Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 55 of 73
Found at i:13008022 original size:24 final size:24
Alignment explanation
Indices: 13007985--13008044 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
13007975 AAAAATCCCC
13007985 TTTT-TTATATTTATTACTATTAATA
1 TTTTATTAT-TTTATTA-TATTAATA
* *
13008010 -TTTATTATTTTATTATTTTATTA
1 TTTTATTATTTTATTATATTAATA
13008033 TTTTATTATTTT
1 TTTTATTATTTT
13008045 TCCTTTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 6 0.19
24 21 0.68
25 4 0.13
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTTATTATTTTATTATATTAATA
Found at i:13008023 original size:8 final size:8
Alignment explanation
Indices: 13008010--13008044 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
13008000 ACTATTAATA
13008010 TTTATTAT
1 TTTATTAT
13008018 TTTATTAT
1 TTTATTAT
13008026 TTTATTAT
1 TTTATTAT
13008034 TTTATTAT
1 TTTATTAT
13008042 TTT
1 TTT
13008045 TCCTTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTATTAT
Found at i:13010989 original size:6 final size:5
Alignment explanation
Indices: 13010976--13011082 Score: 65
Period size: 5 Copynumber: 20.8 Consensus size: 5
13010966 ATTATATATT
* * *
13010976 TTTTA TTTTCA TTTTA TTTTTG TTTTA TTTTG TTTTA TTTTCA TTTTT
1 TTTTA TTTT-A TTTTA -TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA
**** * * *
13011024 TTTTCA GCGAA CTTTA TTTCA TTCTA -TTTA TTTTA TTTTGA -TTTA TTTTA
1 TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA TTTTA
13011074 TTTTA TTTT
1 TTTTA TTTT
13011083 TCTCTGAACA
Statistics
Matches: 76, Mismatches: 19, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
4 4 0.05
5 57 0.75
6 15 0.20
ACGTcount: A:0.17, C:0.07, G:0.05, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:13011026 original size:10 final size:11
Alignment explanation
Indices: 13010976--13011029 Score: 65
Period size: 11 Copynumber: 5.0 Consensus size: 11
13010966 ATTATATATT
13010976 TTTTATTTTCA
1 TTTTATTTTCA
**
13010987 TTTTATTTTTG
1 TTTTATTTTCA
*
13010998 TTTTATTTT-G
1 TTTTATTTTCA
13011008 TTTTATTTTCA
1 TTTTATTTTCA
*
13011019 TTTTTTTTTCA
1 TTTTATTTTCA
13011030 GCGAACTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
10 10 0.26
11 28 0.74
ACGTcount: A:0.13, C:0.06, G:0.04, T:0.78
Consensus pattern (11 bp):
TTTTATTTTCA
Found at i:13011069 original size:15 final size:14
Alignment explanation
Indices: 13011036--13011081 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
13011026 TTCAGCGAAC
* *
13011036 TTTATTTCATTCTA
1 TTTATTTTATTTTA
13011050 TTTATTTTATTTTGA
1 TTTATTTTATTTT-A
13011065 TTTATTTTATTTTA
1 TTTATTTTATTTTA
13011079 TTT
1 TTT
13011082 TTCTCTGAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 15 0.52
15 14 0.48
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:13011257 original size:15 final size:15
Alignment explanation
Indices: 13011239--13011268 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13011229 TCGGACAATG
13011239 CAGTGAAGAAAAAAA
1 CAGTGAAGAAAAAAA
*
13011254 CAGTGTAGAAAAAAA
1 CAGTGAAGAAAAAAA
13011269 ACGATTTGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.20, T:0.10
Consensus pattern (15 bp):
CAGTGAAGAAAAAAA
Found at i:13013047 original size:76 final size:76
Alignment explanation
Indices: 13012937--13013153 Score: 287
Period size: 76 Copynumber: 2.9 Consensus size: 76
13012927 ATTTTAAACA
* **
13012937 TTATATTTTATCTTTGTTTTAGGTATTTTTGTTTAAATAAGTTTTAGTATTTTAATTAATTTTTA
1 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAAGTTTTAGTATTTTAATTAAGATTTA
*
13013002 GGATATTATTT
66 GAATATTATTT
* * *
13013013 TTATAGTTTATCTTTGTTTTAGGTATTTTAGTTTAAATATGTTTTAGTATTTTAATTAGGATTTA
1 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAAGTTTTAGTATTTTAATTAAGATTTA
13013078 GAATATTATTT
66 GAATATTATTT
* * * *
13013089 TAAATATTATTAT-TAT-TTTTAGGTATTTTAGTTTAAAT-AGTTTTAAGTGTTTTAATTAGGAT
1 T-TATATT-TTATCTTTGTTTTAGGTATTTTAGTTTAAATAAGTTTT-AGTATTTTAATTAAGAT
13013151 TTA
63 TTA
13013154 AGATGTTTTA
Statistics
Matches: 126, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
75 5 0.04
76 111 0.88
77 6 0.05
78 4 0.03
ACGTcount: A:0.29, C:0.01, G:0.12, T:0.59
Consensus pattern (76 bp):
TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAAGTTTTAGTATTTTAATTAAGATTTA
GAATATTATTT
Found at i:13013281 original size:11 final size:12
Alignment explanation
Indices: 13013253--13013281 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
13013243 AAAATCTTCC
13013253 TTTTCTCTCTAG
1 TTTTCTCTCTAG
13013265 TTTTCTCTCTA-
1 TTTTCTCTCTAG
13013276 TTTTCT
1 TTTTCT
13013282 GCATACTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.07, C:0.24, G:0.03, T:0.66
Consensus pattern (12 bp):
TTTTCTCTCTAG
Found at i:13013847 original size:16 final size:15
Alignment explanation
Indices: 13013823--13013865 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
13013813 TTAACATTTA
13013823 TTATTTTATTATT-T
1 TTATTTTATTATTAT
*
13013837 TTCATTTTTATAATTAT
1 TT-A-TTTTATTATTAT
13013854 TTATTTTATTAT
1 TTATTTTATTAT
13013866 ACATTTTCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 2 0.08
15 9 0.38
16 10 0.42
17 3 0.12
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (15 bp):
TTATTTTATTATTAT
Found at i:13016149 original size:29 final size:29
Alignment explanation
Indices: 13016036--13016146 Score: 188
Period size: 29 Copynumber: 3.9 Consensus size: 29
13016026 CCTAAATTAA
13016036 TTTT-ATGTCATTGCTTACATCAATATAG
1 TTTTGATGTCATTGCTTACATCAATATAG
*
13016064 TTTTGATTTCATTGCTTACATCAATATAG
1 TTTTGATGTCATTGCTTACATCAATATAG
*
13016093 TTTTGATGTCATTGCTTACATCAATTTAG
1 TTTTGATGTCATTGCTTACATCAATATAG
*
13016122 TTTTGATGTCATTGCTTATATCAAT
1 TTTTGATGTCATTGCTTACATCAAT
13016147 TTACTTAGGT
Statistics
Matches: 78, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
28 4 0.05
29 74 0.95
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.49
Consensus pattern (29 bp):
TTTTGATGTCATTGCTTACATCAATATAG
Found at i:13020820 original size:29 final size:29
Alignment explanation
Indices: 13020786--13020841 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
13020776 CCTAAATTAA
13020786 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
13020815 TTTGATGTCATTGCTTACATCAATTTA
1 TTTGATGTCATTGCTTACATCAATTTA
13020842 CTTAGGTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.48
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:13023213 original size:14 final size:14
Alignment explanation
Indices: 13023194--13023227 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
13023184 CGTTAAAACA
*
13023194 TATCTAATTAACTT
1 TATCTAATTAAATT
13023208 TATCTAATTAAATT
1 TATCTAATTAAATT
13023222 TATCTA
1 TATCTA
13023228 TAATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (14 bp):
TATCTAATTAAATT
Found at i:13024095 original size:2 final size:2
Alignment explanation
Indices: 13024090--13024124 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
13024080 ATGGGTCGAG
13024090 AT AT AT AT AT AT 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 AT AT A
13024125 ATAAAATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13026086 original size:8 final size:8
Alignment explanation
Indices: 13026073--13026097 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13026063 TAGCCGCAAC
13026073 TAGTGTTG
1 TAGTGTTG
13026081 TAGTGTTG
1 TAGTGTTG
13026089 TAGTGTTG
1 TAGTGTTG
13026097 T
1 T
13026098 CATATTGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.36, T:0.52
Consensus pattern (8 bp):
TAGTGTTG
Found at i:13026945 original size:16 final size:16
Alignment explanation
Indices: 13026924--13026960 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
13026914 TAGTTGCATG
13026924 AAGTTTGAAATTGTCA
1 AAGTTTGAAATTGTCA
13026940 AAGTTTGAAATTGTCA
1 AAGTTTGAAATTGTCA
13026956 AAGTT
1 AAGTT
13026961 CGCAACACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (16 bp):
AAGTTTGAAATTGTCA
Found at i:13027353 original size:8 final size:8
Alignment explanation
Indices: 13027340--13027364 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13027330 TAGCCGCAAC
13027340 TAGTGTTG
1 TAGTGTTG
13027348 TAGTGTTG
1 TAGTGTTG
13027356 TAGTGTTG
1 TAGTGTTG
13027364 T
1 T
13027365 CATATTGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.36, T:0.52
Consensus pattern (8 bp):
TAGTGTTG
Found at i:13028074 original size:14 final size:13
Alignment explanation
Indices: 13028035--13028073 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
13028025 TTGTTTCACT
13028035 AAAAATAATTTTA
1 AAAAATAATTTTA
**
13028048 AAAGAATGGTTTTA
1 AAA-AATAATTTTA
13028062 AAAAATAATTTT
1 AAAAATAATTTT
13028074 TGAAAATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAAATAATTTTA
Found at i:13028231 original size:15 final size:15
Alignment explanation
Indices: 13028207--13028248 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
13028197 AAATACTTTT
13028207 ATTT-TTTATTTAA-
1 ATTTATTTATTTAAG
13028220 ATTATATTTATTTAAG
1 ATT-TATTTATTTAAG
13028236 ATTTATTATATTT
1 ATTTATT-TATTT
13028249 TTTTATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.12
14 1 0.04
15 13 0.52
16 8 0.32
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (15 bp):
ATTTATTTATTTAAG
Found at i:13029909 original size:22 final size:22
Alignment explanation
Indices: 13029878--13029932 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
13029868 ACGTATTAAA
*
13029878 ATTTTCAGTTAAAAAAGAGTAT
1 ATTTTTAGTTAAAAAAGAGTAT
*
13029900 ATTTTTAGTT-AAAAATAGTAT
1 ATTTTTAGTTAAAAAAGAGTAT
*
13029921 ATTTTTAATTAA
1 ATTTTTAGTTAA
13029933 TCACATGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (22 bp):
ATTTTTAGTTAAAAAAGAGTAT
Found at i:13031595 original size:20 final size:19
Alignment explanation
Indices: 13031562--13031604 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
13031552 AAATCCCTCA
13031562 AAAACTGACATTTTTGCCC
1 AAAACTGACATTTTTGCCC
13031581 AAAACTGACATTTTTGCCC
1 AAAACTGACATTTTTGCCC
13031600 AAAAC
1 AAAAC
13031605 AGACTGAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.37, C:0.26, G:0.09, T:0.28
Consensus pattern (19 bp):
AAAACTGACATTTTTGCCC
Found at i:13032733 original size:15 final size:15
Alignment explanation
Indices: 13032696--13032739 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
13032686 TTTATTTTAT
*
13032696 AAATTATCTAAAATA
1 AAATAATCTAAAATA
*
13032711 AAAGTAATCTAAATTA
1 AAA-TAATCTAAAATA
*
13032727 AAATAATATAAAA
1 AAATAATCTAAAA
13032740 ATTGAAATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (15 bp):
AAATAATCTAAAATA
Found at i:13046350 original size:20 final size:20
Alignment explanation
Indices: 13046325--13046364 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
13046315 TGCCTGCCAA
13046325 CTAGGAGGGGCGACTACCAC
1 CTAGGAGGGGCGACTACCAC
13046345 CTAGGAGGGGCGACTACCAC
1 CTAGGAGGGGCGACTACCAC
13046365 ATTTGTACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.30, G:0.35, T:0.10
Consensus pattern (20 bp):
CTAGGAGGGGCGACTACCAC
Found at i:13048736 original size:24 final size:24
Alignment explanation
Indices: 13048708--13048772 Score: 121
Period size: 24 Copynumber: 2.7 Consensus size: 24
13048698 AGTTAGTTAC
*
13048708 GCGTGGGGAAAGTTTAGTACATAT
1 GCGTGGGGAAGGTTTAGTACATAT
13048732 GCGTGGGGAAGGTTTAGTACATAT
1 GCGTGGGGAAGGTTTAGTACATAT
13048756 GCGTGGGGAAGGTTTAG
1 GCGTGGGGAAGGTTTAG
13048773 AACCCCCACA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.25, C:0.08, G:0.40, T:0.28
Consensus pattern (24 bp):
GCGTGGGGAAGGTTTAGTACATAT
Found at i:13050902 original size:18 final size:19
Alignment explanation
Indices: 13050876--13050919 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
13050866 ATTTATATTT
13050876 ATATATATAAGTACT-ATA
1 ATATATATAAGTACTCATA
* *
13050894 ATATTTATATGTACTCATA
1 ATATATATAAGTACTCATA
13050913 ATA-ATAT
1 ATATATAT
13050920 GTATACTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (19 bp):
ATATATATAAGTACTCATA
Found at i:13051390 original size:56 final size:56
Alignment explanation
Indices: 13051254--13051893 Score: 718
Period size: 56 Copynumber: 11.5 Consensus size: 56
13051244 TCCTTATCGC
* * * *
13051254 TTCAAGGAGTATAGAACTTGAACAATCTTCTGCCAATGGGTTCGCTCCC-CTTGC-
1 TTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCT
* * *
13051308 TTCAAGGAGTATAGAACTCGAACAATCTTTTGCCAATGGGTTCGCTCCCTCTTTCT
1 TTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCT
* ** * * * *
13051364 TTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAATAGATTCGTTCCCTATTGCT
1 TTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCT
* * ** ** * *
13051420 TT-AGGGAGTATATAACTCGAACAATCTTATGAAAATAGGTTCTCTCCCT-ATTCT
1 TTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCT
* *** * *
