCCCC-TCGAAAACATTTATGGGATA-AGAAATTTGGTTTTTC
63 AAAAATTTTGAACTAAA-AAAACCCCCAT-GAAAACCTTCATGAAATAGA-AAACTCGATTTTTC
* * *
297443 AAAA-ATAAGGCATTTTAAGGAAATAA-ATGAAAATA-AATG
125 AAAACA-AAAGAATTTTAACGAAA-AATATGAAAA-ACAATG
297482 AAAATAAATGAATTTTTCAAAACTAATTTAATATGAATTAAATGATGATATTTGATGAAT-TTCA
1 AAAATAAATGAA-TTTTCAAAACTAATTTAATATGAATTAAATGATGATATTTGATGAATATT-A
*
297546 AAAATTTTGAACTTAGAAAAACCCCCATGAAAACCTTCATGAAATAGAAAACTCGATTTTTCAAA
64 AAAATTTTGAAC-TAAAAAAACCCCCATGAAAACCTTCATGAAATAGAAAACTCGATTTTTCAAA
*
297611 ACAAAAGAATTTTAACGAAAAATATGAAAAACTCATG
128 ACAAAAGAATTTTAACGAAAAATATGAAAAAC-AATG
* *
297648 AAAATAAATGAATTTTGAAAACTAATTTACTATGAATTAAATGATGATATTTGATGAATATTAAA
1 AAAATAAATGAATTTTCAAAACTAATTTAATATGAATTAAATGATGATATTTGATGAATATTAAA
297713 AATTTTGAACTAAAAAAACCCCC
66 AATTTTGAACTAAAAAAACCCCC
297736 CGAAAACATT
Statistics
Matches: 218, Mismatches: 26, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
164 16 0.07
165 168 0.77
166 34 0.16
ACGTcount: A:0.48, C:0.10, G:0.11, T:0.31
Consensus pattern (163 bp):
AAAATAAATGAATTTTCAAAACTAATTTAATATGAATTAAATGATGATATTTGATGAATATTAAA
AATTTTGAACTAAAAAAACCCCCATGAAAACCTTCATGAAATAGAAAACTCGATTTTTCAAAACA
AAAGAATTTTAACGAAAAATATGAAAAACAATG
Found at i:298662 original size:19 final size:20
Alignment explanation
Indices: 298640--298687 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
298630 ACATTATATT
*
298640 GATACATGTTC-ATTGTATC
1 GATACATGCTCAATTGTATC
*
298659 GATACATACTCAATTGTATC
1 GATACATGCTCAATTGTATC
298679 GATACATGC
1 GATACATGC
298688 AAGTGGAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (20 bp):
GATACATGCTCAATTGTATC
Found at i:300355 original size:15 final size:15
Alignment explanation
Indices: 300331--300377 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
300321 CATCAAAGAC
*
300331 GATGAAGATAATGAT
1 GATGATGATAATGAT
300346 GATGATGATAATGAT
1 GATGATGATAATGAT
*
300361 GATGATGACAATGAT
1 GATGATGATAATGAT
300376 GA
1 GA
300378 AGTTGACTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.43, C:0.02, G:0.28, T:0.28
Consensus pattern (15 bp):
GATGATGATAATGAT
Found at i:307358 original size:20 final size:19
Alignment explanation
Indices: 307333--307423 Score: 85
Period size: 20 Copynumber: 4.6 Consensus size: 19
307323 GTCATTGAAA
307333 GTATCGATACATATCCAGAT
1 GTATCGATACATATCCA-AT
* **
307353 GTATCGATACATCATGCTTT
1 GTATCGATACAT-ATCCAAT
* * *
307373 GTATCGATACATGTTCATT
1 GTATCGATACATATCCAAT
307392 GTATCGATACATA-CTCAATT
1 GTATCGATACATATC-CAA-T
307412 GTATCGATACAT
1 GTATCGATACAT
307424 GAAAGTGGCA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
19 18 0.31
20 38 0.64
21 3 0.05
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (19 bp):
GTATCGATACATATCCAAT
Found at i:307402 original size:39 final size:40
Alignment explanation
Indices: 307333--307424 Score: 109
Period size: 39 Copynumber: 2.3 Consensus size: 40
307323 GTCATTGAAA
* *
307333 GTATCGATACATATCCAGATGTATCGATACAT-CATGC-TTT
1 GTATCGATACATGTCCAGATGTATCGATACATAC-T-CAATT
* *
307373 GTATCGATACATGTTCA-TTGTATCGATACATACTCAATT
1 GTATCGATACATGTCCAGATGTATCGATACATACTCAATT
307412 GTATCGATACATG
1 GTATCGATACATG
307425 AAAGTGGCAG
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
38 1 0.02
39 29 0.63
40 16 0.35
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (40 bp):
GTATCGATACATGTCCAGATGTATCGATACATACTCAATT
Found at i:307496 original size:20 final size:20
Alignment explanation
Indices: 307451--307504 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
307441 CCCTAAGTCA
*
307451 AATGTATCGATACATGGGAC
1 AATGTATCGATACATGAGAC
307471 AATGTATCGATACATGAAGA-
1 AATGTATCGATACATG-AGAC
*
307491 ATTGTAT-GATACAT
1 AATGTATCGATACAT
307505 TATGCCCAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 7 0.23
20 22 0.71
21 2 0.06
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACATGAGAC
Found at i:307833 original size:20 final size:20
Alignment explanation
Indices: 307808--307857 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
307798 ACCCTGAAAA
*
307808 GTATCGATACACATTTAATT
1 GTATCGATACACATTGAATT
** *
307828 GTATCGATACATGTTGCATT
1 GTATCGATACACATTGAATT
307848 GTATCGATAC
1 GTATCGATAC
307858 TTGAAAAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (20 bp):
GTATCGATACACATTGAATT
Found at i:311127 original size:51 final size:52
Alignment explanation
Indices: 311051--311166 Score: 153
Period size: 51 Copynumber: 2.2 Consensus size: 52
311041 AATTACCTAC
* * * * *
311051 ATGTATTGATACACTGAAGAGTGTATCAATACATTTAGGTC-AAAACCCGAA
1 ATGTATCGATACAATGAAAAATGTATCAATACATTTAGGTCAAAAACCCAAA
** *
311102 ATGTATCGATACAATGAAAAATGTATTGATACATTTGGGTCAAAAACCCAAA
1 ATGTATCGATACAATGAAAAATGTATCAATACATTTAGGTCAAAAACCCAAA
311154 ATGTATCGATACA
1 ATGTATCGATACA
311167 TTTTCTTTCC
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
51 34 0.61
52 22 0.39
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (52 bp):
ATGTATCGATACAATGAAAAATGTATCAATACATTTAGGTCAAAAACCCAAA
Found at i:312134 original size:52 final size:51
Alignment explanation
Indices: 312036--312258 Score: 160
Period size: 52 Copynumber: 4.3 Consensus size: 51
312026 GACACTGGAT
* * * * ** *
312036 TTAAAGATGATAAAAGTGTCAATGTGCTGATTCAAGGCCAATGATATTGGAC
1 TTAAAAATGA-AAAGGTGCCAATATGCTGATTCAAGGCCAACAATATTAGAC
* * * * * * * *
312088 TTAAAAATGACAAAGGTACCAACATGCTTATTCAAGGCTAGCGATATCAAAC
1 TTAAAAATGA-AAAGGTGCCAATATGCTGATTCAAGGCCAACAATATTAGAC
** * * *
312140 TTAAAGTTAATAAAGGTGCCAATATGCTGA-TCAAGGCTAGCAATATTAGAC
1 TTAAAAATGA-AAAGGTGCCAATATGCTGATTCAAGGCCAACAATATTAGAC
* * * * * * *
312191 TTTAAGATGAGAAAAGTGCCAATGTGCTAATTCAAGGCCAACAACATTGGAC
1 TTAAAAATGA-AAAGGTGCCAATATGCTGATTCAAGGCCAACAATATTAGAC
312243 TTAAAAATGAAAAGGT
1 TTAAAAATGAAAAGGT
312259 TTGACAAGTG
Statistics
Matches: 132, Mismatches: 38, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
51 46 0.35
52 86 0.65
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (51 bp):
TTAAAAATGAAAAGGTGCCAATATGCTGATTCAAGGCCAACAATATTAGAC
Found at i:312210 original size:51 final size:52
Alignment explanation
Indices: 312036--312228 Score: 181
Period size: 52 Copynumber: 3.7 Consensus size: 52
312026 GACACTGGAT
* * * ** *
312036 TTAAAGATGATAAAAGTGTCAATGTGCTGATTCAAGGCCAATGATATTGGAC
1 TTAAAGATGATAAAAGTGCCAATATGCTGATTCAAGGCTAGCGATATTAGAC
* * * * * * * *
312088 TTAAAAATGACAAAGGTACCAACATGCTTATTCAAGGCTAGCGATATCAAAC
1 TTAAAGATGATAAAAGTGCCAATATGCTGATTCAAGGCTAGCGATATTAGAC
* * * *
312140 TTAAAGTTAATAAAGGTGCCAATATGCTGA-TCAAGGCTAGCAATATTAGAC
1 TTAAAGATGATAAAAGTGCCAATATGCTGATTCAAGGCTAGCGATATTAGAC
* * * *
312191 TTTAAGATGAGAAAAGTGCCAATGTGCTAATTCAAGGC
1 TTAAAGATGATAAAAGTGCCAATATGCTGATTCAAGGC
312229 CAACAACATT
Statistics
Matches: 109, Mismatches: 31, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
51 41 0.38
52 68 0.62
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (52 bp):
TTAAAGATGATAAAAGTGCCAATATGCTGATTCAAGGCTAGCGATATTAGAC
Found at i:312342 original size:58 final size:57
Alignment explanation
Indices: 312204--312537 Score: 416
Period size: 58 Copynumber: 5.7 Consensus size: 57
312194 AAGATGAGAA
* * * * *
312204 AAGTGCCAATGTGCTAATTCAAGGCCAACAACATTGGACTTAAAAATGAAAAGGTTTGAC
1 AAGTGCCAATGTGTTGATTCAAGGCCAACGACATTGGGCTT-AAGA--AAAAGGTTTGAC
