Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008445.1 Hibiscus syriacus cultivar Beakdansim tig00111250_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: 899959
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 4
Found at i:449304 original size:19 final size:19
Alignment explanation
Indices: 449280--449316 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
449270 ACCTTACTAA
449280 CTCTTTTCATTTT-TTTCCT
1 CTCTTTT-ATTTTATTTCCT
449299 CTCTTTTATTTTATTTCC
1 CTCTTTTATTTTATTTCC
449317 ATCATCTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (19 bp):
CTCTTTTATTTTATTTCCT
Found at i:451118 original size:4 final size:4
Alignment explanation
Indices: 451105--451136 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
451095 TAGATGGGTT
451105 CAAG -AAG CAAG CAAG CAAG CAAG CAAG CAAG C
1 CAAG CAAG CAAG CAAG CAAG CAAG CAAG CAAG C
451137 TTCAAATAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.50, C:0.25, G:0.25, T:0.00
Consensus pattern (4 bp):
CAAG
Found at i:453362 original size:22 final size:22
Alignment explanation
Indices: 453337--453384 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
453327 CATCAAACAC
453337 TTGAGCATCAAATGCCAAACCT
1 TTGAGCATCAAATGCCAAACCT
453359 TTGAGCATCAAATGCCAAACCT
1 TTGAGCATCAAATGCCAAACCT
453381 TTGA
1 TTGA
453385 CCAAACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (22 bp):
TTGAGCATCAAATGCCAAACCT
Found at i:454473 original size:106 final size:106
Alignment explanation
Indices: 454351--455618 Score: 1902
Period size: 106 Copynumber: 12.0 Consensus size: 106
454341 GTGCCACTTG
* * * * *
454351 AGACAACACAAGTTCAAATTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCCAAATT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
454416 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * *
454457 AGACAACACAAGTTCAACTTCACAATGAAGGGACCGCTGGTTGTCAACAAACAAC-T--CAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* * *
454519 CAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTTC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* ** * * *
454560 AGACAACGCAAGTTCAACTTCATGACGAACAGACCGCTGGTTTTCAATAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* * *
454625 TAGAGCTAATTTCAACTTCACAGCGAAGGATATTGGACTCA
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * * *
454666 ATACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCTAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
*
454731 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGTACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * * *
454772 ACACAACGCAAGTTCAACTTCATGACGAAGGGACCACTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
*
454837 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
454878 AGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
*
454943 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCG
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * *
454984 AGACAATGCAAGTTCAACATCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* * *
455049 CGGAGCCAATTTCAACTTCACAGTGAAAGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* *
455090 AGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
**
455155 C-GAAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCC
66 CAG-AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
455196 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
*
455261 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
455302 AGACAACGCAAGTTCAATTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* * *
455367 CAGAGCCAATTTCAACTTCATAGCAAAGGATATTGGACTCG
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
455408 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* *** **
455473 CGGAGCCAATTTCAACTTCACAATAAAGGATATTGGACTGG
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
** * * * *
455514 AGACAACATAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGA-TT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
455578 CTAGAGCCAATTTCAACTTCAC-GAC-AGAGGATATTGGACTC
66 C-AGAGCCAATTTCAACTTCACAG-CGA-AGGATATTGGACTC
455619 GGAACAATGC
Statistics
Matches: 1071, Mismatches: 83, Indels: 16
0.92 0.07 0.01
Matches are distributed among these distances:
103 89 0.08
104 1 0.00
105 6 0.01
106 974 0.91
107 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
Found at i:456419 original size:37 final size:37
Alignment explanation
Indices: 456368--456471 Score: 129
Period size: 36 Copynumber: 2.8 Consensus size: 37
456358 CCTTTTCGTC
*
456368 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
456405 TTACTAGGATTCAAATTCCT-AAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
456441 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
456472 CCACAAGTAT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
36 29 0.52
37 27 0.48
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:456976 original size:2 final size:2
Alignment explanation
Indices: 456969--457015 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
456959 ATTTTCCTAT
456969 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
457011 TA TA T
1 TA TA T
457016 TTTTATCTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:457053 original size:13 final size:13
Alignment explanation
Indices: 457035--457060 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
457025 TGTTTACTTA
457035 TTTACTATATTTT
1 TTTACTATATTTT
457048 TTTACTATATTTT
1 TTTACTATATTTT
457061 CCTAACGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTACTATATTTT
Found at i:457372 original size:18 final size:19
Alignment explanation
Indices: 457348--457393 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
457338 TGTATATATA
*
457348 TTTTTTTCTTC-ATTT-AT
1 TTTTTTTATTCAATTTCAT
457365 TTTATTTTATTCAATTTCAT
1 TTT-TTTTATTCAATTTCAT
457385 TTTTTTTAT
1 TTTTTTTAT
457394 ATTTGTTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 3 0.12
18 7 0.28
19 10 0.40
20 5 0.20
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTTTATTCAATTTCAT
Found at i:465867 original size:139 final size:139
Alignment explanation
Indices: 465683--466040 Score: 466
Period size: 139 Copynumber: 2.6 Consensus size: 139
465673 GATGGAAACA
* * *
465683 AGCTAAGGTTGAACAAGTTCTTCTAATTATGAACTTGTTCTCCCTCATTGGATGAGTTTTTCTTA
1 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTTTTCTCA
* * * * * **
465748 TTATGAACTCTCCACTGGAAATATTGATCCCT-CGAGTGAGGTGTTGCTGATTCAACTCTGTATG
66 TTATGAACTCTCCACTAGAAATATTGAT-CATGCGAGTGAGGTATTGATGATTCAACACCATATG
*
465812 CGATGAATTG
130 CGATGAATCG
** * **
465822 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCCGCACCCTCATCAGATGAGTTTTTCTCA
1 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTTTTCTCA
* * *
465887 TTATGAATTCTCCACTAGAAATGTTGATCATGCGAGTGAGGTATTGATGATTCAACACCATATGT
66 TTATGAACTCTCCACTAGAAATATTGATCATGCGAGTGAGGTATTGATGATTCAACACCATATGC
465952 GATGAATCG
131 GATGAATCG
* * * * *
465961 AGCTAAGGTTGAACAAGCTCTCCTCATTATGAATTTCTTCTCCCTCTTTCGGATGAGTTCTTCTC
1 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATT-GGATGAGTTTTTCTC
*
466026 ATTATCAACTCTCCA
65 ATTATGAACTCTCCA
466041 TTTGAAATGT
Statistics
Matches: 186, Mismatches: 31, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
138 2 0.01
139 158 0.85
140 26 0.14
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (139 bp):
AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTTTTCTCA
TTATGAACTCTCCACTAGAAATATTGATCATGCGAGTGAGGTATTGATGATTCAACACCATATGC
GATGAATCG
Found at i:466179 original size:135 final size:134
Alignment explanation
Indices: 465972--466447 Score: 616
Period size: 135 Copynumber: 3.6 Consensus size: 134
465962 GCTAAGGTTG
* * *
465972 AACAAGCTCTCCTCATTATGAATTTCTTCTCCCTCTTTCGGATGAGTTCTTCTCATTATCAACTC
1 AACAAGCTCTTCTCATTATGAACTTCTTCTCCCTC-TTCGGATGAGTTCTTCTCATTATGAACTC
466037 TCCATTTGAAATGTTAACCCCTCAAGCGAGGCGTCACTAATTCAAAATGCCATTAATCGAGTGAT
65 TCCATTTGAAATGTTAACCCCTCAAGCGAGGCGTCACT-ATTCAAAATGCCATTAATCGAGTGAT
*
466102 AGGTCT
129 AGGTCA
* ** *
466108 AACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTCATATGAGTTCTTCTCTTTATGAACTCT
1 AACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTCGGATGAGTTCTTCTCATTATGAACTCT
* * * *
466173 CCATTTGAAATGTTGACCCCTCAAGCGAGGCATCACTGATTCAAAATGTC-TTGAATTGAGTGAT
66 CCATTTGAAATGTTAACCCCTCAAGCGAGGCGTCACT-ATTCAAAATGCCATT-AATCGAGTGAT
466237 AGGTCA
129 AGGTCA
*
466243 AACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTCGGATGATTTCTTCTCATTATGAACTCT
1 AACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTCGGATGAGTTCTTCTCATTATGAACTCT
* * * * *
466308 CCATTTGAAATGTT-----C-CAAGCGAGGCGTCAC---T--GAATGCTATGAATCAAGTGCTAG
66 CCATTTGAAATGTTAACCCCTCAAGCGAGGCGTCACTATTCAAAATGCCATTAATCGAGTGATAG
*
466362 GTCG
131 GTCA
* * * *
466366 AACAAGCTCTTCTCATTATGAACTTCTTCTCCGTCTACCGGATGAGTTCTTCTCATTATAAAATC
1 AACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCT-TCGGATGAGTTCTTCTCATTATGAACTC
466431 TCCATTTGAAATGTTAA
65 TCCATTTGAAATGTTAA
466448 TTGGTTCATC
Statistics
Matches: 303, Mismatches: 32, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
123 52 0.17
124 40 0.13
125 1 0.00
129 14 0.05
130 1 0.00
134 2 0.01
135 160 0.53
136 33 0.11
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (134 bp):
AACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTCGGATGAGTTCTTCTCATTATGAACTCT
CCATTTGAAATGTTAACCCCTCAAGCGAGGCGTCACTATTCAAAATGCCATTAATCGAGTGATAG
GTCA
Found at i:466185 original size:275 final size:257
Alignment explanation
Indices: 465827--466445 Score: 661
Period size: 275 Copynumber: 2.3 Consensus size: 257
465817 AATTGAGCTA
* * ** * *
465827 AGGTTGAACAAGTTCTTCTCATTATGAACTTCCGCACCCTCATCAGATGAGTTTTTCTCATTATG
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTC-TCAGATGAGTTCTTCTCATTATG
* * * * * * * * *
465892 AATTCTCCACTAGAAATGTTGA-TCATGCGAGTGAGGTATTGA-TGATTCAACACCATATGTGAT
65 AAATCTCCATTTGAAATGTTGACCCAT-CAAGCGAGGCA-TCACTGATTC-A-A--A-ATGTCAT
** *
465955 GAATCGAGCT-A-AGGTTGAACAAGCTCTCCTCATTATGAATTTCTTCTCCCTCTTTCGGATGAG
123 GAATCGAG-TGATAGGTCAAACAAGCTCTCCTCATTATGAACTTCTTCTCCCTC-TTCGGATGAG
466018 TTCTTCTCATTATCAACTCTCCATTTGAAATGTTAACCCCTCAAGCGAGGCGTCACTAATTCAAA
186 TTCTTCTCATTATCAACTCTCCATTTGAAATGTT-----C-CAAGCGAGGCGTCAC----T--AA
* *
466083 ATGCCATTAATCGAGTGAT
239 ATGCCATGAATCAAGTGAT
* * *
466102 AGGTCTAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTCATATGAGTTCTTCTCTTTATG
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTC-TCAGATGAGTTCTTCTCATTATG
* * * *
466167 AACTCTCCATTTGAAATGTTGACCCCTCAAGCGAGGCATCACTGATTCAAAATGTCTTGAATTGA
65 AAATCTCCATTTGAAATGTTGACCCATCAAGCGAGGCATCACTGATTCAAAATGTCATGAATCGA
* *
466232 GTGATAGGTCAAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTCGGATGATTTCTTCTCA
130 GTGATAGGTCAAACAAGCTCTCCTCATTATGAACTTCTTCTCCCTCTTCGGATGAGTTCTTCTCA
* * * *
466297 TTATGAACTCTCCATTTGAAATGTTCCAAGCGAGGCGTCACTGAATGCTATGAATCAAGTGCT
195 TTATCAACTCTCCATTTGAAATGTTCCAAGCGAGGCGTCACTAAATGCCATGAATCAAGTGAT
* *
466360 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCGTCTACCGGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCT--CAGATGAGTTCTTCTCATTAT
*
466425 AAAATCTCCATTTGAAATGTT
64 GAAATCTCCATTTGAAATGTT
466446 AATTGGTTCA
Statistics
Matches: 298, Mismatches: 40, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
257 1 0.00
258 55 0.18
259 37 0.12
260 1 0.00
264 15 0.05
265 1 0.00
269 1 0.00
270 55 0.18
271 38 0.13
273 1 0.00
274 3 0.01
275 88 0.30
276 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (257 bp):
AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTCAGATGAGTTCTTCTCATTATGA
AATCTCCATTTGAAATGTTGACCCATCAAGCGAGGCATCACTGATTCAAAATGTCATGAATCGAG
TGATAGGTCAAACAAGCTCTCCTCATTATGAACTTCTTCTCCCTCTTCGGATGAGTTCTTCTCAT
TATCAACTCTCCATTTGAAATGTTCCAAGCGAGGCGTCACTAAATGCCATGAATCAAGTGAT
Found at i:467505 original size:42 final size:42
Alignment explanation
Indices: 467412--467546 Score: 139
Period size: 42 Copynumber: 3.2 Consensus size: 42
467402 ACATCCCGGC
* * * *
467412 CGAAAGTCTTATGGATGGCCCAAAGGATTT-ATCATCTTGCT
1 CGAAAGACTTATAGATGGCCCGAAGGATTTAATCATCATGCT
* * **
467453 TGAAAGACTTATAGATGACCCGAAGGATTTAAGAATCATGCT
1 CGAAAGACTTATAGATGGCCCGAAGGATTTAATCATCATGCT
* * * *
467495 CGAAAGACTTACTA-ATGGCCCGAAGTACTTACTCATTATGCT
1 CGAAAGACTTA-TAGATGGCCCGAAGGATTTAATCATCATGCT
467537 CGAAAGACTT
1 CGAAAGACTT
467547 GCTGAGGCCT
Statistics
Matches: 76, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
41 25 0.33
42 49 0.64
43 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (42 bp):
