Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 133 of 187
Found at i:39557891 original size:31 final size:31
Alignment explanation
Indices: 39557845--39557909 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
39557835 TCCTTCTATC
39557845 TTTTTTTATTCTTATTTTTATTTTATTTT-A
1 TTTTTTTATTCTTATTTTTATTTTATTTTCA
*
39557875 TTTTATTTATTTTTATTTTTATTTTATTTTCA
1 TTTT-TTTATTCTTATTTTTATTTTATTTTCA
39557907 TTT
1 TTT
39557910 CAATTTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 4 0.12
31 24 0.75
32 4 0.12
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (31 bp):
TTTTTTTATTCTTATTTTTATTTTATTTTCA
Found at i:39557922 original size:31 final size:31
Alignment explanation
Indices: 39557850--39557929 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
39557840 CTATCTTTTT
* * *
39557850 TTATTCTTATTTTTATTTTATTTTATTTTAT
1 TTATTATTATTTTTATTTTATTTTATTTCAA
*
39557881 TTATTTTTATTTTTATTTTATTTTCATTTCAA
1 TTATTATTATTTTTATTTTATTTT-ATTTCAA
39557913 TT-TTATTA-TTTTATTTT
1 TTATTATTATTTTTATTTT
39557930 GAAAGACATA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
30 9 0.20
31 28 0.64
32 7 0.16
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (31 bp):
TTATTATTATTTTTATTTTATTTTATTTCAA
Found at i:39560851 original size:13 final size:13
Alignment explanation
Indices: 39560835--39560867 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
39560825 TTTAATTAAA
*
39560835 TTAGTTAATTAGT
1 TTAGATAATTAGT
39560848 TTAGATAATTAGT
1 TTAGATAATTAGT
39560861 TTA-ATAA
1 TTAGATAA
39560868 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:39562244 original size:13 final size:13
Alignment explanation
Indices: 39562226--39562253 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
39562216 TGTTGGTATC
39562226 AATCAATATCGTT
1 AATCAATATCGTT
39562239 AATCAATATCGTT
1 AATCAATATCGTT
39562252 AA
1 AA
39562254 ATTTCACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (13 bp):
AATCAATATCGTT
Found at i:39575824 original size:40 final size:40
Alignment explanation
Indices: 39574908--39575821 Score: 1765
Period size: 40 Copynumber: 22.9 Consensus size: 40
39574898 ATCAGAACAG
* **
39574908 TAGCACGAATGCTCTTCGGGACTTAGCCCAGATATGTCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
39574948 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
39574988 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
39575028 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
39575068 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
39575108 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
39575148 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
39575188 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
39575228 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
39575268 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
39575308 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
39575348 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
39575388 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
39575428 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
39575468 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
39575508 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
39575548 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
39575588 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
39575628 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
39575668 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
*
39575708 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
** *
39575748 TAGCACGAATGCTCTTCGGGACTTAGCCTAGATATATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
39575788 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
39575822 TATAACTCTC
Statistics
Matches: 866, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 866 1.00
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
Found at i:39577386 original size:46 final size:46
Alignment explanation
Indices: 39577318--39577454 Score: 148
Period size: 46 Copynumber: 3.0 Consensus size: 46
39577308 TATATATACA
* * * * * *
39577318 CATCTCATACATATCTCACATTAGCCATTTGGTTTTACCACGTATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * * * *
39577364 CATCTCATATACGTTTTGCATTAGCCACTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* **
39577410 GATCTCATACACATTTCGCATTAGCCATTCGGCTTCGCCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
39577455 ATACACTTAC
Statistics
Matches: 72, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.24, C:0.30, G:0.11, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:39577499 original size:47 final size:47
Alignment explanation
Indices: 39577448--39577550 Score: 136
Period size: 47 Copynumber: 2.2 Consensus size: 47
39577438 TCGGCTTCGC
* *
39577448 CACATATATACACT-TACACGTTCATCACATTGGCCATTCTACCTTAT
1 CACATATATACA-TGTACACATTCATCACATTGGCCATTCGACCTTAT
* * *
39577495 CACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATACATGTACACATTCATCACATTGGCCATTCGACCTTAT
