Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, 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: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 60 of 62
Found at i:14457132 original size:15 final size:15
Alignment explanation
Indices: 14457080--14457414 Score: 97
Period size: 15 Copynumber: 22.9 Consensus size: 15
14457070 ATTGAAAAAA
*
14457080 ATATAATATATATA-T
1 ATAT-ATATATAAACT
*
14457095 ATATATATATATA-T
1 ATATATATATAAACT
14457109 ATATATATATAAACT
1 ATATATATATAAACT
14457124 ATATTTATATTATAAACT
1 ATA--TATA-TATAAACT
*
14457142 ATATA-AT-T--ATT
1 ATATATATATAAACT
*
14457153 ATAAGCTATATATAAATT
1 AT-A--TATATATAAACT
* * * *
14457171 ATGTTTATGTGAACT
1 ATATATATATAAACT
14457186 ATATATATATAAAC-
1 ATATATATATAAACT
*
14457200 -TATGTATATAAACT
1 ATATATATATAAACT
*
14457214 ATATATGTAT-AA--
1 ATATATATATAAACT
*
14457226 A-ATATA-A-AAAGT
1 ATATATATATAAACT
* *
14457238 ATATAGTTTATAAAAT
1 ATATA-TATATAAACT
* *
14457254 ATTATTTATATTAA-T
1 A-TATATATATAAACT
*
14457269 ATAGTATATATATA-T
1 ATA-TATATATAAACT
* *
14457284 GTATGTATATAAACT
1 ATATATATATAAACT
* *
14457299 CTATATGTATAAACT
1 ATATATATATAAACT
* * *
14457314 ATATAAAATATATAGT
1 ATAT-ATATATAAACT
* **
14457330 TTATATATTATAATTT
1 ATATATA-TATAAACT
*
14457346 ATAT-TAATATAGTA-T
1 ATATAT-ATATA-AACT
*
14457361 ATATATATGTATAACT
1 ATATATATATA-AACT
14457377 A-ATATA-ACT-AA-T
1 ATATATATA-TAAACT
*
14457389 ATATATATATATA-T
1 ATATATATATAAACT
14457403 ATATATAT-TAAA
1 ATATATATATAAA
14457415 GAAATACTAT
Statistics
Matches: 239, Mismatches: 48, Indels: 68
0.67 0.14 0.19
Matches are distributed among these distances:
10 3 0.01
11 8 0.03
12 5 0.02
13 27 0.11
14 49 0.21
15 88 0.37
16 36 0.15
17 7 0.03
18 16 0.07
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.44
Consensus pattern (15 bp):
ATATATATATAAACT
Found at i:14457209 original size:13 final size:13
Alignment explanation
Indices: 14457191--14457215 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14457181 GAACTATATA
14457191 TATATAAACTATG
1 TATATAAACTATG
14457204 TATATAAACTAT
1 TATATAAACTAT
14457216 ATATGTATAA
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:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (13 bp):
TATATAAACTATG
Found at i:14457304 original size:85 final size:85
Alignment explanation
Indices: 14457077--14457372 Score: 293
Period size: 85 Copynumber: 3.5 Consensus size: 85
14457067 AAAATTGAAA
* * * *
14457077 AAAATATAATATATA-T-ATATA-TATATATATATATATATATATAAACTATATTTATATTATAA
1 AAAATATAATTTATATTAATATAGTATATATATATGTATGTATATAAACTATA--TAT-GTATAA
* * *
14457139 ACTATAT-AATTATTATAAGCTATAT
63 AATATATAAAATA-TAT-AG-TTTAT
* * * **
14457164 ATAAAT-TATGTTTATGTGAACTATA-TATATATA-AACTATGTATATAAACTATATATGTATAA
1 A-AAATATA-ATTTATATTAA-TATAGTATATATATATGTATGTATATAAACTATATATGTATAA
14457226 AATATA-AAAAGTATATAGTTTAT
63 AATATATAAAA-TATATAGTTTAT
* * *
14457249 AAAATATTATTTATATTAATATAGTATATATATATGTATGTATATAAACTCTATATGTATAAACT
1 AAAATATAATTTATATTAATATAGTATATATATATGTATGTATATAAACTATATATGTATAAAAT
14457314 ATATAAAATATATAGTTTAT
66 ATATAAAATATATAGTTTAT
* *
14457334 ATATTATAATTTATATTAATATAGTATATATATATGTAT
1 AAAATATAATTTATATTAATATAGTATATATATATGTAT
14457373 AACTAATATA
Statistics
Matches: 176, Mismatches: 22, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
83 4 0.02
84 20 0.11
85 85 0.48
86 6 0.03
87 18 0.10
88 13 0.07
90 18 0.10
91 12 0.07
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (85 bp):
AAAATATAATTTATATTAATATAGTATATATATATGTATGTATATAAACTATATATGTATAAAAT
ATATAAAATATATAGTTTAT
Found at i:14457349 original size:32 final size:32
Alignment explanation
Indices: 14457300--14457407 Score: 98
Period size: 31 Copynumber: 3.4 Consensus size: 32
14457290 ATATAAACTC
* *
14457300 TATATGTATA-AAC-TATATAAAATATATAGTT
1 TATATATATATAACTTATATAAAATATATA-TA
* *
14457331 TATATAT-TATAATTTATAT-TAATATAGTATA
1 TATATATATATAACTTATATAAAATATA-TATA
* *
14457362 TATATATGTATAACTAATATAACTAATATATATA
1 TATATATATATAACTTATATAA--AATATATATA
14457396 TATATATATATA
1 TATATATATATA
14457408 TATTAAAGAA
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
30 2 0.03
31 22 0.35
32 17 0.27
34 15 0.24
35 6 0.10
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (32 bp):
TATATATATATAACTTATATAAAATATATATA
Found at i:14457474 original size:7 final size:7
Alignment explanation
Indices: 14457464--14457509 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
14457454 TAGTTTATAA
14457464 AAACCCT
1 AAACCCT
14457471 AAACCCT
1 AAACCCT
*
14457478 AAACCTT
1 AAACCCT
* *
14457485 AAAACAT
1 AAACCCT
14457492 AAACCCT
1 AAACCCT
*
14457499 AAATCCT
1 AAACCCT
14457506 AAAC
1 AAAC
14457510 TTTATAAACT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (7 bp):
AAACCCT
Found at i:14457496 original size:28 final size:29
Alignment explanation
Indices: 14457464--14457518 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
14457454 TAGTTTATAA
14457464 AAACCCTAAACCCTAAACCTTA-AAACAT
1 AAACCCTAAACCCTAAACCTTATAAACAT
* *
14457492 AAACCCTAAATCCTAAACTTTATAAAC
1 AAACCCTAAACCCTAAACCTTATAAAC
14457519 TATATATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (29 bp):
AAACCCTAAACCCTAAACCTTATAAACAT
Found at i:14457691 original size:35 final size:36
Alignment explanation
Indices: 14457621--14457694 Score: 105
Period size: 37 Copynumber: 2.1 Consensus size: 36
14457611 ACAATAGTTA
* *
14457621 ATATATGTAACTTATAGTATATGTATACATGTAAACT
1 ATATATGTAACTTATAGTACATGTATA-ATATAAACT
*
14457658 ATATATGTAACTTATAGTACATGTAT-GTATAAACT
1 ATATATGTAACTTATAGTACATGTATAATATAAACT
14457693 AT
1 AT
14457695 GTATAGTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 9 0.26
37 25 0.74
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.41
Consensus pattern (36 bp):
ATATATGTAACTTATAGTACATGTATAATATAAACT
Found at i:14457709 original size:2 final size:2
Alignment explanation
Indices: 14457702--14457735 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
14457692 TATGTATAGT
14457702 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14457736 AACCATATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14457828 original size:7 final size:7
Alignment explanation
Indices: 14457818--14457856 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
14457808 ATAGTTTATA
14457818 AAACCCT
1 AAACCCT
14457825 AAACCCT
1 AAACCCT
*
14457832 AAA-TCT
1 AAACCCT
14457838 CAAACCCT
1 -AAACCCT
14457846 AAACCCT
1 AAACCCT
14457853 AAAC
1 AAAC
14457857 ACTATACATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 2 0.07
7 24 0.86
8 2 0.07
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (7 bp):
AAACCCT
Found at i:14458101 original size:21 final size:21
Alignment explanation
Indices: 14458075--14458127 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
14458065 TAGTGTACTA
* *
14458075 TATAGTTTATACTTTATAACC
1 TATAGTTTATAATTTATAAAC
*
14458096 TATAGTATATAATTTATAAAC
1 TATAGTTTATAATTTATAAAC
14458117 TATAGTTTATA
1 TATAGTTTATA
14458128 TTAATGTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.47
Consensus pattern (21 bp):
TATAGTTTATAATTTATAAAC
Found at i:14458144 original size:22 final size:21
Alignment explanation
Indices: 14458058--14458156 Score: 76
Period size: 22 Copynumber: 4.6 Consensus size: 21
14458048 ATCAATAGTT
*
14458058 TTTATATTAGTGTACTATATAG
1 TTTATATTAATGTAC-ATATAG
* * *
14458080 TTTATACTTTAT-AACCTATAG
1 TTTATA-TTAATGTACATATAG
* * **
14458101 TATATAATTTATAAAC-TATAG
1 TTTAT-ATTAATGTACATATAG
14458122 TTTATATTAATGTACTATATAG
1 TTTATATTAATGTAC-ATATAG
14458144 TTTATATTAATGT
1 TTTATATTAATGT
14458157 TAATTATCTT
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
20 7 0.11
21 23 0.37
22 30 0.48
23 3 0.05
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.49
Consensus pattern (21 bp):
TTTATATTAATGTACATATAG
Found at i:14458234 original size:21 final size:21
Alignment explanation
Indices: 14458185--14458235 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 21
14458175 TTTATATTAA
* *
14458185 TATAGTATATAGTTTATAAAC
1 TATAGTTTATAGTTAATAAAC
14458206 TATA--TTATA-TTAATATAAC
1 TATAGTTTATAGTTAATA-AAC
14458225 TATAGTTTATA
1 TATAGTTTATA
14458236 AACTATACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 5 0.20
19 11 0.44
21 9 0.36
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (21 bp):
TATAGTTTATAGTTAATAAAC
Found at i:14458293 original size:121 final size:122
Alignment explanation
Indices: 14458103--14458344 Score: 314
Period size: 121 Copynumber: 2.0 Consensus size: 122
14458093 ACCTATAGTA
* * * * *
14458103 TATAATTTATAAACTATAGTTTATATTAATGTACTATATAGTTTATATTAATGTTAATTATCTTA
1 TATAATTTATAAACTATACTATATATTAATGAACTATATAGTTTATATTAATATTAATTATCATA
* **
14458168 ACTATAATTTATATTAATA-TAGTATATAGTTTATAAACTATATTATATTAATATAAC
66 ACTATAATTTATATTAATATTAAT-TATAAATTATAAACTATATTATATTAATATAAC
* *
14458225 TATAGTTTATAAACTATACTATATAATTTAT-AAC-ATATAGTTTATATTAATATTAATGT-T-A
1 TATAATTTATAAACTATACTATAT-ATTAATGAACTATATAGTTTATATTAATATTAAT-TATCA
*
14458286 TAGACTATATTTTATATTAATATTAATTATAAATTATAAACTATATTATATTAATATAA
64 TA-ACTATAATTTATATTAATATTAATTATAAATTATAAACTATATTATATTAATATAA
14458345 GTTAATATTA
Statistics
Matches: 105, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
120 2 0.02
121 71 0.68
122 27 0.26
123 5 0.05
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (122 bp):
TATAATTTATAAACTATACTATATATTAATGAACTATATAGTTTATATTAATATTAATTATCATA
ACTATAATTTATATTAATATTAATTATAAATTATAAACTATATTATATTAATATAAC
Found at i:14458300 original size:31 final size:30
Alignment explanation
Indices: 14458138--14458317 Score: 106
Period size: 31 Copynumber: 6.0 Consensus size: 30
14458128 TTAATGTACT
* *
14458138 ATATAGTTTATATTAATGTTAATTATCTTAAC
1 ATATAGTTTATATTAATATTAATT-T-ATAAC
* * * **
14458170 -TATAATTTATATTAATA-TAGTATATAGT
1 ATATAGTTTATATTAATATTAATTTATAAC
* ***
14458198 TTATAAACTATATT-ATATTAA--TATAAC
1 ATATAGTTTATATTAATATTAATTTATAAC
*
14458225 -TATAGTTTATAAACTATACTATATAATTTATAAC
1 ATATAGTTTAT--A-T-TAATAT-TAATTTATAAC
14458259 ATATAGTTTATATTAATATTAATGTTATAGAC
1 ATATAGTTTATATTAATATTAAT-TTATA-AC
*
14458291 -TATATTTTATATTAATATTAA-TTATAA
1 ATATAGTTTATATTAATATTAATTTATAA
14458318 ATTATAAACT
Statistics
Matches: 117, Mismatches: 18, Indels: 30
0.71 0.11 0.18
Matches are distributed among these distances:
26 7 0.06
27 4 0.03
28 7 0.06
29 20 0.17
30 8 0.07
31 48 0.41
32 6 0.05
33 1 0.01
34 6 0.05
35 10 0.09
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (30 bp):
ATATAGTTTATATTAATATTAATTTATAAC
Found at i:14458354 original size:16 final size:14
Alignment explanation
Indices: 14458145--14458393 Score: 96
Period size: 15 Copynumber: 16.3 Consensus size: 14
14458135 ACTATATAGT
*
14458145 TTATATTAATGTTAA
1 TTATATTAAT-ATAA
*
14458160 TTATCTTAACTATAA
1 TTATATTAA-TATAA
*
14458175 TTTATATTAATATAG
1 -TTATATTAATATAA
*
14458190 TATATAGTTTATAAACTATA
1 T-TATA--TTA-ATA-TA-A
14458210 TTATATTAATATAA
1 TTATATTAATATAA
* *
14458224 CTATAGTTTATA-AA
1 TTATA-TTAATATAA
* *
14458238 CTATACT-ATATAA
1 TTATATTAATATAA
* *
14458251 TT-TATAACATATAGT
1 TTATATTA-ATATA-A
14458266 TTATATTAATATTAA
1 TTATATTAATA-TAA
*
14458281 TGT-TA-TAGACTATATT
1 T-TATATTA-A-TATA-A
14458297 TTATATTAATATTAA
1 TTATATTAATA-TAA
*
14458312 TTATAAATTATAAACTATA
1 TTAT--ATTA-ATA-TA-A
14458331 TTATATTAATATAA
1 TTATATTAATATAA
14458345 GTTAATATTAATATTAA
1 -TT-ATATTAATA-TAA
14458362 TTATATTAATATCAA
1 TTATATTAATAT-AA
*
14458377 TTATAAT-ATATAA
1 TTATATTAATATAA
14458390 TTAT
1 TTAT
14458394 TAAAATATTA
Statistics
Matches: 182, Mismatches: 22, Indels: 62
0.68 0.08 0.23
Matches are distributed among these distances:
12 5 0.03
13 10 0.05
14 26 0.14
15 65 0.36
16 39 0.21
17 19 0.10
18 6 0.03
19 11 0.06
20 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (14 bp):