13051474 ATT-AGCGAGTATAGAACTCGAACAATCTTCTAAAAAAGGGTTCGCTCCTTCTTTCT
1 -TTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCT
* * * * *
13051530 TTCAAGGAGTATAGAACTCAAATAATCTTCCGCCAACGGGTTCGCTCCCTCCTTC-
1 TTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCT
* * * * * *
13051585 TTCAAGGAGTATAAAACTCGAATAATATTCTGCAAACGGGTTCGCTCTCTCTTTCT
1 TTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCT
* * *
13051641 TTCAGGGAGTATAGAACTCGAATAATCTTCTACCAATGGGTTCGCTCCCTCTTTCT
1 TTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCT
* * * *
13051697 TTCAGGGAGCATAGAACTCGAATAATCTTCTGCCAACGAGTTCGCTCCATCTTTCT
1 TTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCT
* * * * *
13051753 TTCAGGGAGTATAGAACTCAAATAATCTTCTTCCAACGAGTTCGTTCCCTCTTTCT
1 TTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCT
* * * *
13051809 TTCA-GGAGTATAGAACTCGAATAATATTTTGCCAACGTGTTCGCTCCCTCTTTCT
1 TTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCT
*
13051864 TTCAGGGAGTATAGAAGTCGAACAATCTTC
1 TTCAGGGAGTATAGAACTCGAACAATCTTC
13051894 ATTTGCTTCA
Statistics
Matches: 506, Mismatches: 73, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
54 50 0.10
55 185 0.37
56 271 0.54
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.33
Consensus pattern (56 bp):
TTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCT
Found at i:13051445 original size:111 final size:112
Alignment explanation
Indices: 13051254--13051893 Score: 688
Period size: 111 Copynumber: 5.8 Consensus size: 112
13051244 TCCTTATCGC
* * * * * *
13051254 TTCAAGGAGTATAGAACTTGAACAATCTTCTGCCAATGGGTTCGCTCCC-CTTGC-TTCAAGGAG
1 TTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAATAGGTTCGCTCCCTCTTTCTTTCAGGGAG
*
13051317 TATAGAACTCGAACAATCTTTTGCCAATGGGTTCGCTCCCTCTTTCT
66 TATAGAACTCGAACAATCTTCTGCCAATGGGTTCGCTCCCTCTTTCT
* * * *
13051364 TTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAATAGATTCGTTCCCTATTGCTTT-AGGGAG
1 TTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAATAGGTTCGCTCCCTCTTTCTTTCAGGGAG
* * ** * * *
13051428 TATATAACTCGAACAATCTTATGAAAATAGGTTCTCTCCCT-ATTCT
66 TATAGAACTCGAACAATCTTCTGCCAATGGGTTCGCTCCCTCTTTCT
* * * * *
13051474 ATT-AGCGAGTATAGAACTCGAACAATCTTCT-AAAAAAGGGTTCGCTCCTTCTTTCTTTCAAGG
1 -TTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAATA-GGTTCGCTCCCTCTTTCTTTCAGGG
* * * * *
13051537 AGTATAGAACTCAAATAATCTTCCGCCAACGGGTTCGCTCCCTCCTTC-
64 AGTATAGAACTCGAACAATCTTCTGCCAATGGGTTCGCTCCCTCTTTCT
* * * * ** *
13051585 TTCAAGGAGTATAAAACTCGAATAATATTCTGCAAACGGGTTCGCTCTCTCTTTCTTTCAGGGAG
1 TTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAATAGGTTCGCTCCCTCTTTCTTTCAGGGAG
* *
13051650 TATAGAACTCGAATAATCTTCTACCAATGGGTTCGCTCCCTCTTTCT
66 TATAGAACTCGAACAATCTTCTGCCAATGGGTTCGCTCCCTCTTTCT
* * * * *
13051697 TTCAGGGAGCATAGAACTCGAATAATCTTCTGCCAA-CGAGTTCGCTCCATCTTTCTTTCAGGGA
1 TTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAATAG-GTTCGCTCCCTCTTTCTTTCAGGGA
* * * * * *
13051761 GTATAGAACTCAAATAATCTTCTTCCAACGAGTTCGTTCCCTCTTTCT
65 GTATAGAACTCGAACAATCTTCTGCCAATGGGTTCGCTCCCTCTTTCT
* * * * *
13051809 TTCA-GGAGTATAGAACTCGAATAATATTTTGCCAA-CGTGTTCGCTCCCTCTTTCTTTCAGGGA
1 TTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAATAG-GTTCGCTCCCTCTTTCTTTCAGGGA
*
13051872 GTATAGAAGTCGAACAATCTTC
65 GTATAGAACTCGAACAATCTTC
13051894 ATTTGCTTCA
Statistics
Matches: 448, Mismatches: 72, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
109 4 0.01
110 91 0.20
111 244 0.54
112 109 0.24
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.33
Consensus pattern (112 bp):
TTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAATAGGTTCGCTCCCTCTTTCTTTCAGGGAG
TATAGAACTCGAACAATCTTCTGCCAATGGGTTCGCTCCCTCTTTCT
Found at i:13051973 original size:37 final size:37
Alignment explanation
Indices: 13051894--13051976 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 37
13051884 AACAATCTTC
* ** *
13051894 ATTTGCTTCACTACTTTTTTGTGAAGGCTTCTAGATG
1 ATTTGCTTCACTACTCTTTCATGAAGGCTTCAAGATG
* *
13051931 TTTTGCTTCACTACTCTTTCATGAAGGCTT-AAGTTTG
1 ATTTGCTTCACTACTCTTTCATGAAGGCTTCAAG-ATG
13051968 ATTTGCTTC
1 ATTTGCTTC
13051977 GAAGGTCAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
36 2 0.05
37 36 0.95
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.47
Consensus pattern (37 bp):
ATTTGCTTCACTACTCTTTCATGAAGGCTTCAAGATG
Found at i:13068779 original size:18 final size:18
Alignment explanation
Indices: 13068756--13068796 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
13068746 TTAGCTATTG
13068756 TGCCTAATAACCAAATAT
1 TGCCTAATAACCAAATAT
13068774 TGCCTAATAACCAAATAT
1 TGCCTAATAACCAAATAT
13068792 TGCCT
1 TGCCT
13068797 CGTTTTTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.29
Consensus pattern (18 bp):
TGCCTAATAACCAAATAT
Found at i:13069655 original size:37 final size:36
Alignment explanation
Indices: 13069603--13069697 Score: 97
Period size: 37 Copynumber: 2.6 Consensus size: 36
13069593 ACAAAACATT
*
13069603 TAAT-AATAAACTAAATTAAAATGATTAAAACAACAA-A
1 TAATAAATAAA-TAAATTAAAAT-AGTAAAA-AACAACA
*
13069640 TAATAAATAAATAAATAAAAATAGTAAAAAACAACA
1 TAATAAATAAATAAATTAAAATAGTAAAAAACAACA
13069676 TAAAATAAA-AAATAAATATAAA
1 T--AATAAATAAATAAAT-TAAA
13069698 CATAAAATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
35 5 0.10
36 8 0.16
37 22 0.44
38 15 0.30
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (36 bp):
TAATAAATAAATAAATTAAAATAGTAAAAAACAACA
Found at i:13083007 original size:20 final size:20
Alignment explanation
Indices: 13082962--13083007 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
13082952 TCGATACTAT
13082962 TATTG-AAAAATGGATTCGA
1 TATTGAAAAAATGGATTCGA
* *
13082981 GAATGAAAAAATGG-TATCGA
1 TATTGAAAAAATGGAT-TCGA
13083001 TATTGAA
1 TATTGAA
13083008 GGGAGTATTG
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.46, C:0.04, G:0.22, T:0.28
Consensus pattern (20 bp):
TATTGAAAAAATGGATTCGA
Found at i:13084387 original size:2 final size:2
Alignment explanation
Indices: 13084380--13084441 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
13084370 GACGTGTTTA
13084380 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13084422 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
13084442 GTTTATTTAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13085710 original size:2 final size:2
Alignment explanation
Indices: 13085703--13085781 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
13085693 TGTCCGAATG
13085703 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13085745 AT AT AT AT AT AT AT 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 AT AT AT A
13085782 GTTTTTCTAG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13098529 original size:22 final size:22
Alignment explanation
Indices: 13098501--13098550 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
13098491 ACATGGCATC
*
13098501 TATTAATAACTCAAATTTATTT
1 TATTAATAACTAAAATTTATTT
13098523 TATTAATAACTAAAATTTATTT
1 TATTAATAACTAAAATTTATTT
13098545 TATTAA
1 TATTAA
13098551 CTCAAAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTAATAACTAAAATTTATTT
Found at i:13099085 original size:31 final size:31
Alignment explanation
Indices: 13099049--13099113 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
13099039 TATTGTCAGC
*
13099049 AGATACAATTTACCTCCTAATTATATGAAAG
1 AGATACAATTTACCTCCCAATTATATGAAAG
13099080 AGATACAATTTACCTCCCAATTATATGAAAG
1 AGATACAATTTACCTCCCAATTATATGAAAG
13099111 AGA
1 AGA
13099114 GAAGAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (31 bp):
AGATACAATTTACCTCCCAATTATATGAAAG
Found at i:13100380 original size:12 final size:12
Alignment explanation
Indices: 13100363--13100388 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13100353 CCCCACTCCC
13100363 TTCTTTCTTTCA
1 TTCTTTCTTTCA
13100375 TTCTTTCTTTCA
1 TTCTTTCTTTCA
13100387 TT
1 TT
13100389 GACCACCGAT
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:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (12 bp):
TTCTTTCTTTCA
Found at i:13106943 original size:25 final size:25
Alignment explanation
Indices: 13106909--13106956 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
13106899 ACTTGACTTG
13106909 GTACACATTTCACCTTTTCATGTTA
1 GTACACATTTCACCTTTTCATGTTA
*
13106934 GTACATATTTCACCTTTTCATGT
1 GTACACATTTCACCTTTTCATGT
13106957 GAGTTTTGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (25 bp):
GTACACATTTCACCTTTTCATGTTA
Found at i:13110286 original size:17 final size:18
Alignment explanation
Indices: 13110246--13110286 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
13110236 ACCCAACTTC
*
13110246 ATGAAATTATCCATTTGA
1 ATGAAAATATCCATTTGA
*
13110264 AT-AAAATATTCATTT-A
1 ATGAAAATATCCATTTGA
13110280 ATGAAAA
1 ATGAAAA
13110287 ATGTCTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 3 0.15
17 15 0.75
18 2 0.10
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (18 bp):
ATGAAAATATCCATTTGA
Found at i:13116802 original size:24 final size:24
Alignment explanation
Indices: 13116775--13116830 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
13116765 CCCAAACCAA
*
13116775 ACCCGACCCAGAGACTCGAATTAG
1 ACCCGACCCAGAGACCCGAATTAG
* * *
13116799 ACCCAACCCGGGGACCCGAATTAG
1 ACCCGACCCAGAGACCCGAATTAG
13116823 ACCCGACC
1 ACCCGACC
13116831 TAAAACCCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.30, C:0.39, G:0.21, T:0.09
Consensus pattern (24 bp):
ACCCGACCCAGAGACCCGAATTAG
Found at i:13118047 original size:25 final size:24
Alignment explanation
Indices: 13117984--13118089 Score: 82
Period size: 25 Copynumber: 4.5 Consensus size: 24
13117974 TCTTTATGTT
13117984 TTATTTTATTTTAATTTAG-TCAC-
1 TTATTTTATTTTAATTTAGCT-ACG
* *
13118007 -TA-TCTATTTTTGATTTAGCTACTG
1 TTATTTTA-TTTTAATTTAGCTAC-G
13118031 TTATTTTATTTTAATTTAG-T-CG
1 TTATTTTATTTTAATTTAGCTACG
* * *
13118053 CT-GTTTATTTTTATTTAGCTACAG
1 TTATTTTATTTTAATTTAGCTAC-G
13118077 TTATTTTATTTTA
1 TTATTTTATTTTA
13118090 TGCAATTTAG
Statistics
Matches: 63, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
21 17 0.27
22 17 0.27
23 3 0.05
24 3 0.05
25 20 0.32
26 3 0.05
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.60
Consensus pattern (24 bp):
TTATTTTATTTTAATTTAGCTACG
Found at i:13118112 original size:97 final size:98
Alignment explanation
Indices: 13117982--13118200 Score: 239
Period size: 97 Copynumber: 2.2 Consensus size: 98
13117972 TGTCTTTATG
** *
13117982 TTTTATTTTATTTTAATTTAGTCACTATCTATTTTTGATTTAGCTACTGTTATTTTA-TTT-TAA
1 TTTTATTTTATTGCAATTTAGTCACTATCTATTTATGATTTAGCTACTGTTATTTTATTTTGTAA
* * *
13118045 TTTAGTCGCTGTTTATTT-TTATTTAGCTACAGTTA
66 TTTAGTCACTGGTTATTTCTGATTTAGCTA-A--TA
* * * **
13118080 TTTTATTTTA-TGCAATTTAGTCATTGTTTATTTATGATTTAGCTGTTGTTATTTTATTTTTGTA
1 TTTTATTTTATTGCAATTTAGTCACTATCTATTTATGATTTAGCTACTGTTATTTTA-TTTTGTA
*
13118144 ATTTAGTCATTGGTTATTTCTGATTTAGCTAATA
65 ATTTAGTCACTGGTTATTTCTGATTTAGCTAATA
* * *
13118178 TTTTATTTTGTTACATTTTAGTC
1 TTTTATTTTATTGCAATTTAGTC
13118201 CTTTATTCAA
Statistics
Matches: 101, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
97 38 0.38
98 21 0.21
99 13 0.13
100 19 0.19
101 10 0.10
ACGTcount: A:0.22, C:0.08, G:0.11, T:0.59
Consensus pattern (98 bp):
TTTTATTTTATTGCAATTTAGTCACTATCTATTTATGATTTAGCTACTGTTATTTTATTTTGTAA
TTTAGTCACTGGTTATTTCTGATTTAGCTAATA
Found at i:13118147 original size:50 final size:46
Alignment explanation
Indices: 13117984--13118174 Score: 202
Period size: 50 Copynumber: 3.9 Consensus size: 46
13117974 TCTTTATGTT
* *
13117984 TTATTTTATTTTAATTTAGTCACTATCTATTTTTGATTTAGCTACTG
1 TTATTTTATTTTAATTTAGTCACTGTTTA-TTTTGATTTAGCTACTG
* * *
13118031 TTATTTTATTTTAATTTAGTCGCTGTTTATTTTTATTTAGCTACAG
1 TTATTTTATTTTAATTTAGTCACTGTTTATTTTGATTTAGCTACTG
* **
13118077 TTATTTTATTTTATGCAATTTAGTCATTGTTTATTTATGATTTAGCTGTTG
1 TTATTTTA-TTT-T--AATTTAGTCACTGTTTATTT-TGATTTAGCTACTG
* *
13118128 TTATTTTATTTTTGTAATTTAGTCATTGGTTATTTCTGATTTAGCTA
1 TTATTTTA--TTT-TAATTTAGTCACTGTTTATTT-TGATTTAGCTA
13118175 ATATTTTATT
Statistics
Matches: 123, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
46 23 0.19
47 29 0.24
48 1 0.01
50 47 0.38
51 18 0.15
52 5 0.04
ACGTcount: A:0.22, C:0.08, G:0.12, T:0.59
Consensus pattern (46 bp):
TTATTTTATTTTAATTTAGTCACTGTTTATTTTGATTTAGCTACTG
Found at i:13120013 original size:24 final size:26
Alignment explanation
Indices: 13119986--13120036 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
13119976 TGACTAATCA
*
13119986 TTTCAACTAAC-TTGA-TTCTTTTTG
1 TTTCAACTAACATTGATTTCCTTTTG
*
13120010 TTTCTACTAACATTGATTTCCTTTTG
1 TTTCAACTAACATTGATTTCCTTTTG
13120036 T
1 T
13120037 CTGGTCTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 10 0.43
25 4 0.17
26 9 0.39
ACGTcount: A:0.20, C:0.18, G:0.08, T:0.55
