Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 55 of 362
Found at i:16423458 original size:18 final size:18
Alignment explanation
Indices: 16423435--16423471 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
16423425 CCGGGCTAAG
16423435 TCCCGAAGGCATTCGTGC
1 TCCCGAAGGCATTCGTGC
16423453 TCCCGAAGGCATTCGTGC
1 TCCCGAAGGCATTCGTGC
16423471 T
1 T
16423472 GGTGTTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.27, T:0.24
Consensus pattern (18 bp):
TCCCGAAGGCATTCGTGC
Found at i:16423484 original size:57 final size:57
Alignment explanation
Indices: 16423396--16423510 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
16423386 CCGGGCTAAG
16423396 TCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
16423453 TCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
16423510 T
1 T
16423511 GGTGTTATAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.17, C:0.26, G:0.30, T:0.27
Consensus pattern (57 bp):
TCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:16423507 original size:39 final size:40
Alignment explanation
Indices: 16423453--16423614 Score: 242
Period size: 39 Copynumber: 4.1 Consensus size: 40
16423443 GCATTCGTGC
16423453 TCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCT-AAG
1 TCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAAG
*
16423492 TCCCGAAGGCATTCGTGCTGGTGTTATATCCGGG-TTAAG
1 TCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAAG
16423531 -CCCTGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAAG
1 TCCC-GAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAAG
* * *
16423571 TCCCGTAGGC-TTTGTGCTGGTATTATATCCGGGCTTAAAG
1 TCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGC-TAAAG
16423611 TCCC
1 TCCC
16423615 ACATGCTTTG
Statistics
Matches: 114, Mismatches: 4, Indels: 9
0.90 0.03 0.07
Matches are distributed among these distances:
38 4 0.04
39 89 0.78
40 18 0.16
41 3 0.03
ACGTcount: A:0.18, C:0.23, G:0.29, T:0.30
Consensus pattern (40 bp):
TCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAAG
Found at i:16423525 original size:96 final size:96
Alignment explanation
Indices: 16423361--16423549 Score: 353
Period size: 96 Copynumber: 2.0 Consensus size: 96
16423351 GCTAAGTCCT
16423361 GAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATC
1 GAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATC
16423426 CGGGCTAAGTCCC-GAAGGCATTCGTGCTCCC
66 CGGGCTAAG-CCCTGAAGGCATTCGTGCTCCC
16423457 GAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATC
1 GAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATC
*
16423522 CGGGTTAAGCCCTGAAGGCATTCGTGCT
66 CGGGCTAAGCCCTGAAGGCATTCGTGCT
16423550 GGTGTTATAT
Statistics
Matches: 91, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
95 3 0.03
96 88 0.97
ACGTcount: A:0.18, C:0.23, G:0.31, T:0.28
Consensus pattern (96 bp):
GAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATC
CGGGCTAAGCCCTGAAGGCATTCGTGCTCCC
Found at i:16423588 original size:135 final size:135
Alignment explanation
Indices: 16423341--16423588 Score: 428
Period size: 135 Copynumber: 1.8 Consensus size: 135
16423331 TAATGGAGAA
*
16423341 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGC
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGC
16423406 ATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTCCCGAAGGCATTCGTGC
66 ATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTCCCGAAGGCATTCGTGC
16423471 TGGTG
131 TGGTG
*
16423476 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGTTAAG-CCCTGAAGG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCC-GAAGG
* *
16423540 CATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCCGTAGGC-TTTGTGCT
65 CATTCGTGCTGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCT
16423589 GGTATTATAT
Statistics
Matches: 107, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
134 3 0.03
135 92 0.86
136 12 0.11
ACGTcount: A:0.18, C:0.23, G:0.30, T:0.29
Consensus pattern (135 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGC
ATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTCCCGAAGGCATTCGTGC
TGGTG
Found at i:16434412 original size:40 final size:40
Alignment explanation
Indices: 16434375--16434596 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
16434365 GCTACTCGTT
* *
16434375 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
16434415 CAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
16434454 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
16434494 CAAATGCCTTC-GGATCTT-AGCCGGA-TTAGT-ACTCGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
16434531 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
16434572 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
16434597 CATCATTCAA
Statistics
Matches: 165, Mismatches: 9, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
37 25 0.15
38 10 0.06
39 46 0.28
40 73 0.44
41 11 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:16434478 original size:79 final size:77
Alignment explanation
Indices: 16434342--16434596 Score: 277
Period size: 79 Copynumber: 3.2 Consensus size: 77
16434332 AAATCACGTA
* ** *
16434342 CCTTCGGAATTTAA-CCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAG
1 CCTTCGG-ACTTAACCCGGAT-TAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
16434406 TAACTCGCACAAATG
63 TAACTCGCACAAATG
*
16434421 CCTTCGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT-TAG
1 CCTTCGGACTTAACCCGGA-TTAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAG
16434485 TAACTCGCACAAATG
63 TAACTCGCACAAATG
* * * *
16434500 CCTTCGGATCTT-AGCCGGATTAGTACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGT
1 CCTTCGGA-CTTAACCCGGATTAGTACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT
* *
16434563 CACTTAGCACAAA-G
64 AAC-TCGCACAAATG
*
16434577 CCTTCGGGACTTAGCCCGGA
1 CCTTC-GGACTTAACCCGGA
16434597 CATCATTCAA
Statistics
Matches: 152, Mismatches: 14, Indels: 21
0.81 0.07 0.11
Matches are distributed among these distances:
76 4 0.03
77 40 0.26
78 27 0.18
79 75 0.49
80 6 0.04
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (77 bp):
CCTTCGGACTTAACCCGGATTAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
CTCGCACAAATG
Found at i:16442395 original size:40 final size:40
Alignment explanation
Indices: 16442358--16442541 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
16442348 GCTACTCGTT
*
16442358 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
16442398 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
16442438 CAAATGCCTTCGGG-CTTAGCCCGGATTTAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
16442476 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
16442517 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16442542 CATCATTCAA
Statistics
Matches: 130, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
37 2 0.02
38 18 0.14
39 30 0.23
40 67 0.52
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:16442501 original size:78 final size:82
Alignment explanation
Indices: 16442358--16442541 Score: 247
Period size: 78 Copynumber: 2.3 Consensus size: 82
16442348 GCTACTCGTT
*
16442358 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
16442422 GATTTAGTAAC-TCGCA
66 GATATAGTAACTTAGCA
**
16442438 CAAATGCCTTCGGG-CTTAGCCCGGATT-TAGT-ACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
16442499 GGATATGGTCACTTAGCA
65 GGATATAGTAACTTAGCA
16442517 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16442542 CATCATTCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
77 3 0.03
78 42 0.45
79 32 0.34
80 16 0.17
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GATATAGTAACTTAGCA
Found at i:16446250 original size:42 final size:43
Alignment explanation
Indices: 16446195--16446312 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 43
16446185 AATTTGTGAT
16446195 TTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TATATGA
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGA
** * * * * *
16446237 TTTTGTGTAAGACCCTGTCAGGGATAGTGGCATCGATATTTGA
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGA
* * *
16446280 TTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TTACGTGTAAGACCATGTCTGGGACATTGGCAT
16446313 TGTACGAGCT
Statistics
Matches: 59, Mismatches: 16, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
42 29 0.49
43 30 0.51
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGA
Found at i:16446292 original size:43 final size:42
Alignment explanation
Indices: 16446195--16446312 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 42
16446185 AATTTGTGAT
* *
16446195 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGA
1 TTACGTGTAAGACCATGTCAGGGACAGTGGCATCGTATATGA
** * * *
16446237 TTTTGTGTAAGACCCTGTCAGGGATAGTGGCATCGATATTTGA
1 TTACGTGTAAGACCATGTCAGGGACAGTGGCATCG-TATATGA
* * *
16446280 TTACATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 TTACGTGTAAGACCATGTCAGGGACAG-TGGCAT
16446313 TGTACGAGCT
Statistics
Matches: 60, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
42 30 0.50
43 30 0.50
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCAGGGACAGTGGCATCGTATATGA
Found at i:16449214 original size:46 final size:46
Alignment explanation
Indices: 16449147--16449322 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
16449137 TATTTGGGCA
*
16449147 TCCGAACTCATTGAGTTGAGTCCAAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *** * * * *
16449193 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-GCG
* * * *
16449240 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
16449286 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
16449323 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
46 69 0.66
47 36 0.34
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:16449302 original size:93 final size:93
Alignment explanation
Indices: 16449143--16449314 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
16449133 GGGATATTTG
* * *
16449143 GGCATCCGAACTCATTGAGTTGAGTCCAAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
16449208 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * ** *
16449236 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
16449301 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
16449315 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:16454774 original size:21 final size:21
Alignment explanation
Indices: 16454750--16454789 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
16454740 AGTATTACGA
16454750 TTATT-AATATTATTTTTTACC
1 TTATTGAATATT-TTTTTTACC
*
16454771 TTATTGATTATTTTTTTTA
1 TTATTGAATATTTTTTTTA
16454790 TTTTTTGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (21 bp):
TTATTGAATATTTTTTTTACC
Found at i:16457895 original size:43 final size:43
Alignment explanation
Indices: 16457829--16457998 Score: 154
Period size: 43 Copynumber: 4.0 Consensus size: 43
16457819 GAACCGTACA
* *
16457829 ATGCCAACGTCCCAG--ATGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATG-GGTCTTACACGTAATCAAATAT-G
* * **
16457872 ATGCCACTGTCCTAGACA-GGGTCTTACACAAAATCAAATATG