CGAAAGACTTATAGATGGCCCGAAGGATTTAATCATCATGCT
Found at i:467546 original size:22 final size:19
Alignment explanation
Indices: 467490--467546 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 19
467480 TTTAAGAATC
467490 ATGCTCGAAAGACTTACTA
1 ATGCTCGAAAGACTTACTA
*
467509 ATGGCCCG-AAGTACTTACTCA
1 AT-GCTCGAAAG-ACTTACT-A
467530 TTATGCTCGAAAGACTT
1 --ATGCTCGAAAGACTT
467547 GCTGAGGCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
19 5 0.17
20 11 0.37
21 1 0.03
22 8 0.27
23 5 0.17
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.28
Consensus pattern (19 bp):
ATGCTCGAAAGACTTACTA
Found at i:467873 original size:42 final size:42
Alignment explanation
Indices: 467779--467928 Score: 126
Period size: 42 Copynumber: 3.6 Consensus size: 42
467769 AGGTCTTATG
* * * **
467779 GATGGCACGAAGGACTTA-TCATCTTTCTCGAAAGACTT-AT
1 GATGGCCCGAAGGACTTACACATCATGATCGAAAGACTTAAT
* * * *
467819 AGATGACTCGAAGGATTTA-ACCATCATGATCTAAAGACTTAAT
1 -GATGGCCCGAAGGACTTACA-CATCATGATCGAAAGACTTAAT
* * *
467862 GATGGCCCGAAGGACTTACACATCATGCTGGAAAGACTTACT
1 GATGGCCCGAAGGACTTACACATCATGATCGAAAGACTTAAT
* * *
467904 GATCGCCCGTAGGACTTACTCATCA
1 GATGGCCCGAAGGACTTACACATCA
467929 AGAAACCCTT
Statistics
Matches: 88, Mismatches: 18, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
41 15 0.17
42 70 0.80
43 3 0.03
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (42 bp):
GATGGCCCGAAGGACTTACACATCATGATCGAAAGACTTAAT
Found at i:468087 original size:52 final size:50
Alignment explanation
Indices: 468002--468215 Score: 182
Period size: 53 Copynumber: 4.1 Consensus size: 50
467992 TTTCCTTTTA
468002 AAAATTCA-TTGAAAACATCCTCAAGAAACCCCTAAAAATCAGGCTTAATTTCT
1 AAAATTCATTTGAAAACA---TCAAGAAA-CCCTAAAAATCAGGCTTAATTTCT
* *
468055 AAAAGCTCATTTGAAAACATCAAGAAATCCCTAAAAATTAGGCTTAATTTCTTT
1 AAAA-TTCATTTGAAAACATCAAGAAA-CCCTAAAAATCAGGCTTAATTTC--T
* * ** * *
468109 GAAATTCATTTGAAAACATTAAGAAACACCCT-AAAATTTGGCTTAGCTTCTTT
1 AAAATTCATTTGAAAACATCAAG-AA-ACCCTAAAAATCAGGCTTA-ATT-TCT
* * * *
468162 CAAATTCATTTGAAAACATCGAGAAACCCTTGAAAATCA-GCTTAGTTTCT
1 AAAATTCATTTGAAAACATCAAGAAACCC-TAAAAATCAGGCTTAATTTCT
468212 AAAA
1 AAAA
468216 ACTTTTGTTT
Statistics
Matches: 134, Mismatches: 17, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
50 5 0.04
51 6 0.04
52 38 0.28
53 59 0.44
54 15 0.11
55 11 0.08
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.30
Consensus pattern (50 bp):
AAAATTCATTTGAAAACATCAAGAAACCCTAAAAATCAGGCTTAATTTCT
Found at i:468145 original size:53 final size:53
Alignment explanation
Indices: 467971--468190 Score: 216
Period size: 53 Copynumber: 4.1 Consensus size: 53
467961 GTTGTCAAGG
* *
467971 AACCCCT-AAAATTATGCTTAGTTTCCTTTTAAAAATTCA-TTGAAAACATCCTCAAGA
1 AACCCCTAAAAATTAGGCTTAATTT-C-TTT-AAAATTCATTTGAAAACAT--T-AAGA
* * *
468028 AACCCCTAAAAATCAGGCTTAATTTC--TAAAAGCTCATTTGAAAACATCAAGA
1 AACCCCTAAAAATTAGGCTTAATTTCTTTAAAA-TTCATTTGAAAACATTAAGA
* *
468080 AATCCCTAAAAATTAGGCTTAATTTCTTTGAAATTCATTTGAAAACATTAAGA
1 AACCCCTAAAAATTAGGCTTAATTTCTTTAAAATTCATTTGAAAACATTAAGA
* ** * **
468133 AACACCCT-AAAATTTGGCTTAGCTTCTTTCAAATTCATTTGAAAACATCGAGA
1 AAC-CCCTAAAAATTAGGCTTAATTTCTTTAAAATTCATTTGAAAACATTAAGA
468186 AACCC
1 AACCC
468191 TTGAAAATCA
Statistics
Matches: 140, Mismatches: 17, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
52 30 0.21
53 66 0.47
54 12 0.09
55 10 0.07
57 8 0.06
58 14 0.10
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (53 bp):
AACCCCTAAAAATTAGGCTTAATTTCTTTAAAATTCATTTGAAAACATTAAGA
Found at i:468254 original size:39 final size:39
Alignment explanation
Indices: 468211--468416 Score: 261
Period size: 39 Copynumber: 5.3 Consensus size: 39
468201 GCTTAGTTTC
* * * * *
468211 TAAAAACTTTTGTTTTGTGTGAAACTATCTCAAGC-ATGA
1 TAAAATCTTCTGTTTCGAGTGAAACAATCTCAAGCGA-GA
* * *
468250 TAAAAACTTCTGTTTCTAGTGAAACAATCTCATGCGAGA
1 TAAAATCTTCTGTTTCGAGTGAAACAATCTCAAGCGAGA
*
468289 TAAAATCTTTTGTTTCGAGTGAAACAATCTCAAGCGAGA
1 TAAAATCTTCTGTTTCGAGTGAAACAATCTCAAGCGAGA
* *
468328 TAAAATCTTCTGTTTCAAGTGAAACGATCTCAAGCGAGA
1 TAAAATCTTCTGTTTCGAGTGAAACAATCTCAAGCGAGA
* * **
468367 TAAAATCTTCTGTTTCGAGTGAAATAATTTCAATTGAGA
1 TAAAATCTTCTGTTTCGAGTGAAACAATCTCAAGCGAGA
468406 TAAAATCTTCT
1 TAAAATCTTCT
468417 AATTTTTAGA
Statistics
Matches: 147, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
39 146 0.99
40 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (39 bp):
TAAAATCTTCTGTTTCGAGTGAAACAATCTCAAGCGAGA
Found at i:468505 original size:36 final size:36
Alignment explanation
Indices: 468464--468558 Score: 154
Period size: 36 Copynumber: 2.6 Consensus size: 36
468454 GTTTCAAGGG
* * *
468464 AAAACTATCTCAAGCGAGACGAAGTTGGTTTTAAGA
1 AAAACTGTCTCAAGCGAGACAAAGCTGGTTTTAAGA
468500 AAAACTGTCTCAAGCGAGACAAAGCTGGTTTTAAGA
1 AAAACTGTCTCAAGCGAGACAAAGCTGGTTTTAAGA
*
468536 AAAACTGTCTCAAGAGAGACAAA
1 AAAACTGTCTCAAGCGAGACAAA
468559 ATTCATTTCA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (36 bp):
AAAACTGTCTCAAGCGAGACAAAGCTGGTTTTAAGA
Found at i:468699 original size:37 final size:37
Alignment explanation
Indices: 468650--468796 Score: 116
Period size: 37 Copynumber: 4.2 Consensus size: 37
468640 TCATATTCAA
*
468650 AAAATTTGGTTTCAAGAGAAATTATCTTAAGAGAGAC
1 AAAATTTTGTTTCAAGAGAAATTATCTTAAGAGAGAC
* *
468687 AAAATTTTGTTTCAAGAGAAA-CATATT--------C
1 AAAATTTTGTTTCAAGAGAAATTATCTTAAGAGAGAC
* *
468715 AAATATTTTGTTTCAAGAGAAACTGTCTTAAGAGAGAC
1 AAA-ATTTTGTTTCAAGAGAAATTATCTTAAGAGAGAC
** * * *
468753 AAAA-TTTGTTTTGAGTAGAAATTTTCTGAAGTGAGAC
1 AAAATTTTGTTTCAAG-AGAAATTATCTTAAGAGAGAC
468790 AAAATTT
1 AAAATTT
468797 GCTTTTAATG
Statistics
Matches: 86, Mismatches: 12, Indels: 23
0.71 0.10 0.19
Matches are distributed among these distances:
28 4 0.05
29 18 0.21
30 3 0.03
36 13 0.15
37 42 0.49
38 6 0.07
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (37 bp):
AAAATTTTGTTTCAAGAGAAATTATCTTAAGAGAGAC
Found at i:468713 original size:67 final size:65
Alignment explanation
Indices: 468525--468763 Score: 225
Period size: 66 Copynumber: 3.6 Consensus size: 65
468515 GAGACAAAGC
* * * * ** * * * *
468525 TGGTTTTAAGAAAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGG-GAA-ATGTTCTCAAAGT
1 TGGTTTCAAGAGAAATTGTCTTAAGAGAGACAAAATTTGTTTCAAGGCAAACATATTC-AAAAAT
468588 T
65 T
* * * * *
468589 TATGTTTTAAGAGAAATTGTCTCAAG-GAAGAAAAAATTTGTTTCAAGGCAATCATATTCAAAAA
1 T-GGTTTCAAGAGAAATTGTCTTAAGAG-AGACAAAATTTGTTTCAAGGCAAACATATTC-AAAA
468653 ATT
63 ATT
* *
468656 TGGTTTCAAGAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCAAGAG-AAACATATTCAAATA
1 TGGTTTCAAGAGAAATTGTCTTAAGAGAGACAAAA-TTTGTTTCAAG-GCAAACATATTCAAAAA
468720 TT
64 TT
* *
468722 TTGTTTCAAGAGAAACTGTCTTAAGAGAGACAAAATTTGTTT
1 TGGTTTCAAGAGAAATTGTCTTAAGAGAGACAAAATTTGTTT
468764 TGAGTAGAAA
Statistics
Matches: 146, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
64 2 0.01
65 45 0.31
66 66 0.45
67 32 0.22
68 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.33
Consensus pattern (65 bp):
TGGTTTCAAGAGAAATTGTCTTAAGAGAGACAAAATTTGTTTCAAGGCAAACATATTCAAAAATT
Found at i:468797 original size:37 final size:36
Alignment explanation
Indices: 468748--468836 Score: 101
Period size: 37 Copynumber: 2.4 Consensus size: 36
468738 TGTCTTAAGA
* * *
468748 GAGACAAAATTTGTTTTGA-GTAGAAATTTTCT-GAAGT
1 GAGACAAAATTTGTTTTAATG-A-AAATTATCTCCAA-T
468785 GAGACAAAATTTGCTTTTAATGAAAATTATCTCCAAT
1 GAGACAAAATTTG-TTTTAATGAAAATTATCTCCAAT
468822 GAGACAAAATTTGTT
1 GAGACAAAATTTGTT
468837 CTTTGGAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
36 2 0.04
37 35 0.76
38 8 0.17
39 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (36 bp):
GAGACAAAATTTGTTTTAATGAAAATTATCTCCAAT
Found at i:468853 original size:36 final size:36
Alignment explanation
Indices: 468784--468853 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 36
468774 TTTTCTGAAG
*
468784 TGAGACAAAATTTGCTTTTAATGAAAATTATCTCCAA
1 TGAGACAAAATTTGCTTTT-ATGAAAACTATCTCCAA
468821 TGAGACAAAATTTG-TTCTT-TGGAAAACTATCTC
1 TGAGACAAAATTTGCTT-TTAT-GAAAACTATCTC
468854 ATGTGAGGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
35 1 0.03
36 13 0.43
37 16 0.53
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (36 bp):
TGAGACAAAATTTGCTTTTATGAAAACTATCTCCAA
Found at i:469035 original size:36 final size:35
Alignment explanation
Indices: 468978--469071 Score: 91
Period size: 37 Copynumber: 2.5 Consensus size: 35
468968 AATAACTTTG
*
468978 AAATTTGTGTTTCGAAGGAAAATATCTCA-AGTCAGACA
1 AAATTTGT-TTT-GAA-GAAAATATATCACA-TCAGACA
* *
469016 AAATTTGTTTTGAGAGAAAAATGTATCACATGAGACA
1 AAATTTGTTTTGA-AG-AAAATATATCACATCAGACA
*
469053 AAATTTGTTTTTAAGAAAA
1 AAATTTGTTTTGAAGAAAA
469072 ACAACTTTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
35 4 0.08
36 5 0.10
37 31 0.63
38 9 0.18
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.32
Consensus pattern (35 bp):
AAATTTGTTTTGAAGAAAATATATCACATCAGACA
Found at i:469239 original size:102 final size:103
Alignment explanation
Indices: 468918--469276 Score: 467
Period size: 103 Copynumber: 3.5 Consensus size: 103
468908 CGAGACGATG
* * * * *
468918 TTTGTTTTGAGAG-AAATTGTCTCAAGTGAGACAAAATTTG-GTTCAA-ACAAAATAACTTTGAA
1 TTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTTAAGA-AAAACAACTTTGAA
* * *
468980 ATTTGTGTTTCGAAGGAAAATATCTCAAGTCAGACAAAA
65 ATTTGTGTTCCGAAGGAAAATGTCTCAAGTGAGACAAAA
* *
469019 TTTGTTTTGAGAGAAAAATGTATCACA-TGAGACAAAATTTGTTTTTAAGAAAAACAACTTTGAA
1 TTTGTTTTAAGAGAAAAATGTCTCA-AGTGAGACAAAATTTGTTTTTAAGAAAAACAACTTTGAA
* * *
469083 ATTTATGTTCCGAAGGAAAATGTATCAAGTAAGACAAAA
65 ATTTGTGTTCCGAAGGAAAATGTCTCAAGTGAGACAAAA
* ** * * *
469122 TTTATTTTAAGAGAAATGTGTCTCATGTGAGACAACATTTGTTTTTAAGAAAAACAACTTTG-AT
1 TTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTTAAGAAAAACAACTTTGAAA
*
469186 TTTGTGTTCCGAAGGAAAATGTCTCAAGTGAGACGAAA
66 TTTGTGTTCCGAAGGAAAATGTCTCAAGTGAGACAAAA
* *
469224 TTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAATTTTGTTTTTATGAAAA
1 TTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTTAAGAAAA
469277 CAATGTCTTT
Statistics
Matches: 224, Mismatches: 29, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
101 13 0.06
102 104 0.46
103 106 0.47
104 1 0.00
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.33
Consensus pattern (103 bp):
TTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTTGTTTTTAAGAAAAACAACTTTGAAA
TTTGTGTTCCGAAGGAAAATGTCTCAAGTGAGACAAAA
Found at i:481172 original size:24 final size:24
Alignment explanation
Indices: 481121--481180 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
481111 CCTCACCAGT
481121 AAGAAACGATATCATGTCTCCCTA
1 AAGAAACGATATCATGTCTCCCTA
* * *
481145 AAGAAGCGATATCATGTCTCCTTG
1 AAGAAACGATATCATGTCTCCCTA
*
481169 AAGAAATGATAT
1 AAGAAACGATAT
481181 GATTGATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (24 bp):
AAGAAACGATATCATGTCTCCCTA
Found at i:484745 original size:42 final size:41
Alignment explanation
Indices: 484674--484766 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 41
484664 TGTCAAAATG
* * * *
484674 GTATTAATACTGAAAGAAAGTATCGGTACCATAGTTTAGTA
1 GTATCAATACTGAAAGAAAGTATCGGTACCATAATATAGAA
*
484715 GTATCGATACT-AAGAGAAAGGTATCGGTACCATAATATAGAA
1 GTATCAATACTGAA-AGAAA-GTATCGGTACCATAATATAGAA
484757 GTATCAATAC
1 GTATCAATAC
484767 CATGGTAGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
40 2 0.05
41 14 0.32
42 28 0.64
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (41 bp):
GTATCAATACTGAAAGAAAGTATCGGTACCATAATATAGAA
Found at i:484760 original size:22 final size:22
Alignment explanation
Indices: 484691--484761 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
484681 TACTGAAAGA
* *
484691 AAGTATCGGTACCATAGTTTAG
1 AAGTATCGGTACCATAATATAG
* * * *
484713 TAGTATCGATA-C-TAAGAGA-
1 AAGTATCGGTACCATAATATAG
484732 AAGGTATCGGTACCATAATATAG
1 AA-GTATCGGTACCATAATATAG
484755 AAGTATC
1 AAGTATC
484762 AATACCATGG
Statistics
Matches: 35, Mismatches: 10, Indels: 8
0.66 0.19 0.15
Matches are distributed among these distances:
19 1 0.03
20 11 0.31
21 2 0.06
22 19 0.54
23 2 0.06
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (22 bp):
AAGTATCGGTACCATAATATAG
Found at i:485599 original size:20 final size:20
Alignment explanation
Indices: 485526--485599 Score: 64
Period size: 20 Copynumber: 3.5 Consensus size: 20
485516 ATATTATATA
485526 AAAATATTAAAAGAAAA-AAT
1 AAAATA-TAAAAGAAAATAAT
485546 AAAATA-AATGAAGAAAAT-AT
1 AAAATATAA--AAGAAAATAAT
*
485566 AAAATTCCAAAAAAGAAAATAAT
1 AAAA-T--ATAAAAGAAAATAAT
485589 AAAATATAAAA
1 AAAATATAAAA
485600 AAATGTTAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 16
