Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold107
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: 2327068
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 25 characters in sequence are not A, C, G, or T
File 2 of 15
Found at i:157505 original size:15 final size:15
Alignment explanation
Indices: 157485--157515 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
157475 ATTTCGTTTG
*
157485 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
157500 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
157515 G
1 G
157516 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:159347 original size:21 final size:21
Alignment explanation
Indices: 159318--159362 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
159308 AAGTTTTTAT
*
159318 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
159338 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
159360 TTT
1 TTT
159363 CAACATGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:161571 original size:20 final size:20
Alignment explanation
Indices: 161546--161597 Score: 88
Period size: 19 Copynumber: 2.6 Consensus size: 20
161536 TACAAGCCAA
*
161546 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATATTTTG
161566 TGTATCGATAC-ATATTTTG
1 TGTATCGATACAATATTTTG
161585 TGTATCGATACAA
1 TGTATCGATACAA
161598 GTTTGGCTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (20 bp):
TGTATCGATACAATATTTTG
Found at i:161701 original size:20 final size:20
Alignment explanation
Indices: 161648--161703 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
161638 ACATCTTTTT
*
161648 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
161668 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
161687 TTATGTATCGATACTTT
1 -CATGTATCGATACTTT
161704 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:169854 original size:8 final size:8
Alignment explanation
Indices: 169841--169866 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
169831 ATTTGATTAA
169841 ATTTTGTG
1 ATTTTGTG
169849 ATTTTGTG
1 ATTTTGTG
169857 ATTTTGTG
1 ATTTTGTG
169865 AT
1 AT
169867 GAATGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:170087 original size:13 final size:13
Alignment explanation
Indices: 170069--170103 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
170059 CAGCATTCTC
*
170069 TGTATCGATACAT
1 TGTATCGATACAG
170082 TGTATCGATACAG
1 TGTATCGATACAG
170095 TGTATCGAT
1 TGTATCGAT
170104 TCAAAGGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:171990 original size:22 final size:23
Alignment explanation
Indices: 171965--172010 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
171955 CGAAATTGTT
171965 AAATTATTTT-ATTAAGGGGGAG
1 AAATTATTTTGATTAAGGGGGAG
*
171987 AAATTCTTTTGATTAAGGGGGAG
1 AAATTATTTTGATTAAGGGGGAG
172010 A
1 A
172011 GAAAAGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.35, C:0.02, G:0.28, T:0.35
Consensus pattern (23 bp):
AAATTATTTTGATTAAGGGGGAG
Found at i:177366 original size:13 final size:13
Alignment explanation
Indices: 177348--177374 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
177338 ACAAAGTTCT
177348 TTGTATCAATACA
1 TTGTATCAATACA
177361 TTGTATCAATACA
1 TTGTATCAATACA
177374 T
1 T
177375 GGGTTACTAT
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:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TTGTATCAATACA
Found at i:179567 original size:20 final size:19
Alignment explanation
Indices: 179544--179617 Score: 76
Period size: 20 Copynumber: 3.8 Consensus size: 19
179534 AACATCCAGA
* *
179544 TGTATCGATACATTATGCTT
1 TGTATCGATACATGAT-CAT
*
179564 TGTACCGATACATGATCAT
1 TGTATCGATACATGATCAT
* * *
179583 TGTATCGATACTTACATAAT
1 TGTATCGATACAT-GATCAT
179603 TGTATCGATACATGA
1 TGTATCGATACATGA
179618 AACTGCTAGT
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
19 14 0.32
20 30 0.68
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGATCAT
Found at i:179670 original size:20 final size:20
Alignment explanation
Indices: 179645--179697 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
179635 CTACCACTGT
179645 TTGTATCGATACATGGCACA
1 TTGTATCGATACATGGCACA
179665 TTGTATCGATACATGGCACA
1 TTGTATCGATACATGGCACA
179685 TTGTATCGATACA
1 TTGTATCGATACA
179698 ATGTATCGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (20 bp):
TTGTATCGATACATGGCACA
Found at i:179704 original size:13 final size:13
Alignment explanation
Indices: 179686--179710 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
179676 CATGGCACAT
179686 TGTATCGATACAA
1 TGTATCGATACAA
179699 TGTATCGATACA
1 TGTATCGATACA
179711 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:179721 original size:33 final size:33
Alignment explanation
Indices: 179666--179730 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
179656 CATGGCACAT
*
179666 TGTATCGATACATGGCACATTGTATCGATACAA
1 TGTATCGATACATGGCACATTGTATCAATACAA
179699 TGTATCGATACATGAAG-A-ATTGTATCAATACA
1 TGTATCGATACATG--GCACATTGTATCAATACA
179731 TTGTCTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (33 bp):
TGTATCGATACATGGCACATTGTATCAATACAA
Found at i:180871 original size:116 final size:116
Alignment explanation
Indices: 180660--180891 Score: 342
Period size: 116 Copynumber: 2.0 Consensus size: 116
180650 TTTGTTTGCT
180660 GCCAAAAGATCCATTTTGCTGAGCCAACAGCCCTTATTTATCCTCATGCCCAACCAATAGGATTA
1 GCCAAAAGATCCATTTTGCTGAGCCAACAGCCCTTATTTATCCTCATGCCCAACCAATAGGATTA
* *
180725 GGGGACAAGCCAAGGGCATTGTGAATATTTTCTCCTTTGCACAAGGAGACA
66 GGGGACAAGCCAAGGGCATTATGAAGATTTTCTCCTTTGCACAAGGAGACA
* * * * *
180776 GCCAAAAGATCCTTTTTGTTGAGCCAACAGTCCC-TATTTATCCTCATGCTCAGCTAATAGGATT
1 GCCAAAAGATCCATTTTGCTGAGCCAACAG-CCCTTATTTATCCTCATGCCCAACCAATAGGATT
* * *
180840 AGGGGACAAGCCAAGGTCATTAT-AGGGATTTTCTTCTTTGCACAAGGAGACA
65 AGGGGACAAGCCAAGGGCATTATGA-AGATTTTCTCCTTTGCACAAGGAGACA
180892 ACTAGCCACC
Statistics
Matches: 104, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
115 1 0.01
116 100 0.96
117 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.27
Consensus pattern (116 bp):
GCCAAAAGATCCATTTTGCTGAGCCAACAGCCCTTATTTATCCTCATGCCCAACCAATAGGATTA
GGGGACAAGCCAAGGGCATTATGAAGATTTTCTCCTTTGCACAAGGAGACA
Found at i:181400 original size:20 final size:20
Alignment explanation
Indices: 181377--181449 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
181367 ACAATTCAAA
181377 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
181397 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
181418 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
181438 GTATCGATACAT
1 GTATCGATACAT
181450 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:181421 original size:21 final size:21
Alignment explanation
Indices: 181395--181470 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
181385 ACATGTTGCA
181395 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
181416 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
181436 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
181457 ATGTATCGATACAT
1 ATGTATCGATACAT
181471 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:181428 original size:41 final size:41
Alignment explanation
Indices: 181377--181470 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
181367 ACAATTCAAA
*
181377 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
181418 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
181459 GTATCGATACAT
1 GTATCGATACAT
181471 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:181527 original size:13 final size:13
Alignment explanation
Indices: 181509--181534 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
181499 TACAGCAAGT
181509 ATGTATCGATACA
1 ATGTATCGATACA
181522 ATGTATCGATACA
1 ATGTATCGATACA
181535 CAAAAAATTG
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:185380 original size:26 final size:25
Alignment explanation
Indices: 185329--185393 Score: 78
Period size: 26 Copynumber: 2.6 Consensus size: 25
185319 GATTAGTGCA
* *
185329 TATGATTTGATGAG-ACTTAATTTT
1 TATGATTTGATTAGTACTTAATCTT
*
185353 TATGATTTGATTAGTTACTTTATCTT
1 TATGATTTGATTAG-TACTTAATCTT
*
185379 TACGATTTGATTAGT
1 TATGATTTGATTAGT
185394 CATATGCCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 13 0.37
25 1 0.03
26 21 0.60
ACGTcount: A:0.26, C:0.06, G:0.15, T:0.52
Consensus pattern (25 bp):
TATGATTTGATTAGTACTTAATCTT
Found at i:185449 original size:2 final size:2
Alignment explanation
Indices: 185437--185476 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
185427 ATGTAATAAC
*
185437 CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
185477 ATATATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:185481 original size:2 final size:2
Alignment explanation
Indices: 185476--185515 Score: 62
Period size: 2 Copynumber: 19.5 Consensus size: 2
185466 TCTCTCTCTC
*
185476 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
185516 GAATGAAAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:186282 original size:24 final size:22
Alignment explanation
Indices: 186222--186284 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 22
186212 TATTATTTAA
186222 TAATTAAAAAATATTTTTAAATT
1 TAATTAAAAAATA-TTTTAAATT
186245 TAATTATAAAAATATTTT-AATAT
1 TAATTA-AAAAATATTTTAAAT-T
186268 TAATATAAAATAATATT
1 TAAT-TAAAA-AATATT
186285 GATAATGATA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
22 3 0.08
23 18 0.50
24 15 0.42
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TAATTAAAAAATATTTTAAATT
Found at i:187570 original size:21 final size:22
Alignment explanation
Indices: 187544--187590 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
187534 TATTTTAAGA
* *
187544 ATTTAAAAATTTTATCAGAAT-
1 ATTTAAAAAATTTATCAAAATC
187565 ATTTAAAAAATTTATCAAAATC
1 ATTTAAAAAATTTATCAAAATC
187587 ATTT
1 ATTT
187591 TTTATTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (22 bp):
ATTTAAAAAATTTATCAAAATC
Found at i:188561 original size:21 final size:22
Alignment explanation
Indices: 188537--188578 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
188527 ATTCTCCAAG
*
188537 ATATTAA-TCTTTATCTTCAAT
1 ATATTAATTCTTGATCTTCAAT
188558 ATATTAATTCTTGATCTTCAA
1 ATATTAATTCTTGATCTTCAA
188579 GGTATCGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.33, C:0.14, G:0.02, T:0.50
