Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 254 of 311
Found at i:84778783 original size:91 final size:91
Alignment explanation
Indices: 84778605--84778797 Score: 232
Period size: 91 Copynumber: 2.1 Consensus size: 91
84778595 TGTTAACTTC
* * *
84778605 AGGTAACATAATAATACACAAATTGATAATTCATGTATCATATTGGACATTTCAAAGTACAAGTA
1 AGGTACCA-AATAATACACAAATTAATAATTCATGTATCATATTGGACATTTCAAAGTACAAATA
*
84778670 GCACATTAGACATCTTACAAAAGTA-G
65 CCACATTAGACATCTTACAAAAGTACG
* * *
84778696 AGGTACCAAATAATACACAAATTAATAGTTTA-GATATTATATTGGACATTTTCAAAGTACAAAT
1 AGGTACCAAATAATACACAAATTAATAATTCATG-TATCATATTGGACA-TTTCAAAGTACAAAT
* * *
84778760 ACCTCATTGGACAT-TCTATAAAAGTACG
64 ACCACATTAGACATCT-TACAAAAGTACG
84778788 A-GTACCAAAT
1 AGGTACCAAAT
84778798 GTAACATTAT
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
89 1 0.01
90 35 0.40
91 50 0.57
92 2 0.02
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.30
Consensus pattern (91 bp):
AGGTACCAAATAATACACAAATTAATAATTCATGTATCATATTGGACATTTCAAAGTACAAATAC
CACATTAGACATCTTACAAAAGTACG
Found at i:84786033 original size:15 final size:16
Alignment explanation
Indices: 84786013--84786045 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
84786003 ATATATTTTT
84786013 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
84786028 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
84786045 T
1 T
84786046 ATAATCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:84786118 original size:21 final size:22
Alignment explanation
Indices: 84786092--84786150 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
84786082 ATTTTAAGAA
*
84786092 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
84786113 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
84786135 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
84786151 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:84786165 original size:26 final size:24
Alignment explanation
Indices: 84786121--84786170 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
84786111 ATTTGTTTTA
*
84786121 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
84786145 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
84786171 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:84787299 original size:28 final size:28
Alignment explanation
Indices: 84787267--84787326 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
84787257 CATATTAATA
84787267 GGGTATAGGAAAAGTCTCATAACTTATG
1 GGGTATAGGAAAAGTCTCATAACTTATG
* * *
84787295 GGGTATAGGAAGAGTTTTATAACTTATG
1 GGGTATAGGAAAAGTCTCATAACTTATG
84787323 GGGT
1 GGGT
84787327 TGATAATGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.32
Consensus pattern (28 bp):
GGGTATAGGAAAAGTCTCATAACTTATG
Found at i:84792713 original size:28 final size:28
Alignment explanation
Indices: 84792681--84792740 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
84792671 CATATTAATA
84792681 GGGTATAGGAAAAGTCTCATAACTTATG
1 GGGTATAGGAAAAGTCTCATAACTTATG
* * *
84792709 GGGTATAGGAAGAGTTTTATAACTTATG
1 GGGTATAGGAAAAGTCTCATAACTTATG
84792737 GGGT
1 GGGT
84792741 TGATAATGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.32
Consensus pattern (28 bp):
GGGTATAGGAAAAGTCTCATAACTTATG
Found at i:84793488 original size:128 final size:128
Alignment explanation
Indices: 84793260--84793516 Score: 469
Period size: 128 Copynumber: 2.0 Consensus size: 128
84793250 ACCATTTATC
*
84793260 AGAACAGAATCTGACACCGTTAAGAAGAATTGAAATGATGATCCATGGTTTGAAGTCTGAATAAT
1 AGAACAGAATCTGACACCGTTAAGAAGAATTGAAATGATGATCCATGGTTTGAAGTCTGAAGAAT
* *
84793325 ACCCTATTGTATTCATACAGACATCATTTAGGAAGAACATGATCTGGTCCTTCAAGATTGAAA
66 ACCCTATTGTATTCATACAGACATCATTTAAGAAGAACATGATCTGGTCCGTCAAGATTGAAA
*
84793388 AGAACAGAATCTGACACCGTTGAGAAGAATTGAAATGATGATCCATGGTTTGAAGTCTGAAGAAT
1 AGAACAGAATCTGACACCGTTAAGAAGAATTGAAATGATGATCCATGGTTTGAAGTCTGAAGAAT
*
84793453 ACTCTATTGTATTCATACAGACATCATTTAAGAAGAACATGATCTGGTCCGTCAAGATTGAAA
66 ACCCTATTGTATTCATACAGACATCATTTAAGAAGAACATGATCTGGTCCGTCAAGATTGAAA
84793516 A
1 A
84793517 ACAAACTTTG
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
128 124 1.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (128 bp):
AGAACAGAATCTGACACCGTTAAGAAGAATTGAAATGATGATCCATGGTTTGAAGTCTGAAGAAT
ACCCTATTGTATTCATACAGACATCATTTAAGAAGAACATGATCTGGTCCGTCAAGATTGAAA
Found at i:84794703 original size:14 final size:13
Alignment explanation
Indices: 84794678--84794702 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84794668 TATAAAATAA
84794678 AAAAATCATTTTC
1 AAAAATCATTTTC
84794691 AAAAATCATTTT
1 AAAAATCATTTT
84794703 TATTTATTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAAATCATTTTC
Found at i:84795386 original size:22 final size:22
Alignment explanation
Indices: 84795361--84795408 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
84795351 TTTTCATATT
* * *
84795361 TTTTGGGATTTTTTTTTTATGA
1 TTTTGAGATTTTCTTTTAATGA
*
84795383 TTTTTAGATTTTCTTTTAATGA
1 TTTTGAGATTTTCTTTTAATGA
84795405 TTTT
1 TTTT
84795409 TATTTTTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.17, C:0.02, G:0.12, T:0.69
Consensus pattern (22 bp):
TTTTGAGATTTTCTTTTAATGA
Found at i:84795409 original size:22 final size:22
Alignment explanation
Indices: 84795367--84795410 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
84795357 TATTTTTTGG
* *
84795367 GATTTTTTTTTTATGATTTTTA
1 GATTTTCTTTTAATGATTTTTA
84795389 GATTTTCTTTTAATGATTTTTA
1 GATTTTCTTTTAATGATTTTTA
84795411 TTTTTTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.02, G:0.09, T:0.68
Consensus pattern (22 bp):
GATTTTCTTTTAATGATTTTTA
Found at i:84795416 original size:22 final size:20
Alignment explanation
Indices: 84795368--84795417 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
84795358 ATTTTTTGGG
84795368 ATTTTTTTTTTATGATTTTT
1 ATTTTTTTTTTATGATTTTT
* *
84795388 AGATTTTCTTTTAATGATTTTT
1 --ATTTTTTTTTTATGATTTTT
84795410 ATTTTTTT
1 ATTTTTTT
84795418 ATACGTGGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.28
22 18 0.72
ACGTcount: A:0.18, C:0.02, G:0.06, T:0.74
Consensus pattern (20 bp):
ATTTTTTTTTTATGATTTTT
Found at i:84797838 original size:27 final size:27
Alignment explanation
Indices: 84797808--84797876 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 27
84797798 AATCATATAT
*
84797808 ATATATTACTAATGAATAAAATT-TTAA
1 ATATATTACTAATGAAAAAAATTATT-A
*
84797835 ATATAATTGACCTTA-GAAAAAAATTATTA
1 ATAT-ATT-A-CTAATGAAAAAAATTATTA
84797864 ATATATTACTAAT
1 ATATATTACTAAT
84797877 TATTATTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
26 3 0.09
27 5 0.15
28 6 0.18
29 15 0.44
30 5 0.15
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (27 bp):
ATATATTACTAATGAAAAAAATTATTA
Found at i:84803813 original size:24 final size:24
Alignment explanation
Indices: 84803786--84803876 Score: 66
Period size: 24 Copynumber: 3.8 Consensus size: 24
84803776 CAAATTAATT
84803786 AATTATAATAATAAAAAAGTCAAA
1 AATTATAATAATAAAAAAGTCAAA
*
84803810 AATTATAACTTAA-AGAAAAA---AATT
1 AATTATAA--TAATA-AAAAAGTCAA-A
*
84803834 AATTAATCATAATAAAAAAAGTCAAA
1 AATT-ATAATAAT-AAAAAAGTCAAA
*
84803860 AATTATAAT-TTAAAAAA
1 AATTATAATAATAAAAAA
84803877 AAAGTAAGTT
Statistics
Matches: 52, Mismatches: 5, Indels: 21
0.67 0.06 0.27
Matches are distributed among these distances:
23 11 0.21
24 18 0.35
25 9 0.17
26 12 0.23
27 2 0.04
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.27
Consensus pattern (24 bp):
AATTATAATAATAAAAAAGTCAAA
Found at i:84803829 original size:28 final size:27
Alignment explanation
Indices: 84803798--84803879 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 27
84803788 TTATAATAAT
84803798 AAAAAAGTCAAAAATTATAACTTAAAGA
1 AAAAAAGTCAAAAATTATAACTTAAA-A
* * * *
84803826 AAAAAA-T---TAATTA-ATCATAATA
1 AAAAAAGTCAAAAATTATAACTTAAAA
*
84803848 AAAAAAGTCAAAAATTATAATTTAAAA
1 AAAAAAGTCAAAAATTATAACTTAAAA
84803875 AAAAA
1 AAAAA
84803880 GTAAGTTAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 11
0.67 0.15 0.18
Matches are distributed among these distances:
22 7 0.17
23 6 0.15
24 5 0.12
26 5 0.12
27 11 0.28
28 6 0.15
ACGTcount: A:0.67, C:0.05, G:0.04, T:0.24
Consensus pattern (27 bp):
AAAAAAGTCAAAAATTATAACTTAAAA
Found at i:84803866 original size:50 final size:50
Alignment explanation
Indices: 84803777--84803892 Score: 164
Period size: 50 Copynumber: 2.3 Consensus size: 50
84803767 CTATCTAATC
*
84803777 AAATTAATTAATTATAATAATAAAAAAGTCAAAAATTATAACTTAAAGAAAA
1 AAATTAATTAATCATAATAATAAAAAAGTCAAAAATTATAA-TTAAA-AAAA
*
84803829 AAATTAATTAATCATAAT-A-AAAAAAGTCAAAAATTATAATTTAAAAAA
1 AAATTAATTAATCATAATAATAAAAAAGTCAAAAATTATAATTAAAAAAA
*
84803877 AAAGTAAGTTAATCAT
1 AAATTAA-TTAATCAT
84803893 TTTCTCTAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
48 10 0.17
49 12 0.20
50 20 0.33
51 1 0.02
52 17 0.28
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (50 bp):
AAATTAATTAATCATAATAATAAAAAAGTCAAAAATTATAATTAAAAAAA
Found at i:84804419 original size:31 final size:30
Alignment explanation
Indices: 84804356--84804419 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
84804346 TTCATGATTA
*
84804356 TAAAATTTGTATATAAATTTAAATTTAATG
1 TAAAATTTGTACATAAATTTAAATTTAATG
* *
84804386 TAAAATTTGATACATGAACTTT-AATTTAGTG
1 TAAAATTTG-TACAT-AAATTTAAATTTAATG
84804417 TAA
1 TAA
84804420 TTATACACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 9 0.31
31 15 0.52
32 5 0.17
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (30 bp):
TAAAATTTGTACATAAATTTAAATTTAATG
Found at i:84804487 original size:31 final size:31
Alignment explanation
Indices: 84804426--84804488 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
84804416 GTAATTATAC
**
84804426 ACATAAAACTTAAATTATGGTTCATATGTAT
1 ACATAAAACTTAAATTATAATTCATATGTAT
*
84804457 ACATAAAACTTAAATTTTAATTCA-ATTGTAT
1 ACATAAAACTTAAATTATAATTCATA-TGTAT
84804488 A
1 A
84804489 TATTTAAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 1 0.04
31 27 0.96
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (31 bp):
ACATAAAACTTAAATTATAATTCATATGTAT
Found at i:84806376 original size:22 final size:22
Alignment explanation
Indices: 84806350--84806392 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
84806340 TACCTAAATT
84806350 TTAAAATTTAAAAAATAAAAAA
1 TTAAAATTTAAAAAATAAAAAA
* *
84806372 TTAAATTTTTAAAAATAAAAA
1 TTAAAATTTAAAAAATAAAAA
84806393 TATATGAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TTAAAATTTAAAAAATAAAAAA
Found at i:84811058 original size:20 final size:20
Alignment explanation
Indices: 84811033--84811073 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
84811023 AGACATTTTT
84811033 TTTCCCCATATTTTCTTAAC
1 TTTCCCCATATTTTCTTAAC
84811053 TTTCCCCATATTTTCTTAAC
1 TTTCCCCATATTTTCTTAAC
84811073 T
1 T
84811074 ATTAATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.29, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTCCCCATATTTTCTTAAC
Found at i:84817579 original size:91 final size:92
Alignment explanation
Indices: 84817463--84817643 Score: 215
Period size: 91 Copynumber: 2.0 Consensus size: 92
84817453 TAACTCCAAG
* * * *
84817463 TACCATAATAATACACAGATAGATAGTCCATGTACCACATT-AATATTTTTCAAAGTATAAGTAC
1 TACCATAATAATACACAAATAGATAGTCCAAGTACCACATTGAACA-TTTTCAAAGTATAAGCAC
84817527 CAAATT-GAACATCTTATAAAAGTACAAC