0.73 0.02 0.26
Matches are distributed among these distances:
18 2 0.04
20 24 0.53
21 1 0.02
22 9 0.20
23 7 0.16
24 2 0.04
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (20 bp):
AAAATATAAAAGAAAATAAT
Found at i:485681 original size:23 final size:22
Alignment explanation
Indices: 485655--485707 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
485645 AAGAAGTGGG
485655 AAAATAAAGATAAAATAAAATAA
1 AAAATAAA-ATAAAATAAAATAA
*
485678 AAAA-AGGAAATATAATAAAATAA
1 AAAATA--AAATAAAATAAAATAA
*
485701 ATAATAA
1 AAAATAA
485708 TATTAGCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
22 2 0.08
23 20 0.80
24 3 0.12
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (22 bp):
AAAATAAAATAAAATAAAATAA
Found at i:485770 original size:18 final size:18
Alignment explanation
Indices: 485749--485791 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
485739 GTTGTTTTTA
*
485749 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
*
485767 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
485785 AAATAAA
1 AAATAAA
485792 TAATCTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:487377 original size:270 final size:270
Alignment explanation
Indices: 486990--487593 Score: 949
Period size: 270 Copynumber: 2.2 Consensus size: 270
486980 GAAGTTGAGT
*
486990 TGAAAAAT-CTTGAGCACGATATCCTTTGTCGTGAAGTTGAAACCGGGCTCAAAGCATTGGAAAA
1 TGAAAAATCCTT-AGCACGATATCATTTGTCGTGAAGTTGAAACCGGGCTCAAAGCATTGGAAAA
*
487054 TCACTCCTGGATCATCTTCTAGCCCAATATACTTCGTCGTGGAGTTAAAATTTGACCTGAAGACT
65 TCACTCCTGGATCATCTTCTAGCCCAATATACTTCGTCGTGAAGTTAAAATTTGACCTGAAGACT
* * *
487119 TTGGTATGAACCTGGTTTTTCATTGTTTTGTTACAGATGACTCCTTCTTCGTGAAGTTGGGTCAA
130 TTGGTATGAAACTGGTTTTTCATTGTTTTGTTACAGATGACTCATTCGTCGTGAAGTTGGGTCAA
* * * * *
487184 TCTTTTGGGTATGATATCCTTCGTTGTGAAGTCAAAATCGTAGGTGGCTCCTTCGTTGTAAAGTG
195 TCTTTTAGGTACGATATCCTTCGTTGTGAACTCAAAATCATAGGTGGCTCCTTAGTTGTAAAGTG
487249 GAGCTTTGAAC
260 GAGCTTTGAAC
* *
487260 TGAAAAATCCTTACCACGATATCATTTGTCGTGAAATTGAAACCGGGCTCAAAGCATTGGAAAAT
1 TGAAAAATCCTTAGCACGATATCATTTGTCGTGAAGTTGAAACCGGGCTCAAAGCATTGGAAAAT
* * ** *
487325 CGCTCTTGGATCATCTTCTAGCCCAATATACTTTTTCGTGAAGTTGAAATTTGACCTGAAGACTT
66 CACTCCTGGATCATCTTCTAGCCCAATATACTTCGTCGTGAAGTTAAAATTTGACCTGAAGACTT
*
487390 TGGTATGAAACTGGTTTTTCATTGTTTTGTTACAGATGACTCATTCGTCGTGAAGTTGGGTTAAT
131 TGGTATGAAACTGGTTTTTCATTGTTTTGTTACAGATGACTCATTCGTCGTGAAGTTGGGTCAAT
* ** *
487455 CTTTTAGGTACGATATCCTTCGTTGTGAACTCAAAATCATAGGTGGCTCCTTATTTGTTTAGTTG
196 CTTTTAGGTACGATATCCTTCGTTGTGAACTCAAAATCATAGGTGGCTCCTTAGTTGTAAAGTGG
487520 AGCTTTGAAC
261 AGCTTTGAAC
* * * * *
487530 TGAAAAATCCTGAGCACGATATCATTCGTTGTGAAGTTGAAACTGGGCTCAAAGCATTGAAAAA
1 TGAAAAATCCTTAGCACGATATCATTTGTCGTGAAGTTGAAACCGGGCTCAAAGCATTGGAAAA
487594 CCATGGGTTC
Statistics
Matches: 304, Mismatches: 29, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
270 301 0.99
271 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (270 bp):
TGAAAAATCCTTAGCACGATATCATTTGTCGTGAAGTTGAAACCGGGCTCAAAGCATTGGAAAAT
CACTCCTGGATCATCTTCTAGCCCAATATACTTCGTCGTGAAGTTAAAATTTGACCTGAAGACTT
TGGTATGAAACTGGTTTTTCATTGTTTTGTTACAGATGACTCATTCGTCGTGAAGTTGGGTCAAT
CTTTTAGGTACGATATCCTTCGTTGTGAACTCAAAATCATAGGTGGCTCCTTAGTTGTAAAGTGG
AGCTTTGAAC
Found at i:490474 original size:29 final size:29
Alignment explanation
Indices: 490421--490476 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
490411 AGAAATAATA
* *
490421 ATGATACAAGTAAAAAAATGATAAGTTGC
1 ATGATAAAAGTAAAAAAATCATAAGTTGC
* *
490450 ATGATAAAAGTAAAAACATCCTAAGTT
1 ATGATAAAAGTAAAAAAATCATAAGTT
490477 TTGAAATGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.25
Consensus pattern (29 bp):
ATGATAAAAGTAAAAAAATCATAAGTTGC
Found at i:491568 original size:16 final size:16
Alignment explanation
Indices: 491538--491567 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
491528 AAAAAGTGGG
491538 AAAATAAAGATAAAAC
1 AAAATAAAGATAAAAC
491554 AAAATAAA-ATAAAA
1 AAAATAAAGATAAAA
491568 AGGGAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAATAAAGATAAAAC
Found at i:491666 original size:18 final size:18
Alignment explanation
Indices: 491643--491681 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
491633 TTTTTAAAAA
*
491643 AAAAGATAAGAATTAAAT
1 AAAAGAAAAGAATTAAAT
*
491661 AAAAGAAAATAATTAAAT
1 AAAAGAAAAGAATTAAAT
491679 AAA
1 AAA
491682 TAATCTAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.21
Consensus pattern (18 bp):
AAAAGAAAAGAATTAAAT
Found at i:492551 original size:26 final size:25
Alignment explanation
Indices: 492502--492723 Score: 126
Period size: 26 Copynumber: 9.5 Consensus size: 25
492492 AAAACAAATC
* *
492502 CATAAATGAAATGCATGGATGGATG
1 CATAAATGAAATGCATGAAAGGATG
492527 TCATAAATGAAATGCATGAAAGGATG
1 -CATAAATGAAATGCATGAAAGGATG
* *
492553 CAT---T--AAGGCATGAAAGGATAC
1 CATAAATGAAATGCATGAAAGGAT-G
492574 CATAAATGAAATGCATGAAAGGATG
1 CATAAATGAAATGCATGAAAGGATG
*
492599 CAT---T--AA-GCCATTAAAGGATG
1 CATAAATGAAATG-CATGAAAGGATG
* *
492619 TCATAAATGAAAAGCATGAATGGATG
1 -CATAAATGAAATGCATGAAAGGATG
* * ** *
492645 CAT---T--AAGGCGTGAAATGATTC
1 CATAAATGAAATGCATGAAA-GGATG
492666 CATAAATGAAATGCATGAAAGGATG
1 CATAAATGAAATGCATGAAAGGATG
*
492691 CAT---T--AAGGCATGAAAGGATG
1 CATAAATGAAATGCATGAAAGGATG
492711 CCATAAATGAAAT
1 -CATAAATGAAAT
492724 TAACGAATAA
Statistics
Matches: 148, Mismatches: 22, Indels: 52
0.67 0.10 0.23
Matches are distributed among these distances:
19 1 0.01
20 50 0.34
21 14 0.09
22 4 0.03
24 4 0.03
25 14 0.09
26 60 0.41
27 1 0.01
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (25 bp):
CATAAATGAAATGCATGAAAGGATG
Found at i:492565 original size:20 final size:20
Alignment explanation
Indices: 492540--492711 Score: 92
Period size: 20 Copynumber: 7.7 Consensus size: 20
492530 TAAATGAAAT
492540 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
492560 GCATGAAAGGATACCATAAATGAAAT
1 GCATGAAAGGAT-GCAT---T--AAG
492586 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* * *
492606 CCATTAAAGGATGTCATAAATGAAAA
1 GCATGAAAGGATG-CAT---T--AAG
*
492632 GCATGAATGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* * * *
492652 GCGTGAAATGATTCCATAAATGAAAT
1 GCATGAAAGGA-TGCAT---T--AAG
492678 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
492698 GCATGAAAGGATGC
1 GCATGAAAGGATGC
492712 CATAAATGAA
Statistics
Matches: 114, Mismatches: 20, Indels: 36
0.67 0.12 0.21
Matches are distributed among these distances:
20 51 0.45
21 10 0.09
22 3 0.03
24 3 0.03
25 10 0.09
26 37 0.32
ACGTcount: A:0.42, C:0.11, G:0.25, T:0.22
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:492581 original size:46 final size:46
Alignment explanation
Indices: 492522--492723 Score: 314
Period size: 46 Copynumber: 4.4 Consensus size: 46
492512 ATGCATGGAT
*
492522 GGATGTCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAA
1 GGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAA
* * *
492568 GGATACCATAAATGAAATGCATGAAAGGATGCATTAAGCCATTAAA
1 GGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAA
* * * *
492614 GGATGTCATAAATGAAAAGCATGAATGGATGCATTAAGGCGTGAAA
1 GGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAA
* *
492660 TGATTCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAA
1 GGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAA
492706 GGATGCCATAAATGAAAT
1 GGATGCCATAAATGAAAT
492724 TAACGAATAA
Statistics
Matches: 137, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 137 1.00
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.22
Consensus pattern (46 bp):
GGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAA
Found at i:492987 original size:55 final size:55
Alignment explanation
Indices: 492879--492990 Score: 154
Period size: 55 Copynumber: 2.0 Consensus size: 55
492869 AATTAGTTCA
* *
492879 AAAACTAAGAAATTCATAATAAGTTTATGAAATTCCTTATGGGTAATATGTGTGC
1 AAAACTAAGAAATTCATAATAAATTTATGAAATTCCTTATGGGTAATAGGTGTGC
* * * *
492934 AAAACTAAGAAATTCATAATAAATTTATG-AATTTCTGTATTGGTAGTGGGTGTGC
1 AAAACTAAGAAATTCATAATAAATTTATGAAATTCCT-TATGGGTAATAGGTGTGC
492989 AA
1 AA
492991 CCCATGTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 6 0.12
55 44 0.88
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (55 bp):
AAAACTAAGAAATTCATAATAAATTTATGAAATTCCTTATGGGTAATAGGTGTGC
Found at i:493312 original size:81 final size:80
Alignment explanation
Indices: 493142--493327 Score: 246
Period size: 81 Copynumber: 2.3 Consensus size: 80
493132 ATGGCCTAGA
* * * *
493142 TGTATTTGACAGAAATGTGTCAATCGTGCTAGTTAGATGAAAGGTTAAATACTTTTGAGTAAAAG
1 TGTATTTGGCA-AAAAGTGTCAATCATGCTAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAG
**
493207 AATAAAAGCCTAATTG
65 AATAAAAGCCTAACGG
* *
493223 TGTCTTTGGCATAAAAGTGTCAATCATGCTAGTTAGATGAAAGGTTAAATACCTTTGGGTAAAAG
1 TGTATTTGGCA-AAAAGTGTCAATCATGCTAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAG
* *
493288 AATAAATGTCTAACGG
65 AATAAAAGCCTAACGG
*
493304 TGTATTTGGCAGAAAGATGTCAAT
1 TGTATTTGGCAAAAAG-TGTCAAT
493328 AATGAAAGTT
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 4 0.04
81 87 0.96
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.32
Consensus pattern (80 bp):
TGTATTTGGCAAAAAGTGTCAATCATGCTAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGA
ATAAAAGCCTAACGG
Found at i:493429 original size:2 final size:2
Alignment explanation
Indices: 493422--493464 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
493412 TAAATGAATG
493422 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
493464 T
1 T
493465 CAATTCATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:495818 original size:31 final size:31
Alignment explanation
Indices: 495735--495818 Score: 82
Period size: 32 Copynumber: 2.7 Consensus size: 31
495725 TAAGTCGAGC
* * * *
495735 CTTGGGTAAGCTCTGC-GGCCCCGATATTTTT
1 CTTGGGTAGGCTCT-CAGGCCCCGAGAATTGT
*
495766 CTTGGGCAAGGCTCT-ATGGCCCCGAGAATTGT
1 CTTGGG-TAGGCTCTCA-GGCCCCGAGAATTGT
495798 CTTGGGTAGGCTCTCAGGCCC
1 CTTGGGTAGGCTCTCAGGCCC
495819 TAAGGTACTC
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
31 18 0.42
32 25 0.58
ACGTcount: A:0.14, C:0.27, G:0.30, T:0.29
Consensus pattern (31 bp):
CTTGGGTAGGCTCTCAGGCCCCGAGAATTGT
Found at i:501471 original size:263 final size:262
Alignment explanation
Indices: 500789--502562 Score: 1671
Period size: 263 Copynumber: 6.7 Consensus size: 262
500779 GTTGTAATCA
* * * *
500789 GGAATCTTATTATTTGTAATAATAAAATGAGTTGCGCCTAAAATATTATCAGAGTTTAAGCTGAT
1 GGAATCTTACTATTTTTAATAATAAAATGAGTTGCGCCTAAAATATTATCAAAGTTTAAGATGAT
* ** * * * * * *
500854 AGAGTGTTCAAGTTTCCAACAATAAGAAAATAAGTTAAAAGATTAAAATATTATTAATATATACA
66 AGAGCGTTGGAGTTTCC-ACAGTAAGAAAATAAGTTAAAAGCTTAAAATGTTATGAATATGTATA
* *
500919 ATAGATATGGTTG-AGCCCAATAATATCATGGTTCAGTAAGAAATAGGTTGTGATTTGTAATGTT
130 ATAAATATGGTTGTA-CCCAATAATATCATGGTTCAATAAGAAATAGGTTGTGATTTGTAATGTT
* * * * *
500983 AATATCTTTATTAATAAAATAGGTTAC-ATACAAGCATCTCATGCTTCCCTAAGTA--A----G-
194 AATATTTTTATTAATAAAATAGGTTACGCT-CAAGAATCTCATGGTTCCCTAAGAAGCATGTTGC
501040 --TAT
258 AATAT
* * * * * *
501043 GGAATCTTACTATTTTTAATAATTAAATTAATTGCACCTTAAATATTATCAAAGTTTAA-ACTAA
1 GGAATCTTACTATTTTTAATAATAAAATGAGTTGCGCCTAAAATATTATCAAAGTTTAAGA-TGA
* * * *
501107 TAGAGCGTTTGTGTTTCCAC-GATAAGAAAATAAGTTGAAAGCTTAAAATGTTATGAATATGTAG
65 TAGAGCGTTGGAGTTTCCACAG-TAAGAAAATAAGTTAAAAGCTTAAAATGTTATGAATATGTAT
* *** * *
501171 AATAAATACGGTTGCGGCCAATAATATCATGGTTCAATAACAAATAGGTTGCT-ATTTGTAATGC
129 AATAAATATGGTTGTACCCAATAATATCATGGTTCAATAAGAAATAGGTTG-TGATTTGTAATGT
*
501235 TAATATTTTTATTAATAAAATAAGTTACGCTCAAGAATCTCATGGTTCCCTAAGAAGGCATGTTG
193 TAATATTTTTATTAATAAAATAGGTTACGCTCAAGAATCTCATGGTTCCCTAAGAA-GCATGTTG
501300 CAAT-T
257 CAATAT
* * * *
501305 GGAATCTTACTATTTTTAATAATAAAACGGGTTGCGTCC-AAAACATTATCAAAGTTTATGATGA
1 GGAATCTTACTATTTTTAATAATAAAATGAGTTGCG-CCTAAAATATTATCAAAGTTTAAGATGA
* *
501369 TGGAGCGTTGGAGTTTCTCACAGTAAGAAAATAAGTTAAAAGCTTAAAATGTTATCAATATGTAT
65 TAGAGCGTTGGAGTTTC-CACAGTAAGAAAATAAGTTAAAAGCTTAAAATGTTATGAATATGTAT
* * *** * *
501434 AATAACTAAGGTTGTACCCAATAATATCA-GTGTTCAATAAGAAATAGAAGGTGATTTATATTGT
129 AATAAATATGGTTGTACCCAATAATATCATG-GTTCAATAAGAAATAGGTTGTGATTTGTAATGT
** * * *
501498 TAATATTTTT-TTAATAAAATA-GTTGGTGCCCAACAATCTTATGGTTCCCTAAGAAAGTC-TGT
193 TAATATTTTTATTAATAAAATAGGTT-ACGCTCAAGAATCTCATGGTTCCCTAAG-AAG-CATGT
*
501560 TGCATTAT
255 TGCAATAT
* * * * *
501568 GAAATCTTACTATTTTTTATAATAAAATGGGTT-CGCCTAAAATATTATCAAAGTCTAAGCTGAT
1 GGAATCTTACTATTTTTAATAATAAAATGAGTTGCGCCTAAAATATTATCAAAGTTTAAGATGAT
* * * *