1 ATGCCAATGTCCCAGACATGGGTCTTACACGTAATCAAATATG
16457914 ATGCCAATGTCCCAGACATGGG-CTTACACGTAAATCTAAA-ATTG
1 ATGCCAATGTCCCAGACATGGGTCTTACACGT-AATC-AAATA-TG
* * * * *
16457958 ATGCCAACGTCCCAGATAT-GGTGTTACACGAAATCACATAT
1 ATGCCAATGTCCCAGACATGGGTCTTACACGTAATCAAATAT
16457999 CGGAATCCTT
Statistics
Matches: 104, Mismatches: 15, Indels: 17
0.76 0.11 0.12
Matches are distributed among these distances:
42 27 0.26
43 46 0.44
44 30 0.29
45 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGGTCTTACACGTAATCAAATATG
Found at i:16469132 original size:24 final size:24
Alignment explanation
Indices: 16469073--16469132 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
16469063 ATATATCATT
*
16469073 TTAAAAACATTGTGTTCCTTTCAA
1 TTAAAAATATTGTGTTCCTTTCAA
*
16469097 -TAAAAATTTATT-TGTTCCTTTTTAA
1 TTAAAAA--TATTGTGTTCC-TTTCAA
16469122 TTAAAAATATT
1 TTAAAAATATT
16469133 CGTTTTGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
23 6 0.20
24 10 0.33
25 8 0.27
26 6 0.20
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.48
Consensus pattern (24 bp):
TTAAAAATATTGTGTTCCTTTCAA
Found at i:16480978 original size:43 final size:44
Alignment explanation
Indices: 16480804--16480976 Score: 146
Period size: 43 Copynumber: 4.0 Consensus size: 44
16480794 GACATAGGAT
* * *
16480804 TCGATATGTGATAT-CATGTAAGACCACATCTGGGACGTTGGCA
1 TCGATATATGATTTACATGTAAGACCACATCTGAGACGTTGGCA
* * * * *
16480847 TCGACT-TATGATTTACGTGCAAGACCACGTCTGGGATGTTGGCA
1 TCGA-TATATGATTTACATGTAAGACCACATCTGAGACGTTGGCA
*
16480891 TCG-TATCTGATTT-CATGTAAGACC-CTATCT-AGGACAG-TGGCA
1 TCGATATATGATTTACATGTAAGACCAC-ATCTGA-GAC-GTTGGCA
* * *
16480933 TTGATATTTG-TTTACATGTAAGACCACGTCTGAGACGTTGGCA
1 TCGATATATGATTTACATGTAAGACCACATCTGAGACGTTGGCA
16480976 T
1 T
16480977 TGTACGAACT
Statistics
Matches: 104, Mismatches: 15, Indels: 22
0.74 0.11 0.16
Matches are distributed among these distances:
41 1 0.01
42 26 0.25
43 46 0.44
44 31 0.30
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (44 bp):
TCGATATATGATTTACATGTAAGACCACATCTGAGACGTTGGCA
Found at i:16486575 original size:34 final size:35
Alignment explanation
Indices: 16486521--16486592 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 35
16486511 CAGGTATGTG
16486521 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
16486556 ATATATATTA-TTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
16486590 ATA
1 ATA
16486593 AAGAATGTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 27 0.73
35 10 0.27
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (35 bp):
ATATATATTATTTATGTGAGATTGATCTGACGAGA
Found at i:16491029 original size:24 final size:24
Alignment explanation
Indices: 16490997--16491044 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
16490987 GATTTTACTT
16490997 AATCAAGCATTTCACTGAGGCCTA
1 AATCAAGCATTTCACTGAGGCCTA
16491021 AATCAAGCATTTCACTGAGGCCTA
1 AATCAAGCATTTCACTGAGGCCTA
16491045 TAACAGCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (24 bp):
AATCAAGCATTTCACTGAGGCCTA
Found at i:16506744 original size:27 final size:27
Alignment explanation
Indices: 16506714--16506802 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
16506704 ACCAAAGTAT
* * *
16506714 CCTCGATTTGTAGAATTATCGTTTTAC
1 CCTCGATTTATAAAATTACCGTTTTAC
*
16506741 CCTCGATTTATAAAATTACCATTTTAC
1 CCTCGATTTATAAAATTACCGTTTTAC
*
16506768 CCT-TAGTTTATAAAATTACCGTTTTAC
1 CCTCGA-TTTATAAAATTACCGTTTTAC
*
16506795 CCTTGATT
1 CCTCGATT
16506803 GTGAAATTAC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.02
27 51 0.96
28 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.44
Consensus pattern (27 bp):
CCTCGATTTATAAAATTACCGTTTTAC
Found at i:16506824 original size:27 final size:27
Alignment explanation
Indices: 16506794--16506959 Score: 126
Period size: 27 Copynumber: 6.1 Consensus size: 27
16506784 TACCGTTTTA
* **
16506794 CCCTTGATTGTGAAATTACTGAAATAC
1 CCCTTGTTTGTGAAATTACCAAAATAC
**
16506821 CCC-TGTAGGAT-AGAATTACCAAAATAC
1 CCCTTGTTTG-TGA-AATTACCAAAATAC
* *
16506848 CCCTAGTTTGTAAAATTACCAAAATA-
1 CCCTTGTTTGTGAAATTACCAAAATAC
*
16506874 CCCTTAGTTTGTAAAATTACCAAAATAC
1 CCCTT-GTTTGTGAAATTACCAAAATAC
* * *
16506902 CACTAGTTTGTGAAATTACCGAAATA-
1 CCCTTGTTTGTGAAATTACCAAAATAC
* * *
16506928 -CCTTCAATTTGTAAAATTACCAAACTAC
1 CCCTT--GTTTGTGAAATTACCAAAATAC
16506956 CCCT
1 CCCT
16506960 GATTTACAAA
Statistics
Matches: 110, Mismatches: 19, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
25 2 0.02
26 8 0.07
27 90 0.82
28 7 0.06
29 3 0.03
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (27 bp):
CCCTTGTTTGTGAAATTACCAAAATAC
Found at i:16506875 original size:54 final size:54
Alignment explanation
Indices: 16506801--16506929 Score: 170
Period size: 54 Copynumber: 2.4 Consensus size: 54
16506791 TTACCCTTGA
* * *
16506801 TTGTGAAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACCGAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGT
* * * **
16506855 TTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCACTAGT
1 TTGTGAAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
16506909 TTGTGAAATTACCGAAATACC
1 TTGTGAAATTACCGAAATACC
16506930 TTCAATTTGT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 61 0.95
55 3 0.05
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (54 bp):
TTGTGAAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:16506964 original size:27 final size:27
Alignment explanation
Indices: 16506834--16506984 Score: 173
Period size: 27 Copynumber: 5.6 Consensus size: 27
16506824 TGTAGGATAG
16506834 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
16506861 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
16506888 AATTACCAAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
16506915 AATTACCGAAATA-CCTTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* **
16506942 AATTACCAAACTACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
16506969 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
16506985 TTGACTTTCT
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
26 4 0.04
27 97 0.93
28 3 0.03
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:16507034 original size:26 final size:27
Alignment explanation
Indices: 16506962--16507047 Score: 86
Period size: 26 Copynumber: 3.1 Consensus size: 27
16506952 CTACCCCTGA
* * *
16506962 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTATAGAAATACCATT-AG
16506990 TTT-CTAAAAATTATAGAAATACCATT-G
1 TTTAC--AAAATTATAGAAATACCATTAG
* *
16507017 TTTACAAAATTATTGAAATACCCTTAG
1 TTTACAAAATTATAGAAATACCATTAG
16507044 TTTA
1 TTTA
16507048 TAGATTTACC
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
26 18 0.37
27 9 0.18
28 4 0.08
29 18 0.37
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCATTAG
Found at i:16507175 original size:27 final size:28
Alignment explanation
Indices: 16507112--16507176 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 28
16507102 TAAAAAGATC
*
16507112 GTAA-AGCCCTTGTAGGGTAAAGTGACT
1 GTAATAGCCCTTGTAGGGTAAAATGACT
*
16507139 GTAATA-CCCTTGTATGGTAAAATGA-T
1 GTAATAGCCCTTGTAGGGTAAAATGACT
16507165 G-AATATGCCCTT
1 GTAATA-GCCCTT
16507177 ATGTTCCGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 4 0.12
26 2 0.06
27 26 0.79
28 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (28 bp):
GTAATAGCCCTTGTAGGGTAAAATGACT
Found at i:16508056 original size:24 final size:24
Alignment explanation
Indices: 16507974--16508056 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 24
16507964 AGGAAGTGCT
* ** *
16507974 AAAAGGGCTCTGCCTTAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
16507998 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
*
16508023 AGAAAGGGCTTTGCCCCAG-TTATT
1 A-AAAGGGCTTTGCCCCAGTTTATC
16508047 AAAAGAGGCT
1 AAAAG-GGCT
16508057 AGGCCTCTAG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.20
25 37 0.73
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:16508312 original size:31 final size:31
Alignment explanation
Indices: 16508263--16508345 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
16508253 CGCTTACAGT
16508263 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
16508293 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
16508324 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
16508346 TCGAGACTGA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 16 0.31
31 36 0.69
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:16512762 original size:25 final size:25
Alignment explanation
Indices: 16512732--16512809 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
16512722 TAGGATTTTA
16512732 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
* * * *
16512757 TGTGAT-AAGGCCG-A-ATG-GCCA-A
1 TGTGATGAATG-TGAACATGCG-TATG
16512779 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
16512804 TGTGAT
1 TGTGAT
16512810 AAGGCCGAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 8 0.21
25 14 0.37
ACGTcount: A:0.28, C:0.10, G:0.32, T:0.29
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCGTATG
Found at i:16512782 original size:47 final size:47
Alignment explanation
Indices: 16512731--16512921 Score: 292
Period size: 47 Copynumber: 4.1 Consensus size: 47
16512721 TTAGGATTTT
* *
16512731 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
16512778 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
16512825 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
16512872 ATGTGATGAATGTGAGCATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
16512919 ATG
1 ATG
16512922 CGAAATGTGT
Statistics
Matches: 134, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 134 1.00
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:16513031 original size:46 final size:46
Alignment explanation
Indices: 16512895--16513031 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
16512885 GAGCATGTAT
* *
16512895 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
16512941 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
16512987 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
16513032 TGTATATATA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:16518091 original size:435 final size:435
Alignment explanation
Indices: 16517285--16519887 Score: 4149
Period size: 435 Copynumber: 6.0 Consensus size: 435
16517275 CAACTAATCT
* * * * *
16517285 TGTAACACCCCAAACTC-AGCCTAGATGTTAGGCTTGAACCTAACGTGTTACATTGAAGTGTTTT
1 TGTAACACCCCAAACTCGA-CCTAGAAGTTAGGCCTGAATCTGACGTGTCACATTGAAGTGTTTT
* *
16517349 TCGAAAACCATGTTTTCATTGAAAACCCTTCTTATTTG----TTTGAGTAAAATCCCAGTTATGT
65 TCGAAAACCATGTTTTCATTGAAAACCCTTCTTATTTGAAAACTTGAGTAAAATCCCAGTTACGT
** *
16517410 TAGTTTATTTTATAAAGTGGTACATTGAAAAATTATTTATTCTATTCCAAAAATTTCTTTTAAGT
130 TAGTTTATTTTATAAAGTGGTACATTGAAAAGCTATTAATTCTATTCCAAAAATTTCTTTTAAGT
* *
16517475 TGCGGAAGCTAATTTTAAAAGTAACTGATTTATGAAAACGTGATGTTAAAAAATAAGTTGCGAAA
195 TGCGGAAGCTAATTTTAAAAGTAACTGATTTACGAAAACGTGATGTTAAAAACTAAGTTGCGAAA
* * * *
16517540 TCGTTCCGAGAATGTTGCGAAAACGTAGTGTTGTTTATAAATAGTTATAAATCGAAGTAAATAAA
260 CCGTTCCGAGAATGTTGCGGAAACGTAGTGTTGTTTAAAAACAGTTATAAATCGAAGTAAATAAA