Consensus pattern (26 bp):
TTTCAACTAACATTGATTTCCTTTTG
Found at i:13138451 original size:19 final size:19
Alignment explanation
Indices: 13138427--13138471 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
13138417 AATTTAGTTA
13138427 TTATATTAATTT-CAATTC
1 TTATATTAATTTACAATTC
*
13138445 TTTATATT-ATTTATAATTC
1 -TTATATTAATTTACAATTC
13138464 TTATATTA
1 TTATATTA
13138472 TAAATTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (19 bp):
TTATATTAATTTACAATTC
Found at i:13138467 original size:18 final size:18
Alignment explanation
Indices: 13138427--13138472 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
13138417 AATTTAGTTA
13138427 TTATATTAATTTCAATTCT
1 TTATATT-ATTTCAATTCT
*
13138446 TTATATTATTTATAATTC-
1 TTATATTATTT-CAATTCT
13138464 TTATATTAT
1 TTATATTAT
13138473 AAATTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATATTATTTCAATTCT
Found at i:13138485 original size:13 final size:14
Alignment explanation
Indices: 13138451--13138487 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
13138441 ATTCTTTATA
13138451 TTATTTAT-AATTC
1 TTATTTATAAATTC
13138464 TTATATTATAAATT-
1 TTAT-TTATAAATTC
13138478 TTATTTATAA
1 TTATTTATAA
13138488 TCATTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 8 0.36
15 4 0.18
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATTTATAAATTC
Found at i:13139265 original size:20 final size:20
Alignment explanation
Indices: 13139210--13139267 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
13139200 AGGATCATGC
* *
13139210 AATATCAAACAGAAGCAAAC
1 AATATCAAACAGAATCAAAA
* *
13139230 AATATAAAACATAATCAAAA
1 AATATCAAACAGAATCAAAA
*
13139250 AATATCAAGCAGAATCAA
1 AATATCAAACAGAATCAA
13139268 GCACCAACTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.62, C:0.16, G:0.07, T:0.16
Consensus pattern (20 bp):
AATATCAAACAGAATCAAAA
Found at i:13140391 original size:20 final size:20
Alignment explanation
Indices: 13140366--13140403 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13140356 TCAGCATTGC
*
13140366 TGCTCCCTACACTGTACTGT
1 TGCTCCCTACACCGTACTGT
13140386 TGCTCCCTACACCGTACT
1 TGCTCCCTACACCGTACT
13140404 ACAAACATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.39, G:0.13, T:0.32
Consensus pattern (20 bp):
TGCTCCCTACACCGTACTGT
Found at i:13140587 original size:31 final size:31
Alignment explanation
Indices: 13140552--13140610 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
13140542 TTTGAGTTTG
*
13140552 GGTTTATTAAGAACAAGTAATTTGTTTTCAA
1 GGTTTATGAAGAACAAGTAATTTGTTTTCAA
* * *
13140583 GGTTTGTGAAGAACAATTATTTTGTTTT
1 GGTTTATGAAGAACAAGTAATTTGTTTT
13140611 TAGATTGTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.46
Consensus pattern (31 bp):
GGTTTATGAAGAACAAGTAATTTGTTTTCAA
Found at i:13143104 original size:30 final size:30
Alignment explanation
Indices: 13143070--13143126 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
13143060 GAATAGTTTG
13143070 GATTC-GAGTTCGGGTTTGAGTTTGGATTTA
1 GATTCGGA-TTCGGGTTTGAGTTTGGATTTA
*
13143100 GATTCGGATTCGGGTTTGGGTTTGGAT
1 GATTCGGATTCGGGTTTGAGTTTGGAT
13143127 ACGGGTTTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.14, C:0.07, G:0.37, T:0.42
Consensus pattern (30 bp):
GATTCGGATTCGGGTTTGAGTTTGGATTTA
Found at i:13143105 original size:24 final size:24
Alignment explanation
Indices: 13143064--13143135 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
13143054 GGTTTCGAAT
*
13143064 AGTTTGGA-TTCGAGTTCGGGTTTG
1 AGTTTGGATTTAGA-TTCGGGTTTG
* *
13143088 AGTTTGGATTTAGATTCGGATTCG
1 AGTTTGGATTTAGATTCGGGTTTG
* * * *
13143112 GGTTTGGGTTTGGATACGGGTTTG
1 AGTTTGGATTTAGATTCGGGTTTG
13143136 GGTTCGGGTT
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
24 34 0.89
25 4 0.11
ACGTcount: A:0.14, C:0.07, G:0.38, T:0.42
Consensus pattern (24 bp):
AGTTTGGATTTAGATTCGGGTTTG
Found at i:13143149 original size:18 final size:18
Alignment explanation
Indices: 13143102--13143187 Score: 82
Period size: 18 Copynumber: 4.8 Consensus size: 18
13143092 TGGATTTAGA
*
13143102 TTCGGATTCGGGTTTGGG
1 TTCGGGTTCGGGTTTGGG
* * *
13143120 TTTGGATACGGGTTTGGG
1 TTCGGGTTCGGGTTTGGG
* *
13143138 TTCGGGTTCGGGTTCGAG
1 TTCGGGTTCGGGTTTGGG
* *
13143156 TTTGGGTTCTGGTTTGGG
1 TTCGGGTTCGGGTTTGGG
* *
13143174 TTAGGGTTAGGGTT
1 TTCGGGTTCGGGTT
13143188 ATGGAAGATG
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.07, C:0.08, G:0.44, T:0.41
Consensus pattern (18 bp):
TTCGGGTTCGGGTTTGGG
Found at i:13143188 original size:6 final size:6
Alignment explanation
Indices: 13143102--13143187 Score: 64
Period size: 6 Copynumber: 14.3 Consensus size: 6
13143092 TGGATTTAGA
* * * * * *
13143102 TTCGGA TTCGGG TTTGGG TTTGGA TACGGG TTTGGG TTCGGG TTCGGG
1 TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG
* * * * * *
13143150 TTCGAG TTTGGG TTCTGG TTTGGG TTAGGG TTAGGG TT
1 TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG TT
13143188 ATGGAAGATG
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 63 1.00
ACGTcount: A:0.07, C:0.08, G:0.44, T:0.41
Consensus pattern (6 bp):
TTCGGG
Found at i:13143188 original size:12 final size:12
Alignment explanation
Indices: 13143077--13143187 Score: 87
Period size: 12 Copynumber: 9.2 Consensus size: 12
13143067 TTGGATTCGA
*
13143077 GTTCGGGTTTGA
1 GTTCGGGTTTGG
* * *
13143089 GTTTGGATTTAG
1 GTTCGGGTTTGG
* * *
13143101 ATTCGGATTCGG
1 GTTCGGGTTTGG
*
13143113 GTTTGGGTTTGG
1 GTTCGGGTTTGG
* *
13143125 ATACGGGTTTGG
1 GTTCGGGTTTGG
*
13143137 GTTCGGGTTCGG
1 GTTCGGGTTTGG
*
13143149 GTTCGAGTTTGG
1 GTTCGGGTTTGG
*
13143161 GTTCTGGTTTGG
1 GTTCGGGTTTGG
* *
13143173 GTTAGGGTTAGG
1 GTTCGGGTTTGG
13143185 GTT
1 GTT
13143188 ATGGAAGATG
Statistics
Matches: 74, Mismatches: 25, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 74 1.00
ACGTcount: A:0.09, C:0.07, G:0.42, T:0.41
Consensus pattern (12 bp):
GTTCGGGTTTGG
Found at i:13143512 original size:113 final size:113
Alignment explanation
Indices: 13143347--13143551 Score: 297
Period size: 113 Copynumber: 1.8 Consensus size: 113
13143337 TAAGGGTCTG
* * *
13143347 GGGAAGAACACAGATGAACAAGGGTTTAATTTTTGGGTGTTTAATCGAAAAAATATG-AATGAGT
1 GGGAAGAACACAGATGAACAAGGGTTGAATTTTTGGATGTTTAATCGAAAAAAAATGAAATG-GT
13143411 TT-AGGTTTTGGTGTTTGTGAAGATCAAATAATGGTTTGGGGGAAGAAGT
65 TTGA-GTTTTGGTGTTTGTGAAGATCAAATAATGGTTTGGGGGAAGAAGT
* * * * * *
13143460 GGGATGAACACGGATGAACAAGTGTTGAATTTTTTGATGTTTGATCGGAAAAAAATGAAATGGTT
1 GGGAAGAACACAGATGAACAAGGGTTGAATTTTTGGATGTTTAATCGAAAAAAAATGAAATGGTT
13143525 TGAGTTTTGGTGTTTGTGAAGATCAAA
66 TGAGTTTTGGTGTTTGTGAAGATCAAA
13143552 AGAGGGTTTT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
113 76 0.94
114 5 0.06
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (113 bp):
GGGAAGAACACAGATGAACAAGGGTTGAATTTTTGGATGTTTAATCGAAAAAAAATGAAATGGTT
TGAGTTTTGGTGTTTGTGAAGATCAAATAATGGTTTGGGGGAAGAAGT
Found at i:13143578 original size:113 final size:113
Alignment explanation
Indices: 13143352--13143580 Score: 277
Period size: 113 Copynumber: 2.0 Consensus size: 113
13143342 GTCTGGGGAA
* *
13143352 GAACACAGATGAACAAGGGTTTAATTTTTGGGTGTTTAATCGAAAAAATATGAATGAGTTTAGGT
1 GAACACAGATGAACAAGGGTTGAATTTTTGGATGTTTAATCGAAAAAATATGAATGAGTTTAGGT
* ***
13143417 TTTGGTGTTTGTGAAGATCAAATAATGGTTTGGGGGAAGAAGTGGGAT
66 TTTGGTGTTTGTGAAGATCAAATAAGGGTTTGGGGGAAGAACACGGAT
* * * *
13143465 GAACACGGATGAACAAGTGTTGAATTTTTTGATGTTTGATCGGAAAAAA-ATGAAATG-GTTT-G
1 GAACACAGATGAACAAGGGTTGAATTTTTGGATGTTTAATC-GAAAAAATATG-AATGAGTTTAG
** *
13143527 AGTTTTGGTGTTTGTGAAGATCAAA-AGAGGGTTTTTGGGATGAACACGGAT
64 -GTTTTGGTGTTTGTGAAGATCAAATA-AGGGTTTGGGGGAAGAACACGGAT
13143578 GAA
1 GAA
13143581 TTTCTAAAGA
Statistics
Matches: 99, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
112 2 0.02
113 86 0.87
114 11 0.11
ACGTcount: A:0.33, C:0.05, G:0.30, T:0.32
Consensus pattern (113 bp):
GAACACAGATGAACAAGGGTTGAATTTTTGGATGTTTAATCGAAAAAATATGAATGAGTTTAGGT
TTTGGTGTTTGTGAAGATCAAATAAGGGTTTGGGGGAAGAACACGGAT
Found at i:13143848 original size:61 final size:61
Alignment explanation
Indices: 13143779--13143915 Score: 238
Period size: 61 Copynumber: 2.2 Consensus size: 61
13143769 TCCTAGTTTT
* *
13143779 AAATTTGTTCAATTTAGTCCAAATTTAATGATGCAATGTATTAATTTAAGCTTCATATTTA
1 AAATTTGTTCAATTTAGTCCAAATTTAATGATGCAATCTATTAATTTAAGCTTAATATTTA
* *
13143840 AAATTTGTTCAATTTAGTCCAAATTTAATGTTGTAATCTATTAATTTAAGCTTAATATTTA
1 AAATTTGTTCAATTTAGTCCAAATTTAATGATGCAATCTATTAATTTAAGCTTAATATTTA
13143901 AAATTTGTTCAATTT
1 AAATTTGTTCAATTT
13143916 GATCCTTATA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 72 1.00
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.47
Consensus pattern (61 bp):
AAATTTGTTCAATTTAGTCCAAATTTAATGATGCAATCTATTAATTTAAGCTTAATATTTA
Found at i:13143955 original size:2 final size:2
Alignment explanation
Indices: 13143948--13144172 Score: 51
Period size: 2 Copynumber: 109.5 Consensus size: 2
13143938 CCTTCAATTA
* * * *
13143948 AT AT AT AT AT GT TT AT AT AT AA AT -T A- AT AT AT AGT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* *
13143989 -T A- AT AA AT -T A- AT AT AT AT GT -T AT AT AT ACT A- AT GA- ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT -AT A-T
* * *
13144027 AT AT A- AT AT AT AGT TT AT AT AT ACC AT AT AGT TT AT AT AT ACT
1 AT AT AT AT AT AT A-T AT AT AT AT A-T AT AT A-T AT AT AT AT A-T
* * * *
13144070 AT AT AGT TT AT AT AT ACT AT AT AGT TT AT AT AT AGT TT TT AT AT
1 AT AT A-T AT AT AT AT A-T AT AT A-T AT AT AT AT A-T AT AT AT AT
* * *
13144114 AT AGT -T CAT AT GT AA ACT AT AT AGT AT AT AT AA AT -T AT AT AT
1 AT A-T AT -AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT
*
13144156 GT AGT AT AT ACT AT AT A
1 AT A-T AT AT A-T AT AT A
13144173 AATAGTTTAT
Statistics
Matches: 163, Mismatches: 30, Indels: 60
0.64 0.12 0.24
Matches are distributed among these distances:
1 12 0.07
2 127 0.78
3 24 0.15
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (2 bp):
AT
Found at i:13144045 original size:9 final size:9
Alignment explanation
Indices: 13144033--13144101 Score: 54
Period size: 9 Copynumber: 7.7 Consensus size: 9
13144023 AACTATATAA
13144033 TATATAGTT
1 TATATAGTT
*
13144042 TATATA-TAC
1 TATATAGT-T
*
13144051 CATATAGTT
1 TATATAGTT
*
13144060 TATATA-TAC
1 TATATAGT-T
13144069 TATATAGTT
1 TATATAGTT
*
13144078 TATATA-TAC
1 TATATAGT-T
13144087 TATATAGTT
1 TATATAGTT
13144096 TATATA
1 TATATA
13144102 TAGTTTTTAT
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
8 3 0.07
9 40 0.87
10 3 0.07
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (9 bp):
TATATAGTT
Found at i:13144049 original size:18 final size:18
Alignment explanation
Indices: 13144026--13144103 Score: 138
Period size: 18 Copynumber: 4.3 Consensus size: 18
13144016 ACTAATGAAC
*
13144026 TATATAATATATAGTTTA
1 TATATACTATATAGTTTA
*
13144044 TATATACCATATAGTTTA
1 TATATACTATATAGTTTA
13144062 TATATACTATATAGTTTA
1 TATATACTATATAGTTTA
13144080 TATATACTATATAGTTTA
1 TATATACTATATAGTTTA
13144098 TATATA
1 TATATA
13144104 GTTTTTATAT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (18 bp):
TATATACTATATAGTTTA
Found at i:13144145 original size:11 final size:11
Alignment explanation
Indices: 13144052--13144637 Score: 77
Period size: 11 Copynumber: 55.3 Consensus size: 11
13144042 TATATATACC
*
13144052 ATATAGTTTAT
1 ATATAGTATAT
*
13144063 ATATACTATAT
1 ATATAGTATAT
13144074 AGTTTATA-TATACT
1 A---TATAGTATA-T
*
13144088 ATATAGTTTAT
1 ATATAGTATAT
*
13144099 ATATAGTTTTTAT
1 ATATAG--TATAT
*
13144112 ATATAGT-T-C
1 ATATAGTATAT
*
13144121 ATAT-GTAAACT
1 ATATAGTATA-T
13144132 ATATAGTATAT
1 ATATAGTATAT
* *
13144143 ATAAATTATAT
1 ATATAGTATAT
*
13144154 ATGTAGTATAT
1 ATATAGTATAT
*
13144165 ACTATA-TAAAT
1 A-TATAGTATAT
* *
13144176 AGTTTATTA-AT
1 A-TATAGTATAT
* *
13144187 GTATTCAACTATAT
1 ATA-T--AGTATAT
* *
13144201 A-ATATTCATAC
1 ATATAGT-ATAT
13144212 ATATAAGTTAGTAT
1 ATAT-AG-TA-TAT
* *
13144226 ATATTGTTTAT
1 ATATAGTATAT
*
13144237 ATATAGTTTAT
1 ATATAGTATAT
* *
13144248 ATATTGTTTAT
1 ATATAGTATAT
*
13144259 ATATAGTACAT
1 ATATAGTATAT
13144270 ATATAG--TAT
1 ATATAGTATAT
* *
13144279 ATATAGTTTAC
1 ATATAGTATAT
*
13144290 ATATCGTATA-
1 ATATAGTATAT
13144300 AGT-TAGTATAT
1 A-TATAGTATAT
*
13144311 AT-T-GTTTAT
1 ATATAGTATAT
*
13144320 ATATAGT-T-C
1 ATATAGTATAT
13144329 ATATAGT-T-T
1 ATATAGTATAT
13144338 ATATAGT-TCAT
1 ATATAGTAT-AT
* **
13144349 ATGTAGTGCAT
1 ATATAGTATAT
*
13144360 ATATAGT-T-C
1 ATATAGTATAT
*
13144369 ATAT-GTAAACT
1 ATATAGTATA-T
13144380 ATATAG--TAT
1 ATATAGTATAT
* *
13144389 ATATGGT-T-C
1 ATATAGTATAT
*
13144398 ATA-AGTAAACT
1 ATATAGTATA-T
13144409 ATATAAGT-TAGT
1 ATAT-AGTATA-T
13144421 ATATAGTATAT
1 ATATAGTATAT
* * *
13144432 A-CTACTATCT
1 ATATAGTATAT
* *
13144442 ATAAACTATAT