65 CAAATTAG-ACATCTTATAAAAGTACAAC
* * ** * *
84817555 TACCA-AATAATATACAAATTGATAGTTTAAGTACCATATTGGACATTTTCAAAGTATAAGCACC
1 TACCATAATAATACACAAATAGATAGTCCAAGTACCACATTGAACATTTTCAAAGTATAAGCACC
* *
84817619 ATATTAGACATTTTATAAAAGTACA
66 AAATTAGACATCTTATAAAAGTACA
84817644 GATGCCAAAT
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
91 67 0.89
92 8 0.11
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.31
Consensus pattern (92 bp):
TACCATAATAATACACAAATAGATAGTCCAAGTACCACATTGAACATTTTCAAAGTATAAGCACC
AAATTAGACATCTTATAAAAGTACAAC
Found at i:84817935 original size:17 final size:17
Alignment explanation
Indices: 84817913--84817957 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
84817903 ATCTATTCGC
84817913 ATCATATTTTATAAAAT
1 ATCATATTTTATAAAAT
* *
84817930 ATCATAATTTGTAAAAT
1 ATCATATTTTATAAAAT
84817947 AT-ATATCTTTA
1 ATCATAT-TTTA
84817958 AATATATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 3 0.13
17 20 0.87
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (17 bp):
ATCATATTTTATAAAAT
Found at i:84825910 original size:21 final size:21
Alignment explanation
Indices: 84825884--84825924 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
84825874 AGACGAGCAA
* *
84825884 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
84825905 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
84825925 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:84828598 original size:19 final size:19
Alignment explanation
Indices: 84828574--84828613 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
84828564 TTTAAAACAA
* * *
84828574 ATTAAATTATCAATCATTT
1 ATTAAAATATAAATAATTT
84828593 ATTAAAATATAAATAATTT
1 ATTAAAATATAAATAATTT
84828612 AT
1 AT
84828614 CTTTTTCAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTAAAATATAAATAATTT
Found at i:84828878 original size:38 final size:37
Alignment explanation
Indices: 84828835--84828907 Score: 94
Period size: 39 Copynumber: 1.9 Consensus size: 37
84828825 TTTAACTTTT
*
84828835 TTAAAATTA-AAAATTATTATAAAATTAATTTTAAATAA
1 TTAAAATTATAAAAATATTATAAAA-T-ATTTTAAATAA
* *
84828873 TTAAAATTATAAAAATATTTTTAAATATTTTAAAT
1 TTAAAATTATAAAAATATTATAAAATATTTTAAAT
84828908 TTTGAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 9 0.29
38 10 0.32
39 12 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (37 bp):
TTAAAATTATAAAAATATTATAAAATATTTTAAATAA
Found at i:84828885 original size:28 final size:28
Alignment explanation
Indices: 84828850--84828908 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
84828840 ATTAAAAATT
*
84828850 ATTATAAAATTAATTTTAAATAATTAAA
1 ATTATAAAAATAATTTTAAATAATTAAA
* * *
84828878 ATTATAAAAATATTTTTAAATATTTTAA
1 ATTATAAAAATAATTTTAAATAATTAAA
84828906 ATT
1 ATT
84828909 TTGAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
ATTATAAAAATAATTTTAAATAATTAAA
Found at i:84830908 original size:22 final size:22
Alignment explanation
Indices: 84830865--84830910 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
84830855 TAGTCCAACT
*
84830865 ATGGTCTTACACGTATATTGCC
1 ATGGTCTTACACGTATAGTGCC
*
84830887 ATGGTCTTACA-TTCATAGTGCC
1 ATGGTCTTACACGT-ATAGTGCC
84830909 AT
1 AT
84830911 AACCCCATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (22 bp):
ATGGTCTTACACGTATAGTGCC
Found at i:84840351 original size:126 final size:127
Alignment explanation
Indices: 84840211--84840471 Score: 389
Period size: 126 Copynumber: 2.1 Consensus size: 127
84840201 GAAAATTGCC
* * *
84840211 TTGTTTTGAAGTTTAGAAAATGCGGACGAAATTTTAAAGGGATATTTGATTACTTGGACAAACAA
1 TTGTTTTAAAGTTTAGAAAACGCAGACGAAATTTTAAAGGGATATTTGATTACTTGGACAAACAA
* * * * *
84840276 AAGATTGAAACCCAGCACGTTAGGGCACAATTTCCCGATTTTCGAA-CAGCAAACATCACCT
66 AAGATCGAAACCCAACACGTTAGGGCACAACTTCCCGAATTTCCAAGCAGCAAACATCACCT
* **
84840337 TTGTTTTAAAGTTTAGAAAACGCAGACGAAATTTTAAAGGGATATTTGATTATTTGGACAAACGG
1 TTGTTTTAAAGTTTAGAAAACGCAGACGAAATTTTAAAGGGATATTTGATTACTTGGACAAACAA
* * *
84840402 AAGATCGAAACCCAACACGTTAGGGCACGACTTCCCGAATTTCCAAGCATCAAACATCGCCT
66 AAGATCGAAACCCAACACGTTAGGGCACAACTTCCCGAATTTCCAAGCAGCAAACATCACCT
84840464 TTGTTTTA
1 TTGTTTTA
84840472 TAGAGTCGGC
Statistics
Matches: 120, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
126 99 0.82
127 21 0.17
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (127 bp):
TTGTTTTAAAGTTTAGAAAACGCAGACGAAATTTTAAAGGGATATTTGATTACTTGGACAAACAA
AAGATCGAAACCCAACACGTTAGGGCACAACTTCCCGAATTTCCAAGCAGCAAACATCACCT
Found at i:84842526 original size:23 final size:23
Alignment explanation
Indices: 84842476--84842528 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
84842466 ATTACAATTG
* *
84842476 TTTCTTT-TTTCATTTTCTGTTA
1 TTTCTTTGTTGCATTTTCTGTCA
84842498 TTTCTTTGTTGCACTTTT-TGTCA
1 TTTCTTTGTTGCA-TTTTCTGTCA
84842521 TTTCTTTG
1 TTTCTTTG
84842529 GCTTCTTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 7 0.26
23 16 0.59
24 4 0.15
ACGTcount: A:0.08, C:0.15, G:0.09, T:0.68
Consensus pattern (23 bp):
TTTCTTTGTTGCATTTTCTGTCA
Found at i:84843615 original size:141 final size:141
Alignment explanation
Indices: 84843446--84843748 Score: 462
Period size: 141 Copynumber: 2.1 Consensus size: 141
84843436 GATCTACTCT
* * * * *
84843446 ACTGCAACTTTAGAGAGATAAGATCTGTTTATTTATAGCTTCAATCTATTCAACTGCAACTTTAG
1 ACTGCAACTTCAGGGAGATAAGATCTGTTTATTTATAGATTCAATCTATTCAACTACAACTTCAG
* *
84843511 GGAAATAAGATACGCTATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACCTGTCACTT
66 GGAAATAAGATACACTATCTTCAGTCTGCTCCACTACAACTTCAAGGAGATAAGACCTGTCACTT
84843576 CAACCTGCCCC
131 CAACCTGCCCC
* * *
84843587 GCTGCAACTTCAGGGAGATAAGATCTGTTTATTTATAGATTCAATCTGTTCCACTACAACTTCAG
1 ACTGCAACTTCAGGGAGATAAGATCTGTTTATTTATAGATTCAATCTATTCAACTACAACTTCAG
* * * *
84843652 GGAAATAAGATTCACTATCTTCAGTCTGCTCTACTGCAACTTTAAGGAGATAAGACCTGTCACTT
66 GGAAATAAGATACACTATCTTCAGTCTGCTCCACTACAACTTCAAGGAGATAAGACCTGTCACTT
* *
84843717 CAACTTGCTCC
131 CAACCTGCCCC
84843728 ACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGATAA
84843749 TGTTTGCTAT
Statistics
Matches: 145, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
141 145 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (141 bp):
ACTGCAACTTCAGGGAGATAAGATCTGTTTATTTATAGATTCAATCTATTCAACTACAACTTCAG
GGAAATAAGATACACTATCTTCAGTCTGCTCCACTACAACTTCAAGGAGATAAGACCTGTCACTT
CAACCTGCCCC
Found at i:84843776 original size:182 final size:182
Alignment explanation
Indices: 84843588--84844112 Score: 897
Period size: 182 Copynumber: 2.9 Consensus size: 182
84843578 ACCTGCCCCG
* *
84843588 CTGCAACTTCAGGGAGATAAGATCTGTTTATTTATAGATTCAATCTGTTCCACTACAACTTCAGG
1 CTGCAACTTCAGAGAGATAAGATCTGTTTATTTATAGCTTCAATCTGTTCCACTACAACTTCAGG
* *
84843653 GAAATAAGATTCACTATCTTCAGTCTGCTCTACTGCAACTTTAAGGAGATAAGACCTGTCACTTC
66 GAAATAAGATTCACTATCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACCTGTCACTTC
*
84843718 AACTTGCTCCACTGCAACTTCAGGGAGATAATGTTTGCTATGATCTGCTCTA
131 AACCTGCTCCACTGCAACTTCAGGGAGATAATGTTTGCTATGATCTGCTCTA
* * * * *
84843770 CTGCAACTTCAGAGAGATAATATCTATTTATTTATAGCTTCAATCTGTTCCACTATAACTTTATG
1 CTGCAACTTCAGAGAGATAAGATCTGTTTATTTATAGCTTCAATCTGTTCCACTACAACTTCAGG
**
84843835 GAAATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACCTGTCACTTC
66 GAAATAAGATTCACTATCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACCTGTCACTTC
* *
84843900 AACCTGCTCCGCTGTAACTTCAGGGAGATAATGTTTGCTATGATCTGCTCTA
131 AACCTGCTCCACTGCAACTTCAGGGAGATAATGTTTGCTATGATCTGCTCTA
*
84843952 CTGCAACTTCAGAGAGATAAGATCTGTTTATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGG
1 CTGCAACTTCAGAGAGATAAGATCTGTTTATTTATAGCTTCAATCTGTTCCACTACAACTTCAGG
* *
84844017 GAAATAAGATTCACTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGTCACTTC
66 GAAATAAGATTCACTATCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACCTGTCACTTC
84844082 AACCTGCTCCACTGCAACTTCAGGGAGATAA
131 AACCTGCTCCACTGCAACTTCAGGGAGATAA
84844113 GGTTGTGAAT
Statistics
Matches: 317, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
182 317 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (182 bp):
CTGCAACTTCAGAGAGATAAGATCTGTTTATTTATAGCTTCAATCTGTTCCACTACAACTTCAGG
GAAATAAGATTCACTATCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACCTGTCACTTC
AACCTGCTCCACTGCAACTTCAGGGAGATAATGTTTGCTATGATCTGCTCTA
Found at i:84843884 original size:97 final size:96
Alignment explanation
Indices: 84843588--84844070 Score: 424
Period size: 97 Copynumber: 5.2 Consensus size: 96
84843578 ACCTGCCCCG
* * **
84843588 CTGCAACTTCAGGGAGATAAGATCTGTTTATTTATAGATTCAATCTGTTCCACTACAACTTCAGG
1 CTGCAACTTCAGAGAGATAAGATCT-TTTATTTATAGCTTCAATCTGTTCCACTGTAACTTCAGG
**
84843653 GAAATAAGATTCACTATCTTCAGTCTGCTCTA
65 GAAATAAGATTTGCTATCTTCAGTCTGCTCTA
* * * * * *
84843685 CTGCAACTTTA-AGGAGATAAGA-C----CTGT-CA-CTTCAA-CTTGCTCCACTGCAACTTCAG
1 CTGCAACTTCAGA-GAGATAAGATCTTTTATTTATAGCTTCAATC-TGTTCCACTGTAACTTCAG
* *
84843741 GGAGATAATG-TTTGCTA---TGA-TCTGCTCTA
64 GGAAATAA-GATTTGCTATCTTCAGTCTGCTCTA
* * * *
84843770 CTGCAACTTCAGAGAGATAATATCTATTTATTTATAGCTTCAATCTGTTCCACTATAACTTTATG
1 CTGCAACTTCAGAGAGATAAGATCT-TTTATTTATAGCTTCAATCTGTTCCACTGTAACTTCAGG
84843835 GAAATAAGATTTGCTATCTTCAGTCTGCTCTA
65 GAAATAAGATTTGCTATCTTCAGTCTGCTCTA
* * * * * * *
84843867 CTGCAACTTCAGGGAGATAAGA-C----CTGT-CA-CTTCAACCTGCTCCGCTGTAACTTCAGGG
1 CTGCAACTTCAGAGAGATAAGATCTTTTATTTATAGCTTCAATCTGTTCCACTGTAACTTCAGGG
* *
84843925 AGATAATG-TTTGCTA---TGA-TCTGCTCTA
66 AAATAA-GATTTGCTATCTTCAGTCTGCTCTA
*
84843952 CTGCAACTTCAGAGAGATAAGATCTGTTTATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGG
1 CTGCAACTTCAGAGAGATAAGATCT-TTTATTTATAGCTTCAATCTGTTCCACTGTAACTTCAGG
** * *
84844017 GAAATAAGATTCACTATCTTTAGTCTGCTCCA
65 GAAATAAGATTTGCTATCTTCAGTCTGCTCTA
*
84844049 CTGCAACTTCAGGGAGATAAGA
1 CTGCAACTTCAGAGAGATAAGA
84844071 CCTGTCACTT
Statistics
Matches: 303, Mismatches: 51, Indels: 64
0.72 0.12 0.15
Matches are distributed among these distances:
85 57 0.19
86 7 0.02
88 1 0.00
89 69 0.23
90 4 0.01
91 8 0.03
92 4 0.01
93 69 0.23
94 1 0.00
96 6 0.02
97 77 0.25
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33
Consensus pattern (96 bp):
CTGCAACTTCAGAGAGATAAGATCTTTTATTTATAGCTTCAATCTGTTCCACTGTAACTTCAGGG
AAATAAGATTTGCTATCTTCAGTCTGCTCTA
Found at i:84843908 original size:44 final size:43
Alignment explanation
Indices: 84843852--84844113 Score: 194
Period size: 44 Copynumber: 5.8 Consensus size: 43
84843842 GATTTGCTAT
* *
84843852 CTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACCTGTCA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTGTCA
* * * **
84843896 CTTCAACCTGCTCCGCTGTAACTTCAGGGAGAT-A-A-TGTTTG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTG-TCA
* * * *
84843937 CTAT-GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTTTATTTATA
1 CT-TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTG------T-CA
* *
84843988 GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGA-T-TCA
1 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTGTCA
*
84844030 CTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGTCA
1 CT-TC---AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTGTCA
*
84844078 CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
84844114 GTTGTGAATT
Statistics
Matches: 172, Mismatches: 25, Indels: 42
0.72 0.10 0.18
Matches are distributed among these distances:
40 2 0.01