Consensus pattern (22 bp):
ATATTAATTCTTGATCTTCAAT
Found at i:190221 original size:26 final size:27
Alignment explanation
Indices: 190187--190244 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
190177 ATCATAATTG
*
190187 TTTATAAATTTATCAT-TTTATAATTAA
1 TTTATAAA-TAATCATGTTTATAATTAA
* *
190214 TTTA-AAATAATTATGTTTATAATTAG
1 TTTATAAATAATCATGTTTATAATTAA
190240 TTTAT
1 TTTAT
190245 TATAATTGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 5 0.19
26 17 0.65
27 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (27 bp):
TTTATAAATAATCATGTTTATAATTAA
Found at i:190248 original size:40 final size:41
Alignment explanation
Indices: 190204--190321 Score: 98
Period size: 40 Copynumber: 2.8 Consensus size: 41
190194 ATTTATCATT
190204 TTATAATTAATTTAAAATAATTATGTTTATAATTA-GTTTA
1 TTATAATTAATTTAAAATAATTATGTTTATAATTATGTTTA
** *** * *
190244 TTATAATT-GCTTATGTTAATTA-CTTTATATTTATTGTTTA
1 TTATAATTAATTTAAAATAATTATGTTTATAATTA-TGTTTA
*
190284 TTATAATTATTTATGATATAATAATTATGTTTATAATT
1 TTATAATTAATT-T-A-A-AATAATTATGTTTATAATT
190322 GCGTATTAAA
Statistics
Matches: 56, Mismatches: 14, Indels: 10
0.70 0.17 0.12
Matches are distributed among these distances:
38 9 0.16
39 9 0.16
40 21 0.38
41 1 0.02
42 1 0.02
43 1 0.02
45 6 0.11
46 8 0.14
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (41 bp):
TTATAATTAATTTAAAATAATTATGTTTATAATTATGTTTA
Found at i:190249 original size:14 final size:14
Alignment explanation
Indices: 190204--190297 Score: 58
Period size: 13 Copynumber: 7.1 Consensus size: 14
190194 ATTTATCATT
*
190204 TTATAATTAATTTA
1 TTATAATTAGTTTA
** *
190218 AAATAATTA-TGT-
1 TTATAATTAGTTTA
190230 TTATAATTAGTTTA
1 TTATAATTAGTTTA
*
190244 TTATAATT-GCTTA
1 TTATAATTAGTTTA
*
190257 TGT-TAATTACTTTA
1 T-TATAATTAGTTTA
*
190271 -TATTTATT-GTTTA
1 TTA-TAATTAGTTTA
190284 TTATAATTA-TTTA
1 TTATAATTAGTTTA
190297 T
1 T
190298 GATATAATAA
Statistics
Matches: 60, Mismatches: 12, Indels: 17
0.67 0.13 0.19
Matches are distributed among these distances:
12 8 0.13
13 27 0.45
14 25 0.42
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.57
Consensus pattern (14 bp):
TTATAATTAGTTTA
Found at i:190404 original size:2 final size:2
Alignment explanation
Indices: 190399--190434 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
190389 GAGATTGAGA
190399 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
190435 TGGATTAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:190533 original size:15 final size:15
Alignment explanation
Indices: 190510--190539 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
190500 TTAAGATGGA
190510 ATATATTTGAATTTG
1 ATATATTTGAATTTG
*
190525 ATATCTTTGAATTTG
1 ATATATTTGAATTTG
190540 TATGTACAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.03, G:0.13, T:0.53
Consensus pattern (15 bp):
ATATATTTGAATTTG
Found at i:190871 original size:20 final size:19
Alignment explanation
Indices: 190848--190909 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
190838 TTTTATTACT
190848 ATAATTAAAATTATATACAA
1 ATAA-TAAAATTATATACAA
**
190868 ATAAT-AAATTA-A-ATTA
1 ATAATAAAATTATATACAA
*
190884 ATAATAAGAAATATATACAA
1 ATAATAA-AATTATATACAA
190904 ATAATA
1 ATAATA
190910 GTTATGAGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 7 0.21
17 2 0.06
18 10 0.30
19 2 0.06
20 12 0.36
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (19 bp):
ATAATAAAATTATATACAA
Found at i:191027 original size:32 final size:32
Alignment explanation
Indices: 190967--191037 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
190957 AATTTTATCG
190967 CTAATAACTATTACCTAAAAAATATTCCATC-
1 CTAATAACTATTACCTAAAAAATATTCCATCA
** ** *
190998 CTTAATAACTATTTGCTACGAAATTTTCCATCA
1 C-TAATAACTATTACCTAAAAAATATTCCATCA
191031 CTAATAA
1 CTAATAA
191038 TTAGTTAGCA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
31 1 0.03
32 31 0.94
33 1 0.03
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.35
Consensus pattern (32 bp):
CTAATAACTATTACCTAAAAAATATTCCATCA
Found at i:194586 original size:57 final size:58
Alignment explanation
Indices: 194407--194675 Score: 231
Period size: 58 Copynumber: 4.7 Consensus size: 58
194397 TCTAAAATGT
* * * * * * * *
194407 ATGAAGTTGCATGAAAGTTCCTGGATCATAAAAAATGACTTAAATGACCTCAACATAT
1 ATGAAATTGCATAAAAGTCCCTAGATCATAAAAAATGACCTAAATGACCTTAAAATAC
* * * * * *
194465 ATGAAATTGCATAAAAGTCCTTAGATTATGAAAAATGAACTAAATGA-CTCCAATATAC
1 ATGAAATTGCATAAAAGTCCCTAGATCATAAAAAATGACCTAAATGACCT-TAAAATAC
* * *
194523 AAGAAATTGCATAAAAGTCCCCAGATCAT-AAAAATGACCTAAATGACCTTAAAATGC
1 ATGAAATTGCATAAAAGTCCCTAGATCATAAAAAATGACCTAAATGACCTTAAAATAC
* * ** ** * *
194580 ATGAAATTACATAAAAATTTCTAGATC--AAGGAATGACTTAAATGATCTTAAAATAC
1 ATGAAATTGCATAAAAGTCCCTAGATCATAAAAAATGACCTAAATGACCTTAAAATAC
** * *
194636 ATGAAATTATATAAAAGTCCTTAGATTATGAAAAAATGAC
1 ATGAAATTGCATAAAAGTCCCTAGATCAT-AAAAAATGAC
194676 TTTAAAATGC
Statistics
Matches: 167, Mismatches: 38, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
56 44 0.26
57 44 0.26
58 71 0.43
59 8 0.05
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (58 bp):
ATGAAATTGCATAAAAGTCCCTAGATCATAAAAAATGACCTAAATGACCTTAAAATAC
Found at i:197762 original size:130 final size:131
Alignment explanation
Indices: 197597--197856 Score: 342
Period size: 130 Copynumber: 2.0 Consensus size: 131
197587 TCATTCATGT
* * ** *
197597 TTTTATTTCTAAAATATTGATTTTTTGCAATCGGGGATACTCCAACCTCATTATTTCCAAAAAGA
1 TTTTATTTCTAAAACACTGATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCCAAAAAGA
* *
197662 TACTCCAACCCCG-GTTTTATTTCTAAAACACTAATTTTTCACAATTAGGGATACTCCAATCCTG
66 TACTCCAACCCCGAGTTTTATTTCTAAAACACTAATTATTCACAATTAGGGATACTCCAACCCTG
197726 G
131 G
* * * * **
197727 TTTTATTTTTAAAACACTGATTTTTCACCATCGGGGATACTTCAACCCCCTTATTTCCAAGGAGA
1 TTTTATTTCTAAAACACTGATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCCAAAAAGA
* * * * * *
197792 TACTCCAACCCTGATTTTTATTTCTAAAAGACTGATTATTCACCATTGGGGATACTCCAACCCTG
66 TACTCCAACCCCGAGTTTTATTTCTAAAACACTAATTATTCACAATTAGGGATACTCCAACCCTG
197857 TTATTTCTAA
Statistics
Matches: 110, Mismatches: 19, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
130 66 0.60
131 44 0.40
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (131 bp):
TTTTATTTCTAAAACACTGATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCCAAAAAGA
TACTCCAACCCCGAGTTTTATTTCTAAAACACTAATTATTCACAATTAGGGATACTCCAACCCTG
G
Found at i:197764 original size:51 final size:51
Alignment explanation
Indices: 197660--197775 Score: 160
Period size: 51 Copynumber: 2.3 Consensus size: 51
197650 TTTCCAAAAA
*
197660 GATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTTCACAATTAGG
1 GATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTTCACAATCAGG
* * * * * *
197711 GATACTCCAATCCTGGTTTTATTTTTAAAACACTGATTTTTCACCATCGGG
1 GATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTTCACAATCAGG
*
197762 GATACTTCAACCCC
1 GATACTCCAACCCC
197776 CTTATTTCCA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.35
Consensus pattern (51 bp):
GATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTTCACAATCAGG
Found at i:198330 original size:78 final size:78
Alignment explanation
Indices: 197709--198607 Score: 766
Period size: 79 Copynumber: 11.4 Consensus size: 78
197699 TTCACAATTA
* * * * * *
197709 GGGATACTCCAATCCTGGTTTTATTTTTAAAACA-CTGATTTTTCACCATCGGGGATACTTCAAC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAATATC-GATTTTTCACCATC-GGGATACTCCAAC
* * *
197773 CCCCTTATTTCCAAG
64 CCCGTTATTTTCGAG
* * * * *
197788 GAGATACTCCAACCCTGATTTTTATTTCTAAAAGA-CTGATTATTCACCATTGGGGATACTCCAA
1 GGGATACTCCAACCCCGA-TTTTATTTCTAAAATATC-GATTTTTCACCA-TCGGGATACTCCAA
* *
197852 CCCTGTTA-TTTCTAAG
63 CCCCGTTATTTTC-GAG
* * * * * *
197868 GGGATACTCCAACCCC-ATCTTTATTTCTAAAATGT-TAATTTTCTACAATTGGGGATACTTCAA
1 GGGATACTCCAACCCCGAT-TTTATTTCTAAAATATCGATTTTTC-ACCA-TCGGGATACTCCAA
*
197931 CCCCGTTATTTTCAAG
63 CCCCGTTATTTTCGAG
* * * *
197947 GGGATACTCAAACTCCGATTTTATTT-TCAAAACATCGATTCTTCACCATCGGGGATACT-CATA
1 GGGATACTCCAACCCCGATTTTATTTCT-AAAATATCGATTTTTCACCATC-GGGATACTCCA-A
* * *
198010 TCCTGTTATTTTTGAG
63 CCCCGTTATTTTCGAG
* * ** * * **
198026 GAGATACTCCAACCCTGGCTTTATTTTTAAAATATTGATTTTTCATAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAATATCGATTTTTCACCATC-GGGATACTCCAACC
*
198091 TCGTTA-TTTCTGAG
65 CCGTTATTTTC-GAG
* * * * * * *
198105 AGGATACTACAACCTCGATTTTATTT-TCAAAACATCAAATTTTCACCATC-GGATACTCCAACT
1 GGGATACTCCAACCCCGATTTTATTTCT-AAAATATCGATTTTTCACCATCGGGATACTCCAACC
** *
198168 CTATTATTTTCAAG
65 CCGTTATTTTCGAG
* * * * * *
198182 AGAATACTCCAACCCCGATTTTATTTCT-AAATACCGATTTTCCACCATCGAGATACTCCAACTC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAATATCGATTTTTCACCATCGGGATACTCCAACCC
198246 CGTTATTTTCGAG
66 CGTTATTTTCGAG
* *
198259 GAGATACTCTAACCCCGATTTTATTTCTAAAATATCGATTTTTCACCATCGGGATACTCCAACCC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAATATCGATTTTTCACCATCGGGATACTCCAACCC
*
198324 CATTATTTTCGAG
66 CGTTATTTTCGAG
* * * * * * ** * *
198337 GGGATACTTCAAACCCGATTTTATTTTTAAAACA-CTAATTTTCTACTTTCGGGGATATTTCAAC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAATATCGATTTTTC-ACCATC-GGGATACTCCAAC
198401 CCCGTTATTTTCGAG
64 CCCGTTATTTTCGAG
* ** * *
198416 GGGATACTCCAACCCCGATTTTATTTCTAAAACATCGA-TTTTCATAATCGAGGATACTCTAATC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAATATCGATTTTTCACCATCG-GGATACTCCAACC
*
198480 CTGTTATTTTCGAG
65 CCGTTATTTTCGAG
* * * * *
198494 GGGATACTTCAACCCTGATTTTATTT-TCAAAATGTCGATTTTTCACCATCGAGGATACACTAAC
1 GGGATACTCCAACCCCGATTTTATTTCT-AAAATATCGATTTTTCACCATCG-GGATACTCCAAC
*
198558 CCCGTTA-TTTCTAAG
64 CCCGTTATTTTC-GAG
* *
198573 GGGATACTCCAACCCCGTTTTTATCTCTAAAATAT
1 GGGATACTCCAACCCCGATTTTATTTCTAAAATAT
198608 TAAATTTTCA
Statistics
Matches: 664, Mismatches: 128, Indels: 56
0.78 0.15 0.07
Matches are distributed among these distances:
76 16 0.02
77 96 0.14
78 156 0.23
79 317 0.48
80 78 0.12
81 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (78 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAAATATCGATTTTTCACCATCGGGATACTCCAACCC
CGTTATTTTCGAG
Found at i:198442 original size:157 final size:157
Alignment explanation
Indices: 197709--198604 Score: 779