1 ATATAGTATAT
13144453 A-AGTTAGTATAT
1 ATA--TAGTATAT
*
13144465 AT-T-GTTTAT
1 ATATAGTATAT
13144474 ATATAGTATAT
1 ATATAGTATAT
* * *
13144485 A-CTACTATCT
1 ATATAGTATAT
13144495 ATA-A--ACTAT
1 ATATAGTA-TAT
13144504 ATA-AGT-TAGT
1 ATATAGTATA-T
13144514 ATATAG--TAT
1 ATATAGTATAT
13144523 ATATAGT-T-T
1 ATATAGTATAT
13144532 ATATAGT-TCAT
1 ATATAGTAT-AT
* *
13144543 ATGTAGTACAT
1 ATATAGTATAT
*
13144554 ATATAGT-T-C
1 ATATAGTATAT
*
13144563 ATAT-GTAAACT
1 ATATAGTATA-T
13144574 ATATAG--TAT
1 ATATAGTATAT
* *
13144583 ATATAGTTTAC
1 ATATAGTATAT
*
13144594 ATATCGTATA-
1 ATATAGTATAT
13144604 AGT-TAGTATAT
1 A-TATAGTATAT
*
13144615 AT-T-GTTTAT
1 ATATAGTATAT
*
13144624 ATATAGTTTAT
1 ATATAGTATAT
13144635 ATA
1 ATA
13144638 CTACTATCTA
Statistics
Matches: 425, Mismatches: 82, Indels: 136
0.66 0.13 0.21
Matches are distributed among these distances:
8 9 0.02
9 97 0.23
10 53 0.12
11 193 0.45
12 33 0.08
13 25 0.06
14 15 0.04
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.46
Consensus pattern (11 bp):
ATATAGTATAT
Found at i:13144155 original size:42 final size:41
Alignment explanation
Indices: 13144032--13144165 Score: 109
Period size: 42 Copynumber: 3.3 Consensus size: 41
13144022 GAACTATATA
* *
13144032 ATATATAGTTTATATATACCATATAGTT-TATAT--A-TA-
1 ATATATAGTTTATATAAACTATATAGTTATATATAAATTAT
* * ** *
13144068 CTATATAGTTTATATATACTATATAGTTTATATATAGTTTTT
1 ATATATAGTTTATATAAACTATATAG-TTATATATAAATTAT
*
13144110 ATATATAGTTCATATGTAAACTATATAG-TATATATAAATTAT
1 ATATATAGTT--TATATAAACTATATAGTTATATATAAATTAT
* *
13144152 ATATGTAGTATATA
1 ATATATAGTTTATA
13144166 CTATATAAAT
Statistics
Matches: 77, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
36 24 0.31
37 2 0.03
38 5 0.06
40 3 0.04
41 1 0.01
42 28 0.36
44 14 0.18
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.48
Consensus pattern (41 bp):
ATATATAGTTTATATAAACTATATAGTTATATATAAATTAT
Found at i:13144248 original size:22 final size:22
Alignment explanation
Indices: 13144223--13144342 Score: 112
Period size: 22 Copynumber: 5.8 Consensus size: 22
13144213 TATAAGTTAG
13144223 TATATATTGTTTATATATAGTT
1 TATATATTGTTTATATATAGTT
*
13144245 TATATATTGTTTATATATAGTA
1 TATATATTGTTTATATATAGTT
* *
13144267 CATATATAG--TATATATAGTT
1 TATATATTGTTTATATATAGTT
* * *
13144287 TACATATCGTATA-AGT-TAG--
1 TATATATTGTTTATA-TATAGTT
13144306 TATATATTGTTTATATATAGTT
1 TATATATTGTTTATATATAGTT
*
13144328 CATATA--GTTTATATA
1 TATATATTGTTTATATA
13144343 GTTCATATGT
Statistics
Matches: 80, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
19 11 0.14
20 29 0.36
21 4 0.05
22 36 0.45
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (22 bp):
TATATATTGTTTATATATAGTT
Found at i:13144308 original size:83 final size:80
Alignment explanation
Indices: 13144213--13144367 Score: 231
Period size: 83 Copynumber: 1.9 Consensus size: 80
13144203 TATTCATACA
*
13144213 TATAAGTTAGTATATATTGTTTATATATAGTTTATATATTGTTTATATATAGTACATATATAGT-
1 TATAAGTTAGTATATATTGTTTATATATAGTTCATATA--G-TT-TATATAGTACATATATAGTC
13144277 ATATATAGTTTACATATCG
62 ATATATAGTTTACATATCG
* *
13144296 TATAAGTTAGTATATATTGTTTATATATAGTTCATATAGTTTATATAGTTCATATGTAGTGCATA
1 TATAAGTTAGTATATATTGTTTATATATAGTTCATATAGTTTATATAGTACATATATAGT-CATA
13144361 TATAGTT
65 TATAGTT
13144368 CATATGTAAA
Statistics
Matches: 67, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
79 17 0.25
80 2 0.03
81 11 0.16
83 37 0.55
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.49
Consensus pattern (80 bp):
TATAAGTTAGTATATATTGTTTATATATAGTTCATATAGTTTATATAGTACATATATAGTCATAT
ATAGTTTACATATCG
Found at i:13144390 original size:29 final size:31
Alignment explanation
Indices: 13144358--13144427 Score: 99
Period size: 29 Copynumber: 2.3 Consensus size: 31
13144348 TATGTAGTGC
*
13144358 ATATATAGTTCATATGTAAACTATAT-AG-T
1 ATATATAGTTCATAAGTAAACTATATAAGTT
*
13144387 ATATATGGTTCATAAGTAAACTATATAAGTT
1 ATATATAGTTCATAAGTAAACTATATAAGTT
13144418 AGTATATAGT
1 A-TATATAGT
13144428 ATATACTACT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
29 24 0.69
30 2 0.06
31 2 0.06
32 7 0.20
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.40
Consensus pattern (31 bp):
ATATATAGTTCATAAGTAAACTATATAAGTT
Found at i:13144456 original size:53 final size:53
Alignment explanation
Indices: 13144398--13144518 Score: 165
Period size: 53 Copynumber: 2.3 Consensus size: 53
13144388 TATATGGTTC
13144398 ATAAGTAAACTATATA-AG-TTAGTATATAGTATATACTACTATCTATAAACTAT
1 ATAAGT-AACTATATATAGTTTA-TATATAGTATATACTACTATCTATAAACTAT
* * *
13144451 ATAAGTTAGTATATATTGTTTATATATAGTATATACTACTATCTATAAACTAT
1 ATAAGTAACTATATATAGTTTATATATAGTATATACTACTATCTATAAACTAT
* *
13144504 ATAAGTTAGTATATA
1 ATAAGTAACTATATA
13144519 GTATATATAG
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
52 7 0.11
53 53 0.84
54 3 0.05
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.41
Consensus pattern (53 bp):
ATAAGTAACTATATATAGTTTATATATAGTATATACTACTATCTATAAACTAT
Found at i:13144463 original size:19 final size:19
Alignment explanation
Indices: 13144403--13144463 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
13144393 GGTTCATAAG
13144403 TAAACTATATAAGTTAGTA
1 TAAACTATATAAGTTAGTA
* * * *
13144422 TATAGTATATACTA-CTATCTA
1 TAAACTATATA--AGTTA-GTA
13144443 TAAACTATATAAGTTAGTA
1 TAAACTATATAAGTTAGTA
13144462 TA
1 TA
13144464 TATTGTTTAT
Statistics
Matches: 30, Mismatches: 8, Indels: 8
0.65 0.17 0.17
Matches are distributed among these distances:
19 14 0.47
20 4 0.13
21 12 0.40
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (19 bp):
TAAACTATATAAGTTAGTA
Found at i:13144465 original size:21 final size:21
Alignment explanation
Indices: 13144403--13144465 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
13144393 GGTTCATAAG
13144403 TAAACTATATAAGTTAGTATA
1 TAAACTATATAAGTTAGTATA
* * *
13144424 T--AGTATATACTA-CTA-TCTA
1 TAAACTATATA--AGTTAGTATA
13144443 TAAACTATATAAGTTAGTATA
1 TAAACTATATAAGTTAGTATA
13144464 TA
1 TA
13144466 TTGTTTATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 12
0.62 0.12 0.25
Matches are distributed among these distances:
19 12 0.40
20 4 0.13
21 14 0.47
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (21 bp):
TAAACTATATAAGTTAGTATA
Found at i:13144483 original size:9 final size:9
Alignment explanation
Indices: 13144457--13144589 Score: 56
Period size: 9 Copynumber: 13.4 Consensus size: 9
13144447 CTATATAAGT
13144457 TAGTATATA
1 TAGTATATA
*
13144466 TTGTTTATATA
1 TAG--TATATA
13144477 TAGTATATA
1 TAGTATATA
* *
13144486 CTACTATCTA
1 -TAGTATATA
*
13144496 TA-AACTATA
1 TAGTA-TATA
13144505 TAAGTTAGTATA
1 T-AG-TA-TATA
13144517 TAGTATATA
1 TAGTATATA
*
13144526 TAGTTTATA
1 TAGTATATA
*
13144535 TAGTTCATATG
1 TAG-T-ATATA
13144546 TAGTACATATA
1 TAGT--ATATA
13144557 TAGT-TCATA
1 TAGTAT-ATA
13144566 T-GTAAACTATA
1 TAGT--A-TATA
13144577 TAGTATATA
1 TAGTATATA
13144586 TAGT
1 TAGT
13144590 TTACATATCG
Statistics
Matches: 96, Mismatches: 12, Indels: 32
0.69 0.09 0.23
Matches are distributed among these distances:
8 4 0.04
9 41 0.43
10 13 0.14
11 29 0.30
12 9 0.09
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (9 bp):
TAGTATATA
Found at i:13144536 original size:20 final size:20
Alignment explanation
Indices: 13144032--13144637 Score: 103
Period size: 20 Copynumber: 29.8 Consensus size: 20
13144022 GAACTATATA
13144032 ATATATAGTTTATATATA--
1 ATATATAGTTTATATATAGT
**
13144050 CCATATAGTTTATATATA--
1 ATATATAGTTTATATATAGT
*
13144068 CTATATAGTTTATATATA--
1 ATATATAGTTTATATATAGT
*
13144086 CTATATAGTTTATATATAGTTTTT
1 ATATATAGTTTATATATAG----T
* * *
13144110 ATATATAGTTCATATGTA-A
1 ATATATAGTTTATATATAGT
* * *
13144129 ACTATATAGTATATATAAATT
1 A-TATATAGTTTATATATAGT
*
13144150 ATATAT-GTAGTATATACTA-T
1 ATATATAGT-TTATATA-TAGT
*
13144170 ATAAATAGTTTAT-TA-ATGT
1 ATATATAGTTTATATATA-GT
* *
13144189 AT-TCA-ACTATATAATATTCA-T
1 ATAT-ATAGTTTAT-ATA-T-AGT
* *
13144210 ACATATAAGTTAGTATATATTGTTT
1 ATATAT-AGTT--TATATATAG--T
*
13144235 ATATATAGTTTATATATTGTTT
1 ATATATAGTTTATATATAG--T
**
13144257 ATATATAGTACATATATAGT
1 ATATATAGTTTATATATAGT
* *
13144277 ATATATAGTTTACATATCG-
1 ATATATAGTTTATATATAGT
*
13144296 -TATA-AGTTAGTATATATTGTTT
1 ATATATAGTT--TATATATAG--T
*
13144318 ATATATAG-TT-CATATAGT
1 ATATATAGTTTATATATAGT
* * *
13144336 TTATATAGTTCATATGTAGT
1 ATATATAGTTTATATATAGT
* * *
13144356 GCATATATAGTTCATATGTA-A
1 --ATATATAGTTTATATATAGT
*
13144377 ACTATATAG--TATATATGGT
1 A-TATATAGTTTATATATAGT
**
13144396 -TCATA-AGTAAACTATATAAGTT
1 AT-ATATAGTTTA-TATAT-AG-T
*
13144418 AGTATATAG--TATATACTACT
1 A-TATATAGTTTATATA-TAGT
* ***
13144438 ATCTATAAACTATATAAGTTAGT
1 ATATATAGTTTATAT-A--TAGT
*
13144461 ATATATTGTTTATATATAGT
1 ATATATAGTTTATATATAGT
* * * * *
13144481 ATATACTACTATCTATAAACT
1 ATATA-TAGTTTATATATAGT
13144502 ATATA-AG-TTAGTATATAGT
1 ATATATAGTTTA-TATATAGT
13144521 ATATATAG-TT-TATATAGTT
1 ATATATAGTTTATATATAG-T
* **
13144540 CATATGTAGTACATATATAGT
1 -ATATATAGTTTATATATAGT
**
13144561 -TCATAT-GTAAACTATATAGT
1 AT-ATATAGTTTA-TATATAGT
* *
13144581 ATATATAGTTTACATATCG-
1 ATATATAGTTTATATATAGT
*
13144600 -TATA-AGTTAGTATATATTGTTT
1 ATATATAGTT--TATATATAG--T
13144622 ATATATAGTTTATATA
1 ATATATAGTTTATATA
13144638 CTACTATCTA
Statistics
Matches: 436, Mismatches: 80, Indels: 140
0.66 0.12 0.21
Matches are distributed among these distances:
17 12 0.03
18 88 0.20
19 49 0.11
20 116 0.27
21 38 0.09
22 64 0.15
23 29 0.07
24 31 0.07
25 9 0.02
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.46
Consensus pattern (20 bp):
ATATATAGTTTATATATAGT
Found at i:13144597 original size:31 final size:30
Alignment explanation
Indices: 13144513--13144627 Score: 87
Period size: 30 Copynumber: 3.8 Consensus size: 30
13144503 TATAAGTTAG
* **
13144513 TATATAGTATATATAGTTTATATA-GTTCA
1 TATATAGTATATATAGTTTACATATGTAAA
*
13144542 TATGTAGTACATATATAG-TT-CATATGTAAA
1 TATATAGT--ATATATAGTTTACATATGTAAA
13144572 CTATATAGTATATATAGTTTACATATCGTATAA
1 -TATATAGTATATATAGTTTACATAT-GTA-AA
* * *
13144605 -GT-TAGTATATATTGTTTATATAT
1 TATATAGTATATATAGTTTACATAT
13144628 AGTTTATATA
Statistics
Matches: 70, Mismatches: 8, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
29 18 0.26
30 26 0.37
31 21 0.30
32 3 0.04
33 2 0.03
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.46
Consensus pattern (30 bp):
TATATAGTATATATAGTTTACATATGTAAA
Found at i:13144678 original size:28 final size:30
Alignment explanation
Indices: 13144623--13144682 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
13144613 ATATTGTTTA
*
13144623 TATATAGTTTATATACTACTATCTATAAAC
1 TATATAGTTTATATACTAATATCTATAAAC
*
13144653 TATATAGTTTATATA-TAATTTC-ATAAAC
1 TATATAGTTTATATACTAATATCTATAAAC
13144681 TA
1 TA
13144683 ACCCTAAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 8 0.29
29 5 0.18
30 15 0.54
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (30 bp):
TATATAGTTTATATACTAATATCTATAAAC
Found at i:13144859 original size:22 final size:21
Alignment explanation
Indices: 13144820--13144875 Score: 78
Period size: 22 Copynumber: 2.7 Consensus size: 21
13144810 GTATGGTTTT
13144820 TATATAATTTATA-TATAAAC
1 TATATAATTTATATTATAAAC
13144840 TATATAATTTATATTAATAAAC
1 TATATAATTTATATT-ATAAAC
* *
13144862 TATGTAGTTTATAT
1 TATATAATTTATAT
13144876 ATAGTTCAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 13 0.41
21 1 0.03
22 18 0.56
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (21 bp):
TATATAATTTATATTATAAAC
Found at i:13144896 original size:2 final size:2
Alignment explanation
Indices: 13144891--13145072 Score: 92
Period size: 2 Copynumber: 89.5 Consensus size: 2
13144881 TCAATAGTTC
* * * * *
13144891 AT AT AT AA ACT AT AT AGT TT AT AC AT A- AT AT AT AT AT GT AT AA
1 AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
13144934 ACT AT AT AT AGT AT AT A- AT A- AT AT AA AT AT AA ACT AT AT AGT
1 A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T
* * * *
13144976 TT AT AT AT AA AGT AT AT AT AT AT AT AT AT ACT TT AT AT AT AA ACT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T
* *
13145021 AT AT AGT TT AT AC AT A- AT AT AT AT AGT -T A- AT A- AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
13145061 AT AT AT AT -T AT A
1 AT AT AT AT AT AT A
13145073 GTTATTTCAA
Statistics
Matches: 135, Mismatches: 26, Indels: 38
0.68 0.13 0.19
Matches are distributed among these distances:
1 8 0.06
2 115 0.85
3 12 0.09
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (2 bp):
AT
Found at i:13144939 original size:15 final size:15
Alignment explanation
Indices: 13144921--13144973 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
13144911 ATACATAATA
13144921 TATATATGTATAAAC
1 TATATATGTATAAAC
13144936 TATATATAGTATATAA-