41 28 0.16
42 6 0.03
43 3 0.02
44 58 0.34
45 32 0.19
47 3 0.02
48 5 0.03
50 3 0.02
51 2 0.01
52 30 0.17
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (43 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTGTCA
Found at i:84844098 original size:323 final size:317
Alignment explanation
Indices: 84843357--84844113 Score: 787
Period size: 323 Copynumber: 2.3 Consensus size: 317
84843347 ATTTAGTCTA
* * * * * *
84843357 CTCCACTGCAACTTCAAGGAGATAAAACCTATCACTTTAACCTGTTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAAGGAAATAAGA-CTGTCACTTCAACTTGCTCCACTGCAACTTCAGGGAG
* ** * * * * * *
84843422 ATAAGGTTTGCTATGATCTACTCTACTGCAACTTTAGAGAGATAAGATCTGTTTATTTATAGCTT
65 ATAATGTTCACTATAACCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATTTATTTATAGCTT
*
84843487 CAATCTATTCAACTGCAACTTTAGGGAAATAAGATACGCTATCTTCAGTCTGCTCCACTACAACT
130 CAATCTATTCAACTACAACTTTAGGGAAATAAGATACGCTATCTTCAGTCTGCTCCACTACAACT
84843552 TCAGGGAGATAAGACCTGTCACTTCAACCTGCCCCGCTGCAACTTCAGGGAGATAAGATCTGTTT
195 TCAGGGAGATAAGACCTGTCACTTCAACCTGCCCCGCTGCAACTTCAGGGAGATAAGA-CTGTTT
** * * *
84843617 ATTTATAGATTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTG
259 AGCTATAG----AATCTGCTCCACTACAACTTCAGAGAAATAAGATTCACTATCTTCAATCTG
* * *
84843680 CTCTACTGCAACTTTAAGGAGATAAGACCTGTCACTTCAACTTGCTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAAGGAAATAAGA-CTGTCACTTCAACTTGCTCCACTGCAACTTCAGGGAG
** * * * *
84843745 ATAATGTTTGCTATGATCTGCTCTACTGCAACTTCAGAGAGATAATATCTATTTATTTATAGCTT
65 ATAATGTTCACTATAACCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATTTATTTATAGCTT
* * * * ** * *
84843810 CAATCTGTTCCACTATAACTTTATGGAAATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAACT
130 CAATCTATTCAACTACAACTTTAGGGAAATAAGATACGCTATCTTCAGTCTGCTCCACTACAACT
* *
84843875 TCAGGGAGATAAGACCTGTCACTTCAACCTGCTCCGCTGTAACTTCAGGGAGAT-A-A-TGTTT-
195 TCAGGGAGATAAGACCTGTCACTTCAACCTGCCCCGCTGCAACTTCAGGGAGATAAGACTGTTTA
* * * * *
84843936 GCTAT-G-ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTTTATTTATAGCTTCAATCTG
260 GCTATAGAATCTGCTCCACTACAACTTCAGAGAAATAAGA----TTCA-CTAT--CTTCAATCTG
* * * *
84843999 TTCCACTGCAACTTCAGGGAAATAAGA-T-TCACTATCTTTAGTCTGCTCCACTGCAACTTCAGG
1 CTCCACTGCAACTTCAAGGAAATAAGACTGTCACT-TC--AACT-TGCTCCACTGCAACTTCAGG
*
84844062 GAGATAA-GACCTGTCACT-TCAACCTGCTCCACTGCAACTTCAGGGAGATAAG
62 GAGATAATG---T-TCACTAT-AACCTGCTCCACTGCAACTTCAGAGAGATAAG
84844114 GTTGTGAATT
Statistics
Matches: 371, Mismatches: 47, Indels: 32
0.82 0.10 0.07
Matches are distributed among these distances:
312 27 0.07
316 8 0.02
317 7 0.02
318 3 0.01
319 39 0.11
320 27 0.07
321 1 0.00
322 3 0.01
323 256 0.69
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (317 bp):
CTCCACTGCAACTTCAAGGAAATAAGACTGTCACTTCAACTTGCTCCACTGCAACTTCAGGGAGA
TAATGTTCACTATAACCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATTTATTTATAGCTTC
AATCTATTCAACTACAACTTTAGGGAAATAAGATACGCTATCTTCAGTCTGCTCCACTACAACTT
CAGGGAGATAAGACCTGTCACTTCAACCTGCCCCGCTGCAACTTCAGGGAGATAAGACTGTTTAG
CTATAGAATCTGCTCCACTACAACTTCAGAGAAATAAGATTCACTATCTTCAATCTG
Found at i:84845515 original size:65 final size:63
Alignment explanation
Indices: 84845340--84845525 Score: 234
Period size: 63 Copynumber: 2.9 Consensus size: 63
84845330 CCTTGGCCTC
* * *
84845340 TTTTTT-TTTCATTTTTTTATTGGATCTCAAAGCGCCCTTTGCGGATTTTCACCTTGACCCGAT
1 TTTTTTATTTCATTTTTTTATTGGGTCTCAAAGCGCTCTTTGCGG-TTTTCACCTTGACCCAAT
* * *
84845403 TTTTTTATTTCA-TTTTTTATTGGGTCTTAAAGC-ATCTTTTACGGGTTTTCACCTTGACCCAAT
1 TTTTTTATTTCATTTTTTTATTGGGTCTCAAAGCGCTC-TTTGC-GGTTTTCACCTTGACCCAA-
84845466 T
63 T
* *
84845467 TTTTTTATTTTATTTTTTTATTGGGTCTCAAAGCGCTCTTTGCAGGTTTTCACTTTGAC
1 TTTTTTATTTCATTTTTTTATTGGGTCTCAAAGCGCTCTTTGC-GGTTTTCACCTTGAC
84845526 TTCTTCCCCT
Statistics
Matches: 105, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
62 1 0.01
63 45 0.43
64 19 0.18
65 38 0.36
66 2 0.02
ACGTcount: A:0.17, C:0.18, G:0.14, T:0.51
Consensus pattern (63 bp):
TTTTTTATTTCATTTTTTTATTGGGTCTCAAAGCGCTCTTTGCGGTTTTCACCTTGACCCAAT
Found at i:84856798 original size:28 final size:28
Alignment explanation
Indices: 84856714--84856803 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 28
84856704 TGAGCATGAC
*
84856714 TATAAATGTGAATTGGGCCT-GATGGGCTA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
* *
84856743 TATAAAAGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
*
84856772 TATAAATGTGATTAGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
84856800 TATA
1 TATA
84856804 CAGGTATGTG
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
28 20 0.38
29 33 0.62
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:84860935 original size:9 final size:9
Alignment explanation
Indices: 84860921--84860945 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
84860911 ATAGAGATAA
84860921 AAATAAAAT
1 AAATAAAAT
84860930 AAATAAAAT
1 AAATAAAAT
84860939 AAATAAA
1 AAATAAA
84860946 CCCGTGTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAATAAAAT
Found at i:84863625 original size:127 final size:126
Alignment explanation
Indices: 84863375--84863698 Score: 418
Period size: 127 Copynumber: 2.6 Consensus size: 126
84863365 TGGTCCAACG
** * * * * *
84863375 AAAAATCGAAACCTAATACGTTAGGGCACGATTTCTCAAATTTCTAAACATA-GAACATTGCC-T
1 AAAAATCGAAACCTAGCACGTTAGGGCACGATTTCCCGAATTTC-CAACA-ACAAACATCGCCTT
* *
84863438 TGTTTTGAAGTTTAGAAAACGCGGACGAAATTTTAAAGGGATATTTGATTATTTGGACAAACA
64 TGTTTTAAAGTTTAGAAAACGCGGACGAAATTTTAAAGGGATATTTGATTATTTGAACAAACA
*
84863501 AAAAATTGAAACCTAGCACGTTAGGGCACGATTTCCCGAATTTCCGAACAACAAACATCGCCTTT
1 AAAAATCGAAACCTAGCACGTTAGGGCACGATTTCCCGAATTTCC-AACAACAAACATCGCCTTT
* * **
84863566 GATTTAAAGTTTAGAAAACGCTGACGAAATTTTAAAGGGATATTTGATTATTTGAACAAATG
65 GTTTTAAAGTTTAGAAAACGCGGACGAAATTTTAAAGGGATATTTGATTATTTGAACAAACA
* * * * * *
84863628 GAAGATCGAAACCCAGCACATTAGGGCACGACTTCCCGAATTTCCAAGCATCAAACATCGCCTTT
1 AAAAATCGAAACCTAGCACGTTAGGGCACGATTTCCCGAATTTCCAA-CAACAAACATCGCCTTT
84863693 GTTTTA
65 GTTTTA
84863699 TAAAGTCGGC
Statistics
Matches: 172, Mismatches: 22, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
125 1 0.01
126 53 0.31
127 118 0.69
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.28
Consensus pattern (126 bp):
AAAAATCGAAACCTAGCACGTTAGGGCACGATTTCCCGAATTTCCAACAACAAACATCGCCTTTG
TTTTAAAGTTTAGAAAACGCGGACGAAATTTTAAAGGGATATTTGATTATTTGAACAAACA
Found at i:84864549 original size:9 final size:9
Alignment explanation
Indices: 84864537--84864569 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
84864527 GAATTATTCG
84864537 AATCGAGTT
1 AATCGAGTT
84864546 AATCGAGTT
1 AATCGAGTT
*
84864555 AATCGAATT
1 AATCGAGTT
84864564 AATCGA
1 AATCGA
84864570 ATCAACTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (9 bp):
AATCGAGTT
Found at i:84864570 original size:9 final size:9
Alignment explanation
Indices: 84864537--84864582 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
84864527 GAATTATTCG
*
84864537 AATCGAGTT
1 AATCGAATT
*
84864546 AATCGAGTT
1 AATCGAATT
84864555 AATCGAATT
1 AATCGAATT
*
84864564 AATCGAATC
1 AATCGAATT
84864573 AACTCGAATT
1 AA-TCGAATT
84864583 TTTTTCGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (9 bp):
AATCGAATT
Found at i:84867468 original size:19 final size:19
Alignment explanation
Indices: 84867432--84867470 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
84867422 TTTTCATCAT
* *
84867432 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
84867451 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
84867470 A
1 A
84867471 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:84874764 original size:18 final size:19
Alignment explanation
Indices: 84874738--84874775 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
84874728 AGAGTCCAGA
84874738 TTTTAAAAA-CTTATTTTT
1 TTTTAAAAATCTTATTTTT
* *
84874756 TTTTGAAAATCTTCTTTTT
1 TTTTAAAAATCTTATTTTT
84874775 T
1 T
84874776 GTAAACCCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTTAAAAATCTTATTTTT
Found at i:84875306 original size:19 final size:19
Alignment explanation
Indices: 84875270--84875308 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
84875260 TTTTCATCAT
* *
84875270 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
84875289 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
84875308 A
1 A
84875309 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:84875821 original size:26 final size:27
Alignment explanation
Indices: 84875746--84875859 Score: 108
Period size: 26 Copynumber: 4.1 Consensus size: 27
84875736 AGCATGGCTG
* * * *
84875746 CCAGATACAGAAAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGTGCCA
*
84875773 CCAGATACAGATATTTTGTGGCAGTGCCA
1 CCAGATACAGATA--ATGTGGCAGTGCCA
*
84875802 CCAGA-ACAGATAATGTGGCAGGGCCA
1 CCAGATACAGATAATGTGGCAGTGCCA
84875828 CCAGA-ACAGATAATTTGTGGCA-TAGCCA
1 CCAGATACAGATAA--TGTGGCAGT-GCCA
84875856 CCAG
1 CCAG
84875860 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
26 25 0.34
27 12 0.16
28 22 0.30
29 15 0.20
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGTGCCA
Found at i:84875855 original size:28 final size:27
Alignment explanation
Indices: 84875771--84875859 Score: 110
Period size: 26 Copynumber: 3.2 Consensus size: 27
84875761 GTGACAGAGT
*
84875771 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
*
84875800 CACCAGAACAGATAA--TGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
84875826 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
84875854 CACCAG
1 CACCAG
84875860 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
26 25 0.46
28 22 0.41
29 7 0.13
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:84875856 original size:54 final size:56
Alignment explanation
Indices: 84875746--84875859 Score: 153
Period size: 54 Copynumber: 2.1 Consensus size: 56
84875736 AGCATGGCTG
* *
84875746 CCAGATACAGAAAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGTGCCA
1 CCAGATACAGAAAATGTGACAGAGCCACCAGATACAGATAATTTGTGGCAGTGCCA
* * *
84875802 CCAGA-ACAGATAATGTGGCAGGGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
1 CCAGATACAGAAAATGTGACAGAGCCACCAGATACAGATAATTTGTGGCAGT-GCCA
84875856 CCAG
1 CCAG
84875860 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
53 1 0.02
54 24 0.46
55 22 0.42
56 5 0.10
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (56 bp):
CCAGATACAGAAAATGTGACAGAGCCACCAGATACAGATAATTTGTGGCAGTGCCA
Found at i:84876011 original size:27 final size:28
Alignment explanation
Indices: 84875965--84876024 Score: 95
Period size: 27 Copynumber: 2.2 Consensus size: 28
84875955 AAATTAACCC
*
84875965 TAGGGGTATAAAGGTCA-TTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
84875992 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
84876020 TAGGG
1 TAGGG
84876025 ATTCTAGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 15 0.50
28 15 0.50
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:84881301 original size:52 final size:52
Alignment explanation
Indices: 84881214--84881312 Score: 121
Period size: 52 Copynumber: 1.9 Consensus size: 52
84881204 CGGTTCACAT
* * *
84881214 ATATACCGAAGCCATATCCCGACATGTCTTATACGGAATCACTTATCTACAC
1 ATATACCGAAGCCATAGCCAGACATGTCTTATACGGAATCACATATCTACAC
* *
84881266 ATATACCGGAGCCATAGCCAG-CTATGGTCTT-TACGGAGTCACATATC