* * ** *
312264 AAGTGCCAATTTGCTGATTCAAGGCCAATAACATTGGGCTTAAGGAAAAAGATTTGAC
1 AAGTGCCAATGTGTTGATTCAAGGCCAACGACATTGGGCTTAA-GAAAAAGGTTTGAC
** * *
312322 AAGTGTTAATGTGTTGATTCAAGGCCAACGACATTGGGCTTGAGAAAGAAAGTTTGAC
1 AAGTGCCAATGTGTTGATTCAAGGCCAACGACATTGGGCTTAAGAAA-AAGGTTTGAC
* * *
312380 AAGTGCCAATATATTTATTCAAGGCCAACGACATTGGGCTTAAGAAAGAAGGTTTGAC
1 AAGTGCCAATGTGTTGATTCAAGGCCAACGACATTGGGCTTAAGAAA-AAGGTTTGAC
* * *
312438 AAGTGCCAATGTATTGATTCAAGGCCAATGACATTGGGCTTGAGAAAGAAGGTTTGAC
1 AAGTGCCAATGTGTTGATTCAAGGCCAACGACATTGGGCTTAAGAAA-AAGGTTTGAC
*
312496 AAGTGCCAATGTGTTGATTCAAGGCTAACGACATTGGGCTTA
1 AAGTGCCAATGTGTTGATTCAAGGCCAACGACATTGGGCTTA
312538 GAAGGAGATG
Statistics
Matches: 242, Mismatches: 30, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
57 4 0.02
58 198 0.82
59 2 0.01
60 38 0.16
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (57 bp):
AAGTGCCAATGTGTTGATTCAAGGCCAACGACATTGGGCTTAAGAAAAAGGTTTGAC
Found at i:312496 original size:174 final size:174
Alignment explanation
Indices: 312220--312540 Score: 486
Period size: 174 Copynumber: 1.8 Consensus size: 174
312210 CAATGTGCTA
* *
312220 ATTCAAGGCCAACAACATTGGACTTAAAAATGAAAAGGTTTGACAAGTGCCAATTTGCTGATTCA
1 ATTCAAGGCCAACAACATTGGACTTAAAAATG-AAAGGTTTGACAAGTGCCAATGTACTGATTCA
**
312285 AGGCCAATAACATTGGGCTTAAGGAAAAAGATTTGACAAGTGTTAATGTGTTGATTCAAGGCCAA
65 AGGCCAATAACATTGGGCTTAAGGAAAAAGATTTGACAAGTGCCAATGTGTTGATTCAAGGCCAA
312350 CGACATTGGGCTTGAGAAAGAAAGTTTGACAAGTGCCAATATATTT
130 CGACATTGGGCTT-AGAAAGAAAGTTTGACAAGTGCCAATATATTT
* * *
312396 ATTCAAGGCCAACGACATTGGGCTTAAGAAA-G-AAGGTTTGACAAGTGCCAATGTATTGATTCA
1 ATTCAAGGCCAACAACATTGGACTTAA-AAATGAAAGGTTTGACAAGTGCCAATGTACTGATTCA
* * * *
312459 AGGCCAATGACATTGGGCTTGA-GAAAGAAGGTTTGACAAGTGCCAATGTGTTGATTCAAGGCTA
65 AGGCCAATAACATTGGGCTTAAGGAAA-AAGATTTGACAAGTGCCAATGTGTTGATTCAAGGCCA
312523 ACGACATTGGGCTTAGAA
129 ACGACATTGGGCTTAGAA
312541 GGAGATGCCA
Statistics
Matches: 132, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
173 8 0.06
174 95 0.72
176 26 0.20
177 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (174 bp):
ATTCAAGGCCAACAACATTGGACTTAAAAATGAAAGGTTTGACAAGTGCCAATGTACTGATTCAA
GGCCAATAACATTGGGCTTAAGGAAAAAGATTTGACAAGTGCCAATGTGTTGATTCAAGGCCAAC
GACATTGGGCTTAGAAAGAAAGTTTGACAAGTGCCAATATATTT
Found at i:312629 original size:32 final size:31
Alignment explanation
Indices: 312546--312896 Score: 240
Period size: 32 Copynumber: 10.8 Consensus size: 31
312536 TAGAAGGAGA
* *
312546 TGCCACCGACTTATGTTGGCTTTTG-AGAGGGT
1 TGCCA-CGACTTATGTGGGC-TTTGAAAAGGGT
* ** * *
312578 TGCCATCAACTCGTATGGGCTTTGGAAAGGGT
1 TGCCA-CGACTTATGTGGGCTTTGAAAAGGGT
* * *
312610 TACCATCGACTTTTGTGGGCTTTTAAAAAGGGT
1 TGCCA-CGACTTATGTGGGC-TTTGAAAAGGGT
*
312643 TGCCACTGACTTATGTGGGTTTTGAAAAGGGT
1 TGCCAC-GACTTATGTGGGCTTTGAAAAGGGT
* *** *
312675 TGCCACCAACTTATGTGAATTTTTAAAAGGGGT
1 TGCCA-CGACTTATGTGGGCTTTGAAAA-GGGT
* * * * *
312708 TACCACCAACTTGTGTAGGCTTTTGAAAAGGAT
1 TGCCA-CGACTTATGTGGGC-TTTGAAAAGGGT
* *
312741 TGCCACCGACTTGTATGGGCTTTGAAAAGGGT
1 TGCCA-CGACTTATGTGGGCTTTGAAAAGGGT
* * *
312773 TACCACTGTCTTGTGTGGGCTTTTGAAATA-GGT
1 TGCCAC-GACTTATGTGGGC-TTTGAAA-AGGGT
*
312806 TGCCACTAACTTATGTGGGCTTTGAAAAGGGT
1 TGCCAC-GACTTATGTGGGCTTTGAAAAGGGT
* *
312838 TGCCACTGACTTGTGTAGGCTTTTGAAATA-GGT
1 TGCCAC-GACTTATGTGGGC-TTTGAAA-AGGGT
*
312871 TGCCACCGACTTATGTGGGGTTTGAA
1 TGCCA-CGACTTATGTGGGCTTTGAA
312897 CTTTGAAAGG
Statistics
Matches: 258, Mismatches: 48, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
31 6 0.02
32 128 0.50
33 114 0.44
34 10 0.04
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.33
Consensus pattern (31 bp):
TGCCACGACTTATGTGGGCTTTGAAAAGGGT
Found at i:312654 original size:33 final size:33
Alignment explanation
Indices: 312603--312889 Score: 235
Period size: 33 Copynumber: 8.8 Consensus size: 33
312593 TGGGCTTTGG
* *
312603 AAAGGGTTACCA-TCGACTTTTGTGGGCTTTTAA
1 AAAGGGTTGCCACT-GACTTATGTGGGCTTTTAA
*
312636 AAAGGGTTGCCACTGACTTATGTGGG-TTTTGA
1 AAAGGGTTGCCACTGACTTATGTGGGCTTTTAA
** ***
312668 AAAGGGTTGCCACCAACTTATGTGAATTTTTAA
1 AAAGGGTTGCCACTGACTTATGTGGGCTTTTAA
* * ** * * *
312701 AAGGGGTTACCACCAACTTGTGTAGGCTTTTGA
1 AAAGGGTTGCCACTGACTTATGTGGGCTTTTAA
* * * * *
312734 AAAGGATTGCCACCGACTTGTATGGGC-TTTGA
1 AAAGGGTTGCCACTGACTTATGTGGGCTTTTAA
* * *
312766 AAAGGGTTACCACTGTCTTGTGTGGGCTTTTGAA
1 AAAGGGTTGCCACTGACTTATGTGGGCTTTT-AA
* * *
312800 ATA-GGTTGCCACTAACTTATGTGGGC-TTTGA
1 AAAGGGTTGCCACTGACTTATGTGGGCTTTTAA
* *
312831 AAAGGGTTGCCACTGACTTGTGTAGGCTTTTGAA
1 AAAGGGTTGCCACTGACTTATGTGGGCTTTT-AA
* *
312865 ATA-GGTTGCCACCGACTTATGTGGG
1 AAAGGGTTGCCACTGACTTATGTGGG
312890 GTTTGAACTT
Statistics
Matches: 204, Mismatches: 43, Indels: 14
0.78 0.16 0.05
Matches are distributed among these distances:
31 3 0.01
32 77 0.38
33 117 0.57
34 7 0.03
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (33 bp):
AAAGGGTTGCCACTGACTTATGTGGGCTTTTAA
Found at i:312895 original size:65 final size:64
Alignment explanation
Indices: 312546--312896 Score: 330
Period size: 65 Copynumber: 5.4 Consensus size: 64
312536 TAGAAGGAGA
* * * * * * * *
312546 TGCCACCGACTTATGTTGGCTTTTG-AGAGGGTTGCCA-TCAACTCGTATGGGCTTTGGAAAGGG
1 TGCCACCGACTTATG-TGGGTTTTGAAAAGGGTTGCCACT-GACTTGTGTAGGCTTTTGAAAAGG
312609 T
64 T
* * * * * *
312610 TACCATCGACTTTTGTGGGCTTTTAAAAAGGGTTGCCACTGACTTATGT-GGGTTTTGAAAAGGG
1 TGCCACCGACTTATGTGGG-TTTTGAAAAGGGTTGCCACTGACTTGTGTAGGCTTTTGAAAA-GG
312674 T
64 T
* ** * * **
312675 TGCCACCAACTTATGTGAATTTTTAAAAGGGGTTACCACCAACTTGTGTAGGCTTTTGAAAAGGA
1 TGCCACCGACTTATGTGGGTTTTGAAAA-GGGTTGCCACTGACTTGTGTAGGCTTTTGAAAAGG-
312740 T
64 T
* * * * * *
312741 TGCCACCGACTTGTATGGGCTTTGAAAAGGGTTACCACTGTCTTGTGTGGGCTTTTGAAATAGGT
1 TGCCACCGACTTATGTGGGTTTTGAAAAGGGTTGCCACTGACTTGTGTAGGCTTTTGAAA-AGGT
** *
312806 TGCCACTAACTTATGTGGGCTTTGAAAAGGGTTGCCACTGACTTGTGTAGGCTTTTGAAATAGGT
1 TGCCACCGACTTATGTGGGTTTTGAAAAGGGTTGCCACTGACTTGTGTAGGCTTTTGAAA-AGGT
*
312871 TGCCACCGACTTATGTGGGGTTTGAA
1 TGCCACCGACTTATGTGGGTTTTGAA
312897 CTTTGAAAGG
Statistics
Matches: 233, Mismatches: 46, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
63 3 0.01
64 33 0.14
65 160 0.69
66 37 0.16
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.33
Consensus pattern (64 bp):
TGCCACCGACTTATGTGGGTTTTGAAAAGGGTTGCCACTGACTTGTGTAGGCTTTTGAAAAGGT
Found at i:313005 original size:31 final size:30
Alignment explanation
Indices: 312934--313116 Score: 188
Period size: 30 Copynumber: 6.1 Consensus size: 30
312924 TAGCCTTTTG
*
312934 AAAAAGGTGACACGGAGTTGTGGACTTTAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAA
*
312964 AAAAAGGTGCCACGGAGTTATGGACTTTAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTT-AA
* * *
312995 AAAAATGTGCCATGAAGTTGTGGACTTTAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAA
** * * **
313025 AACGA-GTGCCACGGAGTTATGAACTTTTG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAA
* *
313054 AAAAGGGTGCCACGGAGTTGTGGACTTTTGA
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTTAA
** * *
313085 AAAGGGGTGCCACAGAGTTGTGAACTTTAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAA
313115 AA
1 AA
313117 TGGTACTCCA
Statistics
Matches: 125, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
29 20 0.16
30 54 0.43
31 51 0.41