TTATATTAATATAA
Found at i:14458368 original size:31 final size:34
Alignment explanation
Indices: 14458297--14458410 Score: 98
Period size: 34 Copynumber: 3.4 Consensus size: 34
14458287 AGACTATATT
* *
14458297 TTATATTAATATTAATTATAA-ATTATAA--ACTATA
1 TTATATTAATA-TAAGTATAATA-TATAATTATTA-A
14458331 TTATATTAATATAAGT-TAATAT-TAA-TATTAA
1 TTATATTAATATAAGTATAATATATAATTATTAA
*
14458362 TTATATTAATATCAATTATAATATATAATTATTAA
1 TTATATTAATAT-AAGTATAATATATAATTATTAA
*
14458397 -AATATTAATTATAA
1 TTATATTAA-TATAA
14458411 ATAGTTAATT
Statistics
Matches: 69, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
31 16 0.23
32 10 0.14
33 11 0.16
34 23 0.33
35 9 0.13
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (34 bp):
TTATATTAATATAAGTATAATATATAATTATTAA
Found at i:14458400 original size:28 final size:27
Alignment explanation
Indices: 14458353--14458427 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 27
14458343 AAGTTAATAT
*
14458353 TAATAT-TAATTATATTAATATCAATTA
1 TAATATATAATTATA-AAATATCAATTA
*
14458380 TAATATATAATTATTAAAATATTAATTA
1 TAATATATAATTA-TAAAATATCAATTA
14458408 TAA-ATAGTTAATTAATAAAA
1 TAATATA--TAATT-ATAAAA
14458428 AATGTATAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
27 9 0.22
28 19 0.46
29 12 0.29
30 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (27 bp):
TAATATATAATTATAAAATATCAATTA
Found at i:14458407 original size:15 final size:14
Alignment explanation
Indices: 14458354--14458427 Score: 71
Period size: 15 Copynumber: 5.1 Consensus size: 14
14458344 AGTTAATATT
*
14458354 AATATTAATTATATT
1 AATATTAATTATA-A
*
14458369 AATATCAATTATAA
1 AATATTAATTATAA
*
14458383 TATA-TAATTATTAA
1 AATATTAATTA-TAA
14458397 AATATTAATTAT-A
1 AATATTAATTATAA
14458410 AATAGTTAATTAATAA
1 AATA-TTAATT-ATAA
14458426 AA
1 AA
14458428 AATGTATAGG
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
13 10 0.20
14 16 0.33
15 20 0.41
16 3 0.06
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (14 bp):
AATATTAATTATAA
Found at i:14459673 original size:102 final size:102
Alignment explanation
Indices: 14459497--14459725 Score: 404
Period size: 102 Copynumber: 2.2 Consensus size: 102
14459487 CTGAAATAGG
** *
14459497 TAAATAAACTGTTTAATTTGTTTCTACTGTTGATTTGTTTGTGTTATTGGTTGTTCATTCGGATT
1 TAAATAAACTGTTTAATTTGTAGCTACTATTGATTTGTTTGTGTTATTGGTTGTTCATTCGGATT
* *
14459562 GCTTTTATAAGGTTGTTAGCTGCCTTTATTTACAGTT
66 ACTTTTATAAGGTTGTTAGCTGCCTTAATTTACAGTT
*
14459599 TAAATAAACTGTTTAATTTGTAGCTACTATTGATTTGTTTGTGTTGTTGGTTGTTCATTCGGATT
1 TAAATAAACTGTTTAATTTGTAGCTACTATTGATTTGTTTGTGTTATTGGTTGTTCATTCGGATT
14459664 ACTTTTATAAGGTTGTTAGCTGCCTTAATTTACAGTT
66 ACTTTTATAAGGTTGTTAGCTGCCTTAATTTACAGTT
14459701 TAAATAAACTGTTTAATTTGTAGCT
1 TAAATAAACTGTTTAATTTGTAGCT
14459726 TCTGTTGGTT
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 121 1.00
ACGTcount: A:0.23, C:0.10, G:0.18, T:0.50
Consensus pattern (102 bp):
TAAATAAACTGTTTAATTTGTAGCTACTATTGATTTGTTTGTGTTATTGGTTGTTCATTCGGATT
ACTTTTATAAGGTTGTTAGCTGCCTTAATTTACAGTT
Found at i:14462305 original size:20 final size:20
Alignment explanation
Indices: 14462262--14462310 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
14462252 TGTTGTTGCA
* *
14462262 TGCTGCTACTTCCTACTACT
1 TGCTGCTGCTTCCTACTACC
*
14462282 TGCTGCTGCTTCCTATTACC
1 TGCTGCTGCTTCCTACTACC
*
14462302 TGCTACTGC
1 TGCTGCTGC
14462311 CTGCTGCTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.12, C:0.35, G:0.14, T:0.39
Consensus pattern (20 bp):
TGCTGCTGCTTCCTACTACC
Found at i:14462917 original size:14 final size:14
Alignment explanation
Indices: 14462898--14462944 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
14462888 ATTTTTTCTT
14462898 TATATAAATTAAAC
1 TATATAAATTAAAC
14462912 TATAT-AATT----
1 TATATAAATTAAAC
14462921 TATATAAATTAAAC
1 TATATAAATTAAAC
*
14462935 TATATTAATT
1 TATATAAATT
14462945 TTTCTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:14462923 original size:23 final size:24
Alignment explanation
Indices: 14462896--14462945 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
14462886 TTATTTTTTC
14462896 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
14462919 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
14462943 TTT
1 TTT
14462946 TTCTTTGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:14463016 original size:13 final size:13
Alignment explanation
Indices: 14462984--14463010 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14462974 TAATTTACAT
14462984 TTAAATAATTTTA
1 TTAAATAATTTTA
14462997 TTAAATAATTTTA
1 TTAAATAATTTTA
14463010 T
1 T
14463011 ATAATAGGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:14463238 original size:16 final size:16
Alignment explanation
Indices: 14463217--14463260 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
14463207 CATGTTAGGT
14463217 TAAAAACAGGTCAGGC
1 TAAAAACAGGTCAGGC
*
14463233 TAAAAACAGGTCAGGT
1 TAAAAACAGGTCAGGC
*
14463249 TGAAAACAGGTC
1 TAAAAACAGGTC
14463261 GGGTAATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.43, C:0.16, G:0.25, T:0.16
Consensus pattern (16 bp):
TAAAAACAGGTCAGGC
Found at i:14464935 original size:3 final size:3
Alignment explanation
Indices: 14464929--14464957 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
14464919 AATTATAAAA
14464929 ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14464958 TACTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:14471354 original size:2 final size:2
Alignment explanation
Indices: 14471349--14471378 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
14471339 CTAACAAAAA
14471349 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14471379 CAATAAAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14472831 original size:61 final size:61
Alignment explanation
Indices: 14472680--14472977 Score: 305
Period size: 60 Copynumber: 4.8 Consensus size: 61
14472670 AACAATACAA
* * * * *
14472680 CACAAGATTGGATTTCAACTTCACAACGAAGAATATCCAACTTAAAGTCAATTCGGTAAAG
1 CACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAG
* ** * * * ***
14472741 TAGTA-CTTGGATTTCAACTTCATAGCGAAGGATATCCAACTCAAAGTTGATTTGGTGAAG
1 CACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAG
14472801 CACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAA-
1 CACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAG
* * * *
14472861 -ACAATACTTAGATTTCAACTTCACAACGAAGGATATCCAACCCAAAGCCAATTTGGCGAAGTG
1 CACAAGA-TTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAA--G
* * *
14472924 TTACAACTCGAGATTGGATTTCAACTTCACAACGAAGGATATCTAACTCGAAGC
1 ---C-A--CAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGC
14472978 TCAACTTCAC
Statistics
Matches: 194, Mismatches: 31, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
59 5 0.03
60 98 0.51
61 50 0.26
68 1 0.01
69 37 0.19
70 3 0.02
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (61 bp):
CACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAG
Found at i:14472853 original size:121 final size:123
Alignment explanation
Indices: 14472680--14472977 Score: 359
Period size: 121 Copynumber: 2.4 Consensus size: 123
14472670 AACAATACAA
* * * * *
14472680 CACAAGATTGGATTTCAACTTCACAACGAAGAATATCCAACTTAAAGTCAATTCGGT-AAAGTAG
1 CACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTCGGTGAAA-CAA
* * * * *** *
14472744 TACTTGGATTTCAACTTCATAGCGAAGGATATCCAACTCAAAGTTGATTTGGTGAA-G-
65 TACTTAGATTTCAACTTCACAACGAAGGATATCCAACCCAAAGCCAATTTGGCGAAGGT
*
14472801 CACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAACAAT
1 CACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTCGGTGAAACAAT
14472866 ACTTAGATTTCAACTTCACAACGAAGGATATCCAACCCAAAGCCAATTTGGCGAAGTGTT
66 ACTTAGATTTCAACTTCACAACGAAGGATATCCAACCCAAAGCCAATTTGGCGAAG-G-T
* * *
14472926 ACAACTCGAGATTGGATTTCAACTTCACAACGAAGGATATCTAACTCGAAGC
1 -C-A--CAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGC
14472978 TCAACTTCAC
Statistics
Matches: 151, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
121 102 0.68
122 3 0.02
123 1 0.01
126 1 0.01
127 1 0.01
129 43 0.28
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (123 bp):
CACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTCGGTGAAACAAT
ACTTAGATTTCAACTTCACAACGAAGGATATCCAACCCAAAGCCAATTTGGCGAAGGT
Found at i:14473426 original size:48 final size:48
Alignment explanation
Indices: 14473374--14473481 Score: 146
Period size: 48 Copynumber: 2.2 Consensus size: 48
14473364 CCTCGTCACG
* * *
14473374 TAGGAACCGTGTTATCA-TCCTTAAAGATGGCCCGTCCTCCTCGACATA
1 TAGGAACCGTGTTATCATTCC-TAAAGATGGCACGTCCTCCTCCACACA
* * *
14473422 TAGGAACCGTGTTATCATTCCTAAAGATGGCATGTCCTCCTCCTCACG
1 TAGGAACCGTGTTATCATTCCTAAAGATGGCACGTCCTCCTCCACACA
14473470 TAGGAACCGTGT
1 TAGGAACCGTGT
14473482 CATCTTCGCC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 50 0.94
49 3 0.06
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
TAGGAACCGTGTTATCATTCCTAAAGATGGCACGTCCTCCTCCACACA
Found at i:14481757 original size:20 final size:20
Alignment explanation
Indices: 14481716--14481760 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
14481706 TGGAAGCTTG
*
14481716 GTATCGATATCGAATGCTTA
1 GTATCGATATCGAATACTTA
*
14481736 GTATCGATATCAGTATAC-TA
1 GTATCGATATC-GAATACTTA
14481756 GTATC
1 GTATC
14481761 CATACCAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (20 bp):
GTATCGATATCGAATACTTA
Found at i:14484203 original size:17 final size:20
Alignment explanation
Indices: 14484160--14484207 Score: 68
Period size: 17 Copynumber: 2.6 Consensus size: 20
14484150 CCCCTATGGG
14484160 GAGTATCGATACTCTACCTT
1 GAGTATCGATACTCTACCTT
14484180 G-GTATCGATACT-T-CC-T
1 GAGTATCGATACTCTACCTT
14484196 GAGTATCGATAC
1 GAGTATCGATAC
14484208 CAAAAATAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 2 0.07
17 12 0.44
18 1 0.04
19 11 0.41
20 1 0.04
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (20 bp):
GAGTATCGATACTCTACCTT
Found at i:14484213 original size:100 final size:100
Alignment explanation
Indices: 14484073--14484315 Score: 396
Period size: 100 Copynumber: 2.4 Consensus size: 100
14484063 CGATGCTGAC
*
14484073 CCTTGGGTATCGATACTCACCCTGAGTATAGATACCAAAAATAGCTTCGATGTTTTCGAAATACC
1 CCTT-GGTATCGATACT--TCCTGAGTATAGATACCAAAAATAGCTTCGATGTTTTCGAAATACC
14484138 TCAATATCGATGCCCCTATGGGGAGTATCGATACTCTA
63 TCAATATCGATGCCCCTATGGGGAGTATCGATACTCTA
* *
14484176 CCTTGGTATCGATACTTCCTGAGTATCGATACCAAAAATAGCTTCGATGTTTTCGAAATACCTTA
1 CCTTGGTATCGATACTTCCTGAGTATAGATACCAAAAATAGCTTCGATGTTTTCGAAATACCTCA
*
14484241 GTATCGATGCCCCTATGGGGAGTATCGATACTCTA
66 ATATCGATGCCCCTATGGGGAGTATCGATACTCTA
* *
14484276 CCTTGGTATCGATACTTCCTTGAGTATTGGTACCAAAAAT
1 CCTTGGTATCGATACTTCC-TGAGTATAGATACCAAAAAT
14484316 GGCTACTGGA
Statistics
Matches: 133, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
100 99 0.74
101 18 0.14
102 12 0.09
103 4 0.03
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (100 bp):
CCTTGGTATCGATACTTCCTGAGTATAGATACCAAAAATAGCTTCGATGTTTTCGAAATACCTCA
ATATCGATGCCCCTATGGGGAGTATCGATACTCTA
Found at i:14485094 original size:21 final size:20
Alignment explanation
Indices: 14485070--14485112 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
14485060 TTTAGGCATT
14485070 GATAATCAAGT-TGTTGGTATG
1 GATAATCAA-TCT-TTGGTATG
*
14485091 GATACTCAATCTTTGGTATG
1 GATAATCAATCTTTGGTATG
14485111 GA
1 GA
14485113 AGCCAGTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.28, C:0.09, G:0.26, T:0.37
Consensus pattern (20 bp):
GATAATCAATCTTTGGTATG
Found at i:14485144 original size:20 final size:20
Alignment explanation
Indices: 14485085--14485156 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
14485075 TCAAGTTGTT
*
14485085 GGTATGGATACTCAATCTTT-
1 GGTATGGAGAC-CAATCTTTC
*
14485105 GGTATGGA-AGCCAGTCTTTC
1 GGTATGGAGA-CCAATCTTTC