1 ATATACCGAAGCCATAGCCAGAC-AT-GTCTTATACGGAATCACATATC
84881313 ACATGCACCG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
51 1 0.03
52 34 0.85
53 5 0.12
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (52 bp):
ATATACCGAAGCCATAGCCAGACATGTCTTATACGGAATCACATATCTACAC
Found at i:84888482 original size:52 final size:53
Alignment explanation
Indices: 84888409--84888510 Score: 152
Period size: 52 Copynumber: 1.9 Consensus size: 53
84888399 CATGCTCTTA
*
84888409 TACGGAATCCACATTATCACATTATACCGATGCCATAAGCCCAGCTATTCGTT
1 TACGGAATCCACATTATCACATTACACCGATGCCATAAGCCCAGCTATTCGTT
* * * *
84888462 TACGGAGT-CACATTATCACATTGCACCGATTCCATTAGCCCAGCTATTC
1 TACGGAATCCACATTATCACATTACACCGATGCCATAAGCCCAGCTATTC
84888511 TTAACGGCAC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 37 0.84
53 7 0.16
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.28
Consensus pattern (53 bp):
TACGGAATCCACATTATCACATTACACCGATGCCATAAGCCCAGCTATTCGTT
Found at i:84893012 original size:2 final size:2
Alignment explanation
Indices: 84893005--84893041 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
84892995 TACTTCATTG
*
84893005 CT CT CT CT TT CT C- CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
84893042 ATATATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:84896394 original size:53 final size:53
Alignment explanation
Indices: 84896337--84896456 Score: 204
Period size: 53 Copynumber: 2.3 Consensus size: 53
84896327 TATCCCAGAC
*
84896337 ATGGTCTTATACGGAATCACATTATCACATTATACCGATGCCATAGCCCAGCT
1 ATGGTCTTATACGGAATCACATTATCACATTACACCGATGCCATAGCCCAGCT
* *
84896390 ATGGTCTTATACGGAGTCACATTATCACATTGCACCGATGCCATAGCCCAGCT
1 ATGGTCTTATACGGAATCACATTATCACATTACACCGATGCCATAGCCCAGCT
*
84896443 ATGGTCTTAAACGG
1 ATGGTCTTATACGG
84896457 GCACACTTAT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 63 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (53 bp):
ATGGTCTTATACGGAATCACATTATCACATTACACCGATGCCATAGCCCAGCT
Found at i:84903472 original size:53 final size:53
Alignment explanation
Indices: 84903391--84903541 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
84903381 CTTACACGGT
* *
84903391 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
84903446 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
84903499 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
84903542 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:84904679 original size:12 final size:12
Alignment explanation
Indices: 84904662--84904686 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84904652 ATGGCACTCC
84904662 ATAAATATTTAT
1 ATAAATATTTAT
84904674 ATAAATATTTAT
1 ATAAATATTTAT
84904686 A
1 A
84904687 GCTCAATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATAAATATTTAT
Found at i:84908088 original size:2 final size:2
Alignment explanation
Indices: 84908081--84908114 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
84908071 TTACTTCTTG
*
84908081 CT CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
84908115 ATATATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:84908837 original size:18 final size:19
Alignment explanation
Indices: 84908810--84908846 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
84908800 TTTAAAGCGA
84908810 TTTAACAAA-TAATAAAAAT
1 TTTAACAAATTAA-AAAAAT
84908829 TTTAA-AAATTAAAAAAAT
1 TTTAACAAATTAAAAAAAT
84908847 AAAAATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
TTTAACAAATTAAAAAAAT
Found at i:84917480 original size:22 final size:21
Alignment explanation
Indices: 84917441--84917488 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
84917431 AACTATAATA
* *
84917441 ATAATAACAACATAAATAGATG
1 ATAATAACAAAATAAATA-ACG
84917463 ATAATAACAATAAT-AATAACG
1 ATAATAACAA-AATAAATAACG
84917484 ATAAT
1 ATAAT
84917489 GACGTGGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 7 0.30
22 14 0.61
23 2 0.09
ACGTcount: A:0.60, C:0.08, G:0.06, T:0.25
Consensus pattern (21 bp):
ATAATAACAAAATAAATAACG
Found at i:84918745 original size:25 final size:26
Alignment explanation
Indices: 84918717--84918770 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
84918707 TTATTTTTTT
*
84918717 TTCTTTTCCTTT-CTTTTGTTTTTGC
1 TTCTTGTCCTTTGCTTTTGTTTTTGC
* *
84918742 TTC-TGTCCTTTGTTTTTGTTTTTGT
1 TTCTTGTCCTTTGCTTTTGTTTTTGC
84918767 TTCT
1 TTCT
84918771 ATGTTGTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.00, C:0.17, G:0.11, T:0.72
Consensus pattern (26 bp):
TTCTTGTCCTTTGCTTTTGTTTTTGC
Found at i:84918951 original size:4 final size:4
Alignment explanation
Indices: 84918942--84918967 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
84918932 ACTTTTATTA
84918942 TTTG TTTG TTTG TTTG TTTG TTTG TT
1 TTTG TTTG TTTG TTTG TTTG TTTG TT
84918968 ATTTGGGTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (4 bp):
TTTG
Found at i:84919309 original size:44 final size:44
Alignment explanation
Indices: 84919261--84919928 Score: 159
Period size: 44 Copynumber: 14.3 Consensus size: 44
84919251 TCATTCCAAA
84919261 CCACTGCAACTTCAGAGGTATAGGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTCAGAGGTATAGGATTTGTAGCTTCATCTTGCT
* * * *** * *
84919305 CCACTACAACTTTAGGGGTGCAATATTTTCTATGTTATCTTCAAT-TTGAT
1 CCACTGCAACTTCAGAGGT---ATAGGAT-T-TG-TAGCTTC-ATCTTGCT
* * * *
84919355 CTACTGTAACTTCA-AGGTTATAGGATTTATAGCTTCGTCTTGCT
1 CCACTGCAACTTCAGAGG-TATAGGATTTGTAGCTTCATCTTGCT
* * * * * *
84919399 TCATTGCAACTTTAGAAAG-ATAAGATTTGTTGTGGTAGCTTTAAT-TTGAC-
1 CCACTGCAACTTCAG-AGGTATAGGA----TT-T-GTAGC-TTCATCTTG-CT
* *
84919449 CCACTGCAACTTCAGGGGTATATGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTCAGAGGTATAGGATTTGTAGCTTCATCTTGCT
* * * ** * *
84919493 CCACTACAACTTTAG-GGAGATAAAATTCGTCATTGTAGTTTCTATC-CGAC-
1 CCACTGCAACTTCAGAGG-TATAGGA----T--TTGTAGCTTC-ATCTTG-CT
* * * *
84919543 CCACTGCAACTTTAGAGGTTTAGGATTTATAGCTTCATCTTACT
1 CCACTGCAACTTCAGAGGTATAGGATTTGTAGCTTCATCTTGCT
* * * *
84919587 CCACTGTAACTTTAGGAAG-ATAAGATTCGTCATTTGTAGTTTCAT-TCTGAC-
1 CCACTGCAACTTCA-GAGGTAT-AG----G--ATTTGTAGCTTCATCT-TG-CT
* * * *
84919638 CCACTGCAACTTCA-AGGGTATAGGACTTGCAACTTTATCTTGCT
1 CCACTGCAACTTCAGA-GGTATAGGATTTGTAGCTTCATCTTGCT
* * *
84919682 CCACTGAAACTTCA-AGGAGATAAGATTCGCCATTTGTAGTTTCAAT-TTGAC-
1 CCACTGCAACTTCAGAGG-TAT-AG----G--ATTTGTAGCTTC-ATCTTG-CT
* * * *
84919733 CCACTACAACTTTAAAGGTATAGGATTTGTAGCTTCATCTTCCT
1 CCACTGCAACTTCAGAGGTATAGGATTTGTAGCTTCATCTTGCT
* * * ** *
84919777 CCATTGCAACTTCAG-GGAGATAAGATTTGCCATTGTAATTTCAATC-CGAC-
1 CCACTGCAACTTCAGAGG-TATAGGA--T----TTGTAGCTTC-ATCTTG-CT
* * * *
84919827 CTACTGCAACTTCAG-GAGTATAGGGTTTGTTGCTTTATCTTGCT
1 CCACTGCAACTTCAGAG-GTATAGGATTTGTAGCTTCATCTTGCT
* * *
84919871 CCACTGCAACTTCAAAGGTATAGGACTTGTAGCTTTATCTTGCT
1 CCACTGCAACTTCAGAGGTATAGGATTTGTAGCTTCATCTTGCT
84919915 CCACTGCAACTTCA
1 CCACTGCAACTTCA
84919929 AGGAGATAAG
Statistics
Matches: 445, Mismatches: 105, Indels: 148
0.64 0.15 0.21
Matches are distributed among these distances:
43 24 0.05
44 201 0.45
45 11 0.02
46 9 0.02
47 8 0.02
48 5 0.01
49 9 0.02
50 104 0.23
51 67 0.15
52 7 0.02
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (44 bp):
CCACTGCAACTTCAGAGGTATAGGATTTGTAGCTTCATCTTGCT
Found at i:84919569 original size:188 final size:187
Alignment explanation
Indices: 84919199--84919882 Score: 686
Period size: 188 Copynumber: 3.6 Consensus size: 187
84919189 AGTGTTGAAA
* * * *
84919199 CTTCATCTTGCTCTATTGCAACTTCA-AAGAGATAAGATTTGTTGTTGTAGTTTCATTCCAAACC
1 CTTCATCTTGCTCCATTGCAACTTCAGAA-AGATAAGATTTGTTGTTGTAGTTTAATTCCGACCC
*
84919263 ACTGCAACTTCAGAGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTTAGGG-G-TGC
65 ACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTTAGGGAGAT--
* * * * * *
84919326 AATATT-TTC-TATGTTA-TCTTCAATTTGATCTACTGTAACTTCAAGGTTATAGGATTTATAG
128 AAAATTCGTCAT-TG-TAGT-TTCAATTTGACCCACTGCAACTTTAAGGTT-TAGGATTTATAG
* * * * *
84919387 CTTCGTCTTGCTTCATTGCAACTTTAGAAAGATAAGATTTGTTGTGGTAGCTTTAATT-TGACCC
1 CTTCATCTTGCTCCATTGCAACTTCAGAAAGATAAGATTTGTTGTTGTAG-TTTAATTCCGACCC
*
84919451 ACTGCAACTTCAGGGGTATATGATTTGTAGCTTCATCTTGCTCCACTACAACTTTAGGGAGATAA
65 ACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTTAGGGAGATAA
* **
84919516 AATTCGTCATTGTAGTTTCTATCCGACCCACTGCAACTTTAGAGGTTTAGGATTTATAG
130 AATTCGTCATTGTAGTTTCAATTTGACCCACTGCAACTTTA-AGGTTTAGGATTTATAG
* * * * * * * *
84919575 CTTCATCTTACTCCACTGTAACTTTAGGAAGATAAGATTCGTCAT-TTGTAGTTTCATTCTGACC
1 CTTCATCTTGCTCCATTGCAACTTCAGAAAGATAAGATTTGT--TGTTGTAGTTTAATTCCGACC
* * * * * * *
84919639 CACTGCAACTTCAAGGGTATAGGACTTGCAACTTTATCTTGCTCCACTGA-AACTTCAAGGAGAT
64 CACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACT-ACAACTTTAGGGAGAT
* * * * *
84919703 AAGATTCGCCATTTGTAGTTTCAATTTGACCCACTACAACTTTAAAGGTATAGGATTTGTAG
128 AAAATTCGTCA-TTGTAGTTTCAATTTGACCCACTGCAACTTT-AAGGTTTAGGATTTATAG
* ** *** * *
84919765 CTTCATCTTCCTCCATTGCAACTTCAGGGAGATAAGATTTGCCATTGTAATTTCAA-TCCGACCT
1 CTTCATCTTGCTCCATTGCAACTTCAGAAAGATAAGATTTGTTGTTGTAGTTT-AATTCCGACCC
* * * * *
84919829 ACTGCAACTTCAGGAGTATAGGGTTTGTTGCTTTATCTTGCTCCACTGCAACTT
65 ACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTT
84919883 CAAAGGTATA
Statistics
Matches: 414, Mismatches: 65, Indels: 33
0.81 0.13 0.06
Matches are distributed among these distances:
188 180 0.43
189 151 0.36
190 82 0.20
191 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.36
Consensus pattern (187 bp):
CTTCATCTTGCTCCATTGCAACTTCAGAAAGATAAGATTTGTTGTTGTAGTTTAATTCCGACCCA
CTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTTAGGGAGATAAA
ATTCGTCATTGTAGTTTCAATTTGACCCACTGCAACTTTAAGGTTTAGGATTTATAG
Found at i:84919883 original size:94 final size:94
Alignment explanation
Indices: 84919199--84919884 Score: 575
Period size: 94 Copynumber: 7.3 Consensus size: 94
84919189 AGTGTTGAAA
* * ** ** * ** *
84919199 CTTCATCTTGCTCTATTGCAACTTCAAAGAGATAAGATTTGTTGTTGTAGTTTCATTCCAAACCA
1 CTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATTGTAGTTTCAATCTGACCCA
84919264 CTGCAACTTCA-GAGGTATAGGATTTGTAG
66 CTGCAACTTCAGGA-GTATAGGATTTGTAG
* * * *
84919293 CTTCATCTTGCTCCACTACAACTTTAGGG-G-TGCAATATTT-TC-TATGTTA-TCTTCAATTTG
1 CTTCATCTTGCTCCACTGCAACTTCAGGGAGAT--AAGATTTGTCAT-TG-TAGT-TTCAATCTG
* * * * *
84919353 ATCTACTGTAACTTCAAGG-TTATAGGATTTATAG
61 ACCCACTGCAACTTC-AGGAGTATAGGATTTGTAG
* * * * ** ** * *
84919387 CTTCGTCTTGCTTCATTGCAACTTTAGAAAGATAAGATTTGTTGTGGTAGCTTT-AATTTGACCC
1 CTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATTGTAG-TTTCAATCTGACCC
* *
84919451 ACTGCAACTTCAGGGGTATATGATTTGTAG
65 ACTGCAACTTCAGGAGTATAGGATTTGTAG
* * * * * *
84919481 CTTCATCTTGCTCCACTACAACTTTAGGGAGATAAAATTCGTCATTGTAGTTTCTATCCGACCCA
1 CTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATTGTAGTTTCAATCTGACCCA
* * *
84919546 CTGCAACTTTA-GAGGTTTAGGATTTATAG
66 CTGCAACTTCAGGA-GTATAGGATTTGTAG
* * * * * *
84919575 CTTCATCTTACTCCACTGTAACTTTAGGAAGATAAGATTCGTCATTTGTAGTTTCATTCTGACCC
1 CTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCA-TTGTAGTTTCAATCTGACCC
* * *
84919640 ACTGCAACTTCAAGG-GTATAGGACTTGCAA
65 ACTGCAACTTC-AGGAGTATAGGATTTGTAG
* * * * * *
84919670 CTTTATCTTGCTCCACTGAAACTTCAAGGAGATAAGATTCGCCATTTGTAGTTTCAATTTGACCC
1 CTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCA-TTGTAGTTTCAATCTGACCC
* * *
84919735 ACTACAACTTTA-AAGGTATAGGATTTGTAG