Period size: 157 Copynumber: 5.7 Consensus size: 157
197699 TTCACAATTA
* * * * *
197709 GGGATACTCCAATCCTGGTTTTATTTTTAAAACACTGATTTT-TCACCATCGGGGATACTTCAAC
1 GGGATACTTCAAACCCGATTTTATTTTTAAAACACTAATTTTCT-ACCATCGGGGATACTTCAAC
* * * * * *
197773 CCCCTTATTTCCAAGGAGATACTCCAACCCTGATTTTTATTTCTAAAAGA-CTGATTATTCACCA
65 CCCGTTATTTTCAAGGGGATACTCCAACCCCGA-TTTTATTTCTAAAACATC-GATTTTTCACCA
* *
197837 TTGGGGATACTCCAACCCTGTTA-TTTCTAAG
128 -TCGGGATACTCCAACCCTGTTATTTTC-GAG
* * * *** * *
197868 GGGATAC-TCCAACCCCATCTTTATTTCTAAAATGTTAATTTTCTACAATTGGGGATACTTCAAC
1 GGGATACTTCAAACCCGAT-TTTATTTTTAAAACACTAATTTTCTACCATCGGGGATACTTCAAC
* * *
197932 CCCGTTATTTTCAAGGGGATACTCAAACTCCGATTTTATTT-TCAAAACATCGATTCTTCACCAT
65 CCCGTTATTTTCAAGGGGATACTCCAACCCCGATTTTATTTCT-AAAACATCGATTTTTCACCAT
* *
197996 CGGGGATACT-CATATCCTGTTATTTTTGAG
129 C-GGGATACTCCA-ACCCTGTTATTTTCGAG
* * ** * * * *
198026 GAGATAC-TCCAACCCTGGCTTTATTTTTAAAATATTGATTTTTCATA--ATCGGGGATACTCCA
1 GGGATACTTCAAACCC-GATTTTATTTTTAAAACACT-AATTTTC-TACCATCGGGGATACTTCA
* * * * * * *
198088 ACCTCGTTA-TTTCTGAGAGGATACTACAACCTCGATTTTATTT-TCAAAACATCAAATTTTCAC
63 ACCCCGTTATTTTC-AAGGGGATACTCCAACCCCGATTTTATTTCT-AAAACATCGATTTTTCAC
* * *
198151 CATC-GGATACTCCAACTCTATTATTTTCAAG
126 CATCGGGATACTCCAACCCTGTTATTTTCGAG
* * * * * * * * *
198182 AGAATACTCCAACCCCGATTTTATTTCTAAATAC-C-GATTTTCCACCATC-GAGATACTCCAAC
1 GGGATACTTCAAACCCGATTTTATTTTTAAA-ACACTAATTTTCTACCATCGGGGATACTTCAAC
* * * * *
198244 TCCGTTATTTTCGAGGAGATACTCTAACCCCGATTTTATTTCTAAAATATCGATTTTTCACCATC
65 CCCGTTATTTTCAAGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTTCACCATC
**
198309 GGGATACTCCAACCCCATTATTTTCGAG
130 GGGATACTCCAACCCTGTTATTTTCGAG
** *
198337 GGGATACTTCAAACCCGATTTTATTTTTAAAACACTAATTTTCTACTTTCGGGGATATTTCAACC
1 GGGATACTTCAAACCCGATTTTATTTTTAAAACACTAATTTTCTACCATCGGGGATACTTCAACC
* **
198402 CCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCGA-TTTTCATAATCG
66 CCGTTATTTTCAAGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTTCACCATCG
* *
198466 AGGATACTCTAATCCTGTTATTTTCGAG
131 -GGATACTCCAACCCTGTTATTTTCGAG
* ** * * * *
198494 GGGATACTTC-AACCCTGATTTTATTTTCAAAATGTCGATTTTTC-ACCATCGAGGATAC-ACTA
1 GGGATACTTCAAACCC-GATTTTATTTTTAAAA-CACTAATTTTCTACCATCGGGGATACTTC-A
* *
198556 ACCCCGTTA-TTTCTAAGGGGATACTCCAACCCCGTTTTTATCTCTAAAA
63 ACCCCGTTATTTTC-AAGGGGATACTCCAACCCCGATTTTATTTCTAAAA
198605 TATTAAATTT
Statistics
Matches: 598, Mismatches: 112, Indels: 56
0.78 0.15 0.07
Matches are distributed among these distances:
153 1 0.00
154 67 0.11
155 59 0.10
156 65 0.11
157 175 0.29
158 148 0.25
159 80 0.13
160 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (157 bp):
GGGATACTTCAAACCCGATTTTATTTTTAAAACACTAATTTTCTACCATCGGGGATACTTCAACC
CCGTTATTTTCAAGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTTCACCATCG
GGATACTCCAACCCTGTTATTTTCGAG
Found at i:205024 original size:37 final size:40
Alignment explanation
Indices: 204983--205073 Score: 93
Period size: 37 Copynumber: 2.3 Consensus size: 40
204973 GTACTATCAT
204983 TATTATATTTATAACATTTAA-TTA-TA-AAGAATAAT-AG
1 TATTATATTTATAACATTTAATTTATTATAA-AATAATAAG
* *
205020 TATTATTAATT-TAATATTTAATTTATTATAAAATAATCAAG
1 TATTA-TATTTATAACATTTAATTTATTATAAAATAAT-AAG
205061 TATTATATATTAT
1 TATTATAT-TTAT
205074 TATACTTATT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
37 14 0.33
38 7 0.16
39 8 0.19
40 4 0.09
41 9 0.21
42 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (40 bp):
TATTATATTTATAACATTTAATTTATTATAAAATAATAAG
Found at i:206891 original size:31 final size:30
Alignment explanation
Indices: 206856--206958 Score: 84
Period size: 32 Copynumber: 3.3 Consensus size: 30
206846 TTTTAATTAA
206856 ATTTAAATTAATTTAAAAATTTATTTTTATT
1 ATTTAAATTAA-TTAAAAATTTATTTTTATT
* *
206887 ATTTATTATATAATTAAAATTTATATATTTTA-T
1 ATTTA-AAT-TAATTAAAAATT-TAT-TTTTATT
* * *
206920 AATAAAATTTAAATAAAAATATTATTTTTATT
1 ATTTAAA-TTAATTAAAAAT-TTATTTTTATT
206952 A-TTAAAT
1 ATTTAAAT
206959 AATAATATGA
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
30 1 0.02
31 14 0.25
32 25 0.44
33 12 0.21
34 5 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
ATTTAAATTAATTAAAAATTTATTTTTATT
Found at i:206918 original size:27 final size:25
Alignment explanation
Indices: 206881--206933 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
206871 AAAATTTATT
* *
206881 TTTATTATTTATTATATAATTAAAA
1 TTTATTATTTATAATAAAATTAAAA
*
206906 TTTATATATTTTATAATAAAATTTAAA
1 TTTAT-TA-TTTATAATAAAATTAAAA
206933 T
1 T
206934 AAAAATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 2 0.09
27 16 0.70
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
TTTATTATTTATAATAAAATTAAAA
Found at i:206927 original size:21 final size:22
Alignment explanation
Indices: 206885--206930 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
206875 TTTATTTTTA
*
206885 TTATTTATTATATAATTAAAAT
1 TTATATATTATATAATTAAAAT
*
206907 TTATATATTTTATAA-TAAAAT
1 TTATATATTATATAATTAAAAT
206928 TTA
1 TTA
206931 AATAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TTATATATTATATAATTAAAAT
Found at i:207177 original size:13 final size:13
Alignment explanation
Indices: 207159--207183 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
207149 TTTTATGTAA
207159 ATTATATAAAATT
1 ATTATATAAAATT
207172 ATTATATAAAAT
1 ATTATATAAAAT
207184 AGAATAAAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTATATAAAATT
Found at i:208777 original size:3 final size:3
Alignment explanation
Indices: 208769--208800 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
208759 CGTAATAAAA
208769 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
208801 AATTTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:210716 original size:27 final size:26
Alignment explanation
Indices: 210673--210750 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 26
210663 TTAATTGTGT
210673 TATATTTATTA-AGATTATAATAATAA
1 TATATTTATTATA-ATTATAATAATAA
*
210699 TATATGTTATTATAATTAATTATAATAA
1 TATAT-TTATTATAATT-ATAATAATAA
210727 -ATATTTA--ATAATTATTAATAATAA
1 TATATTTATTATAATTA-TAATAATAA
210751 AAAATTAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
23 1 0.02
24 14 0.30
26 8 0.17
27 13 0.28
28 10 0.22
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (26 bp):
TATATTTATTATAATTATAATAATAA
Found at i:210726 original size:13 final size:12
Alignment explanation
Indices: 210686--210750 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 12
210676 ATTTATTAAG
*
210686 ATTATAATAATA
1 ATTATTATAATA
*
210698 ATATATGTTATTATA
1 AT-TA--TTATAATA
210713 ATTAATTATAATA
1 ATT-ATTATAATA
*
210726 AATATT-TAATA
1 ATTATTATAATA
210737 ATTATTAATAATA
1 ATTATT-ATAATA
210750 A
1 A
210751 AAAATTAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
11 10 0.24
12 5 0.12
13 17 0.40
14 1 0.02
15 9 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (12 bp):
ATTATTATAATA
Found at i:212406 original size:23 final size:22
Alignment explanation
Indices: 212380--212442 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
212370 AAATCAAAGC
212380 AAAAAAAATTAAAAATTAATTT
1 AAAAAAAATTAAAAATTAATTT
**
212402 -AAAAAAATTAAATAAATTTTTTTT
1 AAAAAAAATT-AA-AAA-TTAATTT
*
212426 AAAAAAAATTTAAAATT
1 AAAAAAAATTAAAAATT
212443 TTATATCACT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
21 9 0.26
22 4 0.12
23 6 0.18
24 6 0.18
25 9 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAAAAAATTAAAAATTAATTT
Found at i:212414 original size:19 final size:20
Alignment explanation
Indices: 212381--212420 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
212371 AATCAAAGCA
*
212381 AAAAAAATTAAAAATTAATTT
1 AAAAAAATT-AAAATAAATTT
212402 AAAAAAATT-AAATAAATTT
1 AAAAAAATTAAAATAAATTT
212421 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAAAATTAAAATAAATTT
Found at i:212443 original size:23 final size:23
Alignment explanation
Indices: 212380--212446 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
212370 AAATCAAAGC
* *
212380 AAAAAAAA-TTAAAAATTAATTT
1 AAAAAAAATTTAAAATTTTATTT
* *
212402 -AAAAAAATTAAATAAATTTTTTTT
1 AAAAAAAATT-TA-AAATTTTATTT
212426 AAAAAAAATTTAAAATTTTAT
1 AAAAAAAATTTAAAATTTTAT
212447 ATCACTCAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
21 7 0.20
22 1 0.03
23 9 0.26
24 9 0.26
25 9 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAAAAAATTTAAAATTTTATTT
Found at i:212901 original size:19 final size:18
Alignment explanation
Indices: 212869--212904 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
212859 ATTTTATTAT
*
212869 AATAAAATATATAAATTC
1 AATAAAATACATAAATTC
212887 AATATAAATACATAAATT
1 AATA-AAATACATAAATT
212905 ACTAAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAAAATACATAAATTC
Found at i:213545 original size:16 final size:16
Alignment explanation
Indices: 213524--213558 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
213514 ATTTGAATTT
213524 TAATTAATTATATTAA
1 TAATTAATTATATTAA
213540 TAATTAATTATATTAA
1 TAATTAATTATATTAA
213556 TAA
1 TAA
213559 ATAAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATTAATTATATTAA
Found at i:213561 original size:20 final size:20
Alignment explanation
Indices: 213523--213609 Score: 60
Period size: 20 Copynumber: 4.5 Consensus size: 20
213513 TATTTGAATT
*
213523 TTAATTAATTATATTAATAA
1 TTAATTAATTATATAAATAA
213543 TTAATTATATTA-ATAAATAA
1 TTAATTA-ATTATATAAATAA
* * *
213563 --AAATAAATAT-TAAGTAA
1 TTAATTAATTATATAAATAA
* *
213580 TTATACTAA-TAAATAAAT-A
1 TTA-ATTAATTATATAAATAA
213599 TTAATTAATTA
1 TTAATTAATTA
213610 AAAAATATGA
Statistics
Matches: 52, Mismatches: 8, Indels: 15
0.69 0.11 0.20
Matches are distributed among these distances:
17 9 0.17
18 8 0.15
19 9 0.17
20 22 0.42
21 4 0.08
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (20 bp):
TTAATTAATTATATAAATAA
Found at i:213826 original size:15 final size:15
Alignment explanation
Indices: 213806--213894 Score: 58
Period size: 14 Copynumber: 5.7 Consensus size: 15
213796 TATATTGGCA
213806 TATATTTTTAATTAT
1 TATATTTTTAATTAT
213821 TATATTTTT-ATT-T
1 TATATTTTTAATTAT
* *
213834 CAAATTAGGTATTAATTAAT
1 TATATT---T-TTAATT-AT
* *
213854 TGTAATTTTTATTTAT
1 TAT-ATTTTTAATTAT
*
213870 TA-ATTTTTAGTTAT
1 TATATTTTTAATTAT
213884 TATATTTTTAA
1 TATATTTTTAA
213895 AAAATATATG
Statistics
