Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 83 of 147
Found at i:15274844 original size:33 final size:33
Alignment explanation
Indices: 15274802--15274872 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
15274792 TGGATCATAT
15274802 TCTCATTAAATGTGACAATACTAGTGCCATCAA
1 TCTCATTAAATGTGACAATACTAGTGCCATCAA
15274835 TCTCATTAAATGTGACAATACTAGTGCCATCAA
1 TCTCATTAAATGTGACAATACTAGTGCCATCAA
15274868 TCTCA
1 TCTCA
15274873 CCAAAAATCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (33 bp):
TCTCATTAAATGTGACAATACTAGTGCCATCAA
Found at i:15282364 original size:21 final size:21
Alignment explanation
Indices: 15282340--15282396 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
15282330 AAAATTTAAG
15282340 CCTGTAAAATAAAACAACAAA
1 CCTGTAAAATAAAACAACAAA
15282361 CCTGTAAAATAAAACAACAAA
1 CCTGTAAAATAAAACAACAAA
*
15282382 CCTGCAAAAGTAAAA
1 CCTGTAAAA-TAAAA
15282397 ATAAAAGCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 29 0.85
22 5 0.15
ACGTcount: A:0.60, C:0.19, G:0.07, T:0.14
Consensus pattern (21 bp):
CCTGTAAAATAAAACAACAAA
Found at i:15282511 original size:14 final size:14
Alignment explanation
Indices: 15282492--15282533 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
15282482 CAGATCAATT
15282492 ATTTCAAGTTTCAA
1 ATTTCAAGTTTCAA
*
15282506 ATTTCAGGTTTCAA
1 ATTTCAAGTTTCAA
*
15282520 ATTTGAAGTTTCAA
1 ATTTCAAGTTTCAA
15282534 CCATTCAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (14 bp):
ATTTCAAGTTTCAA
Found at i:15283028 original size:48 final size:49
Alignment explanation
Indices: 15282928--15283028 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 49
15282918 TTGGATGGGG
15282928 TGGGGAGGATTGGGTGTGGTGGGGCATTAGGGGGAAGGTGGGAAGGGAT
1 TGGGGAGGATTGGGTGTGGTGGGGCATTAGGGGGAAGGTGGGAAGGGAT
* *
15282977 TGGGGAGGGA-TGGGTGTGGTGGGGCGTT-GGGGGAAGGTAGGG-ATGGAT
1 TGGGGA-GGATTGGGTGTGGTGGGGCATTAGGGGGAAGGT-GGGAAGGGAT
15283025 TGGG
1 TGGG
15283029 TGTGGTGGGA
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
48 19 0.40
49 26 0.54
50 3 0.06
ACGTcount: A:0.16, C:0.02, G:0.61, T:0.21
Consensus pattern (49 bp):
TGGGGAGGATTGGGTGTGGTGGGGCATTAGGGGGAAGGTGGGAAGGGAT
Found at i:15283031 original size:38 final size:37
Alignment explanation
Indices: 15282979--15283052 Score: 112
Period size: 38 Copynumber: 2.0 Consensus size: 37
15282969 GAAGGGATTG
*
15282979 GGGAGGGATGGGTGTGGTGGGGCGTTGGGGGAAGGTA
1 GGGAGGGATGGGTGTGGTGGGACGTTGGGGGAAGGTA
* *
15283016 GGGATGGATTGGGTGTGGTGGGATGTTGGGGGAAGGT
1 GGGAGGGA-TGGGTGTGGTGGGACGTTGGGGGAAGGT
15283053 GGACAGGGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 7 0.21
38 26 0.79
ACGTcount: A:0.14, C:0.01, G:0.62, T:0.23
Consensus pattern (37 bp):
GGGAGGGATGGGTGTGGTGGGACGTTGGGGGAAGGTA
Found at i:15283063 original size:38 final size:38
Alignment explanation
Indices: 15282982--15283064 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 38
15282972 GGGATTGGGG
* *
15282982 AGGGA-TGGGTGTGGTGGGGCGTTGGGGGAAGGTAGGG
1 AGGGATTGGGTGTGGTGGGACGTTGGGGGAAGGTAGGC
* *
15283019 ATGGATTGGGTGTGGTGGGATGTTGGGGGAAGGT-GGAC
1 AGGGATTGGGTGTGGTGGGACGTTGGGGGAAGGTAGG-C
15283057 AGGGATTG
1 AGGGATTG
15283065 ATGGGGGTGG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
37 6 0.15
38 33 0.85
ACGTcount: A:0.16, C:0.02, G:0.59, T:0.23
Consensus pattern (38 bp):
AGGGATTGGGTGTGGTGGGACGTTGGGGGAAGGTAGGC
Found at i:15283338 original size:20 final size:20
Alignment explanation
Indices: 15283300--15283337 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15283290 GATTGTGTTA
*
15283300 TATATTAATTTATAATTTTG
1 TATATGAATTTATAATTTTG
15283320 TATATGAATTT-TAATTTT
1 TATATGAATTTATAATTTT
15283338 TTTGTTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TATATGAATTTATAATTTTG
Found at i:15283589 original size:26 final size:26
Alignment explanation
Indices: 15283561--15283609 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
15283551 TAAAAAATAA
*
15283561 AAAATATAGGTTTGAAAA-TTTTATT
1 AAAATATAAGTTTGAAAACTTTTATT
15283586 AAAATATAAGTTTGAAAACTTTTA
1 AAAATATAAGTTTGAAAACTTTTA
15283610 ATTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAATATAAGTTTGAAAACTTTTATT
Found at i:15286994 original size:6 final size:6
Alignment explanation
Indices: 15286985--15287021 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
15286975 TTTAAGTCCA
* *
15286985 GATGAT GATGGT GATGGA GATGGT GATGGT GATGGT G
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT G
15287022 CGAATTTTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.22, C:0.00, G:0.49, T:0.30
Consensus pattern (6 bp):
GATGGT
Found at i:15287011 original size:18 final size:18
Alignment explanation
Indices: 15286984--15287019 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
15286974 GTTTAAGTCC
15286984 AGATGATGATGGTGATGG
1 AGATGATGATGGTGATGG
*
15287002 AGATGGTGATGGTGATGG
1 AGATGATGATGGTGATGG
15287020 TGCGAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.47, T:0.28
Consensus pattern (18 bp):
AGATGATGATGGTGATGG
Found at i:15287388 original size:18 final size:18
Alignment explanation
Indices: 15287365--15287489 Score: 114
Period size: 18 Copynumber: 6.9 Consensus size: 18
15287355 ATGGTTATTA
15287365 TCCACCTCAAATGTATCC
1 TCCACCTCAAATGTATCC
*
15287383 TCCACCTCCTTAAATATATCC
1 TCCACCT-C--AAATGTATCC
*
15287404 TCCACCTCAAATGTATCAG
1 TCCACCTCAAATGTATC-C
* * *
15287423 T-TACCACAAATGTACCC
1 TCCACCTCAAATGTATCC
* *
15287440 TCCACCACAAATGTATCA
1 TCCACCTCAAATGTATCC
*
15287458 T---CCTCAAATATATCC
1 TCCACCTCAAATGTATCC
15287473 TCCACCTCAAATGTATC
1 TCCACCTCAAATGTATC
15287490 AAGAACAAAG
Statistics
Matches: 85, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
15 12 0.14
17 1 0.01
18 53 0.62
19 2 0.02
20 1 0.01
21 16 0.19
ACGTcount: A:0.32, C:0.35, G:0.05, T:0.28
Consensus pattern (18 bp):
TCCACCTCAAATGTATCC
Found at i:15287475 original size:33 final size:34
Alignment explanation
Indices: 15287389--15287490 Score: 134
Period size: 33 Copynumber: 3.0 Consensus size: 34
15287379 ATCCTCCACC
*
15287389 TCCTTAAATATATCCTCCACCTCAAATGTATCAG
1 TCCTCAAATATATCCTCCACCTCAAATGTATCAG
* * * *
15287423 TTACCACAAATGTACCCTCCACCACAAATGTATCA-
1 -T-CCTCAAATATATCCTCCACCTCAAATGTATCAG
15287458 TCCTCAAATATATCCTCCACCTCAAATGTATCA
1 TCCTCAAATATATCCTCCACCTCAAATGTATCA
15287491 AGAACAAAGG
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
33 28 0.49
34 1 0.02
35 1 0.02
36 27 0.47
ACGTcount: A:0.34, C:0.32, G:0.05, T:0.28
Consensus pattern (34 bp):
TCCTCAAATATATCCTCCACCTCAAATGTATCAG
Found at i:15290198 original size:66 final size:66
Alignment explanation
Indices: 15290120--15290246 Score: 191
Period size: 66 Copynumber: 1.9 Consensus size: 66
15290110 TATAAAAAAT
*
15290120 TTATTTGAGATTAGTTAGATATTACTTGATAGATAAAAAAATTTACAAAAGAAAAATTCTATAAA
1 TTATTTGAGATTAGTTAGATATTACTTGATAGATAAAAAAACTTACAAAAGAAAAATTCTATAAA
15290185 C
66 C
* * * * **
15290186 TTATTTGTGATTAGTTATATATTGCTTGATAGATAAAAAAACTTATAGTAGAAAAATTCTA
1 TTATTTGAGATTAGTTAGATATTACTTGATAGATAAAAAAACTTACAAAAGAAAAATTCTA
15290247 AGAAGAATGA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.38
Consensus pattern (66 bp):
TTATTTGAGATTAGTTAGATATTACTTGATAGATAAAAAAACTTACAAAAGAAAAATTCTATAAA
C
Found at i:15293099 original size:19 final size:18
Alignment explanation
Indices: 15293061--15293101 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
15293051 TTTCAAAAAA
* *
15293061 TTTTAAAAATTTTTGAAT
1 TTTTAAAAATCTTTCAAT
15293079 TTTTAAAAATCTTTCAGAT
1 TTTTAAAAATCTTTCA-AT
15293098 TTTT
1 TTTT
15293102 TTAATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (18 bp):
TTTTAAAAATCTTTCAAT
Found at i:15293247 original size:34 final size:35
Alignment explanation
Indices: 15293209--15293277 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
15293199 AGAAAAAATA
*
15293209 ATTTTTATTAAAATTTTC-AT-TTTTTGAATTTTTT
1 ATTTTTATT-AAATTTTCAATATTTTTAAATTTTTT
15293243 ATTTTTATTAAATTTTCAATATTTTTAAATTTTTT
1 ATTTTTATTAAATTTTCAATATTTTTAAATTTTTT
15293278 TAATTATCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 8 0.25
34 11 0.34
35 13 0.41
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (35 bp):
ATTTTTATTAAATTTTCAATATTTTTAAATTTTTT
Found at i:15293268 original size:10 final size:8
Alignment explanation
Indices: 15293250--15293369 Score: 53
Period size: 9 Copynumber: 13.2 Consensus size: 8
15293240 TTTATTTTTA
15293250 TTAAATTT
1 TTAAATTT
*
15293258 TCAATATTT
1 TTAA-ATTT
15293267 TTAAATTTT
1 TTAAA-TTT
*
15293276 TTTAA-TT
1 TTAAATTT
* * *
15293283 ATCATTTT
1 TTAAATTT
15293291 TTATAATTT
1 TTA-AATTT
15293300 TTAAATTTTT
1 TTAAA--TTT
15293310 TTAAATTTT
1 TTAAA-TTT
15293319 TTAGAATTT
1 TTA-AATTT
15293328 TTAAAAATTT
1 TT--AAATTT
15293338 TCTAGAATTT
1 T-TA-AATTT
15293348 CTTAGAAATTT
1 -TT--AAATTT
15293359 TTAAAATTT
1 TT-AAATTT
15293368 TT
1 TT
15293370 TTAGAATTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 27
0.70 0.08 0.22
Matches are distributed among these distances:
7 4 0.05
8 9 0.10
9 42 0.48
10 24 0.27
11 8 0.09
12 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (8 bp):
TTAAATTT
Found at i:15293270 original size:17 final size:15
Alignment explanation
Indices: 15293219--15293275 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 15
15293209 ATTTTTATTA
15293219 AAATTTTCATTTTTT
1 AAATTTTCATTTTTT
* *
15293234 GAATTTTTTATTTTTATT
1 -AAATTTTCA-TTTT-TT
15293252 AAATTTTCAATATTTTT
1 AAATTTTC-AT-TTTTT
15293269 AAATTTT
1 AAATTTT
15293276 TTTAATTATC
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
16 7 0.21
17 20 0.61
18 6 0.18
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (15 bp):
AAATTTTCATTTTTT
Found at i:15293276 original size:9 final size:9
Alignment explanation
Indices: 15293227--15293384 Score: 69
Period size: 10 Copynumber: 17.1 Consensus size: 9
15293217 TAAAATTTTC
*
15293227 ATTTTTTGA
1 ATTTTTTAA
15293236 ATTTTTT-A
1 ATTTTTTAA
*
15293244 TTTTTATTAA
1 ATTTT-TTAA
*
15293254 A--TTTTCA
1 ATTTTTTAA
15293261 ATATTTTTAA
1 AT-TTTTTAA
*
15293271 ATTTTTTTA
1 ATTTTTTAA
* *
15293280 A--TTAT-C
1 ATTTTTTAA
15293286 ATTTTTTATA
1 ATTTTTTA-A
15293296 A-TTTTTAA
1 ATTTTTTAA
15293304 ATTTTTTTAA
1 A-TTTTTTAA
15293314 ATTTTTTAGA
1 ATTTTTTA-A
*
15293324 ATTTTTAAAA
1 ATTTTT-TAA
*
15293334 ATTTTCTAGA
1 ATTTTTTA-A
*
15293344 ATTTCTTAGAA
1 ATTT-TT-TAA
*
15293355 ATTTTTAAA
1 ATTTTTTAA
15293364 ATTTTTTTAGA
1 A-TTTTTTA-A
*
15293375 ATTTTATAA
1 ATTTTTTAA
15293384 A
1 A
15293385 AAATTTTTTA
Statistics
Matches: 114, Mismatches: 17, Indels: 36
0.68 0.10 0.22
Matches are distributed among these distances:
6 1 0.01
7 7 0.06
8 12 0.11
9 35 0.31
10 49 0.43
11 9 0.08
12 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:15293282 original size:26 final size:27
Alignment explanation
Indices: 15293243--15293302 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 27
15293233 TGAATTTTTT
*
15293243 ATTTTTATTAAATTTTCAATATTTTTA-A
1 ATTTTTATTAAATTATC-AT-TTTTTATA
15293271 ATTTTT-TT-AATTATCATTTTTTATA
1 ATTTTTATTAAATTATCATTTTTTATA
15293296 ATTTTTA
1 ATTTTTA
15293303 AATTTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
24 6 0.21
25 9 0.31
26 6 0.21
27 2 0.07
28 6 0.21