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.25
Consensus pattern (30 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTTAA
Found at i:313104 original size:90 final size:90
Alignment explanation
Indices: 312944--313116 Score: 213
Period size: 90 Copynumber: 1.9 Consensus size: 90
312934 AAAAAGGTGA
* * * *
312944 CACGGAGTTGTGGACTTTAAAAAAAGGTGCCACGGAGTTATGGACTTTAAAAAAAATGTGCCATG
1 CACGGAGTTATGAACTTTAAAAAAAGGTGCCACGGAGTTATGGACTTTAAAAAAAAGGTGCCAAG
*
313009 AAGTTGTGGACTTTAAAACGAGTGC
66 AAGTTGTGAACTTTAAAACGAGTGC
** * * ** **
313034 CACGGAGTTATGAACTTTTGAAAAGGGTGCCACGGAGTTGTGGACTTTTGAAAAGGGGTGCCACA
1 CACGGAGTTATGAACTTTAAAAAAAGGTGCCACGGAGTTATGGACTTTAAAAAAAAGGTGCCA-A
313099 G-AGTTGTGAACTTTAAAA
65 GAAGTTGTGAACTTTAAAA
313117 TGGTACTCCA
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
90 68 0.99
91 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.26
Consensus pattern (90 bp):
CACGGAGTTATGAACTTTAAAAAAAGGTGCCACGGAGTTATGGACTTTAAAAAAAAGGTGCCAAG
AAGTTGTGAACTTTAAAACGAGTGC
Found at i:319506 original size:20 final size:20
Alignment explanation
Indices: 319481--319560 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
319471 AATTTCCAAA
319481 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATGTTTCT
* *
319501 ATGTATCGATACATCTGGAAAATTCA
1 ATGTATCGATACA--T-G---TTTCT
*
319527 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATGTTTCT
*
319547 TTGTATCGATACAT
1 ATGTATCGATACAT
319561 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
20 29 0.60
22 1 0.02
23 1 0.02
24 1 0.02
26 16 0.33
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATGTTTCT
Found at i:319565 original size:13 final size:13
Alignment explanation
Indices: 319547--319585 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
319537 ACATTTTTCT
319547 TTGTATCGATACA
1 TTGTATCGATACA
319560 TTGTATCGATACA
1 TTGTATCGATACA
*
319573 CTGTATCGATACA
1 TTGTATCGATACA
319586 AGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:319750 original size:20 final size:20
Alignment explanation
Indices: 319707--319753 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
319697 AAATCTTTTG
319707 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
319728 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
319748 CAAAAT
1 CAAAAT
319754 CAGCTTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:321505 original size:22 final size:22
Alignment explanation
Indices: 321459--321499 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
321449 AAATTTGTTA
321459 AAATTATCTTATTAAGGGGGAG
1 AAATTATCTTATTAAGGGGGAG
321481 AAATTAT-TT-TTAAGGGGGA
1 AAATTATCTTATTAAGGGGGA
321500 AAGAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 2 0.11
22 7 0.37
ACGTcount: A:0.37, C:0.02, G:0.27, T:0.34
Consensus pattern (22 bp):
AAATTATCTTATTAAGGGGGAG
Found at i:321920 original size:22 final size:21
Alignment explanation
Indices: 321895--321940 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
321885 CTAGTTAAGT
321895 ATAAATG-TTTTTAAGGCTTAAA
1 ATAAATGATTTTTAA-G-TTAAA
*
321917 ATAATTGATTTTTAAGTTAAA
1 ATAAATGATTTTTAAGTTAAA
321938 ATA
1 ATA
321941 TATCAAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 7 0.32
23 7 0.32
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (21 bp):
ATAAATGATTTTTAAGTTAAA
Found at i:322118 original size:13 final size:13
Alignment explanation
Indices: 322100--322125 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
322090 TACACCAAGT
322100 ATGTATCGATACA
1 ATGTATCGATACA
322113 ATGTATCGATACA
1 ATGTATCGATACA
322126 TCAGAAAAAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:325211 original size:167 final size:165
Alignment explanation
Indices: 324879--325265 Score: 447
Period size: 166 Copynumber: 2.3 Consensus size: 165
324869 GGTTTTCTTT
* * **
324879 TCCATAAATTTTTTTCGGGAGGATTTTCATGGGTTT-AAATTTTTTAAAATTCATCAAATATTAT
1 TCCATAAA-TATTTTCGGG-GGATTTTCTTTAGTTTAAAATTTTTT-AAATTCATCAAATATTAT
* *
324943 TATTTAATTCATATTAAATCATTTTTCAAAAATTCATTATTTTCATGGGTTTTTGAATTTTTTCT
63 TATTTAATTCACATTAAATCATTTTTCAAAAATTCATTATTTTCATGAGTTTTTGAATTTTTTCT
* ** * * *
325008 TTGAAATTTTCTTATTTCTGAAAAACAAAATTTTCTAC
128 TTAAAATTCCCTTATTCCCGAAAAACAAAATTTTCTAA
* * **
325046 TCCGTAAATTTTTTCGGGGAGATTTT-TCTTAGTTTTTAATTTTTTAAATTCATCAAATATTATT
1 TCCATAAATATTTTCGGGG-GATTTTCT-TTAGTTTAAAATTTTTTAAATTCATCAAATATTATT
* **
325110 ATTTAATTCACATTAAATCATTTTTGAAAAATTCATTCATTTTCATGAGTTTTTTTATTTTTTCT
64 ATTTAATTCACATTAAATCATTTTTCAAAAATTCATT-ATTTTCATGAGTTTTTGAATTTTTTCT
*** *
325175 TTAAAATCTCCCTT-TTCCCGAAAAATTGAGTTTTCTAA
128 TTAAAAT-TCCCTTATTCCCGAAAAACAAAATTTTCTAA
* * * *
325213 TCTATAAATATTTTCTGGGGATTTTCTTTGGTTTAAAATTTTTAAAATTCATC
1 TCCATAAATATTTTCGGGGGATTTTCTTTAGTTTAAAATTTTTTAAATTCATC
325266 TATGTTAAGA
Statistics
Matches: 186, Mismatches: 28, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
165 1 0.01
166 103 0.55
167 78 0.42
168 4 0.02
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (165 bp):
TCCATAAATATTTTCGGGGGATTTTCTTTAGTTTAAAATTTTTTAAATTCATCAAATATTATTAT
TTAATTCACATTAAATCATTTTTCAAAAATTCATTATTTTCATGAGTTTTTGAATTTTTTCTTTA
AAATTCCCTTATTCCCGAAAAACAAAATTTTCTAA
Found at i:325255 original size:166 final size:164
Alignment explanation
Indices: 324879--325265 Score: 461
Period size: 167 Copynumber: 2.3 Consensus size: 164
324869 GGTTTTCTTT
* * *
324879 TCCATAAATTTTTTTCGGGAGGATTTTCATGGGTTTAAATTTTTTAAAATTCATCAAATATTATT
1 TCCATAAA-TATTTTCGGG-GGATTTTCTTTGGTTTAAATTTTTT-AAATTCATCAAATATTATT
* *
324944 ATTTAATTCATATTAAATCATTTTTCAAAAATTCATTATTTTCATGGGTTTTTGAATTTTTTCTT
63 ATTTAATTCACATTAAATCATTTTTCAAAAATTCATTATTTTCATGAGTTTTTGAATTTTTTCTT
* ** * * *
325009 TGAAATTTTCTTATTTCTGAAAAACAAAATTTTCTAC
128 TAAAATTCCCTTATTCCCGAAAAACAAAATTTTCTAA
* * * * *
325046 TCCGTAAATTTTTTCGGGGAGATTTTTCTTAGTTTTTAATTTTTTAAATTCATCAAATATTATTA
1 TCCATAAATATTTTCGGGG-GA-TTTTCTTTGGTTTAAATTTTTTAAATTCATCAAATATTATTA
* **
325111 TTTAATTCACATTAAATCATTTTTGAAAAATTCATTCATTTTCATGAGTTTTTTTATTTTTTCTT
64 TTTAATTCACATTAAATCATTTTTCAAAAATTCATT-ATTTTCATGAGTTTTTGAATTTTTTCTT
*** *
325176 TAAAATCTCCCTT-TTCCCGAAAAATTGAGTTTTCTAA
128 TAAAAT-TCCCTTATTCCCGAAAAACAAAATTTTCTAA
* * *
325213 TCTATAAATATTTTCTGGGGATTTTCTTTGGTTTAAAATTTTTAAAATTCATC
1 TCCATAAATATTTTCGGGGGATTTTCTTTGGTTT-AAATTTTTTAAATTCATC
325266 TATGTTAAGA
Statistics
Matches: 187, Mismatches: 28, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
165 12 0.06
166 84 0.45
167 87 0.47
168 4 0.02
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (164 bp):
TCCATAAATATTTTCGGGGGATTTTCTTTGGTTTAAATTTTTTAAATTCATCAAATATTATTATT
TAATTCACATTAAATCATTTTTCAAAAATTCATTATTTTCATGAGTTTTTGAATTTTTTCTTTAA
AATTCCCTTATTCCCGAAAAACAAAATTTTCTAA
Found at i:325423 original size:21 final size:22
Alignment explanation
Indices: 325399--325448 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
325389 TTTCAATAAG
*
325399 TGTTTTTGAG-TTATGAA-CAAA
1 TGTTTTTGAGCTT-TAAATCAAA
*
325420 TGTTTTCGAGCTTTAAATCAAA
1 TGTTTTTGAGCTTTAAATCAAA
325442 TGTTTTT
1 TGTTTTT
325449 AAGTAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (22 bp):
TGTTTTTGAGCTTTAAATCAAA
Found at i:325593 original size:13 final size:13
Alignment explanation
Indices: 325575--325601 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