Matches: 56, Mismatches: 9, Indels: 18
0.67 0.11 0.22
Matches are distributed among these distances:
13 5 0.09
14 16 0.29
15 16 0.29
16 4 0.07
17 7 0.12
18 4 0.07
20 1 0.02
21 3 0.05
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (15 bp):
TATATTTTTAATTAT
Found at i:214917 original size:201 final size:201
Alignment explanation
Indices: 214542--214940 Score: 485
Period size: 201 Copynumber: 2.0 Consensus size: 201
214532 CTGAGTAAAC
* * * * *
214542 AGGTGATGGATGGACAGGATCAATTGTGACAATGCTGTGTGCATGATGCTGGGTTAATGCAAACT
1 AGGTGATGGATGGACAGGACCAATTGTGACAATGCTGTGTACATGATGCTGGATCAATACAAACT
* ** *
214607 GAGAGTGTTTAGAACATCAAACTTATCTTCGACTAACTTGTAAGTTATGATGCATCCTCTGATGT
66 AAGAGTGTTTAGAACATCAAACTTATCTTCGACTAACTTGTAAGCCATGATGCATCCTCCGATGT
* * * * *
214672 GTAATTTGACCTTTCTCAGCGTCCTCGGCTGAACTTGAGATATCCTCTT-CAGGAGGTGCCAGAG
131 GTAATTTGACCTTCCTCAGCATCCTCGGATGAACCTGAGATATCCT-TTGCAGAAGGTGCCAGAG
214736 GTGTCGG
195 GTGTCGG
* * * * ** * *
214743 AGGTGGTGGATGGACATGACCAATTGTGACAGTGGTGTGTACATGATGCTTTATCATTACAGACT
1 AGGTGATGGATGGACAGGACCAATTGTGACAATGCTGTGTACATGATGCTGGATCAATACAAACT
** * * * * *
214808 AAGAGTGTTTAGAATGTCGAACTTGTCTTTGACTATCTTGTAAGCCATGATGCCTCCTCCGATGT
66 AAGAGTGTTTAGAACATCAAACTTATCTTCGACTAACTTGTAAGCCATGATGCATCCTCCGATGT
* * * *
214873 GTAATTTGACCTTCCTCAGCATCTTCGTATGAACCTGGGATATCCTTTGTAGAAGGTGCCAGAGG
131 GTAATTTGACCTTCCTCAGCATCCTCGGATGAACCTGAGATATCCTTTGCAGAAGGTGCCAGAGG
214938 TGT
196 TGT
214941 TAGAGCTGGT
Statistics
Matches: 164, Mismatches: 33, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
200 2 0.01
201 162 0.99
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (201 bp):
AGGTGATGGATGGACAGGACCAATTGTGACAATGCTGTGTACATGATGCTGGATCAATACAAACT
AAGAGTGTTTAGAACATCAAACTTATCTTCGACTAACTTGTAAGCCATGATGCATCCTCCGATGT
GTAATTTGACCTTCCTCAGCATCCTCGGATGAACCTGAGATATCCTTTGCAGAAGGTGCCAGAGG
TGTCGG
Found at i:218241 original size:28 final size:28
Alignment explanation
Indices: 218195--218251 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
218185 GCCTAGTTTT
** * *
218195 AGTTATGAAATGATAAAAACAATGGAAA
1 AGTTATGAAAAAATAAAAAAAATGAAAA
*
218223 AGTTATGAAAAAATTAAAAAAATGAAAA
1 AGTTATGAAAAAATAAAAAAAATGAAAA
218251 A
1 A
218252 AGATACAAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.63, C:0.02, G:0.14, T:0.21
Consensus pattern (28 bp):
AGTTATGAAAAAATAAAAAAAATGAAAA
Found at i:218412 original size:10 final size:10
Alignment explanation
Indices: 218399--218425 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
218389 AAAAGTTGTA
218399 AAAAAAAAAG
1 AAAAAAAAAG
218409 AAAAAAAAAG
1 AAAAAAAAAG
218419 AAAAAAA
1 AAAAAAA
218426 GGGTGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:218664 original size:22 final size:22
Alignment explanation
Indices: 218626--218674 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
218616 TTAGATCTAG
218626 AAAAATCTAAAAAGAA-TTAAA
1 AAAAATCTAAAAAGAATTTAAA
* * *
218647 AAAAATCTAACTATGAATTTGAA
1 AAAAATCTAA-AAAGAATTTAAA
218670 AAAAA
1 AAAAA
218675 GAGGTCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 10 0.43
22 4 0.17
23 9 0.39
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.22
Consensus pattern (22 bp):
AAAAATCTAAAAAGAATTTAAA
Found at i:219089 original size:2 final size:2
Alignment explanation
Indices: 219076--219106 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
219066 TTATTTTATT
*
219076 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
219107 TTTGAAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:230651 original size:20 final size:20
Alignment explanation
Indices: 230626--230682 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
230616 TACTCAAATG
*
230626 TATCGATACATTTTTCAATA
1 TATCGATACATTTATCAATA
* * *
230646 TATCGATACATGTATGAATG
1 TATCGATACATTTATCAATA
230666 TATCGATACATTCTATC
1 TATCGATACATT-TATC
230683 TTTTTTACCC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 27 0.90
21 3 0.10
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (20 bp):
TATCGATACATTTATCAATA
Found at i:230729 original size:72 final size:71
Alignment explanation
Indices: 230612--230820 Score: 303
Period size: 72 Copynumber: 2.9 Consensus size: 71
230602 AAAAGTCATA
* * *
230612 TTTTTACTCAAATGTATCGATACATTTTTCAATATATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAAATGTATCGATACATTTTTCAATGTTTCGATACATGTATGAATGTATCGATACAT
230677 TCTATC
66 TCTATC
* * *
230683 TTTTTTACCCAGATGTATCGATACATTTTTCAATGTTTCCATACATGTATGAATGTATCGATAAA
1 -TTTTTACCCAAATGTATCGATACATTTTTCAATGTTTCGATACATGTATGAATGTATCGATACA
* *
230748 TTTTGTC
65 TTCTATC
* *
230755 CTTTTACCCAAATGTATCGATACATTTTTCAATGTATT-GATACATGCATGAATGTATCGATACA
1 TTTTTACCCAAATGTATCGATACATTTTTCAATGT-TTCGATACATGTATGAATGTATCGATACA
230819 TT
65 TT
230821 TTTCAATGTA
Statistics
Matches: 123, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
71 58 0.47
72 65 0.53
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (71 bp):
TTTTTACCCAAATGTATCGATACATTTTTCAATGTTTCGATACATGTATGAATGTATCGATACAT
TCTATC
Found at i:230739 original size:40 final size:40
Alignment explanation
Indices: 230695--230879 Score: 178
Period size: 40 Copynumber: 4.8 Consensus size: 40
230685 TTTTACCCAG
*
230695 ATGTATCGATACATTTTTCAATGTTTCCATACATGTATGA
1 ATGTATCGATACATTTTTCAATGTTTCCATACATGCATGA
* * *
230735 ATGTATCGATAAATTTTGTC---CTTT---TAC--CCA--A
1 ATGTATCGATACATTTT-TCAATGTTTCCATACATGCATGA
*
230766 ATGTATCGATACATTTTTCAATGTATT-GATACATGCATGA
1 ATGTATCGATACATTTTTCAATGT-TTCCATACATGCATGA
*
230806 ATGTATCGATACATTTTTCAATGTATT-GATACATGCATGA
1 ATGTATCGATACATTTTTCAATGT-TTCCATACATGCATGA
* * *
230846 ATGTATCGATACATTCTTCAATGTATCAATACAT
1 ATGTATCGATACATTTTTCAATGTTTCCATACAT
230880 TCTGTCTTTT
Statistics
Matches: 123, Mismatches: 10, Indels: 24
0.78 0.06 0.15
Matches are distributed among these distances:
30 2 0.02
31 17 0.14
33 2 0.02
34 2 0.02
35 3 0.02
36 3 0.02
38 5 0.04
39 1 0.01
40 86 0.70
41 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (40 bp):
ATGTATCGATACATTTTTCAATGTTTCCATACATGCATGA
Found at i:230790 original size:20 final size:20
Alignment explanation
Indices: 230765--230882 Score: 137
Period size: 20 Copynumber: 5.9 Consensus size: 20
230755 CTTTTACCCA
*
230765 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTCTTC
* * * *
230785 AATGTATTGATACATGCATG
1 AATGTATCGATACATTCTTC
*
230805 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTCTTC
* * * *
230825 AATGTATTGATACATGCATG
1 AATGTATCGATACATTCTTC
230845 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
*
230865 AATGTATCAATACATTCT
1 AATGTATCGATACATTCT
230883 GTCTTTTTAC
Statistics
Matches: 78, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 78 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:237860 original size:147 final size:147
Alignment explanation
Indices: 237593--237883 Score: 501
Period size: 147 Copynumber: 2.0 Consensus size: 147
237583 GAAGCTCAGG
*
237593 AAAATTTTGTAGGCATCCCTAAGAGAAAAAAAGGCAAACTAGCCATGTCGAAACAAGAAATGAGC
1 AAAATTATGTAGGCATCCCTAAGAGAAAAAAAGGCAAACTAGCCATGTCGAAACAAGAAATGAGC
* *
237658 AAATTAATGTTGAAAACAACACCTTCGGAAATGCTCCAGTCACTCCAAGAGATACTCGTCAGGAG
66 AAATTAATGTTGAAAACAACACCTCCGGAAATGCTCCAGTCACTCCAAGAGATACTCGTCAAGAG
*
237723 CCGTAGTCTAACTCTGA
131 CCGTAGTCCAACTCTGA
* *
237740 AAAATTATGTTGGCATCCCTAAGAGAAAAAAAGGCAAACTAGCCATGTCGAAATAAGAAATGAGC
1 AAAATTATGTAGGCATCCCTAAGAGAAAAAAAGGCAAACTAGCCATGTCGAAACAAGAAATGAGC
** *
237805 AAATTAATGTTGAAAACAACACCTCCGGAAATGCTCCAGTTGCTCCAAGAGATACTTGTCAAGAG
66 AAATTAATGTTGAAAACAACACCTCCGGAAATGCTCCAGTCACTCCAAGAGATACTCGTCAAGAG
237870 CCGTAGTCCAACTC
131 CCGTAGTCCAACTC
237884 CCCGCTGAAT
Statistics
Matches: 135, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
147 135 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (147 bp):
AAAATTATGTAGGCATCCCTAAGAGAAAAAAAGGCAAACTAGCCATGTCGAAACAAGAAATGAGC
AAATTAATGTTGAAAACAACACCTCCGGAAATGCTCCAGTCACTCCAAGAGATACTCGTCAAGAG
CCGTAGTCCAACTCTGA
Found at i:241496 original size:52 final size:52
Alignment explanation
Indices: 241426--241546 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
241416 GAAAATTTAT
*
241426 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
241478 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
241530 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
241547 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:241559 original size:52 final size:51
Alignment explanation
Indices: 241426--241566 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
241416 GAAAATTTAT
241426 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
241478 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
241530 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
241567 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:241573 original size:13 final size:13
Alignment explanation
Indices: 241555--241579 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
241545 CAAAGATCAG
241555 TGTATCGATACAA
1 TGTATCGATACAA
241568 TGTATCGATACA
1 TGTATCGATACA
241580 TGTGAGTAAT
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:241662 original size:13 final size:13
Alignment explanation
Indices: 241644--241668 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
241634 CAAAAAAATA
241644 TGTATCGATACAT
1 TGTATCGATACAT
241657 TGTATCGATACA
1 TGTATCGATACA
241669 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:241664 original size:33 final size:33
Alignment explanation
Indices: 241622--241688 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
241612 AGTAGCTTAA
241622 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
241655 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
241688 A
1 A
241689 AATCGTTGAA
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:242686 original size:171 final size:171
Alignment explanation
Indices: 242487--242881 Score: 691
Period size: 171 Copynumber: 2.3 Consensus size: 171
242477 TTTTAGAGAT
*
242487 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
242552 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
242617 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* * * *
242658 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAGA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