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (27 bp):
ATTTTTATTAAATTATCATTTTTTATA
Found at i:15293370 original size:10 final size:10
Alignment explanation
Indices: 15293286--15293521 Score: 87
Period size: 10 Copynumber: 23.7 Consensus size: 10
15293276 TTTAATTATC
*
15293286 ATTTTTTATA
1 ATTTTTTAAA
15293296 A-TTTTT-AA
1 ATTTTTTAAA
*
15293304 ATTTTTTTAA
1 ATTTTTTAAA
*
15293314 ATTTTTTAGA
1 ATTTTTTAAA
*
15293324 ATTTTTAAAA
1 ATTTTTTAAA
* *
15293334 ATTTTCTAGA
1 ATTTTTTAAA
*
15293344 ATTTCTTAGAA
1 ATTTTTTA-AA
15293355 A-TTTTTAAA
1 ATTTTTTAAA
*
15293364 ATTTTTTTAGA
1 A-TTTTTTAAA
*
15293375 ATTTTATAAAAA
1 ATTTT-T-TAAA
*
15293387 ATTTTTT-AG
1 ATTTTTTAAA
* *
15293396 CTTTTCTAGAA
1 ATTTTTTA-AA
**
15293407 ATTTTTTTTA
1 ATTTTTTAAA
**
15293417 AGATTTTAAA
1 ATTTTTTAAA
*
15293427 ATTCTTTT-GA
1 ATT-TTTTAAA
*
15293437 ATTCTTT--A
1 ATTTTTTAAA
15293445 ATTTTTTAAAA
1 ATTTTTT-AAA
***
15293456 AAAATTTATAA
1 ATTTTTTA-AA
* *
15293467 CTTTTTAAAA
1 ATTTTTTAAA
*
15293477 CATTTTTGAAA
1 -ATTTTTTAAA
*
15293488 A-TTTTTAGA
1 ATTTTTTAAA
15293497 ATTTTTT--A
1 ATTTTTTAAA
*
15293505 TTTTTTTAAA
1 ATTTTTTAAA
15293515 ATTTTTT
1 ATTTTTT
15293522 GTGCTGACAT
Statistics
Matches: 161, Mismatches: 47, Indels: 36
0.66 0.19 0.15
Matches are distributed among these distances:
8 16 0.10
9 29 0.18
10 69 0.43
11 40 0.25
12 7 0.04
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.57
Consensus pattern (10 bp):
ATTTTTTAAA
Found at i:15296446 original size:14 final size:14
Alignment explanation
Indices: 15296411--15296453 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
15296401 AAGTTTAATT
*
15296411 TTTTTTATTTAAAA
1 TTTTTTATTTATAA
* *
15296425 ATTATTATTTATAA
1 TTTTTTATTTATAA
15296439 TTTTTTATTATATAA
1 TTTTTTATT-TATAA
15296454 AAATATTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTTTATTTATAA
Found at i:15297946 original size:2 final size:2
Alignment explanation
Indices: 15297941--15297965 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15297931 AATTTACACT
15297941 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 T
15297966 GTATGCTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15301191 original size:296 final size:296
Alignment explanation
Indices: 15300657--15301253 Score: 1149
Period size: 296 Copynumber: 2.0 Consensus size: 296
15300647 CTTTGGAGTA
15300657 CTTTCAGTCAACACATTGTACTTTATCTCTAGGTTTAGTGTCAATGTAATAGTACTAATAGCTTT
1 CTTTCAGTCAACACATTGTACTTTATCTCTAGGTTTAGTGTCAATGTAATAGTACTAATAGCTTT
15300722 GTTTTTTAATTTTATTTCAATTACGGTCAGACATTCCCTCAAGCTTATTACTCTCTAATGCCTAA
66 GTTTTTTAATTTTATTTCAATTACGGTCAGACATTCCCTCAAGCTTATTACTCTCTAATGCCTAA
*
15300787 TCCAATCTTTGTTGTACTAACAGATCTTGAATTACACTTTGATATAACATAAAATTATTCTTTCC
131 TCCAATCCTTGTTGTACTAACAGATCTTGAATTACACTTTGATATAACATAAAATTATTCTTTCC
* *
15300852 ATCAAATAGTAGAATCTTAAACTTGGGCATAGGCATACTAGATATACATTCTTCATACATCTTGA
196 ATCAAATAGTAGAATCTTAAACTTAGGCATAGGCATACTAGATATACATTCTTCATACATATTGA
*
15300917 AATACTTGTTTCACAGTCTCTTAGCCTGCTTTTTTT
261 AATACTTGTTTCACAGTCTCTTAGCCTGCTTCTTTT
15300953 CTTTCAGTCAACACATTGTACTTTATCTCTAGGTTTAGTGTCAATGTAATAGTACTAATAGCTTT
1 CTTTCAGTCAACACATTGTACTTTATCTCTAGGTTTAGTGTCAATGTAATAGTACTAATAGCTTT
15301018 GTTTTTTAATTTTATTTCAATTACGGTCAGACATTCCCTCAAGCTTATTACTCTCTAATGCCTAA
66 GTTTTTTAATTTTATTTCAATTACGGTCAGACATTCCCTCAAGCTTATTACTCTCTAATGCCTAA
*
15301083 TCCAATCCTTGTTGTACTAACAGATCTTGAATTGCACTTTGATATAACATAAAATTATTCTTTCC
131 TCCAATCCTTGTTGTACTAACAGATCTTGAATTACACTTTGATATAACATAAAATTATTCTTTCC
15301148 ATCAAATAGTAGAATCTTAAACTTAGGCATAGGCATACTAGATATACATTCTTCATACATATTGA
196 ATCAAATAGTAGAATCTTAAACTTAGGCATAGGCATACTAGATATACATTCTTCATACATATTGA
15301213 AATACTTGTTTCACAGTCTCTTAGCCTGCTTCTTTT
261 AATACTTGTTTCACAGTCTCTTAGCCTGCTTCTTTT
15301249 CTTTC
1 CTTTC
15301254 GACATTTCAA
Statistics
Matches: 296, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
296 296 1.00
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (296 bp):
CTTTCAGTCAACACATTGTACTTTATCTCTAGGTTTAGTGTCAATGTAATAGTACTAATAGCTTT
GTTTTTTAATTTTATTTCAATTACGGTCAGACATTCCCTCAAGCTTATTACTCTCTAATGCCTAA
TCCAATCCTTGTTGTACTAACAGATCTTGAATTACACTTTGATATAACATAAAATTATTCTTTCC
ATCAAATAGTAGAATCTTAAACTTAGGCATAGGCATACTAGATATACATTCTTCATACATATTGA
AATACTTGTTTCACAGTCTCTTAGCCTGCTTCTTTT
Found at i:15301859 original size:51 final size:51
Alignment explanation
Indices: 15301778--15301880 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
15301768 TTCCACAATA
15301778 TAAGGTAAAAGTTTATTCAAACTAGCTTCTATGTAATGAGATGGTAATGGT
1 TAAGGTAAAAGTTTATTCAAACTAGCTTCTATGTAATGAGATGGTAATGGT
* *
15301829 TAAGGTAAAAGTTTATTCAAACTAGTTTCTATTTAATGAGATGGTAATGGT
1 TAAGGTAAAAGTTTATTCAAACTAGCTTCTATGTAATGAGATGGTAATGGT
15301880 T
1 T
15301881 CCTCGGCCTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.38
Consensus pattern (51 bp):
TAAGGTAAAAGTTTATTCAAACTAGCTTCTATGTAATGAGATGGTAATGGT
Found at i:15305923 original size:2 final size:2
Alignment explanation
Indices: 15305916--15305954 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
15305906 CTTACTTTCT
15305916 TA TA TA TA TA TA TA 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 TA TA TA TA T
15305955 TGAAATTTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15307538 original size:23 final size:23
Alignment explanation
Indices: 15307483--15307539 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
15307473 TAATAATTTA
15307483 AAATGTAAAATAGAAACATGATAT
1 AAAT-TAAAATAGAAACATGATAT
*
15307507 AAATAAAAATAAGAAA-ATGATAT
1 AAATTAAAAT-AGAAACATGATAT
*
15307530 AATTTAAAAT
1 AAATTAAAAT
15307540 TTTATTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 20 0.69
24 9 0.31
ACGTcount: A:0.63, C:0.02, G:0.09, T:0.26
Consensus pattern (23 bp):
AAATTAAAATAGAAACATGATAT
Found at i:15310517 original size:14 final size:14
Alignment explanation
Indices: 15310498--15310532 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
15310488 CATCTGATGT
15310498 AAACAAATAATACA
1 AAACAAATAATACA
*
15310512 AAACAAATCATACA
1 AAACAAATAATACA
15310526 AAACAAA
1 AAACAAA
15310533 AAGTAGACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.71, C:0.17, G:0.00, T:0.11
Consensus pattern (14 bp):
AAACAAATAATACA
Found at i:15312247 original size:19 final size:20
Alignment explanation
Indices: 15312213--15312251 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
15312203 ATGCTTGGTT
15312213 TAGATATGTAAATCATGATTA
1 TAGATATG-AAATCATGATTA
15312234 TAGATATG-AATCATGATT
1 TAGATATGAAATCATGATT
15312252 TCAGTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.38
Consensus pattern (20 bp):
TAGATATGAAATCATGATTA
Found at i:15312419 original size:16 final size:16
Alignment explanation
Indices: 15312398--15312428 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15312388 AGAAGGTATG
*
15312398 GATGTTTTGTAACATA
1 GATGTTCTGTAACATA
15312414 GATGTTCTGTAACAT
1 GATGTTCTGTAACAT
15312429 TTTCATTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (16 bp):
GATGTTCTGTAACATA
Found at i:15312455 original size:53 final size:50
Alignment explanation
Indices: 15312398--15312506 Score: 146
Period size: 50 Copynumber: 2.1 Consensus size: 50
15312388 AGAAGGTATG
* * *
15312398 GATGTTTTGTAACATAGATGTTCTGTAACATTTTCATTCATTTCAGCAACATA
1 GATGTTTTGTAACATAAATGATCAG-AACA-TTT-ATTCATTTCAGCAACATA
* *
15312451 GATGTTTTGTAACATAAATGATGAGAATATTTATTCATTTCAGCAACATA
1 GATGTTTTGTAACATAAATGATCAGAACATTTATTCATTTCAGCAACATA
15312501 GATGTT
1 GATGTT
15312507 CTAAACAGTA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
50 24 0.47
51 3 0.06
52 3 0.06
53 21 0.41
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (50 bp):
GATGTTTTGTAACATAAATGATCAGAACATTTATTCATTTCAGCAACATA
Found at i:15315411 original size:19 final size:19
Alignment explanation
Indices: 15315384--15315420 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15315374 AATCTCAATG
*
15315384 TCAAGCAATATACCAATTA
1 TCAAACAATATACCAATTA
*
15315403 TCAAACAATATATCAATT
1 TCAAACAATATACCAATT
15315421 TTACAAGCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.19, G:0.03, T:0.30
Consensus pattern (19 bp):
TCAAACAATATACCAATTA
Found at i:15323435 original size:21 final size:21
Alignment explanation
Indices: 15323389--15323439 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
15323379 CTTTAAAGGA
15323389 AGGATCGAT-CCTATGCTTAG
1 AGGATCGATCCCTATGCTTAG
15323409 -GTGATCGATCCCCTATG-TTAG
1 AG-GATCGAT-CCCTATGCTTAG
15323430 AGGATCGATC
1 AGGATCGATC
15323440 TTTTTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 8 0.30
21 11 0.41
22 7 0.26
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (21 bp):
AGGATCGATCCCTATGCTTAG
Found at i:15324772 original size:88 final size:90
Alignment explanation
Indices: 15324667--15324834 Score: 277
Period size: 89 Copynumber: 1.9 Consensus size: 90
15324657 GTAATGTTTC
* *
15324667 TAAAAAAATTCAAAATCCTAAAATTTAAAAAATCTACTATG-TTTTTTCTTTTAAAAATATTGTT
1 TAAAAAAATTCAAAATCCTAAAATTTAAAAAATCTACTATGTTTTTTTCTTTAAAAAATATTATT
15324731 TTTATTATAATTAATCTACTATGTG
66 TTTATTATAATTAATCTACTATGTG
* *
15324756 TAAAAAAA-TCAAAATCCTAAATTTTAAAAAATCTATTATGTTTTTTTCTTTAAAAAATATTATT
1 TAAAAAAATTCAAAATCCTAAAATTTAAAAAATCTACTATGTTTTTTTCTTTAAAAAATATTATT
*
15324820 TTTATTGTAATTAAT
66 TTTATTATAATTAAT
15324835 ATATTACGTG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
88 30 0.41
89 43 0.59
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.46
Consensus pattern (90 bp):
TAAAAAAATTCAAAATCCTAAAATTTAAAAAATCTACTATGTTTTTTTCTTTAAAAAATATTATT
TTTATTATAATTAATCTACTATGTG
Found at i:15326566 original size:14 final size:15
Alignment explanation
Indices: 15326547--15326580 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
15326537 TACTTATTAC
15326547 TAATTAACACA-ATA
1 TAATTAACACATATA
*
15326561 TAATTAATACATATA
1 TAATTAACACATATA
15326576 TAATT
1 TAATT
15326581 TATTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (15 bp):
TAATTAACACATATA
Found at i:15326678 original size:19 final size:18
Alignment explanation
Indices: 15326644--15326708 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 18
15326634 TGATATGTTA
15326644 ATATAAATATACACGAATAG
1 ATAT-AATA-ACACGAATAG
*
15326664 ATATAATTAACACGAATAT
1 ATATAA-TAACACGAATAG
*
15326683 ATATAAAAACACGAATA-
1 ATATAATAACACGAATAG
*
15326700 AAATAATAA
1 ATATAATAA
15326709 ATAATTATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
17 7 0.17
18 10 0.25
19 17 0.43
20 6 0.15
ACGTcount: A:0.60, C:0.09, G:0.06, T:0.25
Consensus pattern (18 bp):
ATATAATAACACGAATAG
Found at i:15326820 original size:11 final size:11
Alignment explanation
Indices: 15326806--15326831 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15326796 TTTAATACTC
15326806 ATTTAATATAT
1 ATTTAATATAT
15326817 ATTTAATATAT
1 ATTTAATATAT
15326828 ATTT
1 ATTT
15326832 TTTAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
ATTTAATATAT
Found at i:15332412 original size:21 final size:21
Alignment explanation
Indices: 15332388--15332431 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
15332378 CTTAAACTAT
*
15332388 CATGAAACCATAGTAAAATAA
1 CATGAAACCAAAGTAAAATAA
* *
15332409 CATGAAACTAAATTAAAATAA
1 CATGAAACCAAAGTAAAATAA
15332430 CA
1 CA