501632 AAAGCATTGGGGTTTTCCAC-GATAAGAAAATAAGATAAAAGCTTAAAATGTTATGAATATGTAT
66 AGAGCGTTGGAG-TTTCCACAG-TAAGAAAATAAGTTAAAAGCTTAAAATGTTATGAATATGTAT
* * * * * *
501696 AATAAATATGATT-TCCCCCCTATTATATCATGGTTCAACAAGAAATAGGTTTTGATTTGTAATG
129 AATAAATATGGTTGT--ACCCAATAATATCATGGTTCAATAAGAAATAGGTTGTGATTTGTAATG
* * * * * *
501760 TTAATATTTTTATTAATAAAGTAGGTGT--GCCCAAGAATCTAATGATTCGCTATGAAAGCATGT
192 TTAATATTTTTATTAATAAAATAGGT-TACGCTCAAGAATCTCATGGTTCCCTAAG-AAGCATGT
* *
501823 TGTAATCT
255 TGCAATAT
* **
501831 GGAATCTTAATCTTACTTTTTTAATAATAAAATG-GATTGCACCTAAAATATTATCAAAGTTTTG
1 GGAATCTT-A-C-TA--TTTTTAATAATAAAATGAG-TTGCGCCTAAAATATTATCAAAGTTTAA
* * * ** * *
501895 GTTG-TGTGAGTGTTTTAGTTTCC-CACGATAATAAAATAAGTTAAAAGCTTTAAATGTTATGAA
60 GATGAT-AGAGCGTTGGAGTTTCCACA-G-TAAGAAAATAAGTTAAAAGCTTAAAATGTTATGAA
* * * *
501958 TATGCATAATAAATAGGGTTGTACCTAATGATATCATGGTTCAATAAGAAATAGGTTGTGATATA
122 TATGTATAATAAATATGGTTGTACCCAATAATATCATGGTTCAATAAGAAATAGGTTGTGAT-T-
* * *
502023 TGT-A-GTTAATATTTTTATTAATAAAATAGGTTGCGCACAAGAATCTCATGCTTCCCTAAGAAA
185 TGTAATGTTAATATTTTTATTAATAAAATAGGTTACGCTCAAGAATCTCATGGTTCCCTAAG-AA
* *
502086 GTATGATGCAATAT
249 GCATGTTGCAATAT
* *
502100 AGAATCTTACTATTTTTAATAATAAAATTTA-TTGCGCCTAAAATATTATCAAAGTTTAAGCTAA
1 GGAATCTTACTATTTTTAATAATAAAA-TGAGTTGCGCCTAAAATATTATCAAAGTTTAAG---A
* * * * *
502164 TGGATCGTATGGAGAGTTTGAGTTTCCCACAATAA-AAAATAAGATAAAAGCTTAAAATATTATG
62 T-GA---TA--GAGCGTTGGAGTTT-CCACAGTAAGAAAATAAGTTAAAAGCTTAAAATGTTATG
* * ** * *
502228 AATATATATAGTAAATACAGTT-T-CGGCCAATAATATCAT-TTTCAATAAGAAATAAGTTGTGA
120 AATATGTATAATAAATATGGTTGTAC--CCAATAATATCATGGTTCAATAAGAAATAGGTTGTGA
* * * *
502290 TTTGTAATGTTAATATGTTTGTTAATAAAATAGGTTACACTCAAGAATCTCTTGGTTCCCTAAGA
183 TTTGTAATGTTAATATTTTTATTAATAAAATAGGTTACGCTCAAGAATCTCATGGTTCCCTAAGA
*
502355 AGCATGTTGTAATAT
248 AGCATGTTGCAATAT
* * * * *
502370 GGAATCTTACTATTTTTAATAATAAAATGAGTTGCG-TTCAGAATATTCTCAAAGGTTAAGGTGA
1 GGAATCTTACTATTTTTAATAATAAAATGAGTTGCGCCT-AAAATATTATCAAAGTTTAAGATGA
*** * * *
502434 T-GATAATTGGAATTT-CACATTATAAGAAAATAAGTTAAAATCTTAAAATGTTATGAATATGTA
65 TAGAGCGTTGGAGTTTCCACA--GTAAGAAAATAAGTTAAAAGCTTAAAATGTTATGAATATGTA
** * * *
502497 TAATAAATATGGTTGCGCCCAATAATATCATGGTTCAATAAGAAATATGTTATGATTTATAATGT
128 TAATAAATATGGTTGTACCCAATAATATCATGGTTCAATAAGAAATAGGTTGTGATTTGTAATGT
502562 T
193 T
502563 GGAGTTTCCC
Statistics
Matches: 1250, Mismatches: 194, Indels: 144
0.79 0.12 0.09
Matches are distributed among these distances:
253 140 0.11
254 69 0.06
256 1 0.00
258 4 0.00
260 15 0.01
261 64 0.05
262 225 0.18
263 231 0.18
264 54 0.04
265 4 0.00
266 7 0.01
267 6 0.00
268 86 0.07
269 129 0.10
270 69 0.06
271 72 0.06
272 55 0.04
273 15 0.01
274 2 0.00
275 2 0.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (262 bp):
GGAATCTTACTATTTTTAATAATAAAATGAGTTGCGCCTAAAATATTATCAAAGTTTAAGATGAT
AGAGCGTTGGAGTTTCCACAGTAAGAAAATAAGTTAAAAGCTTAAAATGTTATGAATATGTATAA
TAAATATGGTTGTACCCAATAATATCATGGTTCAATAAGAAATAGGTTGTGATTTGTAATGTTAA
TATTTTTATTAATAAAATAGGTTACGCTCAAGAATCTCATGGTTCCCTAAGAAGCATGTTGCAAT
AT
Found at i:502043 original size:794 final size:796
Alignment explanation
Indices: 501045--502562 Score: 1868
Period size: 794 Copynumber: 1.9 Consensus size: 796
501035 GTAAGTATGG
* * *
501045 AATCTTACTATTTTTAATAATTAAATTAATTGCACCTTAAATATTATCAAAGTTTAAACTAATAG
1 AATCTTACTATTTTTAATAATAAAATGAATTGCACCTAAAATATTATCAAAGTTTAAACTAATAG
* *
501110 AGCGTTTGTGTTTCCACGATAAGAAAATAAGTTGAAAGCTTAAAATGTTATGAATATGTAGAATA
66 AGCGTTTGTGTTTCCACGATAAGAAAATAAGTTAAAAGCTTAAAATGTTATGAATATGCAGAATA
*
501175 AATACGGTTGCGGCCAATAATATCATGGTTCAATAACAAATAGGTTGCTATTTGTAATGCTAATA
131 AATACGGTTGCGACCAATAATATCATGGTTCAATAACAAATAGGTTGCTATTTGTAATGCTAATA
* * * *
501240 TTTTTATTAATAAAATAAGTTACGCTCAAGAATCTCATGGTTCCCTAAGAAGGCATGTTGCAAT-
196 TTTTTATTAATAAAATAAGTTACGCACAAGAATCTCATGCTTCCCTAAGAAAGCATGATGCAATA
* *
501304 TGGAATCTTACTATTTTTAATAATAAAACGGGTTGCGTCC-AAAACATTATCAAAG-TT-T-AT-
261 TAGAATCTTACTATTTTTAATAATAAAACGGATTGCG-CCTAAAACATTATCAAAGTTTATAATG
* * * * *
501364 GAT-G-ATGGAGCGTTGGAGTTTCTCACAGTAAGAAAATAAGTTAAAAGCTTAAAATGTTATCAA
325 GATCGTATGGAGAGTTGGAGTTTCCCACAATAA-AAAATAAGATAAAAGCTTAAAATATTATCAA
* *
501427 TATGTATAATAACTA-AGGTTGTAC-CCAATAATATCAGTGTTCAATAAGAAATAGAAG-GTGAT
389 TATATATAATAAATACA-GTT-T-CGCCAATAATATCA-TGTTCAATAAGAAAT--AAGTGTGAT
* * *
501489 TTATATTGTTAATAT-TTTTTTAATAAAATAGTTGGTGC-C-CAACAATCT-TATGGTTCCCTAA
448 TTATAATGTTAATATGTTTGTTAATAAAATAG--GGTACACTCAACAATCTCT-TGGTTCCCTAA
* * *
501550 GAAAGTC-TGTTGCATTATGAAATCTTACTATTTTTTATAATAAAATGGGTT-CGC-CTAAAATA
510 G-AAG-CATGTTGCAATATGAAATCTTACTATTTTTAATAATAAAATGAGTTGCGCTC-AAAATA
**
501612 TTATCAAA-GTCTAAGCTGAT-AAAGCATTGGGGTTTTC-CACGATAAGAAAATAAGATAAAAGC
572 TTATCAAAGGT-TAAGCTGATGAAA--ATT-GGAATTTCACACGATAAGAAAATAAGATAAAAGC
* * *
501674 TTAAAATGTTATGAATATGTATAATAAATATGATTTCCCCCCTATTATATCATGGTTCAACAAGA
633 TTAAAATGTTATGAATATGTATAATAAATATG-GTTCCCCCCAATAATATCATGGTTCAACAAGA
* *
501739 AATAGGTTTTGATTTGTAATGTTAATATTTTTATTAATAAAGTAGGTGTGCCCAAGAATCTAATG
697 AATAGGTTATGATTTATAATGTTAATATTTTTATTAATAAAGTAGGTGTGCCCAAGAATCTAATG
501804 ATTCGCTATGAAAGCATGTTGTAATCTGGAATCTT
762 ATTCGCTATGAAAGCATGTTGTAATCTGGAATCTT
* *** ** *
501839 AATCTTACT-TTTTTAATAATAAAATGGATTGCACCTAAAATATTATCAAAGTTT-TGGTTGTGT
1 AATCTTACTATTTTTAATAATAAAATGAATTGCACCTAAAATATTATCAAAGTTTAAACTAAT-A
* * * *
501902 GAGTGTTT-TAGTTTCCCACGATAATAAAATAAGTTAAAAGCTTTAAATGTTATGAATATGCATA
65 GAGCGTTTGT-GTTT-CCACGATAAGAAAATAAGTTAAAAGCTTAAAATGTTATGAATATGCAGA
* * * *
501966 ATAAATAGGGTTG-TACCTAATGATATCATGGTTCAATAAGAAATAGGTTG-TGATATATGT-A-
128 ATAAATACGGTTGCGACC-AATAATATCATGGTTCAATAACAAATAGGTTGCT-AT-T-TGTAAT
* * * *
502027 GTTAATATTTTTATTAATAAAATAGGTTGCGCACAAGAATCTCATGCTTCCCTAAGAAAGTATGA
189 GCTAATATTTTTATTAATAAAATAAGTTACGCACAAGAATCTCATGCTTCCCTAAGAAAGCATGA
*** *
502092 TGCAATATAGAATCTTACTATTTTTAATAATAAAATTTATTGCGCCTAAAATATTATCAAAGTTT
254 TGCAATATAGAATCTTACTATTTTTAATAATAAAACGGATTGCGCCTAAAACATTATCAAAGTTT
*
502157 AAGCTAATGGATCGTATGGAGAGTTTGAGTTTCCCACAATAAAAAATAAGATAAAAGCTTAAAAT
319 -A--TAATGGATCGTATGGAGAGTTGGAGTTTCCCACAATAAAAAATAAGATAAAAGCTTAAAAT
* * *
502222 ATTATGAATATATATAGTAAATACAGTTTCGGCCAATAATATCATTTTCAATAAGAAATAAGTTG
381 ATTATCAATATATATAATAAATACAGTTTC-GCCAATAATATCATGTTCAATAAGAAATAAG-TG
* * *
502287 TGATTTGTAATGTTAATATGTTTGTTAATAAAATAGGTTACACTCAAGAATCTCTTGGTTCCCTA
444 TGATTTATAATGTTAATATGTTTGTTAATAAAATAGGGTACACTCAACAATCTCTTGGTTCCCTA
* * * *
502352 AGAAGCATGTTGTAATATGGAATCTTACTATTTTTAATAATAAAATGAGTTGCGTTCAGAATATT
509 AGAAGCATGTTGCAATATGAAATCTTACTATTTTTAATAATAAAATGAGTTGCGCTCAAAATATT
* * * ** * *
502417 CTCAAAGGTTAAGGTGATGATAATTGGAATTTCACATTATAAGAAAATAAGTTAAAATCTTAAAA
574 ATCAAAGGTTAAGCTGATGAAAATTGGAATTTCACACGATAAGAAAATAAGATAAAAGCTTAAAA
* * * *
502482 TGTTATGAATATGTATAATAAATATGGTTGCGCCCAATAATATCATGGTTCAATAAGAAATATGT
639 TGTTATGAATATGTATAATAAATATGGTTCCCCCCAATAATATCATGGTTCAACAAGAAATAGGT
502547 TATGATTTATAATGTT
704 TATGATTTATAATGTT
502563 GGAGTTTCCC
Statistics
Matches: 614, Mismatches: 77, Indels: 59
0.82 0.10 0.08
Matches are distributed among these distances:
792 3 0.00
793 55 0.09
794 162 0.26
795 48 0.08
796 5 0.01
800 4 0.01
801 59 0.10
802 135 0.22
803 113 0.18
804 30 0.05
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (796 bp):
AATCTTACTATTTTTAATAATAAAATGAATTGCACCTAAAATATTATCAAAGTTTAAACTAATAG
AGCGTTTGTGTTTCCACGATAAGAAAATAAGTTAAAAGCTTAAAATGTTATGAATATGCAGAATA
AATACGGTTGCGACCAATAATATCATGGTTCAATAACAAATAGGTTGCTATTTGTAATGCTAATA
TTTTTATTAATAAAATAAGTTACGCACAAGAATCTCATGCTTCCCTAAGAAAGCATGATGCAATA
TAGAATCTTACTATTTTTAATAATAAAACGGATTGCGCCTAAAACATTATCAAAGTTTATAATGG
ATCGTATGGAGAGTTGGAGTTTCCCACAATAAAAAATAAGATAAAAGCTTAAAATATTATCAATA
TATATAATAAATACAGTTTCGCCAATAATATCATGTTCAATAAGAAATAAGTGTGATTTATAATG
TTAATATGTTTGTTAATAAAATAGGGTACACTCAACAATCTCTTGGTTCCCTAAGAAGCATGTTG
CAATATGAAATCTTACTATTTTTAATAATAAAATGAGTTGCGCTCAAAATATTATCAAAGGTTAA
GCTGATGAAAATTGGAATTTCACACGATAAGAAAATAAGATAAAAGCTTAAAATGTTATGAATAT
GTATAATAAATATGGTTCCCCCCAATAATATCATGGTTCAACAAGAAATAGGTTATGATTTATAA
TGTTAATATTTTTATTAATAAAGTAGGTGTGCCCAAGAATCTAATGATTCGCTATGAAAGCATGT
TGTAATCTGGAATCTT
Found at i:503489 original size:19 final size:19
Alignment explanation
Indices: 503465--503501 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
503455 ATGACCAACA
*
503465 AAATCGCAATGTGATCTCT
1 AAATCGCAACGTGATCTCT
503484 AAATCGCAACGTGATCTC
1 AAATCGCAACGTGATCTC
503502 CATTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (19 bp):
AAATCGCAACGTGATCTCT
Found at i:503592 original size:21 final size:20
Alignment explanation
Indices: 503545--503598 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
503535 GATTTTGACC
* *
503545 ATCGCATTGTGATTTTCGAA
1 ATCGCATTGCGATTTTAGAA
503565 ATCCGCATTGCGATTTTAGATA
1 AT-CGCATTGCGATTTTAGA-A
*
503587 ATCGCAATGCGA
1 ATCGCATTGCGA
503599 ATATGTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.07
21 24 0.83
22 3 0.10
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATTTTAGAA
Found at i:503611 original size:20 final size:20
Alignment explanation
Indices: 503586--503638 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
503576 GATTTTAGAT
503586 AATCGCAATGCGAATATGTA
1 AATCGCAATGCGAATATGTA
503606 AATCGCAATGCGAATATGTA
1 AATCGCAATGCGAATATGTA
*
503626 AATCGCAACGCGA
1 AATCGCAATGCGA
503639 TTCTGACTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.21
Consensus pattern (20 bp):
AATCGCAATGCGAATATGTA
Found at i:503650 original size:20 final size:20
Alignment explanation
Indices: 503627--503732 Score: 135
Period size: 20 Copynumber: 5.2 Consensus size: 20
503617 GAATATGTAA
503627 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
503647 ATCGCAACGCGATT-TGGACT
1 ATCGCAACGCGATTCT-GACT
**
503667 ATCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
503687 GATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
* *
503708 ATCACAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
503728 ATCGC
1 ATCGC
503733 GTTACGATTT
Statistics
Matches: 75, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
19 3 0.04
20 54 0.72
21 16 0.21
22 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:503953 original size:22 final size:22
Alignment explanation
Indices: 503881--503950 Score: 104
Period size: 22 Copynumber: 3.2 Consensus size: 22
503871 CTACGGTGAC
*
503881 ATCCATCCCCATCTCTGACGAA
1 ATCCATCCCCATCTCTGGCGAA
*
503903 ATCCATCCCCATTTCTGGCGAA
1 ATCCATCCCCATCTCTGGCGAA
* *
503925 ATCCGTCCCTATCTCTGGCGAA
1 ATCCATCCCCATCTCTGGCGAA
503947 ATCC
1 ATCC
503951 GTCTATCTCC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.23, C:0.39, G:0.13, T:0.26
Consensus pattern (22 bp):
ATCCATCCCCATCTCTGGCGAA
Found at i:503958 original size:20 final size:21
Alignment explanation
Indices: 503891--503959 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 21
503881 ATCCATCCCC
* * *
503891 ATCTCTGACGAAATCCATCCCC
1 ATCTCTGGCGAAATCCGT-CCT
*
503913 ATTTCTGGCGAAATCCGTCCCT
1 ATCTCTGGCGAAATCCGT-CCT
503935 ATCTCTGGCGAAATCCGT-CT
1 ATCTCTGGCGAAATCCGTCCT
503955 ATCTC
1 ATCTC
503960 CATCTCTAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
20 7 0.17
22 35 0.83
ACGTcount: A:0.22, C:0.35, G:0.14, T:0.29
Consensus pattern (21 bp):
ATCTCTGGCGAAATCCGTCCT
Found at i:504396 original size:20 final size:20
Alignment explanation
Indices: 504348--504398 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
504338 TCAAATTCAC
**
504348 GTTGCGATAATCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
504368 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
504388 GTTGCGATTTT
1 GTTGCGATTTT
504399 AAGTTTCAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.14, C:0.14, G:0.22, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:504405 original size:20 final size:20
Alignment explanation
Indices: 504362--504405 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
504352 CGATAATCAT
* *
504362 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
504382 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
504402 TTTC
1 TTTC
504406 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:506424 original size:20 final size:20
Alignment explanation
Indices: 506399--506560 Score: 135
Period size: 20 Copynumber: 8.4 Consensus size: 20
506389 AGAAGAATAG
* *
506399 TCGCAACACGAAAATGATTA
1 TCGCAACGCGAAAATGACTA
* **
506419 TCGCAACACGAATTTGACTA
1 TCGCAACGCGAAAATGACTA
*
506439 TCGCAACGC-AAATTTGACTA
1 TCGCAACGCGAAA-ATGACTA
*
506459 TCGCAACGC-AAATTTGACTA
1 TCGCAACGCGAAA-ATGACTA
506479 TCGCAACAG-G---AT-A--A
1 TCGCAAC-GCGAAAATGACTA