1 TATATAT-GTATA-AAC
**
13144952 TAATATAAATATAAAC
1 T-ATATATGTATAAAC
13144968 TATATA
1 TATATA
13144974 GTTTATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 14 0.44
16 11 0.34
17 7 0.22
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (15 bp):
TATATATGTATAAAC
Found at i:13144984 original size:13 final size:13
Alignment explanation
Indices: 13144901--13145074 Score: 82
Period size: 13 Copynumber: 13.6 Consensus size: 13
13144891 ATATATAAAC
13144901 TATATAGT-T-TA
1 TATATAGTATATA
* *
13144912 TACATAATATATA
1 TATATAGTATATA
* *
13144925 TATGTA-TAAACTA
1 TATATAGTATA-TA
13144938 TATATAGTATATAA
1 TATATAGTATAT-A
* *
13144952 TAATATAAATATAAA
1 T-ATAT-AGTATATA
*
13144967 CTATATAGTTTATA
1 -TATATAGTATATA
*
13144981 TATAAAGTATATA
1 TATATAGTATATA
13144994 TATATA-TATATA
1 TATATAGTATATA
* *
13145006 CTTTATA-TATAAA
1 -TATATAGTATATA
13145019 CTATATAGT-T-TA
1 -TATATAGTATATA
* *
13145031 TACATAATATATA
1 TATATAGTATATA
*
13145044 TAGT-TAATA-ATA
1 TA-TATAGTATATA
13145056 TATATA-TATATA
1 TATATAGTATATA
13145068 T-TATAGT
1 TATATAGT
13145075 TATTTCAAAA
Statistics
Matches: 125, Mismatches: 22, Indels: 31
0.70 0.12 0.17
Matches are distributed among these distances:
11 19 0.15
12 24 0.19
13 56 0.45
14 11 0.09
15 9 0.07
16 6 0.05
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (13 bp):
TATATAGTATATA
Found at i:13144985 original size:52 final size:51
Alignment explanation
Indices: 13144929--13145067 Score: 176
Period size: 52 Copynumber: 2.7 Consensus size: 51
13144919 TATATATATG
*
13144929 TATAAACTATATATAGTATATAATAATATAAATATAAACTATATAGTTTATA
1 TATAAA-TATATATAGTATATAATAATATATATATAAACTATATAGTTTATA
* *
13144981 TATAAAGTATATATA-TATATATATACTTTATATATAAACTATATAGTTTATA
1 TATAAA-TATATATAGTATATA-ATAATATATATATAAACTATATAGTTTATA
*
13145033 CAT-AATATATATAGT-TAATAATATATATATATATA
1 TATAAATATATATAGTAT-ATAATA-ATATATATATA
13145068 TTATAGTTAT
Statistics
Matches: 76, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
50 12 0.16
51 21 0.28
52 43 0.57
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (51 bp):
TATAAATATATATAGTATATAATAATATATATATAAACTATATAGTTTATA
Found at i:13145043 original size:20 final size:19
Alignment explanation
Indices: 13144901--13145065 Score: 104
Period size: 20 Copynumber: 8.3 Consensus size: 19
13144891 ATATATAAAC
13144901 TATATAGTTTATACATAATA
1 TATATAGTTTATA-ATAATA
* *
13144921 TATATA-TGTATAA-ACTA
1 TATATAGTTTATAATAATA
*
13144938 TATATAGTATATAATAATA
1 TATATAGTTTATAATAATA
* * * *
13144957 TAAATATAAACTATATAGTTTATA
1 T--ATAT--AGTTTATA-ATAATA
* *
13144981 TATAAAGTATAT-ATATATA
1 TATATAGTTTATAATA-ATA
*
13145000 TATATACTTTATATATAA-A
1 TATATAGTTTATA-ATAATA
13145019 CTATATAGTTTATACATAATA
1 -TATATAGTTTATA-ATAATA
*
13145040 TATATAGTTAATAATATATA
1 TATATAGTTTATAATA-ATA
13145060 TATATA
1 TATATA
13145066 TATTATAGTT
Statistics
Matches: 115, Mismatches: 17, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
17 9 0.08
18 8 0.07
19 25 0.22
20 50 0.43
21 8 0.07
22 3 0.03
23 7 0.06
24 5 0.04
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (19 bp):
TATATAGTTTATAATAATA
Found at i:13153212 original size:20 final size:20
Alignment explanation
Indices: 13153134--13153209 Score: 109
Period size: 20 Copynumber: 3.8 Consensus size: 20
13153124 GTTAGACAGA
13153134 GGGGAATCGGTACCCCCTGG
1 GGGGAATCGGTACCCCCTGG
13153154 GGGG-ATCGGTACCCCCTGG
1 GGGGAATCGGTACCCCCTGG
**
13153173 GGGGAATTTGTACCCCCTGG
1 GGGGAATCGGTACCCCCTGG
*
13153193 GGGAGAATCTGTACCCC
1 GGG-GAATCGGTACCCC
13153210 TGGACAATCT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
19 19 0.37
20 20 0.39
21 12 0.24
ACGTcount: A:0.16, C:0.29, G:0.37, T:0.18
Consensus pattern (20 bp):
GGGGAATCGGTACCCCCTGG
Found at i:13154764 original size:23 final size:23
Alignment explanation
Indices: 13154720--13154766 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
13154710 AACATATTAT
* **
13154720 GTAGTGCTTATATAATGTAATAG
1 GTAGCGCTTATATAATAAAATAG
13154743 GTAGCGCTTATATAATAAAATAG
1 GTAGCGCTTATATAATAAAATAG
13154766 G
1 G
13154767 CATTTAACCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.34
Consensus pattern (23 bp):
GTAGCGCTTATATAATAAAATAG
Found at i:13155203 original size:197 final size:196
Alignment explanation
Indices: 13154837--13155335 Score: 551
Period size: 198 Copynumber: 2.5 Consensus size: 196
13154827 TTTTCTCATA
* * * * * * *
13154837 AAACCGGTAAATTTAAACCGGTTACATTATAAATTGATCTATTACATTAT-GTATATTGGTTTCG
1 AAACCGGTATATTTTAA-CGGTTACATTGTAAATTTACCTATTACATTATAAT-TATCGGTTTCG
* * * *
13154901 ATGTTTTCGGGATCGATACAATTTT-AAATGTATCGACACTTTATGCATGCAACTCGTTTGTGCT
64 ATGATTTCGGGATCGATA-ATTTTTAAAATGTATCGACACTTTATGCATACAACTCGTTTGTCCT
* * * *
13154965 TTATTTTAGAAAAAAGTATCGACACATATTTAAAGAGTGTCGATACGTAATGTAGACCTATT-TG
128 TCATTTTAGAAAAAAGTATCGACACATAATTAAAAAGTGTCGATACGTAATGTAGACATATTCT-
13155029 CTAAT
192 CTAAT
* * *
13155034 TAACCGGTATATTTTAACTGGTTACATTGTAAATTTACCTATTACATAATAATTATCGATTTCGA
1 AAACCGGTATATTTTAAC-GGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* *
13155099 TG-TTTCGAGGATCGATATTTTTTACAAATGTATCGACACTTTATGCATACACCTCGTTTG-CCA
65 TGATTTCG-GGATCGATAATTTTTA-AAATGTATCGACACTTTATGCATACAACTCGTTTGTCC-
* ** * *
13155162 TTCATTTTGGAAAAATTTATCGACACA-AATTAAAAAGTGTCGATACTTAATGTTGACATATTCT
127 TTCATTTTAGAAAAAAGTATCGACACATAATTAAAAAGTGTCGATACGTAATGTAGACATATTCT
*
13155226 CTCAT
192 CTAAT
* * * *
13155231 AAATCCGGTATATTTCTATCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTCTCT
1 AAA-CCGGTATATTT-TAACGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCG
* * * *
13155296 TTGATTTTGGGATCGATACTTGTTATAAATGTATCGACAC
64 ATGATTTCGGGATCGATAATTTTTA-AAATGTATCGACAC
13155336 AAAATCTAAT
Statistics
Matches: 255, Mismatches: 37, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
196 10 0.04
197 99 0.39
198 139 0.55
199 7 0.03
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (196 bp):
AAACCGGTATATTTTAACGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGAT
GATTTCGGGATCGATAATTTTTAAAATGTATCGACACTTTATGCATACAACTCGTTTGTCCTTCA
TTTTAGAAAAAAGTATCGACACATAATTAAAAAGTGTCGATACGTAATGTAGACATATTCTCTAA
T
Found at i:13158886 original size:197 final size:200
Alignment explanation
Indices: 13158551--13159504 Score: 1110
Period size: 200 Copynumber: 4.8 Consensus size: 200
13158541 AAAAAATTAA
* * * * **
13158551 ACCGGTTACATTGTAAAGTGACCTATTACATTATAATTATGGGTTTCGATGTTTTTAGGATCCTC
1 ACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGAC
* * **
13158616 ACTTTTTCTAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAG
66 ACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATACATTATGGACATAAAG
* * *
13158681 TGTCGACACAAATGTATAAAGTATCGATACATTATGTATA-C-AT-TTTTTTAATAACTGGTATG
131 TATCGACACAAATGTATAAAGTATCGATACATTATGTATACCTATCTTTTTTAATAACCGGTATA
13158743 TTTAG
196 TTTAG
* *
13158748 ACCGGTTACATTGTTATGTTACTTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGAC
1 ACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGAC
**
13158813 ACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAG
66 ACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATACATTATGGACATAAAG
* * *
13158878 TGTCGACACAAATTTATAAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCGGTATA
131 TATCGACACAAATGTATAAAGTATCGATACATTATGTATACCTATCTTTTTTAATAACCGGTATA
13158943 TTTAG
196 TTTAG
* *
13158948 ACCGGTTACATTGTTTTGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGAC
1 ACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGAC
*
13159013 ACTTGTTATAAATGTATCGACACTTTTTTCGT-ACACTTGGTTTGG-AAATACATTCTGGACA-A
66 ACTTGTTATAAATGTATCGACAC-TTTTTCGTGA-ACTT-GTTTGGAAAATACATTATGGACATA
* * * * * *
13159075 CATGTATCGACACAAATGAATAAACTGTCGATACA-TATTGTAGACCTAT-TTTCTCATAA-AAC
128 -AAGTATCGACACAAATGTATAAAGTATCGATACATTA-TGTATACCTATCTTT-T-TTAATAAC
* *
13159137 CGATA-AGTTTAA
189 CGGTATA-TTTAG
* * * * * * *
13159149 ACTGGTTACATTATAAAGTGATCTATTACATTATAGTTATGGGTTTCGATGTTTTTGGGATCGAC
1 ACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGAC
* *
13159214 ACTTGATATAAATGTGTCGACACTTATTT-GTGAACTTGTTTTGGTTGGAAAATACATTATGGAC
66 ACTTGTTATAAATGTATCGACACTT-TTTCGTGAACTTG---T--TTGGAAAATACATTATGGAC
* * * * * *
13159278 ACAAAGTATCGACACAAATGTATAAAGTGTCGATACTTTATGTATACC--TCTTTTCTCATAAAT
125 ATAAAGTATCGACACAAATGTATAAAGTATCGATACATTATGTATACCTATCTTTTTTAAT-AAC
13159341 CGGTATATTTAG
189 CGGTATATTTAG
* * * * * *
13159353 ACTGGTTACATTATTATTTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTAGGATCGAT
1 ACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGAC
* * * *
13159418 ACTTTTTATAAATGTATCGACACTTTGTTCATGCACTTGGTTTGG-AAATACATTCTGGACA-AC
66 ACTTGTTATAAATGTATCGACACTTT-TTCGTGAACTT-GTTTGGAAAATACATTATGGACATA-
* * *
13159481 ATGCATCGACACAAATGAATAAAG
128 AAGTATCGACACAAATGTATAAAG
13159505 CAAATTCATT
Statistics
Matches: 658, Mismatches: 70, Indels: 55
0.84 0.09 0.07
Matches are distributed among these distances:
197 159 0.24
198 1 0.00
199 3 0.00
200 160 0.24
201 159 0.24
202 12 0.02
203 4 0.01
204 97 0.15
205 59 0.09
206 4 0.01
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (200 bp):
ACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGAC
ACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATACATTATGGACATAAAG
TATCGACACAAATGTATAAAGTATCGATACATTATGTATACCTATCTTTTTTAATAACCGGTATA
TTTAG
Found at i:13159198 original size:201 final size:201
Alignment explanation
Indices: 13158479--13159504 Score: 1109
Period size: 197 Copynumber: 5.1 Consensus size: 201
13158469 TAATTTTAAA
* * * * ** * * ***
13158479 AAGTATCTACACAAATTTAAAAAGTGTCGATGTATTATGTAGACCTATTTTCTCATGAAACCAAA
1 AAGTATCGACACAAATGTATAAAGTATCGATACATTATGTATACCTATTTTCTCATAAAACCGGT
* * * * * *
13158544 AAATTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTATGGGTTTCGATGTTTTTAG
66 AATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGG
** * * **
13158609 GATCCTCACTTTTTCTAAATGTATCGACAC-TTTTTCGTGAACTT-GTTTGGAAAATTTATTATG
131 GATCGACACTTGTTATAAATGTATCGACACTTTTTTCGTGAACTTGGTTTGGAAAATACATTATG
13158672 GACATA-
196 GACA-AC
* * *
13158678 AAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATA-C-ATTTT-T-TTAATAACTGG
1 AAGTATCGACACAAATGTATAAAGTATCGATACATTATGTATACCTATTTTCTCATAA-AACCGG
* * *
13158739 TATGTTTAGACCGGTTACATTGTTATGTTACTTATTACATTATAATTATGTGTTTCGATGTTTTT
65 TA-ATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGGGTTTCGATGTTTTT
**
13158804 GGGATCGACACTTGTTATAAATGTATCGACAC-TTTTTCGTGAACTT-GTTTGGAAAATTTATTA
129 GGGATCGACACTTGTTATAAATGTATCGACACTTTTTTCGTGAACTTGGTTTGGAAAATACATTA
13158867 TGGACATA-
194 TGGACA-AC
* * **
13158875 AAGTGTCGACACAAATTTATAAAGTATCGATACATTATGTATACCT-TTCTT-TTTTAATAACCG
1 AAGTATCGACACAAATGTATAAAGTATCGATACATTATGTATACCTATT-TTCTCATAA-AACCG
* *
13158938 GTATATTTAGACCGGTTACATTGTTTTGTTACCTATTACATTATAATTATGTGTTTCGATGTTTT
64 GTA-ATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGGGTTTCGATGTTTT
13159003 TGGGATCGACACTTGTTATAAATGTATCGACACTTTTTTCGT-ACACTTGGTTTGG-AAATACAT
128 TGGGATCGACACTTGTTATAAATGTATCGACACTTTTTTCGTGA-ACTTGGTTTGGAAAATACAT
*
13159066 TCTGGACAAC
192 TATGGACAAC
* * * * * *
13159076 ATGTATCGACACAAATGAATAAACTGTCGATACA-TATTGTAGACCTATTTTCTCATAAAACCGA
1 AAGTATCGACACAAATGTATAAAGTATCGATACATTA-TGTATACCTATTTTCTCATAAAACCGG
* * * * * * * *
13159140 TAAGTTTAAACTGGTTACATTATAAAGTGATCTATTACATTATAGTTATGGGTTTCGATGTTTTT
65 TAA-TTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGGGTTTCGATGTTTTT
* * * *
13159205 GGGATCGACACTTGATATAAATGTGTCGACACTTATTT-GTGAACTTGTTTTGGTTGGAAAATAC
129 GGGATCGACACTTGTTATAAATGTATCGACACTTTTTTCGTGAACTTG----GTTTGGAAAATAC
13159269 ATTATGGAC-AC
190 ATTATGGACAAC
* * * *
13159280 AAAGTATCGACACAAATGTATAAAGTGTCGATACTTTATGTATACCTCTTTTCTCAT-AAATCGG
1 -AAGTATCGACACAAATGTATAAAGTATCGATACATTATGTATACCTATTTTCTCATAAAACCGG
* * * *
13159344 TATATTTAGACTGGTTACATTATTATTTTACCTATTACATTATAATTATGGGTCTCGATGTTTTT
65 TA-ATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGGGTTTCGATGTTTTT
* * * * * * *
13159409 AGGATCGATACTTTTTATAAATGTATCGACACTTTGTTCATGCACTTGGTTTGG-AAATACATTC
129 GGGATCGACACTTGTTATAAATGTATCGACACTTTTTTCGTGAACTTGGTTTGGAAAATACATTA
13159473 TGGACAAC
194 TGGACAAC
* * *
13159481 ATGCATCGACACAAATGAATAAAG
1 AAGTATCGACACAAATGTATAAAG
13159505 CAAATTCATT
Statistics
Matches: 712, Mismatches: 90, Indels: 49
0.84 0.11 0.06
Matches are distributed among these distances:
195 2 0.00
196 5 0.01
197 167 0.23
198 4 0.01
199 38 0.05
200 151 0.21
201 164 0.23
202 12 0.02
204 98 0.14
205 69 0.10
206 2 0.00
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (201 bp):
AAGTATCGACACAAATGTATAAAGTATCGATACATTATGTATACCTATTTTCTCATAAAACCGGT
AATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGG
GATCGACACTTGTTATAAATGTATCGACACTTTTTTCGTGAACTTGGTTTGGAAAATACATTATG
GACAAC