* *
16517605 ACCCAAAGTTAAAATCTAGAAACTTTAAGAGGCCTTATTTCAAAAGTTGAAAACCCAAAACGAAA
325 ACCCAAAGTTAAAATCCAGAAACTTTAAGAGGCCTTATTACAAAAGTTGAAAACCCAAAACGAAA
*
16517670 TCTTAAACATAAATAAAGTCCAAAGGCAGTCGTGTGGCCATCTAAA
390 TCTAAAACATAAATAAAGTCCAAAGGCAGTCGTGTGGCCATCTAAA
*
16517716 TGTAACACCCCAAACTCGACCTAGAAGTTAGGCCTGAATCTGACGTGTCAAATTGAAGTGTTTTT
1 TGTAACACCCCAAACTCGACCTAGAAGTTAGGCCTGAATCTGACGTGTCACATTGAAGTGTTTTT
* * *
16517781 CGAAAACCATATTTTCATTGAAAACCTTTCTTATTTGAAAATTTGAGTAAAATCCCAGTTACGTT
66 CGAAAACCATGTTTTCATTGAAAACCCTTCTTATTTGAAAACTTGAGTAAAATCCCAGTTACGTT
16517846 AGTTTATTTTATAAAGTGGTACATTGAAAAGCTATTAATTCTATTCCAAAAATTTCTTTTAAGTT
131 AGTTTATTTTATAAAGTGGTACATTGAAAAGCTATTAATTCTATTCCAAAAATTTCTTTTAAGTT
* *
16517911 GCGGAAGCTAATTTTAAAAGTAACTGATTTACAAAAACGTGATGTTAAAAACTAAGTTGCGAAAT
196 GCGGAAGCTAATTTTAAAAGTAACTGATTTACGAAAACGTGATGTTAAAAACTAAGTTGCGAAAC
** * * *
16517976 CGTTTTGAGAATTTTGCGGAAACATAGTGTTGTTTAAAAACAGTTATAAGTCGAAGTAAATAAAA
261 CGTTCCGAGAATGTTGCGGAAACGTAGTGTTGTTTAAAAACAGTTATAAATCGAAGTAAATAAAA
* * *
16518041 CCCAAAGTTAAAATCCAGAAATTTTAAGATGCCTTATTACAAAAGTTGAAAACCCAAAACGGAAT
326 CCCAAAGTTAAAATCCAGAAACTTTAAGAGGCCTTATTACAAAAGTTGAAAACCCAAAACGAAAT
*
16518106 CTAAAACATAAATAAAGTCCAAAGGCAGTTGTGTGGCCATCTAAA
391 CTAAAACATAAATAAAGTCCAAAGGCAGTCGTGTGGCCATCTAAA
* * * * *
16518151 TGTAACACCCCAAACTC-AGCCTAGATGTTAGGCTTGAACCTAACGTGTTACATTGAAGTGTTTT
1 TGTAACACCCCAAACTCGA-CCTAGAAGTTAGGCCTGAATCTGACGTGTCACATTGAAGTGTTTT
*
16518215 TCGAAAACAATGTTTTCATTGAAAACCCTTCTTATTTGAAAACTTGAGTAAAATCCCAGTTACGT
65 TCGAAAACCATGTTTTCATTGAAAACCCTTCTTATTTGAAAACTTGAGTAAAATCCCAGTTACGT
** *
16518280 TAGTTTATTTTATAAAGTGGTACATTGAAAAATTATTTATTCTATTCCAAAAATTTCTTTTAAGT
130 TAGTTTATTTTATAAAGTGGTACATTGAAAAGCTATTAATTCTATTCCAAAAATTTCTTTTAAGT
* * *
16518345 TGCGGAAGATAATTTTAAAAGTAACTGATTTATGAAAACGTGATGTTAAAAAATAAGTTGCGAAA
195 TGCGGAAGCTAATTTTAAAAGTAACTGATTTACGAAAACGTGATGTTAAAAACTAAGTTGCGAAA
* * * *
16518410 CCGTTCCGAGAATGTTGCGAAAACGTAGTGTTGTTTAGAAACAATTATAAATTGAAGTAAATAAA
260 CCGTTCCGAGAATGTTGCGGAAACGTAGTGTTGTTTAAAAACAGTTATAAATCGAAGTAAATAAA
* * *
16518475 ACCCAAAGTTAAAATCTAGAAACTTTAAGAGGCCTTATTTCAAAATTTGAAAACCCAAAACGAAA
325 ACCCAAAGTTAAAATCCAGAAACTTTAAGAGGCCTTATTACAAAAGTTGAAAACCCAAAACGAAA
* * *
16518540 TCTTAAACATTAATAAAGTCCAAAGGCAGTAGTGTGGCCATCTAAA
390 TCTAAAACATAAATAAAGTCCAAAGGCAGTCGTGTGGCCATCTAAA
16518586 TGTAACACCCCAAACTCGACCTAGAAGTTAGGCCTGAATCTGACGTGTCACATTGAAGTGTTTTT
1 TGTAACACCCCAAACTCGACCTAGAAGTTAGGCCTGAATCTGACGTGTCACATTGAAGTGTTTTT
*
16518651 CGAAAACCATGTTTTCATTGAAAACCTTTCTTATTTGAAAACTTGAGTAAAATCCCAGTTACGTT
66 CGAAAACCATGTTTTCATTGAAAACCCTTCTTATTTGAAAACTTGAGTAAAATCCCAGTTACGTT
16518716 AGTTTATTTTATAAAGTGGTACATTGAAAAGCTATTAATTCTATTCCAAAAATTTCTTTTAAGTT
131 AGTTTATTTTATAAAGTGGTACATTGAAAAGCTATTAATTCTATTCCAAAAATTTCTTTTAAGTT
* *
16518781 GCGGAAGCTAATTTTAAAAGTAACTGATTTACAAAAACGTGATGTTAAAAACTAAGTTGCGAAAT
196 GCGGAAGCTAATTTTAAAAGTAACTGATTTACGAAAACGTGATGTTAAAAACTAAGTTGCGAAAC
** * *
16518846 CGTTTTGAGAATTTTGCGGAAACGTAGTTTTGTTTAAAAACAGTTATAAATCGAAGTAAATAAAA
261 CGTTCCGAGAATGTTGCGGAAACGTAGTGTTGTTTAAAAACAGTTATAAATCGAAGTAAATAAAA
* * *
16518911 CCCAAAGTTAAAATCCAAAAATTTTAAGAGGCCTTATTACAAAAGTTGAAAACCGAAAAC-AGAA
326 CCCAAAGTTAAAATCCAGAAACTTTAAGAGGCCTTATTACAAAAGTTGAAAACCCAAAACGA-AA
* * *
16518975 TCTAAAACATAAATAAAGTCCAAAGGAACTCGTGTGACCATCTAAA
390 TCTAAAACATAAATAAAGTCCAAAGGCAGTCGTGTGGCCATCTAAA
* * * *
16519021 TGTAACACCCCAAACTCGGCCTAGAAGTTAGGCCCGAATTTGACGTATCACATTGAAGTGTTTTT
1 TGTAACACCCCAAACTCGACCTAGAAGTTAGGCCTGAATCTGACGTGTCACATTGAAGTGTTTTT
* *
16519086 CGAAAACCATGTTTACATTGAAAACCCTTCTTATTTGAAAACTTGAGTAAAATCCTAGTTACGTT
66 CGAAAACCATGTTTTCATTGAAAACCCTTCTTATTTGAAAACTTGAGTAAAATCCCAGTTACGTT
* * * * * *
16519151 AGCTTATTTTATAAGGTGGTACATTAAAAAGTTATTAATTATATTCCCAAAATTTCTTTTAAGTT
131 AGTTTATTTTATAAAGTGGTACATTGAAAAGCTATTAATTCTATTCCAAAAATTTCTTTTAAGTT
* *
16519216 GCGGAAGCTAATTTTAAAAGTAACTGATTTACGAAAATGTGATGTTAAAAACTAAGTTGCAAAAC
196 GCGGAAGCTAATTTTAAAAGTAACTGATTTACGAAAACGTGATGTTAAAAACTAAGTTGCGAAAC
* * * * * *
16519281 CATTCCAAGAATGTTGCAGAAATGTATTGTTGTTTAAAAACAGTTATAAATTGAAGTAAATAAAA
261 CGTTCCGAGAATGTTGCGGAAACGTAGTGTTGTTTAAAAACAGTTATAAATCGAAGTAAATAAAA
*
16519346 CCCAAAGTTAAAATCCAGAAACTTTAAGAGGCCTTATTACAAAAGTTGAAAACCCAAAACGGAAT
326 CCCAAAGTTAAAATCCAGAAACTTTAAGAGGCCTTATTACAAAAGTTGAAAACCCAAAACGAAAT
*
16519411 CTAAAACATAAATAAAGTCCAAAGGCAGTTGTGTGGCCATCTAAA
391 CTAAAACATAAATAAAGTCCAAAGGCAGTCGTGTGGCCATCTAAA
* *
16519456 TGTAACACCCCAAACTCGGCCTAGAAGTTAGGCCCGAATCTGACGTGTCACATTGAAGTGTTTTT
1 TGTAACACCCCAAACTCGACCTAGAAGTTAGGCCTGAATCTGACGTGTCACATTGAAGTGTTTTT
* *
16519521 CGAAAACAATGTTTTCATTGAAAACCCTTCTTATTTGAAAACTTGAGTAAAATCCTAGTTACGTT
66 CGAAAACCATGTTTTCATTGAAAACCCTTCTTATTTGAAAACTTGAGTAAAATCCCAGTTACGTT
* * *
16519586 AGTTTATTTTATAAAGTGATACATTGAAAAGCTATTCATTCTATTCCCAAAATTTCTTTTAAGTT
131 AGTTTATTTTATAAAGTGGTACATTGAAAAGCTATTAATTCTATTCCAAAAATTTCTTTTAAGTT
* * *
16519651 GCGAAAGCTAATTTTAAAAGTAACTGATTTACGAAAACGAGATGTTAAAAACTAAGTTGTGAAAC
196 GCGGAAGCTAATTTTAAAAGTAACTGATTTACGAAAACGTGATGTTAAAAACTAAGTTGCGAAAC
* * * *
16519716 CATTCTGAGAATGTTGCGGAAACATAGTGTTGTTTAAAAACAGTTATAAATCAAAGTAAATAAAA
261 CGTTCCGAGAATGTTGCGGAAACGTAGTGTTGTTTAAAAACAGTTATAAATCGAAGTAAATAAAA
* *
16519781 CCCAAAGTTAAAATCCAGAAACTTTAAGAGGCCTTATTACAAAAGATGAAAACCCAAAACGGAAT
326 CCCAAAGTTAAAATCCAGAAACTTTAAGAGGCCTTATTACAAAAGTTGAAAACCCAAAACGAAAT
* *
16519846 CTAAAACATAAATAAAGTCCAAAGGCAGTCATGTGTCCATCT
391 CTAAAACATAAATAAAGTCCAAAGGCAGTCGTGTGGCCATCT
16519888 CCGAGTCCCT
Statistics
Matches: 1999, Mismatches: 164, Indels: 14
0.92 0.08 0.01
Matches are distributed among these distances:
431 92 0.05
432 1 0.00
434 2 0.00
435 1903 0.95
436 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (435 bp):
TGTAACACCCCAAACTCGACCTAGAAGTTAGGCCTGAATCTGACGTGTCACATTGAAGTGTTTTT
CGAAAACCATGTTTTCATTGAAAACCCTTCTTATTTGAAAACTTGAGTAAAATCCCAGTTACGTT
AGTTTATTTTATAAAGTGGTACATTGAAAAGCTATTAATTCTATTCCAAAAATTTCTTTTAAGTT
GCGGAAGCTAATTTTAAAAGTAACTGATTTACGAAAACGTGATGTTAAAAACTAAGTTGCGAAAC
CGTTCCGAGAATGTTGCGGAAACGTAGTGTTGTTTAAAAACAGTTATAAATCGAAGTAAATAAAA
CCCAAAGTTAAAATCCAGAAACTTTAAGAGGCCTTATTACAAAAGTTGAAAACCCAAAACGAAAT
CTAAAACATAAATAAAGTCCAAAGGCAGTCGTGTGGCCATCTAAA
Found at i:16520997 original size:27 final size:27
Alignment explanation
Indices: 16520964--16521048 Score: 93
Period size: 27 Copynumber: 3.1 Consensus size: 27
16520954 CAAAACAGTC
*
16520964 ATTTTACCCTAC-AGAGGTATTTCAATA
1 ATTTTACACTACAAG-GGTATTTCAATA
*
16520991 ATTTTACACTACAAGGGTATTTCAGTA
1 ATTTTACACTACAAGGGTATTTCAATA
* * *
16521018 ATTTTACA-AACTAGGGGTATTTCAGTA
1 ATTTTACACTAC-AAGGGTATTTCAATA
16521045 ATTT
1 ATTT
16521049 CACAAATTGA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
26 2 0.04
27 48 0.92
28 2 0.04
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCAATA
Found at i:16521037 original size:54 final size:55
Alignment explanation
Indices: 16520979--16521143 Score: 153
Period size: 54 Copynumber: 3.1 Consensus size: 55
16520969 ACCCTACAGA
* *
16520979 GGTATTTCAATAATTTTACACTA-CAAGGGTATTTCAGTAATTTTACAAACTAGG
1 GGTATTTCAGTAATTTTACACAACCAAGGGTATTTCAGTAATTTTACAAACTAGG
* *** * *
16521033 GGTATTTCAGTAATTTCACA-AATTGAGGGTATTT-TGATAATTTCACAAA-TCAGG
1 GGTATTTCAGTAATTTTACACAACCAAGGGTATTTCAG-TAATTTTACAAACT-AGG
* * * *
16521087 GGTATTTCGGTAA-TTT-CACAACCAAGAGGTCTTTCAGTAATTTTACAAGCTGGG
1 GGTATTTCAGTAATTTTACACAACCAAG-GGTATTTCAGTAATTTTACAAACTAGG
16521141 GGT
1 GGT
16521144 CTTAACGACC
Statistics
Matches: 87, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
52 2 0.02
53 9 0.10
54 74 0.85
55 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (55 bp):
GGTATTTCAGTAATTTTACACAACCAAGGGTATTTCAGTAATTTTACAAACTAGG
Found at i:16521146 original size:27 final size:27
Alignment explanation
Indices: 16520979--16521143 Score: 131
Period size: 27 Copynumber: 6.1 Consensus size: 27
16520969 ACCCTACAGA
* * * *
16520979 GGTATTTCAATAATTTTACACTAC-AAG
1 GGTATTTCAGTAATTTCACA-AACTAGG
*
16521006 GGTATTTCAGTAATTTTACAAACTAGG
1 GGTATTTCAGTAATTTCACAAACTAGG
*
16521033 GGTATTTCAGTAATTTCACAAA-TTGAG
1 GGTATTTCAGTAATTTCACAAACTAG-G
*
16521060 GGTATTT-TGATAATTTCACAAA-TCAGG
1 GGTATTTCAG-TAATTTCACAAACT-AGG
* * * *
16521087 GGTATTTCGGTAATTTCACAACCAAGA
1 GGTATTTCAGTAATTTCACAAACTAGG
* * * *
16521114 GGTCTTTCAGTAATTTTACAAGCTGGG
1 GGTATTTCAGTAATTTCACAAACTAGG
16521141 GGT
1 GGT
16521144 CTTAACGACC
Statistics
Matches: 114, Mismatches: 18, Indels: 12
0.79 0.12 0.08
Matches are distributed among these distances:
26 5 0.04
27 107 0.94
28 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTATTTCAGTAATTTCACAAACTAGG
Found at i:16527937 original size:27 final size:27
Alignment explanation
Indices: 16527906--16528082 Score: 203
Period size: 27 Copynumber: 6.6 Consensus size: 27
16527896 TAAATTGTAC
*
16527906 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
16527933 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
16527959 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
16527987 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
16528014 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
16528041 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
16528068 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16528083 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:16527967 original size:54 final size:55
Alignment explanation
Indices: 16527906--16528082 Score: 225
Period size: 54 Copynumber: 3.3 Consensus size: 55
16527896 TAAATTGTAC
* **
16527906 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * ** *
16527961 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * *
16528014 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
16528068 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16528083 GACTCAATAT
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.01
54 104 0.99
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:16528046 original size:81 final size:81
Alignment explanation
Indices: 16527907--16528061 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 81
16527897 AAATTGTACA
* * *
16527907 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
16527972 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
16527988 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGTG
*
16528052 TGCGAGTTGA
65 TGCGAATTGA
16528062 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
80 1 0.02
81 65 0.98
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:16528073 original size:81 final size:81
Alignment explanation
Indices: 16527903--16528082 Score: 227
Period size: 81 Copynumber: 2.2 Consensus size: 81
16527893 GATTAAATTG
* * *
16527903 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
16527968 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
16527984 TGCGGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTA
1 TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTA
* **
16528048 AGTGTGCGAGTTGATTA
65 AGTGTGCGAATTGACCA
* *
16528065 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