* *
506493 TCGCAATGCGAAAACGACTA
1 TCGCAACGCGAAAATGACTA
*
506513 TCGCAACGCGGAAATGACTA
1 TCGCAACGCGAAAATGACTA
*
506533 TCGCAATGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
506553 TCGCAACG
1 TCGCAACG
506561 TGAATTTAGT
Statistics
Matches: 118, Mismatches: 14, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
13 1 0.01
14 8 0.07
16 1 0.01
17 2 0.02
18 1 0.01
19 2 0.02
20 102 0.86
21 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.20
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:506591 original size:19 final size:19
Alignment explanation
Indices: 506569--506605 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
506559 CGTGAATTTA
506569 GTTTCGCGTTGCGATTTTG
1 GTTTCGCGTTGCGATTTTG
*
506588 GTTTCGCGTTGTGATTTT
1 GTTTCGCGTTGCGATTTT
506606 CTCGTTGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.05, C:0.14, G:0.30, T:0.51
Consensus pattern (19 bp):
GTTTCGCGTTGCGATTTTG
Found at i:506626 original size:33 final size:34
Alignment explanation
Indices: 506589--506669 Score: 110
Period size: 33 Copynumber: 2.4 Consensus size: 34
506579 GCGATTTTGG
* * *
506589 TTTCGCGTTGTGATTTTCTCGTTGCGATAGTC-A
1 TTTCGCGTTGCGATTATCTCGTTGCGATACTCAA
*
506622 TTTCGCATTGCGATTATCTCGTTGCGATACTCAA
1 TTTCGCGTTGCGATTATCTCGTTGCGATACTCAA
*
506656 ATTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
506670 AATCATTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
33 28 0.68
34 13 0.32
ACGTcount: A:0.16, C:0.21, G:0.22, T:0.41
Consensus pattern (34 bp):
TTTCGCGTTGCGATTATCTCGTTGCGATACTCAA
Found at i:507271 original size:21 final size:21
Alignment explanation
Indices: 507176--507283 Score: 94
Period size: 21 Copynumber: 5.1 Consensus size: 21
507166 GTCCGACTCA
507176 CCTGTCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* *
507197 TCT-CCTATCGTTCAAGAGGCC
1 CCTGTC-ATCGTTCAAGAGGCC
* * *
507218 CCTATCATCCCTT-AAGAGTCC
1 CCTGTCAT-CGTTCAAGAGGCC
** *
507239 CCTCCCACCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* *
507260 CCTGTCATCGTTGAAGAGGTC
1 CCTGTCATCGTTCAAGAGGCC
507281 CCT
1 CCT
507284 CCCAATATTC
Statistics
Matches: 67, Mismatches: 16, Indels: 8
0.74 0.18 0.09
Matches are distributed among these distances:
20 4 0.06
21 59 0.88
22 4 0.06
ACGTcount: A:0.19, C:0.36, G:0.19, T:0.25
Consensus pattern (21 bp):
CCTGTCATCGTTCAAGAGGCC
Found at i:507277 original size:42 final size:41
Alignment explanation
Indices: 507176--507287 Score: 127
Period size: 42 Copynumber: 2.7 Consensus size: 41
507166 GTCCGACTCA
* * * *
507176 CCTGTCATCGTTCAAGAGGCCTCTCCTATCGTTCAAGAGGCC
1 CCTGTCATCGTT-AAGAGTCCCCTCCCACCGTTCAAGAGGCC
* *
507218 CCTATCATCCCTTAAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTGTCAT-CGTTAAGAGTCCCCTCCCACCGTTCAAGAGGCC
507260 CCTGTCATCGTTGAAGAGGT-CCCTCCCA
1 CCTGTCATCGTT-AAGA-GTCCCCTCCCA
507288 ATATTCTAGA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 3 0.05
42 51 0.86
43 5 0.08
ACGTcount: A:0.20, C:0.38, G:0.19, T:0.24
Consensus pattern (41 bp):
CCTGTCATCGTTAAGAGTCCCCTCCCACCGTTCAAGAGGCC
Found at i:508623 original size:31 final size:30
Alignment explanation
Indices: 508588--508653 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
508578 AAAATAATAT
* *
508588 AATAAGAGTTGATTTGTTTAATTGATGTGTA
1 AATAAGACTT-ATTTGGTTAATTGATGTGTA
**
508619 AATAATTCTTATTTGGTTAATTGATGTGTA
1 AATAAGACTTATTTGGTTAATTGATGTGTA
508649 AATAA
1 AATAA
508654 TTATTATTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 24 0.77
31 7 0.23
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.45
Consensus pattern (30 bp):
AATAAGACTTATTTGGTTAATTGATGTGTA
Found at i:508633 original size:30 final size:30
Alignment explanation
Indices: 508599--508664 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
508589 ATAAGAGTTG
*
508599 ATTTGTTTAATTGATGTGTAAATAATTCTT
1 ATTTGTTTAATTGATGTGTAAATAATTATT
*
508629 ATTTGGTTAATTGATGTGTAAATAATTATT
1 ATTTGTTTAATTGATGTGTAAATAATTATT
508659 ATTTGT
1 ATTTGT
508665 GCTTGTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.30, C:0.02, G:0.15, T:0.53
Consensus pattern (30 bp):
ATTTGTTTAATTGATGTGTAAATAATTATT
Found at i:508751 original size:54 final size:54
Alignment explanation
Indices: 508637--508751 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
508627 TTATTTGGTT
* *
508637 AATTGATGTGTAAATAATTATTATTTGTGCTTGTTTAATTGATTAAAAGTTGAT
1 AATTGATGTATAAATAATTATTATTTGTGCTTGTTTAATTGATTAAAAGTTGAA
* * * *
508691 TATTGATGTATAAATAATTCTTATTTGTGCTTGTTTAATTGATTGAAA-TTTAA
1 AATTGATGTATAAATAATTATTATTTGTGCTTGTTTAATTGATTAAAAGTTGAA
508744 AAGTTGAT
1 AA-TTGAT
508752 TTTTTGATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
53 4 0.08
54 49 0.92
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.49
Consensus pattern (54 bp):
AATTGATGTATAAATAATTATTATTTGTGCTTGTTTAATTGATTAAAAGTTGAA
Found at i:508843 original size:20 final size:20
Alignment explanation
Indices: 508814--509051 Score: 136
Period size: 20 Copynumber: 12.8 Consensus size: 20
508804 GCGATTTTCT
508814 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCC
* * *
508834 CGTTGAGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCC
* *
508854 CGTTGCGATAGTC-ATTTCG
1 CGTTGCGATAGTCAAATTCC
*
508873 CGTTGCGAT--T---A-TCT
1 CGTTGCGATAGTCAAATTCC
* **
508887 CGTTACGATAGTCAAATTTG
1 CGTTGCGATAGTCAAATTCC
** *
508907 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCC
*
508927 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCC
*
508941 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCC
* ** *
508961 CGTTGCAATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCC
*
508981 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCC
* *
508995 CGTTGCGATATTCAAATTCA
1 CGTTGCGATAGTCAAATTCC
* *
509015 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCC
509035 CGTTGCGATAGTCAAAT
1 CGTTGCGATAGTCAAAT
509052 GAATGTGTAA
Statistics
Matches: 167, Mismatches: 33, Indels: 36
0.71 0.14 0.15
Matches are distributed among these distances:
14 30 0.18
16 3 0.02
17 1 0.01
18 2 0.01
19 17 0.10
20 114 0.68
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCC
Found at i:508911 original size:73 final size:74
Alignment explanation
Indices: 508770--508935 Score: 208
Period size: 73 Copynumber: 2.3 Consensus size: 74
508760 TTCAATCTAC
* * *
508770 ATCATATTCGCGTTGCGATAGTCTAATACACTTTGCGATTTTCTCGTTGCGATAGTCAAATTCCC
1 ATCATATTCGCGTTGCGATAGTCTAATACACGTTGCGATTATCTCGTTACGATAGTCAAATTCCC
508835 GTTGAGATA
66 GTTGAGATA
* * * * **
508844 ATCAAATTCGCGTTGCGATAGTC-ATTTCGCGTTGCGATTATCTCGTTACGATAGTCAAATTTGC
1 ATCATATTCGCGTTGCGATAGTCTAATACACGTTGCGATTATCTCGTTACGATAGTCAAATTCCC
*
508908 GTTGCGATA
66 GTTGAGATA
* * *
508917 GTCATTTTCGCATTGCGAT
1 ATCATATTCGCGTTGCGAT
508936 TATCCCGTTG
Statistics
Matches: 78, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
73 56 0.72
74 22 0.28
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (74 bp):
ATCATATTCGCGTTGCGATAGTCTAATACACGTTGCGATTATCTCGTTACGATAGTCAAATTCCC
GTTGAGATA
Found at i:508950 original size:54 final size:54
Alignment explanation
Indices: 508831--509043 Score: 320
Period size: 54 Copynumber: 4.0 Consensus size: 54
508821 ATAGTCAAAT
* * *
508831 TCCCGTTGAGATAATCAAATTCGCGTTGCGATAGTCA-TTTCGCGTTGCGATTA
1 TCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTA
* * *
508884 TCTCGTTACGATAGTCAAATTTGCGTTGCGATAGTCATTTTCGCATTGCGATTA
1 TCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTA
*
508938 TCCCGTTGCGATAGTCAAATTCGCGTTGCAATAGTCATTTTCGCATTGCGATTA
1 TCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTA
* * * *
508992 TCCCGTTGCGATATTCAAATTCACGTTGCGATAGTCATATTCGCGTTGCGAT
1 TCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGAT
509044 AGTCAAATGA
Statistics
Matches: 144, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
53 32 0.22
54 112 0.78
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (54 bp):
TCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTA
Found at i:512399 original size:20 final size:20
Alignment explanation
Indices: 512371--512538 Score: 169
Period size: 20 Copynumber: 8.3 Consensus size: 20
512361 AATTCAGTGA
*
512371 TGCGTTAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
512391 TGCGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
** *
512411 TGCGATCACGT-ATTATCGCAT
1 TGCGAT-A-GTCAGAATCGCGT
*
512432 TGCGATAGTCAGAATCTCGT
1 TGCGATAGTCAGAATCGCGT
*
512452 TGAGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
** *
512472 TGCGATCACGT-ATTATCACGT
1 TGCGAT-A-GTCAGAATCGCGT
* *
512493 TGCGATAGTCCGAATCGTGT
1 TGCGATAGTCAGAATCGCGT
* *
512513 TGCGATAGTCAGAGTCACGT
1 TGCGATAGTCAGAATCGCGT
512533 TGCGAT
1 TGCGAT
512539 CACGTGTTAT
Statistics
Matches: 119, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.03
20 83 0.70
21 28 0.24
22 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (20 bp):
TGCGATAGTCAGAATCGCGT
Found at i:512429 original size:41 final size:40
Alignment explanation
Indices: 512371--512538 Score: 178
Period size: 41 Copynumber: 4.2 Consensus size: 40
512361 AATTCAGTGA
* *
512371 TGCGTTAGTCAGAATCGCGTTGCGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGTTGCGATAGTCAGAATCACGT
** * *
512411 TGCGATCACGT-ATTATCGCATTGCGATAGTCAGAATCTCGT
1 TGCGAT-A-GTCAGAATCGCGTTGCGATAGTCAGAATCACGT
* **
512452 TGAGATAGTCAGAATCGCGTTGCGATCACGT-ATTATCACGT
1 TGCGATAGTCAGAATCGCGTTGCGAT-A-GTCAGAATCACGT
* * *
512493 TGCGATAGTCCGAATCGTGTTGCGATAGTCAGAGTCACGT
1 TGCGATAGTCAGAATCGCGTTGCGATAGTCAGAATCACGT
512533 TGCGAT
1 TGCGAT
512539 CACGTGTTAT
Statistics
Matches: 104, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
39 4 0.04
40 33 0.32
41 63 0.61
42 4 0.04
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
TGCGATAGTCAGAATCGCGTTGCGATAGTCAGAATCACGT
Found at i:512442 original size:61 final size:61
Alignment explanation
Indices: 512371--512559 Score: 288
Period size: 61 Copynumber: 3.1 Consensus size: 61
512361 AATTCAGTGA
* *
512371 TGCGTTAGTCAGAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCAT
1 TGCGATAGTCAGAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGT
* * *
512432 TGCGATAGTCAGAATCTCGTTGAGATAGTCAGAATCGCGTTGCGATCACGTATTATCACGT
1 TGCGATAGTCAGAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGT
* * * * *
512493 TGCGATAGTCCGAATCGTGTTGCGATAGTCAGAGTCACGTTGCGATCACGTGTTATCGCGT
1 TGCGATAGTCAGAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGT
512554 TGCGAT
1 TGCGAT
512560 TTACATATTC
Statistics
Matches: 115, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 115 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (61 bp):
TGCGATAGTCAGAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGT
Found at i:512576 original size:20 final size:20
Alignment explanation
Indices: 512548--512600 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
512538 TCACGTGTTA
*
512548 TCGCGTTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
512568 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
**
512588 TCGTTTTGCGATT
1 TCGCATTGCGATT
512601 ATCTAAATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:515363 original size:20 final size:20
Alignment explanation
Indices: 515338--515375 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
515328 ACATTTACAA
515338 TGGGTTAATGGCTCTCTATT
1 TGGGTTAATGGCTCTCTATT
515358 TGGGTTAATGGCTCTCTA
1 TGGGTTAATGGCTCTCTA
515376 ACTCAAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.16, C:0.16, G:0.26, T:0.42
Consensus pattern (20 bp):
TGGGTTAATGGCTCTCTATT
Found at i:520024 original size:2 final size:2
Alignment explanation
Indices: 520019--520053 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
520009 ACACACAAGC
*
520019 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
520054 GATTTTCAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:551641 original size:22 final size:21
Alignment explanation
Indices: 551595--551642 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
551585 TTGCTACTAT
* *
551595 TTTTGGAAAGTTATTTGTTGT
1 TTTTGGAAACTTATTTGTTGC
551616 TTTTGG-AACTTATTTAGGTTGC
1 TTTTGGAAACTTATTT--GTTGC
551638 TTTTG
1 TTTTG
551643 ATCAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 8 0.35
21 6 0.26
22 9 0.39
ACGTcount: A:0.17, C:0.04, G:0.23, T:0.56
Consensus pattern (21 bp):
TTTTGGAAACTTATTTGTTGC
Found at i:552449 original size:43 final size:43
Alignment explanation
Indices: 552386--552467 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
552376 TTGTAATTGT
*
552386 AAGAGATACAAGGTTAGGTTGGTATGTTGAGCTTTGCTCTGAG