325565 ACATTATGCT
325575 TTGTATCGATACA
1 TTGTATCGATACA
325588 TTGTATCGATACA
1 TTGTATCGATACA
325601 T
1 T
325602 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:325633 original size:20 final size:20
Alignment explanation
Indices: 325589--325663 Score: 116
Period size: 20 Copynumber: 3.8 Consensus size: 20
325579 ATCGATACAT
* * *
325589 TGTATCGATACATG-TTCAT
1 TGTATCGATACATGAATAAA
325608 TGTATCGATACATGAATAAA
1 TGTATCGATACATGAATAAA
325628 TGTATCGATACATGAATAAA
1 TGTATCGATACATGAATAAA
325648 TGTATCGATACATGAA
1 TGTATCGATACATGAA
325664 ACTGGCAGTA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 14 0.27
20 38 0.73
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATGAATAAA
Found at i:325728 original size:33 final size:32
Alignment explanation
Indices: 325691--325755 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
325681 TACCACTGTT
325691 TGTATCGATACATG-GCACATTGTATCGATACAA
1 TGTATCGATACATGAG-A-ATTGTATCGATACAA
325724 TGTATCGATACATGAAGAATTGTATCGATACA
1 TGTATCGATACATG-AGAATTGTATCGATACA
325756 TTGACTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (32 bp):
TGTATCGATACATGAGAATTGTATCGATACAA
Found at i:325729 original size:13 final size:13
Alignment explanation
Indices: 325711--325735 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
325701 CATGGCACAT
325711 TGTATCGATACAA
1 TGTATCGATACAA
325724 TGTATCGATACA
1 TGTATCGATACA
325736 TGAAGAATTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:327073 original size:10 final size:10
Alignment explanation
Indices: 327058--327086 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
327048 AAGTGGGAAG
327058 AAAGAGAAAA
1 AAAGAGAAAA
327068 AAAGAGAAAA
1 AAAGAGAAAA
327078 AAAGA-AAAA
1 AAAGAGAAAA
327087 TCAAGCTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.21
10 15 0.79
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AAAGAGAAAA
Found at i:331810 original size:12 final size:12
Alignment explanation
Indices: 331793--331817 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
331783 TCATGAGTTT
331793 TTGAAATTTTTC
1 TTGAAATTTTTC
331805 TTGAAATTTTTC
1 TTGAAATTTTTC
331817 T
1 T
331818 GTTTCCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
TTGAAATTTTTC
Found at i:332056 original size:167 final size:165
Alignment explanation
Indices: 331634--332117 Score: 462
Period size: 167 Copynumber: 2.9 Consensus size: 165
331624 AAGTAAATGA
* * * * * *
331634 TTTTCTTTGAAATTCCTTCTATTTTTGAAATACATAGTTTTCTTCTCCGTAAATTGTTTCGGAGG
1 TTTTCTTTGAAATT-CTTCTATTTTCGAAAAATAGAGTTTTCTACTCCGTAAATT-TTTCGAAGG
* * * * *
331699 A-TTTTCATCGATTTAAAATTTTTAAAATTCATCAAATATTATTA-TTTATTCACAGTAAATCAG
64 ATTTTTC-TCGGTTTAATATTTTTAAAATTCATCAAATATTATTATTTTACTCATATTAAATCAG
* * * * *
331762 TTTTAAAAAACTCATTCATTTTCATGAGTTTTTGAAAT
128 TTTTGAAAAATTAATTTATTTTCATAAGTTTTTGAAAT
* * * * * * *
331800 TTTTC-TTGAAATTTTTCT-GTTTC-CAAAATGCGGAGTTTTCTACTCCATAAATGTTTTTGAGG
1 TTTTCTTTGAAATTCTTCTATTTTCGAAAAAT--AGAGTTTTCTACTCCGTAAAT-TTTTCGA-A
* * *
331862 GGATTTTTCTTGGTTT-TTAATTTTTAAAATTCATCAAATATTATTATTTTACTCATATTAAATT
62 GGATTTTTCTCGGTTTAAT-ATTTTTAAAATTCATCAAATATTATTATTTTACTCATATTAAATC
* *
331926 ATTTTTGAAAAATTAATTTATTTTCATAAG-TTTTGAACTT
126 AGTTTTGAAAAATTAATTTATTTTCATAAGTTTTTGAA-AT
* **
331966 TTTTCTTTGAAATTCTCCTATTTTCGAAAAATAGAGTTTTCTACTCCGTAAATATTTTCGAAAAA
1 TTTTCTTTGAAATTCTTCTATTTTCGAAAAATAGAGTTTTCTACTCCGTAAAT-TTTTCGAAGGA
* * **
332031 TTTTTTCTCGGTTTAATATTTTTAAAATTAATCTAATATTATTATTAAACT-ATCATTAAATCAG
65 -TTTTTCTCGGTTTAATATTTTTAAAATTCATCAAATATTATTATTTTACTCAT-ATTAAATCAG
* *
332095 TTTTGCAAAAGTCAATTTATTTT
128 TTTTG-AAAAATTAATTTATTTT
332118 TTATTTTTTG
Statistics
Matches: 254, Mismatches: 49, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
162 3 0.01
163 3 0.01
164 25 0.10
165 51 0.20
166 56 0.22
167 91 0.36
168 20 0.08
169 5 0.02
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (165 bp):
TTTTCTTTGAAATTCTTCTATTTTCGAAAAATAGAGTTTTCTACTCCGTAAATTTTTCGAAGGAT
TTTTCTCGGTTTAATATTTTTAAAATTCATCAAATATTATTATTTTACTCATATTAAATCAGTTT
TGAAAAATTAATTTATTTTCATAAGTTTTTGAAAT
Found at i:333964 original size:154 final size:153
Alignment explanation
Indices: 333636--334008 Score: 433
Period size: 154 Copynumber: 2.4 Consensus size: 153
333626 CTTCTCGTAT
* * * * *
333636 CTTTCACGTCGACGGTATCCCCTATGGGGTATTTTCATAAGTTTTCTAGAACCAACTCCTAGGTT
1 CTTTTACGTCAACGGTATCCTCTA-GGGGCATTTTCATAA-TTTT-TAGAACTAACTCCTAGGTT
* ** *
333701 ATCATCGAGTCTACTTCTAGGCCGAAATGAGTATTTAGGATAGGTTCACCTTATCTATAATCCTT
63 ATCATCGAGTCTACTTCTACGCCGAAATGAGTATTTAGGATAGGTTCACCCCATCTATAATCATT
**
333766 TTGAAGTCCTTTAAAGGTATCGGGTA
128 TTGAAGTCCTTTAAAGGTATCAAGTA
* ** * * *
333792 CTTTTATGT-ATAAAGTATCCTGTAGGGGCATTTTCATAACTTTTAGAACTAATTCCTAGGTTAT
1 CTTTTACGTCA-ACGGTATCCTCTAGGGGCATTTTCATAATTTTTAGAACTAACTCCTAGGTTAT
* * *
333856 CATCGGGTCTACTTCTACGTCGAAGATGGGTATTTAGGATAGGTTCACCCCATCTATAATCATTT
65 CATCGAGTCTACTTCTACGCCGAA-ATGAGTATTTAGGATAGGTTCACCCCATCTATAATCATTT
* ** *
333921 TTAAGTCCTTTAGCGGTATTAAGTA
129 TGAAGTCCTTTAAAGGTATCAAGTA
** * *
333946 CTTTTACGTCAACGGTATCCTCTAGGGGCATTTTTGTAATTTCTTAGAACTGAGTCCTAGGTT
1 CTTTTACGTCAACGGTATCCTCTAGGGGCATTTTCATAATTT-TTAGAACTAACTCCTAGGTT
334009 GTTACCGAGT
Statistics
Matches: 180, Mismatches: 33, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
153 40 0.22
154 91 0.51
155 33 0.18
156 16 0.09
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (153 bp):
CTTTTACGTCAACGGTATCCTCTAGGGGCATTTTCATAATTTTTAGAACTAACTCCTAGGTTATC
ATCGAGTCTACTTCTACGCCGAAATGAGTATTTAGGATAGGTTCACCCCATCTATAATCATTTTG
AAGTCCTTTAAAGGTATCAAGTA
Found at i:336111 original size:18 final size:18
Alignment explanation
Indices: 336088--336127 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
336078 GATGATGAAT
*
336088 AAGAGGTTGACTGGGATG
1 AAGAGGTTGACTCGGATG
336106 AAGAGGTTGACTCGGATG
1 AAGAGGTTGACTCGGATG
336124 AAGA
1 AAGA
336128 AATGGCTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.40, T:0.20
Consensus pattern (18 bp):
AAGAGGTTGACTCGGATG
Found at i:336642 original size:21 final size:21
Alignment explanation
Indices: 336616--336665 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
336606 TTGCAAGAAG
* *
336616 AAAATAAAGAATTAACTAATA
1 AAAATAAAGAATTAACAAAGA
*
336637 AAAATAATGAATTAACAAAGA
1 AAAATAAAGAATTAACAAAGA
336658 AAAATAAA
1 AAAATAAA
336666 AACTTGCATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.20
Consensus pattern (21 bp):
AAAATAAAGAATTAACAAAGA
Found at i:340335 original size:12 final size:12
Alignment explanation
Indices: 340318--340346 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
340308 CTTTTGAAAA
340318 TTGATTTTGATG
1 TTGATTTTGATG
340330 TTGATTTTGATG
1 TTGATTTTGATG
340342 TTGAT
1 TTGAT
340347 CCTATATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.24, T:0.59
Consensus pattern (12 bp):
TTGATTTTGATG
Found at i:340592 original size:19 final size:19
Alignment explanation
Indices: 340547--340601 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
340537 GATTTTCTAG
**
340547 ATTGTATCGATACAATGCAA
1 ATTGTATCGATAC-ATTAAA
*
340567 TTTGTATCGATACATTAAA
1 ATTGTATCGATACATTAAA
340586 ATTGTATCGATACATT
1 ATTGTATCGATACATT
340602 TCGACTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 19 0.61