16528083 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 1 0.01
81 82 0.99
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:16536069 original size:27 final size:27
Alignment explanation
Indices: 16536039--16536213 Score: 199
Period size: 27 Copynumber: 6.5 Consensus size: 27
16536029 AAATTGTACA
*
16536039 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGTT
* * *
16536066 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGTT
* **
16536093 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTT
* *
16536120 GCACTAAGTGTGCGAGTTGACTATGTA
1 GCACTAAGTGTGCGAATTGACTATGTT
* *
16536147 GCACTAAGTGTGCGATTTGATTATG-T
1 GCACTAAGTGTGCGAATTGACTATGTT
* * * *
16536173 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGACTATGTT
*
16536200 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
16536214 GACTTAATAT
Statistics
Matches: 127, Mismatches: 20, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
26 23 0.18
27 104 0.82
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTT
Found at i:16536099 original size:54 final size:54
Alignment explanation
Indices: 16536038--16536213 Score: 232
Period size: 54 Copynumber: 3.3 Consensus size: 54
16536028 TAAATTGTAC
**
16536038 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATG-TGCACTAAGTGTGCGAGTTGAATATGAT
* * * *
16536093 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATG-TGCACTAAGTGTGCGAGTTGAATATGAT
* *
16536146 AGCACTAAGTGTGCGATTTGATTATGTGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTGCACTAAGTGTGCGAGTTGAATATGAT
*
16536199 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16536214 GACTTAATAT
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
53 39 0.37
54 67 0.63
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGACTATGTGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:16541827 original size:37 final size:37
Alignment explanation
Indices: 16541774--16541913 Score: 253
Period size: 37 Copynumber: 3.8 Consensus size: 37
16541764 CGAATAGTCC
* *
16541774 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
16541811 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
16541848 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
16541885 CCACACGTAGTCGTCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
16541914 ATATATTTCC
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:16542116 original size:48 final size:48
Alignment explanation
Indices: 16542054--16542205 Score: 223
Period size: 48 Copynumber: 3.2 Consensus size: 48
16542044 ATATACACAC
* * *
16542054 ATCTCCTACATATTTCACATTAGCCATCCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
16542102 ATATCATACATATTTCACATTAGCCATTCGGATTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
** *
16542150 ATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
16542198 ATCTCATA
1 ATCTCATA
16542206 TATACCACAT
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 92 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:16542216 original size:24 final size:24
Alignment explanation
Indices: 16542184--16542229 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
16542174 CATTCGGCTT
*
16542184 TACCACATATACGTATCTCATATA
1 TACCACATATACATATCTCATATA
*
16542208 TACCACATATATATATCTCATA
1 TACCACATATACATATCTCATA
16542230 CATATTTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.35
Consensus pattern (24 bp):
TACCACATATACATATCTCATATA
Found at i:16542232 original size:72 final size:72
Alignment explanation
Indices: 16542136--16542277 Score: 257
Period size: 72 Copynumber: 2.0 Consensus size: 72
16542126 CATTCGGATT
* *
16542136 TACCACATATATATATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCACATATACGTATC
1 TACCACATATATATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACATATC
16542201 TCATATA
66 TCATATA
*
16542208 TACCACATATATATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCATATATACATATC
1 TACCACATATATATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACATATC
16542273 TCATA
66 TCATA
16542278 CATATTTCAC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (72 bp):
TACCACATATATATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACATATC
TCATATA
Found at i:16542266 original size:48 final size:48
Alignment explanation
Indices: 16542208--16542321 Score: 201
Period size: 48 Copynumber: 2.4 Consensus size: 48
16542198 ATCTCATATA
*
16542208 TACCACATATATATATCTCATACATATTTCATATTAGCCATTCGGCTT
1 TACCACATATATATATCTCATACATATTTCACATTAGCCATTCGGCTT
* *
16542256 TACCATATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
1 TACCACATATATATATCTCATACATATTTCACATTAGCCATTCGGCTT
16542304 TACCACATATATATATCT
1 TACCACATATATATATCT
16542322 ATTTATCTTG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 61 1.00
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (48 bp):
TACCACATATATATATCTCATACATATTTCACATTAGCCATTCGGCTT
Found at i:16542280 original size:120 final size:120
Alignment explanation
Indices: 16542088--16542314 Score: 373
Period size: 120 Copynumber: 1.9 Consensus size: 120
16542078 CATCCGGCTT
*
16542088 TACCAAATATACATATATCATACATATTTCACATTAGCCATTCGGATTTACCACATATATATATC
1 TACCAAATATACATATATCATACATATTTCACATTAGCCATTCGGATTTACCACATATACATATC
**
16542153 TCATACATATTTCATGTTAGCCATTCGGCTTTACCACATATACGTATCTCATATA
66 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACGTATCTCATATA
* * * * * *
16542208 TACCACATATATATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCATATATACATATC
1 TACCAAATATACATATATCATACATATTTCACATTAGCCATTCGGATTTACCACATATACATATC
16542273 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATA
66 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATA
16542315 TATATCTATT
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
120 98 1.00
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.37
Consensus pattern (120 bp):
TACCAAATATACATATATCATACATATTTCACATTAGCCATTCGGATTTACCACATATACATATC
TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACGTATCTCATATA
Found at i:16547362 original size:37 final size:37
Alignment explanation
Indices: 16547309--16547411 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
16547299 CGAATAGTCC
* *
16547309 CCACACGTAGTTATCGGATCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
16547346 CCACACGTAGTCATCGGGTCTTACCCAGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
16547383 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
16547412 ATATATTTCC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:16547613 original size:48 final size:48
Alignment explanation
Indices: 16547552--16548177 Score: 963
Period size: 48 Copynumber: 13.0 Consensus size: 48
16547542 ATATACAGAC
* *
16547552 ATCTCCTATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
16547600 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
16547648 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
16547696 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
16547744 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
16547792 ATCCCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
16547840 ATCTCATTCATATTTCACATTAGCCATTAGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
16547888 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
16547936 ATCTCATATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC----ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
16547988 ATCTCATACACATTTCACATTAGCCA-TCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
16548035 ATTTCATACACATTTCACACTAGCCATT---CTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * ** *
16548080 ATTTCATACATATTTCACATTAGTTATTCGGTTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
16548128 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
16548176 AT
1 AT
16548178 ATTTATCTTG
Statistics
Matches: 534, Mismatches: 36, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
45 41 0.08
47 45 0.08
48 403 0.75
52 45 0.08
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:16552937 original size:30 final size:29
Alignment explanation
Indices: 16552901--16552968 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 29
16552891 ATGAATCGAA
16552901 AGCTTTGGCACTAAGTGTACGATTTAAACT
1 AGCTTTGGCACTAAGTGTACGATTT-AACT
*
16552931 AGCTTTGGCACTAAGTGTGCGATTTAACT
1 AGCTTTGGCACTAAGTGTACGATTTAACT
16552960 AGCTTTGGC
1 AGCTTTGGC
16552969 TACTTGAGGC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 13 0.35
30 24 0.65
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTACGATTTAACT
Found at i:16555739 original size:40 final size:40
Alignment explanation
Indices: 16555421--16555725 Score: 466
Period size: 40 Copynumber: 7.6 Consensus size: 40
16555411 CGGATGATAA
*
16555421 CCGGGCTAAGTCCCGAAGGCATTTGTTCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
**
16555461 CCGGGCTAAGTTTCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
16555501 CCGGGCTAGGTCCCGAACGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
*
16555541 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
16555581 CCAGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
16555621 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* ** * **
16555661 CCAGGCTAAGTCCTAAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
**
16555701 CCGGGCTAAGTTTCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
16555726 AGCAAGTAGC
Statistics
Matches: 240, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 240 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.30
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
Found at i:16563825 original size:40 final size:40
Alignment explanation
Indices: 16563766--16564092 Score: 446
Period size: 40 Copynumber: 8.5 Consensus size: 40
16563756 CGGATGATAA
16563766 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
*
16563806 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
16563846 CCGGGCTAAGTCCCGAAGGCATTTGTGC--G-----A---
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
16563876 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
*
16563915 CCGGGCTAAGTCCCGAAGGAATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
*
16563955 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* * **
16563995 CCGGGCTAAGTCCTGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* * *
16564035 CCGGGCTAAGTCTCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATTT
**
16564075 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
16564093 TACTTGGTTG
Statistics
Matches: 257, Mismatches: 18, Indels: 25
0.86 0.06 0.08
Matches are distributed among these distances:
29 27 0.11
31 1 0.00
33 1 0.00
36 1 0.00
38 1 0.00
39 15 0.06
40 211 0.82
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
Found at i:16563889 original size:29 final size:29
Alignment explanation
Indices: 16563847--16563904 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
16563837 TTACTATTTC
16563847 CGGGCTAAGTCCCGAAGGCATTTGTGCGA
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGA
16563876 CGGGCTAAGTCCCGAAGGCATTTGTGCGA
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGA
16563905 GTTACTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.21, C:0.24, G:0.34, T:0.21
Consensus pattern (29 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGA
Found at i:16563921 original size:69 final size:70
Alignment explanation
Indices: 16563810--16564024 Score: 297
Period size: 69 Copynumber: 2.9 Consensus size: 70
16563800 CTATTTCCGA
16563810 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTGTGCG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTGTGCG
16563875 A-CGG
66 ATCGG
*
16563879 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGAATTTGTGCG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTGTGC-
16563944 AGTTACTATTTCCGG
65 -G-----A--T-CGG
* * *
16563959 GCTAAGTCCCGAAGGCATTTGTACGAGTTACTATTTCCGGGCTAAGTCCTGAAGGCAATTGTGCG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTGTGCG
16564024 A
66 A
16564025 GTTACTATAA
Statistics
Matches: 130, Mismatches: 5, Indels: 18
0.85 0.03 0.12
Matches are distributed among these distances:
69 63 0.48
71 1 0.01
73 1 0.01
76 1 0.01
78 1 0.01
80 63 0.48
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (70 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTGTGCG
ATCGG
Found at i:16563958 original size:109 final size:112
Alignment explanation
Indices: 16563767--16564092 Score: 428
Period size: 109 Copynumber: 2.9 Consensus size: 112
16563757 GGATGATAAC
*
16563767 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGAGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTGT
16563832 GCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTGT-G-CGA-
66 GCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTGTAGTCGAT
*
16563876 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGAATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTGT
*
16563941 GCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATTT
66 GCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTGT---AG-T-CGA--T
* * ** *
16563995 CCGGGCTAAGTCCTGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCTCGAAGGCATTTG
1 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTG
* * **
16564060 AGCGAG-TAGCTATATCC-GGCTAAACCCCGAAGG
65 TGCGAGTTA-CTATTTCCGGGCTAAGTCCCGAAGG
16564093 TACTTGGTTG
Statistics
Matches: 192, Mismatches: 13, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
109 103 0.54
113 1 0.01
116 2 0.01
119 16 0.08
120 70 0.36
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (112 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTGTAGTCGAT
Found at i:16569520 original size:21 final size:21
Alignment explanation
Indices: 16569496--16569563 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
16569486 CTAGGAACTA
16569496 TGTGATCTGAAATCATTGAGT
1 TGTGATCTGAAATCATTGAGT
* * *
16569517 TGTGGTCT-AAGTTCA-TGATAT
1 TGTGATCTGAA-ATCATTGA-GT
* *
16569538 ATGTGATCTGAACTCATTAAGT
1 -TGTGATCTGAAATCATTGAGT
16569560 TGTG
1 TGTG
16569564 GTTTGAGTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
20 5 0.14
21 15 0.43
22 11 0.31
23 4 0.11
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (21 bp):
TGTGATCTGAAATCATTGAGT
Found at i:16569542 original size:22 final size:22
Alignment explanation
Indices: 16569517--16569585 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
16569507 ATCATTGAGT
16569517 TGTGGTCTAAGTTCATGATATA
1 TGTGGTCTAAGTTCATGATATA
* * *
16569539 TGTGATCTGAA-CTCATTA-AGT-
1 TGTGGTCT-AAGTTCATGATA-TA
* *
16569560 TGTGGTTTGAGTTCATGATATA
1 TGTGGTCTAAGTTCATGATATA
16569582 TGTG
1 TGTG
16569586 ACATCTGAAC
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
20 1 0.03
21 13 0.38
22 18 0.53
23 2 0.06
ACGTcount: A:0.25, C:0.09, G:0.25, T:0.42
Consensus pattern (22 bp):
TGTGGTCTAAGTTCATGATATA
Found at i:16569555 original size:43 final size:43
Alignment explanation
Indices: 16569494--16569631 Score: 204
Period size: 43 Copynumber: 3.2 Consensus size: 43
16569484 CACTAGGAAC
*
16569494 TATGTGATCTGAAATCATTGAGTTGTGGTCTAAGTTCATGATA
1 TATGTGATCTGAACTCATTGAGTTGTGGTCTAAGTTCATGATA
* * *
16569537 TATGTGATCTGAACTCATTAAGTTGTGGTTTGAGTTCATGATA
1 TATGTGATCTGAACTCATTGAGTTGTGGTCTAAGTTCATGATA
* *
16569580 TATGTGACATCTGAACTCATTGAGTTGTGGTCTAATTTCATGATG
1 TATGTG--ATCTGAACTCATTGAGTTGTGGTCTAAGTTCATGATA
16569625 TATGTGA
1 TATGTGA
16569632 CACATGTTTT
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
43 46 0.55
45 38 0.45
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (43 bp):
TATGTGATCTGAACTCATTGAGTTGTGGTCTAAGTTCATGATA
Found at i:16569607 original size:45 final size:45
Alignment explanation
Indices: 16569500--16569633 Score: 200
Period size: 45 Copynumber: 3.0 Consensus size: 45
16569490 GAACTATGTG
*
16569500 ATCTGAAATCATTGAGTTGTGGTCTAAGTTCATGATATATGTG--
1 ATCTGAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGAC
* * *
16569543 ATCTGAACTCATTAAGTTGTGGTTTGAGTTCATGATATATGTGAC
1 ATCTGAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGAC
* *
16569588 ATCTGAACTCATTGAGTTGTGGTCTAATTTCATGATGTATGTGAC
1 ATCTGAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGAC
16569633 A
1 A
16569634 CATGTTTTAG
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
43 39 0.49
45 41 0.51
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGAC
Found at i:16576556 original size:16 final size:17
Alignment explanation
Indices: 16576525--16576559 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
16576515 CGACAGTGGA
16576525 TTTTGTTTGATGTTTAT
1 TTTTGTTTGATGTTTAT
*
16576542 TTTTGTTTG-TTTTTAT
1 TTTTGTTTGATGTTTAT
16576558 TT
1 TT
16576560 CAAAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.09, C:0.00, G:0.14, T:0.77
Consensus pattern (17 bp):
TTTTGTTTGATGTTTAT
Found at i:16579239 original size:32 final size:32
Alignment explanation
Indices: 16579198--16579262 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
16579188 GGAGTTGTTG
16579198 GAGATCTCATCACACTAGCCAACTATAGTTTT
1 GAGATCTCATCACACTAGCCAACTATAGTTTT
*
16579230 GAGATCTCATCACACTATCCAACTATAGTTTT
1 GAGATCTCATCACACTAGCCAACTATAGTTTT
16579262 G
1 G
16579263 GTACTTATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (32 bp):
GAGATCTCATCACACTAGCCAACTATAGTTTT
Found at i:16587859 original size:41 final size:41
Alignment explanation
Indices: 16587778--16587859 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 41
16587768 AATGATATTA
* *
16587778 GGGCTTTAAGCCTAGCAAGCCTTGTGCTGGTGAATTAAATC
1 GGGCTTTAAGCCTAGCAAGCCTTGTGCCGGTGAATAAAATC
* * * *
16587819 GGGCTTTATGCCTAGC-AGGCTTATTGCCGGTGTATAAAATC
1 GGGCTTTAAGCCTAGCAAGCCTT-GTGCCGGTGAATAAAATC
16587860 AAACATTGAG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
40 5 0.15
41 29 0.85
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (41 bp):
GGGCTTTAAGCCTAGCAAGCCTTGTGCCGGTGAATAAAATC
Found at i:16597223 original size:43 final size:44
Alignment explanation
Indices: 16597174--16597333 Score: 184
Period size: 43 Copynumber: 3.7 Consensus size: 44
16597164 GTACAATGAC
* * *
16597174 ATATCCCAGATATGGTCTTACATGTTATCACATAT-CGATGCCA
1 ATATCCCAGACATGGTCTTACACGTAATCACATATACGATGCCA
* *
16597217 CTATCCCAGACAGGGTCTTACACG-AATCA-ATATACGATGCCA
1 ATATCCCAGACATGGTCTTACACGTAATCACATATACGATGCCA
* * * *
16597259 ATGTCCCAGGCATGGTCTTACACATAATCACA-ATACAATGCCA
1 ATATCCCAGACATGGTCTTACACGTAATCACATATACGATGCCA
* * *
16597302 ATGTCCCAGATATGGTCTTACATGTAATCACA
1 ATATCCCAGACATGGTCTTACACGTAATCACA
16597334 ACTCAATAAC
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
41 4 0.04
42 31 0.31
43 63 0.64
44 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.27
Consensus pattern (44 bp):
ATATCCCAGACATGGTCTTACACGTAATCACATATACGATGCCA
Found at i:16599802 original size:25 final size:25
Alignment explanation
Indices: 16599770--16599817 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
16599760 TTATAATATG
* *
16599770 AAAATGACCGTTTTACCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
16599795 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
16599818 GTTTAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:16599917 original size:20 final size:20
Alignment explanation
Indices: 16599854--16599920 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
16599844 ATTTTGATAA
*
16599854 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
16599874 ACAAGACATGTATGATATGC
1 ACATGATATGTATGATATGC
16599894 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
16599914 ACATGAT
1 ACATGAT
16599921 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:16600028 original size:24 final size:24
Alignment explanation
Indices: 16599969--16600075 Score: 171
Period size: 24 Copynumber: 4.4 Consensus size: 24
16599959 GGAGGAAGTG
*
16599969 TAAAAGGGCTTATGCCCCTGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
16599993 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
16600018 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
16600042 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
16600065 TAAAAGAGGCT
1 TAAAAG-GGCT
16600076 AGACCTCCAG
Statistics
Matches: 78, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
23 18 0.23
24 38 0.49
25 22 0.28
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:16600041 original size:49 final size:47
Alignment explanation
Indices: 16599969--16600075 Score: 169
Period size: 49 Copynumber: 2.2 Consensus size: 47
16599959 GGAGGAAGTG
*
16599969 TAAAAGGGCTTATGCCCCTGTTATGATAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGA-AAAGGGCTT-TGCCCCAGTTAT
*
16600018 TAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGAAAAGGGCTTTGCCCCAGTTAT
16600065 TAAAAGAGGCT
1 TAAAAG-GGCT
16600076 AGACCTCCAG
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
47 18 0.33
48 13 0.24
49 24 0.44
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (47 bp):
TAAAAGGGCTTATGCCCCAGTTATGAAAAGGGCTTTGCCCCAGTTAT
Found at i:16600299 original size:31 final size:31
Alignment explanation
Indices: 16600263--16600325 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
16600253 TGTTTACAGT
* *
16600263 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATACGAAATATGA
**
16600294 AAAGGCTTCGGCCCAGTGTTACGAAATATGA
1 AAAGGCTTCGGCCCAGTAATACGAAATATGA
16600325 A
1 A
16600326 GTGTGAAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATACGAAATATGA
Found at i:16605595 original size:42 final size:42
Alignment explanation
Indices: 16605524--16605606 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
16605514 TCAATTCGTT
* * *
16605524 TTACTCTACCCTATTTCCCCTCAATGCCCTGCCAGCCCCACC
1 TTACTCTACCCTATTTCACCTCAAAGCCCTACCAGCCCCACC
* ** *
16605566 TTACTTTACCCTATTTCATTTCAAAGCCCTATCAGCCCCAC
1 TTACTCTACCCTATTTCACCTCAAAGCCCTACCAGCCCCAC
16605607 TATTTTCCTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.20, C:0.43, G:0.06, T:0.30
Consensus pattern (42 bp):
TTACTCTACCCTATTTCACCTCAAAGCCCTACCAGCCCCACC
Found at i:16613322 original size:17 final size:19
Alignment explanation
Indices: 16613282--16613323 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
16613272 GCATATGCAT
16613282 ATGT-AAAGAGTTGTGACCA
1 ATGTCAAAGAGTTGTGA-CA