1 AAGAGATACAAGGTAAGGTTGGTATGTTGAGCTTTGCTCTGAG
* *
552429 AAGATATACGAGGTAAGGTTGGTATGTTGAGCTTTGCTC
1 AAGAGATACAAGGTAAGGTTGGTATGTTGAGCTTTGCTC
552468 CAAAATGTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.26, C:0.10, G:0.32, T:0.33
Consensus pattern (43 bp):
AAGAGATACAAGGTAAGGTTGGTATGTTGAGCTTTGCTCTGAG
Found at i:553497 original size:20 final size:21
Alignment explanation
Indices: 553472--553520 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
553462 AAAATGATTG
553472 ATCCCTTGAAG-AAAGGATCA
1 ATCCCTTGAAGCAAAGGATCA
* *
553492 ATCCCTTCAAGCAAAGGATCG
1 ATCCCTTGAAGCAAAGGATCA
553513 ATCCCTTG
1 ATCCCTTG
553521 CCCCAAGGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (21 bp):
ATCCCTTGAAGCAAAGGATCA
Found at i:554217 original size:90 final size:90
Alignment explanation
Indices: 554064--554240 Score: 293
Period size: 90 Copynumber: 2.0 Consensus size: 90
554054 CTAACACACC
* *
554064 CTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTATA
1 CTTTTATAGCCAAGTTACCCTAATCATATTACGGATTTTATTATTTCAAATTAATTAAATCTATA
* *
554129 TTTAATTAATTTAAATTTAATAATT
66 TTTAATTAATTAAAATTAAATAATT
*
554154 CTTTTATATCC-AGATTACCCTAATCATATTACGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CTTTTATAGCCAAG-TTACCCTAATCATATTACGGATTTTATTATTTCAAATTAATTAAATCTAT
554218 ATTTAATTAATTAAAATTAAATA
65 ATTTAATTAATTAAAATTAAATA
554241 TTCGGGATTA
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
89 2 0.02
90 79 0.98
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (90 bp):
CTTTTATAGCCAAGTTACCCTAATCATATTACGGATTTTATTATTTCAAATTAATTAAATCTATA
TTTAATTAATTAAAATTAAATAATT
Found at i:555019 original size:20 final size:21
Alignment explanation
Indices: 554993--555052 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
554983 GTTTTTCAGC
554993 AAAAGGATTGATCCCTTGAAG
1 AAAAGGATTGATCCCTTGAAG
** *
555014 -AAAGGATCAATCCCTTCAAG
1 AAAAGGATTGATCCCTTGAAG
555034 AAAAGGATTGATCCCTTGA
1 AAAAGGATTGATCCCTTGA
555053 CCCAAGGGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.23
Consensus pattern (21 bp):
AAAAGGATTGATCCCTTGAAG
Found at i:555748 original size:90 final size:90
Alignment explanation
Indices: 555595--555771 Score: 302
Period size: 90 Copynumber: 2.0 Consensus size: 90
555585 CTAACACACC
*
555595 CTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTATA
1 CTTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATA
* *
555660 TTTAATTAATTTAAATTTAATAATT
66 TTTAATTAATTAAAATTAAATAATT
*
555685 CTTTTATATCC-AGATTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CTTTTATAGCCAAG-TTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
555749 ATTTAATTAATTAAAATTAAATA
65 ATTTAATTAATTAAAATTAAATA
555772 TTCGGGATTA
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
89 2 0.02
90 80 0.98
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.46
Consensus pattern (90 bp):
CTTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATA
TTTAATTAATTAAAATTAAATAATT
Found at i:557446 original size:22 final size:22
Alignment explanation
Indices: 557418--557485 Score: 118
Period size: 22 Copynumber: 3.1 Consensus size: 22
557408 TGGTATGTGA
*
557418 AATATGTCCCGAAGGAACTATG
1 AATATGTCCCGAAGGACCTATG
557440 AATATGTCCCGAAGGACCTATG
1 AATATGTCCCGAAGGACCTATG
*
557462 AATATGTCCTGAAGGACCTATG
1 AATATGTCCCGAAGGACCTATG
557484 AA
1 AA
557486 ACCCTCGACT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (22 bp):
AATATGTCCCGAAGGACCTATG
Found at i:560578 original size:84 final size:83
Alignment explanation
Indices: 560412--560726 Score: 350
Period size: 84 Copynumber: 3.8 Consensus size: 83
560402 ATGTGTAGTC
* * * * * * *
560412 GAGCTGAATGGAATCGAACTCGATA-GT-TTTTATTGACATATAGCCATTCTTGCCTTGAGCTA-
1 GAGCTGAGTGTAATCGAACTCGA-AGGTCTTTTGTTGGCAGATAGCCCTTC-TACCTTGAGCTAT
* * *
560474 AGTTGTAAATGATGTGCCTTT
64 A-CTGCAAATGATGTTCCTTT
* * * *
560495 GAGCTGAGTATAATCGAACTCGAAGGTCTTTGGTTGGCAGATAGTCCTTCTCACCTTAAGCTATA
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCT-ACCTTGAGCTATA
560560 CTGCAAATGATGTTCCTTT
65 CTGCAAATGATGTTCCTTT
* * * *
560579 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGTCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTA-CCTTGAGCTATA
*
560644 CTGCAAATGAT-TTGCCTTG
65 CTGCAAATGATGTT-CCTTT
* *
560663 GAGCTGAGTGTAGTCGAACTCGAAGGTCTTTTGTTGGCAAATAGCCCTTCTTACCTTGAGCTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTC-TACCTTGAGCTAT
560727 GTTAATGAAC
Statistics
Matches: 197, Mismatches: 28, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
82 1 0.01
83 26 0.13
84 167 0.85
85 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.34
Consensus pattern (83 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTACCTTGAGCTATAC
TGCAAATGATGTTCCTTT
Found at i:560955 original size:124 final size:124
Alignment explanation
Indices: 560791--561189 Score: 636
Period size: 124 Copynumber: 3.2 Consensus size: 124
560781 GCTTGTGGGT
* *
560791 ACGATTCCCTTCATCGTGAAGTTGAAACCGTGGATGGCCCCTCCGTTGTGAAGTTGAGCTTTGAA
1 ACGATTCCCTTCATCATGAAGTTGAAACCGTGGATGGCCCCTCCGTTGTGAAGTTGAGCCTTGAA
* * *
560856 TTGGATATCTTTCGTCGTGAAGTTGAAATCCAATCGAAAGATGAATGTTACTGGTGAGC
66 TTGGATATCCTTCGTCGTGAAGTTAAAATCCAATCTAAAGATGAATGTTACTGGTGAGC
* * * *
560915 ACGATTCCCTTCGTCATGAAATTAAAACCGTGGATGGCCCCTCCATTGTGAAGTTGAGCCTTGAA
1 ACGATTCCCTTCATCATGAAGTTGAAACCGTGGATGGCCCCTCCGTTGTGAAGTTGAGCCTTGAA
* * * *
560980 TTGGATATCCTTCGTCATGAAGTTAAAATCCAATCTAAATATGAATGTTACCGATGAGC
66 TTGGATATCCTTCGTCGTGAAGTTAAAATCCAATCTAAAGATGAATGTTACTGGTGAGC
* * *
561039 ACGATTCCCTTCATCATGAAGTTGAAACCGTGGATGGTCCCTCTGTTGTAAAGTTGAGCCTTGAA
1 ACGATTCCCTTCATCATGAAGTTGAAACCGTGGATGGCCCCTCCGTTGTGAAGTTGAGCCTTGAA
561104 TTGGATATCCTTCGTCGTGAAGTTAAAATCCAATCTAAAGATGAATGTTACTGGTGAGC
66 TTGGATATCCTTCGTCGTGAAGTTAAAATCCAATCTAAAGATGAATGTTACTGGTGAGC
* *
561163 ACGATTCCCTTCGTCGTGAAGTTGAAA
1 ACGATTCCCTTCATCATGAAGTTGAAA
561190 TCTACTCTCA
Statistics
Matches: 249, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
124 249 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.31
Consensus pattern (124 bp):
ACGATTCCCTTCATCATGAAGTTGAAACCGTGGATGGCCCCTCCGTTGTGAAGTTGAGCCTTGAA
TTGGATATCCTTCGTCGTGAAGTTAAAATCCAATCTAAAGATGAATGTTACTGGTGAGC
Found at i:562023 original size:12 final size:12
Alignment explanation
Indices: 561998--562032 Score: 54
Period size: 11 Copynumber: 2.9 Consensus size: 12
561988 ACCCACCTTA
561998 TTTTTTCTTATTC
1 TTTTTTCTT-TTC
562011 TTTTTTCTTTTC
1 TTTTTTCTTTTC
562023 -TTTTTCTTTT
1 TTTTTTCTTTT
562033 TTTCAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 10 0.45
12 3 0.14
13 9 0.41
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTCTTTTC
Found at i:562023 original size:18 final size:18
Alignment explanation
Indices: 562000--562034 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
561990 CCACCTTATT
562000 TTTTCTTATTCTTTTTTC
1 TTTTCTTATTCTTTTTTC
*
562018 TTTTCTTTTTCTTTTTT
1 TTTTCTTATTCTTTTTT
562035 TCAATTTAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTCTTATTCTTTTTTC
Found at i:569071 original size:797 final size:795
Alignment explanation
Indices: 567485--569079 Score: 2976
Period size: 797 Copynumber: 2.0 Consensus size: 795
567475 ATCTTCAATC
567485 CTTATTGCATGTGACTAGGGTGCAAGAAGCCTCGCCTTTACCATTTGGCTCCAAACCCAAGCCAA
1 CTTATTGCATGTGACTAGGGTGCAAGAAGCCTCGCCTTTACCATTTGGCTCCAAACCCAAGCCAA
567550 AGGAGCTTTAACTTCTAAAACATAAGTTTTGATTCTCCTACCGTTCTTGGTGGTTACTGCATTGA
66 AGGAGCTTTAACTTCTAAAACATAAGTTTTGATTCTCCTACCGTTCTTGGTGGTTACTGCATTGA
*
567615 TTCTAGTCTTCTTATGATTAGGCAAGGGATTATGGGTGATGTTCGGTGTTCCTGAGTTGAAATGG
131 TTCCAGTCTTCTTATGATTAGGCAAGGGATTATGGGTGATGTTCGGTGTTCCTGAGTTGAAATGG
* *
567680 ATCCAATTCTTGTTCTGCATTCATTGTACAAGCCTCTTGAATGCGAGACAATTTTCGATTGAATG
196 ATCCAATTCTTGTTCTACATTCATTGTACAAGCCTCTTGAATGCGAGACAATTTTCGATTGAATA
* *
567745 CCCCTGCACACCACCATGATATTCTCAGTGAGATTTCTCGTCCAACCATCTCGGGTATGGGGGTT
261 CCCCTGCACACCACCATGATATTCGCAGTGAGATTTCTCGTCAAACCATCTCGGGTATGGGGGTT
567810 TATTGGATCCATAGGGTAAGGAGACACCACGTGAGTGTCGAAGAGTTGTTGATATAACTCTTTAT
326 TATTGGATCCATAGGGTAAGGAGACACCACGTGAGTGTCGAAGAGTTGTTGATATAACTCTTTAT
567875 ACGTCATGGGAATGGGATCTAACTACTCCCTTTCCCTTTCCTTCTTGGTTCTCTCTAAGCTTGGT
391 ACGTCATGGGAATGGGATCTAACTACTCCCTTTCCCTTTCCTTCTTGGTTCTCTCTAAGCTTGGT
567940 TAGAAGTACCAGATGGTACAGCTGCAGTTGTTTTTGAACTTGAGATCATAACACCTTTGTTAGTG
456 TAGAAGTACCAGATGGTACAGCTGCAGTTGTTTTTGAACTTGAGATCATAACACCTTTGTTAGTG
568005 CTGTAGTTGTTGACATTGTTGATCTCTCAGTCTTTTTTCTTCATGGGAGGCTTTTTACTGTAATC
521 CTGTAGTTGTTGACATTGTTGATCTCTCAGTCTTTTTTCTTCATGGGAGGCTTTTTACTGTAATC
*
568070 CCCTCCCTCAATTTTTCCTTGTTTTATAGCTAGCTCAATCATCTGATCAGCCATAACTAGATATG
586 CCCTCCCTCAATGTTTCCTTGTTTTATAGCTAGCTCAATCATCTGATCAGCCATAACTAGATATG
568135 AGAAACTTCCTGATGTGATTGCCACCAGGTGACCGAGTAAGGTGCCTTCAGGGTTTGTACAAACA
651 AGAAACTTCCTGATGTGATTGCCACCAGGTGACCGAGTAAGGTGCCTTCAGGGTTTGTACAAACA
*
568200 GCTCCCAGGTTTCCTTTTCATCCAAAGGTGGATGAACTTGCACAGCTAGATCCTTCCATCGCTGT
716 GCTCCCAGGTTTCCTTTTCATCCAAAGGTGGATGAACTTGCACAGCTAGATCCTTCAATCGCTGT
568265 GCATATTGTCGAAAA
781 GCATATTGTCGAAAA
568280 CTTATTGCATGTGACTAGGGTGCAAGAAGCCTCGCCTTTACCATTTGGCTCCAAACCCAAGCCAA
1 CTTATTGCATGTGACTAGGGTGCAAGAAGCCTCGCCTTTACCATTTGGCTCCAAACCCAAGCCAA
*
568345 AGGAGCTTTAACTTCTGAAACATAAGTTTTGATTCTCCTACCGTTCTTGGTGGTTACTGCATTGA
66 AGGAGCTTTAACTTCTAAAACATAAGTTTTGATTCTCCTACCGTTCTTGGTGGTTACTGCATTGA
568410 TTCCAGTCTTCTTATGATTAGGCAAGGGATTATGGGTGATGTTCGGTGTTCCTGAGTTGAAATGG
131 TTCCAGTCTTCTTATGATTAGGCAAGGGATTATGGGTGATGTTCGGTGTTCCTGAGTTGAAATGG
*
568475 ATCCAATTCTTGTTCTACATTCATTGTACAAGCCTCTTGAATGTGAGACAATTTTCGATTGAATA
196 ATCCAATTCTTGTTCTACATTCATTGTACAAGCCTCTTGAATGCGAGACAATTTTCGATTGAATA
*
568540 CCCCTGCACACCACCATGATATTCGCAGTGAGATTTCTTGTCAAACCATCTCGGGTATGGGGGTT
261 CCCCTGCACACCACCATGATATTCGCAGTGAGATTTCTCGTCAAACCATCTCGGGTATGGGGG-T
*
568605 TTATTGGATCCATAGGGTAAGGCGACACCACGTGAGTGTCGAAGAGTTGTTGATATAACTCTTTA
325 TTATTGGATCCATAGGGTAAGGAGACACCACGTGAGTGTCGAAGAGTTGTTGATATAACTCTTTA
568670 TACGTCATGGGAATGGGATCTAACTACTCCCTTTCCCTTTCCTTTCTTGGTTCTCTCTAAGCTTG
390 TACGTCATGGGAATGGGATCTAACTACTCCCTTTCCCTTTCC-TTCTTGGTTCTCTCTAAGCTTG
568735 GTTAGAAGTACCAGATGGTACAGCTGCAGTTGTTTTTGAACTTGAGATCATAACACCTTTGTTAG
454 GTTAGAAGTACCAGATGGTACAGCTGCAGTTGTTTTTGAACTTGAGATCATAACACCTTTGTTAG
* *
568800 TGTTGTAGTTGTTGACATTGTTGATCTCTCAGTCTTTTTTCTTCATGGGAGGTTTTTTACTGTAA
519 TGCTGTAGTTGTTGACATTGTTGATCTCTCAGTCTTTTTTCTTCATGGGAGGCTTTTTACTGTAA
*
568865 TCCTCTCCCTCAATGTTTCCTTGTTTTATAGCTAGCTCAATCATCTGATCAGCCATAACTAGATA
584 TCCCCTCCCTCAATGTTTCCTTGTTTTATAGCTAGCTCAATCATCTGATCAGCCATAACTAGATA
* *
568930 TGAG-AACTTCTTGATGTGATTGCCACCAGGTGCCCGAAGTAAGGTGCCTTCAGGGTTTGTACAA
649 TGAGAAACTTCCTGATGTGATTGCCACCAGGTGACCG-AGTAAGGTGCCTTCAGGGTTTGTACAA
* * *
568994 ACAGCTTCCTGGTTTCCTTTTCATCCAAAGGTGGATGAACTTGCACAGCTTGATCCTTCAATCGC
713 ACAGCTCCCAGGTTTCCTTTTCATCCAAAGGTGGATGAACTTGCACAGCTAGATCCTTCAATCGC
*
569059 TGTGCGTATTGTCGAAAA
778 TGTGCATATTGTCGAAAA
569077 CTT
1 CTT
569080 TCATTATGCT
Statistics
Matches: 777, Mismatches: 20, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
795 315 0.41
796 137 0.18
797 325 0.42
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.34
Consensus pattern (795 bp):
CTTATTGCATGTGACTAGGGTGCAAGAAGCCTCGCCTTTACCATTTGGCTCCAAACCCAAGCCAA
AGGAGCTTTAACTTCTAAAACATAAGTTTTGATTCTCCTACCGTTCTTGGTGGTTACTGCATTGA
TTCCAGTCTTCTTATGATTAGGCAAGGGATTATGGGTGATGTTCGGTGTTCCTGAGTTGAAATGG
ATCCAATTCTTGTTCTACATTCATTGTACAAGCCTCTTGAATGCGAGACAATTTTCGATTGAATA
CCCCTGCACACCACCATGATATTCGCAGTGAGATTTCTCGTCAAACCATCTCGGGTATGGGGGTT
TATTGGATCCATAGGGTAAGGAGACACCACGTGAGTGTCGAAGAGTTGTTGATATAACTCTTTAT
ACGTCATGGGAATGGGATCTAACTACTCCCTTTCCCTTTCCTTCTTGGTTCTCTCTAAGCTTGGT
TAGAAGTACCAGATGGTACAGCTGCAGTTGTTTTTGAACTTGAGATCATAACACCTTTGTTAGTG
CTGTAGTTGTTGACATTGTTGATCTCTCAGTCTTTTTTCTTCATGGGAGGCTTTTTACTGTAATC
CCCTCCCTCAATGTTTCCTTGTTTTATAGCTAGCTCAATCATCTGATCAGCCATAACTAGATATG
AGAAACTTCCTGATGTGATTGCCACCAGGTGACCGAGTAAGGTGCCTTCAGGGTTTGTACAAACA
GCTCCCAGGTTTCCTTTTCATCCAAAGGTGGATGAACTTGCACAGCTAGATCCTTCAATCGCTGT
GCATATTGTCGAAAA
Found at i:574931 original size:20 final size:20
Alignment explanation
Indices: 574901--574951 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
574891 CCTTTGAAGT
*
574901 GTATCGGTACACATTATAGG
1 GTATCGATACACATTATAGG
*
574921 GTATTGATACACATTATAGG
1 GTATCGATACACATTATAGG
574941 GTATCGATACA
1 GTATCGATACA
574952 TCCCTTCACT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (20 bp):
GTATCGATACACATTATAGG
Found at i:578083 original size:29 final size:29
Alignment explanation
Indices: 578035--578233 Score: 233