20 12 0.39
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (19 bp):
ATTGTATCGATACATTAAA
Found at i:343088 original size:22 final size:22
Alignment explanation
Indices: 343046--343088 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
343036 GACAAGTCTG
*
343046 AATGTTTTTCAAGCAATAAATC
1 AATGTTTTTCAAGCAAAAAATC
*
343068 AATGTTTTTCAAGTAAAAAAT
1 AATGTTTTTCAAGCAAAAAAT
343089 ACATGATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.37
Consensus pattern (22 bp):
AATGTTTTTCAAGCAAAAAATC
Found at i:345226 original size:19 final size:19
Alignment explanation
Indices: 345202--345264 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
345192 AAACAGTAAC
345202 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
345221 TGTATCAATAC--AA----
1 TGTATCGATACATAAGTGT
*
345234 TGTATTGATACATAAGTGT
1 TGTATCGATACATAAGTGT
345253 TGTATCGATACA
1 TGTATCGATACA
345265 ATGTATCGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
13 9 0.26
15 2 0.06
17 2 0.06
19 21 0.62
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:345244 original size:32 final size:32
Alignment explanation
Indices: 345202--345277 Score: 125
Period size: 32 Copynumber: 2.4 Consensus size: 32
345192 AAACAGTAAC
345202 TGTATCGATACATAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
* *
345234 TGTATTGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
*
345266 TGTATCGCTACA
1 TGTATCGATACA
345278 AAGCTATTGC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCAATACAA
Found at i:346566 original size:13 final size:12
Alignment explanation
Indices: 346539--346589 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 12
346529 TCAAAAGTGC
346539 AAACACAAA-AAA
1 AAACA-AAACAAA
346551 AAACAAAACTAAA
1 AAACAAAAC-AAA
346564 AAACAAAAACAAA
1 AAAC-AAAACAAA
346577 AAA-AAAA-AAA
1 AAACAAAACAAA
346587 AAA
1 AAA
346590 TACACATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
10 6 0.17
11 7 0.19
12 5 0.14
13 13 0.36
14 5 0.14
ACGTcount: A:0.86, C:0.12, G:0.00, T:0.02
Consensus pattern (12 bp):
AAACAAAACAAA
Found at i:346571 original size:19 final size:16
Alignment explanation
Indices: 346545--346588 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 16
346535 GTGCAAACAC
346545 AAAAAAAAACAAAACTAA
1 AAAAAAAAACAAAA--AA
346563 AAAACAAAAACAAAAAA
1 AAAA-AAAAACAAAAAA
346580 AAAAAAAAA
1 AAAAAAAAA
346589 ATACACATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.20
17 6 0.24
18 4 0.16
19 10 0.40
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.02
Consensus pattern (16 bp):
AAAAAAAAACAAAAAA
Found at i:348131 original size:51 final size:50
Alignment explanation
Indices: 348009--348144 Score: 148
Period size: 51 Copynumber: 2.6 Consensus size: 50
347999 AAAATTAGTA
* * * * *
348009 TTTTAGAGATAACAACGGGGCTAGAGTATCCCCGATTATGGAAAAACGGTG
1 TTTTAGAAATAA-AACGGGGTTGGAGTATCCCCGATTATGAAAAAACGATG
* * *
348060 TTCTGAAAAATAAAATCGGGGTTGGAGTATCCCCGATTAT-AAAAAATTGATG
1 TT-TTAGAAATAAAA-CGGGGTTGGAGTATCCCCGATTATGAAAAAA-CGATG
348112 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 TTTTAGAAATAAAA-CGGGGTTGGAGTATCCCC
348145 TCGAAAATAA
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
51 37 0.52
52 34 0.48
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (50 bp):
TTTTAGAAATAAAACGGGGTTGGAGTATCCCCGATTATGAAAAAACGATG
Found at i:348161 original size:79 final size:79
Alignment explanation
Indices: 348076--348412 Score: 575
Period size: 79 Copynumber: 4.3 Consensus size: 79
348066 AAAATAAAAT
*
348076 CGGGGTTGGAGTATCCCCGATTATAAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
348141 CCCCTCGAAAATAA
66 CCCCTCGGAAATAA
*
348155 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAG
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
348220 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * * * *
348234 CGAGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCAGGGTTGGTGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
348299 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * *
348313 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAAAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
348378 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
348392 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
348413 GATTAACGGG
Statistics
Matches: 240, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 240 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGGAAATAA
Found at i:348427 original size:27 final size:28
Alignment explanation
Indices: 348364--348439 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
348354 AAAATAAAGC
***
348364 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
348392 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
348419 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
348440 TGTGAAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:349730 original size:35 final size:35
Alignment explanation
Indices: 349656--349858 Score: 371
Period size: 35 Copynumber: 5.9 Consensus size: 35
349646 TTTCATTTTT
349656 ATGCCCATCATTCCATGCCTTCATTTTT-TATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
349690 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
349725 ATG-CC--CATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
349757 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
349792 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
349827 ATGCCCATCATTCCATGCCTTCATTTTT-TATT
1 ATGCCCATCATTCCATGCCTTCATTTTTATATT
349859 ATTTTTTTTA
Statistics
Matches: 165, Mismatches: 0, Indels: 8
0.95 0.00 0.05
Matches are distributed among these distances:
32 30 0.18
33 2 0.01
34 34 0.21
35 99 0.60
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (35 bp):
ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
Found at i:349831 original size:102 final size:102
Alignment explanation
Indices: 349656--349858 Score: 365
Period size: 102 Copynumber: 2.0 Consensus size: 102
349646 TTTCATTTTT
349656 ATGCCCATCATTCCATGCCTTCATTTTTTATTCCATGCCCATCATTCCATGCCTTCATTTTTATA
1 ATGCCCATCATTCCATGCCTTCATTTTTTATTCCATGCCCATCATTCCATGCCTTCATTTTTATA
349721 TTCCATG-CC-CATTCCATGCCTTCATTTTTATATTCC
66 TTCCATGCCCACATTCCATGCCTTCATTTTT-TATTCC
349757 ATGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTTAT
1 ATGCCCATCATTCCATGCCTTCATTTTT-TATTCCATGCCCATCATTCCATGCCTTCATTTTTAT
349822 ATTCCATGCCCATCATTCCATGCCTTCATTTTTTATT
65 ATTCCATGCCCA-CATTCCATGCCTTCATTTTTTATT
349859 ATTTTTTTTA
Statistics
Matches: 98, Mismatches: 0, Indels: 5
0.95 0.00 0.05
Matches are distributed among these distances:
101 28 0.29
102 44 0.45
103 2 0.02
104 4 0.04
105 20 0.20
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (102 bp):
ATGCCCATCATTCCATGCCTTCATTTTTTATTCCATGCCCATCATTCCATGCCTTCATTTTTATA
TTCCATGCCCACATTCCATGCCTTCATTTTTTATTCC
Found at i:349898 original size:6 final size:6
Alignment explanation
Indices: 349864--349891 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
349854 TTATTATTTT
349864 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
349892 TGATTTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:350367 original size:40 final size:41
Alignment explanation
Indices: 350321--350424 Score: 113
Period size: 40 Copynumber: 2.5 Consensus size: 41