*
14485125 GGTATGGAGACCAATTTTTC
1 GGTATGGAGACCAATCTTTC
* *
14485145 GGAATAGAGACC
1 GGTATGGAGACC
14485157 CAGCGGTCTC
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 8 0.18
20 35 0.80
21 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (20 bp):
GGTATGGAGACCAATCTTTC
Found at i:14485475 original size:9 final size:9
Alignment explanation
Indices: 14485461--14485486 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
14485451 ACACTAGAAT
14485461 AACATCCAA
1 AACATCCAA
14485470 AACATCCAA
1 AACATCCAA
14485479 AACATCCA
1 AACATCCA
14485487 TAGCCATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.35, G:0.00, T:0.12
Consensus pattern (9 bp):
AACATCCAA
Found at i:14491373 original size:20 final size:20
Alignment explanation
Indices: 14491324--14491378 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
14491314 CTCCGATATA
**
14491324 GAGACCAATCGTTTGGTATG
1 GAGACCAATTTTTTGGTATG
14491344 GAGACCAATTTTTTGGTATG
1 GAGACCAATTTTTTGGTATG
14491364 GAGACCAATTTTTTG
1 GAGACCAATTTTTTG
14491379 TTATCAAGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.36
Consensus pattern (20 bp):
GAGACCAATTTTTTGGTATG
Found at i:14491388 original size:20 final size:20
Alignment explanation
Indices: 14491325--14491389 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
14491315 TCCGATATAG
** **
14491325 AGACCAATCGTTTGGTATGG
1 AGACCAATTTTTTGGTATCA
**
14491345 AGACCAATTTTTTGGTATGG
1 AGACCAATTTTTTGGTATCA
*
14491365 AGACCAATTTTTTGTTATCA
1 AGACCAATTTTTTGGTATCA
14491385 AGACC
1 AGACC
14491390 GAATATCTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (20 bp):
AGACCAATTTTTTGGTATCA
Found at i:14496111 original size:31 final size:32
Alignment explanation
Indices: 14496070--14496137 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
14496060 TTATAATAAG
* *
14496070 TATAAGAATTTGAT-AAATTTAATGATCT-TTT
1 TATAACAATTTGATAAAATTTAATAAT-TATTT
14496101 TATAACAATTTGATAAAATTTAATAATTATTT
1 TATAACAATTTGATAAAATTTAATAATTATTT
14496133 TATAA
1 TATAA
14496138 ATATTAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 14 0.42
32 19 0.58
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (32 bp):
TATAACAATTTGATAAAATTTAATAATTATTT
Found at i:14498786 original size:6 final size:6
Alignment explanation
Indices: 14498775--14498823 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
14498765 GACACGTATT
* *
14498775 ACCACG ACCACG ACCACG ACCACG ACCTCG ACCTCG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
14498823 A
1 A
14498824 GCCGAGCCGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.31, C:0.49, G:0.16, T:0.04
Consensus pattern (6 bp):
ACCACG
Found at i:14498831 original size:5 final size:5
Alignment explanation
Indices: 14498821--14498874 Score: 72
Period size: 5 Copynumber: 10.8 Consensus size: 5
14498811 ACCACGACCA
* * * *
14498821 CGAGC CGAGC CGAGC CGAGC CGTGC CGTGC CGTGC CGAGC CGAGC CGAGA
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC
14498871 CGAG
1 CGAG
14498875 ACGGACGGAC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 46 1.00
ACGTcount: A:0.17, C:0.37, G:0.41, T:0.06
Consensus pattern (5 bp):
CGAGC
Found at i:14508373 original size:31 final size:31
Alignment explanation
Indices: 14508337--14508395 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
14508327 AACTTAAAAG
* *
14508337 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
14508368 AGTTTTACAATATTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
14508396 CCATACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:14508493 original size:22 final size:22
Alignment explanation
Indices: 14508420--14508484 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
14508410 TAATAAATTA
14508420 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
14508442 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
14508464 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
14508485 CTAATAAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:14508546 original size:80 final size:80
Alignment explanation
Indices: 14508410--14508762 Score: 543
Period size: 80 Copynumber: 4.4 Consensus size: 80
14508400 ACAACTACAA
* **
14508410 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATATTTTAAAA
1 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAA
14508471 TAAATCAATCCATAC
66 TAAATCAATCCATAC
*
14508486 TAATAAATTATTTAAAATAAATCAATCAATACAACTACAATAATAAATCAATCCATATTTTAAAA
1 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAA
14508551 TAAATCAATCCATAC
66 TAAATCAATCCATAC
* * *
14508566 AAATAAATTATTTAAAATAAATCAATCCATACTACTAAATTATTTAAAATAAATCAATCCATATT
1 TAATAAATTATTTAAAATAAATCAATCCATACAACTACA--A--T--AATAAATCAATCCATATT
*
14508631 TTAAAATTAATCAATCCATAC
60 TTAAAATAAATCAATCCATAC
14508652 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAA
1 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAA
*
14508717 TAAATCAATTCATAC
66 TAAATCAATCCATAC
14508732 TAATAAATTATTTAAAATAAATCAATCCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
14508763 TTTTAAAATA
Statistics
Matches: 253, Mismatches: 14, Indels: 16
0.89 0.05 0.06
Matches are distributed among these distances:
76 29 0.11
79 4 0.02
80 142 0.56
82 2 0.01
84 2 0.01
86 74 0.29
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (80 bp):
TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAA
TAAATCAATCCATAC
Found at i:14508573 original size:22 final size:22
Alignment explanation
Indices: 14508500--14508573 Score: 55
Period size: 22 Copynumber: 3.4 Consensus size: 22
14508490 AAATTATTTA
* *
14508500 AAATAAATCAATCAATACA-AC
1 AAATAAATAAATCAATCCATAC
14508521 TACAAT-AATAAATCAATCCATA-
1 -A-AATAAATAAATCAATCCATAC
***
14508543 TTTTAAAATAAATCAATCCATAC
1 AAAT-AAATAAATCAATCCATAC
14508566 AAATAAAT
1 AAATAAAT
14508574 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
20 1 0.03
22 33 0.85
23 5 0.13
ACGTcount: A:0.57, C:0.16, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATAAATCAATCCATAC
Found at i:14508625 original size:166 final size:166
Alignment explanation
Indices: 14508442--14508762 Score: 606
Period size: 166 Copynumber: 1.9 Consensus size: 166
14508432 CAATCCATAT
14508442 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
14508507 TCAATCAATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAA
66 TCAATCAATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAA
14508572 ATTATTTAAAATAAATCAATCCATACTACTAAATTA
131 ATTATTTAAAATAAATCAATCCATACTACTAAATTA
*
14508608 TTTAAAATAAATCAATCCATATTTTAAAATTAATCAATCCATACTAATAAATTATTTAAAATAAA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
* * *
14508673 TCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAA
66 TCAATCAATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAA
14508738 ATTATTTAAAATAAATCAATCCATA
131 ATTATTTAAAATAAATCAATCCATA
14508763 TTTTAAAATA
Statistics
Matches: 151, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
166 151 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.33
Consensus pattern (166 bp):
TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
TCAATCAATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAA
ATTATTTAAAATAAATCAATCCATACTACTAAATTA
Found at i:14508634 original size:22 final size:22
Alignment explanation
Indices: 14508608--14508650 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
14508598 TACTAAATTA
14508608 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
14508630 TTTAAAATTAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
14508651 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:14508634 original size:134 final size:131
Alignment explanation
Indices: 14508496--14509017 Score: 572
Period size: 134 Copynumber: 3.9 Consensus size: 131
14508486 TAATAAATTA
* *
14508496 TTTAAAATAAATCAATCAATAC-AACTACA-A-T-AATAAATCAATCCATATTTTAAAATAAATC
1 TTTAAAATAAATCAATCCATACTAA-TAAATATTAAATAAATCAATCCATATTTTAAAATAAATC
*
14508557 AATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTACTAAATTATTTAAAATAAATCA
65 AATCCAT-C-AAT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
14508622 ATCCATAT
124 ATCCATAT
* *** *
14508630 TTTAAAATTAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-A
1 TTTAAAATAAATCAATCCATACTAATAAA-TA-TT-AAATAAATCAATCCATA-TTTTAAAATAA
* * * *
14508694 ATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATC
62 ATCAATCCATCAATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATC
14508759 CATAT
127 CATAT
14508764 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAA
** *
14508829 TCAATATATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAAA
63 TCAATCCAT-C-AAT--A-T-TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAA
14508887 TCAATCCATAT
121 TCAATCCATAT
*
14508898 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCTATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAA
14508963 TCAAT-C--C-ATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
63 TCAATCCATCAATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
14509018 TATTTTAAAA
Statistics
Matches: 339, Mismatches: 26, Indels: 50
0.82 0.06 0.12
Matches are distributed among these distances:
124 25 0.07
125 3 0.01
126 2 0.01
128 3 0.01
130 8 0.02
133 5 0.01
134 221 0.65
135 4 0.01
136 5 0.01
138 5 0.01
139 4 0.01
140 49 0.14
141 5 0.01
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (131 bp):
TTTAAAATAAATCAATCCATACTAATAAATATTAAATAAATCAATCCATATTTTAAAATAAATCA
ATCCATCAATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA
T
Found at i:14508661 original size:22 final size:22
Alignment explanation
Indices: 14508610--14508658 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
14508600 CTAAATTATT
* **
14508610 TAAAATAAATCAATCCATATTT
1 TAAAATTAATCAATCCATATAA
14508632 TAAAATTAATCAATCCATACTAA
1 TAAAATTAATCAATCCATA-TAA
14508655 TAAA
1 TAAA
14508659 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATTAATCAATCCATATAA
Found at i:14508768 original size:22 final size:22
Alignment explanation
Indices: 14508742--14508784 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
14508732 TAATAAATTA
14508742 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
14508764 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
14508785 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:14508770 original size:188 final size:188
Alignment explanation
Indices: 14508576--14508972 Score: 740
Period size: 188 Copynumber: 2.1 Consensus size: 188
14508566 AAATAAATTA
* *
14508576 TTTAAAATAAATCAATCCATACTACTAAATTATTTAAAATAAATCAATCCATATTTTAAAATTAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
*
14508641 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
66 TCAATACATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
*
14508706 ATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATAT
131 ATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
14508764 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
*
14508829 TCAATATATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
66 TCAATACATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
*
14508894 ATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCTATCCATAT
131 ATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
14508952 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
14508973 TTTTAAAATA
Statistics
Matches: 203, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
188 203 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.35
Consensus pattern (188 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATACATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
ATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
Found at i:14508793 original size:22 final size:22
Alignment explanation