*
242723 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
242788 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
242829 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
242882 GTGCCAATGT
Statistics
Matches: 212, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
171 168 0.79
172 4 0.02
174 40 0.19
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (171 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:242704 original size:49 final size:49
Alignment explanation
Indices: 242558--242716 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
242548 AAAAGTGATA
* * * * *
242558 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * *
242609 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
242662 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
242711 ATGATG
1 AAGATG
242717 AGAAGAGTGA
Statistics
Matches: 85, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
49 45 0.53
50 2 0.02
53 1 0.01
54 2 0.02
55 35 0.41
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:242964 original size:92 final size:92
Alignment explanation
Indices: 242795--243338 Score: 953
Period size: 92 Copynumber: 5.9 Consensus size: 92
242785 GGATGTCAAC
* * *
242795 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATATGCTGATTCAAG
*
242860 GCCAGCTATATTGGACTTAAAGGTGCCAAT
63 GCCAGCGATATTGGACTTAAAGGTGCCAAT
* * *
242890 GTGCTGATTCAAGGCCAGCTACATTGGACTTCAAGATGCAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
242955 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
*
242982 GTGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
243047 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
*
243074 GTGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
243139 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
243166 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
243231 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
*
243258 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCGAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* *
243323 AGCTATATTGGGCTTA
66 AGCGATATTGGACTTA
243339 GAGGGGTTGC
Statistics
Matches: 438, Mismatches: 11, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
92 400 0.91
94 3 0.01
95 35 0.08
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (92 bp):
GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
AGCGATATTGGACTTAAAGGTGCCAAT
Found at i:243425 original size:65 final size:65
Alignment explanation
Indices: 243344--243500 Score: 305
Period size: 65 Copynumber: 2.4 Consensus size: 65
243334 GCTTAGAGGG
*
243344 GTTGCCACCGACTTGTGTGAGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGA
1 GTTGCCACCGACTTGTGTGGGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGA
243409 GTTGCCACCGACTTGTGTGGGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGA
1 GTTGCCACCGACTTGTGTGGGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGA
243474 GTTGCCACCGACTTGTGTGGGCTTTGG
1 GTTGCCACCGACTTGTGTGGGCTTTGG
243501 GAAGGAAAAA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 91 1.00
ACGTcount: A:0.17, C:0.19, G:0.35, T:0.29
Consensus pattern (65 bp):
GTTGCCACCGACTTGTGTGGGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGA
Found at i:243504 original size:32 final size:33
Alignment explanation
Indices: 243343--243500 Score: 261
Period size: 33 Copynumber: 4.8 Consensus size: 33
243333 GGCTTAGAGG
*
243343 GGTTGCCACCGACTTGTGTGAGCTTTGGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
243376 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG-A
1 GGTTGCCACCGACTTGTGTGGGCTTT-GGAAGAA
243409 -GTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
243441 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG-A
1 GGTTGCCACCGACTTGTGTGGGCTTT-GGAAGAA
243474 -GTTGCCACCGACTTGTGTGGGCTTTGG
1 GGTTGCCACCGACTTGTGTGGGCTTTGG
243501 GAAGGAAAAA
Statistics
Matches: 120, Mismatches: 1, Indels: 10
0.92 0.01 0.08
Matches are distributed among these distances:
31 7 0.06
32 51 0.43
33 52 0.43
34 10 0.08
ACGTcount: A:0.17, C:0.19, G:0.35, T:0.28
Consensus pattern (33 bp):
GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
Found at i:243649 original size:32 final size:31
Alignment explanation
Indices: 243508--243695 Score: 173
Period size: 32 Copynumber: 5.9 Consensus size: 31
243498 TGGGAAGGAA
* * *
243508 AAAAGATGCCACGGAGTTGTGGACTTAAAAGGG
1 AAAAGGTGCCACGGAGTTGTGGGCTTTAAA--G
243541 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-
1 -AAAAG-GTGCCACGGAGTTGTGGGCTTTAAAG
* *
243573 AAAA-GTGCCATGGCGTTGTGGGCTTTGAAAAG
1 AAAAGGTGCCACGGAGTTGTGGGCTTT--AAAG
*
243605 AAGAAGGTGCCACGGAGTGGTGGGCTTTAAAGG
1 AA-AAGGTGCCACGGAGTTGTGGGCTTTAAA-G
* *
243638 AAAAGGTGCCACGAAGTTGTGGGCTTTGAAG
1 AAAAGGTGCCACGGAGTTGTGGGCTTTAAAG
** * * *
243669 AAAAAATGCCACTGAGTCGTGGACTTT
1 AAAAGGTGCCACGGAGTTGTGGGCTTT
243696 TGAGAAGAGA
Statistics
Matches: 130, Mismatches: 17, Indels: 17
0.79 0.10 0.10
Matches are distributed among these distances:
29 20 0.15
31 29 0.22
32 30 0.23
33 5 0.04
34 24 0.18
35 22 0.17
ACGTcount: A:0.31, C:0.13, G:0.34, T:0.22
Consensus pattern (31 bp):
AAAAGGTGCCACGGAGTTGTGGGCTTTAAAG
Found at i:243663 original size:66 final size:66
Alignment explanation
Indices: 243506--243667 Score: 199
Period size: 66 Copynumber: 2.5 Consensus size: 66
243496 TTTGGGAAGG
* * *
243506 AAAAAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GGAAAAAGAGTGCCACGGAGTGGTGGGCTT
243569 TA
65 TA
* * *
243571 AAAAAA-GTGCCATGGCGTTGTGGGCTTTGAAAA-GAAGAAG-GTGCCACGGAGTGGTGGGCTTT
1 AAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTGGTGGGCTTT
243633 A
66 A
*
243634 AAGGAAAAGGTGCCACGAAGTTGTGGGCTTTGAA
1 AA--AAAAGGTGCCACGGAGTTGTGGGCTTTGAA
243668 GAAAAAATGC
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
63 24 0.29
64 21 0.25
65 12 0.14
66 26 0.31
ACGTcount: A:0.32, C:0.12, G:0.35, T:0.21
Consensus pattern (66 bp):
AAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTGGTGGGCTTT
A
Found at i:243679 original size:63 final size:62
Alignment explanation
Indices: 243506--243695 Score: 188
Period size: 63 Copynumber: 3.0 Consensus size: 62
243496 TTTGGGAAGG
* * ** *
243506 AAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
1 AAAAAAGGTGCCACGGAGTTGTGGGCTTTGAA--GAAAAA-AGTGCCACGGAGTCGTGGGCTTTA
* * *
243571 AAAAAA-GTGCCATGGCGTTGTGGGCTTTGAA-AAGAAGAAGGTGCCACGGAGTGGTGGGCTTTA
1 AAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAA-AA-AA-GTGCCACGGAGTCGTGGGCTTTA
* * *
243634 AAGGAAAAGGTGCCACGAAGTTGTGGGCTTTGAAGAAAAAA-TGCCACTGAGTCGTGGACTTT
1 AA--AAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAAGTGCCACGGAGTCGTGGGCTTT
243696 TGAGAAGAGA
Statistics
Matches: 105, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
61 2 0.02
62 3 0.03
63 43 0.41
64 19 0.18
65 12 0.11
66 24 0.23
67 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.22
Consensus pattern (62 bp):
AAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAAGTGCCACGGAGTCGTGGGCTTTA
Found at i:243698 original size:98 final size:98
Alignment explanation
Indices: 243514--243695 Score: 237
Period size: 97 Copynumber: 1.9 Consensus size: 98
243504 GGAAAAAAGA
* * *
243514 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAAAGT
1 TGCCACGGAGTGGTGGACTTAAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAAAAT
* * *
243579 GCCATGGCGTTGTGGGCTTTGAAAAGAAGAAGG
66 GCCATGGAGTCGTGGACTTTGAAAAGAAGAAGG
* *
243612 TGCCACGGAGTGGTGGGCTTTAAA-GG-AAAAG-GTGCCACGAAGTTGTGGGCTTTGAAGAAAAA
1 TGCCACGGAGTGGTGGACTTAAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTT-AA-AAAAA
243674 ATGCCACT-GAGTCGTGGACTTT
64 ATGCCA-TGGAGTCGTGGACTTT
243696 TGAGAAGAGA
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
95 21 0.29
96 7 0.10
97 23 0.32
98 22 0.30
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.23
Consensus pattern (98 bp):
TGCCACGGAGTGGTGGACTTAAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAAAAT
GCCATGGAGTCGTGGACTTTGAAAAGAAGAAGG
Found at i:243711 original size:95 final size:98
Alignment explanation
Indices: 243514--243727 Score: 235
Period size: 95 Copynumber: 2.2 Consensus size: 98
243504 GGAAAAAAGA
* * * *
243514 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAAAGT
1 TGCCACGGAGTCGTGGACTTTAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAAAAT
* * *
243579 GCCATGGCGTTGTGGGCTTTGAAAAGAAGAAGG
66 GCCATGGAGTCGTGGACTTTGAAAAGAAGAAGG
* *
243612 TGCCACGGAGTGGTGGGCTTTAAA-GG-AAAAG-GTGCCACGAAGTTGTGGGCTTTGAAGAAAAA
1 TGCCACGGAGTCGTGGACTTTAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTT-AA-AAAAA
* *
243674 ATGCCACT-GAGTCGTGGACTTTTGAGAAG-AG-A-T
64 ATGCCA-TGGAGTCGTGGAC-TTTGAAAAGAAGAAGG
*
243707 TGCCACTGAGTCGTGGACTTT
1 TGCCACGGAGTCGTGGACTTT
243728 GAGCAGAGAT
Statistics
Matches: 99, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
95 39 0.39
96 8 0.08
97 22 0.22
98 30 0.30
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (98 bp):
TGCCACGGAGTCGTGGACTTTAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAAAAT
GCCATGGAGTCGTGGACTTTGAAAAGAAGAAGG
Found at i:243736 original size:31 final size:31
Alignment explanation
Indices: 243675--243789 Score: 212
Period size: 31 Copynumber: 3.7 Consensus size: 31
243665 GAAGAAAAAA
243675 TGCCACTGAGTCGTGGACTTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGAC-TTTGAGAAGAGAT
*
243707 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
243738 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
243769 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
243790 AAAAAGGTAT
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
31 63 0.78
32 18 0.22
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
Found at i:244735 original size:1 final size:1
Alignment explanation
Indices: 244725--244758 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
244715 TGAAAAGGGG
*
244725 TTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
244759 GTGAAGATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:252105 original size:52 final size:52
Alignment explanation
Indices: 252035--252155 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
252025 GAAAATTTAT
*
252035 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