16613301 ATGTCAAAGAGTTG-GA-A
1 ATGTCAAAGAGTTGTGACA
16613318 ATGTCA
1 ATGTCA
16613324 CCAATAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.32
19 6 0.27
20 9 0.41
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (19 bp):
ATGTCAAAGAGTTGTGACA
Found at i:16620434 original size:7 final size:7
Alignment explanation
Indices: 16620417--16620448 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
16620407 TTGTCTATAT
16620417 GATACATA
1 GATA-ATA
16620425 GATAATA
1 GATAATA
16620432 GATAATA
1 GATAATA
16620439 GATAATA
1 GATAATA
16620446 GAT
1 GAT
16620449 TCATTGTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.53, C:0.03, G:0.16, T:0.28
Consensus pattern (7 bp):
GATAATA
Found at i:16624936 original size:26 final size:26
Alignment explanation
Indices: 16624900--16625008 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
16624890 ATGAAATGTC
* *
16624900 TATCATGGAACATTTGCCTAAACCAT
1 TATCATGGAACATTTACCTAACCCAT
16624926 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
* *
16624952 TATCATGGAATATTTACCTAATCCAT
1 TATCATGGAACATTTACCTAACCCAT
*
16624978 TATCATAGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
16625004 TATCA
1 TATCA
16625009 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:16632052 original size:26 final size:26
Alignment explanation
Indices: 16632021--16632128 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
16632011 TGAAATGCCC
*
16632021 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
16632047 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
16632073 ATCATGGAAGATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16632099 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16632125 ATCA
1 ATCA
16632129 ATTTGTACCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:16634584 original size:611 final size:613
Alignment explanation
Indices: 16633419--16634638 Score: 2282
Period size: 611 Copynumber: 2.0 Consensus size: 613
16633409 TCCACTTTTC
*
16633419 CTTTTCCTCGATCTAATCCTGATCTCAGCTTATCTTGATCTATATATTATCAAATTTAGTGCATT
1 CTTTTCCTCGATCTAATCCTGATCTCAGCTTATCTTGATCTATATATTATCAAATTTAGTACATT
*
16633484 CAGCATTCGGTCTATTCAATTTATCCTATAATTTACAATTTGGCAAATTTACACATTTGCCCCTA
66 CAGCATTCGGTCTATTCAATTTATCCTATAATTTACAATTTGGAAAATTTACACATTTGCCCCTA
*
16633549 ATGTTTCACATTTTCACAATTTAGTCCTTATAACATAAAATTGCAAATTCATGCAATTTAGTACA
131 ATGTTTCACATTTTCACAATTTAGTCCTTATAACATAAAATTACAAATTCATGCAATTTAGTACA
16633614 AAACCATGCCTAGCTGAATTTAATACATGTTATTATCAACCCATATTTTTAATTTATTCACACTT
196 AAACCATGCCTAGCTGAATTTAATACATGTTATTATCAACCCATATTTTTAATTTATTCACACTT
16633679 TCAACCACCACATTTCACATTTTCTCAATTTAATCCCTATTTTTAATTTTCACTAAAAATCACTT
261 TCAACCACCACATTTCACATTTTCTCAATTTAATCCCTATTTTTAATTTTCACTAAAAATCACTT
16633744 TACAAAACTTGTTTAACTAATAACAAATATCCATAATCTATTATTAAACATAAAAACACTCATAT
326 TACAAAACTTGTTTAACTAATAACAAATATCCATAATCTATTATTAAACATAAAAACACTCATAT
*
16633809 ATTCATCAATGGAAATATTCAAAATCTTTAACAGTTTTCCAAACTAGTCCCTTGGCTAGCTAGTA
391 ATTCATCAATGGAAATATTCAAAATCTTTAACAGTTTTCCAAACTAGTCCCTGGGCTAGCTAGTA
*
16633874 CTAGTTGCAACGATCACAAAAACATAGAAATCATTAAAAACGGGACCAAAAATGGACTTACATGC
456 CTAGTTGCAACGATCACAAAAACATAGAAATCATTAAAAACAGGACCAAAAATGGACTTACATGC
16633939 TCAAGACACCATAGACGAATGTTCCAAGCTCTCAAATGGTGTTCTACAAGCCCTAATTTTGGTGG
521 TCAAGACACCATAGACGAATGTTCCAAGCTCTCAAATGGTGTTCTACAAGCCCTAATTTTGGTGG
*
16634004 TGGTGCTTAATGAAGATGAAGACATTTG
586 TGATGCTTAATGAAGATGAAGACATTTG
**
16634032 CTTTTCCTCGATCTAATCCTGATCTGGGCTTATCTTGATCTATATATTATCAAATTTAGTACATT
1 CTTTTCCTCGATCTAATCCTGATCTCAGCTTATCTTGATCTATATATTATCAAATTTAGTACATT
* * *
16634097 CAGTATTTGGTCTATTCAATTTATCCTATAATTTACAATTTGGAAAATTTACACATTTGCCCTTA
66 CAGCATTCGGTCTATTCAATTTATCCTATAATTTACAATTTGGAAAATTTACACATTTGCCCCTA
*
16634162 ATG-TTCACATTTTCACAATTTAGTCCTTATCACATAAAATTACAAATTCATGCAATTTAGTACA
131 ATGTTTCACATTTTCACAATTTAGTCCTTATAACATAAAATTACAAATTCATGCAATTTAGTACA
*
16634226 AAACCATGCTTAGCTGAATTTAATACATGTTATTATCAACCCATATTTTTAATTTATTCACACTT
196 AAACCATGCCTAGCTGAATTTAATACATGTTATTATCAACCCATATTTTTAATTTATTCACACTT
*
16634291 TCAACCACCACATTTCACATTTTCTCAATTTAATCCTTA-TTTTAATTTTCACTAAAAATCACTT
261 TCAACCACCACATTTCACATTTTCTCAATTTAATCCCTATTTTTAATTTTCACTAAAAATCACTT
16634355 TACAAAACTTGTTTAACTAATAACAAATATCCATAATCTATTATTAAACATAAAAACACTCATAT
326 TACAAAACTTGTTTAACTAATAACAAATATCCATAATCTATTATTAAACATAAAAACACTCATAT
*
16634420 ATTCATCAATGGAAATATTCAAAATCTTTAACAGTTTTGCAAACTAGTCCCTGGGCTAGCTAGTA
391 ATTCATCAATGGAAATATTCAAAATCTTTAACAGTTTTCCAAACTAGTCCCTGGGCTAGCTAGTA
16634485 CTAGTTGCAACGATCACAAAAACATAGAAATCATTAAAAACAGGACCAAAAATGGACTTACATGC
456 CTAGTTGCAACGATCACAAAAACATAGAAATCATTAAAAACAGGACCAAAAATGGACTTACATGC
*
16634550 TCAAGACACCATAGACGAATGTTCCAAGCTCTCAAATGGTGTTCTACAAGCCCTATTTTTGGTGG
521 TCAAGACACCATAGACGAATGTTCCAAGCTCTCAAATGGTGTTCTACAAGCCCTAATTTTGGTGG
16634615 TGATGCTTAATGAAGATGAAGACA
586 TGATGCTTAATGAAGATGAAGACA
16634639 AAATGTTTTT
Statistics
Matches: 591, Mismatches: 16, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
611 304 0.51
612 161 0.27
613 126 0.21
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (613 bp):
CTTTTCCTCGATCTAATCCTGATCTCAGCTTATCTTGATCTATATATTATCAAATTTAGTACATT
CAGCATTCGGTCTATTCAATTTATCCTATAATTTACAATTTGGAAAATTTACACATTTGCCCCTA
ATGTTTCACATTTTCACAATTTAGTCCTTATAACATAAAATTACAAATTCATGCAATTTAGTACA
AAACCATGCCTAGCTGAATTTAATACATGTTATTATCAACCCATATTTTTAATTTATTCACACTT
TCAACCACCACATTTCACATTTTCTCAATTTAATCCCTATTTTTAATTTTCACTAAAAATCACTT
TACAAAACTTGTTTAACTAATAACAAATATCCATAATCTATTATTAAACATAAAAACACTCATAT
ATTCATCAATGGAAATATTCAAAATCTTTAACAGTTTTCCAAACTAGTCCCTGGGCTAGCTAGTA
CTAGTTGCAACGATCACAAAAACATAGAAATCATTAAAAACAGGACCAAAAATGGACTTACATGC
TCAAGACACCATAGACGAATGTTCCAAGCTCTCAAATGGTGTTCTACAAGCCCTAATTTTGGTGG
TGATGCTTAATGAAGATGAAGACATTTG
Found at i:16636789 original size:161 final size:161
Alignment explanation
Indices: 16636524--16636845 Score: 590
Period size: 161 Copynumber: 2.0 Consensus size: 161
16636514 TGTATTTCAT
*
16636524 GCCGATATGTGTAATAACTCATTTCTTATTCATATCTTCTCATGTCAAGAACTTTTAGCAATTAC
1 GCCGATATGTGTAATAACTCATTTATTATTCATATCTTCTCATGTCAAGAACTTTTAGCAATTAC
*
16636589 ATTTATCTGAAATATCGATGGATACGCAGATAGTACACTCGAGGTGTATGAATCAGAATCTGTCA
66 ATTTATCTGAAATATCGATGGATACACAGATAGTACACTCGAGGTGTATGAATCAGAATCTGTCA
* *
16636654 ATTCATGTCTAATGGTACCCGTAGGGTACTA
131 ATTCATGTCTAATAGTACCCATAGGGTACTA
*
16636685 GCCGATATGTGTAATAACTCATTTATTATTCATATCTTCTCATGTCAAGAACTTTTAGCAATTAG
1 GCCGATATGTGTAATAACTCATTTATTATTCATATCTTCTCATGTCAAGAACTTTTAGCAATTAC
*
16636750 ATTTATCTGAAATATCGATGGATACACAGATAGTACACTCGAGGTGTATGAATCAGAATTTGTCA
66 ATTTATCTGAAATATCGATGGATACACAGATAGTACACTCGAGGTGTATGAATCAGAATCTGTCA
16636815 ATTCATGTCTAATAGTACCCATAGGGTACTA
131 ATTCATGTCTAATAGTACCCATAGGGTACTA
16636846 TATTAGAGAG
Statistics
Matches: 155, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
161 155 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (161 bp):
GCCGATATGTGTAATAACTCATTTATTATTCATATCTTCTCATGTCAAGAACTTTTAGCAATTAC
ATTTATCTGAAATATCGATGGATACACAGATAGTACACTCGAGGTGTATGAATCAGAATCTGTCA
ATTCATGTCTAATAGTACCCATAGGGTACTA
Found at i:16640446 original size:22 final size:22
Alignment explanation
Indices: 16640407--16640448 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16640397 TTTGAACTAA
* *
16640407 TGTGTTATTGTTATTAGTTTGT
1 TGTGTTATTGCTACTAGTTTGT
*
16640429 TGTGTTATTGCTGCTAGTTT
1 TGTGTTATTGCTACTAGTTT
16640449 ATTGGACTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.12, C:0.05, G:0.24, T:0.60
Consensus pattern (22 bp):
TGTGTTATTGCTACTAGTTTGT
Found at i:16641603 original size:48 final size:48
Alignment explanation
Indices: 16641521--16641614 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
16641511 TTTCTTGGCT
* *
16641521 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
16641569 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
16641615 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:16644116 original size:48 final size:48
Alignment explanation
Indices: 16644034--16644127 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
16644024 TTTCTTGGCT
* * *
16644034 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACACCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
16644082 TAAAAACACCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACACCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
16644128 AGAATTCCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 4 0.10
48 37 0.90
ACGTcount: A:0.41, C:0.28, G:0.12, T:0.19
Consensus pattern (48 bp):
TAAAAACACCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:16649462 original size:9 final size:8
Alignment explanation
Indices: 16649443--16649480 Score: 67
Period size: 8 Copynumber: 4.6 Consensus size: 8
16649433 TATACCTGTA
16649443 TTTTATTT
1 TTTTATTT
16649451 TTTTATTTT
1 TTTTA-TTT
16649460 TTTTATTT
1 TTTTATTT
16649468 TTTTATTT
1 TTTTATTT
16649476 TTTTA
1 TTTTA
16649481 AGAACAAGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 21 0.72
9 8 0.28
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTATTT
Found at i:16649465 original size:17 final size:17
Alignment explanation
Indices: 16649443--16649479 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
16649433 TATACCTGTA
16649443 TTTTATTTTTTTATTTT
1 TTTTATTTTTTTATTTT
16649460 TTTTATTTTTTTATTTT
1 TTTTATTTTTTTATTTT
16649477 TTT
1 TTT
16649480 AAGAACAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (17 bp):
TTTTATTTTTTTATTTT
Found at i:16650082 original size:44 final size:44
Alignment explanation
Indices: 16650019--16650103 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 44
16650009 TTCTGATATG
16650019 AAAGACCCCCCACACTTAAGATATAC-ATTGCCCTCAATGTATAA
1 AAAGACCCCCCACACTTAAGATATACAATT-CCCTCAATGTATAA
* * *
16650063 AAAGACCCCTCAGACTTAAGATGTACAATTCCCTCAATGTA
1 AAAGACCCCCCACACTTAAGATATACAATTCCCTCAATGTA
16650104 CAAAGGTAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 34 0.92
45 3 0.08
ACGTcount: A:0.38, C:0.28, G:0.11, T:0.24
Consensus pattern (44 bp):
AAAGACCCCCCACACTTAAGATATACAATTCCCTCAATGTATAA
Found at i:16665209 original size:35 final size:35
Alignment explanation
Indices: 16665150--16665273 Score: 149
Period size: 35 Copynumber: 3.5 Consensus size: 35
16665140 TCTAAATGAC
* * * * *
16665150 CTTGTATATTTGGCTACATGTGATGTTTTATTGAA
1 CTTGTATATTCGGCCATATGTGATGATATATTGAA
*
16665185 CTTGTATATTCGGCCATATATGATGATATATTGAA
1 CTTGTATATTCGGCCATATGTGATGATATATTGAA
* *
16665220 CTTGTATATTCGGCCATATGTGATGACATAATGAA
1 CTTGTATATTCGGCCATATGTGATGATATATTGAA
* *
16665255 CCTTGTGTATTTGGCCATA
1 -CTTGTATATTCGGCCATA
16665274 CAAGTAAGTA
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
35 61 0.79
36 16 0.21
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (35 bp):
CTTGTATATTCGGCCATATGTGATGATATATTGAA
Found at i:16670830 original size:16 final size:15
Alignment explanation
Indices: 16670811--16670841 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
16670801 ATAAGTCTTC
16670811 AAAAATAAATAAAATA
1 AAAAATAAA-AAAATA
16670827 AAAAATAAAAAAATA
1 AAAAATAAAAAAATA
16670842 TAAATGGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (15 bp):