350311 CCCCACTTTT
* *
350321 TTGAGGACAAAGAAAAAGAGGATGAA-ATAG-GTCCTGCTCC
1 TTGAGGACAAAGAAAAAGAGGA-AAAGAAAGTGTCCTGCTCC
* * *
350361 TTGAGGACAAAGGAAAAGAAGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGAAAAAGAGGAAAA-GAAAGTGTCCTGCTCC
350403 TTGAGGACAAAGTGAAAAAGAG
1 TTGAGGACAAA--GAAAAAGAG
350425 TACGTCTCAT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
39 2 0.04
40 20 0.38
41 3 0.06
42 20 0.38
44 7 0.13
ACGTcount: A:0.43, C:0.12, G:0.29, T:0.16
Consensus pattern (41 bp):
TTGAGGACAAAGAAAAAGAGGAAAAGAAAGTGTCCTGCTCC
Found at i:350715 original size:60 final size:59
Alignment explanation
Indices: 350551--350746 Score: 249
Period size: 61 Copynumber: 3.3 Consensus size: 59
350541 AAAGAAGTGT
* * *
350551 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTAGTGTGGGCTTTGAAAAG-AAA-GC
* * *
350612 GTCATGCTCTTTGAGGACTGAAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTAGTGTGGGCTTTG--AAAAGAAAGC
* *
350673 ATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG---GC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTAGTGTGGGCTTTGAAAAGAAAGC
350727 GTCCTGCTCTTTGAGGACTG
1 GTCCTGCTCTTTGAGGACTG
350747 TCGTAACGTG
Statistics
Matches: 121, Mismatches: 12, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
54 21 0.17
57 4 0.03
60 25 0.21
61 63 0.52
62 3 0.02
63 5 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (59 bp):
GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTAGTGTGGGCTTTGAAAAGAAAGC
Found at i:353906 original size:52 final size:52
Alignment explanation
Indices: 353826--353945 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
353816 AAAAGTTGTT
* *
353826 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAATTGCC
*
353878 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAATTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAATTGCC
353930 TGCATGTATCGATACA
1 TGCATGTATCGATACA
353946 AAGATCAGTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAATTGCC
Found at i:353958 original size:52 final size:51
Alignment explanation
Indices: 353826--353965 Score: 201
Period size: 52 Copynumber: 2.7 Consensus size: 51
353816 AAAAGTTGTT
*
353826 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAATTGCC
* *
353878 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAATTGCC
1 TGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAATTGCC
*
353930 TGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TGCATGTATCGATACATTA-AT-AGTGTATCGATACA
353966 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.03
52 78 0.98
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
TGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAATTGCC
Found at i:353972 original size:13 final size:13
Alignment explanation
Indices: 353954--353978 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
353944 CAAAGATCAG
353954 TGTATCGATACAA
1 TGTATCGATACAA
353967 TGTATCGATACA
1 TGTATCGATACA
353979 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:354056 original size:33 final size:33
Alignment explanation
Indices: 354019--354085 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
354009 AGTAGCTTAA
354019 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
354052 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
354085 A
1 A
354086 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:354059 original size:13 final size:13
Alignment explanation
Indices: 354041--354065 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
354031 CAAAAAAATA
354041 TGTATCGATACAT
1 TGTATCGATACAT
354054 TGTATCGATACA
1 TGTATCGATACA
354066 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:354164 original size:21 final size:21
Alignment explanation
Indices: 354123--354164 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
354113 GTTGGGACCT
*
354123 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
354144 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
354165 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:354918 original size:54 final size:53
Alignment explanation
Indices: 354842--356099 Score: 290
Period size: 49 Copynumber: 24.4 Consensus size: 53
354832 CGAAAAATGA
* * * *
354842 CAATGTGCTGATTCATGACCAGCGTCATTGGGTTTTTAGAGATGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGT-ATTGGGCTTTTAGAGATGATGAAGGTGC
* * ** * *
354896 CAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAAAAGTGATAAAGATGC
1 CAATATGCTGATTCAAGGCCAGC-GTATTGGGCTTTTAGA-G----A-TGATGAAGGTGC
* * * * * ** ** *
354956 CAATAGGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGA-GAAAAAGGATGT
1 CAATATGCTGATTCAAGGCCAGCG-TATTGGGCTTTTAGA-GATGATGAAGG-TGC
** ** *
355011 CAACGTGCTGATTCAAGGCCAGC-TACATTGAAC--TTA-A-A-GATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGT--ATTGGGCTTTTAGAGATGATGAAGGTGC
*
355060 CAATATGCTGATTCAAGGCCAGCGATATTGGGTTTTTAGAGATGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCG-TATTGGGCTTTTAGAGATGATGAAGGTGC
* * ** * *
355114 CAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAAAAGTGATAAAGATGC
1 CAATATGCTGATTCAAGGCCAGC-GTATTGGGCTTTTAGA-G----A-TGATGAAGGTGC
* * * * ** ** *
355174 CAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGA-GAAAAAGGATGT
1 CAATATGCTGATTCAAGGCCAGCG-TATTGGGCTTTTAGA-GATGATGAAGG-TGC
** ** *
355229 CAACGTGCTGATTCAAGGCCAGC-TACATTGAAC--TTA-A-A-GATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGT--ATTGGGCTTTTAGAGATGATGAAGGTGC
* * * * *
355278 CAATATGCTGATTCAAGGCCAGCGATATTGGAC-TTAAAATGATGATGAGAAAAGTGATA
1 CAATATGCTGATTCAAGGCCAGCG-TATTGGGCTTTTAGA-GATGAT--G-AAGGTG--C
* * * * ** ** *
355337 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGA-GAAAAAGGATGT
1 CA-A------TATGCTGATTCAAGGCCAGCG-TATTGGGCTTTTAGA-GATGATGAAGG-TGC
** ** * * *
355399 CAACGTGCTGATTCAAGGCCAGC-TACATTGAAC--TTAAAGATGGA-AAATGTGC
1 CAATATGCTGATTCAAGGCCAGCGT--ATTGGGCTTTTAGAGAT-GATGAAGGTGC
* *
355451 CAATATGCTGATTCAAGGCCAGC-TA------TATT-G-GACT--TAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGTATTGGGCTTTTAGAGA-TGATGAAGGTGC
* * *
355494 CAATGTGCTGATTCAAGGCCAGC-TACATTGGAC--TTA-A-A-GATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGT--ATTGGGCTTTTAGAGATGATGAAGGTGC
*
355543 CAATATGCTGATTCAAGGCCAGCGATATTGGAC---T-----T-A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCG-TATTGGGCTTTTAGAGATGATGAAGGTGC
* * * *
355586 CAATGTGCTGAGTCAAGGCCAGC-TACATTGGAC--TTA-A-A-GATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGT--ATTGGGCTTTTAGAGATGATGAAGGTGC
*
355635 CAATATGCTGATTCAAGGCCAGCGATATTGGAC--TTA-A-A-GATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCG-TATTGGGCTTTTAGAGATGATGAAGGTGC
* * * *
355684 CAATGTGCTGAGTCAAGGCCAGC-TACATTGGAC--TTA-A-A-GATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGT--ATTGGGCTTTTAGAGATGATGAAGGTGC
*
355733 CAATATGCTGATTCAAGGCCAGCGATATTGGAC--TTA-A-A-GATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCG-TATTGGGCTTTTAGAGATGATGAAGGTGC
* * * *
355782 CAATGTGCTGAGTCAAGGCCAGC-TACATTGGAC--TTA-A-A-GATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGT--ATTGGGCTTTTAGAGATGATGAAGGTGC
* *
355831 CAATATGCTGATTCATGGCCAGCGATATTGGAC--TTA-A-A-GATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCG-TATTGGGCTTTTAGAGATGATGAAGGTGC