65 ACTGCAACTTCAGGA-GTATAGGATTTGTAG
* * * * * *
84919765 CTTCATCTTCCTCCATTGCAACTTCAGGGAGATAAGATTTGCCATTGTAATTTCAATCCGACCTA
1 CTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATTGTAGTTTCAATCTGACCCA
* *
84919830 CTGCAACTTCAGGAGTATAGGGTTTGTTG
66 CTGCAACTTCAGGAGTATAGGATTTGTAG
*
84919859 CTTTATCTTGCTCCACTGCAACTTCA
1 CTTCATCTTGCTCCACTGCAACTTCA
84919885 AAGGTATAGG
Statistics
Matches: 472, Mismatches: 98, Indels: 44
0.77 0.16 0.07
Matches are distributed among these distances:
92 2 0.00
93 12 0.03
94 293 0.62
95 159 0.34
96 5 0.01
97 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.36
Consensus pattern (94 bp):
CTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATTGTAGTTTCAATCTGACCCA
CTGCAACTTCAGGAGTATAGGATTTGTAG
Found at i:84920090 original size:94 final size:94
Alignment explanation
Indices: 84919873--84920276 Score: 408
Period size: 94 Copynumber: 4.3 Consensus size: 94
84919863 ATCTTGCTCC
* * * * *
84919873 ACTGCAACTTCAAAGGTATAGGACTTGTAGCTT-TATCTTGCTCCACTGCAACTTCAAGGAGATA
1 ACTGCAACTTCAGAGGTATAGGATTTGTAGCTTCAAT-ATGCTCCACTACAACTTCAAGGAGATA
* * * * *
84919937 AGATTCACCAT--TTGTTTTAATTTGACCC
65 AGATTCACCATGGTAGATTCAATTCGACCT
* * * * * *
84919965 ACTGCAACTTCAGTGGTATAGGATTTATAGCTTCAATCTGCTCCGCTATAACTTCAAGGCGATAA
1 ACTGCAACTTCAGAGGTATAGGATTTGTAGCTTCAATATGCTCCACTACAACTTCAAGGAGATAA
*
84920030 GATTCACCATGGTAGATTTAATTCGACCT
66 GATTCACCATGGTAGATTCAATTCGACCT
* *
84920059 ACTGCAACTTCAAAGGTATAGGATTTGTAGCTTCAATATGCTCCACTACAACTTTAAGGAGATAA
1 ACTGCAACTTCAGAGGTATAGGATTTGTAGCTTCAATATGCTCCACTACAACTTCAAGGAGATAA
* *** *
84920124 GACTCGTTATGGTAGATTCAA-TCTGA-TT
66 GATTCACCATGGTAGATTCAATTC-GACCT
* * * * * *
84920152 CACTACAAC-TCAGGGGTATAGGATTTATAGCTTCAATATGCTCTACTGCAACTTCATGGAGATA
1 -ACTGCAACTTCAGAGGTATAGGATTTGTAGCTTCAATATGCTCCACTACAACTTCAAGGAGATA
* * * *
84920216 AGATTCACTAAGGT-GATCCAATCCGACCT
65 AGATTCACCATGGTAGATTCAATTCGACCT
**
84920245 ACTATAACTTCAGAGGTATAGGATTTGTAGCT
1 ACTGCAACTTCAGAGGTATAGGATTTGTAGCT
84920277 ATAATACAAT
Statistics
Matches: 258, Mismatches: 46, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
92 77 0.30
93 86 0.33
94 95 0.37
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (94 bp):
ACTGCAACTTCAGAGGTATAGGATTTGTAGCTTCAATATGCTCCACTACAACTTCAAGGAGATAA
GATTCACCATGGTAGATTCAATTCGACCT
Found at i:84920103 original size:186 final size:184
Alignment explanation
Indices: 84919873--84920300 Score: 480
Period size: 186 Copynumber: 2.3 Consensus size: 184
84919863 ATCTTGCTCC
* * *
84919873 ACTGCAACTTCAAAGGTATAGGACTTGTAGCTTTATCTTGCTCCACTGCAACTTCAAGGAGATAA
1 ACTGCAACTTCAAAGGTATAGGATTTGTAGCTTAAT-ATGCTCCACTGCAACTTCAAGGAGATAA
* * * * * * *
84919938 GATTCACCAT-TTGTTTTAATTTGACCCACTGCAACTTCAGTGGTATAGGATTTATAGCTTCAAT
65 GACTCACCATGTAGATTCAATCTGACCCACTACAAC-TCAGGGGTATAGGATTTATAGCTTCAAT
* * * * * ** *
84920002 CTGCTCCGCTATAACTTCAAGGCGATAAGATTCACCATGGTAGATTTAATTCGACCT
129 ATGCTCCACTACAACTTCAAGGAGATAAGATTCACCAAGGT-GATCCAATCCGACCT
* *
84920059 ACTGCAACTTCAAAGGTATAGGATTTGTAGCTTCAATATGCTCCACTACAACTTTAAGGAGATAA
1 ACTGCAACTTCAAAGGTATAGGATTTGTAGCTT-AATATGCTCCACTGCAACTTCAAGGAGATAA
*** **
84920124 GACTCGTTATGGTAGATTCAATCTGATTCACTACAACTCAGGGGTATAGGATTTATAGCTTCAAT
65 GACTCACCAT-GTAGATTCAATCTGACCCACTACAACTCAGGGGTATAGGATTTATAGCTTCAAT
* * * *
84920189 ATGCTCTACTGCAACTTCATGGAGATAAGATTCACTAAGGTGATCCAATCCGACCT
129 ATGCTCCACTACAACTTCAAGGAGATAAGATTCACCAAGGTGATCCAATCCGACCT
** * ***
84920245 ACTATAACTTCAGAGGTATAGGATTTGTAGCTATAATACAATCCACTGCAACTTCA
1 ACTGCAACTTCAAAGGTATAGGATTTGTAGCT-TAATATGCTCCACTGCAACTTCA
84920301 TAGATATAGG
Statistics
Matches: 201, Mismatches: 37, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
186 121 0.60
187 62 0.31
188 18 0.09
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (184 bp):
ACTGCAACTTCAAAGGTATAGGATTTGTAGCTTAATATGCTCCACTGCAACTTCAAGGAGATAAG
ACTCACCATGTAGATTCAATCTGACCCACTACAACTCAGGGGTATAGGATTTATAGCTTCAATAT
GCTCCACTACAACTTCAAGGAGATAAGATTCACCAAGGTGATCCAATCCGACCT
Found at i:84920103 original size:230 final size:232
Alignment explanation
Indices: 84919638--84920112 Score: 620
Period size: 230 Copynumber: 2.1 Consensus size: 232
84919628 TCATTCTGAC
*
84919638 CCACTGCAACTTCAAGGGTATAGGACTTGCAACTTTATCTTGCTCCACTGAAACTTCAAGGAGAT
1 CCACTGCAACTTCAAAGGTATAGGACTTGCAACTTTATCTTGCTCCACTGAAACTTCAAGGAGAT
* * *
84919703 AAGATTCGCCATTTGTAGTTTCAATTTGACCCACTACAACTTTAAAGGTATAGGATTTGTAGCTT
66 AAGATTCACCATTTGTA-TTTCAATTTGACCCACTACAACTTCAAAGGTATAGGATTTATAGCTT
* * * ** *
84919768 CATCTTCCTCCATTGCAACTTCAGGGAGATAAGATTTGCCATTGTAATTTCAATCCGACCTACTG
130 CATCTTCCTCCACTACAACTTCAAGGAGATAAGATTCACCATGGTAATTTCAATCCGACCTACTG
* * * * *
84919833 CAACTTCAGGAGTATAGGGTTTGTTGCTTTATCTTGCT
195 CAACTTCAAGAGTATAGGATTTGTAGCTTAATCATGCT
* * *
84919871 CCACTGCAACTTCAAAGGTATAGGACTTGTAGCTTTATCTTGCTCCACTGCAACTTCAAGGAGAT
1 CCACTGCAACTTCAAAGGTATAGGACTTGCAACTTTATCTTGCTCCACTGAAACTTCAAGGAGAT
* **
84919936 AAGATTCACCATTTGT-TTT-AATTTGACCCACTGCAACTTCAGTGGTATAGGATTTATAGCTTC
66 AAGATTCACCATTTGTATTTCAATTTGACCCACTACAACTTCAAAGGTATAGGATTTATAGCTTC
* * * * *
84919999 AATC-TGCTCCGCTATAACTTCAAGGCGATAAGATTCACCATGGTAGATTT-AATTCGACCTACT
131 -ATCTTCCTCCACTACAACTTCAAGGAGATAAGATTCACCATGGTA-ATTTCAATCCGACCTACT
84920062 GCAACTTCAA-AGGTATAGGATTTGTAGCTTCAAT-ATGCT
194 GCAACTTCAAGA-GTATAGGATTTGTAGCTT-AATCATGCT
*
84920101 CCACTACAACTT
1 CCACTGCAACTT
84920113 TAAGGAGATA
Statistics
Matches: 211, Mismatches: 27, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
229 1 0.00
230 122 0.58
231 12 0.06
233 76 0.36
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (232 bp):
CCACTGCAACTTCAAAGGTATAGGACTTGCAACTTTATCTTGCTCCACTGAAACTTCAAGGAGAT
AAGATTCACCATTTGTATTTCAATTTGACCCACTACAACTTCAAAGGTATAGGATTTATAGCTTC
ATCTTCCTCCACTACAACTTCAAGGAGATAAGATTCACCATGGTAATTTCAATCCGACCTACTGC
AACTTCAAGAGTATAGGATTTGTAGCTTAATCATGCT
Found at i:84920301 original size:93 final size:94
Alignment explanation
Indices: 84919877--84920300 Score: 403
Period size: 93 Copynumber: 4.6 Consensus size: 94
84919867 TGCTCCACTG
* * * *
84919877 CAACTTCAAAGGTATAGGACTTGTAGCTT-TATCTTGCTCCACTGCAACTTCAAGGAGATAAGAT
1 CAACTTCAGAGGTATAGGATTTGTAGCTTCAAT-ATGCTCCACTGCAACTTCAAGGAGATAAGAT
* * * * ** * *
84919941 TCACCAT--TTGTTTTAATTTGACCCACTG
65 TCACTATGGTAGATTCAATCCGACCTACTA
* * * * ** *
84919969 CAACTTCAGTGGTATAGGATTTATAGCTTCAATCTGCTCCGCTATAACTTCAAGGCGATAAGATT
1 CAACTTCAGAGGTATAGGATTTGTAGCTTCAATATGCTCCACTGCAACTTCAAGGAGATAAGATT
* * * *
84920034 CACCATGGTAGATTTAATTCGACCTACTG
66 CACTATGGTAGATTCAATCCGACCTACTA
* * * *
84920063 CAACTTCAAAGGTATAGGATTTGTAGCTTCAATATGCTCCACTACAACTTTAAGGAGATAAGACT
1 CAACTTCAGAGGTATAGGATTTGTAGCTTCAATATGCTCCACTGCAACTTCAAGGAGATAAGATT
** * *
84920128 CGTTATGGTAGATTCAATCTGA-TTCACTA
66 CACTATGGTAGATTCAATCCGACCT-ACTA
* * * *
84920157 CAAC-TCAGGGGTATAGGATTTATAGCTTCAATATGCTCTACTGCAACTTCATGGAGATAAGATT
1 CAACTTCAGAGGTATAGGATTTGTAGCTTCAATATGCTCCACTGCAACTTCAAGGAGATAAGATT
* *
84920221 CACTAAGGT-GATCCAATCCGACCTACTA
66 CACTATGGTAGATTCAATCCGACCTACTA
* ***
84920249 TAACTTCAGAGGTATAGGATTTGTAGCTAT-AATACAATCCACTGCAACTTCA
1 CAACTTCAGAGGTATAGGATTTGTAGCT-TCAATATGCTCCACTGCAACTTCA
84920301 TAGATATAGG
Statistics
Matches: 273, Mismatches: 52, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
92 75 0.27
93 101 0.37
94 97 0.36
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (94 bp):
CAACTTCAGAGGTATAGGATTTGTAGCTTCAATATGCTCCACTGCAACTTCAAGGAGATAAGATT
CACTATGGTAGATTCAATCCGACCTACTA
Found at i:84926630 original size:15 final size:16
Alignment explanation
Indices: 84926590--84926631 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
84926580 TATTTTTTAT
84926590 TGGGTT-TTTGGGTAA
1 TGGGTTATTTGGGTAA
*
84926605 TGGATTTATTTGGGT-A
1 TGG-GTTATTTGGGTAA
84926621 TGGGTTATTTG
1 TGGGTTATTTG
84926632 TGGGTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 10 0.43
16 6 0.26
17 7 0.30
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (16 bp):
TGGGTTATTTGGGTAA
Found at i:84928632 original size:39 final size:39
Alignment explanation
Indices: 84928406--84928621 Score: 351
Period size: 39 Copynumber: 5.5 Consensus size: 39
84928396 ACAAAGCATG
*
84928406 CGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
* *
84928447 TGGGACTTAGCCCGGATATAACGCCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
84928486 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
84928525 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
84928564 CAGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
84928603 CGGGACTTAGCCCGGATAT
1 CGGGACTTAGCCCGGATAT
84928622 TTTTCCAGCA
Statistics
Matches: 163, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 156 0.96
40 2 0.01
41 5 0.03
ACGTcount: A:0.27, C:0.29, G:0.25, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:84928657 original size:39 final size:39
Alignment explanation
Indices: 84928614--84928745 Score: 203
Period size: 39 Copynumber: 3.4 Consensus size: 39
84928604 GGGACTTAGC
* * *
84928614 CCGGATATTTTTCCAGCACT-TAGCCTGCGGACTTTAAGT
1 CCGGATATATTTCCAGCA-TAAAGCCTGCGGACTTCAAGT
*
84928653 CCGGATATATTTCCATCATAAAGCCTGCGGACTTCAAGT
1 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
84928692 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
1 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
*
84928731 CCGGATATTTTTCCA
1 CCGGATATATTTCCA
84928746 ATACCATGCA
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
38 1 0.01
39 85 0.99
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
Found at i:84928657 original size:78 final size:80
Alignment explanation
Indices: 84928408--84928661 Score: 340
Period size: 78 Copynumber: 3.2 Consensus size: 80
84928398 AAAGCATGCG
** * **
84928408 GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTTGGGACTTAGCCCGGATATAACGCCA
1 GGACTTTAAGCCCGGATATAGCACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATTCCA
* *
84928473 GCACGAATGCCTTCG
66 GCACGAATGCCTGCA
*
84928488 GGAC-TT-AGCCCGGATATAGCACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATACCA
1 GGACTTTAAGCCCGGATATAGCACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATTCCA
*
84928551 GCACGAATGCCTTCA
66 GCACGAATGCCTGCA
**
84928566 GGAC-TT-AGCCCGGATATAGCACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATTTTTCCA
1 GGACTTTAAGCCCGGATATAGCACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATTCCA
**
84928629 GCACTTA-GCCTGC-
66 GCACGAATGCCTGCA
*
84928642 GGACTTTAAGTCCGGATATA
1 GGACTTTAAGCCCGGATATA
84928662 TTTCCATCAT
Statistics
Matches: 159, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
76 4 0.03
77 7 0.04
78 142 0.89
79 2 0.01
80 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (80 bp):
GGACTTTAAGCCCGGATATAGCACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATTCCA
GCACGAATGCCTGCA
Found at i:84928657 original size:117 final size:119
Alignment explanation
Indices: 84928404--84928661 Score: 380
Period size: 117 Copynumber: 2.2 Consensus size: 119
84928394 CCACAAAGCA
**
84928404 TGCGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTTGGGACTTAGCCCGGATATAAC
1 TGCGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAAC
*
84928469 GCCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAGCACCAGCACGAATGCC
66 ACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAGCACCAGCACGAATGCC
* *
84928523 TTCGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAGC
1 TGCGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAAC
**** **
84928586 ACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATTTTTCCAGCACTTA-GCC
66 ACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAGCACCAGCACGAATGCC
*
84928639 TGC-GGACTTTAAGTCCGGATATA
1 TGCGGGACTTTAAGCCCGGATATA
84928662 TTTCCATCAT
Statistics
Matches: 124, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
115 4 0.03
116 7 0.06
117 104 0.84
118 2 0.02
119 7 0.06
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (119 bp):
TGCGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAAC
ACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAGCACCAGCACGAATGCC
Found at i:84928709 original size:117 final size:117
Alignment explanation
Indices: 84928404--84928700 Score: 323
Period size: 117 Copynumber: 2.5 Consensus size: 117
84928394 CCACAAAGCA
* *** *
84928404 TGCGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTTGGGACTTAGCCCGGATATAAC
1 TGCGGGAC-TT-AGCCCGGATATAATACCAGCACGAAAGCCTGCAGGACTTAGCCCGGATATAGC
* ****
84928469 GCCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAGCACCAGCACGAATGCC
64 ACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATTTTTCCAGCACGAATGCC
* * *
84928523 TTCGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAGCAC
1 TGCGGGACTTAGCCCGGATATAATACCAGCACGAAAGCCTGCAGGACTTAGCCCGGATATAGCAC
**
84928588 CAGCACGAATGCCTTCGGGACTTAGCCCGGATATTTTTCCAGCACTTA-GCC
66 CAGCACGAATGCCTTCGGGACTTAGCCCGGATATTTTTCCAGCACGAATGCC
* * * * * *
84928639 TGC-GGACTTTAAGTCCGGATATATTTCCATCA-TAAAGCCTGC-GGACTTCAAGTCCGGATATA
1 TGCGGGAC-TT-AGCCCGGATATAATACCAGCACGAAAGCCTGCAGGACTT--AGCCCGGATATA
84928701 TTTCCAGCAT
Statistics
Matches: 154, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
115 10 0.06
116 14 0.09
117 121 0.79
118 2 0.01
119 7 0.05
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (117 bp):
TGCGGGACTTAGCCCGGATATAATACCAGCACGAAAGCCTGCAGGACTTAGCCCGGATATAGCAC
CAGCACGAATGCCTTCGGGACTTAGCCCGGATATTTTTCCAGCACGAATGCC
Found at i:84935577 original size:19 final size:19
Alignment explanation
Indices: 84935553--84935592 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
84935543 AGTGCCATCA
*
84935553 TAAATTCATAGGCATAACT
1 TAAATTCATAAGCATAACT
*
84935572 TAAATTTATAAGCATAACT
1 TAAATTCATAAGCATAACT
84935591 TA
1 TA
84935593 CACATTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.35
Consensus pattern (19 bp):
TAAATTCATAAGCATAACT
Found at i:84947111 original size:47 final size:47
Alignment explanation
Indices: 84947042--84947136 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
84947032 CCCTTTATTA
*
84947042 GGTTTCACCCTAATTCGACAAAATCTTGTCACCTTATGTCTAGGTGC
1 GGTTTCACCCTAATCCGACAAAATCTTGTCACCTTATGTCTAGGTGC
84947089 GGTTTCACCCTAATCCGACAAAATCTTGTCACCTTATGTCTAGGTGC
1 GGTTTCACCCTAATCCGACAAAATCTTGTCACCTTATGTCTAGGTGC
84947136 G
1 G
84947137 CAATTAACTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (47 bp):
GGTTTCACCCTAATCCGACAAAATCTTGTCACCTTATGTCTAGGTGC
Found at i:84954055 original size:25 final size:25
Alignment explanation
Indices: 84953989--84954065 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
84953979 TATTTATTAT
84953989 TTTTATTTTCACTTT--TA-TCTTTA
1 TTTTATTTTC-CTTTAATACTCTTTA
* *
84954012 -TTTATATT-CTTAAAGTACTCTTTA
1 TTTTATTTTCCTTTAA-TACTCTTTA
*
84954036 TTTTATTTTCCTTTAATACTATTTCA
1 TTTTATTTTCCTTTAATACTCTTT-A
84954062 TTTT
1 TTTT
84954066 TAGGTTTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
20 3 0.07
22 7 0.17
23 2 0.05
24 6 0.14
25 14 0.33
26 10 0.24
ACGTcount: A:0.22, C:0.13, G:0.01, T:0.64
Consensus pattern (25 bp):
TTTTATTTTCCTTTAATACTCTTTA
Found at i:84958383 original size:46 final size:47
Alignment explanation
Indices: 84958323--84958541 Score: 257
Period size: 46 Copynumber: 4.9 Consensus size: 47
84958313 TTTGACGTGA
* * * * *
84958323 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
** * *
84958369 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
84958415 TGCCATGGTATCTTTCAACCATGGTCTT--ACA----C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
84958453 TGCCATGGTATCTTTCAACCTTGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
84958499 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCA
84958542 AAGAGCACAC
Statistics
Matches: 152, Mismatches: 11, Indels: 20
0.83 0.06 0.11
Matches are distributed among these distances:
38 31 0.20
40 3 0.02
41 1 0.01
43 1 0.01
44 1 0.01
45 6 0.04
46 109 0.72
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:84958508 original size:84 final size:84
Alignment explanation
Indices: 84958367--84958531 Score: 276
Period size: 84 Copynumber: 2.0 Consensus size: 84
84958357 TTTCTATCAT
** * *
84958367 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCA
84958432 ACCATGGTCTTACACACAG
66 ACCATGGTCTTACACACAG
* *
84958451 GTTGCCATGGTATCTTTCAACCTTGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCA
84958516 ACCATGGTCTTACACA
66 ACCATGGTCTTACACA
84958532 TTTCATATCA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 75 1.00
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (84 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACACAG
Found at i:84964445 original size:35 final size:35
Alignment explanation
Indices: 84964399--84964471 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
84964389 ATACCAGTAG
84964399 TCCATCATATGGAGAAAGGCTTCCTTGCCTCCTTC
1 TCCATCATATGGAGAAAGGCTTCCTTGCCTCCTTC
*
84964434 TCCATCATATGGAGAAAGGTTTCCTTGCCTCCTTC
1 TCCATCATATGGAGAAAGGCTTCCTTGCCTCCTTC
84964469 TCC
1 TCC
84964472 TCAACTAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.33
Consensus pattern (35 bp):
TCCATCATATGGAGAAAGGCTTCCTTGCCTCCTTC
Found at i:84968978 original size:46 final size:46
Alignment explanation
Indices: 84968872--84968998 Score: 155
Period size: 46 Copynumber: 2.7 Consensus size: 46
84968862 TGAGGCATCT
* * * * * *
84968872 GAACTCGTTGAGTTGCATTCTGAGTTCACCTATGAATGCAAGCATCC
1 GAACTCGTTGAGTTGCGTTCCGAGTTCA-TTATGGATGCAAACACCC
* * *
84968919 GAACTCATTGAGTTGTGTTCCGAGTTCATTATGGATGCAAACGCCC
1 GAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGCAAACACCC
*
84968965 GAGCTCGTTGAGTTGCGTTCCGAGTTCATTATGG
1 GAACTCGTTGAGTTGCGTTCCGAGTTCATTATGG
84968999 GTGAGATTAT
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
46 44 0.65
47 24 0.35
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGCAAACACCC
Found at i:84972643 original size:30 final size:30
Alignment explanation
Indices: 84972592--84972651 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
84972582 TATCATATCT
* *
84972592 TGGGTTTCTTTATTCTAGATTTTTTTATTC
1 TGGGTTTCTCTATTCTAGATTTCTTTATTC
*
84972622 TGGGTTTCTCTA-TCTTGGATTTCTTTATTC
1 TGGGTTTCTCTATTC-TAGATTTCTTTATTC
84972652 GGTGTTCTTG
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:0.12, C:0.13, G:0.15, T:0.60
Consensus pattern (30 bp):
TGGGTTTCTCTATTCTAGATTTCTTTATTC
Found at i:84975144 original size:47 final size:47
Alignment explanation
Indices: 84975093--84975225 Score: 153
Period size: 46 Copynumber: 2.9 Consensus size: 47
84975083 GAATTATGAG
* * * *
84975093 GCATCCAAACTCGTTGAGTTGCGTTTCGAGTTCACCTATGGATG-TAA
1 GCATCCGAACTCATTGAGTTGCGTTCCGAGTTCA-CTATGGATGCGAA
* * *
84975140 GCATCTGAACTCATTGAGTTGTGTTCCGAGTTCATTATGGATGCGAA
1 GCATCCGAACTCATTGAGTTGCGTTCCGAGTTCACTATGGATGCGAA
* * *
84975187 -CAGCCGAGCTCATTGAGTTGCGTTCCGAGTTCATTATGG
1 GCATCCGAACTCATTGAGTTGCGTTCCGAGTTCACTATGG
84975226 GTGAGATTAT
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
46 43 0.58
47 31 0.42
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (47 bp):
GCATCCGAACTCATTGAGTTGCGTTCCGAGTTCACTATGGATGCGAA
Found at i:84979108 original size:28 final size:28
Alignment explanation
Indices: 84979068--84979128 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
84979058 TACTAGAATG
*
84979068 CCCTATGTATGCAAAATTACCAT-TATAC
1 CCCTATGTATGCAAAATGACC-TCTATAC
84979096 CCCTATGTATGCAAAATGACCTCTATAC
1 CCCTATGTATGCAAAATGACCTCTATAC
84979124 CCCTA
1 CCCTA
84979129 GGGTTAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.33, C:0.30, G:0.08, T:0.30
Consensus pattern (28 bp):
CCCTATGTATGCAAAATGACCTCTATAC
Found at i:84979292 original size:27 final size:27
Alignment explanation
Indices: 84979234--84979323 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
84979224 AGGAAGCGTC
84979234 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
84979262 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
84979289 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
84979318 CTGGTG
1 CTGGTG
84979324 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:84979342 original size:55 final size:56
Alignment explanation
Indices: 84979234--84979348 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
84979224 AGGAAGCGTC
* *
84979234 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
84979289 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
84979345 CTGG
1 CTGG
84979349 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:84979806 original size:19 final size:19
Alignment explanation
Indices: 84979782--84979820 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
84979772 CTTTTAATTA
* *
84979782 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
84979801 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
84979820 T
1 T
84979821 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:84986873 original size:28 final size:29
Alignment explanation
Indices: 84986842--84986907 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
84986832 GATTACTAGA
*
84986842 ATACCCCTATGTATGCA-AAATTACCATT
1 ATACCCCTATGTATGCATAAATGACCATT
*
84986870 ATACCCCTATGTATGCATAAATGACCTTT
1 ATACCCCTATGTATGCATAAATGACCATT
84986899 ATACCCCTA
1 ATACCCCTA
84986908 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 17 0.49
29 18 0.51
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.32
Consensus pattern (29 bp):
ATACCCCTATGTATGCATAAATGACCATT
Found at i:84987106 original size:29 final size:27
Alignment explanation
Indices: 84987018--84987106 Score: 65
Period size: 29 Copynumber: 3.3 Consensus size: 27
84987008 CTGGTGGCTA
* * *
84987018 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTT-TGGTGACAC
* * *
84987046 TG-CA-TATATATCTGTTTGGTGGCAC
1 TGCCACAAAATATCTGTTTGGTGACAC
*
84987071 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-T-TGGTGACAC
*
84987100 TGTCACA
1 TGCCACA
84987107 TTTTCTGTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
25 10 0.21
26 11 0.23
27 11 0.23
28 3 0.06
29 13 0.27
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (27 bp):
TGCCACAAAATATCTGTTTGGTGACAC
Found at i:84991616 original size:18 final size:18
Alignment explanation
Indices: 84991593--84991710 Score: 58
Period size: 18 Copynumber: 6.6 Consensus size: 18
84991583 TTTATTAGTT
84991593 TCATTCAGTAACATTCAA
1 TCATTCAGTAACATTCAA
* *
84991611 TCATTCAATAACAATT-AG
1 TCATTCAGTAAC-ATTCAA
* * * *
84991629 TCGTTCAATAATATTCAG
1 TCATTCAGTAACATTCAA
* ** * *
84991647 TCACTCTTTAACAGTCAG
1 TCATTCAGTAACATTCAA
* * * *
84991665 TTATTCAGTACCAATAAA
1 TCATTCAGTAACATTCAA
* *
84991683 TTATTCAGTAACAGTCAA
1 TCATTCAGTAACATTCAA