15332432 AGCAAATAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.20
Consensus pattern (21 bp):
CATGAAACCAAAGTAAAATAA
Found at i:15333434 original size:23 final size:23
Alignment explanation
Indices: 15333408--15333463 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
15333398 CCCTCATTTT
*
15333408 ACCAAAATGATATACAATTTGGA
1 ACCAAAATGACATACAATTTGGA
*
15333431 ACCAAAATGCCATACAATTTGGA
1 ACCAAAATGACATACAATTTGGA
15333454 ACCAAAATGA
1 ACCAAAATGA
15333464 GCCTTTTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.21
Consensus pattern (23 bp):
ACCAAAATGACATACAATTTGGA
Found at i:15333635 original size:12 final size:13
Alignment explanation
Indices: 15333610--15333644 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
15333600 TAAATAAAAC
15333610 AACAAAAACAGAA
1 AACAAAAACAGAA
*
15333623 AACAAAAA-TGAA
1 AACAAAAACAGAA
15333635 AACAAAAACA
1 AACAAAAACA
15333645 AATAGAAGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.77, C:0.14, G:0.06, T:0.03
Consensus pattern (13 bp):
AACAAAAACAGAA
Found at i:15335560 original size:133 final size:125
Alignment explanation
Indices: 15335271--15335611 Score: 355
Period size: 133 Copynumber: 2.6 Consensus size: 125
15335261 CAAAAACAAA
* * * * *
15335271 AAAAATAGACATTCACATTTGCATTACTAGCATCTGCATCACAAAA-AAAGACATTCACATTTGC
1 AAAAA-AGACATTTAAATTTGCATCACTTGCATCTGCAT-A-AAAAGAAAGACATTCGCATTTGC
* * * **
15335335 ATCACTTGCATT-CACTTGCATGTGCATCATGAAAAAGACATTTGCATTTAGCTCTATGTCAC
63 ATCACTTGCATTGCACTTGCATGAGCATCATGAAAAAGACATTTGCATTCAGCTATACATCAC
** * ** * *
15335397 AAAAAAGACATTTGCATTTGCGTCGTTTGCATTTGCATAAAAAAAAAGAACAAGGGCATTCGCAT
1 AAAAAAGACATTTAAATTTGCATCACTTGCATCTGCAT----AAAAAG-A-AA-GACATTCGCAT
*
15335462 TTGCATCACTTGCATTCGCACTTGCATGAGCATCATGAGAAAGACATTTGCATTCA-CATATACA
59 TTGCATCACTTGCATT-GCACTTGCATGAGCATCATGAAAAAGACATTTGCATTCAGC-TATACA
*
15335526 TCAT
122 TCAC
* *
15335530 AAAAAAGACATTTAAATTTGCATCACTTGCATCTGCATCATAAGAAAGACATTCGCATTTGCATC
1 AAAAAAGACATTTAAATTTGCATCACTTGCATCTGCATAAAAAGAAAGACATTCGCATTTGCATC
15335595 ACTTGCATTTGCACTTG
66 ACTTGCA-TTGCACTTG
15335612 TAGAAGACAT
Statistics
Matches: 177, Mismatches: 27, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
125 25 0.14
126 36 0.20
127 8 0.05
128 2 0.01
129 5 0.03
130 2 0.01
131 25 0.14
132 1 0.01
133 73 0.41
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (125 bp):
AAAAAAGACATTTAAATTTGCATCACTTGCATCTGCATAAAAAGAAAGACATTCGCATTTGCATC
ACTTGCATTGCACTTGCATGAGCATCATGAAAAAGACATTTGCATTCAGCTATACATCAC
Found at i:15335630 original size:40 final size:41
Alignment explanation
Indices: 15335524--15335632 Score: 132
Period size: 41 Copynumber: 2.7 Consensus size: 41
15335514 TTCACATATA
* **
15335524 CATCATAAAAAAGACATTTAAATTTGCATCACTTGCATCTG
1 CATCATAAGAAAGACATTTGCATTTGCATCACTTGCATCTG
* *
15335565 CATCATAAGAAAGACATTCGCATTTGCATCACTTGCATTTG
1 CATCATAAGAAAGACATTTGCATTTGCATCACTTGCATCTG
* *
15335606 CA-CTTGTAG-AAGACATTTGCATTTGCA
1 CATCAT-AAGAAAGACATTTGCATTTGCA
15335633 CCATGAGAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
40 19 0.32
41 40 0.68
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (41 bp):
CATCATAAGAAAGACATTTGCATTTGCATCACTTGCATCTG
Found at i:15335664 original size:26 final size:26
Alignment explanation
Indices: 15335597--15335656 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
15335587 TTTGCATCAC
* *
15335597 TTGCATTTGCA-CTTGTAG-AAGACAT
1 TTGCATTTGCACCATG-AGAAAGAAAT
15335622 TTGCATTTGCACCATGAGAAAGAAAT
1 TTGCATTTGCACCATGAGAAAGAAAT
15335648 TTGCATTTG
1 TTGCATTTG
15335657 TATCATGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 13 0.42
26 18 0.58
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (26 bp):
TTGCATTTGCACCATGAGAAAGAAAT
Found at i:15335806 original size:18 final size:18
Alignment explanation
Indices: 15335771--15335820 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
15335761 ATTCGCATCC
* **
15335771 TTGCATTTGCATTGACAT
1 TTGCATTAGCATCAACAT
*
15335789 TTGCATTCGCATCAACAT
1 TTGCATTAGCATCAACAT
*
15335807 TTCCATTAGCATCA
1 TTGCATTAGCATCA
15335821 TGTGATGAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (18 bp):
TTGCATTAGCATCAACAT
Found at i:15336321 original size:65 final size:65
Alignment explanation
Indices: 15336238--15336377 Score: 203
Period size: 65 Copynumber: 2.2 Consensus size: 65
15336228 CATAATTTCC
*
15336238 AAGACCTCCGAGCAAAGCATTTTAAATTTTTAAAGTTTTAACACCTCTATTAC-AAGCAGCATTC
1 AAGACCTCCGAGCAAAGCATTTTAAATTTTTAAAGTTTCAACACCTCTATTACGAAG-AGCATTC
15336302 A
65 A
* ** *
15336303 AAGACCTCC-AGGCAAAGCATTTTAAATTTTTAGAGTTTCAATGCTTCTATTACGAAGAGCATTC
1 AAGACCTCCGA-GCAAAGCATTTTAAATTTTTAAAGTTTCAACACCTCTATTACGAAGAGCATTC
15336367 A
65 A
15336368 AAGACCTCCG
1 AAGACCTCCG
15336378 CACATAATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
64 1 0.01
65 63 0.94
66 3 0.04
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (65 bp):
AAGACCTCCGAGCAAAGCATTTTAAATTTTTAAAGTTTCAACACCTCTATTACGAAGAGCATTCA
Found at i:15336395 original size:22 final size:21
Alignment explanation
Indices: 15336364--15336418 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
15336354 ACGAAGAGCA
*
15336364 TTCAAAGACCTCCGCACATAAT
1 TTCAAAGACCTCAG-ACATAAT
*
15336386 TTTAAAGACCTTCAGACATAAT
1 TTCAAAGACC-TCAGACATAAT
*
15336408 TTCCAAGACCT
1 TTCAAAGACCT
15336419 TTGGGCAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.04
22 24 0.86
23 3 0.11
ACGTcount: A:0.36, C:0.27, G:0.09, T:0.27
Consensus pattern (21 bp):
TTCAAAGACCTCAGACATAAT
Found at i:15336565 original size:87 final size:87
Alignment explanation
Indices: 15336097--15336567 Score: 324
Period size: 87 Copynumber: 5.4 Consensus size: 87
15336087 AACCAAATAC
* ** * * *
15336097 GTTTCAACGTCTCTATTAGAAAAGAGCATTCAAAGACCTCC-GAGCAAAATTTCCAAGACATCCA
1 GTTTCAACGCCTCTATTA-CTAAGAGCATTCAAAGACCTCCAGA-CATAATTTCCAAGACCTCTA
* *
15336161 AGCAAAACATTTTAAATTTTTAAA
64 GGCAAAGCATTTTAAATTTTTAAA
* * * *
15336185 GTTTCAATGCCTCTATTA-TGAGGAGCATTCAAAGACCTCCGGACATAATTTCCAAGACCTC-CG
1 GTTTCAACGCCTCTATTACT-AAGAGCATTCAAAGACCTCCAGACATAATTTCCAAGACCTCTAG
15336248 AGCAAAGCATTTTAAATTTTTAAA
65 -GCAAAGCATTTTAAATTTTTAAA
* * * * * ** *
15336272 GTTTTAACACCTCTATTAC-AAGCAGCATTCAAAGACCTCCAGGCAAAGCATTT-TAA-ATTTTT
1 GTTTCAACGCCTCTATTACTAAG-AGCATTCAAAGACCTCCAGACATA--ATTTCCAAGACCTCT
* * ***
15336334 AGAGTTTCAATGC-TTCT--ATTACGAAGA
63 AG-G---CAAAGCATTTTAAATTTTTAA-A
* * *** * * * *
15336361 GCATTCAAAGACCTC-CGCAC-ATA-A--TTTTAAAGACCTTCAGACATAATTTCCAAGACCTTT
1 G-TTTCAACG-CCTCTATTACTA-AGAGCATTCAAAGACCTCCAGACATAATTTCCAAGACCTCT
*
15336421 GGGCAAAGCATTTTAAATTTTTAAA
63 AGGCAAAGCATTTTAAATTTTTAAA
* * * * *
15336446 GTTTCAACACCTCTTTTA-TAGGAAGCAATCAAAGACCTCCAGACATAATTTCCAAGAGCTCTAG
1 GTTTCAACGCCTCTATTACTAAG-AGCATTCAAAGACCTCCAGACATAATTTCCAAGACCTCTAG
*
15336510 GCAAAACATTTTAAATTTTTAAA
65 GCAAAGCATTTTAAATTTTTAAA
15336533 GTTTCAACGCCTCTATTACTAAGAGCATTCAAAGA
1 GTTTCAACGCCTCTATTACTAAGAGCATTCAAAGA
15336568 TTTTTAAGAT
Statistics
Matches: 290, Mismatches: 66, Indels: 55
0.71 0.16 0.13
Matches are distributed among these distances:
83 9 0.03
84 10 0.03
85 7 0.02
86 10 0.03
87 196 0.68
88 31 0.11
89 7 0.02
90 10 0.03
91 10 0.03
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (87 bp):
GTTTCAACGCCTCTATTACTAAGAGCATTCAAAGACCTCCAGACATAATTTCCAAGACCTCTAGG
CAAAGCATTTTAAATTTTTAAA
Found at i:15336705 original size:127 final size:127
Alignment explanation
Indices: 15336474--15336708 Score: 339
Period size: 127 Copynumber: 1.9 Consensus size: 127
15336464 TAGGAAGCAA
* * * *
15336474 TCAAAGACCTCCAGACATAATTTCCAAGAGCTCTAGGCAAAACATTTTAAATTTTTAAAGTTTCA
1 TCAAAGACCTCCAAACATAATTTCCAAGACCTCGAGGCAAAACATTTTAAATTTTCAAAGTTTCA
*
15336539 ACGCCTCTATTACTAAGAGCATTCAAAGATTTTTAAGATTTGTGAGGCCTCCGCGCATAATC
66 ACACCTCTATTACTAAGAGCATTCAAAGATTTTTAAGATTTGTGAGGCCTCCGCGCATAATC
* * *
15336601 TCAAAGACCTCCAAATATAATTTCCAATACCTCCGA-GCAAAATATTTTAAATTTTCAAAGTTTC
1 TCAAAGACCTCCAAACATAATTTCCAAGACCT-CGAGGCAAAACATTTTAAATTTTCAAAGTTTC
* * *
15336665 AACACCTCTATTA-TGATGAGTATTCAAAGATTTTTTAGATTTGT
65 AACACCTCTATTACT-AAGAGCATTCAAAGATTTTTAAGATTTGT
15336709 AAGTCTTCAA
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
126 1 0.01
127 92 0.97
128 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.34
Consensus pattern (127 bp):
TCAAAGACCTCCAAACATAATTTCCAAGACCTCGAGGCAAAACATTTTAAATTTTCAAAGTTTCA
ACACCTCTATTACTAAGAGCATTCAAAGATTTTTAAGATTTGTGAGGCCTCCGCGCATAATC
Found at i:15337668 original size:146 final size:145
Alignment explanation
Indices: 15337362--15337762 Score: 477
Period size: 146 Copynumber: 2.7 Consensus size: 145
15337352 AAGAAGTGCA
* * ** * *
15337362 AAATTAACCAATATACCCTTATAAGTGTATTTTTGTAATACGGCCTTCCCAAGCTTGAAATTTT-
1 AAATT-ACCAAAATACCCCTATAAGTGTATTTTTGTAATTTGACCTTCCCAAGCTCG-AATTTTC
* *
15337426 ATGAAACTTTTTCAAAACCTTAGATTTCATAATATTT-ATGATTTTTAATGCATTTGAAATCACA
64 ATGAAAC-TTTTC-AAATCTTA-ATTTTATAATATTTCATGATTTTTAATGCATTTGAAATCACA
15337490 GCAGTACCCCGAAAAATGTG
126 GCAGTACCCCGAAAAATGTG
* *
15337510 AAATTACCAAAATACCCCTATAAGTGTATTTTTGTAATTTAACCTTCCCAAACTCGAATTTTCAT
1 AAATTACCAAAATACCCCTATAAGTGTATTTTTGTAATTTGACCTTCCCAAGCTCGAATTTTCAT
* * * * *
15337575 GAAACTTTTCATATCTTAATTTTATAATATTTTCACGATTTTTAGTGCATTTGAACTCATAGCAG
66 GAAACTTTTCAAATCTTAATTTTATAATA-TTTCATGATTTTTAATGCATTTGAAATCACAGCAG
* *
15337640 TACCCCGAGAAATTTG
130 TACCCCGAAAAATGTG
* * * * * * *
15337656 AGATTACTAAAATACCCCAATAGGAGTATTTTCGTAATTTGACTTTCCCAAGCTC-AGATTTTCA
1 AAATTACCAAAATACCCCTATAAGTGTATTTTTGTAATTTGACCTTCCCAAGCTCGA-ATTTTCA
*
15337720 TGAAACTTTTCAGAT-TTCAATTTTATAATATTTCATGATTTTT
65 TGAAACTTTTCAAATCTT-AATTTTATAATATTTCATGATTTTT
15337763 GATGTTTTAA
Statistics
Matches: 220, Mismatches: 28, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
144 10 0.05
145 24 0.11
146 131 0.60
147 50 0.23
148 5 0.02
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.39
Consensus pattern (145 bp):
AAATTACCAAAATACCCCTATAAGTGTATTTTTGTAATTTGACCTTCCCAAGCTCGAATTTTCAT
GAAACTTTTCAAATCTTAATTTTATAATATTTCATGATTTTTAATGCATTTGAAATCACAGCAGT
ACCCCGAAAAATGTG
Found at i:15338797 original size:21 final size:21
Alignment explanation
Indices: 15338773--15338825 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
15338763 ACTATTTACT
15338773 TGTTATTTTAATTTAGTTTCA
1 TGTTATTTTAATTTAGTTTCA
* *
15338794 TGTTATTTTACTTTGGTTTCA
1 TGTTATTTTAATTTAGTTTCA
* *
15338815 TGATAGTTTAA
1 TGTTATTTTAA
15338826 GACCTTCCCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.06, G:0.13, T:0.58
Consensus pattern (21 bp):
TGTTATTTTAATTTAGTTTCA
Found at i:15340537 original size:15 final size:15
Alignment explanation
Indices: 15340517--15340549 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
15340507 TGAACTCATG
15340517 GAAGTAGATGTTCTT
1 GAAGTAGATGTTCTT
15340532 GAAGTAGATGTTCTT
1 GAAGTAGATGTTCTT
15340547 GAA
1 GAA
15340550 TCTCTTATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.36
Consensus pattern (15 bp):
GAAGTAGATGTTCTT
Found at i:15344694 original size:19 final size:19
Alignment explanation
Indices: 15344657--15344699 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
15344647 ACTCGTCAGC
*
15344657 TTAATCAAATTTTTATATT
1 TTAATCAAATTTTAATATT
15344676 TTAAT-AAATTTTAATTATT
1 TTAATCAAATTTTAA-TATT