Period size: 29 Copynumber: 6.9 Consensus size: 29
578025 ATGGGGATCG
* *
578035 ATAATTTATGAGAGGATTTGTCCTTTACT
1 ATAATTTATGAGAAGTTTTGTCCTTTACT
* *
578064 GTAATTTATGAGAAGTTTTGTCTTTTACT
1 ATAATTTATGAGAAGTTTTGTCCTTTACT
* *
578093 ACAATTTATGAGAAGTTTTGTCTTTTACT
1 ATAATTTATGAGAAGTTTTGTCCTTTACT
* * *
578122 ACAATTTATGAGAAGTTATGTCCTTTATT
1 ATAATTTATGAGAAGTTTTGTCCTTTACT
* * *
578151 ACAATTTATGAGAAATTTTGTCTTTCTACT
1 ATAATTTATGAGAAGTTTTGTCCTT-TACT
578181 ATAATTTATGAGAAGTTTTGTCCTTT--T
1 ATAATTTATGAGAAGTTTTGTCCTTTACT
* * *
578208 GTAACTTATGAGAAG-TTTGACCTTTA
1 ATAATTTATGAGAAGTTTTGTCCTTTA
578234 TTTAAGTTTC
Statistics
Matches: 149, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
26 9 0.06
27 14 0.09
29 101 0.68
30 25 0.17
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (29 bp):
ATAATTTATGAGAAGTTTTGTCCTTTACT
Found at i:588035 original size:13 final size:13
Alignment explanation
Indices: 588017--588042 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
588007 AAAGAATCGC
588017 ATATGAAGACTGT
1 ATATGAAGACTGT
588030 ATATGAAGACTGT
1 ATATGAAGACTGT
588043 TCAAATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
ATATGAAGACTGT
Found at i:588395 original size:16 final size:15
Alignment explanation
Indices: 588351--588393 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
588341 AATTTAAGAA
*
588351 ATAAAATTTAATTTT
1 ATAAAATTTAAATTT
*
588366 ATTAATATTTAAATTT
1 A-TAAAATTTAAATTT
588382 ATAAAATTTAAA
1 ATAAAATTTAAA
588394 ATGAGATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATAAAATTTAAATTT
Found at i:593368 original size:15 final size:15
Alignment explanation
Indices: 593348--593377 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
593338 TAATGATATG
593348 TTATGATTAAATTAA
1 TTATGATTAAATTAA
593363 TTATGATTAAATTAA
1 TTATGATTAAATTAA
593378 AATAGAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (15 bp):
TTATGATTAAATTAA
Found at i:595798 original size:101 final size:102
Alignment explanation
Indices: 595618--595800 Score: 269
Period size: 101 Copynumber: 1.8 Consensus size: 102
595608 ACTGTCAAAA
* * * *
595618 CAGATTGCACCGAGTCACTCCACCTTGTGCACCACTAAGGTACACCGACTCAGACCACGAGTGAC
1 CAGATTGCACCAAATCACTCCACCTCGTGCACCACTAAGGTAAACCGACTCAGACCACGAGTGAC
**
595683 CCATCTTGGTGCCATATAATTCACATATAAAGCTAAT
66 CCAAATTGGTGCCATATAATTCACATATAAAGCTAAT
* * * *
595720 CAGA-TGCACCAAATCACTCCAGCTCGTGCACCACTAAGGTAAATCGAGTCAGACCACGAGTGAT
1 CAGATTGCACCAAATCACTCCACCTCGTGCACCACTAAGGTAAACCGACTCAGACCACGAGTGAC
595784 CCAAATTGGTGCCATAT
66 CCAAATTGGTGCCATAT
595801 TAAAAATGTA
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
101 67 0.94
102 4 0.06
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (102 bp):
CAGATTGCACCAAATCACTCCACCTCGTGCACCACTAAGGTAAACCGACTCAGACCACGAGTGAC
CCAAATTGGTGCCATATAATTCACATATAAAGCTAAT
Found at i:600001 original size:17 final size:16
Alignment explanation
Indices: 599979--600015 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
599969 TATAAGCATC
599979 CAAATTCAAACAATCCA
1 CAAATTCAAAC-ATCCA
599996 CAAATTCAAACATCCA
1 CAAATTCAAACATCCA
600012 -AAAT
1 CAAAT
600016 GTTAAAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.20
16 5 0.25
17 11 0.55
ACGTcount: A:0.54, C:0.27, G:0.00, T:0.19
Consensus pattern (16 bp):
CAAATTCAAACATCCA
Found at i:609927 original size:29 final size:29
Alignment explanation
Indices: 609894--609958 Score: 130
Period size: 29 Copynumber: 2.2 Consensus size: 29
609884 CCATCCAATT
609894 CATGAACTTAGGGTTTCAAGCATGGAAAA
1 CATGAACTTAGGGTTTCAAGCATGGAAAA
609923 CATGAACTTAGGGTTTCAAGCATGGAAAA
1 CATGAACTTAGGGTTTCAAGCATGGAAAA
609952 CATGAAC
1 CATGAAC
609959 AAATGGTACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (29 bp):
CATGAACTTAGGGTTTCAAGCATGGAAAA
Found at i:623505 original size:63 final size:62
Alignment explanation
Indices: 623355--623511 Score: 174
Period size: 63 Copynumber: 2.5 Consensus size: 62
623345 AATTGTTCAG
* * * *
623355 TGTGTATCGATGCACAGGAAGTGCATCGATACACCCCTTAAAAATGGAAATATCGAATGCAATT
1 TGTGTATCGATGCA-TGGGAGTGCATCGATACACCCCTTAAAAATGAAAACATCGAATGC-ATT
* * * *
623419 AGTGCATCGATGCATAGGGAGTGCATCGATACACCCCTT-AAGATTAAAACATCGAAGGTGC-TT
1 TGTGTATCGATGCAT-GGGAGTGCATCGATACACCCCTTAAAAATGAAAACATCGAA--TGCATT
623482 TGTGTATCGATGCATGGGTAGTGCATCGAT
1 TGTGTATCGATGCATGGG-AGTGCATCGAT
623512 GCCCATGTTA
Statistics
Matches: 79, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
62 3 0.04
63 39 0.49
64 34 0.43
65 3 0.04
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (62 bp):
TGTGTATCGATGCATGGGAGTGCATCGATACACCCCTTAAAAATGAAAACATCGAATGCATT
Found at i:624609 original size:2 final size:2
Alignment explanation
Indices: 624602--624667 Score: 116
Period size: 2 Copynumber: 33.0 Consensus size: 2
624592 AGGTAAAATG
624602 AT AT AT AT AT AT AT A- AT GAT 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
624644 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
624668 GACTATGAGT
Statistics
Matches: 62, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.02
2 59 0.95
3 2 0.03
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:625213 original size:23 final size:23
Alignment explanation
Indices: 625183--625263 Score: 119
Period size: 23 Copynumber: 3.5 Consensus size: 23
625173 TTTTATATGG
*
625183 CACTTCGGTACAATTCTACGTGA
1 CACTTCGGTGCAATTCTACGTGA
*
625206 CACTTCGGTGCAATTCTACGCGA
1 CACTTCGGTGCAATTCTACGTGA
*
625229 CATTTCGGTGCAATTCTACGTGGA
1 CACTTCGGTGCAATTCTACGT-GA
625253 -ACTTCGGTGCA
1 CACTTCGGTGCA
625264 TTTATATGAG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
23 50 0.96
24 2 0.04
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (23 bp):
CACTTCGGTGCAATTCTACGTGA
Found at i:632765 original size:65 final size:64
Alignment explanation
Indices: 632640--632796 Score: 183
Period size: 65 Copynumber: 2.4 Consensus size: 64
632630 TGGACCCTTA
* * *
632640 GTGCATCGATGCATCAAGTGCTTTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGCT-G
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCACAGTGCATCGATGCATGG-TAG
* * * * *
632704 GTGCATCGATACATCAAATGCATTCGTTGTTTTCATAAA-ATCCTCAGTGCATCGGTGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCA-AAATAGCCACAGTGCATCGATGCATGGTA
*
632768 T
64 G
*
632769 GTGCATCGATGCATGAAATGCATTCGAT
1 GTGCATCGATGCATCAAATGCATTCGAT
632797 AATCAATTTA
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
64 26 0.33
65 49 0.63
66 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCACAGTGCATCGATGCATGGTAG
Found at i:635032 original size:13 final size:13
Alignment explanation
Indices: 635004--635042 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
634994 TGGGCAAGGT
*
635004 TTTGAAAA-ACTA
1 TTTGAAAATAATA
635016 TTTGAAAATAATA
1 TTTGAAAATAATA
*
635029 TTTGTAAATAATA
1 TTTGAAAATAATA
635042 T
1 T
635043 GTATAGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (13 bp):
TTTGAAAATAATA
Found at i:640904 original size:64 final size:63
Alignment explanation
Indices: 640834--641010 Score: 162
Period size: 65 Copynumber: 2.7 Consensus size: 63
640824 TTGGACCCTT
* *
640834 AGTGCATCGGTGCA-CTAAGAGTGCATCGATACATCAAGTGCATTTGATG-TTTCA-AAATAGCC
1 AGTGCATCGGTGCAGCT--G-GTGCATCGATACATCAAATGCATTCGATGTTTTCATAAA-AGCC
*
640896 AG
62 AC
* * * *
640898 AGTGCATCGATGCATGGCTGGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTC
1 AGTGCATCGGTGCA--GCTGGTGCATCGATACATCAAATGCATTCGATGTTTTCATAAAAGCCAC
* * * *
640963 AGTGCATCGGTGCATGGTATGTGCATCGATGCATGAAATGCATTCGAT
1 AGTGCATCGGTGCA-GCT-GGTGCATCGATACATCAAATGCATTCGAT
641011 TTTCAATTTA
Statistics
Matches: 95, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
64 41 0.43
65 49 0.52
66 3 0.03
67 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (63 bp):
AGTGCATCGGTGCAGCTGGTGCATCGATACATCAAATGCATTCGATGTTTTCATAAAAGCCAC
Found at i:640987 original size:65 final size:64
Alignment explanation
Indices: 640854--641016 Score: 197
Period size: 65 Copynumber: 2.5 Consensus size: 64
640844 TGCACTAAGA
* * * *
640854 GTGCATCGATACATCAAGTGCATTTGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCACAGTGCATCGATGCATGGCTG
* * *
640918 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCATGG-T
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCA-AAATAGCCACAGTGCATCGATGCATGGCT
*
640981 AT
64 -G
*
640983 GTGCATCGATGCATGAAATGCATTCGAT-TTTCAA
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAA
641017 TTTAATTCAT
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
62 1 0.01
63 5 0.06
64 27 0.31
65 51 0.59
66 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCACAGTGCATCGATGCATGGCTG
Found at i:641052 original size:65 final size:62
Alignment explanation
Indices: 640898--641063 Score: 158
Period size: 65 Copynumber: 2.6 Consensus size: 62
640888 AAATAGCCAG
**
640898 AGTGCATCGATGCATGGCTGGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTC
1 AGTGCATCGATGCAT-TATGGTGCATCGATGCATCAAATGCATTCGA-GTTTTCATAAAAT-CTC
* * **
640963 AGTGCATCGGTGCATGGTAT-GTGCATCGATGCATGAAATGCATTCGA-TTTTCAATTTAAT-TC
1 AGTGCATCGATGCAT--TATGGTGCATCGATGCATCAAATGCATTCGAGTTTTC-ATAAAATCTC
*
641025 ATGGTGCATCGATGCATATATTGGTGCATCGGTGCATCA
1 A--GTGCATCGATGCAT-TA-TGGTGCATCGATGCATCA
641064 CTATGAAAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
62 3 0.04
63 7 0.08
64 19 0.22
65 54 0.64
66 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (62 bp):
AGTGCATCGATGCATTATGGTGCATCGATGCATCAAATGCATTCGAGTTTTCATAAAATCTC
Found at i:641886 original size:30 final size:30
Alignment explanation
Indices: 641842--641907 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
641832 AAATACATGA
*
641842 TTATGTGATAATATGATAATACA-ATATAAG
1 TTATGTAATAATATGATAATA-AGATATAAG
* *
641872 TTATGTAATTATATGATCATAAGATATAAG
1 TTATGTAATAATATGATAATAAGATATAAG
*
641902 TCATGT
1 TTATGT
641908 GACAAGATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 1 0.03
30 30 0.97
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.39
Consensus pattern (30 bp):
TTATGTAATAATATGATAATAAGATATAAG
Found at i:644641 original size:2 final size:2
Alignment explanation
Indices: 644634--644688 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
644624 AGGTAAAATG
644634 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
644676 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
644689 CTAGGATAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:645193 original size:23 final size:23
Alignment explanation
Indices: 645163--645246 Score: 125
Period size: 23 Copynumber: 3.7 Consensus size: 23
645153 ACTTTTTATA
*
645163 TGACACTTCGGTACAATTCTACG
1 TGACACTTCGGTGCAATTCTACG
*
645186 TGACACTTCGGTGCAATTCTATG
1 TGACACTTCGGTGCAATTCTACG
*
645209 TGACATTTCGGTGCAATTCTACG
1 TGACACTTCGGTGCAATTCTACG
645232 TGGA-ACTTCGGTGCA
1 T-GACACTTCGGTGCA
645247 TTTATATGAG
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
23 53 0.96
24 2 0.04
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (23 bp):
TGACACTTCGGTGCAATTCTACG
Found at i:655048 original size:13 final size:13
Alignment explanation
Indices: 655020--655058 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
655010 TGGGCAAGGT
*
655020 TTTGAAAA-ACTA
1 TTTGAAAATAATA
655032 TTTGAAAATAATA
1 TTTGAAAATAATA
*
655045 TTTGTAAATAATA
1 TTTGAAAATAATA
655058 T
1 T
655059 GTATAGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (13 bp):
TTTGAAAATAATA
Found at i:661015 original size:65 final size:64
Alignment explanation
Indices: 660882--661044 Score: 188
Period size: 65 Copynumber: 2.5 Consensus size: 64
660872 TGCACTAAGA
* * * *
660882 GTGCATCGATACATCAAGTGCATTTGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCACAGTGCATCGATGCATGGCTG
* * * *
660946 GTGCATTGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCATGG-T
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCA-AAATAGCCACAGTGCATCGATGCATGGCT
*
661009 AT
64 -G
*
661011 GTGCATCGATGCATGAAATGCATTCGAT-TTTCAA
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAA
661045 TTTAATTCAT
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
62 1 0.01
63 5 0.06
64 26 0.31
65 50 0.59
66 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCACAGTGCATCGATGCATGGCTG
Found at i:661080 original size:65 final size:62
Alignment explanation
Indices: 660926--661091 Score: 149
Period size: 65 Copynumber: 2.6 Consensus size: 62
660916 AAATAGCCAG
** *
660926 AGTGCATCGATGCATGGCTGGTGCATTGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTC
1 AGTGCATCGATGCAT-TATGGTGCATCGATGCATCAAATGCATTCGA-GTTTTCATAAAAT-CTC
* * **