Found at i:13159937 original size:24 final size:24
Alignment explanation
Indices: 13159886--13159937 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
13159876 ATTTACATTT
* *
13159886 AAATTCAAACTCAAATTGAAATTT
1 AAATTCAAACTCAAATTGAAAATG
*
13159910 AAATTCAAACTCTAATT-ATAAATG
1 AAATTCAAACTCAAATTGA-AAATG
13159934 AAAT
1 AAAT
13159938 GAAAATGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATTCAAACTCAAATTGAAAATG
Found at i:13162426 original size:15 final size:15
Alignment explanation
Indices: 13162406--13162457 Score: 77
Period size: 15 Copynumber: 3.5 Consensus size: 15
13162396 TGATTTCCTT
* *
13162406 AGAAGAGTTTGGTTG
1 AGAAGAGATGGGTTG
*
13162421 AGAAGAGGTGGGTTG
1 AGAAGAGATGGGTTG
13162436 AGAAGAGATGGGTTG
1 AGAAGAGATGGGTTG
13162451 AGAAGAG
1 AGAAGAG
13162458 CCCCGATTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.33, C:0.00, G:0.46, T:0.21
Consensus pattern (15 bp):
AGAAGAGATGGGTTG
Found at i:13163086 original size:198 final size:198
Alignment explanation
Indices: 13162836--13163742 Score: 1451
Period size: 198 Copynumber: 4.6 Consensus size: 198
13162826 TTGTAAAATG
*
13162836 ACCTATTACATTATAATTATGGGTCTCGATGTTTTTTGGATCGATACTTTTTACAAATGTATCGA
1 ACCTATTACATTATAATTATGGGTCTCGATGTTTTTTGGATCGATACTTTTTATAAATGTATCGA
* *
13162901 CATATTGTGGTGACCTTGGTAAGGAAATCATTCTGGACACAAAGTATCGACACAAATTCAAAAAG
66 CACATTATGGTGACCTTGGTAAGGAAATCATTCTGGACACAAAGTATCGACACAAATTCAAAAAG
* *
13162966 TGTTGATACTTCATGTACACCTGTTTTCTCATAAACCGGTTTATTTAGACCGGTTAGATTGATAA
131 TGTCGATACTTCATGTACACCTGTTTTCTCATAAACCGGTGTATTTAGACCGGTTAGATTGATAA
13163031 TTT
196 TTT
*
13163034 ACCTATTACATTATAATTACGGGTCTCGATGTTTTTTGGATCGATACTTTTTATAAATGTATCGA
1 ACCTATTACATTATAATTATGGGTCTCGATGTTTTTTGGATCGATACTTTTTATAAATGTATCGA
* * *
13163099 CACATTGTGGTGATCTTGGTAAGGAAATCATTCTGGACACAAAGTATCGACACAAATTCAAAACG
66 CACATTATGGTGACCTTGGTAAGGAAATCATTCTGGACACAAAGTATCGACACAAATTCAAAAAG
* *
13163164 TGTTGATACTTCATGTACACTTGTTTTCTCATAAACCGGTGTATTTAGACCGGTTAGATTGATAA
131 TGTCGATACTTCATGTACACCTGTTTTCTCATAAACCGGTGTATTTAGACCGGTTAGATTGATAA
13163229 TTT
196 TTT
* * *
13163232 ACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGATCGATACTTTTTATAGAGGTATCGA
1 ACCTATTACATTATAATTATGGGTCTCGATGTTTTTTGGATCGATACTTTTTATAAATGTATCGA
*
13163297 CACATTATGGTGACCTTGGTAAGGAAATCATTCTGGACACAAAGTATCGGCACAAATTCAAAAAG
66 CACATTATGGTGACCTTGGTAAGGAAATCATTCTGGACACAAAGTATCGACACAAATTCAAAAAG
* * *
13163362 TGTCGATACTTCATGTACACCTGTTTTATCATAAACCGGTGTATTTAGACCGATTACATTGATAA
131 TGTCGATACTTCATGTACACCTGTTTTCTCATAAACCGGTGTATTTAGACCGGTTAGATTGATAA
13163427 TTT
196 TTT
* *
13163430 ACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGATCGATACTTTTTATAAAGGTATCGA
1 ACCTATTACATTATAATTATGGGTCTCGATGTTTTTTGGATCGATACTTTTTATAAATGTATCGA
*
13163495 CACATTATGGTGACCTTGGTAAGGAAATCATTCTGGACACAAAGTACGGGATCTACACAAATT-A
66 CACATTATGGTGACCTTGGTAAGGAAATCATTCTGGACACAAAGT-----ATCGACACAAATTCA
* * * * * *
13163559 AACAAGTGTCGATACTTTATGTACAACTATTTTCTCATAAAACGATATATTTAGACCGGTTAGAT
126 AA-AAGTGTCGATACTTCATGTACACCTGTTTTCTCATAAACCGGTGTATTTAGACCGGTTAGAT
13163624 TGATAATTT
190 TGATAATTT
*
13163633 ACCTATTACATTATAATTATGGGTCTCGATGTTTTTTGGATCGATACATTTTATAAATGTATCGA
1 ACCTATTACATTATAATTATGGGTCTCGATGTTTTTTGGATCGATACTTTTTATAAATGTATCGA
**
13163698 CACATT-TCCATG-CACTTGGTAAGGAAATCATTCTGGACACAAAGT
66 CACATTAT-GGTGAC-CTTGGTAAGGAAATCATTCTGGACACAAAGT
13163743 TTACTTGGAA
Statistics
Matches: 664, Mismatches: 37, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
198 485 0.73
202 5 0.01
203 174 0.26
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (198 bp):
ACCTATTACATTATAATTATGGGTCTCGATGTTTTTTGGATCGATACTTTTTATAAATGTATCGA
CACATTATGGTGACCTTGGTAAGGAAATCATTCTGGACACAAAGTATCGACACAAATTCAAAAAG
TGTCGATACTTCATGTACACCTGTTTTCTCATAAACCGGTGTATTTAGACCGGTTAGATTGATAA
TTT
Found at i:13163926 original size:17 final size:19
Alignment explanation
Indices: 13163886--13163935 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
13163876 TTACATTCAC
* *
13163886 ATACAAAATTATAAATCGT
1 ATACAAAATTAAAAAACGT
*
13163905 ATACAAAATTAAAAAACTT
1 ATACAAAATTAAAAAACGT
*
13163924 ACACAAAATTAA
1 ATACAAAATTAA
13163936 CCCTACATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (19 bp):
ATACAAAATTAAAAAACGT
Found at i:13165427 original size:18 final size:18
Alignment explanation
Indices: 13165404--13165441 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
13165394 TTCTCCTCAT
13165404 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
13165422 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
13165440 TT
1 TT
13165442 TAAATTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.05, C:0.37, G:0.00, T:0.58
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:13166135 original size:22 final size:24
Alignment explanation
Indices: 13166107--13166162 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
13166097 AACCTGCATT
13166107 TATAATAAAAT-TA-ATCATTTTA
1 TATAATAAAATATACATCATTTTA
*
13166129 TATAAT-AACTATACCATCATTTTA
1 TATAATAAAATATA-CATCATTTTA
*
13166153 TATAAAAAAA
1 TATAATAAAA
13166163 CAAAAACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 3 0.11
22 8 0.30
24 14 0.52
25 2 0.07
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (24 bp):
TATAATAAAATATACATCATTTTA
Found at i:13168257 original size:182 final size:182
Alignment explanation
Indices: 13167981--13169696 Score: 2613
Period size: 182 Copynumber: 9.4 Consensus size: 182
13167971 TTACCGGTTT
* * * * * *
13167981 CCGGTTTTGTCATTTCGATACC-GATTTTATCATATTTTTACCTATTATATTGTTATGGATCGAT
1 CCGGTTTTATCATTTCGAGACCTG-TTTTGTCATATTATTACCTGTTATATTGCTATGGATCGAT
* * *
13168045 ACATTT-TCATAAAGTATCGACACTTTTTAGGC-ATCATAATTTCTTCTCTTTTAAATTACGAAA
65 ACATTTGT-ATAAAGTATCGACACTTTTTAGGCGCT-ATAACTTCTTCTCTTTTAAATTACAAAA
13168108 GTGTCGATACTTATATTAATTTATCGACACTTTCAATATATCCGGTAGCTTTTTA
128 GTGTCGATACTTATATTAATTTATCGACACTTTCAATATATCCGGTAGCTTTTTA
* *
13168163 CCGTTTTTATCATTTCAAGACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATA
1 CCGGTTTTATCATTTCGAGACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATA
* *
13168228 CATTTGTATAAAATATCGACACTTTTTAGGCACTATAACTTCTTCTCTTTTAAATATA-AAAAGT
66 CATTTGTATAAAGTATCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAAT-TACAAAAGT
* *
13168292 GTCGATAATTATATTAATTTATCAACACTTTCAATATATCCGGTAGCTTTTTA
130 GTCGATACTTATATTAATTTATCGACACTTTCAATATATCCGGTAGCTTTTTA
* * *
13168345 CCGATTTTATCATTTCGAGACTTGTTTTGTCATATTATTACTTGTTATATTGCTATGGATCGATA
1 CCGGTTTTATCATTTCGAGACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATA
*
13168410 CATTTGTATAAAATATCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATATA-AAAAGT
66 CATTTGTATAAAGTATCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAAT-TACAAAAGT
*
13168474 GTCGATAATTATATTAATTTATCGACACTTTCAATATATCCGGTAGCTTTTTA
130 GTCGATACTTATATTAATTTATCGACACTTTCAATATATCCGGTAGCTTTTTA
** * *
13168527 CCATTTTTATCATTTCGAGACATGTTTTGTCATATTATTACCTATTATATTGCTATGGATCGATA
1 CCGGTTTTATCATTTCGAGACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATA
* *
13168592 CATTTGTATAAAGTATCGACACTTTTTAGCCGCTATAATTTCTTCTCTTTTAAATTACAAAAGTG
66 CATTTGTATAAAGTATCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACAAAAGTG
* *
13168657 TCGATACTTATATTAATTTATCGACACTTTCAATATATCCGTTATCTTTTTA
131 TCGATACTTATATTAATTTATCGACACTTTCAATATATCCGGTAGCTTTTTA
*
13168709 CCGGTTTTATCATTTTGAGACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATA
1 CCGGTTTTATCATTTCGAGACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATA
* *
13168774 CATTTGTATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTAAAAAAGTG
66 CATTTGTATAAAGTATCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACAAAAGTG
* * *
13168839 TCGATATTTATATTAATTTATCGACACTTTCAATATATCTGGTATCTTTTTA
131 TCGATACTTATATTAATTTATCGACACTTTCAATATATCCGGTAGCTTTTTA
* * * *
13168891 CTGGTTTTATCATTTCGAGACCTGTTTTGTCATATTATTACATGTTATATTGATATGAATCGATA
1 CCGGTTTTATCATTTCGAGACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATA
13168956 CATTTGTATAAAGTATCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAA-TATCAAAAGT
66 CATTTGTATAAAGTATCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTA-CAAAAGT
* * *
13169020 GTCGATACTTATATTAATTTTTCGACACTTTCAATATATCCAGTAGCTTTTAA
130 GTCGATACTTATATTAATTTATCGACACTTTCAATATATCCGGTAGCTTTTTA
*
13169073 CCGGTTTTATCATTTCAAGACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATA
1 CCGGTTTTATCATTTCGAGACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATA
13169138 CATTTGTATAAAGTATCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACAAAAGTG
66 CATTTGTATAAAGTATCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACAAAAGTG
* * **
13169203 TTGATACTTATATTAATTTATCGACACTTTCAATATATCTGGTAGCGATTTA
131 TCGATACTTATATTAATTTATCGACACTTTCAATATATCCGGTAGCTTTTTA
* * *
13169255 CCGGTTTTATCATAAT-GACACCGGTTTTGTCATATTATTACCTGTTATATATATTGCTATGGAT
1 CCGGTTTTATCAT-TTCGAGACCTGTTTTGTCATATTATTACCTG---T-TATATTGCTATGGAT
* *
13169319 CGATACATTTATATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTACAA
61 CGATACATTTGTATAAAGTATCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACAA
* **
13169384 AAGTGTCGATACTTATATTAATTTATCGACACTTTCAATATATCTGGTAGCGATTTA
126 AAGTGTCGATACTTATATTAATTTATCGACACTTTCAATATATCCGGTAGCTTTTTA
* * *
13169441 CCGGTTTTATCATAAT-GACACCGGTTTTGTCATATTATTACCTGTTATATATATTGCTATGGAT
1 CCGGTTTTATCAT-TTCGAGACCTGTTTTGTCATATTATTACCTG---T-TATATTGCTATGGAT
* *
13169505 CGATACATTTATATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTACAA
61 CGATACATTTGTATAAAGTATCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACAA
***
13169570 AAGTGTCGATACTTATATTAATTTATCGACACTTTCAATATATCCGGTAGAGATTTA
126 AAGTGTCGATACTTATATTAATTTATCGACACTTTCAATATATCCGGTAGCTTTTTA
* * * * *
13169627 CCGGTTTTATCATAAT-GACACCGGTTTTATCATATTTTTACCTGTTATATTGCTATGGATCGAT
1 CCGGTTTTATCAT-TTCGAGACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGAT
13169691 ACATTT
65 ACATTT
13169697 TTCATTTATA
Statistics
Matches: 1443, Mismatches: 79, Indels: 24
0.93 0.05 0.02
Matches are distributed among these distances:
181 4 0.00
182 1069 0.74
183 9 0.01
185 1 0.00
186 360 0.25
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (182 bp):
CCGGTTTTATCATTTCGAGACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATA
CATTTGTATAAAGTATCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACAAAAGTG
TCGATACTTATATTAATTTATCGACACTTTCAATATATCCGGTAGCTTTTTA
Found at i:13170478 original size:15 final size:15
Alignment explanation
Indices: 13170458--13170568 Score: 188
Period size: 15 Copynumber: 7.5 Consensus size: 15
13170448 TAATAAGGTT
13170458 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
13170473 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
13170488 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
13170503 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
13170518 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
13170533 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
13170548 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
13170562 ATTTATT
1 ATTTATT
13170569 AGTATGGATT
Statistics
Matches: 92, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
14 12 0.13
15 80 0.87
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:13170512 original size:45 final size:45
Alignment explanation
Indices: 13170458--13170569 Score: 208
Period size: 45 Copynumber: 2.5 Consensus size: 45
13170448 TAATAAGGTT
*
13170458 ATTTATTTTAAAATAATTTATTTTAAAATAATTTATTATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTATAAAATA
13170503 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTATAAAATA
13170548 ATTTATTTT-AAATAATTTATTA
1 ATTTATTTTAAAATAATTTATTA
13170570 GTATGGATTG
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
44 13 0.20
45 53 0.80
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (45 bp):
ATTTATTTTAAAATAATTTATTATAAAATAATTTATTATAAAATA
Found at i:13170596 original size:22 final size:22
Alignment explanation
Indices: 13170571--13170613 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
13170561 AATTTATTAG
13170571 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
13170593 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
13170614 TAATTTATTA
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:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:13170613 original size:54 final size:54
Alignment explanation
Indices: 13170548--13171198 Score: 433
Period size: 54 Copynumber: 12.1 Consensus size: 54
13170538 TTATAAAATA
13170548 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
13170602 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * *
13170656 ATTTA--TT--AT--TGTAGTT-GAATGAATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * * *
13170700 A-TTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATTATAGATTG
1 ATTTA-TTTTAAATAATTTA--TT--AGTATGGATTGATTTATTTTAAAATATGGATTG
13170758 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
**
13170812 ATTTATTTTAAAT-A---ATT--TATGGATTGATTTATTTT-AAATAATTTATTAG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
** * ** * * *
13170861 TATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATGGATTG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TATGGATTG
13170918 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * *
13170972 ATTTATTTTAAATAATTTA-T-GGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGA-TTT--AT--TTTA-AAATATGGATTG
** ** * ** * * * *
13171030 ATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTT
1 ATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTG
** ** * ** * * *
13171084 ATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTG
*
13171138 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
13171192 ATTTATT
1 ATTTATT
13171199 ATTATAGTTG
Statistics
Matches: 490, Mismatches: 62, Indels: 90
0.76 0.10 0.14
Matches are distributed among these distances:
43 3 0.01
44 4 0.01
46 1 0.00
47 9 0.02
48 45 0.09
49 7 0.01
50 11 0.02
51 2 0.00
52 10 0.02
53 6 0.01
54 266 0.54
55 17 0.03
56 12 0.02
57 19 0.04
58 68 0.14
59 10 0.02
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:13170650 original size:22 final size:22
Alignment explanation
Indices: 13170625--13170769 Score: 67
Period size: 22 Copynumber: 6.0 Consensus size: 22
13170615 AATTTATTAG
13170625 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
* * **
13170647 TATGGATTGATTTATTATTGTAGT
1 TATGAATTGATTTATT-TT-AAAA
13170671 TGAATGAATTGATTTATTTTAAATAA
1 T--ATGAATTGATTTATTTT-AA-AA
* * *
13170697 TTTATTAGTATGAATTGATTTATTTTAAAA
1 --TATGAAT-TG-ATTTA-TT---TTAAAA
* *
13170727 TATGGATTGATTTATTTTAAAT
1 TATGAATTGATTTATTTTAAAA
13170749 TAT-AGATTGATTTATTTTAAA
1 TATGA-ATTGATTTATTTTAAA
13170770 TAATTTATTA
Statistics
Matches: 91, Mismatches: 18, Indels: 28
0.66 0.13 0.20
Matches are distributed among these distances:
22 39 0.43
23 2 0.02
24 2 0.02
25 5 0.05
26 22 0.24
27 4 0.04
28 9 0.10
29 2 0.02
30 2 0.02
31 2 0.02
32 2 0.02
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:13170693 original size:80 final size:79
Alignment explanation
Indices: 13170571--13171071 Score: 836
Period size: 80 Copynumber: 6.4 Consensus size: 79
13170561 AATTTATTAG
*
13170571 TATGGATTGATTTATTTTAA-AA--TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATT
1 TATGGATTGATTTATTTTAATAATTTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATT
13170633 GATTTATTTTAAAA
66 GATTTATTTTAAAA
* * * * *
13170647 TATGGATTGATTTATTATT-GTAGTTGAATGAATTGATTTATTTTAAATAATTTATTAGTATGAA
1 TATGGATTGATTTATT-TTAATAATT-TATGGATTGATTTATTTTAAATAATTTATTAGTATGGA
13170711 TTGATTTATTTTAAAA
64 TTGATTTATTTTAAAA
*
13170727 TATGGATTGATTTATTTT-A-AA-TTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATT
1 TATGGATTGATTTATTTTAATAATTTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATT
13170789 GATTTATTTTAAAA
66 GATTTATTTTAAAA
13170803 TATGGATTGATTTATTTTAAATAATTTATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
1 TATGGATTGATTTATTTT-AATAATTTATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
13170868 TGATTTATTTTAAAA
65 TGATTTATTTTAAAA
13170883 TATGGATTGATTTATTTTAAATAATTTATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
1 TATGGATTGATTTATTTT-AATAATTTATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
13170948 TGATTTATTTTAAAA
65 TGATTTATTTTAAAA
13170963 TATGGATTGATTTATTTTAAATAATTTATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
1 TATGGATTGATTTATTTT-AATAATTTATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
13171028 TGATTTATTTTAAAA
65 TGATTTATTTTAAAA
13171043 TATGGATTGATTTATTTTAAATAATTTAT
1 TATGGATTGATTTATTTT-AATAATTTAT
13171072 TAGTATGGAT
Statistics
Matches: 405, Mismatches: 11, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
76 84 0.21
77 4 0.01
78 2 0.00
79 4 0.01
80 311 0.77
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (79 bp):
TATGGATTGATTTATTTTAATAATTTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATT
GATTTATTTTAAAA
Found at i:13170696 original size:134 final size:132
Alignment explanation
Indices: 13170548--13171293 Score: 599
Period size: 134 Copynumber: 5.6 Consensus size: 132
13170538 TTATAAAATA
13170548 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTA-TAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
* *
13170613 ATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGAATGA
65 ATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATT-TTATAATTGAATGA
13170678 ATTG
129 ATTG
*
13170682 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTA-TAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
* ** * * * ** * * * *
13170747 ATTATAGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAAT--ATG
65 ATAATTTATTAGTA-TGAATTGATTTATTTTA-AAATATGGATTGATTTATTTTATAATTGAATG
*
13170807 GATTG
128 AATTG
* * * * *
13170812 ATTTATTTTAAATAATTTAT-GGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTAT
1 ATTTATTTTAAATAATTTATAGTATGGATTGA-TTT--AT--TTTA-AAATATGGATTGATTTAT
13170876 TTT-AA-AA--TA-T-G---G-ATTGATTTATTTTAAATAATTTATGGATTGATTTATTTTAAAT
60 TTTAAATAATTTATTAGTATGAATTGATTTATTTT-AA-AA--TATGGATTGATTTATTTT--AT
* * * *
13170931 AATTTATTAGTATGG
119 AATTGAAT-GAATTG
* * *
13170946 ATTGA-TTT--AT--TTTAAAATATGGATTGATTTATTTTAAATAATTTATGGATTGATTTATTT
1 ATTTATTTTAAATAATTTATAGTATGGATTGATTTATTTT-AA-AA--TATGGATTGATTTATTT
* *
13171006 TAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA
62 TAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTT--ATAATTGA
* * *
13171071 TTAGTATGG
125 AT-GAATTG
* *
13171080 ATTTA-TTT--AT--TTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 ATTTATTTTAAATAATTTATAGTATGGATTGATTTA-TTT---TAA---A--A-TATGGATTGAT
* *
13171140 TTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTATA
56 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATT-TTATA
* *
13171205 GTTGTATGAATTG
120 ATTGAATGAATTG
* * *
13171218 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAGATTAATTTATTTTAA
1 ATTTATTTTAAATAATTTA-TAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
13171283 ATAATTTATTA
65 ATAATTTATTA
13171294 TTTTATTTTA
Statistics
Matches: 505, Mismatches: 59, Indels: 96
0.77 0.09 0.15
Matches are distributed among these distances:
125 11 0.02
126 4 0.01
127 2 0.00
128 43 0.09
129 15 0.03
130 37 0.07
131 7 0.01
132 6 0.01
133 25 0.05
134 211 0.42
135 4 0.01
136 2 0.00
137 6 0.01
138 23 0.05
139 11 0.02
140 72 0.14
141 5 0.01
143 7 0.01
144 14 0.03
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.53
Consensus pattern (132 bp):
ATTTATTTTAAATAATTTATAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAA
TAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTATAATTGAATGAAT
TG
Found at i:13170770 original size:22 final size:22
Alignment explanation
Indices: 13170710--13170770 Score: 104
Period size: 22 Copynumber: 2.8 Consensus size: 22
13170700 ATTAGTATGA
* *
13170710 ATTGATTTATTTTAAAATATGG
1 ATTGATTTATTTTAAATTATAG
13170732 ATTGATTTATTTTAAATTATAG
1 ATTGATTTATTTTAAATTATAG
13170754 ATTGATTTATTTTAAAT
1 ATTGATTTATTTTAAAT
13170771 AATTTATTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (22 bp):
ATTGATTTATTTTAAATTATAG
Found at i:13170797 original size:22 final size:22
Alignment explanation
Indices: 13170781--13171009 Score: 116
Period size: 26 Copynumber: 9.0 Consensus size: 22
13170771 AATTTATTAG
13170781 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
13170803 TATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTT-AA-AA
13170827 TTTATGGATTGATTTATTTTAAATAA
1 --TATGGATTGATTTATTTT-AA-AA
* * *
13170853 TTTATTAGTATGGATTGATTTATTTTAAAA
1 --TA-T-GGATTGATTTA-TT---TTAAAA
13170883 TATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTT-AA-AA
13170907 TTTATGGATTGATTTATTTTAAATAA
1 --TATGGATTGATTTATTTT-AA-AA
* * *
13170933 TTTATTAGTATGGATTGATTTATTTTAAAA
1 --TA-T-GGATTGATTTA-TT---TTAAAA
13170963 TATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTT-AA-AA
13170987 TTTATGGATTGATTTATTTTAAA
1 --TATGGATTGATTTATTTTAAA
13171010 TAATTTATTA
Statistics
Matches: 171, Mismatches: 12, Indels: 46
0.75 0.05 0.20
Matches are distributed among these distances:
22 22 0.13
23 6 0.04
24 7 0.04
25 6 0.04
26 90 0.53
27 4 0.02
28 20 0.12
29 4 0.02
30 4 0.02
31 4 0.02
32 4 0.02
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:13171046 original size:22 final size:22
Alignment explanation
Indices: 13171021--13171117 Score: 86
Period size: 22 Copynumber: 4.0 Consensus size: 22
13171011 AATTTATTAG
13171021 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
13171043 TATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTT-AA-AA
* *
13171067 TTTATTAGTATGGATTTATTTATTTTAAAA
1 --TA-T-GGATTGATTTA----TTTTAAAA
13171097 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
13171118 TAATTTATTA
Statistics
Matches: 61, Mismatches: 4, Indels: 20
0.72 0.05 0.24
Matches are distributed among these distances:
22 25 0.41
23 2 0.03
24 2 0.03
26 11 0.18
27 2 0.03
28 11 0.18
30 2 0.03
31 2 0.03
32 4 0.07
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:13171071 original size:160 final size:157
Alignment explanation
Indices: 13170571--13171063 Score: 850
Period size: 156 Copynumber: 3.1 Consensus size: 157
13170561 AATTTATTAG
*
13170571 TATGGATTGATTTATTTTAAAA-TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGA
1 TATGGATTGATTTATTTTAAAATTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
* * * *
13170635 TTTATTTTAAAATATGGATTGATTTATTATT--GTAGTTGAATGAATTGATTTATTTTAAATAAT
66 TTTATTTTAAAATATGGATTGATTTATT-TTAAATAATT-TATGGATTGATTTATTTTAAATAAT
*
13170698 TTATTAGTATGAATTGATTTATTTTAAAA
129 TTATTAGTATGGATTGATTTATTTTAAAA
*
13170727 TATGGATTGATTTATTTT-AAATTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
1 TATGGATTGATTTATTTTAAAATTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
13170791 TTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATGGATTGATTTATTTTAAATAATTT
66 TTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATGGATTGATTTATTTTAAATAATTT
13170856 ATTAGTATGGATTGATTTATTTTAAAA
131 ATTAGTATGGATTGATTTATTTTAAAA
13170883 TATGGATTGATTTATTTTAAATAATTTATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
1 TATGGATTGATTTATTTT-AA-AA-TTATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
13170948 TGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATGGATTGATTTATTTTAAATAA
63 TGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATGGATTGATTTATTTTAAATAA
13171013 TTTATTAGTATGGATTGATTTATTTTAAAA
128 TTTATTAGTATGGATTGATTTATTTTAAAA
13171043 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
13171064 TAATTTATTA
Statistics
Matches: 322, Mismatches: 8, Indels: 12
0.94 0.02 0.04
Matches are distributed among these distances:
155 5 0.02
156 155 0.48
157 4 0.01
158 2 0.01
159 4 0.01
160 152 0.47
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (157 bp):
TATGGATTGATTTATTTTAAAATTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
TTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATGGATTGATTTATTTTAAATAATTT
ATTAGTATGGATTGATTTATTTTAAAA
Found at i:13171212 original size:26 final size:23
Alignment explanation
Indices: 13171153--13171228 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
13171143 TTTTAAATAA
*
13171153 TTTATTTGTATGGATTGATTTAT
1 TTTAATTGTATGGATTGATTTAT
**
13171176 TTTAA-AATATGGATTGATTTAT
1 TTTAATTGTATGGATTGATTTAT
*
13171198 TATTATAGTTGTATGAATTGATTTAT
1 T-TTA-A-TTGTATGGATTGATTTAT
13171224 TTTAA
1 TTTAA
13171229 ATAATTTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
22 16 0.37
23 7 0.16
24 2 0.05
25 3 0.07
26 15 0.35
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.55
Consensus pattern (23 bp):
TTTAATTGTATGGATTGATTTAT
Found at i:13171220 original size:166 final size:164
Alignment explanation
Indices: 13170803--13171293 Score: 531
Period size: 166 Copynumber: 3.0 Consensus size: 164
13170793 TATTTTAAAA
* * * *
13170803 TATGGATTGATTTATTTTAAATAATTTATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
1 TATGGATTGATTTATTTTAAATAATTTATGGATGGATTGATTTT-AAT-ATTTATAAATATGGAT
*
13170868 TGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-T-G---G-ATTGATTTATTTT
64 TGATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT
** ** * ** * * *
13170927 -AAATAATTTATTAGTATGGA-TTGATTTATTTTA-AAA
129 AAAAT-ATAGATTA--ATTTATTTTAAATAATTTATTAG
* * * *
13170963 TATGGATTGATTTATTTTAAATAATTTATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