Indices: 14508744--14508792 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
14508734 ATAAATTATT
**
14508744 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
14508766 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
14508789 TAAA
1 TAAA
14508793 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:14508813 original size:166 final size:166
Alignment explanation
Indices: 14508444--14508816 Score: 554
Period size: 166 Copynumber: 2.2 Consensus size: 166
14508434 ATCCATATTT
**
14508444 TAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATC
1 TAAAATAAATCAATAAATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATC
14508509 AATCAATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAAT
66 AATCAATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAAT
* **
14508574 TATTTAAAATAAATCAATCCATACTACTAAATTATT
131 TATTTAAAATAAATCAATCCATACTACTAAAATAAA
** *
14508610 TAAAATAAATCAATCCATATTTTAAAATTAATCAATCCATACTAATAAATTATTTAAAATAAATC
1 TAAAATAAATCAATAAATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATC
* * *
14508675 AATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAAT
66 AATCAATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAAT
**
14508740 TATTTAAAATAAATCAATCCATA-TTTTAAAATAAA
131 TATTTAAAATAAATCAATCCATACTACTAAAATAAA
* **
14508775 T-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATA
1 TAAAATAAAT-C-AATAAATAT-TTTAAAATAAATCAATCCATA
14508817 TTTTAAAATA
Statistics
Matches: 189, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
164 5 0.03
165 10 0.05
166 174 0.92
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (166 bp):
TAAAATAAATCAATAAATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATC
AATCAATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAAT
TATTTAAAATAAATCAATCCATACTACTAAAATAAA
Found at i:14508828 original size:76 final size:77
Alignment explanation
Indices: 14508742--14509052 Score: 212
Period size: 76 Copynumber: 4.1 Consensus size: 77
14508732 TAATAAATTA
14508742 TTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAAT-TATTTAAAATA
1 TTTAAAATAAATCAATCCATACTTTTAAAATAAATCAATCCATACTAATAAATAT-TTTAAAATA
14508805 AATCAATCCATAT
65 AATCAATCCATAT
* * *
14508818 TTTAAAATAAATCAATATATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA-A-
1 TTTAAAATAAATC---A-AT-C-CAT--ACT-TTTAAAATAAATCAATCCATACTAA-TAAATAT
14508880 --T--AATAAATCAATCCATAT
56 TTTAAAATAAATCAATCCATAT
** * ** * ** **
14508898 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-CT-ATCCATATTTTAAAATA
1 TTTAAAATAAATCAATCCATACTTTTAAAATAAAT-CAATCCATACTAATAAATATTTTAAAATA
14508961 AATCAATCCATAT
65 AATCAATCCATAT
* * *
14508974 TTTAAAATAAATCAATCCATAC---T--AATAAAT-TAT--TTA-AAATAAATTATTTTAAAATA
1 TTTAAAATAAATCAATCCATACTTTTAAAATAAATCAATCCATACTAATAAA-TATTTTAAAATA
14509030 AATCAATCCATAT
65 AATCAATCCATAT
*
14509043 TTTATAATAA
1 TTTAAAATAA
14509053 TTTATTTTAA
Statistics
Matches: 190, Mismatches: 22, Indels: 53
0.72 0.08 0.20
Matches are distributed among these distances:
67 1 0.01
68 3 0.02
69 36 0.19
70 3 0.02
71 14 0.07
72 7 0.04
73 1 0.01
74 3 0.02
75 1 0.01
76 54 0.28
77 1 0.01
79 1 0.01
80 32 0.17
81 1 0.01
82 3 0.02
84 1 0.01
85 3 0.02
86 25 0.13
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (77 bp):
TTTAAAATAAATCAATCCATACTTTTAAAATAAATCAATCCATACTAATAAATATTTTAAAATAA
ATCAATCCATAT
Found at i:14508896 original size:80 final size:76
Alignment explanation
Indices: 14508799--14509017 Score: 348
Period size: 80 Copynumber: 2.8 Consensus size: 76
14508789 TAAATTATTT
**
14508799 AAAATAAATCAATCCATATTTTAAAATAAATCAATATATACTAATAAATTATTTAAAATAAATCA
1 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
14508864 ATCCATACAACTAC
66 ATCCAT---ACTAC
14508878 AATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATC
1 AA-AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATC
* * **
14508943 TATCCATATTTT
65 AATCCATACTAC
14508955 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
14509018 TATTTTAAAA
Statistics
Matches: 133, Mismatches: 6, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
76 61 0.46
77 4 0.03
79 2 0.02
80 66 0.50
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (76 bp):
AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
ATCCATACTAC
Found at i:14508924 original size:18 final size:19
Alignment explanation
Indices: 14508880--14509003 Score: 55
Period size: 22 Copynumber: 6.4 Consensus size: 19
14508870 ACAACTACAA
*
14508880 TAATAAATCAATCCATATTT
1 TAATAAATCAATCCATA-TC
14508900 TAAAATAAATCAATCCATA-C
1 T--AATAAATCAATCCATATC
* *
14508920 TAATAAAT---T--ATTTA
1 TAATAAATCAATCCATATC
* * *
14508934 AAATAAATCTATCCATATTT
1 TAATAAATCAATCCATA-TC
*
14508954 TAAAATAAATCAATCCATATTT
1 T--AATAAATCAATCCATA-TC
14508976 TAAAATAAATCAATCCATA-C
1 T--AATAAATCAATCCATATC
14508996 TAATAAAT
1 TAATAAAT
14509004 TATTTAAAAT
Statistics
Matches: 84, Mismatches: 9, Indels: 24
0.72 0.08 0.21
Matches are distributed among these distances:
13 2 0.02
14 7 0.08
15 1 0.01
17 1 0.01
18 14 0.17
19 2 0.02
20 4 0.05
22 53 0.63
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (19 bp):
TAATAAATCAATCCATATC
Found at i:14508927 original size:22 final size:23
Alignment explanation
Indices: 14508852--14508926 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
14508842 ATAAATTATT
14508852 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
14508874 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
14508900 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
14508923 TAAA
1 TAAA
14508927 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:14508956 original size:22 final size:22
Alignment explanation
Indices: 14508930--14509052 Score: 129
Period size: 22 Copynumber: 5.5 Consensus size: 22
14508920 TAATAAATTA
*
14508930 TTTAAAATAAATCTATCCATAT
1 TTTAAAATAAATCAATCCATAT
14508952 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
14508974 TTTAAAATAAATCAATCCATACT
1 TTTAAAATAAATCAATCCATA-T
** * ** * **
14508997 AATAAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-CAATCCA-TAT
14509021 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
14509043 TTTATAATAA
1 TTTAAAATAA
14509053 TTTATTTTAA
Statistics
Matches: 80, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
22 54 0.68
23 12 0.15
24 12 0.15
25 2 0.03
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:14509010 original size:54 final size:54
Alignment explanation
Indices: 14508410--14509017 Score: 416
Period size: 54 Copynumber: 11.4 Consensus size: 54
14508400 ACAACTACAA
14508410 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
** * ** * ** ** *
14508463 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCAATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
*
14508518 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
14508566 AAATAAATTATTTAAAATAAATCAATCCATACTACTAAATTATTTAAAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAAT-C---C-A-T--A-T-TTTAAAATAAATCAATCCATAC
** ** **
14508629 TTTTAAA--A-TTAATCAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAA--AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
* *
14508684 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
14508732 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
**
14508786 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATATATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*** * * *
14508840 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATAC
* ** * ** * **
14508893 -CAT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATAC
**
14508943 T-ATCCA-TATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
14508996 TAATAAATTATTTAAAATAAAT
1 TAATAAATTATTTAAAATAAAT
14509018 TATTTTAAAA
Statistics
Matches: 443, Mismatches: 64, Indels: 95
0.74 0.11 0.16
Matches are distributed among these distances:
48 85 0.19
49 10 0.02
50 23 0.05
51 1 0.00
52 16 0.04
53 22 0.05
54 225 0.51
55 15 0.03
58 2 0.00
59 2 0.00
60 5 0.01
61 1 0.00
62 6 0.01
63 6 0.01
64 24 0.05
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:14509026 original size:15 final size:15
Alignment explanation
Indices: 14508997--14509144 Score: 181
Period size: 15 Copynumber: 9.5 Consensus size: 15
14508987 AATCCATACT
14508997 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
14509011 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
14509026 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
14509048 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
14509063 AATAAATTATTTTAT
1 AATAAATTATTTTAA
*
14509078 AATAAATTATTTTAT
1 AATAAATTATTTTAA
14509093 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
14509108 AATAAATTATTTTAT
1 AATAAATTATTTTAA
14509123 AATAAATTATTTTAA
1 AATAAATTATTTTAA
14509138 AATAAAT
1 AATAAAT
14509145 AACCTTATTA
Statistics
Matches: 118, Mismatches: 8, Indels: 15
0.84 0.06 0.11
Matches are distributed among these distances:
14 9 0.08
15 92 0.78
17 1 0.01
18 2 0.02
19 3 0.03
20 1 0.01
22 10 0.08
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:14513335 original size:17 final size:17
Alignment explanation
Indices: 14513315--14513377 Score: 65
Period size: 17 Copynumber: 3.8 Consensus size: 17
14513305 TTTAGGGAAG
14513315 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
* *
14513332 TAGTTCATTCATCAAAC
1 TAGTTCATTAATTAAAC
* * *
14513349 TAGTTCGTTTATTAAAT
1 TAGTTCATTAATTAAAC
*
14513366 TAATT-ATTAATT
1 TAGTTCATTAATT
14513378 GTTTCATGCA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
16 5 0.14
17 32 0.86
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:14514378 original size:41 final size:41
Alignment explanation
Indices: 14514322--14514415 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
14514312 TTCTTTTCAA
14514322 TCCAT-CTTTCATATTCCACGCCATTACCAACCATACCTTC
1 TCCATACTTTCATATTCCACGCCATTACCAACCATACCTTC
*
14514362 TCCATACTTTCATATTCCATGCCATTACCAACCATACCTTC
1 TCCATACTTTCATATTCCACGCCATTACCAACCATACCTTC
14514403 TCCATACTTTCAT
1 TCCATACTTTCAT
14514416 TACATCCAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 5 0.10
41 47 0.90
ACGTcount: A:0.26, C:0.37, G:0.02, T:0.35
Consensus pattern (41 bp):
TCCATACTTTCATATTCCACGCCATTACCAACCATACCTTC
Found at i:14514619 original size:11 final size:10
Alignment explanation
Indices: 14514597--14514638 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
14514587 CCAGGTTAGT
14514597 AAAAAAAT-A
1 AAAAAAATAA
*
14514606 AAAAAATTAA
1 AAAAAAATAA
14514616 AAAAAAATAA
1 AAAAAAATAA
14514626 AACAAAAA-AA
1 AA-AAAAATAA
14514636 AAA
1 AAA
14514639 TTTAAAGAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 8 0.28
10 16 0.55
11 5 0.17
ACGTcount: A:0.88, C:0.02, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:14514627 original size:16 final size:16
Alignment explanation
Indices: 14514596--14514639 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
14514586 CCCAGGTTAG
* *
14514596 TAAAAAAATAAAAAAAT
1 TAAAAAAA-AATAAAAC
14514613 TAAAAAAAAATAAAAC
1 TAAAAAAAAATAAAAC
*
14514629 AAAAAAAAAAT
1 TAAAAAAAAAT
14514640 TTAAAGAGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.14
Consensus pattern (16 bp):
TAAAAAAAAATAAAAC
Found at i:14514636 original size:19 final size:19
Alignment explanation
Indices: 14514597--14514638 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
14514587 CCAGGTTAGT
*
14514597 AAAAAAATAAAAAAATTAA
1 AAAAAAATAAAAAAATAAA
14514616 AAAAAAATAAAACAAA-AAA
1 AAAAAAATAAAA-AAATAAA
14514635 AAAA
1 AAAA
14514639 TTTAAAGAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.88, C:0.02, G:0.00, T:0.10
Consensus pattern (19 bp):
AAAAAAATAAAAAAATAAA
Found at i:14518384 original size:21 final size:21
Alignment explanation