15344695 TTAAT
1 TTAAT
15344700 TAATAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
TTAATCAAATTTTAATATT
Found at i:15351324 original size:17 final size:17
Alignment explanation
Indices: 15351299--15351333 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
15351289 ACATGTCTAT
15351299 TTTCATAAAAACCTAAA
1 TTTCATAAAAACCTAAA
* *
15351316 TTTCTTAAAACCCTAAA
1 TTTCATAAAAACCTAAA
15351333 T
1 T
15351334 CTTAAATTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (17 bp):
TTTCATAAAAACCTAAA
Found at i:15355800 original size:12 final size:12
Alignment explanation
Indices: 15355785--15355819 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
15355775 TAAAATTTAC
15355785 AAAAA-AAAAAA
1 AAAAAGAAAAAA
*
15355796 AAAAAGAAAAAG
1 AAAAAGAAAAAA
15355808 AAAAAGAAAAAA
1 AAAAAGAAAAAA
15355820 TAGTGGAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:15357066 original size:19 final size:20
Alignment explanation
Indices: 15357038--15357078 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
15357028 AAAAACTAAA
* *
15357038 AATATTTAAAAT-TTTTTTT
1 AATATCTAAAATATTATTTT
15357057 AATATCTAAAATATTATTTT
1 AATATCTAAAATATTATTTT
15357077 AA
1 AA
15357079 ATAATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
AATATCTAAAATATTATTTT
Found at i:15357095 original size:31 final size:32
Alignment explanation
Indices: 15357034--15357103 Score: 76
Period size: 31 Copynumber: 2.2 Consensus size: 32
15357024 TTTCAAAAAC
* *
15357034 TAAAAATA-TTTAAAATTTTTTTTAATATCTA
1 TAAAATTATTTTAAAAATTTTTTTAATATCTA
15357065 -AAATATTATTTTAAATAATTTTTTT-A-ATCTA
1 TAAA-ATTATTTTAAA-AATTTTTTTAATATCTA
15357096 TAAAATTA
1 TAAAATTA
15357104 ATAAATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
30 3 0.09
31 12 0.36
32 10 0.30
33 8 0.24
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (32 bp):
TAAAATTATTTTAAAAATTTTTTTAATATCTA
Found at i:15357368 original size:17 final size:17
Alignment explanation
Indices: 15357354--15357389 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
15357344 TTATTTATTT
15357354 TAAATA-ATAATTTATA
1 TAAATATATAATTTATA
15357370 TAAATATATAA-TTATA
1 TAAATATATAATTTATA
15357386 TAAA
1 TAAA
15357390 AATAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATATATAATTTATA
Found at i:15357375 original size:16 final size:15
Alignment explanation
Indices: 15357354--15357394 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
15357344 TTATTTATTT
15357354 TAAATAATAATTTATA
1 TAAATAATAA-TTATA
15357370 TAAATATATAATTATA
1 TAAATA-ATAATTATA
15357386 TAAA-AATAA
1 TAAATAATAA
15357395 ATAAAATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.17
15 1 0.04
16 15 0.62
17 4 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAAATAATAATTATA
Found at i:15357567 original size:18 final size:18
Alignment explanation
Indices: 15357536--15357577 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
15357526 TTTAACTCTT
*
15357536 TTTA-TTAATCAAATAAA
1 TTTATTTAATAAAATAAA
*
15357553 TTTATTTAATAAAATATA
1 TTTATTTAATAAAATAAA
15357571 TTTATTT
1 TTTATTT
15357578 TGATTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTATTTAATAAAATAAA
Found at i:15366433 original size:16 final size:16
Alignment explanation
Indices: 15366396--15366444 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
15366386 TTACTAACTT
* *
15366396 TAAAATGATTTGAATT
1 TAAAATAATTTGAATC
* *
15366412 TCAAATTATTTGAATC
1 TAAAATAATTTGAATC
*
15366428 TAAAATAATTTAAATC
1 TAAAATAATTTGAATC
15366444 T
1 T
15366445 TTGTCTAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (16 bp):
TAAAATAATTTGAATC
Found at i:15371285 original size:23 final size:23
Alignment explanation
Indices: 15371259--15371304 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
15371249 ACCTCAGAAT
15371259 GTATAAAATTACCAAAATACCAC
1 GTATAAAATTACCAAAATACCAC
* *
15371282 GTATGAAATTACCAATATACCAC
1 GTATAAAATTACCAAAATACCAC
15371305 TTAGGGGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.48, C:0.22, G:0.07, T:0.24
Consensus pattern (23 bp):
GTATAAAATTACCAAAATACCAC
Found at i:15382499 original size:5 final size:5
Alignment explanation
Indices: 15382489--15382522 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
15382479 CCATCCCAAT
*
15382489 TTTCC TTTCC TTTCC TTTCC TTTCC TTTCG TTTC
1 TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC TTTC
15382523 TTGGAGGCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.35, G:0.03, T:0.62
Consensus pattern (5 bp):
TTTCC
Found at i:15386102 original size:2 final size:2
Alignment explanation
Indices: 15386095--15386123 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15386085 TGCATAGGTA
15386095 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
15386124 GCTTCTGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:15395190 original size:102 final size:101
Alignment explanation
Indices: 15395104--15395293 Score: 222
Period size: 102 Copynumber: 1.9 Consensus size: 101
15395094 GACAAATAAT
* * *
15395104 ATTGTATAAACTTCATTTT-AACAAGC-ATATAATTTGGTTACAAAAAGTTTTACATAACAATAT
1 ATTGTATAAACTT--TTTTCAACAA-CTATAAAATTTAGTTACAAAAAATTTTACATAACAATAT
* * * **
15395167 TATTTTGGTTATATAAAAAATTTTGTAACGGTTACACGTC
63 TATTGTGGTTACATAAAAAATTTTGCAACGG-TACAAATC
* *
15395207 ATTGTTTTAACTTTTTTCAACAACTATAAAATTTAGTTACAAAAAATTTTACATAACAATATTAT
1 ATTGTATAAACTTTTTTCAACAACTATAAAATTTAGTTACAAAAAATTTTACATAACAATATTAT
* *
15395272 TGTGGTTACATAACATATTTTG
66 TGTGGTTACATAAAAAATTTTG
15395294 TAATGATTAA
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
101 5 0.07
102 60 0.79
103 11 0.14
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.42
Consensus pattern (101 bp):
ATTGTATAAACTTTTTTCAACAACTATAAAATTTAGTTACAAAAAATTTTACATAACAATATTAT
TGTGGTTACATAAAAAATTTTGCAACGGTACAAATC
Found at i:15395283 original size:22 final size:20
Alignment explanation
Indices: 15395255--15395294 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
15395245 ACAAAAAATT
15395255 TTACATAACAATATTATTGTGG
1 TTACATAAC-ATATT-TTGTGG
15395277 TTACATAACATATTTTGT
1 TTACATAACATATTTTGT
15395295 AATGATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 5 0.28
22 9 0.50
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (20 bp):
TTACATAACATATTTTGTGG
Found at i:15397659 original size:25 final size:25
Alignment explanation
Indices: 15397606--15397659 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
15397596 TTAATATAAC
*
15397606 TATTAAAATATTTAAAATTATTTAT
1 TATTAAAATATTTAAAATTATTTAA
*
15397631 TATTAAAGTATATTAAAATTA-TTAA
1 TATTAAAATAT-TTAAAATTATTTAA
15397656 TATT
1 TATT
15397660 CAAGAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
TATTAAAATATTTAAAATTATTTAA
Found at i:15397671 original size:26 final size:27
Alignment explanation
Indices: 15397612--15397671 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
15397602 TAACTATTAA
* *
15397612 AATATTTAAAATTATTTATTATTAAAG
1 AATAATTAAAATTATTTAATATTAAAG
* *
15397639 TAT-ATTAAAATTA-TTAATATTCAAG
1 AATAATTAAAATTATTTAATATTAAAG
15397664 AATAATTA
1 AATAATTA
15397672 TATTTTAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
25 12 0.44
26 13 0.48
27 2 0.07
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (27 bp):
AATAATTAAAATTATTTAATATTAAAG
Found at i:15397711 original size:19 final size:18
Alignment explanation
Indices: 15397640--15397718 Score: 53
Period size: 18 Copynumber: 4.5 Consensus size: 18
15397630 TTATTAAAGT
15397640 ATATTAAAAT--TA-TTA
1 ATATTAAAATAATATTTA
*
15397655 ATATTCAAGAATAAT-TAT-
1 ATATT-AA-AATAATATTTA
*
15397673 ATTTTAATAATAATATTTA
1 ATATTAA-AATAATATTTA
*
15397692 ATATTAAAATATTATATTA
1 ATATTAAAATAATAT-TTA
15397711 ATA-TAAAA
1 ATATTAAAA
15397719 CATTTAAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
15 5 0.10
16 2 0.04
17 11 0.22
18 18 0.36
19 14 0.28
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (18 bp):
ATATTAAAATAATATTTA
Found at i:15397836 original size:21 final size:21
Alignment explanation
Indices: 15397809--15397859 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
15397799 ATTTTTATTA
15397809 ATATTAAAATAGTAATA-TTT
1 ATATTAAAATAGTAATATTTT
* *
15397829 ATTATTAAAATATTTATATTTT
1 A-TATTAAAATAGTAATATTTT
15397851 ATATTAAAA
1 ATATTAAAA
15397860 GTATCTATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 1 0.04
21 22 0.81
22 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
ATATTAAAATAGTAATATTTT
Found at i:15397837 original size:44 final size:46
Alignment explanation
Indices: 15397764--15397852 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 46
15397754 AATATTTCAA
* *
15397764 AATATTTAAAATAGTATTAATATTCTTAAAATA-TTAT-TTTTATT
1 AATATTTAAAATAGTAATAATATTATTAAAATATTTATATTTTATT
*
15397808 AATA-TTAAAATAGTAATATTTATTATTAAAATATTTATATTTTAT
1 AATATTTAAAATAGTAATA-ATATTATTAAAATATTTATATTTTAT
15397853 ATTAAAAGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
43 13 0.33
44 16 0.41
45 4 0.10
46 6 0.15
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (46 bp):
AATATTTAAAATAGTAATAATATTATTAAAATATTTATATTTTATT
Found at i:15398043 original size:39 final size:39
Alignment explanation
Indices: 15398000--15398097 Score: 90
Period size: 42 Copynumber: 2.4 Consensus size: 39
15397990 AAAATATCCA
* *
15398000 TATTAAGAAAATAATATTATTGTATTTTTTAACATTAAT
1 TATTAAGAAAATAATATTATTATATATTTTAACATTAAT
** *
15398039 TATT-AGAATAATAAAAATATTATTATATATTTTATTATTTAT
1 TATTAAGAA-AAT---AATATTATTATATATTTTAACATTAAT
* *
15398081 TATTAACATAATAATAT
1 TATTAAGAAAATAATAT
15398098 AGTACAATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
38 4 0.09
39 12 0.26
42 29 0.62
43 2 0.04
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (39 bp):
TATTAAGAAAATAATATTATTATATATTTTAACATTAAT
Found at i:15398072 original size:42 final size:42
Alignment explanation
Indices: 15398012--15398094 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
15398002 TTAAGAAAAT
* *
15398012 AATATTATTGTATTTTTTAACATTAATTATTAGA-ATAATAAA
1 AATATTATTATATATTTTAACATTAATTATTA-ACATAATAAA
** *
15398054 AATATTATTATATATTTTATTATTTATTATTAACATAATAA
1 AATATTATTATATATTTTAACATTAATTATTAACATAATAA
15398095 TATAGTACAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 1 0.03
42 34 0.97
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (42 bp):
AATATTATTATATATTTTAACATTAATTATTAACATAATAAA
Found at i:15398197 original size:17 final size:17
Alignment explanation
Indices: 15398175--15398211 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
15398165 AATTGAAATA
15398175 TAAAAATACTTTAATGT
1 TAAAAATACTTTAATGT
15398192 TAAAAATACTTTAATGT
1 TAAAAATACTTTAATGT
15398209 TAA
1 TAA
15398212 TTTTTTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (17 bp):
TAAAAATACTTTAATGT
Found at i:15402456 original size:41 final size:44
Alignment explanation
Indices: 15402409--15402491 Score: 118
Period size: 41 Copynumber: 2.0 Consensus size: 44
15402399 TGAAAAATTA
15402409 TTACAAATAAAAT-AAATTTTT-ATAACAA-TTTTTTGTTGTCG
1 TTACAAATAAAATAAAATTTTTCATAACAATTTTTTTGTTGTCG
** *
15402450 TTACAAATATTATAAAATTTTTCGTAACAATTTTTTTGTTGT
1 TTACAAATAAAATAAAATTTTTCATAACAATTTTTTTGTTGT
15402492 TATATAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 11 0.31