AAAAATAAAAAAATA
Found at i:16672124 original size:3 final size:3
Alignment explanation
Indices: 16672111--16672140 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
16672101 ATAAATAGAA
*
16672111 AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16672141 TGAATGAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:16673054 original size:18 final size:19
Alignment explanation
Indices: 16673031--16673067 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
16673021 GTTGTTCGCT
16673031 TCTCCCAC-GCCCGTGTGG
1 TCTCCCACAGCCCGTGTGG
16673049 TCTCCCACATGCCCGTGTG
1 TCTCCCACA-GCCCGTGTG
16673068 TCCGAACACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.08, C:0.43, G:0.24, T:0.24
Consensus pattern (19 bp):
TCTCCCACAGCCCGTGTGG
Found at i:16674728 original size:37 final size:37
Alignment explanation
Indices: 16674669--16674777 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
16674659 AGCTCAGACG
* * *
16674669 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
16674706 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
16674743 TAATCTCCACACGTAGTCATCAGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
16674778 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:16674981 original size:50 final size:50
Alignment explanation
Indices: 16674927--16675110 Score: 277
Period size: 50 Copynumber: 3.7 Consensus size: 50
16674917 CATCGCCTAC
16674927 ATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACA-TAGACCATTCGGCTTTACCACATATACATATCTCATATAT
*
16674977 ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATAGACCATTCGGCTTTACCACATATACATATCTCATATAT
* * * *
16675027 ATATTTCACATTGACCATTCGGCTTTACCACATGTGCATATCTC--ATAC
1 ATATTTCACATAGACCATTCGGCTTTACCACATATACATATCTCATATAT
16675075 ATATTTCACATTAG-CCATTCGGCTTTACCACATATA
1 ATATTTCACA-TAGACCATTCGGCTTTACCACATATA
16675111 TACATGTTCA
Statistics
Matches: 125, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
48 33 0.26
49 4 0.03
50 88 0.70
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (50 bp):
ATATTTCACATAGACCATTCGGCTTTACCACATATACATATCTCATATAT
Found at i:16675173 original size:47 final size:47
Alignment explanation
Indices: 16675081--16675226 Score: 166
Period size: 47 Copynumber: 3.1 Consensus size: 47
16675071 ATACATATTT
* * * * * *
16675081 CACATTAGCCATTCGGCTTTACCACATATATACATGTTCATATTCAC
1 CACATTGGCCATTCGGCCTTATCACACATATACATGCTCACATTCAC
* *
16675128 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCACACATATACATGCTCACATTCAC
* * *** *
16675175 CACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCACACATATACATGCTCACATTCAC
16675222 CACAT
1 CACAT
16675227 AAAATCCTAA
Statistics
Matches: 85, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 85 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CACATTGGCCATTCGGCCTTATCACACATATACATGCTCACATTCAC
Found at i:16675303 original size:23 final size:25
Alignment explanation
Indices: 16675251--16675305 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 25
16675241 AAATATACTT
16675251 TATTCACATTCATCACATATGCATG
1 TATTCACATTCATCACATATGCATG
*
16675276 --CTCACATTCATCACAT-T-CATG
1 TATTCACATTCATCACATATGCATG
16675297 TATTCACAT
1 TATTCACAT
16675306 CACAATTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 4 0.15
22 1 0.04
23 21 0.81
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.36
Consensus pattern (25 bp):
TATTCACATTCATCACATATGCATG
Found at i:16694409 original size:136 final size:138
Alignment explanation
Indices: 16694158--16694438 Score: 503
Period size: 136 Copynumber: 2.0 Consensus size: 138
16694148 AAACGCAATG
16694158 AAATTTTTAAAGGAGCTTTTGGAAAATAAGCGAAAGTTGGATGAGGCTTCGCATGTGTAGCTAAA
1 AAATTTTTAAAGGAGCTTTTGGAAAATAAGCGAAAGTTGGATGA-----CGCATGTGTAGCTAAA
16694223 TGCAGTTTGCTCAGCTATTCTACAGAATAAACTACCCAAAAAATTGAAAGATCCAGGGAGTTTTA
61 TGCAGTTTGCTCAGCTATTCTACAGAATAAACTACCCAAAAAATTGAAAGATCCAGGGAGTTTTA
16694288 CAATTCCTTACTT
126 CAATTCCTTACTT
16694301 AAATTTTTAAAGGAGCTTTTGGAAAATAAGCGAAAGTTGGATGA-G-ATGTGTAGCTAAATGCAG
1 AAATTTTTAAAGGAGCTTTTGGAAAATAAGCGAAAGTTGGATGACGCATGTGTAGCTAAATGCAG
16694364 TTTGCTCAGCTATTCTACAGAATAAACTACCCAAAAAATTGAAAGATCCAGGGAGTTTTACAATT
66 TTTGCTCAGCTATTCTACAGAATAAACTACCCAAAAAATTGAAAGATCCAGGGAGTTTTACAATT
16694429 CCTTACTT
131 CCTTACTT
16694437 AA
1 AA
16694439 TTGGTAGTTT
Statistics
Matches: 138, Mismatches: 0, Indels: 7
0.95 0.00 0.05
Matches are distributed among these distances:
136 93 0.67
137 1 0.01
143 44 0.32
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (138 bp):
AAATTTTTAAAGGAGCTTTTGGAAAATAAGCGAAAGTTGGATGACGCATGTGTAGCTAAATGCAG
TTTGCTCAGCTATTCTACAGAATAAACTACCCAAAAAATTGAAAGATCCAGGGAGTTTTACAATT
CCTTACTT
Found at i:16699959 original size:46 final size:46
Alignment explanation
Indices: 16699826--16700092 Score: 170
Period size: 46 Copynumber: 5.7 Consensus size: 46
16699816 GTAAAGTGCT
* * * * * *
16699826 GATGCCATATCCCAGGCATGGTCTTACACAAGCTCTAGCATATCTATGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TA-CATCTCAAGGCC
* **
16699876 GATGCCATGTCCTAGACATGGTCTTACACT-GAC--ACATCTTGTA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAG-CTTACATC-TCAAGGCC
* * *
16699922 GATGGATGTCCCAGACTTGTCTTAGACTAGCTTACATCTCAAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCAAGGCC
* * **
16699968 GATGCATGTCCCAGACATGTCTTACACTAGCACT-CGTCTCAATACC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-TTACATCTCAAGGCC
* * * **
16700014 GATGACACGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACAT-CTCAAGGCC
*
16700062 GATGCATGTCCTAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
16700093 CAACAGTAAC
Statistics
Matches: 175, Mismatches: 31, Indels: 26
0.75 0.13 0.11
Matches are distributed among these distances:
44 10 0.06
45 14 0.08
46 71 0.41
47 30 0.17
48 21 0.12
49 2 0.01
50 27 0.15
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCAAGGCC
Found at i:16700426 original size:30 final size:30
Alignment explanation
Indices: 16700392--16700451 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
16700382 AATAATTCAT
*
16700392 ACTTTGGA-AAAATGACCAATTTGCCCCTAG
1 ACTTT-GACAAAATGACCAATTTACCCCTAG
* *
16700422 ACTTTGACAAAATGATCATTTTACCCCTAG
1 ACTTTGACAAAATGACCAATTTACCCCTAG
16700452 GTTCGAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (30 bp):
ACTTTGACAAAATGACCAATTTACCCCTAG
Found at i:16701806 original size:37 final size:37
Alignment explanation
Indices: 16701756--16701829 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
16701746 GTGTAAGACC
*
16701756 ATATTTGGGATATGGCATCTATATGAGACTTCGTGTA
1 ATATTTGGGATATGGCATCGATATGAGACTTCGTGTA
*
16701793 ATATTTGGGATATGGCATCGATATGAGATTTCGTGTA
1 ATATTTGGGATATGGCATCGATATGAGACTTCGTGTA
16701830 CGACCATAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.27, C:0.09, G:0.26, T:0.38
Consensus pattern (37 bp):
ATATTTGGGATATGGCATCGATATGAGACTTCGTGTA
Found at i:16703272 original size:42 final size:42
Alignment explanation
Indices: 16703213--16703297 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
16703203 ACAAGTAAGG
16703213 GTGGCAAAATGGCTTGGTAAATAGCCTTTTTTTGGTCCACAC
1 GTGGCAAAATGGCTTGGTAAATAGCCTTTTTTTGGTCCACAC
* *
16703255 GTGGCGAAATGGCTTGGTAAATAGCCTTTTTTTTGTCCACAC
1 GTGGCAAAATGGCTTGGTAAATAGCCTTTTTTTGGTCCACAC
16703297 G
1 G
16703298 GGTAGACACA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (42 bp):
GTGGCAAAATGGCTTGGTAAATAGCCTTTTTTTGGTCCACAC
Found at i:16712843 original size:66 final size:69
Alignment explanation
Indices: 16712679--16712843 Score: 155
Period size: 72 Copynumber: 2.4 Consensus size: 69
16712669 ATACTATGTA
* * *
16712679 GTAGCTAGGTCACATGTGTGATA-C-AG-GATGTATC-CCATGTAGACAAGAGAGCTACGGGAGA
1 GTAGCTAGGTCACATGGGTGATACCAAGTGAAGGA-CACCATGTAGACAAGAGAGCTAC--G-GA
16712740 GGATAAAT
62 GGATAAAT
* * * *
16712748 GTAGCTAGGTCGCATGTGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGCGCTAC-GA-GAT
1 GTAGCTAGGTCACATGGGTGATACCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGGAGGAT
16712811 AAAT
66 AAAT
* * *
16712815 -TGGCTAGGTCACATGGGTGGTACTAAGTG
1 GTAGCTAGGTCACATGGGTGATACCAAGTG
16712844 TTCACCATGT
Statistics
Matches: 81, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
66 23 0.28
67 7 0.09
68 2 0.02
69 21 0.26
70 1 0.01
71 3 0.04
72 24 0.30
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (69 bp):
GTAGCTAGGTCACATGGGTGATACCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGGAGGAT
AAAT
Found at i:16721299 original size:21 final size:22
Alignment explanation
Indices: 16721269--16721310 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
16721259 AATAGATATA
16721269 ATTATATATTAAAGA-TTATCAT
1 ATTATATATTAAA-ACTTATCAT
16721291 ATTAT-TATTAAAACTTATCA
1 ATTATATATTAAAACTTATCA
16721311 AACAAAATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.05
21 13 0.68
22 5 0.26
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTATATATTAAAACTTATCAT
Found at i:16724120 original size:15 final size:16
Alignment explanation
Indices: 16724095--16724127 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
16724085 TCCTTGTTCA
16724095 GCTTCCGGTAATCGAT
1 GCTTCCGGTAATCGAT
16724111 GCTT-CGGTAATCGAT
1 GCTTCCGGTAATCGAT
16724126 GC
1 GC
16724128 AGATTCTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.30
Consensus pattern (16 bp):
GCTTCCGGTAATCGAT
Found at i:16731426 original size:25 final size:25
Alignment explanation
Indices: 16731395--16731445 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
16731385 AGGGTAAACT
16731395 ACACAAATCATCATTCAAATTTTAA
1 ACACAAATCATCATTCAAATTTTAA
16731420 ACACAAATCATCATTCAAATTTTAA
1 ACACAAATCATCATTCAAATTTTAA
16731445 A
1 A
16731446 AGTTTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (25 bp):
ACACAAATCATCATTCAAATTTTAA
Found at i:16731820 original size:23 final size:24
Alignment explanation
Indices: 16731776--16731821 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
16731766 ATTAATGTGG
**
16731776 GTGTTTAAATTATAAATTTTTTTTA
1 GTGTTTAAA-TATAAAAATTTTTTA
16731801 GTGTTTAAA-ATAAAAATTTTT
1 GTGTTTAAATATAAAAATTTTT
16731822 AAAAGTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.53
25 9 0.47
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (24 bp):
GTGTTTAAATATAAAAATTTTTTA
Found at i:16738484 original size:22 final size:23
Alignment explanation
Indices: 16738458--16738503 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
16738448 CAACGAAACC
16738458 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
16738480 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
16738503 A
1 A
16738504 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:16738509 original size:23 final size:23
Alignment explanation
Indices: 16738465--16738509 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
16738455 ACCAATTCAA
*
16738465 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
16738488 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
16738510 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:16743771 original size:48 final size:48
Alignment explanation
Indices: 16743706--16743952 Score: 415