* * * *
355880 CAATGTGCTGAGTCAAGGCCAGC-TACATTGGAC--TTA-AG--GATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGT--ATTGGGCTTTTAGAGATGATGAAGGTGC
*
355929 CAATATGCTGATTCAAGGCCAGCGATATTGGAC--TTA-A-A-GATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCG-TATTGGGCTTTTAGAGATGATGAAGGTGC
* * * * *
355978 CAATGTGCTGAGTCAAGGCCAGC-TACATTGGAC--TTA-A-A-GATGGAGATGC
1 CAATATGCTGATTCAAGGCCAGCGT--ATTGGGCTTTTAGAGATGATGAAGGTGC
* *
356027 CAATATGCTGATTCAAGGCCAGCGATATTGGAC--TTA-A-AAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCG-TATTGGGCTTTTAGAGATGATGAAGGTGC
* *
356077 CAATGTGCTGAGTCAAGGCCAGC
1 CAATATGCTGATTCAAGGCCAGC
356100 TACATTGGAC
Statistics
Matches: 956, Mismatches: 145, Indels: 210
0.73 0.11 0.16
Matches are distributed among these distances:
41 1 0.00
43 64 0.07
44 3 0.00
45 3 0.00
46 2 0.00
47 5 0.01
48 1 0.00
49 473 0.49
50 45 0.05
51 12 0.01
52 29 0.03
53 13 0.01
54 91 0.10
55 72 0.08
56 3 0.00
57 4 0.00
59 3 0.00
60 90 0.09
61 1 0.00
62 1 0.00
63 3 0.00
64 2 0.00
66 28 0.03
67 7 0.01
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (53 bp):
CAATATGCTGATTCAAGGCCAGCGTATTGGGCTTTTAGAGATGATGAAGGTGC
Found at i:355051 original size:115 final size:115
Alignment explanation
Indices: 354901--355272 Score: 473
Period size: 115 Copynumber: 3.3 Consensus size: 115
354891 GGTGCCAATA
* * *
354901 TGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAAAAGTGATAAAGATGCCAATAGGTTG
1 TGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATGAAAAAGTGATAAAGATGCCAATATGTTG
354966 ATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCAACG
66 ATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCAACG
* *
355016 TGCTGATTCAAGGCCAGCTACATTGAACTT-AA-A-G----A-TG---AAGATGCCAATATGCTG
1 TGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATGAAAAAGTGATAAAGATGCCAATATGTTG
* * ** ** ** * **
355070 ATTCAAGGCCAGCGATATTGGGTTTTTAGA-GATGATGAAGG-TGCCAATA
66 ATTCATGGCCAACGATATTGGGCCTAAAGATGA-GAAAAAGGATGTCAACG
* *
355119 TGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAAAAGTGATAAAGATGCCAATATGTTG
1 TGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATGAAAAAGTGATAAAGATGCCAATATGTTG
355184 ATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCAACG
66 ATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCAACG
*
355234 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAA
1 TGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATGAA
355273 GATGCCAATA
Statistics
Matches: 209, Mismatches: 34, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
103 34 0.16
104 47 0.22
105 1 0.00
106 1 0.00
107 2 0.01
108 1 0.00
110 1 0.00
111 2 0.01
112 1 0.00
113 1 0.00
114 48 0.23
115 70 0.33
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.24
Consensus pattern (115 bp):
TGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATGAAAAAGTGATAAAGATGCCAATATGTTG
ATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCAACG
Found at i:355122 original size:218 final size:218
Alignment explanation
Indices: 354842--355308 Score: 882
Period size: 218 Copynumber: 2.1 Consensus size: 218
354832 CGAAAAATGA
* * *
354842 CAATGTGCTGATTCATGACCAGCG-TCATTGGGTTTTTAGAGATGATGAAGGTGCCAATATGCTG
1 CAATATGCTGATTCAAGGCCAGCGAT-ATTGGGTTTTTAGAGATGATGAAGGTGCCAATATGCTG
354906 ATTCAAGGCCAGCAATATTGGACTTAAAGATGAAAAAGTGATAAAGATGCCAATAGGTTGATTCA
65 ATTCAAGGCCAGCAATATTGGACTTAAAGATGAAAAAGTGATAAAGATGCCAATAGGTTGATTCA
354971 TGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTA
130 TGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTA
355036 CATTGAACTTAAAGATGAAGATGC
195 CATTGAACTTAAAGATGAAGATGC
355060 CAATATGCTGATTCAAGGCCAGCGATATTGGGTTTTTAGAGATGATGAAGGTGCCAATATGCTGA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGGTTTTTAGAGATGATGAAGGTGCCAATATGCTGA
*
355125 TTCAAGGCCAGCAATATTGGACTTAAAGATGAAAAAGTGATAAAGATGCCAATATGTTGATTCAT
66 TTCAAGGCCAGCAATATTGGACTTAAAGATGAAAAAGTGATAAAGATGCCAATAGGTTGATTCAT
355190 GGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTAC
131 GGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTAC
355255 ATTGAACTTAAAGATGAAGATGC
196 ATTGAACTTAAAGATGAAGATGC
355278 CAATATGCTGATTCAAGGCCAGCGATATTGG
1 CAATATGCTGATTCAAGGCCAGCGATATTGG
355309 ACTTAAAATG
Statistics
Matches: 244, Mismatches: 4, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
218 243 1.00
219 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.25
Consensus pattern (218 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGGTTTTTAGAGATGATGAAGGTGCCAATATGCTGA
TTCAAGGCCAGCAATATTGGACTTAAAGATGAAAAAGTGATAAAGATGCCAATAGGTTGATTCAT
GGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTAC
ATTGAACTTAAAGATGAAGATGC
Found at i:355373 original size:170 final size:166
Alignment explanation
Indices: 355103--355488 Score: 650
Period size: 170 Copynumber: 2.3 Consensus size: 166
355093 TTTTAGAGAT
*
355103 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT--AAAGATGAAAAAGTGAT
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAAAGATGAAAAAGTGAT
355166 AAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCA
66 AAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCA
355231 ACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 ACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
*
355267 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAATGATGATGAGAAAAG
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAA--A-GATGA-AAAAG
*
355332 TGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGAT
62 TGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGAT
355397 GTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
127 GTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
355437 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAA
355489 GGTGCCAATG
Statistics
Matches: 208, Mismatches: 5, Indels: 9
0.94 0.02 0.04
Matches are distributed among these distances:
164 44 0.21
166 2 0.01
168 1 0.00
169 5 0.02
170 112 0.54
171 4 0.02
173 40 0.19
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.25
Consensus pattern (166 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAAAGATGAAAAAGTGAT
AAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCA
ACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:355546 original size:49 final size:49
Alignment explanation
Indices: 355394--356118 Score: 988
Period size: 49 Copynumber: 15.0 Consensus size: 49
355384 TGAGAAAAAG
* * *
355394 GATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAA
* * *
355444 AATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--
1 GA--TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
355490 G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* * *
355538 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
*
355582 G-TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* * *
355630 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* *
355679 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* * *
355728 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* *
355777 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* * * *
355826 GATGCCAATATGCTGATTCATGGCCAGCGATATTGGACTTAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* * *