42 8 0.22
43 6 0.17
44 11 0.31
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.49
Consensus pattern (44 bp):
TTACAAATAAAATAAAATTTTTCATAACAATTTTTTTGTTGTCG
Found at i:15402509 original size:43 final size:42
Alignment explanation
Indices: 15402408--15402509 Score: 111
Period size: 44 Copynumber: 2.4 Consensus size: 42
15402398 TTGAAAAATT
**
15402408 ATTACAAATAAAAT-AAATTTTTATAACAATTTTTTGTTGTC
1 ATTACAAATATTATAAAATTTTTATAACAATTTTTTGTTGTC
* * *
15402449 GTTACAAATATTATAAAATTTTTCGTAACAATTTTTTTGTTGTT
1 ATTACAAATATTATAAAATTTTT-ATAACAA-TTTTTTGTTGTC
15402493 ATATA-AAATATT-TAAAA
1 AT-TACAAATATTATAAAA
15402510 AATAACTTAG
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
41 11 0.22
42 8 0.16
43 11 0.22
44 19 0.37
45 2 0.04
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (42 bp):
ATTACAAATATTATAAAATTTTTATAACAATTTTTTGTTGTC
Found at i:15402573 original size:131 final size:131
Alignment explanation
Indices: 15402188--15403757 Score: 1311
Period size: 130 Copynumber: 12.0 Consensus size: 131
15402178 TTTTTTATTT
* * * *
15402188 TTACAAATATGATAACAATTTTTAGT---AA-TTTTTTGTCATTATATAAAATA-TTAACAAATT
1 TTACAAATATTATAA-AATTTTTCGTAACAATTTTTTTGTCATTGTATAAAATATTTAA-AAAAT
* * * * * * * * *
15402248 AAATTAAGTAACGATATTGAAAAATTATTACAAATAAAATAAGTTTTCACAACAACTTTTTATTA
64 AACTTAAGCAACAACATTGAAAAATTATTGCAAATAAAACAAGTTTTTACAACAACTTTTTGTTG
*
15402313 TTG
129 TCG
* * * * * *
15402316 TTACAAATGTTATGAAATTTTTCATAACAACTTTTTTTTGTCGTTATATAAAATATTAAAAAAAA
1 TTACAAATATTATAAAATTTTTCGTAACAA--TTTTTTTGTCATTGTATAAAATATT-TAAAAAA
** * * * * * *
15402381 TAA-TCTAAGCAATGATATTGAAAAATTATTACAAATAAAATAAATTTTTATAACAATTTTTTGT
63 TAACT-TAAGCAACAACATTGAAAAATTATTGCAAATAAAACAAGTTTTTACAACAACTTTTTGT
15402445 TGTCG
127 TGTCG
** *
15402450 TTACAAATATTATAAAATTTTTCGTAACAATTTTTTTGTTGTTATATAAAATATTTAAAAAATAA
1 TTACAAATATTATAAAATTTTTCGTAACAATTTTTTTGTCATTGTATAAAATATTTAAAAAATAA
* * * * *
15402515 CTTAGGCAACAACATTGATAAATTATTGCAAATAAAACAAGTTTTTGCATCAACTTTTTGTTGTT
66 CTTAAGCAACAACATTGAAAAATTATTGCAAATAAAACAAGTTTTTACAACAACTTTTTGTTGTC
15402580 G
131 G
* * * ** * *
15402581 TAACAAATATTAT--AATTTTTTGTAACAACTTTATTTGTTGTTATATAAAATATTAAAAAAATA
1 TTACAAATATTATAAAATTTTTCGTAACAA-TTTTTTTGTCATTGTATAAAATATTTAAAAAATA
* * * * * * * * *
15402644 GCTTAAGTAACAATATTGAAAAGTGT-TTGCGAATAAAATAACTTTTTACAATAACTTTTTATTG
65 ACTTAAGCAACAACATTGAAAAAT-TATTGCAAATAAAACAAGTTTTTACAACAACTTTTTGTTG
15402708 TCG
129 TCG
*
15402711 TTACAAATATTATAAAATTTTTTGTAACAA-TTTTTTGTCATTGTATAAAATATTTAAAAAATAA
1 TTACAAATATTATAAAATTTTTCGTAACAATTTTTTTGTCATTGTATAAAATATTTAAAAAATAA
* ** * * * * * * *
15402775 -TGTGATTAACGACATTGAAAAATGATAGCAAATAAAATAAGTTTTCACAATAATTTTTTGTTGT
66 CT-TAAGCAACAACATTGAAAAATTATTGCAAATAAAACAAGTTTTTACAACAACTTTTTGTTGT
15402839 CG
130 CG
* * * *
15402841 TTATAAATATTATAAAATTTTTCATATCAATTTTATTTGTCATTGTATAAAATA-TT-AAAAATT
1 TTACAAATATTATAAAATTTTTCGTAACAATTTT-TTTGTCATTGTATAAAATATTTAAAAAATA
* * * * * ** *
15402904 CCTCAAGTAATAACATTGAAAAATGATTGCAAATAAAACAAGTTTTCGCAATAA--TTTT-TTGT
65 ACTTAAGCAACAACATTGAAAAATTATTGCAAATAAAACAAGTTTTTACAACAACTTTTTGTTGT
*
15402966 TG
130 CG
* * ** * **
15402968 TTACAAATATTATAAAACTTTTCATATTAA-CTTTTTGTCATTACATAAAATATTTAAAAAATAA
1 TTACAAATATTATAAAATTTTTCGTAACAATTTTTTTGTCATTGTATAAAATATTTAAAAAATAA
* * * * * **
15403032 CTTAAGCAACCACAATAAAAAATGATTACAAATAAAACAAGTTTTTGTAACAACTTTTTGTTGTC
66 CTTAAGCAACAACATTGAAAAATTATTGCAAATAAAACAAGTTTTTACAACAACTTTTTGTTGTC
*
15403097 A
131 G
* * ** * * *
15403098 TTACAAATGTTATGAAAA-ATTTCACAATAACTTTATTTATCATTGTATAAAATA-TTAAAAAAT
1 TTACAAATATTAT-AAAATTTTTCGTAACAA-TTTTTTTGTCATTGTATAAAATATTTAAAAAAT
* * **
15403161 AACTTAAGCAACAATGATTTTGAAAAATCATTGCAAAT-AAACTAAGTTTAAACAACAACTTTTT
64 AACTTAAGCAACAA-CA--TTGAAAAATTATTGCAAATAAAAC-AAGTTTTTACAACAACTTTTT
* *
15403225 GTTATTG
125 GTTGTCG
* * * * *
15403232 TTACAAATGTGATAACATTTTTCGTAATAAAGTTTTTTGTCATTGTATAAAATA-TTATAAAAAT
1 TTACAAATATTATAAAATTTTTCGTAA-CAATTTTTTTGTCATTGTATAAAATATTTA-AAAAAT
* * * *
15403296 AACTTAAGCAA-AGACATTGAAAAATAATTGCAAATAAAACAAGTTTTTGCAACAACTTTATATT
64 AACTTAAGCAACA-ACATTGAAAAATTATTGCAAATAAAACAAGTTTTTACAACAACTTTTTGTT
*
15403360 GCCG
128 GTCG
* * * * * *
15403364 TTACAAACAGTATAAAATTTTTTGTAACAATTTTATTGTCATTGCATAAAATATTTAACAAATAA
1 TTACAAATATTATAAAATTTTTCGTAACAATTTTTTTGTCATTGTATAAAATATTTAAAAAATAA
* ** * * * * ** * *
15403429 CTTAAACAATGACTTTGAAAAATCATTACAAATAAAAGAAGTTTACACTACAACTTTTTGTTGCC
66 CTTAAGCAACAACATTGAAAAATTATTGCAAATAAAACAAGTTTTTACAACAACTTTTTGTTGTC
15403494 G
131 G
* * * * *
15403495 TTTCAAATATAATAAAATCTTTCGTAATAACTTGTTTTGTCATTGTAT-AAATA-TTAAAAAATA
1 TTACAAATATTATAAAATTTTTCGTAACAA-TTTTTTTGTCATTGTATAAAATATTTAAAAAATA
* * * * *** *
15403558 ACTTAAGTAACGAC-TTCGAAAAATTATTGCAAATAAAGCAAATTTAGGCGACAACTTTTTGTTG
65 ACTTAAGCAACAACATT-GAAAAATTATTGCAAATAAAACAAGTTTTTACAACAACTTTTTGTTG
*
15403622 TTG
129 TCG
* * * * *
15403625 ATACAAATATGATAAAATTTTTCATAATAATTTTTTTGTCGTTGTATAAAATATTT-AAAAATAA
1 TTACAAATATTATAAAATTTTTCGTAACAATTTTTTTGTCATTGTATAAAATATTTAAAAAATAA
* * * * * ** * * * **
15403689 CTTAAGTAACGATATTGAAAATTTGTTATAAATAAAATAAGTTTTCACAACAATTTTTTGAAGTC
66 CTTAAGCAACAACATTGAAAAATTATTGCAAATAAAACAAGTTTTTACAACAACTTTTTGTTGTC
15403754 G
131 G
15403755 TTA
1 TTA
15403758 TGAATAATAA
Statistics
Matches: 1180, Mismatches: 219, Indels: 84
0.80 0.15 0.06
Matches are distributed among these distances:
125 17 0.01
126 4 0.00
127 89 0.08
128 16 0.01
129 36 0.03
130 423 0.36
131 219 0.19
132 153 0.13
133 33 0.03
134 168 0.14
135 22 0.02
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (131 bp):
TTACAAATATTATAAAATTTTTCGTAACAATTTTTTTGTCATTGTATAAAATATTTAAAAAATAA
CTTAAGCAACAACATTGAAAAATTATTGCAAATAAAACAAGTTTTTACAACAACTTTTTGTTGTC
G
Found at i:15402601 original size:41 final size:43
Alignment explanation
Indices: 15402556--15402635 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
15402546 ATAAAACAAG
* *
15402556 TTTTTGCATCAAC-TT-TTTGTTGTTGTA-ACAAATATTATAAT
1 TTTTTGCAACAACTTTATTTGTTGTTATATA-AAATATTATAAT
*
15402597 TTTTTGTAACAACTTTATTTGTTGTTATATAAAATATTA
1 TTTTTGCAACAACTTTATTTGTTGTTATATAAAATATTA
15402636 AAAAAATAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
41 11 0.33
42 2 0.06
43 19 0.58
44 1 0.03
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.53
Consensus pattern (43 bp):
TTTTTGCAACAACTTTATTTGTTGTTATATAAAATATTATAAT
Found at i:15402698 original size:13 final size:13
Alignment explanation
Indices: 15402680--15402704 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15402670 TTGCGAATAA
15402680 AATAACTTTTTAC
1 AATAACTTTTTAC
15402693 AATAACTTTTTA
1 AATAACTTTTTA
15402705 TTGTCGTTAC
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:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
AATAACTTTTTAC
Found at i:15408058 original size:43 final size:41
Alignment explanation
Indices: 15407994--15408075 Score: 110
Period size: 43 Copynumber: 2.0 Consensus size: 41
15407984 AAATACTTTG
*
15407994 TTGAAAAAAAAAAGTTGAAGTTGAAAACTCAAAAGGGCAAT
1 TTGAAAAAAAAAAGTTCAAGTTGAAAACTCAAAAGGGCAAT
* **
15408035 TTGAAAAAAATGATAGTTCAAGTTGAAAACTTGAAAGGGCA
1 TTGAAAAAAA--AAAGTTCAAGTTGAAAACTCAAAAGGGCA
15408076 GCTTGAACTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 10 0.29
43 25 0.71
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.22
Consensus pattern (41 bp):
TTGAAAAAAAAAAGTTCAAGTTGAAAACTCAAAAGGGCAAT
Found at i:15409741 original size:21 final size:20
Alignment explanation
Indices: 15409715--15409852 Score: 81
Period size: 21 Copynumber: 6.8 Consensus size: 20
15409705 ATTAATAGTA
15409715 GTTTGAATTTCTAGGTTTTAG
1 GTTTGAATTTCTAGG-TTTAG
*
15409736 GTTTGAAGTTT-T-GGATTGAGG
1 GTTTGAA-TTTCTAGG-TTTA-G
* *
15409757 GTTTGAATTTTTGGGTTTTAG
1 GTTTGAATTTCTAGG-TTTAG
* *
15409778 GTTTGAAATTCTAGGATTGAG
1 GTTTGAATTTCTAGG-TTTAG
* *
15409799 AGTTT-AAGTT-T-GAGTTTGG
1 -GTTTGAATTTCTAG-GTTTAG
15409818 GTTTGAATTTCTAGGTTT-G
1 GTTTGAATTTCTAGGTTTAG
*
15409837 GAGTTGAATTTCTAGG
1 G-TTTGAATTTCTAGG
15409853 GAAAATTGAA
Statistics
Matches: 93, Mismatches: 14, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
18 4 0.04
19 10 0.11
20 28 0.30
21 39 0.42
22 12 0.13
ACGTcount: A:0.20, C:0.03, G:0.30, T:0.47
Consensus pattern (20 bp):
GTTTGAATTTCTAGGTTTAG
Found at i:15409762 original size:42 final size:43
Alignment explanation
Indices: 15409714--15409852 Score: 139
Period size: 42 Copynumber: 3.4 Consensus size: 43
15409704 AATTAATAGT
* *
15409714 AGTTTGAATTTCTAGGTTTTAGGTTTGAAGTT-TTGGATTGAG
1 AGTTTGAATTTCTAGGTTTTAGGTTTGAAATTCTAGGATTGAG
* * *
15409756 GGTTTGAATTTTTGGGTTTTAGGTTTGAAATTCTAGGATTGAG
1 AGTTTGAATTTCTAGGTTTTAGGTTTGAAATTCTAGGATTGAG
* * * *
15409799 AGTTT-AAGTT-T-GAG-TTTGGGTTTGAATTTCTAGGTTTG-G
1 AGTTTGAATTTCTAG-GTTTTAGGTTTGAAATTCTAGGATTGAG
15409838 AG-TTGAATTTCTAGG
1 AGTTTGAATTTCTAGG
15409853 GAAAATTGAA
Statistics
Matches: 81, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
38 2 0.02
39 7 0.09
40 24 0.30
41 3 0.04
42 32 0.40
43 13 0.16
ACGTcount: A:0.21, C:0.03, G:0.29, T:0.47
Consensus pattern (43 bp):
AGTTTGAATTTCTAGGTTTTAGGTTTGAAATTCTAGGATTGAG
Found at i:15409792 original size:14 final size:13
Alignment explanation
Indices: 15409773--15409841 Score: 50
Period size: 14 Copynumber: 5.2 Consensus size: 13
15409763 ATTTTTGGGT
*
15409773 TTTAGGTTTGAAA
1 TTTAGGTTTGAAG
*
15409786 TTCTAGGATTGAGAG
1 TT-TAGGTTTGA-AG
*
15409801 TTTAAGTTTG-AG
1 TTTAGGTTTGAAG
* *
15409813 TTTGGGTTTGAAT
1 TTTAGGTTTGAAG
*
15409826 TTCTAGGTTTGGAG
1 TT-TAGGTTTGAAG
15409840 TT
1 TT
15409842 GAATTTCTAG
Statistics
Matches: 42, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
12 10 0.24
13 5 0.12
14 24 0.57
15 3 0.07
ACGTcount: A:0.22, C:0.03, G:0.29, T:0.46
Consensus pattern (13 bp):
TTTAGGTTTGAAG
Found at i:15412528 original size:22 final size:22
Alignment explanation
Indices: 15412503--15412560 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
15412493 AATTTGCTAG
*
15412503 TAATCCATTAGTATTATG-TTGA
1 TAATCCATTAGTAAT-TGATTGA
* *
15412525 TAATCTATCAGTAATTGATTGA
1 TAATCCATTAGTAATTGATTGA
*
15412547 TAATCGATTAGTAA
1 TAATCCATTAGTAA
15412561 ATGGTGCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (22 bp):
TAATCCATTAGTAATTGATTGA
Found at i:15412599 original size:11 final size:11
Alignment explanation
Indices: 15412570--15412607 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
15412560 AATGGTGCTT
15412570 TCCATCAGTAAA
1 TCCATCAGT-AA
15412582 TCCATCAGTAA
1 TCCATCAGTAA
*
15412593 TCTATCAGTAA
1 TCCATCAGTAA
15412604 TCCA
1 TCCA
15412608 ATGGTATTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.37, C:0.26, G:0.08, T:0.29
Consensus pattern (11 bp):
TCCATCAGTAA
Found at i:15413811 original size:160 final size:160
Alignment explanation
Indices: 15413640--15413944 Score: 427
Period size: 160 Copynumber: 1.9 Consensus size: 160
15413630 CAATACGTAG
* * * *
15413640 AAAACATTATCTAGTTCAATACTGAATTTTCTATAATGTA-TAGGCTTTTAATTACTGCACTATC
1 AAAACATTATCTAGTTCAATACTGAATTTCCTACAATG-ACTAGGCTTTCAATTACTACACTATC
* * * * *
15413704 TACTTCATTAACAACCACAACACACAACTAGAATCATAAAGCAAAAT-CAGCAATAGTTTTCA-C
65 TACGTCATCAACAACCACAACACACAACCAAAATCACAAAGCAAAATACA-CAATAGTTTTCATC
*