Period size: 48 Copynumber: 5.1 Consensus size: 48
16743696 GCTGAAATTG
*
16743706 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
16743754 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
16743802 ATGTATGAGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-AT
* *
16743852 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
16743900 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
16743948 ATGTA
1 ATGTA
16743953 GGCGATGTGT
Statistics
Matches: 189, Mismatches: 6, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
47 1 0.01
48 142 0.75
49 4 0.02
50 41 0.22
51 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:16743886 original size:98 final size:98
Alignment explanation
Indices: 16743706--16743949 Score: 413
Period size: 98 Copynumber: 2.5 Consensus size: 98
16743696 GCTGAAATTG
* *
16743706 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATGT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGT
16743769 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
66 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
16743802 ATGTATGAGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATGAGATATG
*
16743866 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
65 TATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
16743900 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
16743950 GTAGGCGATG
Statistics
Matches: 138, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 40 0.29
97 2 0.01
98 94 0.68
99 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (98 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGT
ATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:16744207 original size:37 final size:37
Alignment explanation
Indices: 16744099--16744207 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
16744089 GGAAATATAT
*
16744099 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
16744136 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
16744173 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
16744208 CATCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:16745589 original size:16 final size:15
Alignment explanation
Indices: 16745570--16745601 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
16745560 TCATTTTTTA
16745570 TTTTTATTTTAATATT
1 TTTTTATTTTAA-ATT
16745586 TTTTTATTTTAAATT
1 TTTTTATTTTAAATT
16745601 T
1 T
16745602 AATTTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTATTTTAAATT
Found at i:16745591 original size:22 final size:21
Alignment explanation
Indices: 16745563--16745608 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
16745553 AATTTTGTCA
* *
16745563 TTTTTTATTTTTATTTTAATAT
1 TTTTTTATTTTAAATTTAAT-T
16745585 TTTTTTATTTTAAATTTAATT
1 TTTTTTATTTTAAATTTAATT
16745606 TTT
1 TTT
16745609 ATATTCTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTTTATTTTAAATTTAATT
Found at i:16748414 original size:14 final size:15
Alignment explanation
Indices: 16748395--16748431 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
16748385 CTGAGTGTTT
16748395 TTTATTTTTATTT-A
1 TTTATTTTTATTTCA
16748409 TTTA-TTTTATTTCA
1 TTTATTTTTATTTCA
16748423 TTT-TTTTTA
1 TTTATTTTTA
16748432 AATGAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTATTTTTATTTCA
Found at i:16748526 original size:12 final size:11
Alignment explanation
Indices: 16748508--16748548 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
16748498 AAAAAATTTG
16748508 AAAAAAAATAA
1 AAAAAAAATAA
16748519 AAATAAAAATGAA
1 AAA-AAAAAT-AA
*
16748532 AAAAATAATAA
1 AAAAAAAATAA
16748543 AAAAAA
1 AAAAAA
16748549 GTGAAGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 10 0.38
12 11 0.42
13 5 0.19
ACGTcount: A:0.85, C:0.00, G:0.02, T:0.12
Consensus pattern (11 bp):
AAAAAAAATAA
Found at i:16748534 original size:22 final size:23
Alignment explanation
Indices: 16748506--16748560 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 23
16748496 TTAAAAAATT
16748506 TGAAAAAAAATAA-AAATAAAAA-
1 TGAAAAAAAATAATAAA-AAAAAG
16748528 TG-AAAAAAATAATAAAAAAAAG
1 TGAAAAAAAATAATAAAAAAAAG
16748550 TGAAGAAAAAA
1 TGAA-AAAAAA
16748561 AGCGGTCCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 15 0.52
22 7 0.24
23 1 0.03
24 6 0.21
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.13
Consensus pattern (23 bp):
TGAAAAAAAATAATAAAAAAAAG
Found at i:16758325 original size:58 final size:57
Alignment explanation
Indices: 16758178--16758325 Score: 142
Period size: 57 Copynumber: 2.6 Consensus size: 57
16758168 CATATAACAA
* *
16758178 GATTACCAGTCCAGGCTAAATCCTTTT-TATATCGTATGCTCAGAAGAGATCAATTAG
1 GATTACCAGTCCAGGCTAAAT-CTTTTCTATAACGTATGCTCAGAAGAGATCAATCAG
* * * * *
16758235 GATTACCAGTCTAGCCTAAACCTTAATC-ATAACGTATGCTC--AAGAGGTATTATATCAG
1 GATTACCAGTCCAGGCTAAATCTT-TTCTATAACGTATGCTCAGAAGA-G-ATCA-ATCAG
* *
16758293 GATTACCTGTCCGGGCTAAATCTTTTCTATAAC
1 GATTACCAGTCCAGGCTAAATCTTTTCTATAAC
16758326 AAGGTCAATG
Statistics
Matches: 72, Mismatches: 13, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
55 4 0.06
56 4 0.06
57 36 0.50
58 28 0.39
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (57 bp):
GATTACCAGTCCAGGCTAAATCTTTTCTATAACGTATGCTCAGAAGAGATCAATCAG
Found at i:16760664 original size:43 final size:43
Alignment explanation
Indices: 16760572--16760683 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
16760562 TGAGATTACC
* *
16760572 TGTAAGACCAT-ATCTGGGATATGGCATCGATATAAGACTTCG
1 TGTAAGACCATAATCTGGGATATGGCATCGATATAAGACTCCA
* *
16760614 TGAAAGACCATAAT-TGGGCTATTGGCATCGATATAAGA-TCCCA
1 TGTAAGACCATAATCTGGGATA-TGGCATCGATATAAGACT-CCA
*
16760657 TGTAAGACCAT-ATCTAGGATATGGCAT
1 TGTAAGACCATAATCTGGGATATGGCAT
16760684 TGGTATAGTG
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
42 25 0.42
43 34 0.58
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATAATCTGGGATATGGCATCGATATAAGACTCCA
Found at i:16778098 original size:13 final size:13
Alignment explanation
Indices: 16778080--16778104 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16778070 TATGTTATAT
16778080 GTGTGAAAATTTC
1 GTGTGAAAATTTC
16778093 GTGTGAAAATTT
1 GTGTGAAAATTT
16778105 TATTGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:16782687 original size:25 final size:24
Alignment explanation
Indices: 16782659--16782705 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
16782649 AAATATAACA
*
16782659 TAAAAGAAATAAAACAAATGAAACG
1 TAAAAGAAATAAAA-AAAGGAAACG
*
16782684 TAAAAGAAGTAAAAAAAGGAAA
1 TAAAAGAAATAAAAAAAGGAAA
16782706 GAAAGTTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.70, C:0.04, G:0.15, T:0.11
Consensus pattern (24 bp):
TAAAAGAAATAAAAAAAGGAAACG
Found at i:16783758 original size:39 final size:40
Alignment explanation
Indices: 16783651--16783761 Score: 111
Period size: 38 Copynumber: 2.8 Consensus size: 40
16783641 GACCTTGAGT
* **
16783651 CGATGAGACACTGGGTGTC-ACTAAATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAACT--ATTACTTCGGATAGAGC
** ** *
16783692 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
16783730 CGATGAGACACTGGGTGTCAACTATTACTTCG
1 CGATGAGACACTGGGTGTCAACTATTACTTCG
16783762 AACTATTCGA
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.34
39 19 0.34
41 15 0.27
42 3 0.05
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
Found at i:16783773 original size:39 final size:39
Alignment explanation
Indices: 16783650--16783775 Score: 98
Period size: 39 Copynumber: 3.2 Consensus size: 39
16783640 CGACCTTGAG
* *
16783650 TCGATGAGACACTGGGTGTC-ACTAAATTTCTTCGGATA-GAT
1 TCGATGAGACACTGGGTGTCAACT--ATTACTTC-GA-ACTAT
** ** * *
16783691 TCGATGAGGTACTGGGTACCAACT-TTACTTCG-GCTAGG
1 TCGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-T
*
16783729 CCGATGAGACACTGGGTGTCAACTATTACTTCGAACTAT
1 TCGATGAGACACTGGGTGTCAACTATTACTTCGAACTAT
16783768 TCGATGAG
1 TCGATGAG
16783776 GCATTGGATG
Statistics
Matches: 64, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
37 1 0.02
38 20 0.31
39 21 0.33
40 3 0.05
41 16 0.25
42 3 0.05
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (39 bp):
TCGATGAGACACTGGGTGTCAACTATTACTTCGAACTAT
Found at i:16783918 original size:18 final size:18
Alignment explanation
Indices: 16783895--16783935 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
16783885 AAAAAAAAAA
16783895 AGAAATT-GAATTATGAAT
1 AGAAATTGGAATTATG-AT
*
16783913 AGAAATTGGAATTGTGAT
1 AGAAATTGGAATTATGAT
16783931 AGAAA
1 AGAAA
16783936 GAGAAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (18 bp):
AGAAATTGGAATTATGAT
Found at i:16790171 original size:25 final size:24
Alignment explanation
Indices: 16790143--16790189 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
16790133 AAATATAACA
*
16790143 TAAAAGAAATAAAACAAATGAAACG
1 TAAAAGAAATAAAA-AAAGGAAACG
*
16790168 TAAAAGAAGTAAAAAAAGGAAA
1 TAAAAGAAATAAAAAAAGGAAA
16790190 GAAAGTTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.70, C:0.04, G:0.15, T:0.11
Consensus pattern (24 bp):
TAAAAGAAATAAAAAAAGGAAACG
Found at i:16791243 original size:39 final size:40
Alignment explanation
Indices: 16791136--16791246 Score: 111
Period size: 38 Copynumber: 2.8 Consensus size: 40
16791126 GACCTTGAGT
* **
16791136 CGATGAGACACTGGGTGTC-ACTAAATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAACT--ATTACTTCGGATAGAGC
** ** *
16791177 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
16791215 CGATGAGACACTGGGTGTCAACTATTACTTCG
1 CGATGAGACACTGGGTGTCAACTATTACTTCG
16791247 AACTATCCGA
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.34
39 19 0.34
41 15 0.27
42 3 0.05
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
Found at i:16791257 original size:39 final size:39
Alignment explanation
Indices: 16791136--16791270 Score: 98
Period size: 39 Copynumber: 3.4 Consensus size: 39
16791126 GACCTTGAGT
* * *
16791136 CGATGAGACACTGGGTGTC-ACTAAATTTCTTCGGATA-GATT
1 CGATGAGACACTGGGTGTCAACT--ATTACTTC-GA-ACTATC
** ** * *
16791177 CGATGAGGTACTGGGTACCAACT-TTACTTCG-GCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
16791215 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
* *
16791254 CGATGAGGCATTGGGTG
1 CGATGAGACACTGGGTG
16791271 CCATATTGGT
Statistics
Matches: 72, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
37 1 0.01
38 20 0.28
39 30 0.42
40 3 0.04
41 15 0.21
42 3 0.04
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
Found at i:16791402 original size:18 final size:18
Alignment explanation
Indices: 16791379--16791418 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
16791369 AAAAAAAAAG
16791379 GAAATTG-AATTATGAATA
1 GAAATTGAAATTATG-ATA
*
16791397 GAAATTGAAATTGTGATA
1 GAAATTGAAATTATGATA
16791415 GAAA
1 GAAA
16791419 GAGAAAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (18 bp):
GAAATTGAAATTATGATA
Found at i:16791533 original size:6 final size:6
Alignment explanation
Indices: 16791522--16791547 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
16791512 TGAAATGATG
16791522 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
16791548 GTATGAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Done.