252087 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
252139 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
252156 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:252168 original size:52 final size:51
Alignment explanation
Indices: 252035--252175 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
252025 GAAAATTTAT
252035 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
252087 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
252139 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
252176 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:252182 original size:13 final size:13
Alignment explanation
Indices: 252164--252188 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
252154 CAAAGATCAG
252164 TGTATCGATACAA
1 TGTATCGATACAA
252177 TGTATCGATACA
1 TGTATCGATACA
252189 TGTGAGTAAT
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:252270 original size:13 final size:13
Alignment explanation
Indices: 252252--252276 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
252242 CAAAAAAATA
252252 TGTATCGATACAT
1 TGTATCGATACAT
252265 TGTATCGATACA
1 TGTATCGATACA
252277 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:252272 original size:33 final size:33
Alignment explanation
Indices: 252230--252296 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
252220 CAGTAGCTTA
252230 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
252263 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
252296 A
1 A
252297 AATCGTTGAA
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:253293 original size:171 final size:171
Alignment explanation
Indices: 253094--253488 Score: 691
Period size: 171 Copynumber: 2.3 Consensus size: 171
253084 TTTTAGAGAT
*
253094 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
253159 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
253224 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* * * *
253265 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAGA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
*
253330 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
253395 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
253436 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
253489 GTGCCAATGT
Statistics
Matches: 212, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
171 168 0.79
172 4 0.02
174 40 0.19
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (171 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:253311 original size:49 final size:49
Alignment explanation
Indices: 253165--253323 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
253155 AAAAGTGATA
* * * * *
253165 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * *
253216 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
253269 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
253318 ATGATG
1 AAGATG
253324 AGAAGAGTGA
Statistics
Matches: 85, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
49 45 0.53
50 2 0.02
53 1 0.01
54 2 0.02
55 35 0.41
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:253571 original size:92 final size:92
Alignment explanation
Indices: 253402--253945 Score: 953
Period size: 92 Copynumber: 5.9 Consensus size: 92
253392 GGATGTCAAC
* * *
253402 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATATGCTGATTCAAG
*
253467 GCCAGCTATATTGGACTTAAAGGTGCCAAT
63 GCCAGCGATATTGGACTTAAAGGTGCCAAT
* * *
253497 GTGCTGATTCAAGGCCAGCTACATTGGACTTCAAGATGCAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
253562 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
*
253589 GTGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
253654 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
*
253681 GTGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
253746 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
253773 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
253838 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
*
253865 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCGAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* *
253930 AGCTATATTGGGCTTA
66 AGCGATATTGGACTTA
253946 GAGGGGTTGC
Statistics
Matches: 438, Mismatches: 11, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
92 400 0.91
94 3 0.01
95 35 0.08
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (92 bp):
GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
AGCGATATTGGACTTAAAGGTGCCAAT
Found at i:254032 original size:65 final size:65
Alignment explanation
Indices: 253951--254107 Score: 305
Period size: 65 Copynumber: 2.4 Consensus size: 65
253941 GCTTAGAGGG
*
253951 GTTGCCACCGACTTGTGTGAGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGA
1 GTTGCCACCGACTTGTGTGGGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGA
254016 GTTGCCACCGACTTGTGTGGGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGA
1 GTTGCCACCGACTTGTGTGGGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGA
254081 GTTGCCACCGACTTGTGTGGGCTTTGG
1 GTTGCCACCGACTTGTGTGGGCTTTGG
254108 GAAGGAAAAA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 91 1.00
ACGTcount: A:0.17, C:0.19, G:0.35, T:0.29
Consensus pattern (65 bp):
GTTGCCACCGACTTGTGTGGGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGA
Found at i:254111 original size:32 final size:33
Alignment explanation
Indices: 253950--254107 Score: 261
Period size: 33 Copynumber: 4.8 Consensus size: 33
253940 GGCTTAGAGG
*
253950 GGTTGCCACCGACTTGTGTGAGCTTTGGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
253983 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG-A
1 GGTTGCCACCGACTTGTGTGGGCTTT-GGAAGAA
254016 -GTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
254048 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG-A
1 GGTTGCCACCGACTTGTGTGGGCTTT-GGAAGAA
254081 -GTTGCCACCGACTTGTGTGGGCTTTGG
1 GGTTGCCACCGACTTGTGTGGGCTTTGG
254108 GAAGGAAAAA
Statistics
Matches: 120, Mismatches: 1, Indels: 10
0.92 0.01 0.08
Matches are distributed among these distances:
31 7 0.06
32 51 0.43
33 52 0.43
34 10 0.08
ACGTcount: A:0.17, C:0.19, G:0.35, T:0.28
Consensus pattern (33 bp):
GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
Found at i:254256 original size:32 final size:31
Alignment explanation
Indices: 254115--254302 Score: 173
Period size: 32 Copynumber: 5.9 Consensus size: 31
254105 TGGGAAGGAA
* * *
254115 AAAAGATGCCACGGAGTTGTGGACTTAAAAGGG
1 AAAAGGTGCCACGGAGTTGTGGGCTTTAAA--G
254148 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-
1 -AAAAG-GTGCCACGGAGTTGTGGGCTTTAAAG
* *
254180 AAAA-GTGCCATGGCGTTGTGGGCTTTGAAAAG
1 AAAAGGTGCCACGGAGTTGTGGGCTTT--AAAG
*
254212 AAGAAGGTGCCACGGAGTGGTGGGCTTTAAAGG
1 AA-AAGGTGCCACGGAGTTGTGGGCTTTAAA-G
* *
254245 AAAAGGTGCCACGAAGTTGTGGGCTTTGAAG
1 AAAAGGTGCCACGGAGTTGTGGGCTTTAAAG
** * * *
254276 AAAAAATGCCACTGAGTCGTGGACTTT
1 AAAAGGTGCCACGGAGTTGTGGGCTTT
254303 TGAGAAGAGA
Statistics
Matches: 130, Mismatches: 17, Indels: 17
0.79 0.10 0.10
Matches are distributed among these distances:
29 20 0.15
31 29 0.22
32 30 0.23
33 5 0.04
34 24 0.18
35 22 0.17
ACGTcount: A:0.31, C:0.13, G:0.34, T:0.22
Consensus pattern (31 bp):
AAAAGGTGCCACGGAGTTGTGGGCTTTAAAG
Found at i:254270 original size:66 final size:66
Alignment explanation
Indices: 254113--254274 Score: 199
Period size: 66 Copynumber: 2.5 Consensus size: 66
254103 TTTGGGAAGG
* * *
254113 AAAAAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GGAAAAAGAGTGCCACGGAGTGGTGGGCTT
254176 TA
65 TA
* * *
254178 AAAAAA-GTGCCATGGCGTTGTGGGCTTTGAAAA-GAAGAAG-GTGCCACGGAGTGGTGGGCTTT
1 AAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTGGTGGGCTTT
254240 A
66 A
*
254241 AAGGAAAAGGTGCCACGAAGTTGTGGGCTTTGAA
1 AA--AAAAGGTGCCACGGAGTTGTGGGCTTTGAA
254275 GAAAAAATGC
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
63 24 0.29
64 21 0.25
65 12 0.14
66 26 0.31
ACGTcount: A:0.32, C:0.12, G:0.35, T:0.21
Consensus pattern (66 bp):
AAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTGGTGGGCTTT
A
Found at i:254286 original size:63 final size:62
Alignment explanation
Indices: 254113--254302 Score: 188
Period size: 63 Copynumber: 3.0 Consensus size: 62
254103 TTTGGGAAGG
* * ** *
254113 AAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
1 AAAAAAGGTGCCACGGAGTTGTGGGCTTTGAA--GAAAAA-AGTGCCACGGAGTCGTGGGCTTTA
* * *
254178 AAAAAA-GTGCCATGGCGTTGTGGGCTTTGAA-AAGAAGAAGGTGCCACGGAGTGGTGGGCTTTA
1 AAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAA-AA-AA-GTGCCACGGAGTCGTGGGCTTTA
* * *
254241 AAGGAAAAGGTGCCACGAAGTTGTGGGCTTTGAAGAAAAAA-TGCCACTGAGTCGTGGACTTT
1 AA--AAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAAGTGCCACGGAGTCGTGGGCTTT
254303 TGAGAAGAGA
Statistics
Matches: 105, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
61 2 0.02
62 3 0.03
63 43 0.41
64 19 0.18
65 12 0.11
66 24 0.23
67 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.22
Consensus pattern (62 bp):
AAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAAGTGCCACGGAGTCGTGGGCTTTA
Found at i:254305 original size:98 final size:98
Alignment explanation
Indices: 254121--254302 Score: 237
Period size: 97 Copynumber: 1.9 Consensus size: 98
254111 GGAAAAAAGA
* * *
254121 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAAAGT
1 TGCCACGGAGTGGTGGACTTAAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAAAAT
* * *
254186 GCCATGGCGTTGTGGGCTTTGAAAAGAAGAAGG
66 GCCATGGAGTCGTGGACTTTGAAAAGAAGAAGG
* *
254219 TGCCACGGAGTGGTGGGCTTTAAA-GG-AAAAG-GTGCCACGAAGTTGTGGGCTTTGAAGAAAAA
1 TGCCACGGAGTGGTGGACTTAAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTT-AA-AAAAA
254281 ATGCCACT-GAGTCGTGGACTTT
64 ATGCCA-TGGAGTCGTGGACTTT
254303 TGAGAAGAGA
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
95 21 0.29
96 7 0.10
97 23 0.32
98 22 0.30
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.23
Consensus pattern (98 bp):
TGCCACGGAGTGGTGGACTTAAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAAAAT
GCCATGGAGTCGTGGACTTTGAAAAGAAGAAGG
Found at i:254318 original size:95 final size:98
Alignment explanation
Indices: 254121--254334 Score: 235
Period size: 95 Copynumber: 2.2 Consensus size: 98