Indices: 14518344--14518395 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
14518334 ATTTCCAAAA
* *
14518344 TGCTACAGGGGTATCGATACCC
1 TGCTACA-GTGTACCGATACCC
14518366 TGCTACAGTGTACCGATACCC
1 TGCTACAGTGTACCGATACCC
*
14518387 TTCTACAGT
1 TGCTACAGT
14518396 AATTCCCGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (21 bp):
TGCTACAGTGTACCGATACCC
Found at i:14519163 original size:31 final size:32
Alignment explanation
Indices: 14519118--14519207 Score: 139
Period size: 32 Copynumber: 2.8 Consensus size: 32
14519108 GAATGACCTA
*
14519118 TCCATATGTTCCG-AAGAACATAGGTAAT-ATG
1 TCCATATGTCCCGAAAG-ACATAGGTAATCATG
*
14519149 TCCATATATCCCGAAAGACATAGGTAATCATG
1 TCCATATGTCCCGAAAGACATAGGTAATCATG
14519181 TCCATATGTCCCGAAAGACATAGGTAA
1 TCCATATGTCCCGAAAGACATAGGTAA
14519208 CCTTCGACTC
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
31 22 0.41
32 32 0.59
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.26
Consensus pattern (32 bp):
TCCATATGTCCCGAAAGACATAGGTAATCATG
Found at i:14521637 original size:23 final size:25
Alignment explanation
Indices: 14521609--14521662 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
14521599 AAATCTAGCA
*
14521609 AAGAAAATCAAAGCACTC-AAAA-G
1 AAGAAAATCAAAGCACCCAAAAAGG
* *
14521632 AAGAAATTGAAAGCACCCAAAAAGG
1 AAGAAAATCAAAGCACCCAAAAAGG
14521657 AAGAAA
1 AAGAAA
14521663 GAGAAAAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 15 0.58
24 4 0.15
25 7 0.27
ACGTcount: A:0.61, C:0.15, G:0.17, T:0.07
Consensus pattern (25 bp):
AAGAAAATCAAAGCACCCAAAAAGG
Found at i:14521668 original size:25 final size:23
Alignment explanation
Indices: 14521618--14521668 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 23
14521608 AAAGAAAATC
* **
14521618 AAAGCACTCAAAAGAAGAAATTG
1 AAAGCACCCAAAAGAAGAAAGAG
14521641 AAAGCACCCAAAAAGGAAGAAAGAG
1 AAAGCACCC-AAAA-GAAGAAAGAG
14521666 AAA
1 AAA
14521669 AGAACAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 8 0.35
24 4 0.17
25 11 0.48
ACGTcount: A:0.61, C:0.14, G:0.20, T:0.06
Consensus pattern (23 bp):
AAAGCACCCAAAAGAAGAAAGAG
Found at i:14524848 original size:91 final size:90
Alignment explanation
Indices: 14524694--14524875 Score: 256
Period size: 91 Copynumber: 2.0 Consensus size: 90
14524684 CCTAGAACAC
* * *
14524694 CCATGTGCCTTGCATATGACCAGCCCCATGTACCTTGCATGTGGATCATTCAGGCGCCAAGATGA
1 CCATGTGCCTTGCATATGACCAGCCCCATATACCTTGCATATGGATCATTCAGGCACCAAGATGA
14524759 AGAGTTCTCTCCCTATTCGGCCAAG
66 AGAGTTCTCTCCCTATTCGGCCAAG
** * * * * *
14524784 CCATGTGTTTTGCATGTGATCAGCCCCCATATGCCTTGCATATGGTTCATTTAGGCACCAAGATG
1 CCATGTGCCTTGCATATGACCAG-CCCCATATACCTTGCATATGGATCATTCAGGCACCAAGATG
*
14524849 AAGAGTTCTCTGCCTATTCGGCCAAG
65 AAGAGTTCTCTCCCTATTCGGCCAAG
14524875 C
1 C
14524876 ATCAACTACC
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
90 19 0.24
91 61 0.76
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (90 bp):
CCATGTGCCTTGCATATGACCAGCCCCATATACCTTGCATATGGATCATTCAGGCACCAAGATGA
AGAGTTCTCTCCCTATTCGGCCAAG
Found at i:14530008 original size:25 final size:25
Alignment explanation
Indices: 14529991--14530040 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
14529981 AATTTTTCAC
14529991 ATTATAATCTTATTTAATAAATCAA
1 ATTATAATCTTATTTAATAAATCAA
14530016 ATTATAATCTTATTTAATAAATCAA
1 ATTATAATCTTATTTAATAAATCAA
14530041 GCATCATCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (25 bp):
ATTATAATCTTATTTAATAAATCAA
Found at i:14536217 original size:14 final size:14
Alignment explanation
Indices: 14536200--14536244 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
14536190 ACCCGTTTGC
*
14536200 ATTATATATATGAT
1 ATTATATATATTAT
*
14536214 ATTATTTATATTAT
1 ATTATATATATTAT
14536228 ATTATATTATATTAT
1 ATTATA-TATATTAT
14536243 AT
1 AT
14536245 AGTAACATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 17 0.63
15 10 0.37
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (14 bp):
ATTATATATATTAT
Found at i:14536227 original size:5 final size:5
Alignment explanation
Indices: 14536200--14536244 Score: 67
Period size: 5 Copynumber: 9.4 Consensus size: 5
14536190 ACCCGTTTGC
*
14536200 ATTAT A-TAT ATGAT ATTAT -TTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
14536245 AGTAACATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
4 8 0.22
5 28 0.78
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:14536349 original size:12 final size:12
Alignment explanation
Indices: 14536326--14536351 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14536316 ATATATGTAG
14536326 TAGTATATATAT
1 TAGTATATATAT
14536338 TAGTATATATAT
1 TAGTATATATAT
14536350 TA
1 TA
14536352 TTTATATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TAGTATATATAT
Found at i:14538911 original size:5 final size:5
Alignment explanation
Indices: 14538901--14539082 Score: 287
Period size: 5 Copynumber: 35.6 Consensus size: 5
14538891 GGGCCTGAAC
14538901 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
14538951 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATAT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATAT-T ATATT ATATT
14539002 ATATT ATATT ATATT ATATTAT ATATT ATATTAT ATATT ATATT ATA-T
1 ATATT ATATT ATATT ATA-T-T ATATT ATA-T-T ATATT ATATT ATATT
*
14539050 -TATT ATATTT ATATT ATATT ATATT ATAGT ATA
1 ATATT ATA-TT ATATT ATATT ATATT ATATT ATA
14539083 CATATTATTG
Statistics
Matches: 168, Mismatches: 1, Indels: 16
0.91 0.01 0.09
Matches are distributed among these distances:
3 2 0.01
4 2 0.01
5 142 0.85
6 14 0.08
7 8 0.05
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:14540306 original size:53 final size:53
Alignment explanation
Indices: 14540206--14540332 Score: 129
Period size: 53 Copynumber: 2.4 Consensus size: 53
14540196 TATTTGTTTA
*
14540206 TTTTATTTCTTTTTT-TTTCATTTTTTTTTTGAATTTAGCTAAGTTTTTT-TACT
1 TTTTATTTCTTTTTTATTT-ATTTTCTTTTTGAATTTAGCTAAGTTTTTTATA-T
*
14540259 TTTTATATTCTTTTTTCATTTATTTTCTTTTT-AATATTAGC-CA-TTTTTTATAT
1 TTTTAT-TTCTTTTTT-ATTTATTTTCTTTTTGAAT-TTAGCTAAGTTTTTTATAT
* *
14540312 ATTTATTTTATTTTTTATTTA
1 TTTTA-TTTCTTTTTTATTTA
14540333 GCTATTTTTA
Statistics
Matches: 64, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
52 5 0.08
53 25 0.39
54 16 0.25
55 15 0.23
56 3 0.05
ACGTcount: A:0.19, C:0.07, G:0.03, T:0.71
Consensus pattern (53 bp):
TTTTATTTCTTTTTTATTTATTTTCTTTTTGAATTTAGCTAAGTTTTTTATAT
Found at i:14540338 original size:20 final size:20
Alignment explanation
Indices: 14540301--14540340 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14540291 AATATTAGCC
**
14540301 ATTTTTTATATATTTATTTT
1 ATTTTTTATATAGCTATTTT
*
14540321 ATTTTTTATTTAGCTATTTT
1 ATTTTTTATATAGCTATTTT
14540341 TAGGGTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (20 bp):
ATTTTTTATATAGCTATTTT
Found at i:14543997 original size:99 final size:98
Alignment explanation
Indices: 14543877--14544071 Score: 239
Period size: 99 Copynumber: 2.0 Consensus size: 98
14543867 GTATACCCAT
* * *
14543877 ATTATAATATTATACAATAAAGATTGAGTTGTCCCTCTAGAACAATTAGTTAAACACTCC-GGCT
1 ATTATAATAATATACAATAAAGATTGAGCTATCCCTCTAGAACAATTAGTTAAACAC-CCTGGCT
*
14543941 TTATGGATAAGATTTAGCTAGCCTGATAAAGGTG
65 TTATGGATAAGATTCAGCTAGCCTGATAAAGGTG
* ** * * * * *
14543975 ATTATAATACATATACAATAAAGCTTGAGCTATTTCTCTAGATCAGTTGGTTAATCGCCCTGGCT
1 ATTATAATA-ATATACAATAAAGATTGAGCTATCCCTCTAGAACAATTAGTTAAACACCCTGGCT
* *
14544040 TTATGGATAAGATTCAGTTAGCCTGATGAAGG
65 TTATGGATAAGATTCAGCTAGCCTGATAAAGG
14544072 AAAATTATAA
Statistics
Matches: 81, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
98 11 0.14
99 70 0.86
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (98 bp):
ATTATAATAATATACAATAAAGATTGAGCTATCCCTCTAGAACAATTAGTTAAACACCCTGGCTT
TATGGATAAGATTCAGCTAGCCTGATAAAGGTG
Found at i:14545688 original size:201 final size:201
Alignment explanation
Indices: 14545315--14545677 Score: 543
Period size: 201 Copynumber: 1.8 Consensus size: 201
14545305 AAACTGTTTG
*
14545315 CAGCATAGCTCAAGGCGAGAAGGACTATCTATCAACAAAAACTTTCGAGTTCGATTTTATTCAGC
1 CAGCATAGCTCAAGGCGAGAAGGACTATCTATCAACAAAAACTTTCGAGTTCGATTCTATTCAGC
* ** **
14545380 TCAAGGGTACATCAACCGCAGGGTAGCAGTAAGGAACTACTTTCCGATTGAATTTTAAGTTGAGG
66 TCAAGGGCACATCAACCGCAGGGTAGCAGTAAGGAACTACTTTCCGATTGAAGCTTAAACTGAGG
*
14545445 TCTTTAAGTCCAGAAGAAGACCTGAGTTGGCTACAATTTAGCAACAATGAACTATATCATAGTCA
131 TCTTTAAGTCAAGAAGAAGACCTGAGTTGGCTACAATTTAGCAACAATGAACTATATCATAGTCA
14545510 AATTTA
196 AATTTA
** *
14545516 CAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAACTTTCGAGTTCGATTCTATTCAGC
1 CAGCATAGCTCAAGGCGAGAAGGACTATCTATCAACAAAAACTTTCGAGTTCGATTCTATTCAGC
* * * **
14545581 TCGATGGCATATCAACCGCATTGTAGCAGCT-AGGAACTACTTTCCTG-TTGAAGCTTAAACTGA
66 TCAAGGGCACATCAACCGCAGGGTAGCAG-TAAGGAACTACTTTCC-GATTGAAGCTTAAACTGA
14545644 GGTCTTTAAGTCAAGAAGAAGACCT-AGGTTGGCT
129 GGTCTTTAAGTCAAGAAGAAGACCTGA-GTTGGCT
14545678 GAGATTTAGC
Statistics
Matches: 144, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
200 1 0.01
201 141 0.98
202 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (201 bp):
CAGCATAGCTCAAGGCGAGAAGGACTATCTATCAACAAAAACTTTCGAGTTCGATTCTATTCAGC
TCAAGGGCACATCAACCGCAGGGTAGCAGTAAGGAACTACTTTCCGATTGAAGCTTAAACTGAGG
TCTTTAAGTCAAGAAGAAGACCTGAGTTGGCTACAATTTAGCAACAATGAACTATATCATAGTCA
AATTTA
Found at i:14545717 original size:201 final size:201
Alignment explanation
Indices: 14545315--14545769 Score: 530
Period size: 201 Copynumber: 2.3 Consensus size: 201
14545305 AAACTGTTTG
** * *
14545315 CAGCATAGCTCAAGGCGAGAAGGACTATCTATCAACAAAAACTTTCGAGTTCGATTTTATTCAGC
1 CAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAACTTTCGAGTTCGATTCTATTCAGC
* ** **
14545380 TCAAGGGTACATCAACCGCAGGGTAGCAGTAAGGAACTACTTTCCGATTGAATTTTAAGTTGAGG
66 TCAAGGGCACATCAACCGCAGGGTAGCAGTAAGGAACTACTTTCCGATTGAAGCTTAAACTGAGG
* * *
14545445 TCTTTAAGTCCAGAAGAAGACCTGAGTTGGCTACAATTTAGCAACAATGAACTATATCATAGTCA
131 TCTTTAAGTCAAGAAGAAGACCTGAGTTGGCTACAATTTAGCAACAATGAACTATACCATAGCCA
14545510 AATTTA
196 AATTTA
14545516 CAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAACTTTCGAGTTCGATTCTATTCAGC
1 CAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAACTTTCGAGTTCGATTCTATTCAGC
* * * **
14545581 TCGATGGCATATCAACCGCATTGTAGCAGCT-AGGAACTACTTTCCTG-TTGAAGCTTAAACTGA
66 TCAAGGGCACATCAACCGCAGGGTAGCAG-TAAGGAACTACTTTCC-GATTGAAGCTTAAACTGA
* *
14545644 GGTCTTTAAGTCAAGAAGAAGACCT-AGGTTGGCTGA-GATTTAGCATCAA-GAAACTATCACCC
129 GGTCTTTAAGTCAAGAAGAAGACCTGA-GTTGGCT-ACAATTTAGCAACAATG-AACTAT-A-CC
*
14545706 A-A-CCTAATTTA
189 ATAGCCAAATTTA
* * * ** * *
14545717 CAGCATAAG-TTAAGTCAAGAAAAGTTGTCTGTCAACAAACAACTTTCCAGTTC
1 CAGCAT-AGCTCAAGGCGAGAAGGGTTATCTGTCAACAAA-AACTTTCGAGTTC
14545770 AAATTTCGAG
Statistics
Matches: 218, Mismatches: 27, Indels: 17
0.83 0.10 0.06
Matches are distributed among these distances:
200 2 0.01
201 195 0.89
202 19 0.09
203 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (201 bp):
CAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAACTTTCGAGTTCGATTCTATTCAGC
TCAAGGGCACATCAACCGCAGGGTAGCAGTAAGGAACTACTTTCCGATTGAAGCTTAAACTGAGG
TCTTTAAGTCAAGAAGAAGACCTGAGTTGGCTACAATTTAGCAACAATGAACTATACCATAGCCA
AATTTA
Found at i:14546827 original size:31 final size:31
Alignment explanation
Indices: 14546761--14546819 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 31
14546751 AAACATTTGA
*
14546761 AAAATGGTTTTTGGACTTGAATTGAATTTAC
1 AAAATGGTATTTGGACTTGAATTGAATTTAC
14546792 AAAAT-GTATTTGGACTT-AATTGAATTTA
1 AAAATGGTATTTGGACTTGAATTGAATTTA
14546820 TTCAAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 11 0.41
30 11 0.41
31 5 0.19
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.42
Consensus pattern (31 bp):
AAAATGGTATTTGGACTTGAATTGAATTTAC
Found at i:14548714 original size:22 final size:22
Alignment explanation