15413767 TTTTTACAAATGTGATCTCATCTTAATATGCAT
129 -TTTGACAAATGTGATCTCATCTTAATATGCAT
*
15413800 AAAACATTATCTAGTTCAATATTGAATTTCCTACAATGACTAGGCTTTCAATTACTACACTATCT
1 AAAACATTATCTAGTTCAATACTGAATTTCCTACAATGACTAGGCTTTCAATTACTACACTATCT
* * * *
15413865 ACGTCATCAACAATCACAATACACAACCAAAATCACAAAGTAAAATACATAATAGTTTTCATCTT
66 ACGTCATCAACAACCACAACACACAACCAAAATCACAAAGCAAAATACACAATAGTTTTCATCTT
15413930 TGACAAATGTGATCT
131 TGACAAATGTGATCT
15413945 AATTGCAATA
Statistics
Matches: 127, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
159 1 0.01
160 123 0.97
161 3 0.02
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (160 bp):
AAAACATTATCTAGTTCAATACTGAATTTCCTACAATGACTAGGCTTTCAATTACTACACTATCT
ACGTCATCAACAACCACAACACACAACCAAAATCACAAAGCAAAATACACAATAGTTTTCATCTT
TGACAAATGTGATCTCATCTTAATATGCAT
Found at i:15417892 original size:24 final size:24
Alignment explanation
Indices: 15417847--15417892 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
15417837 TGAAAATCCT
* * * *
15417847 ACATCATTTGTTTTCTCCAATTTC
1 ACATCATTTATATTCACAAATTTC
15417871 ACATCATTTATATTCACAAATT
1 ACATCATTTATATTCACAAATT
15417893 CTCTTTTAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.30, C:0.22, G:0.02, T:0.46
Consensus pattern (24 bp):
ACATCATTTATATTCACAAATTTC
Found at i:15425167 original size:19 final size:20
Alignment explanation
Indices: 15425139--15425179 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
15425129 AAAAACTAAA
* *
15425139 AATATTTAAAAT-TTTTTTT
1 AATATCTAAAATATTATTTT
15425158 AATATCTAAAATATTATTTT
1 AATATCTAAAATATTATTTT
15425178 AA
1 AA
15425180 ATAATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
AATATCTAAAATATTATTTT
Found at i:15425196 original size:31 final size:32
Alignment explanation
Indices: 15425135--15425204 Score: 76
Period size: 31 Copynumber: 2.2 Consensus size: 32
15425125 TTTCAAAAAC
* *
15425135 TAAAAATA-TTTAAAATTTTTTTTAATATCTA
1 TAAAATTATTTTAAAAATTTTTTTAATATCTA
15425166 -AAATATTATTTTAAATAATTTTTTT-A-ATCTA
1 TAAA-ATTATTTTAAA-AATTTTTTTAATATCTA
15425197 TAAAATTA
1 TAAAATTA
15425205 ATAAATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
30 3 0.09
31 12 0.36
32 10 0.30
33 8 0.24
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (32 bp):
TAAAATTATTTTAAAAATTTTTTTAATATCTA
Found at i:15427139 original size:41 final size:40
Alignment explanation
Indices: 15427052--15427147 Score: 111
Period size: 41 Copynumber: 2.4 Consensus size: 40
15427042 TATTAGGTAA
* * * * * *
15427052 AATTTGATTAGAATTTGAGAAATTATCATATTTGAGTTTG
1 AATTTGATTCGATTTTGAAAAATTATAATATTTGAATCTG
* *
15427092 ACTTTGATTCGATTTTGAAAAATTTTTAATATTTGAATCTG
1 AATTTGATTCGATTTTGAAAAA-TTATAATATTTGAATCTG
15427133 AATTTGATTCGATTT
1 AATTTGATTCGATTT
15427148 AAATTTATTA
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
40 18 0.39
41 28 0.61
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.48
Consensus pattern (40 bp):
AATTTGATTCGATTTTGAAAAATTATAATATTTGAATCTG
Found at i:15427363 original size:16 final size:16
Alignment explanation
Indices: 15427335--15427394 Score: 75
Period size: 16 Copynumber: 3.8 Consensus size: 16
15427325 TTTACTAAAC
*
15427335 TTTAAAATGATTTGAA
1 TTTAAAATAATTTGAA
* *
15427351 TTTCAAATTATTTGAA
1 TTTAAAATAATTTGAA
* *
15427367 TATAAAATAATTTAAA
1 TTTAAAATAATTTGAA
15427383 TTTAAAATAATT
1 TTTAAAATAATT
15427395 CAAATCTTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (16 bp):
TTTAAAATAATTTGAA
Found at i:15427399 original size:16 final size:16
Alignment explanation
Indices: 15427369--15427399 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15427359 TATTTGAATA
*
15427369 TAAAATAATTTAAATT
1 TAAAATAATTCAAATT
15427385 TAAAATAATTCAAAT
1 TAAAATAATTCAAAT
15427400 CTTTGTCTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAAATAATTCAAATT
Found at i:15427755 original size:16 final size:16
Alignment explanation
Indices: 15427727--15427786 Score: 75
Period size: 16 Copynumber: 3.8 Consensus size: 16
15427717 TTTACTAAAC
*
15427727 TTTAAAATGATTTGAA
1 TTTAAAATAATTTGAA
* *
15427743 TTTCAAATTATTTGAA
1 TTTAAAATAATTTGAA
* *
15427759 TCTAAAATAATTTAAA
1 TTTAAAATAATTTGAA
15427775 TTTAAAATAATT
1 TTTAAAATAATT
15427787 CAAATCTTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (16 bp):
TTTAAAATAATTTGAA
Found at i:15427791 original size:16 final size:16
Alignment explanation
Indices: 15427761--15427791 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15427751 TATTTGAATC
*
15427761 TAAAATAATTTAAATT
1 TAAAATAATTCAAATT
15427777 TAAAATAATTCAAAT
1 TAAAATAATTCAAAT
15427792 CTTTGTCTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAAATAATTCAAATT
Found at i:15427793 original size:32 final size:32
Alignment explanation
Indices: 15427729--15427793 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
15427719 TACTAAACTT
* * * * **
15427729 TAAAATGATTTGAATTTCAAATTATTTGAATC
1 TAAAATAATTTAAATTTAAAATAATTCAAATC
15427761 TAAAATAATTTAAATTTAAAATAATTCAAATC
1 TAAAATAATTTAAATTTAAAATAATTCAAATC
15427793 T
1 T
15427794 TTGTCTAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.42
Consensus pattern (32 bp):
TAAAATAATTTAAATTTAAAATAATTCAAATC
Found at i:15427961 original size:392 final size:392
Alignment explanation
Indices: 15427232--15428023 Score: 1494
Period size: 392 Copynumber: 2.0 Consensus size: 392
15427222 CAATTTGGAA
15427232 CTTGAAAAACTCCAATTTTGTTTCAAAAAATTTCAAATTGTAATATTAGAAGTTGATCAAATATG
1 CTTG-AAAACTCCAATTTTGTTTCAAAAAATTTCAAATTGTAATATTAGAAGTTGATCAAATATG
15427297 AAGAAGCCTAAATTCAAAACGTCTAAATTTTACTAAACTTTAAAATGATTTGAATTTCAAATTAT
65 AAGAAGCCTAAATTCAAAACGTCTAAATTTTACTAAACTTTAAAATGATTTGAATTTCAAATTAT
*
15427362 TTGAATATAAAATAATTTAAATTTAAAATAATTCAAATCTTTGTCTAAATTCTAAATAGGTCAAA
130 TTGAATATAAAATAATTTAAATTTAAAATAATTCAAATCTTTGTCTAAATTCTAAATAGATCAAA
*
15427427 TCAAAAGAAACTGAGTCAAATTTGAGTCATCCCAGAACAGTTTCTAATTAAAACAATTTTTTTGT
195 TCAAAAGAAACTGAGTCAAATTTGAGTCATCCCAGAACAATTTCTAATTAAAACAATTTTTTTGT
15427492 CATTTTCTCAAATTTCTTTTTTTATATAATACAATCAATGTATTCTTCGATTTTGCTAGAATTTA
260 CATTTTCTCAAATTTCTTTTTTTATATAATACAATCAATGTATTCTTCGATTTTGCTAGAATTTA
* *
15427557 AAACTATTTTTTTATACGATTTTAAAGACGTAATCTTCAATATTAGCCAATGTATTTAAGATATT
325 AAACTATTTTTTTATACGATTTTAAAGACGCAATCCTCAATATTAGCCAATGTATTTAAGATATT
*
15427622 ATT
390 AAT
*
15427625 CTTGAAAACTCCAGTTTTGTTTCAAAAAATTTCAAATTGTAATATTAGAAGTTGATCAAATATGA
1 CTTGAAAACTCCAATTTTGTTTCAAAAAATTTCAAATTGTAATATTAGAAGTTGATCAAATATGA
15427690 AGAAGCCTAAATTCAAAACGTCTAAATTTTACTAAACTTTAAAATGATTTGAATTTCAAATTATT
66 AGAAGCCTAAATTCAAAACGTCTAAATTTTACTAAACTTTAAAATGATTTGAATTTCAAATTATT
*
15427755 TGAATCTAAAATAATTTAAATTTAAAATAATTCAAATCTTTGTCTAAATTCTAAATAGATCAAAT
131 TGAATATAAAATAATTTAAATTTAAAATAATTCAAATCTTTGTCTAAATTCTAAATAGATCAAAT
15427820 CAAAAGAAACTGAGTCAAATTTGAGTCATCCCAGAACAATTTCTAATTAAAACAATTTTTTTGTC
196 CAAAAGAAACTGAGTCAAATTTGAGTCATCCCAGAACAATTTCTAATTAAAACAATTTTTTTGTC
* *
15427885 ATTTTCTTAAATTTCTTTTTTTATATAATACAATCAATGTATTCTTTGATTTTGCTAGAATTTAA
261 ATTTTCTCAAATTTCTTTTTTTATATAATACAATCAATGTATTCTTCGATTTTGCTAGAATTTAA
15427950 AACTATTTTTTTATACGATTTTAAAGACGCAATCCTCAATATTAGCCAATGTATTTAAGATATTA
326 AACTATTTTTTTATACGATTTTAAAGACGCAATCCTCAATATTAGCCAATGTATTTAAGATATTA
15428015 AT
391 AT
15428017 CTTGAAA
1 CTTGAAA
15428024 TATTCTCCAC
Statistics
Matches: 390, Mismatches: 9, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
392 386 0.99
393 4 0.01
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.40
Consensus pattern (392 bp):
CTTGAAAACTCCAATTTTGTTTCAAAAAATTTCAAATTGTAATATTAGAAGTTGATCAAATATGA
AGAAGCCTAAATTCAAAACGTCTAAATTTTACTAAACTTTAAAATGATTTGAATTTCAAATTATT
TGAATATAAAATAATTTAAATTTAAAATAATTCAAATCTTTGTCTAAATTCTAAATAGATCAAAT
CAAAAGAAACTGAGTCAAATTTGAGTCATCCCAGAACAATTTCTAATTAAAACAATTTTTTTGTC
ATTTTCTCAAATTTCTTTTTTTATATAATACAATCAATGTATTCTTCGATTTTGCTAGAATTTAA
AACTATTTTTTTATACGATTTTAAAGACGCAATCCTCAATATTAGCCAATGTATTTAAGATATTA
AT
Found at i:15428459 original size:24 final size:25
Alignment explanation
Indices: 15428406--15428464 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
15428396 ATATTAGTAT
*
15428406 AATTAAA-AATAATAAATTTAATAA
1 AATTAAATTATAATAAATTTAATAA
*
15428430 AATTAATTTATAA-AAATTTAATAA
1 AATTAAATTATAATAAATTTAATAA
**
15428454 TTTTAAATTAT
1 AATTAAATTAT
15428465 GTTTTCAATC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
AATTAAATTATAATAAATTTAATAA
Found at i:15429696 original size:2 final size:2
Alignment explanation
Indices: 15429689--15429721 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15429679 CAACAGAAGC
15429689 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
15429722 TACCTATGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15433310 original size:5 final size:5
Alignment explanation
Indices: 15433297--15433330 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
15433287 TGGCCTCCAA
*
15433297 GAAAC GAAAG GAAAG GAAAG GAAAG GAAAG GAAA
1 GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAA
15433331 ATTGGGATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.62, C:0.03, G:0.35, T:0.00
Consensus pattern (5 bp):
GAAAG
Found at i:15446195 original size:17 final size:16
Alignment explanation
Indices: 15446172--15446228 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
15446162 CAAAAGCAAA
15446172 AATAAAAATTATTGTT
1 AATAAAAATTATTGTT
*
15446188 ATATAAAATATT-TTTTT
1 A-ATAAAA-ATTATTGTT
*
15446205 AATTAAAAATTATTGTA
1 AA-TAAAAATTATTGTT
15446222 AATAAAA
1 AATAAAA
15446229 TAGGTTTGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
16 10 0.29
17 21 0.62
18 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (16 bp):
AATAAAAATTATTGTT
Found at i:15446634 original size:131 final size:131
Alignment explanation
Indices: 15446289--15447803 Score: 1116
Period size: 131 Copynumber: 11.3 Consensus size: 131
15446279 TTTTTAGTAA
* * * * *
15446289 TTTTTTGTCATTATATAAAATA-TTAACAAATTAAATTAAGTAACGAATATTGAAAAATTATTAC
1 TTTTTTGTCATTGTATAAAATATTTAA-AAAATAACTTAAGTAAC-AACATTGAAAAATTATTGC
* * * * * *
15446353 AAATAAAATAAGTTTTTACAACAACTTTTTATTATTGTTACAAATGTTATGAAATTTTTCGTAAC
64 AAATAAAACAAGTTTTTACAACAACTTTTTGTTGTCGTTACAAATATTATAAAATTTTTCGTAAC
15446418 AACATT
129 -A-A-T
* * * * * ** *
15446424 TTTTTTGTCGTTATATAAAATATTAAAAAAAT-AGTCTAAGCAATGATATTGAAAAATTATTGCA
1 TTTTTTGTCATTGTATAAAATATTTAAAAAATAACT-TAAGTAACAACATTGAAAAATTATTGCA
* * * *
15446488 AATAAAATAAATTTTTATAACAACTTTTTGTTGTCGTTACAAATATTATAAAATTTTTTGTAACA
65 AATAAAACAAGTTTTTACAACAACTTTTTGTTGTCGTTACAAATATTATAAAATTTTTCGTAACA
15446553 AT
130 AT
** * * * *
15446555 TTTTTTGTTGTTATATAAAATATTTAAAAAATAACTTAGGCAACAACATTGATAAATTATTGCAA
1 TTTTTTGTCATTGTATAAAATATTTAAAAAATAACTTAAGTAACAACATTGAAAAATTATTGCAA
* * * * *
15446620 ATAAAACAAGTTTTTGCATCAACTTTCTGTTGTCGTAACAAATATTAT-AAATTTTTTGTAACAA
66 ATAAAACAAGTTTTTACAACAACTTTTTGTTGTCGTTACAAATATTATAAAATTTTTCGTAACAA
15446684 CT
131 -T
* ** * * ** * **
15446686 TTATTTGTTGTTATATAAAATATTAAAAAAATTCCTTAAGTAACAATATTGAAAAATGT-TTGTG
1 TTTTTTGTCATTGTATAAAATATTTAAAAAATAACTTAAGTAACAACATTGAAAAAT-TATTGCA
* * * * * *
15446750 AATAAAATAACTTTTTATAATAATTTTTTGTTGTCGTTCCAAATATTATAAAA-TTTTCGTAACA
65 AATAAAACAAGTTTTTACAACAACTTTTTGTTGTCGTTACAAATATTATAAAATTTTTCGTAACA
15446814 AT
130 AT
* * * * *