254111 GGAAAAAAGA
* * * *
254121 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAAAGT
1 TGCCACGGAGTCGTGGACTTTAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAAAAT
* * *
254186 GCCATGGCGTTGTGGGCTTTGAAAAGAAGAAGG
66 GCCATGGAGTCGTGGACTTTGAAAAGAAGAAGG
* *
254219 TGCCACGGAGTGGTGGGCTTTAAA-GG-AAAAG-GTGCCACGAAGTTGTGGGCTTTGAAGAAAAA
1 TGCCACGGAGTCGTGGACTTTAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTT-AA-AAAAA
* *
254281 ATGCCACT-GAGTCGTGGACTTTTGAGAAG-AG-A-T
64 ATGCCA-TGGAGTCGTGGAC-TTTGAAAAGAAGAAGG
*
254314 TGCCACTGAGTCGTGGACTTT
1 TGCCACGGAGTCGTGGACTTT
254335 GAGCAGAGAT
Statistics
Matches: 99, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
95 39 0.39
96 8 0.08
97 22 0.22
98 30 0.30
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (98 bp):
TGCCACGGAGTCGTGGACTTTAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAAAAT
GCCATGGAGTCGTGGACTTTGAAAAGAAGAAGG
Found at i:254343 original size:31 final size:31
Alignment explanation
Indices: 254282--254396 Score: 212
Period size: 31 Copynumber: 3.7 Consensus size: 31
254272 GAAGAAAAAA
254282 TGCCACTGAGTCGTGGACTTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGAC-TTTGAGAAGAGAT
*
254314 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
254345 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
254376 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
254397 AAAAAGGTAT
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
31 63 0.78
32 18 0.22
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
Found at i:255343 original size:1 final size:1
Alignment explanation
Indices: 255333--255367 Score: 61
Period size: 1 Copynumber: 35.0 Consensus size: 1
255323 TGAAAAGGGG
*
255333 TTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
255368 GTGAAGATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:262719 original size:52 final size:52
Alignment explanation
Indices: 262649--262769 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
262639 GAAAATTTAT
*
262649 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
262701 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
262753 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
262770 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:262782 original size:52 final size:51
Alignment explanation
Indices: 262649--262789 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
262639 GAAAATTTAT
262649 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
262701 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
262753 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
262790 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:262796 original size:13 final size:13
Alignment explanation
Indices: 262778--262802 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
262768 CAAAGATCAG
262778 TGTATCGATACAA
1 TGTATCGATACAA
262791 TGTATCGATACA
1 TGTATCGATACA
262803 TGTGAGTAAT
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:262885 original size:13 final size:13
Alignment explanation
Indices: 262867--262891 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
262857 CAAAAAAATA
262867 TGTATCGATACAT
1 TGTATCGATACAT
262880 TGTATCGATACA
1 TGTATCGATACA
262892 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:262887 original size:33 final size:33
Alignment explanation
Indices: 262845--262911 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
262835 AGTAGCTTAA
262845 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
262878 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
262911 A
1 A
262912 AATCGTTGAA
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:263909 original size:171 final size:171
Alignment explanation
Indices: 263710--264104 Score: 691
Period size: 171 Copynumber: 2.3 Consensus size: 171
263700 TTTTAGAGAT
*
263710 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
263775 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
263840 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* * * *
263881 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAGA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
*
263946 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
264011 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
264052 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
264105 GTGCCAATGT
Statistics
Matches: 212, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
171 168 0.79
172 4 0.02
174 40 0.19
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (171 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:263927 original size:49 final size:49
Alignment explanation
Indices: 263781--263939 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
263771 AAAAGTGATA
* * * * *
263781 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * *
263832 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
263885 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
263934 ATGATG
1 AAGATG
263940 AGAAGAGTGA
Statistics
Matches: 85, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
49 45 0.53
50 2 0.02
53 1 0.01
54 2 0.02
55 35 0.41
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:264187 original size:92 final size:92
Alignment explanation
Indices: 264018--264561 Score: 953
Period size: 92 Copynumber: 5.9 Consensus size: 92
264008 GGATGTCAAC
* * *
264018 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATATGCTGATTCAAG
*
264083 GCCAGCTATATTGGACTTAAAGGTGCCAAT
63 GCCAGCGATATTGGACTTAAAGGTGCCAAT
* * *
264113 GTGCTGATTCAAGGCCAGCTACATTGGACTTCAAGATGCAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
264178 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
*
264205 GTGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
264270 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
*
264297 GTGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
264362 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
264389 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
264454 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
*
264481 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCGAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* *
264546 AGCTATATTGGGCTTA
66 AGCGATATTGGACTTA
264562 GAGGGGTTGC
Statistics
Matches: 438, Mismatches: 11, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
92 400 0.91
94 3 0.01
95 35 0.08
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (92 bp):
GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
AGCGATATTGGACTTAAAGGTGCCAAT
Found at i:264648 original size:65 final size:65
Alignment explanation
Indices: 264567--264723 Score: 305
Period size: 65 Copynumber: 2.4 Consensus size: 65
264557 GCTTAGAGGG
*
264567 GTTGCCACCGACTTGTGTGAGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGA
1 GTTGCCACCGACTTGTGTGGGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGA
264632 GTTGCCACCGACTTGTGTGGGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGA
1 GTTGCCACCGACTTGTGTGGGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGA
264697 GTTGCCACCGACTTGTGTGGGCTTTGG
1 GTTGCCACCGACTTGTGTGGGCTTTGG
264724 GAAGGAAAAA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 91 1.00
ACGTcount: A:0.17, C:0.19, G:0.35, T:0.29
Consensus pattern (65 bp):
GTTGCCACCGACTTGTGTGGGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGA
Found at i:264727 original size:32 final size:33
Alignment explanation
Indices: 264566--264723 Score: 261
Period size: 33 Copynumber: 4.8 Consensus size: 33
264556 GGCTTAGAGG
*
264566 GGTTGCCACCGACTTGTGTGAGCTTTGGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
264599 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG-A
1 GGTTGCCACCGACTTGTGTGGGCTTT-GGAAGAA
264632 -GTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
264664 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG-A
1 GGTTGCCACCGACTTGTGTGGGCTTT-GGAAGAA
264697 -GTTGCCACCGACTTGTGTGGGCTTTGG
1 GGTTGCCACCGACTTGTGTGGGCTTTGG
264724 GAAGGAAAAA
Statistics
Matches: 120, Mismatches: 1, Indels: 10
0.92 0.01 0.08
Matches are distributed among these distances:
31 7 0.06
32 51 0.43
33 52 0.43
34 10 0.08
ACGTcount: A:0.17, C:0.19, G:0.35, T:0.28
Consensus pattern (33 bp):
GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
Found at i:264872 original size:32 final size:31
Alignment explanation
Indices: 264731--264918 Score: 173
Period size: 32 Copynumber: 5.9 Consensus size: 31
264721 TGGGAAGGAA
* * *
264731 AAAAGATGCCACGGAGTTGTGGACTTAAAAGGG
1 AAAAGGTGCCACGGAGTTGTGGGCTTTAAA--G
264764 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-
1 -AAAAG-GTGCCACGGAGTTGTGGGCTTTAAAG
* *
264796 AAAA-GTGCCATGGCGTTGTGGGCTTTGAAAAG
1 AAAAGGTGCCACGGAGTTGTGGGCTTT--AAAG
*
264828 AAGAAGGTGCCACGGAGTGGTGGGCTTTAAAGG
1 AA-AAGGTGCCACGGAGTTGTGGGCTTTAAA-G
* *
264861 AAAAGGTGCCACGAAGTTGTGGGCTTTGAAG
1 AAAAGGTGCCACGGAGTTGTGGGCTTTAAAG
** * * *
264892 AAAAAATGCCACTGAGTCGTGGACTTT
1 AAAAGGTGCCACGGAGTTGTGGGCTTT
264919 TGAGAAGAGA
Statistics
Matches: 130, Mismatches: 17, Indels: 17
0.79 0.10 0.10
Matches are distributed among these distances:
29 20 0.15
31 29 0.22
32 30 0.23
33 5 0.04
34 24 0.18
35 22 0.17
ACGTcount: A:0.31, C:0.13, G:0.34, T:0.22
Consensus pattern (31 bp):
AAAAGGTGCCACGGAGTTGTGGGCTTTAAAG
Found at i:264886 original size:66 final size:66
Alignment explanation
Indices: 264729--264890 Score: 199
Period size: 66 Copynumber: 2.5 Consensus size: 66
264719 TTTGGGAAGG
* * *
264729 AAAAAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GGAAAAAGAGTGCCACGGAGTGGTGGGCTT
264792 TA
65 TA
* * *
264794 AAAAAA-GTGCCATGGCGTTGTGGGCTTTGAAAA-GAAGAAG-GTGCCACGGAGTGGTGGGCTTT
1 AAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTGGTGGGCTTT
264856 A
66 A
*
264857 AAGGAAAAGGTGCCACGAAGTTGTGGGCTTTGAA
1 AA--AAAAGGTGCCACGGAGTTGTGGGCTTTGAA
264891 GAAAAAATGC
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
63 24 0.29
64 21 0.25
65 12 0.14
66 26 0.31
ACGTcount: A:0.32, C:0.12, G:0.35, T:0.21
Consensus pattern (66 bp):
AAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTGGTGGGCTTT
A
Found at i:264902 original size:63 final size:62
Alignment explanation