1 TATGGATTGATTTATTTTAAATAATTTATGGATGGATTGATTTT-AAT-ATTTATAAATATGGAT
* * *
13171028 TGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTTATTTATTTT
64 TGATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT
* *
13171093 AAAATATGGATTGATTTATTTTAAATAATTTATTAG
129 AAAATATAGATTAATTTATTTTAAATAATTTATTAG
*
13171129 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGA-TTT-AT-TTTA-AAATATGGAT
1 TATGGATTGATTTATTTTAAATAATTTA--TGGATGGATTGATTTTAATATTTATAAATATGGAT
**
13171190 TGATTTATTATTATAGTTGTATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTA
64 TGATTTATT-TTA-A--AATATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTA
13171255 TTTTAAAATATAGATTAATTTATTTTAAATAATTTATTA
125 TTTTAAAATATAGATTAATTTATTTTAAATAATTTATTA
13171294 TTTTATTTTA
Statistics
Matches: 292, Mismatches: 24, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
160 108 0.37
161 1 0.00
162 18 0.06
163 7 0.02
164 4 0.01
165 12 0.04
166 126 0.43
167 7 0.02
168 9 0.03
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (164 bp):
TATGGATTGATTTATTTTAAATAATTTATGGATGGATTGATTTTAATATTTATAAATATGGATTG
ATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAA
AATATAGATTAATTTATTTTAAATAATTTATTAG
Found at i:13171253 original size:18 final size:17
Alignment explanation
Indices: 13171206--13171256 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 17
13171196 ATTATTATAG
13171206 TTGTATGAATTGATTTA
1 TTGTATGAATTGATTTA
* *
13171223 TT-T-T-AAATAATTTA
1 TTGTATGAATTGATTTA
13171237 TTAGTATGAATTGATTTA
1 TT-GTATGAATTGATTTA
13171255 TT
1 TT
13171257 TTAAAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
14 10 0.38
15 1 0.04
16 2 0.08
17 3 0.12
18 10 0.38
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (17 bp):
TTGTATGAATTGATTTA
Found at i:13171282 original size:54 final size:54
Alignment explanation
Indices: 13170803--13171293 Score: 495
Period size: 54 Copynumber: 9.0 Consensus size: 54
13170793 TATTTTAAAA
13170803 TATGGATTGATTTATTTTAAATAATTTATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTT-AA-AA--TATGGATTGATTTATTTTAAATAATTTATTAG
13170861 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT-A---ATT--
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
** ** * ** * * *
13170909 TATGGATTGATTTATTTT-AAATAATTTATTAGTATGGA-TTGATTTATTTTA-AAA
1 TATGGATTGATTTATTTTAAAAT-ATGGATT-G-ATTTATTTTAAATAATTTATTAG
13170963 TATGGATTGATTTATTTTAAATAATTTATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTT-AA-AA--TATGGATTGATTTATTTTAAATAATTTATTAG
13171021 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
*
13171075 TATGGATTTATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
* * * ** * * *
13171129 TATGGATTGATTTATTTT-AAATA---ATTTATTTGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA--TT--AG
** *
13171183 TATGGATTGATTTATTATTATAGTTGTATGAATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATT-TTA-A--AATATGGATTGATTTATTTTAAATAATTTATTAG
* * *
13171241 TATGAATTGATTTATTTTAAAATATAGATTAATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
13171294 TTTTATTTTA
Statistics
Matches: 360, Mismatches: 45, Indels: 60
0.77 0.10 0.13
Matches are distributed among these distances:
47 4 0.01
48 23 0.06
49 5 0.01
50 22 0.06
52 2 0.01
53 7 0.02
54 187 0.52
55 2 0.01
56 9 0.03
57 20 0.06
58 58 0.16
59 3 0.01
60 2 0.01
62 16 0.04
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:13171310 original size:22 final size:22
Alignment explanation
Indices: 13171251--13171317 Score: 91
Period size: 22 Copynumber: 3.0 Consensus size: 22
13171241 TATGAATTGA
** *
13171251 TTTATTTTAAA-ATATAGATTAA
1 TTTATTTTAAATA-ATTTATTAT
13171273 TTTATTTTAAATAATTTATTAT
1 TTTATTTTAAATAATTTATTAT
13171295 TTTATTTTAAATAATTTATTAT
1 TTTATTTTAAATAATTTATTAT
13171317 T
1 T
13171318 GTAGTTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 40 0.98
23 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (22 bp):
TTTATTTTAAATAATTTATTAT
Found at i:13173212 original size:5 final size:5
Alignment explanation
Indices: 13173202--13173230 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
13173192 TATTTACCCA
13173202 TTGGC TTGGC TTGGC TTGGC TTGGC TTGG
1 TTGGC TTGGC TTGGC TTGGC TTGGC TTGG
13173231 AGCATGTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.41, T:0.41
Consensus pattern (5 bp):
TTGGC
Found at i:13173903 original size:2 final size:2
Alignment explanation
Indices: 13173896--13173921 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13173886 AAATTAAAAC
13173896 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
13173922 TTTAAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13175496 original size:138 final size:137
Alignment explanation
Indices: 13175298--13175700 Score: 409
Period size: 151 Copynumber: 2.8 Consensus size: 137
13175288 AAAAAAAAAC
* * *
13175298 ATATTTAAAAGCTCACCTGAACATAAAGAAATATTATTTGTAT--GAACAATTATTGGAAACACA
1 ATATTTAAAA-CTCA-CTGAATAT-AA-AAATATTATTT-TATACGAACAATCA-TCGAAACACA
* *
13175361 CTCTTTATCAATCAAGGCGCGTTTCCATAAATCCCTCTCACAAAATAATTTTTAACTTGTATTTT
60 CTCTTTATCAATCAAGGCGCGTTTCCATATATTCCTCTCACAAAATAATTTTTAACTTGTATTTT
*
13175426 GATAAATTAC-AT
125 AATAAATTACTAT
*
13175438 ATATTTAAAACTCACTAGAATATAAAAATATTATTTTATACGAACAATCATCAGAAACACACTCC
1 ATATTTAAAACTCACT-GAATATAAAAATATTATTTTATACGAACAATCATC-GAAACACACTCT
* * * **
13175503 TTATTAATCAAGGCGTGTTTCCATATATTCCTTTCACAAAATAATTTTTTGTCTTGTATTTTAAT
64 TTATCAATCAAGGCGCGTTTCCATATATTCCTCTCACAAAATAA-TTTTTAACTTGTATTTTAAT
13175568 AAATTACATATATTTAAT
128 AAATTAC-------T-AT
* *
13175586 ATATTTAAAACTCACTTGAATATATAAAATATATTATTTTGTACGAACAATCTTCGACAACACAA
1 ATATTTAAAACTCAC-TG-A-ATATAAAA-ATATTATTTTATACGAACAATCATCGA-AACAC-A
* * * *
13175651 AT-TTTATCAATCAAGACGCGTTTCCATGTATTCCTCTCACAAAATGATTT
60 CTCTTTATCAATCAAGGCGCGTTTCCATATATTCCTCTCACAAAATAATTT
13175701 AAGAAAACAT
Statistics
Matches: 221, Mismatches: 22, Indels: 30
0.81 0.08 0.11
Matches are distributed among these distances:
136 3 0.01
137 12 0.05
138 62 0.28
139 33 0.15
140 10 0.05
148 18 0.08
149 2 0.01
150 13 0.06
151 66 0.30
152 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.37
Consensus pattern (137 bp):
ATATTTAAAACTCACTGAATATAAAAATATTATTTTATACGAACAATCATCGAAACACACTCTTT
ATCAATCAAGGCGCGTTTCCATATATTCCTCTCACAAAATAATTTTTAACTTGTATTTTAATAAA
TTACTAT
Found at i:13177131 original size:6 final size:6
Alignment explanation
Indices: 13177120--13177148 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
13177110 ATAAAGCCTT
13177120 GCTTAG GCTTAG GCTTAG GCTTAG GCTTA
1 GCTTAG GCTTAG GCTTAG GCTTAG GCTTA
13177149 ACACTAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.34
Consensus pattern (6 bp):
GCTTAG
Found at i:13178958 original size:21 final size:20
Alignment explanation
Indices: 13178934--13178985 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
13178924 TGGAGGGTTG
13178934 GTATCAATACTGGATGAACTA
1 GTATCAATAC-GGATGAACTA
13178955 GTATCCACAT-CGGATGAACTA
1 GTAT-CA-ATACGGATGAACTA
*
13178976 GTATCCATAC
1 GTATCAATAC
13178986 CAAATGAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
19 2 0.07
20 2 0.07
21 18 0.67
22 3 0.11
23 2 0.07
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (20 bp):
GTATCAATACGGATGAACTA
Found at i:13178992 original size:21 final size:21
Alignment explanation
Indices: 13178947--13178992 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
13178937 TCAATACTGG
* **
13178947 ATGAACTAGTATCCACATCGG
1 ATGAACTAGTATCCACACCAA
*
13178968 ATGAACTAGTATCCATACCAA
1 ATGAACTAGTATCCACACCAA
13178989 ATGA
1 ATGA
13178993 GTTAATATCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (21 bp):
ATGAACTAGTATCCACACCAA
Found at i:13183511 original size:2 final size:2
Alignment explanation
Indices: 13183504--13183528 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13183494 TCGAGAAACA
13183504 AT 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 A
13183529 GTTTTCATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13183996 original size:21 final size:21
Alignment explanation
Indices: 13183970--13184009 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13183960 CAGAACCCCA
*
13183970 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
13183991 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
13184010 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:13189765 original size:21 final size:21
Alignment explanation
Indices: 13189739--13189815 Score: 145
Period size: 21 Copynumber: 3.7 Consensus size: 21
13189729 GGAGCGTGGG
13189739 GGGAATCGGTTCCCCCTCATA
1 GGGAATCGGTTCCCCCTCATA
*
13189760 GGGAATCGATTCCCCCTCATA
1 GGGAATCGGTTCCCCCTCATA
13189781 GGGAATCGGTTCCCCCTCATA
1 GGGAATCGGTTCCCCCTCATA
13189802 GGGAATCGGTTCCC
1 GGGAATCGGTTCCC
13189816 TAAGTGTAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.19, C:0.32, G:0.25, T:0.23
Consensus pattern (21 bp):
GGGAATCGGTTCCCCCTCATA
Found at i:13194717 original size:17 final size:17
Alignment explanation
Indices: 13194695--13194728 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
13194685 GTAGAAAATG
13194695 ATGCATATCATCTAGTA
1 ATGCATATCATCTAGTA
13194712 ATGCATATCATCTAGTA
1 ATGCATATCATCTAGTA
13194729 TGACTACTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (17 bp):
ATGCATATCATCTAGTA
Found at i:13194957 original size:21 final size:21
Alignment explanation
Indices: 13194931--13194985 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
13194921 AACGGAGGGT
13194931 TGGTATCAATACCT-GATGAAC
1 TGGTATC-ATACCTAGATGAAC
13194952 TGGTATTCATA-CTAGATGAAC
1 TGGTA-TCATACCTAGATGAAC
*
13194973 TGATATCCATACC
1 TGGTAT-CATACC
13194986 GAAGAATTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 3 0.10
21 23 0.79
22 3 0.10
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (21 bp):
TGGTATCATACCTAGATGAAC
Found at i:13197442 original size:21 final size:21
Alignment explanation
Indices: 13197417--13197548 Score: 83
Period size: 21 Copynumber: 6.4 Consensus size: 21
13197407 TATATAAGGA
*
13197417 GGGAGGGAGGGAGAGAGAGGG
1 GGGAGGGAGGAAGAGAGAGGG
* **
13197438 GGGA--GAGGTAGAGAGAGAA
1 GGGAGGGAGGAAGAGAGAGGG
** * *
13197457 ATGAGGGATGAAGGGAGAGGTG
1 GGGAGGGAGGAAGAGAGAGG-G
* *
13197479 GGGAGGG-GGAAGGGGGAGGG
1 GGGAGGGAGGAAGAGAGAGGG
* * * *
13197499 GGGAGGGGGGAGGGGGGAGGG
1 GGGAGGGAGGAAGAGAGAGGG
*
13197520 GGGAGGGAGAAAGAGAGA-GG
1 GGGAGGGAGGAAGAGAGAGGG
*
13197540 GAGAGGGAG
1 GGGAGGGAG
13197549 AGGGAGAGGG
Statistics
Matches: 86, Mismatches: 21, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
19 14 0.16
20 18 0.21
21 49 0.57
22 5 0.06
ACGTcount: A:0.30, C:0.00, G:0.67, T:0.03
Consensus pattern (21 bp):
GGGAGGGAGGAAGAGAGAGGG
Found at i:13197450 original size:19 final size:18
Alignment explanation
Indices: 13197415--13197571 Score: 65
Period size: 18 Copynumber: 9.1 Consensus size: 18
13197405 TATATATAAG
13197415 GAGGGAGGGAGGGAGAGA
1 GAGGGAGGGAGGGAGAGA
13197433 GAGGG-GGGAGAGGTAGAGA
1 GAGGGAGGGAG-GG-AGAGA
* * * *
13197452 GAGAAATGAGGGATGAAGGGA
1 GAG---GGAGGGAGGGAGAGA
*
13197473 GAGGTG-GGGAGGGGGA-A
1 GAGG-GAGGGAGGGAGAGA
*
13197490 GGGGGAGGG-GGGAG-G-
1 GAGGGAGGGAGGGAGAGA
13197505 G-GGGAGGG-GGGAG-G-
1 GAGGGAGGGAGGGAGAGA
**
13197519 G-GGGAGGGAGAAAGAGA
1 GAGGGAGGGAGGGAGAGA
13197536 GAGGGA--GAGGGAGAGGGA
1 GAGGGAGGGAGGGAGA--GA
13197554 GAGGGA--GAGGGAGAGA
1 GAGGGAGGGAGGGAGAGA
13197570 GA
1 GA
13197572 AAGAGATTGT
Statistics
Matches: 109, Mismatches: 15, Indels: 32
0.70 0.10 0.21
Matches are distributed among these distances:
14 21 0.19
15 4 0.04
16 16 0.15
17 13 0.12
18 33 0.30
19 9 0.08
21 7 0.06
22 2 0.02
23 4 0.04
ACGTcount: A:0.31, C:0.00, G:0.66, T:0.03
Consensus pattern (18 bp):
GAGGGAGGGAGGGAGAGA
Found at i:13197494 original size:7 final size:7
Alignment explanation
Indices: 13197473--13197526 Score: 83
Period size: 7 Copynumber: 7.7 Consensus size: 7
13197463 GATGAAGGGA
13197473 GAGGTGGG
1 GAGG-GGG
13197481 GA-GGGG
1 GAGGGGG
*
13197487 GAAGGGG
1 GAGGGGG
13197494 GAGGGGG
1 GAGGGGG
13197501 GAGGGGG
1 GAGGGGG
13197508 GAGGGGG
1 GAGGGGG
13197515 GAGGGGG
1 GAGGGGG
13197522 GAGGG
1 GAGGG
13197527 AGAAAGAGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
6 5 0.11
7 37 0.84
8 2 0.05
ACGTcount: A:0.17, C:0.00, G:0.81, T:0.02
Consensus pattern (7 bp):
GAGGGGG
Found at i:13197543 original size:6 final size:6
Alignment explanation
Indices: 13197534--13197568 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
13197524 GGGAGAAAGA
13197534 GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAG
1 GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAG
13197569 AGAAAGAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (6 bp):
GAGAGG
Done.