15446816 TTTTTTATCATTGTATAAAATATTTAAAAAATAA-TGTAATTAACGACATTGAAAAATGATAGCA
1 TTTTTTGTCATTGTATAAAATATTTAAAAAATAACT-TAAGTAACAACATTGAAAAATTATTGCA
* * * * * * *
15446880 AATAAAATAAGTTTTCACAATAATTTTTTGTTGTCATTACAAATATTATAAAATTTTTCATATCA
65 AATAAAACAAGTTTTTACAACAACTTTTTGTTGTCGTTACAAATATTATAAAATTTTTCGTAACA
15446945 AT
130 AT
* * ** * *
15446947 TTTATTTGTTATTGTATAAACTA-TT-AAAAATTCCTCAAGTAATAACATTTGAAAAATTATTGC
1 TTT-TTTGTCATTGTATAAAATATTTAAAAAATAACTTAAGTAACAACA-TTGAAAAATTATTGC
** * * * *
15447010 AAATAAAACAAGTTTTCGCAATAA-TTTTT-TAT-T-GTTACAAATATTATAAAACTTTTCATAT
64 AAATAAAACAAGTTTTTACAACAACTTTTTGT-TGTCGTTACAAATATTATAAAATTTTTCGTAA
*
15447071 TAA-
128 CAAT
* ** * ** * *
15447074 CTTTTTGTCATTACATAAAATATTTAAAAAATAACTTAAGTTGTATAAAATTTTTAAAAAATAAC
1 TTTTTTGTCATTGTATAAAATATTTAAAAAATAACTTAA---GTA-ACAA-CATTGAAAAATTA-
**
15447139 TTAAGCAACCACATTAAAA-AATGATTACAAATAAAACAAGTTTTTGTAACAACTTTTTGTTGTC
60 TT--GC-A--A-A-TAAAACAA-G-TT-----T--------TTAC---AACAACTTTTTGTTGTC
* * *
15447203 ATTACAAATATTATAAAATTTTTCATAGA-ACT
100 GTTACAAATATTATAAAATTTTTCGTA-ACAAT
* * * * *
15447235 TTATTTATCATTGTATAAAATA-TTAAAAAATAACTTAAGCAACAATGATTTTGAAAAATCATTG
1 TTTTTTGTCATTGTATAAAATATTTAAAAAATAACTTAAGTAACAA-CA--TTGAAAAATTATTG
** * * * *
15447299 CAAAT-AAACTAAGTTTAAACAACAACTTTTTGTTATTGTTACAAATGTGATAAAATTTTTCGTA
63 CAAATAAAAC-AAGTTTTTACAACAACTTTTTGTTGTCGTTACAAATATTATAAAATTTTTCGTA
* *
15447363 ATAAAG
127 A-CAAT
*
15447369 TTTTTTGTCATTGTATAAAATA-TTATAAAAATAACTTAAGCAA-AGACATTGAAAAA-TAGTTG
1 TTTTTTGTCATTGTATAAAATATTTA-AAAAATAACTTAAGTAACA-ACATTGAAAAATTA-TTG
** * * * * *
15447431 CAAATAAAACAAGTTTTCGCAACAACTTTATATTGTCGTTACAAACACTATAAAATTTTTTGTAA
63 CAAATAAAACAAGTTTTTACAACAACTTTTTGTTGTCGTTACAAATATTATAAAATTTTTCGTAA
15447496 CAAT
128 CAAT
* * ** ** * * *
15447500 TTTATTGTCATTGCATAAAATATTTAAAAAATAACTTAAACAATGACTTTGAAAAATCATTACAA
1 TTTTTTGTCATTGTATAAAATATTTAAAAAATAACTTAAGTAACAACATTGAAAAATTATTGCAA
* ** * * ** * * *
15447565 ATAAAAGAAGTTTACACTACAACTTTTTGTTGCCGTTTTAAATATAATAAAATCTTTCGTAATAA
66 ATAAAACAAGTTTTTACAACAACTTTTTGTTGTCGTTACAAATATTATAAAATTTTTCGTAACAA
15447630 CT
131 -T
* *
15447632 TGTTTTGTCATTGTAT-AATTA-TTAAAAAATAACTTAAGTAACAAC-TTCGAAAAATTATTGCA
1 TTTTTTGTCATTGTATAAAATATTTAAAAAATAACTTAAGTAACAACATT-GAAAAATTATTGCA
* *** * * * * *
15447694 AATAAAACAAATTTAGGCAACAACTTTTTGTTGTTGATACAAATATGATAAAATTTTTCATAATA
65 AATAAAACAAGTTTTTACAACAACTTTTTGTTGTCGTTACAAATATTATAAAATTTTTCGTAACA
15447759 AT
130 AT
*
15447761 TTTTTTGTCGTTGTATAAAATATTT-AAAAATAACTTAAGTAAC
1 TTTTTTGTCATTGTATAAAATATTTAAAAAATAACTTAAGTAAC
15447804 GATCTTGAAA
Statistics
Matches: 1111, Mismatches: 200, Indels: 143
0.76 0.14 0.10
Matches are distributed among these distances:
126 15 0.01
127 4 0.00
128 38 0.03
129 20 0.02
130 238 0.21
131 364 0.33
132 113 0.10
133 45 0.04
134 102 0.09
135 51 0.05
136 4 0.00
138 1 0.00
139 3 0.00
140 6 0.01
141 2 0.00
144 1 0.00
146 1 0.00
149 5 0.00
150 2 0.00
151 3 0.00
152 1 0.00
154 2 0.00
155 2 0.00
156 4 0.00
157 8 0.01
158 15 0.01
159 2 0.00
160 42 0.04
161 17 0.02
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (131 bp):
TTTTTTGTCATTGTATAAAATATTTAAAAAATAACTTAAGTAACAACATTGAAAAATTATTGCAA
ATAAAACAAGTTTTTACAACAACTTTTTGTTGTCGTTACAAATATTATAAAATTTTTCGTAACAA
T
Found at i:15446757 original size:262 final size:260
Alignment explanation
Indices: 15446287--15447790 Score: 1013
Period size: 261 Copynumber: 5.6 Consensus size: 260
15446277 GTTTTTTAGT
* * *
15446287 AATTTTTTGTCATTATATAAAATA-TTAACAAATTAAATTAAGTAACGAATATTGAAAAATTATT
1 AATTTTTTGTCATTATATAAAATATTTAA-AAAATAACTTAAGTAAC-AACATTGAAAAATTATT
* * * * * * *
15446351 ACAAATAAAATAAGTTTTTACAACAACTTTTTATTATTGTTACAAATGTTATGAAATTTTTCGTA
64 GCAAATAAAATAAGTTTTTACATCAACTTTTTGTTGTCGTTACAAATATTATAAAATTTTTCGTA
* * * *
15446416 ACAACATTTTTTTTGTCGTTATATAAAATATTAAAAAAATAGT-C-TAAGCAATGATATTGAAAA
129 ACAAC--TTTATTTGTTGTTATATAAAATATTAAAAAAAT--TCCTTAAGTAATAATATTGAAAA
*
15446479 ATTATTGCAAATAAAATAAATTTTTATAACAACTTTTTGTTGTCGTTACAAATATTATAAAATTT
190 ATTATTGCAAATAAAATAAATTTTTATAATAA-TTTTTGTTGTCGTTACAAATATTATAAAA-TT
*
15446544 TTTGTAAC
253 TTCGTAAC
** * * *
15446552 AATTTTTTTGTTGTTATATAAAATATTTAAAAAATAACTTAGGCAACAACATTGATAAATTATTG
1 AA-TTTTTTGTCATTATATAAAATATTTAAAAAATAACTTAAGTAACAACATTGAAAAATTATTG
* * * * *
15446617 CAAATAAAACAAGTTTTTGCATCAACTTTCTGTTGTCGTAACAAATATTAT-AAATTTTTTGTAA
65 CAAATAAAATAAGTTTTTACATCAACTTTTTGTTGTCGTTACAAATATTATAAAATTTTTCGTAA
*
15446681 CAACTTTATTTGTTGTTATATAAAATATTAAAAAAATTCCTTAAGTAACAATATTGAAAAATGT-
130 CAACTTTATTTGTTGTTATATAAAATATTAAAAAAATTCCTTAAGTAATAATATTGAAAAAT-TA
** * *
15446745 TTGTGAATAAAATAACTTTTTATAATAATTTTTTGTTGTCGTTCCAAATATTATAAAATTTTCGT
194 TTGCAAATAAAATAAATTTTTATAATAA-TTTTTGTTGTCGTTACAAATATTATAAAATTTTCGT
15446810 AAC
258 AAC
* * * * * *
15446813 AATTTTTTTATCATTGTATAAAATATTTAAAAAATAA-TGTAATTAACGACATTGAAAAATGATA
1 AA-TTTTTTGTCATTATATAAAATATTTAAAAAATAACT-TAAGTAACAACATTGAAAAATTATT
* * * *
15446877 GCAAATAAAATAAGTTTTCACAAT-AATTTTTTGTTGTCATTACAAATATTATAAAATTTTTCAT
64 GCAAATAAAATAAGTTTTTAC-ATCAACTTTTTGTTGTCGTTACAAATATTATAAAATTTTTCGT
* * * * * * *
15446941 ATCAATTTTATTTGTTATTGTATAAACTATT--AAAAATTCCTCAAGTAATAACATTTGAAAAAT
128 AACAACTTTATTTGTTGTTATATAAAATATTAAAAAAATTCCTTAAGTAATAATA-TTGAAAAAT
* * ***
15447004 TATTGCAAATAAAACAAGTTTTCGCAATAATTTTT-TAT-T-GTTACAAATATTATAAAACTTTT
192 TATTGCAAATAAAATAAATTTTTATAATAATTTTTGT-TGTCGTTACAAATATTATAAAA-TTTT
* **
15447066 CATATT
255 CGTAAC
* *
15447072 AACTTTTTGTCATTACATAAAATATTTAAAAAATAACTTAAGTTGTATAAAATTTTTAAAAAATA
1 AATTTTTTGTCATTATATAAAATATTTAAAAAATAACTTAA---G------------------TA
* * * * ** *
15447137 ACTTAAGCAACCACATTAAAAAATGATTACAAATAAAACAAGTTTTTGTAACAACTTTTTGTTGT
45 AC--AA-C------ATTGAAAAATTATTGCAAATAAAATAAGTTTTTACATCAACTTTTTGTTGT
* * * * ** *
15447202 CATTACAAATATTATAAAATTTTTCAT-AGAACTTTATTTATCATTGTATAAAATATT-AAAAAA
101 CGTTACAAATATTATAAAATTTTTCGTAACAACTTTATTTGTTGTTATATAAAATATTAAAAAAA
** * * * * * ** * *
15447265 TAACTTAAGCAACAATGATTTTGAAAAATCATTGCAAATAAACTAAGTTTAAACAACAACTTTTT
166 TTCCTTAAGTAATAAT-A--TTGAAAAATTATTGCAAATAAAATAAATTTTTATAATAA-TTTTT
* * * * *
15447330 GTTATTGTTACAAATGTGATAAAATTTTTCGTAATA
227 GTTGTCGTTACAAATATTATAAAA-TTTTCGTAA-C
* *
15447366 AAGTTTTTTGTCATTGTATAAAATA-TTATAAAAATAACTTAAGCAA-AGACATTGAAAAA-TAG
1 AA-TTTTTTGTCATTATATAAAATATTTA-AAAAATAACTTAAGTAACA-ACATTGAAAAATTA-
* ** * * * * * *
15447428 TTGCAAATAAAACAAGTTTTCGCAACAACTTTATATTGTCGTTACAAACACTATAAAATTTTTTG
62 TTGCAAATAAAATAAGTTTTTACATCAACTTTTTGTTGTCGTTACAAATATTATAAAATTTTTCG
* ** ** * ** ** *
15447493 TAACAATTTTA-TTGTCATTGCATAAAATATTTAAAAAATAACTTAAACAATGACT-TTGAAAAA
127 TAACAACTTTATTTGTTGTTATATAAAATATTAAAAAAATTCCTTAAGTAAT-AATATTGAAAAA
* * * * ** * * ** *
15447556 TCATTACAAATAAAAGAAGTTTACACTACA-ACTTTTTGTTGCCGTTTTAAATATAATAAAATCT
191 TTATTGCAAATAAAATAAATTTTTA-TA-ATAATTTTTGTTGTCGTTACAAATATTATAAAAT-T
*
15447620 TTCGTAAT
253 TTCGTAAC
* *
15447628 AACTTGTTTTGTCATTGTAT-AATTA-TTAAAAAATAACTTAAGTAACAAC-TTCGAAAAATTAT
1 AA-TT-TTTTGTCATTATATAAAATATTTAAAAAATAACTTAAGTAACAACATT-GAAAAATTAT
* * *** * * * * *
15447690 TGCAAATAAAACAAATTTAGGCAACAACTTTTTGTTGTTGATACAAATATGATAAAATTTTTCAT
63 TGCAAATAAAATAAGTTTTTACATCAACTTTTTGTTGTCGTTACAAATATTATAAAATTTTTCGT
* * * * *
15447755 AATAA-TTTTTTTGTCGTTGTATAAAATATTTAAAAA
128 AACAACTTTATTTGTTGTTATATAAAATATTAAAAAA
15447791 TAACTTAAGT
Statistics
Matches: 1006, Mismatches: 166, Indels: 138
0.77 0.13 0.11
Matches are distributed among these distances:
258 50 0.05
259 12 0.01
260 33 0.03
261 239 0.24
262 153 0.15
263 74 0.07
264 19 0.02
265 142 0.14
266 57 0.06
267 6 0.01
271 2 0.00
272 1 0.00
274 2 0.00
279 4 0.00
281 1 0.00
282 1 0.00
287 25 0.02
288 82 0.08
289 1 0.00
290 33 0.03
291 6 0.01
292 3 0.00
293 23 0.02
294 5 0.00
295 32 0.03
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (260 bp):
AATTTTTTGTCATTATATAAAATATTTAAAAAATAACTTAAGTAACAACATTGAAAAATTATTGC
AAATAAAATAAGTTTTTACATCAACTTTTTGTTGTCGTTACAAATATTATAAAATTTTTCGTAAC
AACTTTATTTGTTGTTATATAAAATATTAAAAAAATTCCTTAAGTAATAATATTGAAAAATTATT
GCAAATAAAATAAATTTTTATAATAATTTTTGTTGTCGTTACAAATATTATAAAATTTTCGTAAC
Found at i:15447800 original size:130 final size:129
Alignment explanation
Indices: 15447114--15447852 Score: 691
Period size: 130 Copynumber: 5.6 Consensus size: 129
15447104 ATAACTTAAG
* * * * *
15447114 TTGTATAAAATTTTTAAAAAATAACTTAAGCAACCACATTAAAAAATGATTACAAATAAAACAAG
1 TTGTATAAAATATTT-AAAAATAACTTAAGCAACAAC-TTGAAAAATCATTGCAAATAAAACAAG
** * ** * * * * *
15447179 TTTTTGTAACAACTTTTTGTTGTCATTACAAATATTATAAAATTTTTCATAGA-ACTTTATTTAT
64 TTTACGCAACAACTTTTTGTTGTTGTTACAAATATGATAAAATTTTTCGTA-ATAATTTTTTTGT
15447243 CA
128 CA
* *
15447245 TTGTATAAAATATTAAAAAATAACTTAAGCAACAATGATTTTGAAAAATCATTGCAAAT-AAACT
1 TTGTATAAAATATTTAAAAATAACTTAAGCAAC-A--A-CTTGAAAAATCATTGCAAATAAAAC-
** * * *
15447309 AAGTTTAAACAACAACTTTTTGTTATTGTTACAAATGTGATAAAATTTTTCGTAATAAAGTTTTT
61 AAGTTTACGCAACAACTTTTTGTTGTTGTTACAAATATGATAAAATTTTTCGTAAT-AATTTTTT
15447374 TGTCA
125 TGTCA
15447379 TTGTATAAAATATTATAAAAATAACTTAAGCAA-AGACATTGAAAAAT-AGTTGCAAATAAAACA
1 TTGTATAAAATATT-TAAAAATAACTTAAGCAACA-AC-TTGAAAAATCA-TTGCAAATAAAACA
* * * * * * * *
15447442 AGTTTTCGCAACAACTTTATATTGTCGTTACAAACACT-ATAAAATTTTTTGTAACAATTTTATT
62 AGTTTACGCAACAACTTTTTGTTGTTGTTACAAATA-TGATAAAATTTTTCGTAATAATTTTTTT
15447506 GTCA
126 GTCA
* * ** * *
15447510 TTGCATAAAATATTTAAAAAATAACTTAAACAATGACTTTGAAAAATCATTACAAATAAAAGAAG
1 TTGTATAAAATATTT-AAAAATAACTTAAGCAACAAC-TTGAAAAATCATTGCAAATAAAACAAG
* * ** ** * * *
15447575 TTTACACTACAACTTTTTGTTGCCGTTTTAAATATAATAAAATCTTTCGTAATAACTTGTTTTGT
64 TTTACGCAACAACTTTTTGTTGTTGTTACAAATATGATAAAATTTTTCGTAATAA-TTTTTTTGT
15447640 CA
128 CA
* * * * *
15447642 TTGTAT-AATTATTAAAAAATAACTTAAGTAACAACTTCGAAAAATTATTGCAAATAAAACAAAT
1 TTGTATAAAATATTTAAAAATAACTTAAGCAACAACTT-GAAAAATCATTGCAAATAAAACAAGT
* * * *
15447706 TTAGGCAACAACTTTTTGTTGTTGATACAAATATGATAAAATTTTTCATAATAATTTTTTTGTCG
65 TTACGCAACAACTTTTTGTTGTTGTTACAAATATGATAAAATTTTTCGTAATAATTTTTTTGTCA
* * * ** ** *
15447771 TTGTATAAAATATTTAAAAATAACTTAAGTAACGATCTTGAAAATTTGTTATAAATAAAATAAGT
1 TTGTATAAAATATTTAAAAATAACTTAAGCAAC-AACTTGAAAAATCATTGCAAATAAAACAAGT
*
15447836 TT-CGCAACAATTTTTTG
65 TTACGCAACAACTTTTTG
15447853 AGGTCGTTAT
Statistics
Matches: 497, Mismatches: 91, Indels: 42
0.79 0.14 0.07
Matches are distributed among these distances:
129 30 0.06
130 148 0.30
131 130 0.26
132 82 0.16
133 67 0.13
134 23 0.05
135 17 0.03
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (129 bp):
TTGTATAAAATATTTAAAAATAACTTAAGCAACAACTTGAAAAATCATTGCAAATAAAACAAGTT
TACGCAACAACTTTTTGTTGTTGTTACAAATATGATAAAATTTTTCGTAATAATTTTTTTGTCA
Found at i:15448433 original size:3 final size:3
Alignment explanation
Indices: 15448425--15448469 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
15448415 AACTGATGTT
15448425 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15448470 ATTTTCTTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15449253 original size:18 final size:18
Alignment explanation
Indices: 15449211--15449253 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
15449201 AGCTTTTTCC
* * *
15449211 TATTTTATTTTTTATTTT
1 TATTTTATTTGTCATTAT
*