*
84991701 TTATTCAGTA
1 TCATTCAGTA
84991711 GCAGTCAGTT
Statistics
Matches: 77, Mismatches: 21, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
17 3 0.04
18 71 0.92
19 3 0.04
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.36
Consensus pattern (18 bp):
TCATTCAGTAACATTCAA
Found at i:84991715 original size:18 final size:18
Alignment explanation
Indices: 84991655--84991756 Score: 114
Period size: 18 Copynumber: 5.7 Consensus size: 18
84991645 AGTCACTCTT
84991655 TAACAGTCAGTTATTCAG
1 TAACAGTCAGTTATTCAG
* * * *
84991673 TACCAATAAATTATTCAG
1 TAACAGTCAGTTATTCAG
*
84991691 TAACAGTCAATTATTCAG
1 TAACAGTCAGTTATTCAG
* * *
84991709 TAGCAGTCAGTTATCCGG
1 TAACAGTCAGTTATTCAG
84991727 TAACAGTCAGTTATTCAG
1 TAACAGTCAGTTATTCAG
* *
84991745 TAGCAGTAAGTT
1 TAACAGTCAGTT
84991757 GTTTAGTACC
Statistics
Matches: 68, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (18 bp):
TAACAGTCAGTTATTCAG
Found at i:84991747 original size:36 final size:36
Alignment explanation
Indices: 84991655--84991756 Score: 141
Period size: 36 Copynumber: 2.8 Consensus size: 36
84991645 AGTCACTCTT
* * * *
84991655 TAACAGTCAGTTATTCAGTACCAATAAATTATTCAG
1 TAACAGTCAGTTATTCAGTAGCAGTAAGTTATCCAG
* * *
84991691 TAACAGTCAATTATTCAGTAGCAGTCAGTTATCCGG
1 TAACAGTCAGTTATTCAGTAGCAGTAAGTTATCCAG
84991727 TAACAGTCAGTTATTCAGTAGCAGTAAGTT
1 TAACAGTCAGTTATTCAGTAGCAGTAAGTT
84991757 GTTTAGTACC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (36 bp):
TAACAGTCAGTTATTCAGTAGCAGTAAGTTATCCAG
Found at i:84994099 original size:18 final size:18
Alignment explanation
Indices: 84994076--84994182 Score: 124
Period size: 18 Copynumber: 5.9 Consensus size: 18
84994066 TAAATAAAGG
*
84994076 TACTGAGTAACTGACTGC
1 TACTGAATAACTGACTGC
*
84994094 TACTGAATAACTGACTGT
1 TACTGAATAACTGACTGC
* *
84994112 TACTGAATAACTTATTGC
1 TACTGAATAACTGACTGC
* *
84994130 TACTGAATAATTGACTGT
1 TACTGAATAACTGACTGC
* * * *
84994148 TACTGAATAATTTATTGG
1 TACTGAATAACTGACTGC
84994166 TACTGAATAACTGACTG
1 TACTGAATAACTGACTG
84994183 TTAAAGAGTG
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 74 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.36
Consensus pattern (18 bp):
TACTGAATAACTGACTGC
Found at i:84994123 original size:36 final size:36
Alignment explanation
Indices: 84994076--84994185 Score: 166
Period size: 36 Copynumber: 3.1 Consensus size: 36
84994066 TAAATAAAGG
* * *
84994076 TACTGAGTAACTGACTGCTACTGAATAACTGACTGT
1 TACTGAATAACTTATTGCTACTGAATAACTGACTGT
*
84994112 TACTGAATAACTTATTGCTACTGAATAATTGACTGT
1 TACTGAATAACTTATTGCTACTGAATAACTGACTGT
* *
84994148 TACTGAATAATTTATTGGTACTGAATAACTGACTGT
1 TACTGAATAACTTATTGCTACTGAATAACTGACTGT
84994184 TA
1 TA
84994186 AAGAGTGACT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 67 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (36 bp):
TACTGAATAACTTATTGCTACTGAATAACTGACTGT
Found at i:84999299 original size:16 final size:17
Alignment explanation
Indices: 84999278--84999309 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
84999268 GACATTTATG
84999278 CATTCATTCA-TGCATC
1 CATTCATTCATTGCATC
84999294 CATTCATTCATTGCAT
1 CATTCATTCATTGCAT
84999310 ATCCCATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.41
Consensus pattern (17 bp):
CATTCATTCATTGCATC
Found at i:85007757 original size:53 final size:53
Alignment explanation
Indices: 85007697--85007894 Score: 159
Period size: 53 Copynumber: 3.5 Consensus size: 53
85007687 TTTTAAATTG
*
85007697 ACTCATATTGCGAGATGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
* * ** *
85007750 ACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTAAGGTATTTT-TAGTTTT--AAATT
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT--------TTTAA--T-TTTTGT--TTTTCAAAATC
*
85007812 G
53 A
* *
85007813 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTGGTTTTTCAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
* *
85007866 ACTCATATTGCTAGAGGTGAGTTGAGCCT
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT
85007895 CGGGGCACGC
Statistics
Matches: 112, Mismatches: 17, Indels: 32
0.70 0.11 0.20
Matches are distributed among these distances:
51 4 0.04
52 3 0.03
53 59 0.53
55 2 0.02
61 3 0.03
63 33 0.29
64 4 0.04
65 4 0.04
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (53 bp):
ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
Found at i:85007826 original size:116 final size:116
Alignment explanation
Indices: 85007610--85007915 Score: 542
Period size: 116 Copynumber: 2.6 Consensus size: 116
85007600 GTTGAGGTAT
* * *
85007610 TTTTAATTGTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
*
85007674 GAGGTATTTTTAGTTTTAAATTGACTCATATTGCGAGATGTGAGTTAAGCC
66 GAGGTATTTTTAGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
85007725 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
*
85007790 AAGGTATTTTTAGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
66 GAGGTATTTTTAGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
* *
85007841 TTTTTATTTTGGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
85007906 GAGGTATTTT
66 GAGGTATTTT
85007916 CAATTTTTGT
Statistics
Matches: 182, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
115 11 0.06
116 171 0.94
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (116 bp):
TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
GAGGTATTTTTAGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:85007963 original size:72 final size:73
Alignment explanation
Indices: 85007852--85008035 Score: 230
Period size: 72 Copynumber: 2.5 Consensus size: 73
85007842 TTTTATTTTG
* * * * * *
85007852 GTTTTTCAA-AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTT
1 GTTTGTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTT
*
85007916 CAATTTTT
66 CAATTTCT
* ** *
85007924 GTGTT-TTAA-TTTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGGACACGATGAGGTAATT
1 GT-TTGTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATT
85007987 TCAATTTCT
65 TCAATTTCT
*
85007996 GTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 GTTTGTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGA
85008036 ACCTTTTAAT
Statistics
Matches: 95, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
71 2 0.02
72 64 0.67
73 29 0.31
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.35
Consensus pattern (73 bp):
GTTTGTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTT
CAATTTCT
Found at i:85008335 original size:55 final size:56
Alignment explanation
Indices: 85008275--85008393 Score: 170
Period size: 57 Copynumber: 2.1 Consensus size: 56
85008265 TAAGGTATTC
* *
85008275 TTAATTTTTGTTGTTTC-AAAAA-TCAACTCATGTTGCGAGAGGTGAGTTAAGCCTT
1 TTAATTTTTATT-TTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCTT
* *
85008330 TTAATTTTTATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTT
1 TTAATTTTTATTTTTC-AAAAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCTT
85008387 TTAATTT
1 TTAATTT
85008394 CTGCGAGAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
54 4 0.07
55 11 0.19
56 5 0.09
57 37 0.65
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (56 bp):
TTAATTTTTATTTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCTT
Found at i:85008401 original size:30 final size:30
Alignment explanation
Indices: 85008365--85008426 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
85008355 CAACTCATAT
85008365 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
85008395 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
85008425 TG
1 TG
85008427 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:85009302 original size:20 final size:20
Alignment explanation
Indices: 85009252--85009289 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
85009242 GCCCCCTCCC
85009252 AAAAAAAAACCTAACCCCAA
1 AAAAAAAAACCTAACCCCAA
85009272 AAAAAAAAACCTAACCCC
1 AAAAAAAAACCTAACCCC
85009290 CCCCAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.63, C:0.32, G:0.00, T:0.05
Consensus pattern (20 bp):
AAAAAAAAACCTAACCCCAA
Found at i:85010886 original size:8 final size:8
Alignment explanation
Indices: 85010873--85010904 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
85010863 AAATATTCAC
85010873 AATAATAA
1 AATAATAA
85010881 AATAATAA
1 AATAATAA
85010889 AATAATAA
1 AATAATAA
*
85010897 AACAATAA
1 AATAATAA
85010905 GAGCTGATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (8 bp):
AATAATAA
Found at i:85012626 original size:17 final size:17
Alignment explanation
Indices: 85012606--85012679 Score: 52
Period size: 16 Copynumber: 4.6 Consensus size: 17
85012596 AAAATGGTAT
85012606 AAAAAATAAAATACT-A
1 AAAAAATAAAATACTAA
85012622 AAAAAAT---AT-CTTAA
1 AAAAAATAAAATAC-TAA
* *
85012636 TGAAAAATAAAATACGAA
1 -AAAAAATAAAATACTAA
* *
85012654 AAGAAATAAAATAC-GA
1 AAAAAATAAAATACTAA
85012670 AAAAAATAAA
1 AAAAAATAAA
85012680 TTTTTTGGGA
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
12 1 0.02
13 3 0.07
14 1 0.02
15 6 0.13
16 17 0.38
17 12 0.27
18 4 0.09
19 1 0.02
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.18
Consensus pattern (17 bp):
AAAAAATAAAATACTAA
Found at i:85012895 original size:25 final size:25
Alignment explanation
Indices: 85012867--85012935 Score: 70
Period size: 30 Copynumber: 2.6 Consensus size: 25
85012857 ATTATGTACT
85012867 AAAATAATATAAAAAATAAAATATG
1 AAAATAATATAAAAAATAAAATATG
*
85012892 AAAATAGTATATTTTAAAAAATAAAATCTG
1 AAAATA--ATA---TAAAAAATAAAATATG
85012922 AAAATAA-A-AAAAAA
1 AAAATAATATAAAAAA
85012936 CCAACAAAGG
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
23 6 0.16
25 6 0.16
27 4 0.11
28 1 0.03
30 21 0.55
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.25
Consensus pattern (25 bp):
AAAATAATATAAAAAATAAAATATG
Found at i:85017359 original size:11 final size:11
Alignment explanation
Indices: 85017323--85017378 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
85017313 CATGGTATGT
85017323 ATGATATGCAC
1 ATGATATGCAC
* *
85017334 ATGACATG--T
1 ATGATATGCAC
85017343 ATGATATGCAC
1 ATGATATGCAC
*
85017354 ATGATATG--T
1 ATGATATGCAC
85017363 ATGATATGCAC
1 ATGATATGCAC
85017374 ATGAT
1 ATGAT
85017379 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:85017378 original size:20 final size:20
Alignment explanation
Indices: 85017312--85017378 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
85017302 ATTTTGATAA
*
85017312 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
85017332 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
85017352 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
85017372 ACATGAT
1 ACATGAT
85017379 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:85017489 original size:23 final size:24
Alignment explanation
Indices: 85017428--85017508 Score: 110
Period size: 25 Copynumber: 3.3 Consensus size: 24
85017418 AAGGAAGTGT
*
85017428 AAAGGGCTTATGCCCTAGTTATGA
1 AAAGGGCTTATGCCCTAGTTATTA
*
85017452 TAAATGGCTTATGCCCTAGTTATTA
1 -AAAGGGCTTATGCCCTAGTTATTA
*
85017477 AAAGGGCTT-TGCCCCAGTTATTA
1 AAAGGGCTTATGCCCTAGTTATTA
85017500 AAAGAGGCT
1 AAAG-GGCT
85017509 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
23 17 0.33
24 12 0.24
25 22 0.43
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (24 bp):
AAAGGGCTTATGCCCTAGTTATTA