Indices: 264729--264918 Score: 188
Period size: 63 Copynumber: 3.0 Consensus size: 62
264719 TTTGGGAAGG
* * ** *
264729 AAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
1 AAAAAAGGTGCCACGGAGTTGTGGGCTTTGAA--GAAAAA-AGTGCCACGGAGTCGTGGGCTTTA
* * *
264794 AAAAAA-GTGCCATGGCGTTGTGGGCTTTGAA-AAGAAGAAGGTGCCACGGAGTGGTGGGCTTTA
1 AAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAA-AA-AA-GTGCCACGGAGTCGTGGGCTTTA
* * *
264857 AAGGAAAAGGTGCCACGAAGTTGTGGGCTTTGAAGAAAAAA-TGCCACTGAGTCGTGGACTTT
1 AA--AAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAAGTGCCACGGAGTCGTGGGCTTT
264919 TGAGAAGAGA
Statistics
Matches: 105, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
61 2 0.02
62 3 0.03
63 43 0.41
64 19 0.18
65 12 0.11
66 24 0.23
67 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.22
Consensus pattern (62 bp):
AAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAAGTGCCACGGAGTCGTGGGCTTTA
Found at i:264921 original size:98 final size:98
Alignment explanation
Indices: 264737--264918 Score: 237
Period size: 97 Copynumber: 1.9 Consensus size: 98
264727 GGAAAAAAGA
* * *
264737 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAAAGT
1 TGCCACGGAGTGGTGGACTTAAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAAAAT
* * *
264802 GCCATGGCGTTGTGGGCTTTGAAAAGAAGAAGG
66 GCCATGGAGTCGTGGACTTTGAAAAGAAGAAGG
* *
264835 TGCCACGGAGTGGTGGGCTTTAAA-GG-AAAAG-GTGCCACGAAGTTGTGGGCTTTGAAGAAAAA
1 TGCCACGGAGTGGTGGACTTAAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTT-AA-AAAAA
264897 ATGCCACT-GAGTCGTGGACTTT
64 ATGCCA-TGGAGTCGTGGACTTT
264919 TGAGAAGAGA
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
95 21 0.29
96 7 0.10
97 23 0.32
98 22 0.30
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.23
Consensus pattern (98 bp):
TGCCACGGAGTGGTGGACTTAAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAAAAT
GCCATGGAGTCGTGGACTTTGAAAAGAAGAAGG
Found at i:264934 original size:95 final size:98
Alignment explanation
Indices: 264737--264950 Score: 235
Period size: 95 Copynumber: 2.2 Consensus size: 98
264727 GGAAAAAAGA
* * * *
264737 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAAAGT
1 TGCCACGGAGTCGTGGACTTTAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAAAAT
* * *
264802 GCCATGGCGTTGTGGGCTTTGAAAAGAAGAAGG
66 GCCATGGAGTCGTGGACTTTGAAAAGAAGAAGG
* *
264835 TGCCACGGAGTGGTGGGCTTTAAA-GG-AAAAG-GTGCCACGAAGTTGTGGGCTTTGAAGAAAAA
1 TGCCACGGAGTCGTGGACTTTAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTT-AA-AAAAA
* *
264897 ATGCCACT-GAGTCGTGGACTTTTGAGAAG-AG-A-T
64 ATGCCA-TGGAGTCGTGGAC-TTTGAAAAGAAGAAGG
*
264930 TGCCACTGAGTCGTGGACTTT
1 TGCCACGGAGTCGTGGACTTT
264951 GAGCAGAGAT
Statistics
Matches: 99, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
95 39 0.39
96 8 0.08
97 22 0.22
98 30 0.30
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (98 bp):
TGCCACGGAGTCGTGGACTTTAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAAAAT
GCCATGGAGTCGTGGACTTTGAAAAGAAGAAGG
Found at i:264959 original size:31 final size:31
Alignment explanation
Indices: 264898--265012 Score: 212
Period size: 31 Copynumber: 3.7 Consensus size: 31
264888 GAAGAAAAAA
264898 TGCCACTGAGTCGTGGACTTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGAC-TTTGAGAAGAGAT
*
264930 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
264961 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
264992 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
265013 AAAAAGGTAT
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
31 63 0.78
32 18 0.22
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
Found at i:265959 original size:1 final size:1
Alignment explanation
Indices: 265949--265982 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
265939 TGAAAAGGGG
*
265949 TTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
265983 GTGAAGATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:274272 original size:13 final size:13
Alignment explanation
Indices: 274254--274279 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
274244 CATTATTAAA
274254 TGTATCGATACAT
1 TGTATCGATACAT
274267 TGTATCGATACAT
1 TGTATCGATACAT
274280 CGATCTTTGT
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:274343 original size:20 final size:19
Alignment explanation
Indices: 274318--274391 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
274308 TTTACCCAGA
274318 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
*
274338 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
* * *
274358 TATATTGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
274378 TGTATCGATACATT
1 TGTATCGATACATT
274392 CAGGCATTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 43 0.96
21 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:276731 original size:51 final size:51
Alignment explanation
Indices: 276668--276850 Score: 224
Period size: 51 Copynumber: 3.6 Consensus size: 51
276658 TTAAGTTTCT
* *
276668 CAATTTTTCACAATCGGAGATACTCCAACTCCGATTTTATTTTCAAAACAC
1 CAATTTTCCACAATCGGAGATACTCCAACTCTGATTTTATTTTCAAAACAC
* * * *
276719 CAATTTTCCACAATCGGGGATACTTCAAC-CGTGGTTTTATTTTTAAAACAC
1 CAATTTTCCACAATCGGAGATACTCCAACTC-TGATTTTATTTTCAAAACAC
* * * *
276770 CAATTTTCTATAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAACAC
1 CAATTTTCCACAATCGGAGATACTCCAACTCTGATTTTATTTTC-AAAACAC
* **
276822 CAATTTTTCACAATCAAAGATACTCCAAC
1 CAATTTTCCACAATCGGAGATACTCCAAC
276851 CCCGTTAATA
Statistics
Matches: 111, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
50 1 0.01
51 79 0.71
52 31 0.28
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.33
Consensus pattern (51 bp):
CAATTTTCCACAATCGGAGATACTCCAACTCTGATTTTATTTTCAAAACAC
Found at i:276941 original size:79 final size:79
Alignment explanation
Indices: 276858--277064 Score: 263
Period size: 79 Copynumber: 2.6 Consensus size: 79
276848 AACCCCGTTA
* * * ** *
276858 ATAATTGGGGATACTCCAACCCCGTGATTTCCGAGAGGATGCTCCAACCTCGGCTTTATTCCTAA
1 ATAATCGGGGATACTCCAACCCCGTTATTTCCGAGAGGATACTCCAACCAAGACTTTATTCCTAA
276923 AATATTGATTTCTC
66 AATATTGATTTCTC
* * *
276937 ATAATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCAAGATTTTATTCCTAA
1 ATAATCGGGGATACTCCAACCCCGTTATTTCCGAGAGGATACTCCAACCAAGACTTTATTCCTAA
*
277002 AATATTGATTTTTC
66 AATATTGATTTCTC
* * * * *
277016 ACAATCGAGGATACTCCAACCTCGTTATTTTCGTAGA-GATATTCCAACC
1 ATAATCGGGGATACTCCAACCCCGTTATTTCCG-AGAGGATACTCCAACC
277065 CCGTTATTTT
Statistics
Matches: 110, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
79 108 0.98
80 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (79 bp):
ATAATCGGGGATACTCCAACCCCGTTATTTCCGAGAGGATACTCCAACCAAGACTTTATTCCTAA
AATATTGATTTCTC
Found at i:277084 original size:28 final size:28
Alignment explanation
Indices: 277024--277095 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
277014 TCACAATCGA
*
277024 GGATACTCCAACCTCGTTATTTTCGTAG
1 GGATACTCCAACCCCGTTATTTTCGTAG
* * *
277052 AGATATTCCAACCCCGTTATTTTTG-AGG
1 GGATACTCCAACCCCGTTATTTTCGTA-G
277080 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
277096 ATTTTATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
27 1 0.03
28 36 0.97
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.31
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTATTTTCGTAG
Found at i:277137 original size:107 final size:106
Alignment explanation
Indices: 276946--277251 Score: 280
Period size: 107 Copynumber: 2.9 Consensus size: 106
276936 CATAATCGGG
* * * ** * * ***
276946 GATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCAAGATTTTA-TTCCTAAAATATTGA
1 GATACTCCAACCCCGTTACTTCCAAGGGGATACTCCAACCCCGATTTTATTTCC-AGAACACCAA
* * **
277010 TTTTTCACAA-TCGAGGATACTCCAACCTCGTTATTTTCGTA-GA
65 TTTTTCATAATTAG-GGATACTCCAACC-CGTTA-TTTCCAAGGA
* * *** *
277053 GATATTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCGATTTTATTTTCA-AAGCACCAA
1 GATACTCCAACCCCGTTACTTCCAAGGGGATACTCCAACCCCGATTTTATTTCCAGAA-CACCAA
*
277117 -TTTTCTATAATTAGGGATACTCCAACCCTGTTATTTCCAAGGG
65 TTTTTC-ATAATTAGGGATACTCCAACCC-GTTATTTCCAAGGA
* * * *
277160 GATACTCCAACTCTGTTACTTCCAAGGGGATACTCCAACCCTGATTTTATTTCCAGAACACCGAT
1 GATACTCCAACCCCGTTACTTCCAAGGGGATACTCCAACCCCGATTTTATTTCCAGAACACCAAT
*
277225 TTTTCATAATTAGGGGTACTCCAACCC
66 TTTTCATAATTAGGGATACTCCAACCC
277252 CGTTGTTATC
Statistics
Matches: 164, Mismatches: 27, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
106 13 0.08
107 139 0.85
108 12 0.07
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.32
Consensus pattern (106 bp):
GATACTCCAACCCCGTTACTTCCAAGGGGATACTCCAACCCCGATTTTATTTCCAGAACACCAAT
TTTTCATAATTAGGGATACTCCAACCCGTTATTTCCAAGGA
Found at i:277161 original size:28 final size:28
Alignment explanation
Indices: 277130--277202 Score: 128
Period size: 28 Copynumber: 2.6 Consensus size: 28
277120 TCTATAATTA
*
277130 GGGATACTCCAACCCTGTTATTTCCAAG
1 GGGATACTCCAACCCTGTTACTTCCAAG
*
277158 GGGATACTCCAACTCTGTTACTTCCAAG
1 GGGATACTCCAACCCTGTTACTTCCAAG
277186 GGGATACTCCAACCCTG
1 GGGATACTCCAACCCTG
277203 ATTTTATTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (28 bp):
GGGATACTCCAACCCTGTTACTTCCAAG
Found at i:278799 original size:11 final size:11
Alignment explanation
Indices: 278783--278841 Score: 64
Period size: 11 Copynumber: 5.0 Consensus size: 11
278773 CATCATTCTT
278783 ACAAAAAAAAA
1 ACAAAAAAAAA
278794 ACAAAAAAAACA
1 ACAAAAAAAA-A
*
278806 AAAAAAATTAAAA
1 ACAAAAA--AAAA
*
278819 ACAAAAAATAA
1 ACAAAAAAAAA
278830 ACAAACAAAAAA
1 ACAAA-AAAAAA
278842 GGGGTCCAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 18 0.45
12 12 0.30
13 7 0.17
14 3 0.08
ACGTcount: A:0.85, C:0.10, G:0.00, T:0.05
Consensus pattern (11 bp):
ACAAAAAAAAA
Found at i:278801 original size:9 final size:9
Alignment explanation
Indices: 278787--278840 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
278777 ATTCTTACAA
278787 AAAAAAAAC
1 AAAAAAAAC
278796 AAAAAAAAC
1 AAAAAAAAC
*
278805 AAAAAAAATT
1 AAAAAAAA-C
*
278815 AAAAACAA-
1 AAAAAAAAC
*
278823 AAAATAAAC
1 AAAAAAAAC
278832 AAACAAAAA
1 AAA-AAAAA
278841 AGGGGTCCAG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
8 6 0.16
9 20 0.54
10 11 0.30
ACGTcount: A:0.85, C:0.09, G:0.00, T:0.06
Consensus pattern (9 bp):
AAAAAAAAC
Done.