15449229 TACTTTATTTGTCATTAT
1 TATTTTATTTGTCATTAT
15449247 TATTTTA
1 TATTTTA
15449254 CTAATTTTAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (18 bp):
TATTTTATTTGTCATTAT
Found at i:15467021 original size:21 final size:20
Alignment explanation
Indices: 15466995--15467134 Score: 97
Period size: 21 Copynumber: 6.8 Consensus size: 20
15466985 ATTGATAGTA
15466995 GTTTGAATTTCTAGGTTTTAG
1 GTTTGAATTTCTAGG-TTTAG
* *
15467016 GTTTGAAGTTCT-GGATTGAG
1 GTTTGAATTTCTAGG-TTTAG
* *
15467036 GTTTTGAATTTTTGGGTTTTAG
1 G-TTTGAATTTCTAGG-TTTAG
** *
15467058 GTTTGAAACTCTAGGATTAAG
1 GTTTGAATTTCTAGG-TTTAG
* *
15467079 AGTTTGAAGTTCT-GAGTTTGG
1 -GTTTGAATTTCTAG-GTTTAG
15467100 GTTTGAATTTCTAGGTTT-G
1 GTTTGAATTTCTAGGTTTAG
*
15467119 GAGTTGAATTTCTAGG
1 G-TTTGAATTTCTAGG
15467135 GAAAATTAAA
Statistics
Matches: 94, Mismatches: 19, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
19 2 0.02
20 35 0.37
21 39 0.41
22 18 0.19
ACGTcount: A:0.21, C:0.05, G:0.29, T:0.46
Consensus pattern (20 bp):
GTTTGAATTTCTAGGTTTAG
Found at i:15467117 original size:20 final size:21
Alignment explanation
Indices: 15466995--15467134 Score: 85
Period size: 20 Copynumber: 6.7 Consensus size: 21
15466985 ATTGATAGTA
*
15466995 GTTTGAATTTCTAGGTTTTAG
1 GTTTGAATTTCTAGGTTTTGG
* *
15467016 GTTTGAAGTTCT-GG-ATTGAG
1 GTTTGAATTTCTAGGTTTTG-G
* * *
15467036 GTTTTGAATTTTTGGGTTTTAG
1 G-TTTGAATTTCTAGGTTTTGG
** ** *
15467058 GTTTGAAACTCTAGGATTAAGA
1 GTTTGAATTTCTAGG-TTTTGG
*
15467080 GTTTGAAGTTCT-GAG-TTTGG
1 GTTTGAATTTCTAG-GTTTTGG
15467100 GTTTGAATTTCTAGG-TTTGG
1 GTTTGAATTTCTAGGTTTTGG
15467120 AG-TTGAATTTCTAGG
1 -GTTTGAATTTCTAGG
15467135 GAAAATTAAA
Statistics
Matches: 90, Mismatches: 21, Indels: 17
0.70 0.16 0.13
Matches are distributed among these distances:
19 2 0.02
20 36 0.40
21 33 0.37
22 17 0.19
23 2 0.02
ACGTcount: A:0.21, C:0.05, G:0.29, T:0.46
Consensus pattern (21 bp):
GTTTGAATTTCTAGGTTTTGG
Found at i:15467504 original size:20 final size:20
Alignment explanation
Indices: 15467467--15467503 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
15467457 TCGTAGGTTT
*
15467467 TTTTTTTCTTTTTATTTTCA
1 TTTTTTTATTTTTATTTTCA
15467487 TTTTTTTA-TTTTATTTT
1 TTTTTTTATTTTTATTTT
15467504 TTTACAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTTTATTTTTATTTTCA
Found at i:15467506 original size:13 final size:14
Alignment explanation
Indices: 15467475--15467507 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
15467465 TTTTTTTTTC
15467475 TTTTTATTTTCATT
1 TTTTTATTTTCATT
15467489 TTTTTATTTT-ATT
1 TTTTTATTTTCATT
15467502 TTTTTA
1 TTTTTA
15467508 CAATTTCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTATTTTCATT
Found at i:15467897 original size:11 final size:11
Alignment explanation
Indices: 15467876--15467924 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
15467866 CTTCTTAAAA
15467876 ATAAA-ATTTT
1 ATAAATATTTT
15467886 ATAAATATTTT
1 ATAAATATTTT
* *
15467897 ATAATAAAATCTT
1 AT-A-AATATTTT
15467910 ATAAATATTTT
1 ATAAATATTTT
15467921 ATAA
1 ATAA
15467925 TAAAATCTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
10 5 0.16
11 17 0.53
12 2 0.06
13 8 0.25
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (11 bp):
ATAAATATTTT
Found at i:15467902 original size:24 final size:24
Alignment explanation
Indices: 15467875--15467935 Score: 113
Period size: 24 Copynumber: 2.5 Consensus size: 24
15467865 TCTTCTTAAA
*
15467875 AATAAAATTTTATAAATATTTTAT
1 AATAAAATCTTATAAATATTTTAT
15467899 AATAAAATCTTATAAATATTTTAT
1 AATAAAATCTTATAAATATTTTAT
15467923 AATAAAATCTTAT
1 AATAAAATCTTAT
15467936 TAACCTATTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (24 bp):
AATAAAATCTTATAAATATTTTAT
Found at i:15469420 original size:12 final size:12
Alignment explanation
Indices: 15469387--15469425 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 12
15469377 TTGTAAGTTT
15469387 TTTTAATTAAAAA
1 TTTTAA-TAAAAA
15469400 TGATTTAATAAAAA
1 T--TTTAATAAAAA
15469414 TTTTAATAAAAA
1 TTTTAATAAAAA
15469426 GTCTAAACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 11 0.46
13 1 0.04
14 7 0.29
15 5 0.21
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (12 bp):
TTTTAATAAAAA
Found at i:15469834 original size:22 final size:22
Alignment explanation
Indices: 15469809--15469879 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
15469799 AAAATCTATA
15469809 AGTAATTTGCTTG-TAATCCATT
1 AGTAATTTG-TTGATAATCCATT
15469831 AGT-ATTATGTTGATAATCTC-TT
1 AGTAATT-TGTTGATAATC-CATT
*
15469853 AGTAA-TTGATTGATAATCGATT
1 AGTAATTTG-TTGATAATCCATT
15469875 AGTAA
1 AGTAA
15469880 ATGGTGCTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
21 8 0.19
22 32 0.76
23 2 0.05
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.44
Consensus pattern (22 bp):
AGTAATTTGTTGATAATCCATT
Found at i:15471216 original size:160 final size:160
Alignment explanation
Indices: 15470952--15471249 Score: 395
Period size: 160 Copynumber: 1.9 Consensus size: 160
15470942 TAGAAAATAT
* * * *
15470952 TATCTAGTTCAATACTAAATTTTCTATAATGTATAGGCTTTCAATTACTACACTATCTATTTCAT
1 TATCTAGTTCAATACTAAATTTCCTACAATGTATAGGCTTTCAATTACTAAACTATCTATGTCAT
* ** * * *
15471017 TAACAACCACAACACACAAGTAGAATCATAAAGTAAAATA-AGCAATAATTTTCA-CTTTTTACA
66 CAACAACCACAACACACAACCAAAATCACAAAGTAAAATACA-CAATAATTTTCATC-TTTGACA
15471080 AATGTGATCTCATCTTAATATGCATAAAACAC
129 AATGTGATCTCATCTTAATATGCATAAAACAC
* * *
15471112 TATCTAGTTCAATATTTAATTTCCTACAATG-ACTAGGCTTTTAATTACTAAACTATCTATGTCA
1 TATCTAGTTCAATACTAAATTTCCTACAATGTA-TAGGCTTTCAATTACTAAACTATCTATGTCA
* * * *
15471176 TCAACAATCACAATACACAACCAAAATCACAAAGTAAAATACATAATAGTTTTCATCTTTGACAA
65 TCAACAACCACAACACACAACCAAAATCACAAAGTAAAATACACAATAATTTTCATCTTTGACAA
15471241 ATGTGATCT
130 ATGTGATCT
15471250 AATTGCAATA
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
159 1 0.01
160 115 0.97
161 2 0.02
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.34
Consensus pattern (160 bp):
TATCTAGTTCAATACTAAATTTCCTACAATGTATAGGCTTTCAATTACTAAACTATCTATGTCAT
CAACAACCACAACACACAACCAAAATCACAAAGTAAAATACACAATAATTTTCATCTTTGACAAA
TGTGATCTCATCTTAATATGCATAAAACAC
Found at i:15476171 original size:148 final size:148
Alignment explanation
Indices: 15475966--15476268 Score: 588
Period size: 148 Copynumber: 2.0 Consensus size: 148
15475956 GACAATCATG
*
15475966 ACTTCTTATCCTATAAAACTTGCAATAAGCCATGTTAACATACTAAGTTATGTTAAATGCAAAAC
1 ACTTTTTATCCTATAAAACTTGCAATAAGCCATGTTAACATACTAAGTTATGTTAAATGCAAAAC
15476031 CATCAAGAAGTTTTAATTGTTTAACCTATGCATAAACATCTCTTATATACTTTTTGCTTGTGTAC
66 CATCAAGAAGTTTTAATTGTTTAACCTATGCATAAACATCTCTTATATACTTTTTGCTTGTGTAC
15476096 GAAGCTTTAGGTGTGAAA
131 GAAGCTTTAGGTGTGAAA
15476114 ACTTTTTATCCTATAAAACTTGCAATAAGCCATGTTAACATACTAAGTTATGTTAAATGCAAAAC
1 ACTTTTTATCCTATAAAACTTGCAATAAGCCATGTTAACATACTAAGTTATGTTAAATGCAAAAC
*
15476179 CATCAAGAAGTTTTAATTGTTTAACCTATGCATAAACATCTCTTATATGCTTTTTGCTTGTGTAC
66 CATCAAGAAGTTTTAATTGTTTAACCTATGCATAAACATCTCTTATATACTTTTTGCTTGTGTAC
15476244 GAAGCTTTAGGTGTGAAA
131 GAAGCTTTAGGTGTGAAA
15476262 ACTTTTT
1 ACTTTTT
15476269 CATTCCTTTC
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
148 153 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.38
Consensus pattern (148 bp):
ACTTTTTATCCTATAAAACTTGCAATAAGCCATGTTAACATACTAAGTTATGTTAAATGCAAAAC
CATCAAGAAGTTTTAATTGTTTAACCTATGCATAAACATCTCTTATATACTTTTTGCTTGTGTAC
GAAGCTTTAGGTGTGAAA
Found at i:15478183 original size:21 final size:21
Alignment explanation
Indices: 15478159--15478202 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
15478149 TGTATGCTTT
15478159 GGAGGCATATTGACAAACAAA
1 GGAGGCATATTGACAAACAAA
15478180 GGAGGCATATTGACAAACAAA
1 GGAGGCATATTGACAAACAAA
15478201 GG
1 GG
15478203 CTTAAAAGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.14, G:0.27, T:0.14
Consensus pattern (21 bp):
GGAGGCATATTGACAAACAAA
Found at i:15478645 original size:20 final size:21
Alignment explanation
Indices: 15478600--15478645 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
15478590 GTTCAAATAA
15478600 ATAAAAAAAAAACATTTCAAC
1 ATAAAAAAAAAACATTTCAAC
* * *
15478621 TTAAAAAAAGAA-ATTTCTAC
1 ATAAAAAAAAAACATTTCAAC
15478641 ATAAA
1 ATAAA
15478646 TTCAATCCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.63, C:0.11, G:0.02, T:0.24
Consensus pattern (21 bp):
ATAAAAAAAAAACATTTCAAC
Found at i:15480784 original size:41 final size:40
Alignment explanation
Indices: 15480739--15480822 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
15480729 ATAATTTAAC
* *
15480739 AAAAACAATATTT-TAAAAATAGAAAATGCAGTTTTTATTGA
1 AAAAACAACATTTCT-AAAATA-AAAATGCAGTCTTTATTGA
* * *
15480780 AAAAATAACATTTCTAAAATAAAAATGTAGTCTTTGTTGA
1 AAAAACAACATTTCTAAAATAAAAATGCAGTCTTTATTGA
15480820 AAA
1 AAA
15480823 GAAGAAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
40 19 0.51
41 17 0.46
42 1 0.03
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.33
Consensus pattern (40 bp):
AAAAACAACATTTCTAAAATAAAAATGCAGTCTTTATTGA
Found at i:15480963 original size:71 final size:72
Alignment explanation
Indices: 15480798--15480967 Score: 193
Period size: 71 Copynumber: 2.4 Consensus size: 72
15480788 CATTTCTAAA
* **
15480798 ATAAAAATGTAGTCTTTGTTGAAAAGAAGAAAAAAAATATTTTTTAAAATTCAATAAAGATAGCG
1 ATAAAAATGTAGT-TTTGTTGAAAAGAAGAAAAAAAATATTATCGAAAATTCAATAAAGATAGCG
15480863 TTTTTAAG
65 TTTTTAAG
** * * * * *
15480871 ATAAAAA-ACAGTTTTTGTTGAAAA-CATAAAAAAAATATTATCGAGATTTCAATAAAGAT-GAT
1 ATAAAAATGTAG-TTTTGTTGAAAAGAAGAAAAAAAATATTATCGAAAATTCAATAAAGATAG-C
15480933 GTTTTTAAG
64 GTTTTTAAG
*
15480942 ATAAAAATGTAGTTTTATTGAAAAGA
1 ATAAAAATGTAGTTTTGTTGAAAAGA
15480968 CAACTTTTCT
Statistics
Matches: 79, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
70 1 0.01
71 55 0.70
72 15 0.19
73 8 0.10
ACGTcount: A:0.48, C:0.04, G:0.14, T:0.34
Consensus pattern (72 bp):
ATAAAAATGTAGTTTTGTTGAAAAGAAGAAAAAAAATATTATCGAAAATTCAATAAAGATAGCGT
TTTTAAG
Found at i:15481099 original size:37 final size:37
Alignment explanation
Indices: 15481027--15481099 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
15481017 AAATAAAAAG
** *
15481027 TAAAATATTTTTACTTAATATTATTACATATAAAATC
1 TAAAATACATTTACTTAATATTATTACACATAAAATC
*
15481064 TAAAATACATTTACTTAATATTATTATACATAAAAT
1 TAAAATACATTTACTTAATATTATTACACATAAAAT
15481100 TTGTTCCAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (37 bp):
TAAAATACATTTACTTAATATTATTACACATAAAATC
Found at i:15483038 original size:15 final size:13
Alignment explanation
Indices: 15482997--15483031 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
15482987 ATATAATTTA
15482997 AAAATAA-TATAAT
1 AAAATAATTA-AAT
15483010 AAAATAATTAAAT
1 AAAATAATTAAAT
15483023 AAAATAATT
1 AAAATAATT
15483032 TTAAATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 19 0.90
14 2 0.10
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATAATTAAAT
Found at i:15492464 original size:12 final size:12
Alignment explanation
Indices: 15492449--15492478 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15492439 AATTTACAAA
15492449 AAAAAAAAAAAG
1 AAAAAAAAAAAG
*
15492461 AAAAAGAAAAAG
1 AAAAAAAAAAAG
15492473 AAAAAA
1 AAAAAA
15492479 TAGTGGAGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Done.