Found at i:85017508 original size:24 final size:23
Alignment explanation
Indices: 85017428--85017522 Score: 91
Period size: 25 Copynumber: 3.9 Consensus size: 23
85017418 AAGGAAGTGT
* *
85017428 AAAGGGCTTATGCCCTAGTTATGA
1 AAAGGGCTT-TGCCCCAGTTATTA
* *
85017452 TAAATGGCTTATGCCCTAGTTATTA
1 -AAAGGGCTT-TGCCCCAGTTATTA
85017477 AAAGGGCTTTGCCCCAGTTATTA
1 AAAGGGCTTTGCCCCAGTTATTA
**
85017500 AAAGAGGCTAGGCCTCCAGTTAT
1 AAAG-GGCTTTGCC-CCAGTTAT
85017523 ATGATAAAGC
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
23 17 0.27
24 15 0.24
25 30 0.48
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTTGCCCCAGTTATTA
Found at i:85017750 original size:31 final size:31
Alignment explanation
Indices: 85017715--85017778 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
85017705 CGTTTACAGT
85017715 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* **
85017746 AAAGGCTTCGGCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
85017777 AA
1 AA
85017779 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:85023546 original size:39 final size:39
Alignment explanation
Indices: 85023485--85023623 Score: 224
Period size: 39 Copynumber: 3.6 Consensus size: 39
85023475 TCGTGATTTA
* * *
85023485 AAGCCCGAAGTCTAGCTGAAGCACATAAGTGTTAAACGG
1 AAGCCCGAAGGCTAACTGAAGCACACAAGTGTTAAACGG
*
85023524 AAGCCCGAAGGCTAACTAAAGCACACAAGTGTTAAACGG
1 AAGCCCGAAGGCTAACTGAAGCACACAAGTGTTAAACGG
*
85023563 AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGG
1 AAGCCCGAAGGCTAACTGAAGCACACAAGTGTTAAACGG
*
85023602 AAGCTCGAAGGCTAACTGAAGC
1 AAGCCCGAAGGCTAACTGAAGC
85023624 TCATCAGAGC
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.14
Consensus pattern (39 bp):
AAGCCCGAAGGCTAACTGAAGCACACAAGTGTTAAACGG
Found at i:85023624 original size:18 final size:18
Alignment explanation
Indices: 85023562--85023625 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
85023552 GTGTTAAACG
*
85023562 GAAGCCCGAAGGCTAACT
1 GAAGCTCGAAGGCTAACT
* * *
85023580 GAAGCACACAAGTGCTAAACG
1 GAAGCTC-GAAG-GCT-AACT
85023601 GAAGCTCGAAGGCTAACT
1 GAAGCTCGAAGGCTAACT
85023619 GAAGCTC
1 GAAGCTC
85023626 ATCAGAGCTG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 16 0.43
19 6 0.16
20 6 0.16
21 9 0.24
ACGTcount: A:0.36, C:0.25, G:0.27, T:0.12
Consensus pattern (18 bp):
GAAGCTCGAAGGCTAACT
Found at i:85030121 original size:21 final size:21
Alignment explanation
Indices: 85030092--85030140 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
85030082 TCCGAATTTT
*
85030092 TTATTTTTTTCGTA-ATATAA
1 TTATTTTTTTTGTATATATAA
* *
85030112 TTATTTTTTTTGTATATTTAT
1 TTATTTTTTTTGTATATATAA
85030133 TTATTTTT
1 TTATTTTT
85030141 ATTATTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (21 bp):
TTATTTTTTTTGTATATATAA
Found at i:85030127 original size:17 final size:16
Alignment explanation
Indices: 85030107--85030151 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
85030097 TTTTTCGTAA
85030107 TATAATTATTTTTTTT
1 TATAATTATTTTTTTT
* *
85030123 GTATATTTATTTATTTT
1 -TATAATTATTTTTTTT
*
85030140 TATTATTATTTT
1 TATAATTATTTT
85030152 AAAAAAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (16 bp):
TATAATTATTTTTTTT
Found at i:85030150 original size:16 final size:16
Alignment explanation
Indices: 85030092--85030151 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 16
85030082 TCCGAATTTT
85030092 TTATTTTTTTCGTAATATAA
1 TTATTTTTTT--T-ATAT-A
*
85030112 TTATTTTTTTTGTATA
1 TTATTTTTTTTATATA
85030128 TTTATTTATTTTTAT-TA
1 -TTATTT-TTTTTATATA
85030145 TTATTTT
1 TTATTTT
85030152 AAAAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
15 1 0.03
16 7 0.19
17 11 0.31
18 7 0.19
20 10 0.28
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.72
Consensus pattern (16 bp):
TTATTTTTTTTATATA
Found at i:85030900 original size:39 final size:39
Alignment explanation
Indices: 85030838--85030977 Score: 199
Period size: 39 Copynumber: 3.6 Consensus size: 39
85030828 ATTGTGATTT
* * *
85030838 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* * *
85030877 GAAGCCCGAAGGCTAATTAAAGCACACAAGTGTTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
85030916 GAAGCCTGAAGGCTAACTGAAGCACACAAGTGCTAAAAG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
85030955 GAAGCTCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
85030978 TCATCAAAGC
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 88 1.00
ACGTcount: A:0.39, C:0.21, G:0.26, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:85030978 original size:18 final size:19
Alignment explanation
Indices: 85030923--85030980 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 19
85030913 ACGGAAGCCT
*
85030923 GAAGGCTAACTGAAGCACA
1 GAAGGCTAACTGAAGCTCA
* **
85030942 CAAGTGCTAAAAGGAAGCTC-
1 GAAG-GCT-AACTGAAGCTCA
85030962 GAAGGCTAACTGAAGCTCA
1 GAAGGCTAACTGAAGCTCA
85030981 TCAAAGCTGA
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
18 9 0.31
19 6 0.21
20 6 0.21
21 8 0.28
ACGTcount: A:0.40, C:0.21, G:0.26, T:0.14
Consensus pattern (19 bp):
GAAGGCTAACTGAAGCTCA
Found at i:85034174 original size:14 final size:15
Alignment explanation
Indices: 85034142--85034182 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
85034132 TCTGAGTCCA
85034142 TTTATTTTATTTATT
1 TTTATTTTATTTATT
85034157 TTTA-TTT-TTTATTT
1 TTTATTTTATTTA-TT
*
85034171 TTTATTTAATTT
1 TTTATTTTATTT
85034183 TCTTAAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
13 4 0.18
14 9 0.41
15 6 0.27
16 3 0.14
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTATTTTATTTATT
Found at i:85037134 original size:43 final size:42
Alignment explanation
Indices: 85037070--85037155 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 42
85037060 ATTTGTGATT
* * *
85037070 TCGATATGTGTTTACAAGTAAGACC-CTGTCTGGGACAGTGGCA
1 TCGATATATGGTTACAAGTAAGACCAC-GTCTAGGAC-GTGGCA
*
85037113 TCGATATATGGTTACATGTAAGACCACGTCTAGGACGTGGCA
1 TCGATATATGGTTACAAGTAAGACCACGTCTAGGACGTGGCA
85037155 T
1 T
85037156 TGTACGATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 7 0.18
43 30 0.79
44 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (42 bp):
TCGATATATGGTTACAAGTAAGACCACGTCTAGGACGTGGCA
Found at i:85039986 original size:9 final size:9
Alignment explanation
Indices: 85039972--85040030 Score: 91
Period size: 9 Copynumber: 6.6 Consensus size: 9
85039962 TTTATACAAA
85039972 TAATTCGGT
1 TAATTCGGT
85039981 TAATTCGGT
1 TAATTCGGT
85039990 TAATTCGGT
1 TAATTCGGT
* *
85039999 TAATTTGGG
1 TAATTCGGT
*
85040008 TAATTCGGG
1 TAATTCGGT
85040017 TAATTCGGT
1 TAATTCGGT
85040026 TAATT
1 TAATT
85040031 TTATACTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 46 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:85040708 original size:50 final size:50
Alignment explanation
Indices: 85040652--85040828 Score: 273
Period size: 50 Copynumber: 3.5 Consensus size: 50
85040642 TTTCGATCAC
*
85040652 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCAT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAGGTCAT
* *
85040702 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGATAAGTCAT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAGGTCAT
* * * **
85040752 GTCTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAGGTCAT
*
85040802 ATGTGTAGTACTAAGTGCAGGCTACTA
1 GTGTGTAGTACTAAGTGCAGGCTACTA
85040829 TGCGTACTAG
Statistics
Matches: 115, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 115 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (50 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAGGTCAT
Found at i:85041653 original size:180 final size:180
Alignment explanation
Indices: 85041397--85041753 Score: 558
Period size: 180 Copynumber: 2.0 Consensus size: 180
85041387 TCCGAGATCT
* * * * *
85041397 GTACCATGAGATATATAATTTTTAGTGAAGAAAGATCGGAACTATCAGATAGTGAAATAAGGGTA
1 GTACCATGAGATAAATAATTTTTAGTGAAGAAAGATAGAAACTATCAGACAATGAAATAAGGGTA
85041462 TATTTAATGAATAAACTGTACTAATTGGA-TAAACCAAAAATTCTGAAAATTTTATGGTAAGAAT
66 TATTTAATGAATAAACTGTACTAATT-GACTAAACCAAAAATTCTGAAAATTTTATGGTAAGAAT
* * *
85041526 ATATGTGAGTCTAGTTTCTGGAAAAATTAGCAGTTCTTAATTTGGAGTCTC
130 ATATATGAGTCTAGTTTCTGGAAAAATTAACAGATCTTAATTTGGAGTCTC
* * *
85041577 GTACCATGAGATAAATAATTTTTAGTGAAGAGAGGTAGAAACTGAT-GGACAATGAAATAAGGGT
1 GTACCATGAGATAAATAATTTTTAGTGAAGAAAGATAGAAACT-ATCAGACAATGAAATAAGGGT
*
85041641 A-ACTTTAATGAATAAACTGTTCTAATTGACTAAACCAAAAATTCTGAAAATTTTATGGTAAGAA
65 ATA-TTTAATGAATAAACTGTACTAATTGACTAAACCAAAAATTCTGAAAATTTTATGGTAAGAA
85041705 TATATATGAGTCTAGTTTCTGGAAAAATTAACAGATCTTAATTTGGAGT
129 TATATATGAGTCTAGTTTCTGGAAAAATTAACAGATCTTAATTTGGAGT
85041754 TCCGTAGCTC
Statistics
Matches: 162, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
179 3 0.02
180 157 0.97
181 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (180 bp):
GTACCATGAGATAAATAATTTTTAGTGAAGAAAGATAGAAACTATCAGACAATGAAATAAGGGTA
TATTTAATGAATAAACTGTACTAATTGACTAAACCAAAAATTCTGAAAATTTTATGGTAAGAATA
TATATGAGTCTAGTTTCTGGAAAAATTAACAGATCTTAATTTGGAGTCTC
Found at i:85042525 original size:33 final size:33
Alignment explanation
Indices: 85042456--85042569 Score: 113
Period size: 33 Copynumber: 3.5 Consensus size: 33
85042446 CTTTGGGTCA
* *
85042456 TATCCACCGCAGTACAGCACTTCT-TCAGGCCCG
1 TATCCACCACAGTACAGCACTTCTCT-AGGCCTG
* * *
85042489 TATCAACCACAGTATAGCACTTCTCTTGGCCTG
1 TATCCACCACAGTACAGCACTTCTCTAGGCCTG
* * * * **
85042522 TATCCACCGCAGTACAACACTACCCCCGGCCTG
1 TATCCACCACAGTACAGCACTTCTCTAGGCCTG
85042555 TATCCACCACAGTAC
1 TATCCACCACAGTAC
85042570 TCCACTCCTC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
33 65 0.98
34 1 0.02
ACGTcount: A:0.25, C:0.39, G:0.15, T:0.22
Consensus pattern (33 bp):
TATCCACCACAGTACAGCACTTCTCTAGGCCTG
Found at i:85042564 original size:66 final size:66
Alignment explanation
Indices: 85042456--85042599 Score: 164
Period size: 66 Copynumber: 2.2 Consensus size: 66
85042446 CTTTGGGTCA
* * ** * * *
85042456 TATCCACCGCAGTACAGCACTTCTTCAGGCCCGTATCAACCACAGTA-TAGCACTTCTCTTGGCC
1 TATCCACCGCAGTACAACACTACCCCAGGCCCGTATCAACCACAGTACT-CCACTCCTCCTGGCC
85042520 TG
65 TG
* * * **
85042522 TATCCACCGCAGTACAACACTACCCCCGGCCTGTATCCACCACAGTACTCCACTCCTCCTGGGTT
1 TATCCACCGCAGTACAACACTACCCCAGGCCCGTATCAACCACAGTACTCCACTCCTCCTGGCCT
85042587 G
66 G
85042588 TATCCACCGCAG
1 TATCCACCGCAG
85042600 CATGACACTC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 64 0.98
67 1 0.02
ACGTcount: A:0.22, C:0.39, G:0.16, T:0.23
Consensus pattern (66 bp):
TATCCACCGCAGTACAACACTACCCCAGGCCCGTATCAACCACAGTACTCCACTCCTCCTGGCCT
G
Found at i:85058066 original size:29 final size:29
Alignment explanation
Indices: 85058024--85058125 Score: 82
Period size: 29 Copynumber: 3.4 Consensus size: 29
85058014 TTTTTTTTTA
*
85058024 GTCACTCAATTATAAAAAGTTACAAAATG
1 GTCACTCAACTATAAAAAGTTACAAAATG
* ****
85058053 GTCACTCAACTATAAGTAAACTT-CTTTTTTG
1 GTCACTCAACTATAA--AAAGTTAC-AAAATG
* *
85058084 GTCAACT-AACTATGAAAAGTTATAAAATG
1 GTC-ACTCAACTATAAAAAGTTACAAAATG
85058113 GTCACTCAACTAT
1 GTCACTCAACTAT
85058126 TCAATTTTGT
Statistics
Matches: 54, Mismatches: 13, Indels: 12
0.68 0.16 0.15
Matches are distributed among these distances:
28 3 0.06
29 30 0.56
30 1 0.02
31 17 0.31
32 3 0.06
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (29 bp):
GTCACTCAACTATAAAAAGTTACAAAATG
Done.