355875 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAGGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* * *
355924 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* * *
355973 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* * *
356022 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGATGAA
* *
356072 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
356119 GAAAAGGCCA
Statistics
Matches: 589, Mismatches: 71, Indels: 31
0.85 0.10 0.04
Matches are distributed among these distances:
43 70 0.12
44 5 0.01
45 2 0.00
46 3 0.01
47 1 0.00
48 5 0.01
49 423 0.72
50 45 0.08
51 2 0.00
52 33 0.06
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
Found at i:355708 original size:98 final size:98
Alignment explanation
Indices: 355337--356118 Score: 1264
Period size: 98 Copynumber: 8.0 Consensus size: 98
355327 AAAAGTGATA
* * * * *
355337 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G---AAGG-TGCCAA
* * *
355402 CGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGG
60 TGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G
* *
355442 AAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTG
1 AAGA--TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTG
*
355501 CTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
64 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
355536 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
355595 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
355628 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
355693 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
355726 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
355791 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
*
355824 AAGATGCCAATATGCTGATTCATGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
*
355889 GAGTCAAGGCCAGCTACATTGGACTTAAGGATG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
355922 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
355987 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
*
356020 GAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGATGAAGGTGCCAATGTGC
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAAGATGAAGGTGCCAATGTGC
356085 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
65 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
356119 GAAAAGGCCA
Statistics
Matches: 651, Mismatches: 17, Indels: 24
0.94 0.02 0.03
Matches are distributed among these distances:
92 128 0.20
94 4 0.01
95 41 0.06
96 5 0.01
98 380 0.58
99 56 0.09
103 1 0.00
105 3 0.00
107 33 0.05
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (98 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
Found at i:356244 original size:32 final size:33
Alignment explanation
Indices: 356148--356240 Score: 163
Period size: 33 Copynumber: 2.8 Consensus size: 33
356138 GGCTGAGAGG
356148 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
356181 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG-A
1 GGTTGCCACCGACTTGTGTGGGCTTT-GGAAGAA
356214 -GTTGCCACCGACTTGTGTGGGCTTTGG
1 GGTTGCCACCGACTTGTGTGGGCTTTGG
356241 GAAGGAAAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
31 2 0.03
32 25 0.42
33 27 0.46
34 5 0.08
ACGTcount: A:0.15, C:0.19, G:0.37, T:0.29
Consensus pattern (33 bp):
GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
Found at i:356269 original size:36 final size:36
Alignment explanation
Indices: 356245--356696 Score: 588
Period size: 36 Copynumber: 12.9 Consensus size: 36
356235 CTTTGGGAAG
* *
356245 GAAAAAAGA-TGCCACGGAGTTGTGGAC-TTAAAAG
1 GAAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
*
356279 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA
1 GAAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
* *
356314 G-AAAAA-AGTGCCACAGAGTTGTGGGCTTTGAAAAG
1 GAAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAA
* *
356349 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAC
1 GAAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
*
356384 GGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAA
1 GAAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
* *
356419 GGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACA
1 -GAAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
*
356456 G-AAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAA
1 GAAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
* * *
356490 GAAGAAAGAGTGCCACGAAGTTGTGGGCTTTGAAAA
1 GAAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
*
356526 GAAGAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
1 GAAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
* *
356562 G-AAGAAG-GTGCCACGGAGTTGTGGGCTTTGAAAA
1 GAAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
* * *
356596 GAAGAAAGAGTGCCACGAAGTTGTGGGCTTTGAAAA
1 GAAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
*
356632 GAAGAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
1 GAAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
* *
356668 G-AAGAAG-GTGCCACGGAGTTGTGGACTTT
1 GAAAAAAGAGTGCCACGGAGTTGTGGGCTTT
356697 GAGACAAAAT
Statistics
Matches: 379, Mismatches: 26, Indels: 26
0.88 0.06 0.06
Matches are distributed among these distances:
33 22 0.06
34 109 0.29
35 62 0.16
36 138 0.36
37 48 0.13
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.20
Consensus pattern (36 bp):
GAAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
Found at i:356320 original size:70 final size:70
Alignment explanation
Indices: 356245--356698 Score: 602
Period size: 70 Copynumber: 6.5 Consensus size: 70
356235 CTTTGGGAAG
*
356245 GAAAAAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCT
1 GAAAAAAGATGCCACGGAGTTGTGGGCTTTGAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCT
356308 TTAAAA
65 TTAAAA
*
356314 GAAAAAAG-TGCCACAGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCT
1 GAAAAAAGATGCCACGGAGTTGTGGGCTTTGAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCT
*
356378 TTAAAC
65 TTAAAA
* * *
356384 GGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCT
1 GAAAAAAGATGCCACGGAGTTGTGGGCTTTGAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCT
356449 TTAAACA
65 TTAAA-A
* *
356456 G-AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAGAAAGAGTGCCACGAAGTTGTGGGCT
1 GAAAAAAGATGCCACGGAGTTGTGGGCTTTGAAAAGGAA-AAAGAGTGCCACGGAGTTGTGGGCT
356519 TTGAAAA
65 TT-AAAA
* * *
356526 GAAGAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAAGAAGAAG-GTGCCACGGAGTTGTGGGCT
1 GAAAAAAGA-TGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCT
356589 TTGAAAA
65 TT-AAAA
* *
356596 GAAGAAAGAGTGCCACGAAGTTGTGGGCTTTGAAAA-GAAGAAAGAGTGCCACGGAGTTGTGGGC
1 GAAAAAAGA-TGCCACGGAGTTGTGGGCTTTGAAAAGGAA-AAAGAGTGCCACGGAGTTGTGGGC
356660 TTTAAAA
64 TTTAAAA
* * *
356667 -AGAAGAAGGTGCCACGGAGTTGTGGACTTTGA
1 GA-AAAAAGATGCCACGGAGTTGTGGGCTTTGA
356699 GACAAAATGC
Statistics
Matches: 352, Mismatches: 20, Indels: 25
0.89 0.05 0.06
Matches are distributed among these distances:
68 16 0.05
69 13 0.04
70 155 0.44
71 121 0.34
72 47 0.13
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.20
Consensus pattern (70 bp):
GAAAAAAGATGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
TAAAA
Done.