Indices: 14548669--14548739 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 22
14548659 CGCAAAAATG
*
14548669 GTATCGATACTATAGTA---TA
1 GTATCGATACCATAGTATGGTA
14548688 GTATC-AGTACCATAGTATGGTA
1 GTATCGA-TACCATAGTATGGTA
*
14548710 GTATCGATACCATGGTATGG--
1 GTATCGATACCATAGTATGGTA
14548730 GTATCGATAC
1 GTATCGATAC
14548740 TGATAAGCCA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
18 1 0.02
19 14 0.31
20 10 0.22
22 19 0.42
23 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (22 bp):
GTATCGATACCATAGTATGGTA
Found at i:14549213 original size:45 final size:45
Alignment explanation
Indices: 14549174--14549374 Score: 225
Period size: 45 Copynumber: 4.5 Consensus size: 45
14549164 TTATCGATAT
* *
14549174 GAAAGGATGTC-ATAGTTGAAATGCACATGGGTACATTATCAACA
1 GAAAGTATGTCTATAGTTGAAATGCATATGGGTACATTATCAACA
* *
14549218 GAAAAGTATGT-TATAGATGAAATGCATATGGGTGA-ATTATCAATA
1 G-AAAGTATGTCTATAGTTGAAATGCATATGGGT-ACATTATCAACA
* * *
14549263 GAAAAATATG-CTATTGTTGAAATGCATATGGGTGCATTATCAACA
1 G-AAAGTATGTCTATAGTTGAAATGCATATGGGTACATTATCAACA
* *
14549308 GAAAAGTATG-CTATTGTTGAAATGCATATGGGTGCATTATCAACA
1 G-AAAGTATGTCTATAGTTGAAATGCATATGGGTACATTATCAACA
*
14549353 TAAAAGTATG-CTATAGTTGAAA
1 -GAAAGTATGTCTATAGTTGAAA
14549375 ATTCATAATG
Statistics
Matches: 139, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
44 1 0.01
45 137 0.99
46 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.30
Consensus pattern (45 bp):
GAAAGTATGTCTATAGTTGAAATGCATATGGGTACATTATCAACA
Found at i:14549301 original size:90 final size:90
Alignment explanation
Indices: 14549185--14549374 Score: 290
Period size: 90 Copynumber: 2.1 Consensus size: 90
14549175 AAAGGATGTC
*
14549185 ATAGTTGAAATGCACATGGGTACATTATCAACAGAAAAGTATGTTATAGATGAAATGCATATGGG
1 ATAGTTGAAATGCACATGGGTACATTATCAACAGAAAAGTATGCTATAGATGAAATGCATATGGG
*
14549250 TGAATTATCAATAGAAAAATATGCT
66 TGAATTATCAACAGAAAAATATGCT
* * * * *
14549275 ATTGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATTGTTGAAATGCATATGGG
1 ATAGTTGAAATGCACATGGGTACATTATCAACAGAAAAGTATGCTATAGATGAAATGCATATGGG
* * *
14549340 TGCATTATCAACATAAAAGTATGCT
66 TGAATTATCAACAGAAAAATATGCT
14549365 ATAGTTGAAA
1 ATAGTTGAAA
14549375 ATTCATAATG
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (90 bp):
ATAGTTGAAATGCACATGGGTACATTATCAACAGAAAAGTATGCTATAGATGAAATGCATATGGG
TGAATTATCAACAGAAAAATATGCT
Found at i:14556009 original size:80 final size:77
Alignment explanation
Indices: 14555902--14556049 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 77
14555892 ATATAGTAAG
* *
14555902 TAAACATTAAAAGAATGTAATTTAGATTACAACTCTTTTAATTGGTATATATAATTCAGAA-TAA
1 TAAACATTAAAAGAATATAATTCAGATTACAACTC-TTTAA-T-GTATATATAATT--GAATTAA
14555966 TTAAATAAGTTTTTAAA
61 TTAAATAAGTTTTTAAA
* * * *
14555983 TAAACATT-AAAGATTATAATTCAGATTATAAGTCTTTAATGTATATTTAATTGAATTAATTAAA
1 TAAACATTAAAAGAATATAATTCAGATTACAACTCTTTAATGTATATATAATTGAATTAATTAAA
14556047 TAA
66 TAA
14556050 TATTTTATTG
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
75 3 0.05
76 11 0.18
77 11 0.18
78 1 0.02
79 5 0.08
80 21 0.35
81 8 0.13
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (77 bp):
TAAACATTAAAAGAATATAATTCAGATTACAACTCTTTAATGTATATATAATTGAATTAATTAAA
TAAGTTTTTAAA
Found at i:14557096 original size:22 final size:21
Alignment explanation
Indices: 14557045--14557115 Score: 85
Period size: 19 Copynumber: 3.5 Consensus size: 21
14557035 TGCAAAAGTG
*
14557045 GTATCGATACCATAGAATG--
1 GTATCGATACCATAGTATGTA
*
14557064 GTATCGGTACCATAGTATGGTA
1 GTATCGATACCATAGTAT-GTA
*
14557086 GTATCGATACCATGGTATGTA
1 GTATCGATACCATAGTATGTA
14557107 -TATCGATAC
1 GTATCGATAC
14557116 TAATAAGCCA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
19 16 0.36
20 10 0.22
21 3 0.07
22 16 0.36
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (21 bp):
GTATCGATACCATAGTATGTA
Found at i:14557592 original size:45 final size:44
Alignment explanation
Indices: 14557528--14557896 Score: 558
Period size: 45 Copynumber: 8.2 Consensus size: 44
14557518 TGAAAATAAT
** * * *
14557528 AATGCATATGGGTGCATTATCGGCATGAAAGGATGCCATAGTTGA
1 AATGCATATGGGTGCATTATCAACA-AAAAGTATGCTATAGTTGA
14557573 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGA
1 AATGCATATGGGTGCATTATCAACA-AAAAGTATGCTATAGTTGA
*
14557618 AATGCATATGGGTGCATTATCAACACAAAAGTATGTTATAGTTGA
1 AATGCATATGGGTGCATTATCAACA-AAAAGTATGCTATAGTTGA
14557663 AATGCATATGGGTGCATTATCAACAAAAAAGTATGCTATAGTTGA
1 AATGCATATGGGTGCATTATCAAC-AAAAAGTATGCTATAGTTGA
*
14557708 AAGGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGA
1 AATGCATATGGGTGCATTATCAACA-AAAAGTATGCTATAGTTGA
*
14557753 AATGGATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGA
1 AATGCATATGGGTGCATTATCAACA-AAAAGTATGCTATAGTTGA
* *
14557798 AATGCATATGGGTGCATTATCAACATAAAAGTATGATATAATTGA
1 AATGCATATGGGTGCATTATCAACA-AAAAGTATGCTATAGTTGA
*
14557843 AATGCATATAGGTGCATTATCAACATAAAAGTATGCTATAGTTGAA
1 AATGCATATGGGTGCATTATCAACA-AAAAGTATGCTATAGTTG-A
14557889 AATGCATA
1 AATGCATA
14557897 ATGATGTATT
Statistics
Matches: 302, Mismatches: 19, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
44 1 0.00
45 291 0.96
46 10 0.03
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (44 bp):
AATGCATATGGGTGCATTATCAACAAAAAGTATGCTATAGTTGA
Found at i:14559066 original size:21 final size:21
Alignment explanation
Indices: 14559042--14559100 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
14559032 ATTATTATAA
*
14559042 TTATTT-TGTTTATTTTTTATT
1 TTATTTCT-TTTATTTTTAATT
14559063 TTATTTCTTTTATTTTTAATT
1 TTATTTCTTTTATTTTTAATT
* * *
14559084 CTATTTATTTTCTTTTT
1 TTATTTCTTTTATTTTT
14559101 TGAATTTAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (21 bp):
TTATTTCTTTTATTTTTAATT
Found at i:14561631 original size:21 final size:21
Alignment explanation
Indices: 14561605--14561704 Score: 114
Period size: 21 Copynumber: 4.7 Consensus size: 21
14561595 AGGGTGTCAA
14561605 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
*
14561626 AGTGCATCCATGCACCCCTGT
1 AGTGCATCCATGCACCCCTGC
*
14561647 AGTGCATCCATGCACCTGCC-AC
1 AGTGCATCCATGCACC--CCTGC
* * *
14561669 TAGTGCATCGATGCA-CCATGT
1 -AGTGCATCCATGCACCCCTGC
14561690 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
14561705 TATATTTTGA
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
20 14 0.21
21 36 0.55
22 1 0.02
23 15 0.23
ACGTcount: A:0.22, C:0.36, G:0.20, T:0.22
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:14561702 original size:43 final size:42
Alignment explanation
Indices: 14561605--14561704 Score: 132
Period size: 43 Copynumber: 2.4 Consensus size: 42
14561595 AGGGTGTCAA
* *
14561605 AGTGCATCCATGCACCCCTGCAGTGCATCCATGCACCCCTGT
1 AGTGCATCCATGCACCCCTACAGTGCATCCATGCACCCATGT
*
14561647 AGTGCATCCATGCACCTGCC-ACTAGTGCATCGATGCA-CCATGT
1 AGTGCATCCATGCACC--CCTAC-AGTGCATCCATGCACCCATGT
14561690 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
14561705 TATATTTTGA
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
42 16 0.31
43 21 0.40
44 15 0.29
ACGTcount: A:0.22, C:0.36, G:0.20, T:0.22
Consensus pattern (42 bp):
AGTGCATCCATGCACCCCTACAGTGCATCCATGCACCCATGT
Found at i:14561749 original size:20 final size:20
Alignment explanation
Indices: 14561724--14561776 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
14561714 AATGCAATTA
14561724 GTGCATCGATGCATCATGCT
1 GTGCATCGATGCATCATGCT
*
14561744 GTGCATCGATGCATCATGTT
1 GTGCATCGATGCATCATGCT
* *
14561764 GTACATCCATGCA
1 GTGCATCGATGCA
14561777 CCAAGGCTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (20 bp):
GTGCATCGATGCATCATGCT
Found at i:14564297 original size:20 final size:19
Alignment explanation
Indices: 14564274--14564320 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
14564264 CGATATACCA
14564274 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
14564294 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
14564314 GGTAAAA
1 GGTAAAA
14564321 CGTTACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:14564397 original size:181 final size:182
Alignment explanation
Indices: 14564062--14564479 Score: 622
Period size: 182 Copynumber: 2.3 Consensus size: 182
14564052 GATCCAAATT
* * * **
14564062 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* ** * *
14564127 AAATCGGTAAAGTGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGCTACCGGATACATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* *
14564192 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* *
14564244 AAAAATGTATCAATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * *
14564309 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGCTACCGGATACATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
14564373 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* *
14564425 AAAAATATATCGATCCACAACGATATAACAGGTAAAAAATATGATAAAACCGGTA
1 AAAAATGTATCGATCCAAAACGATATAACAGGT-AAAAATATGATAAAACCGGTA
14564480 AAACGATAAC
Statistics
Matches: 211, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
181 94 0.45
182 117 0.55
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGCTACCGGATACATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:14566927 original size:21 final size:21
Alignment explanation
Indices: 14566871--14566927 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
14566861 CAAGAGACGG
* *
14566871 AGAGAAACTTGATAAAGTCGA
1 AGAGAAACTTGAGAGAGTCGA
14566892 AGAGAAACTTGAGAGAGTCGA
1 AGAGAAACTTGAGAGAGTCGA
* *
14566913 AGATACACTTGAGAG
1 AGAGAAACTTGAGAG
14566928 GCATAAGGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.44, C:0.11, G:0.28, T:0.18
Consensus pattern (21 bp):
AGAGAAACTTGAGAGAGTCGA
Found at i:14567003 original size:33 final size:33
Alignment explanation
Indices: 14566961--14567026 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
14566951 AAATAGATGG
*
14566961 AGTGGTGAAAGAAG-TAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTAG-GGTGTTAAGGGGTGA
*
14566994 AGTGGTGAAAGAAGTTCGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTTAGGGTGTTAAGGGGTGA
14567027 TATTAAGATG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.29, C:0.02, G:0.47, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTTAGGGTGTTAAGGGGTGA
Found at i:14568304 original size:183 final size:183
Alignment explanation
Indices: 14567996--14568486 Score: 883
Period size: 183 Copynumber: 2.7 Consensus size: 183
14567986 GACTATGTCT
*
14567996 AGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGCGA
1 AGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGCGA
14568061 ATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAG
66 ATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAG
*
14568126 AAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCC
131 AAAAATGTGTCGATACCTTATCAAAAAGTGTCGACATTTACACATCGGAACCC
*
14568179 AGAATTATAATGTAATAGATAATTTTGTAATATAACCGATATAAGTATACCGGTTTTATTAGCGA
1 AGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGCGA
* *
14568244 ATAGGTCTACAACCTATGTCGACACTTTTTACTATTATGTCGGTACTTTATGTCCAGAATGGAAG
66 ATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAG
14568309 AAAAATGTGTCGATACCTTATCAAAAAGTGTCGACATTTACACATCGGAACCC
131 AAAAATGTGTCGATACCTTATCAAAAAGTGTCGACATTTACACATCGGAACCC
* * * *
14568362 ATAATTATAATGTAATAGATAATTTTGTAATATAAACGGTATAAATATACCGGTTTTATGAGCGA
1 AGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGCGA
* *
14568427 ATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAAT
66 ATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
14568487 TATAATGTAC
Statistics
Matches: 294, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
183 294 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (183 bp):
AGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGCGA
ATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAG
AAAAATGTGTCGATACCTTATCAAAAAGTGTCGACATTTACACATCGGAACCC
Found at i:14568523 original size:120 final size:120
Alignment explanation
Indices: 14568364--14568606 Score: 416
Period size: 120 Copynumber: 2.0 Consensus size: 120
14568354 CGGAACCCAT
14568364 AATTATAATGTAATAGATAATTTTGTAATATAAACGGTATAAATATACCGGTTTTATGAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAAACGGTATAAATATACCGGTTTTATGAGCGAAT
*
14568429 AGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAG
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
* * * *
14568484 AATTATAATGTACTATATAATTTTGTAATAT-AACTGGTATAAGTATACCGGTTTTATTAGCGAA
1 AATTATAATGTAATAGATAATTTTGTAATATAAAC-GGTATAAATATACCGGTTTTATGAGCGAA
*
14568548 TAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
65 TAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
14568604 AAT
1 AAT
14568607 GAAAGAAAAA
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
119 3 0.03
120 113 0.97
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.39
Consensus pattern (120 bp):
AATTATAATGTAATAGATAATTTTGTAATATAAACGGTATAAATATACCGGTTTTATGAGCGAAT
AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
Found at i:14568870 original size:119 final size:116
Alignment explanation
Indices: 14568663--14568904 Score: 398
Period size: 119 Copynumber: 2.1 Consensus size: 116
14568653 ACATCGGAAC
*
14568663 CCAGAATTATAATGTATAGATAATTTTGTAATATAACCGGTATAAATATGGTTTTATGAGCGAAT
1 CCAGAATTATAATGTATAGATAATTTTGTAATATAACCGGTATAAATACGGTTTTATGAGCGAAT
14568728 AGGTCTACAACCTATATCGACACTTTTTAAT-TTGTGTCGGTACTTTATGT
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
*
14568778 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACC-GTATAAGTATACCGGTTTTTATTAG
1 CCAGAATTATAATGTA-TAGATAATTTTGTAATATAACCGGTATAA--ATA-CGG-TTTTATGAG
*
14568842 CGAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGT
61 CGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
14568898 CCAGAAT
1 CCAGAAT
14568905 GAAAGAAAAA
Statistics
Matches: 118, Mismatches: 3, Indels: 7
0.92 0.02 0.05
Matches are distributed among these distances:
115 22 0.19
116 22 0.19
117 3 0.03
118 2 0.02
119 43 0.36
120 26 0.22
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (116 bp):
CCAGAATTATAATGTATAGATAATTTTGTAATATAACCGGTATAAATACGGTTTTATGAGCGAAT
AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:14569174 original size:120 final size:120
Alignment explanation
Indices: 14568961--14569207 Score: 431
Period size: 120 Copynumber: 2.1 Consensus size: 120
14568951 ACATCGGAAC
*
14568961 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCGGTTTTATGAGC
* *
14569026 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTATTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * *
14569081 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCAGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCGGTTTTATGAGC
*
14569146 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
14569201 CCAGAAT
1 CCAGAAT
14569208 GGAAGAAAAA
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:14569222 original size:303 final size:302
Alignment explanation
Indices: 14568177--14569371 Score: 2168
Period size: 303 Copynumber: 4.0 Consensus size: 302
14568167 ACATCGGAAC
*
14568177 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGATATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCG-TATAAGTATACCGGTTTTATTAGC
* * *
14568242 GAATAGGTCTACAACCTATGTCGACACTTTTTACTATTATGTCGGTACTTTATGTCCAGAATGGA
65 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGAA
* *
14568307 AGAAAAATGTGTCGATACCTTATCAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAA
130 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
*
14568372 TGTAATAGATAATTTTGTAATATAAACGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
195 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
14568437 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
260 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
* *
14568480 CCAGAATTATAATGTACTATATAATTTTGTAATATAACTGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAAC-CGTATAAGTATACCGGTTTTATTAGC
14568545 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGAA
65 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGAA
14568610 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
130 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
14568675 TGT-ATAGATAATTTTGTAATATAACCGGTATAAATAT---GGTTTTATGAGCGAATAGGTCTAC
195 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
14568736 AACCTATATCGACACTTTTTAA-TTTGTGTCGGTACTTTATGT
260 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
14568778 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGTATAAGTATACCGGTTTTTATTAGC
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGTATAAGTATACCGG-TTTTATTAGC
14568843 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGAA
65 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGAA
14568908 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
130 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
14568973 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
195 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
*
14569038 AACCTATATCGACACTTTTTAATTTTGTGTCGGTATTTTATGT
260 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
14569081 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCAGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACC-GTATAAGTATACCGGTTTTATTAGC
*
14569146 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
65 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGAA
* *
14569211 AGAAAAATGTGTCGATACC-TGTCAAAAAGTGTCTACATTTACACATCGAAACCCAGAATTATAA
130 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
* *
14569275 TGTAATAGATAATTTTGTAATATAACCGATATAAATATACCGGTTTTATGAGCGAATAGGTCTAA
195 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
*
14569340 AACCTATATCGACACTTTTTAATATTGTGTCG
260 AACCTATATCGACACTTTTTAATTTTGTGTCG
14569372 CTAATTTTAA
Statistics
Matches: 866, Mismatches: 18, Indels: 17
0.96 0.02 0.02
Matches are distributed among these distances:
297 15 0.02
298 200 0.23
299 80 0.09
302 216 0.25
303 339 0.39
304 16 0.02
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.35
Consensus pattern (302 bp):
CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGTATAAGTATACCGGTTTTATTAGCG
AATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGAAA
GAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAAT
GTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACA
ACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
Found at i:14571883 original size:23 final size:23
Alignment explanation
Indices: 14571852--14571924 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
14571842 ATAGGTAAAA
* *
14571852 ATATGATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGTGTTT
*
14571875 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGTGTTT
*
14571898 ATATAATGTAATAGGTCGTGTTT
1 ATATAATGTAATAGGTAGTGTTT
14571921 ATAT
1 ATAT
14571925 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGTTT
Found at i:14572378 original size:23 final size:23
Alignment explanation
Indices: 14572332--14572403 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
14572322 ATAGGTAAAA
*
14572332 ATATGATGTAATA-GTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
14572354 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
14572377 ATATAATATAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
14572400 ATAT
1 ATAT
14572404 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 12 0.27
23 32 0.73
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:14572606 original size:479 final size:483
Alignment explanation
Indices: 14571666--14572800 Score: 2000
Period size: 479 Copynumber: 2.4 Consensus size: 483
14571656 GACACAAATT
14571666 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTA
1 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTA
*
14571731 ATATTGTTGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
66 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
14571796 AAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGT
131 AAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGT
* * * *
14571861 AATAGGTAGTGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTCGTGTTTATATT
196 AATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATATAATAGGTAGTGCTTATATT
*
14571926 GTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAA
261 GTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATTAATTTAA
* *
14571991 GGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTT
326 GGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATAGGCATCTAATGATTTATTTT
*
14572056 TTACGTTACGGTATATATTATTATTAATTAAAAACAATAAACATATATATTATTTATTATTAGCT
391 TTACGTTACGG-ATATATTATCATTAATTAAAAACAATAAACATATATATTATTTATTATTAGCT
14572121 TTGGTTAATA-TGTTAAATTTAAAATCTA
455 TTGGTTAATATTGTTAAATTTAAAATCTA
*
14572149 AATAATATTTTAT-AAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTA
1 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTA
14572213 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTT-AA
66 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
14572277 AAAAGTATCGATCC-TTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGT
131 AAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGT
14572341 AATA-GTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATATAATAGGTAGTGCTTATATT
196 AATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATATAATAGGTAGTGCTTATATT
*
14572405 GTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTATTTCATTGTGGAAAACATTAATTTAA
261 GTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATTAATTTAA
* *
14572470 GGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATGTATCTAATGATTTATTTT
326 GGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATAGGCATCTAATGATTTATTTT
*
14572535 TTATGTTACGG-TATATTATCATTAATTAAAAACAAT-AACATATATATTACATATTTATTATTA
391 TTACGTTACGGATATATTATCATTAATTAAAAACAATAAACATATATA-T---TATTTATTATTA
* *
14572598 TC-TTGGTTAATATTGTTAAATTTAAATTCTA
452 GCTTTGGTTAATATTGTTAAATTTAAAATCTA
*
14572629 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
1 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTA
14572694 ATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAATTGAAACATAAATTACATAACTTTAAA
66 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
14572758 AAAAGTATCGATCCTTTTTATAAAAAAGTATGGACACTTTCAA
131 AAAAGTATCGATCCTTTTTAT-AAAAAGTATGGACACTTTCAA
14572801 CATATTATAA
Statistics
Matches: 625, Mismatches: 18, Indels: 18
0.95 0.03 0.03
Matches are distributed among these distances:
476 10 0.02
477 25 0.04
479 200 0.32
480 126 0.20
481 113 0.18
482 118 0.19
483 33 0.05
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (483 bp):
AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTA
ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
AAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGT
AATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATATAATAGGTAGTGCTTATATT
GTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATTAATTTAA
GGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATAGGCATCTAATGATTTATTTT
TTACGTTACGGATATATTATCATTAATTAAAAACAATAAACATATATATTATTTATTATTAGCTT
TGGTTAATATTGTTAAATTTAAAATCTA
Found at i:14576256 original size:2 final size:2
Alignment explanation
Indices: 14576249--14576427 Score: 126
Period size: 2 Copynumber: 91.5 Consensus size: 2
14576239 ATTATAGTCG
* *
14576249 AT AT AT AT AT AT AT AT AT AT AT AT A- AT CT CT GA- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT
* *
14576290 AT AT AT AT AT AT AT AT AT AT GT ACT AGT AT AT ACT AT -T GT -T