660991 AGTGCATCGGTGCATGGTAT-GTGCATCGATGCATGAAATGCATTCGA-TTTTCAATTTAAT-TC
1 AGTGCATCGATGCAT--TATGGTGCATCGATGCATCAAATGCATTCGAGTTTTC-ATAAAATCTC
*
661053 ATGGTGCATCGATGCATATATTGGTGCATCGGTGCATCA
1 A--GTGCATCGATGCAT-TA-TGGTGCATCGATGCATCA
661092 CTATGAAAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
62 3 0.04
63 7 0.08
64 19 0.23
65 53 0.63
66 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.33
Consensus pattern (62 bp):
AGTGCATCGATGCATTATGGTGCATCGATGCATCAAATGCATTCGAGTTTTCATAAAATCTC
Found at i:661915 original size:30 final size:30
Alignment explanation
Indices: 661871--661936 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
661861 AAATACATGA
*
661871 TTATGTGATAATATGATAATACA-ATATAAG
1 TTATGTAATAATATGATAATA-AGATATAAG
* *
661901 TTATGTAATTATATGATCATAAGATATAAG
1 TTATGTAATAATATGATAATAAGATATAAG
*
661931 TCATGT
1 TTATGT
661937 GACAAGATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 1 0.03
30 30 0.97
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.39
Consensus pattern (30 bp):
TTATGTAATAATATGATAATAAGATATAAG
Found at i:664879 original size:20 final size:20
Alignment explanation
Indices: 664856--664927 Score: 108
Period size: 20 Copynumber: 3.6 Consensus size: 20
664846 CCCGATATTG
* *
664856 ATATTGTAATTTCAATATCA
1 ATATTGTAATTCCAGTATCA
*
664876 ATATTGTAATTCCAGTATCG
1 ATATTGTAATTCCAGTATCA
664896 ATATTGTAATTCCAGTATCA
1 ATATTGTAATTCCAGTATCA
*
664916 ATGTTGTAATTC
1 ATATTGTAATTC
664928 TAATATTGGT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.43
Consensus pattern (20 bp):
ATATTGTAATTCCAGTATCA
Found at i:665594 original size:21 final size:20
Alignment explanation
Indices: 665548--665599 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
665538 TCTTTCATTG
*
665548 AGTATCGATACCATACTTGT
1 AGTATCGATACCATACATGT
* * *
665568 ATTATCGATACTCTTCCATGT
1 AGTATCGATAC-CATACATGT
665589 AGTATCGATAC
1 AGTATCGATAC
665600 GTCCTTAAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (20 bp):
AGTATCGATACCATACATGT
Found at i:665684 original size:20 final size:20
Alignment explanation
Indices: 665654--665712 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
665644 TCATCCCGAT
* **
665654 ATTGATATTGTAATTCCATT
1 ATTGGTATTGTAATTCCAGA
*
665674 ATCT-GTATTGTAATTCTAGA
1 AT-TGGTATTGTAATTCCAGA
665694 ATTGGTATTGTAATTCCAG
1 ATTGGTATTGTAATTCCAG
665713 TACTGATACC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (20 bp):
ATTGGTATTGTAATTCCAGA
Found at i:665743 original size:40 final size:41
Alignment explanation
Indices: 665651--665744 Score: 104
Period size: 40 Copynumber: 2.3 Consensus size: 41
665641 AAATCATCCC
* **
665651 GATATTGATATTGTAATTCCATTATCTGTATTGTAATTCTA
1 GATATTGATATTGTAATTCCAGTATCTGTACCGTAATTCTA
* *
665692 GA-ATTGGTATTGTAATTCCAGTA-CTGATACCGTAATTTTA
1 GATATTGATATTGTAATTCCAGTATCTG-TACCGTAATTCTA
*
665732 -ATATTGCTATTGT
1 GATATTGATATTGT
665745 TCATCCAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
39 4 0.09
40 39 0.87
41 2 0.04
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.46
Consensus pattern (41 bp):
GATATTGATATTGTAATTCCAGTATCTGTACCGTAATTCTA
Found at i:665762 original size:20 final size:20
Alignment explanation
Indices: 665739--665776 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
665729 TTAATATTGC
665739 TATTGTTCATCCAATATCGA
1 TATTGTTCATCCAATATCGA
*
665759 TATTGTTCATCTAATATC
1 TATTGTTCATCCAATATC
665777 TATACTTAAA
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:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (20 bp):
TATTGTTCATCCAATATCGA
Found at i:670107 original size:26 final size:26
Alignment explanation
Indices: 670051--670107 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
670041 CACTCTATTC
* **
670051 TGGTCATTTAACACCCAAGGGTGTTT
1 TGGTTATTTAACACCCAAGGGCATTT
*
670077 GGGTTATTTAACACCCAAGGGCATTT
1 TGGTTATTTAACACCCAAGGGCATTT
670103 TGGTT
1 TGGTT
670108 GTTTTTCATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.35
Consensus pattern (26 bp):
TGGTTATTTAACACCCAAGGGCATTT
Found at i:673287 original size:85 final size:85
Alignment explanation
Indices: 673144--673302 Score: 318
Period size: 85 Copynumber: 1.9 Consensus size: 85
673134 CGTTATTATC
673144 GAGGCGACCTCGACTGAATATCCAAATATCTCATTACAAGTTGTATTCAACCTACGCGTGAAATA
1 GAGGCGACCTCGACTGAATATCCAAATATCTCATTACAAGTTGTATTCAACCTACGCGTGAAATA
673209 AACACACGTCGGTTACTGAT
66 AACACACGTCGGTTACTGAT
673229 GAGGCGACCTCGACTGAATATCCAAATATCTCATTACAAGTTGTATTCAACCTACGCGTGAAATA
1 GAGGCGACCTCGACTGAATATCCAAATATCTCATTACAAGTTGTATTCAACCTACGCGTGAAATA
673294 AACACACGT
66 AACACACGT
673303 TAAGTATTAC
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 74 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (85 bp):
GAGGCGACCTCGACTGAATATCCAAATATCTCATTACAAGTTGTATTCAACCTACGCGTGAAATA
AACACACGTCGGTTACTGAT
Found at i:673403 original size:17 final size:18
Alignment explanation
Indices: 673370--673403 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
673360 TCTTCCGATA
673370 TTTAATCTCCAAGGAATC
1 TTTAATCTCCAAGGAATC
*
673388 TTTAAT-TCCAATGAAT
1 TTTAATCTCCAAGGAAT
673404 ATACTATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (18 bp):
TTTAATCTCCAAGGAATC
Found at i:673667 original size:59 final size:58
Alignment explanation
Indices: 673604--673804 Score: 219
Period size: 59 Copynumber: 3.4 Consensus size: 58
673594 ATACTATTAG
** *
673604 TATGATTTTGTTACCATTTTAGCACATAATATGCCCTATCTGGAAATCCATATTTTCAA
1 TATGATTTCCTTACCA-TTTAGCACATAATATGCCCTATCTGGAAATCCATAATTTCAA
* * ** * * * *
673663 TATGATTTCCTTATCATTTAGCACCCT--TAGTGCTTTATCTAGAAACCCATACA-CTCAG
1 TATGATTTCCTTACCATTTAGCA-CATAATA-TGCCCTATCTGGAAATCCATA-ATTTCAA
*
673721 TATGATTCCCTTACCATTTTAGCACATAATATGCCCTATCTGGAAATCCATAATTTCAA
1 TATGATTTCCTTACCA-TTTAGCACATAATATGCCCTATCTGGAAATCCATAATTTCAA
*
673780 TATGATTTCCTTATCATTTAGCACA
1 TATGATTTCCTTACCATTTAGCACA
673805 CTCAGTGCTC
Statistics
Matches: 113, Mismatches: 22, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
57 2 0.02
58 53 0.47
59 56 0.50
60 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.38
Consensus pattern (58 bp):
TATGATTTCCTTACCATTTAGCACATAATATGCCCTATCTGGAAATCCATAATTTCAA
Found at i:673702 original size:58 final size:59
Alignment explanation
Indices: 673639--673862 Score: 215
Period size: 58 Copynumber: 3.8 Consensus size: 59
673629 ATAATATGCC
***
673639 CTATCTGGAAATCCATATTTTCAATATGATTTCCTTATCA-TTTAGCACCCTTAGTGCT
1 CTATCTGGAAATCCATACACTCAATATGATTTCCTTATCATTTTAGCACCCTTAGTGCT
* * * * * * * *
673697 TTATCTAGAAACCCATACACTCAGTATGATTCCCTTACCATTTTAGCA-CATAATA-TGCC
1 CTATCTGGAAATCCATACACTCAATATGATTTCCTTATCATTTTAGCACCCT--TAGTGCT
* * *
673756 CTATCTGGAAATCCATA-ATTTCAATATGATTTCCTTATCA-TTTAGCACACTCAGTGCT
1 CTATCTGGAAATCCATACA-CTCAATATGATTTCCTTATCATTTTAGCACCCTTAGTGCT
* * * * *
673814 CCATATGGAAATCTATACACTCAGTATGATTTCCTTAACATTTTAGCAC
1 CTATCTGGAAATCCATACACTCAATATGATTTCCTTATCATTTTAGCAC
673863 ACAAAGTGCC
Statistics
Matches: 130, Mismatches: 28, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
57 1 0.01
58 76 0.58
59 51 0.39
60 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.37
Consensus pattern (59 bp):
CTATCTGGAAATCCATACACTCAATATGATTTCCTTATCATTTTAGCACCCTTAGTGCT
Found at i:673735 original size:117 final size:117
Alignment explanation
Indices: 673614--673863 Score: 401
Period size: 117 Copynumber: 2.1 Consensus size: 117
673604 TATGATTTTG
*
673614 TTACCATTTTAGCACATAATATGCCCTATCTGGAAATCCATATTTTCAATATGATTTCCTTATCA
1 TTACCATTTTAGCACATAATATGCCCTATCTGGAAATCCATAATTTCAATATGATTTCCTTATCA
* * ** *
673679 TTTAGCACCCTTAGTGCTTTATCTAGAAACCCATACACTCAGTATGATTCCC
66 TTTAGCACACTCAGTGCTCCATATAGAAACCCATACACTCAGTATGATTCCC
673731 TTACCATTTTAGCACATAATATGCCCTATCTGGAAATCCATAATTTCAATATGATTTCCTTATCA
1 TTACCATTTTAGCACATAATATGCCCTATCTGGAAATCCATAATTTCAATATGATTTCCTTATCA
* * * *
673796 TTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAGTATGATTTCC
66 TTTAGCACACTCAGTGCTCCATATAGAAACCCATACACTCAGTATGATTCCC
*
673848 TTAACATTTTAGCACA
1 TTACCATTTTAGCACA
673864 CAAAGTGCCA
Statistics
Matches: 122, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
117 122 1.00
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (117 bp):
TTACCATTTTAGCACATAATATGCCCTATCTGGAAATCCATAATTTCAATATGATTTCCTTATCA
TTTAGCACACTCAGTGCTCCATATAGAAACCCATACACTCAGTATGATTCCC
Found at i:674278 original size:17 final size:18
Alignment explanation
Indices: 674236--674283 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
674226 ATCTTAAGGG
674236 AGTGCATCGATACACTACC
1 AGTGCATCGATACACTA-C
*
674255 TGTGCATCGATACACT-C
1 AGTGCATCGATACACTAC
674272 AGTGCATTCGAT
1 AGTGCA-TCGAT
674284 GTTTATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 6 0.23
18 5 0.19
19 15 0.58
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (18 bp):
AGTGCATCGATACACTAC
Found at i:680060 original size:21 final size:21
Alignment explanation
Indices: 680036--680075 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
680026 TTTTTAAAAT
680036 TAGTG-AATAGTGAACAGTGAA
1 TAGTGTAATA-TGAACAGTGAA
*
680057 TAGTGTACTATGAACAGTG
1 TAGTGTAATATGAACAGTG
680076 TACCGATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.38, C:0.07, G:0.28, T:0.28
Consensus pattern (21 bp):
TAGTGTAATATGAACAGTGAA
Found at i:680070 original size:14 final size:14
Alignment explanation
Indices: 680037--680078 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
680027 TTTTAAAATT
*
680037 AGTGAATAGTGAAC
1 AGTGAATAGTGTAC
680051 AGTGAATAGTGTAC
1 AGTGAATAGTGTAC
*
680065 TA-TGAACAGTGTAC
1 -AGTGAATAGTGTAC
680079 CGATGCACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 24 0.96
15 1 0.04
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (14 bp):
AGTGAATAGTGTAC
Found at i:680557 original size:17 final size:18
Alignment explanation
Indices: 680524--680557 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
680514 TCTTCCGATA
680524 TTTAATCTCCAAGGAATC
1 TTTAATCTCCAAGGAATC
*
680542 TTTAAT-TCCAATGAAT
1 TTTAATCTCCAAGGAAT
680558 ATACTATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (18 bp):
TTTAATCTCCAAGGAATC
Found at i:680738 original size:59 final size:58
Alignment explanation
Indices: 680675--681032 Score: 259
Period size: 59 Copynumber: 6.1 Consensus size: 58
680665 TAGCACTATC
* * *
680675 AGTGCTCC-ATCTGGAAAATCATACACTTAGTATGCTTCCCTTTTCATTTTAGCACACAA
1 AGTGC-CCTATCTGG-AAATCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAA
* ** * *
680734 AGTGCCCTAT-TCGAAAATTCATACTA-TTAGTATGATTTTGTTACCATTTTAGCACATAA
1 AGTGCCCTATCT-GGAAA-TCATAC-ACTTAGTATGATTTCCTTATCATTTTAGCACACAA
** * * **
680793 TA-TGCCCTATCTGGAAATCCATA-TTTTCAATATGATTTCCTTATCA-TTTAGCACCCTT
1 -AGTGCCCTATCTGGAAAT-CATACACTT-AGTATGATTTCCTTATCATTTTAGCACACAA
** * * * * * *
680851 AGTGCTTTATCTAGAAACCCATACACTCAGTATGATTCCCTTACCATTTTAGCACATAA
1 AGTGCCCTATCTGGAAA-TCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAA
* * **
680910 TA-TGCCCTATCTGGAAATCCATA-ATTTCAATATGATTTCCTTATCA-TTTAGCACACTC
1 -AGTGCCCTATCTGGAAAT-CATACACTT-AGTATGATTTCCTTATCATTTTAGCACACAA
* * *
680968 AGTGCTCC-ATATGGAAATCTATACACTCAGTATGATTTCCTTAACATTTTAGCACACAA
1 AGTGC-CCTATCTGGAAATC-ATACACTTAGTATGATTTCCTTATCATTTTAGCACACAA
681027 AGTGCC
1 AGTGCC
681033 ATTCGGTTAT
Statistics
Matches: 227, Mismatches: 51, Indels: 43
0.71 0.16 0.13
Matches are distributed among these distances:
57 3 0.01
58 91 0.40
59 129 0.57
60 4 0.02
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (58 bp):
AGTGCCCTATCTGGAAATCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAA
Found at i:680862 original size:58 final size:59
Alignment explanation
Indices: 680799--681022 Score: 215
Period size: 58 Copynumber: 3.8 Consensus size: 59
680789 ATAATATGCC
***
680799 CTATCTGGAAATCCATATTTTCAATATGATTTCCTTATCA-TTTAGCACCCTTAGTGCT
1 CTATCTGGAAATCCATACACTCAATATGATTTCCTTATCATTTTAGCACCCTTAGTGCT
* * * * * * * *
680857 TTATCTAGAAACCCATACACTCAGTATGATTCCCTTACCATTTTAGCA-CATAATA-TGCC
1 CTATCTGGAAATCCATACACTCAATATGATTTCCTTATCATTTTAGCACCCT--TAGTGCT
* * *
680916 CTATCTGGAAATCCATA-ATTTCAATATGATTTCCTTATCA-TTTAGCACACTCAGTGCT
1 CTATCTGGAAATCCATACA-CTCAATATGATTTCCTTATCATTTTAGCACCCTTAGTGCT
* * * * *
680974 CCATATGGAAATCTATACACTCAGTATGATTTCCTTAACATTTTAGCAC
1 CTATCTGGAAATCCATACACTCAATATGATTTCCTTATCATTTTAGCAC
681023 ACAAAGTGCC
Statistics
Matches: 130, Mismatches: 28, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
57 1 0.01
58 76 0.58
59 51 0.39
60 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.37
Consensus pattern (59 bp):
CTATCTGGAAATCCATACACTCAATATGATTTCCTTATCATTTTAGCACCCTTAGTGCT
Done.