1 AT AT AT AT AT AT AT AT AT AT AT A-T A-T AT AT A-T AT AT AT AT
* * * *
14576331 TT TT A- AA AT AT AT AT AT A- AT AT TT AT AT AT AGT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* * * *
14576371 AT -T AG AT AT AT AT AT AT AT AT -T AT AGT AT AT TT AA AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
14576412 AT -T AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
14576428 ACTAGTATTA
Statistics
Matches: 147, Mismatches: 15, Indels: 30
0.77 0.08 0.16
Matches are distributed among these distances:
1 10 0.07
2 127 0.86
3 10 0.07
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14576357 original size:9 final size:9
Alignment explanation
Indices: 14576340--14576427 Score: 58
Period size: 9 Copynumber: 9.8 Consensus size: 9
14576330 TTTTTAAAAT
14576340 ATATATATA
1 ATATATATA
*
14576349 ATATTTAT-
1 ATATATATA
14576357 ATATAGTATA
1 ATATA-TATA
*
14576367 TTATAT-TA
1 ATATATATA
14576375 GATATATATA
1 -ATATATATA
14576385 TATATATTATA
1 -ATATA-TATA
* *
14576396 GTATATTTA
1 ATATATATA
*
14576405 A-AAATATA
1 ATATATATA
*
14576413 TTATATAT-
1 ATATATATA
14576421 ATATATA
1 ATATATA
14576428 ACTAGTATTA
Statistics
Matches: 60, Mismatches: 13, Indels: 13
0.70 0.15 0.15
Matches are distributed among these distances:
8 17 0.28
9 24 0.40
10 15 0.25
11 4 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (9 bp):
ATATATATA
Found at i:14576381 original size:29 final size:29
Alignment explanation
Indices: 14576348--14576426 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
14576338 ATATATATAT
*
14576348 AATATTTATATATAGTATATTATA-TTAGA
1 AATATTTATATATA-TATATTATATTTAAA
* * *
14576377 TATATATATATATATTATAGTATATTTAAA
1 AATATTTATATATA-TATATTATATTTAAA
14576407 AATATATTATATATATATAT
1 AATAT-TTATATATATATAT
14576427 AACTAGTATT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
29 20 0.50
30 12 0.30
31 8 0.20
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (29 bp):
AATATTTATATATATATATTATATTTAAA
Found at i:14578483 original size:20 final size:20
Alignment explanation
Indices: 14578458--14578517 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
14578448 TCTCGAGACC
*
14578458 GACTGGTCTCCATATCGAAG
1 GACTGGTCTCCATACCGAAG
14578478 GACTGGTCTCCATACCGCAA-
1 GACTGGTCTCCATACCG-AAG
*
14578498 GACTGGTTTCCATACCGAAG
1 GACTGGTCTCCATACCGAAG
14578518 ATTGAGTATC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.06
20 32 0.89
21 2 0.06
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (20 bp):
GACTGGTCTCCATACCGAAG
Found at i:14578529 original size:20 final size:20
Alignment explanation
Indices: 14578458--14578533 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 20
14578448 TCTCGAGACC
* *
14578458 GACTGGTCTCCATATCG-AA
1 GACTGGTATCCATACCGCAA
*
14578477 GGACTGGTCTCCATACCGCAA
1 -GACTGGTATCCATACCGCAA
*
14578498 GACTGGTTTCCATACCG-AA
1 GACTGGTATCCATACCGCAA
*
14578517 GATTGAGTATCCATACC
1 GACTG-GTATCCATACC
14578534 AAAGGCTTGA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.12
20 42 0.84
21 2 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (20 bp):
GACTGGTATCCATACCGCAA
Found at i:14578530 original size:40 final size:40
Alignment explanation
Indices: 14578458--14578533 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
14578448 TCTCGAGACC
* *
14578458 GACTGGTCTCCATATCGAAGGACTGGTCTCCATACCGCAA
1 GACTGGTCTCCATACCGAAGGACTGGTATCCATACCGCAA
* *
14578498 GACTGGTTTCCATACCGAA-GATTGAGTATCCATACC
1 GACTGGTCTCCATACCGAAGGACTG-GTATCCATACC
14578534 AAAGGCTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 4 0.13
40 27 0.87
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
GACTGGTCTCCATACCGAAGGACTGGTATCCATACCGCAA
Found at i:14580270 original size:10 final size:10
Alignment explanation
Indices: 14580247--14580277 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
14580237 GTCATTTACC
14580247 TTATTATT-T
1 TTATTATTAT
14580256 TTATTATTAT
1 TTATTATTAT
14580266 TTATTATTAT
1 TTATTATTAT
14580276 TT
1 TT
14580278 TTTGCCATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTATTATTAT
Found at i:14583433 original size:214 final size:214
Alignment explanation
Indices: 14583064--14583492 Score: 858
Period size: 214 Copynumber: 2.0 Consensus size: 214
14583054 CTCTCTAAAA
14583064 AAGAGAGATATCATCTCTCTCGCTTCTCTTTAAATTCCTCCAATCGGAGGAAGGCAGACAGTCGT
1 AAGAGAGATATCATCTCTCTCGCTTCTCTTTAAATTCCTCCAATCGGAGGAAGGCAGACAGTCGT
14583129 CTGCCGTCGCCAACTCCGTCGCTGGCCACCGTCGACGGTGGTCAAAAAATTATCAAATACACGAA
66 CTGCCGTCGCCAACTCCGTCGCTGGCCACCGTCGACGGTGGTCAAAAAATTATCAAATACACGAA
14583194 AATGTAGATCGGACCGTCCTAATGACAATTCCAGTGTCTTTTTCCCTTAAAAAGCTCCCGATCGG
131 AATGTAGATCGGACCGTCCTAATGACAATTCCAGTGTCTTTTTCCCTTAAAAAGCTCCCGATCGG
14583259 AGCAAATCTATGAAAGTAC
196 AGCAAATCTATGAAAGTAC
14583278 AAGAGAGATATCATCTCTCTCGCTTCTCTTTAAATTCCTCCAATCGGAGGAAGGCAGACAGTCGT
1 AAGAGAGATATCATCTCTCTCGCTTCTCTTTAAATTCCTCCAATCGGAGGAAGGCAGACAGTCGT
14583343 CTGCCGTCGCCAACTCCGTCGCTGGCCACCGTCGACGGTGGTCAAAAAATTATCAAATACACGAA
66 CTGCCGTCGCCAACTCCGTCGCTGGCCACCGTCGACGGTGGTCAAAAAATTATCAAATACACGAA
14583408 AATGTAGATCGGACCGTCCTAATGACAATTCCAGTGTCTTTTTCCCTTAAAAAGCTCCCGATCGG
131 AATGTAGATCGGACCGTCCTAATGACAATTCCAGTGTCTTTTTCCCTTAAAAAGCTCCCGATCGG
14583473 AGCAAATCTATGAAAGTAC
196 AGCAAATCTATGAAAGTAC
14583492 A
1 A
14583493 TCAGTTTTCG
Statistics
Matches: 215, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
214 215 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (214 bp):
AAGAGAGATATCATCTCTCTCGCTTCTCTTTAAATTCCTCCAATCGGAGGAAGGCAGACAGTCGT
CTGCCGTCGCCAACTCCGTCGCTGGCCACCGTCGACGGTGGTCAAAAAATTATCAAATACACGAA
AATGTAGATCGGACCGTCCTAATGACAATTCCAGTGTCTTTTTCCCTTAAAAAGCTCCCGATCGG
AGCAAATCTATGAAAGTAC
Found at i:14584709 original size:33 final size:33
Alignment explanation
Indices: 14584672--14584774 Score: 129
Period size: 33 Copynumber: 3.1 Consensus size: 33
14584662 ATTGTTTGAA
*
14584672 TCAGTAG-GACCAAGGAAAGCACCACCATTCGAG
1 TCAGTAGAG-CCAAGGGAAGCACCACCATTCGAG
*
14584705 TCAGTAGAGCTAAGGGAAGCACCACCAGTT-GAG
1 TCAGTAGAGCCAAGGGAAGCACCACCA-TTCGAG
* * *
14584738 TCATTAGAGCCAAGGGAAGCACAATCATTCGAG
1 TCAGTAGAGCCAAGGGAAGCACCACCATTCGAG
14584771 TCAG
1 TCAG
14584775 CAGGTTCAAG
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
32 2 0.03
33 55 0.92
34 3 0.05
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.16
Consensus pattern (33 bp):
TCAGTAGAGCCAAGGGAAGCACCACCATTCGAG
Found at i:14595761 original size:17 final size:17
Alignment explanation
Indices: 14595735--14595767 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14595725 GTATTAATTT
*
14595735 TGACATCTCTATGTCAA
1 TGACAACTCTATGTCAA
14595752 TGACAACTCTATGTCA
1 TGACAACTCTATGTCA
14595768 TCAATCAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.33
Consensus pattern (17 bp):
TGACAACTCTATGTCAA
Found at i:14602060 original size:177 final size:177
Alignment explanation
Indices: 14601764--14602118 Score: 710
Period size: 177 Copynumber: 2.0 Consensus size: 177
14601754 GATTTATATG
14601764 CCAATGCTTTGGCAAAGCCCACACAATATCGATCGAAGTCTTAACTAGGGTAAATATTGGATGAT
1 CCAATGCTTTGGCAAAGCCCACACAATATCGATCGAAGTCTTAACTAGGGTAAATATTGGATGAT
14601829 TATGCTAACTTAGATTATAAAGAGGGATTTGCGAAATTATCTCATCGTTGTTAATATTAGGCCCT
66 TATGCTAACTTAGATTATAAAGAGGGATTTGCGAAATTATCTCATCGTTGTTAATATTAGGCCCT
14601894 TTATTGATCTCATTAAAGTTCATTCTTATTTTAGCATGCTAACGTGT
131 TTATTGATCTCATTAAAGTTCATTCTTATTTTAGCATGCTAACGTGT
14601941 CCAATGCTTTGGCAAAGCCCACACAATATCGATCGAAGTCTTAACTAGGGTAAATATTGGATGAT
1 CCAATGCTTTGGCAAAGCCCACACAATATCGATCGAAGTCTTAACTAGGGTAAATATTGGATGAT
14602006 TATGCTAACTTAGATTATAAAGAGGGATTTGCGAAATTATCTCATCGTTGTTAATATTAGGCCCT
66 TATGCTAACTTAGATTATAAAGAGGGATTTGCGAAATTATCTCATCGTTGTTAATATTAGGCCCT
14602071 TTATTGATCTCATTAAAGTTCATTCTTATTTTAGCATGCTAACGTGT
131 TTATTGATCTCATTAAAGTTCATTCTTATTTTAGCATGCTAACGTGT
14602118 C
1 C
14602119 ATTTGTTTTA
Statistics
Matches: 178, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
177 178 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (177 bp):
CCAATGCTTTGGCAAAGCCCACACAATATCGATCGAAGTCTTAACTAGGGTAAATATTGGATGAT
TATGCTAACTTAGATTATAAAGAGGGATTTGCGAAATTATCTCATCGTTGTTAATATTAGGCCCT
TTATTGATCTCATTAAAGTTCATTCTTATTTTAGCATGCTAACGTGT
Found at i:14608458 original size:21 final size:21
Alignment explanation
Indices: 14608423--14608463 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14608413 TTATTCTAAC
*
14608423 TTAAAATCCAGCATTCAATAA
1 TTAAAATCCAACATTCAATAA
* *
14608444 TTAAAATTCAACATTGAATA
1 TTAAAATCCAACATTCAATA
14608464 TCAATAATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.32
Consensus pattern (21 bp):
TTAAAATCCAACATTCAATAA
Found at i:14617209 original size:30 final size:31
Alignment explanation
Indices: 14617138--14617212 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
14617128 ATTTTATAAC
* *
14617138 AAAATTAA-TTATTAAATTTATTAAACTATT
1 AAAATTAATTTTTTAAATTTATTAAAATATT
* *
14617168 ATAAACT-ATTTTTTAATTTTATTAAAAT-TT
1 A-AAATTAATTTTTTAAATTTATTAAAATATT
14617198 AAAATTAATTTTTTA
1 AAAATTAATTTTTTA
14617213 TAATATTTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
29 4 0.11
30 13 0.35
31 20 0.54
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (31 bp):
AAAATTAATTTTTTAAATTTATTAAAATATT
Found at i:14617257 original size:20 final size:21
Alignment explanation
Indices: 14617212--14617257 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
14617202 TTAATTTTTT
14617212 ATAA-TATTTTGATAAATTTA
1 ATAATTATTTTGATAAATTTA
14617232 ATAATTATTTT-ATAAATTATA
1 ATAATTATTTTGATAAATT-TA
14617253 A-AATT
1 ATAATT
14617258 CTAATGATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
ATAATTATTTTGATAAATTTA
Found at i:14617491 original size:26 final size:26
Alignment explanation
Indices: 14617453--14617506 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
14617443 GTGTGTTCAA
* *
14617453 TTCATTTACGTTCTTGAACGAGCTCG
1 TTCATTTACGTTCATGAACAAGCTCG
*
14617479 TTCATTTATGTTCATGAACAAGCTCG
1 TTCATTTACGTTCATGAACAAGCTCG
14617505 TT
1 TT
14617507 TATCCGGTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (26 bp):
TTCATTTACGTTCATGAACAAGCTCG
Found at i:14621353 original size:34 final size:33
Alignment explanation
Indices: 14621286--14621373 Score: 106
Period size: 33 Copynumber: 2.6 Consensus size: 33
14621276 TAATACTTAC
**
14621286 TTTATTTCATTAATTTTGTTGGATTTATTTTAA
1 TTTATTTTGTTAATTTTGTTGGATTTATTTTAA
*
14621319 TTTATTTTGTTAAATTTGTTGGACTTT-TTGTTAA
1 TTTATTTTGTTAATTTTGTTGGA-TTTATT-TTAA
*
14621353 TGTATTTTGGTTAATTTTGTT
1 TTTATTTT-GTTAATTTTGTT
14621374 TATTACCATT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
33 22 0.47
34 14 0.30
35 11 0.23
ACGTcount: A:0.20, C:0.02, G:0.14, T:0.64
Consensus pattern (33 bp):
TTTATTTTGTTAATTTTGTTGGATTTATTTTAA
Found at i:14621403 original size:35 final size:32
Alignment explanation
Indices: 14621368--14621448 Score: 83
Period size: 35 Copynumber: 2.3 Consensus size: 32
14621358 TTTGGTTAAT
14621368 TTTGTT-TATTACCATTTAATATTAGTTATTGTAA
1 TTTGTTATATTACCATTTAATA-T--TTATTGTAA
14621402 TTTGTTTATCATTTACCATTTAATATTTATTGTAA
1 TTTG-TTAT-A-TTACCATTTAATATTTATTGTAA
*
14621437 GTTTGTTGTATT
1 -TTTGTTATATT
14621449 TAAAATTATA
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
33 2 0.05
34 5 0.12
35 14 0.34
36 5 0.12
37 2 0.05
38 13 0.32
ACGTcount: A:0.26, C:0.06, G:0.10, T:0.58
Consensus pattern (32 bp):
TTTGTTATATTACCATTTAATATTTATTGTAA
Found at i:14626082 original size:13 final size:13
Alignment explanation
Indices: 14626064--14626088 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14626054 AGAACCGTAA
14626064 TCCATTTGAAAAG
1 TCCATTTGAAAAG
14626077 TCCATTTGAAAA
1 TCCATTTGAAAA
14626089 TTGATAAAAC
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:0.16, G:0.12, T:0.32
Consensus pattern (13 bp):
TCCATTTGAAAAG
Done.