*
39577542 CACACATAT
1 CACATATAT
39577551 TCGGCCTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
46 1 0.02
47 48 0.98
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CACATATATACATGTACACATTCATCACATTGGCCATTCGACCTTAT
Found at i:39577570 original size:66 final size:66
Alignment explanation
Indices: 39577489--39578276 Score: 1415
Period size: 66 Copynumber: 11.9 Consensus size: 66
39577479 GGCCATTCTA
* *
39577489 CCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATTCG
1 CCTTATCACACATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCACACATATTCG
39577554 G
66 G
39577555 CCTTATCACACATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCACACATATTCG
1 CCTTATCACACATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCACACATATTCG
39577620 G
66 G
39577621 CCTTATCACACATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCACACATATTCG
1 CCTTATCACACATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCACACATATTCG
39577686 G
66 G
39577687 CCTTATCACACATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCACACATATTCG
1 CCTTATCACACATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCACACATATTCG
39577752 G
66 G
39577753 CCTTATCACACATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCACACATATTCG
1 CCTTATCACACATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCACACATATTCG
39577818 G
66 G
39577819 CCTTATCACACATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCACACATATTCG
1 CCTTATCACACATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCACACATATTCG
39577884 G
66 G
39577885 CCTTATCACACATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCACACATATTCG
1 CCTTATCACACATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCACACATATTCG
39577950 G
66 G
39577951 CCTTATCACACATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCACACATATTCG
1 CCTTATCACACATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCACACATATTCG
39578016 G
66 G
39578017 CCTTATCACACATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCACACATATTCG
1 CCTTATCACACATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCACACATATTCG
39578082 G
66 G
* * *
39578083 CCTTATCACACATATGCATGTTCACATTCACCACATTGGCC---C-ACATTCATCACATTGGC-C
1 CCTTATCACACATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTT-ATCACA----CAT
39578143 ATTCGG
61 ATTCGG
* * *
39578149 CCTTATCACACATATGCATGCTCACATTCATCACGTTGGCCATTCGGCCTTATCACACATATTCG
1 CCTTATCACACATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCACACATATTCG
39578214 G
66 G
*
39578215 CCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
1 CCTTATCACACATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCACACATAT
39578277 GCATGTTCAC
Statistics
Matches: 699, Mismatches: 13, Indels: 20
0.95 0.02 0.03
Matches are distributed among these distances:
62 3 0.00
63 7 0.01
65 1 0.00
66 677 0.97
67 1 0.00
69 7 0.01
70 3 0.00
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.31
Consensus pattern (66 bp):
CCTTATCACACATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCACACATATTCG
G
Found at i:39578129 original size:19 final size:19
Alignment explanation
Indices: 39578105--39578142 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
39578095 TATGCATGTT
39578105 CACATTCACCACATTGGCC
1 CACATTCACCACATTGGCC
*
39578124 CACATTCATCACATTGGCC
1 CACATTCACCACATTGGCC
39578143 ATTCGGCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.39, G:0.11, T:0.24
Consensus pattern (19 bp):
CACATTCACCACATTGGCC
Found at i:39578176 original size:47 final size:47
Alignment explanation
Indices: 39578124--39578345 Score: 212
Period size: 47 Copynumber: 4.3 Consensus size: 47
39578114 CACATTGGCC
39578124 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGCT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGCT
* *
39578171 CACATTCATCACGTTGGCCATTCGGCCTTATCACACATATTCGGCCTTAT-CA
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATA-T--G-C--ATGCT
*
39578223 CACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTT
1 CACAT-T-CA---TCACA---------TTGGCCATTCGGCCTTATCACACATATGCATGCT
* *
39578284 CACATTCACCACATTGGCCATTCGGCCTTATCACATATATGCATGCT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGCT
39578331 CACATTCATCACATT
1 CACATTCATCACATT
39578346 AAAATCCTAA
Statistics
Matches: 145, Mismatches: 9, Indels: 42
0.74 0.05 0.21
Matches are distributed among these distances:
47 84 0.58
48 1 0.01
50 1 0.01
51 1 0.01
52 6 0.04
53 3 0.02
54 2 0.01
56 4 0.03
57 4 0.03
59 2 0.01
60 3 0.02
61 5 0.03
62 1 0.01
63 1 0.01
65 1 0.01
66 26 0.18
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (47 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGCT
Found at i:39578214 original size:19 final size:19
Alignment explanation
Indices: 39578190--39578229 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
39578180 CACGTTGGCC
39578190 ATTCGGCCTTATCACACAT
1 ATTCGGCCTTATCACACAT
39578209 ATTCGGCCTTATCACACAT
1 ATTCGGCCTTATCACACAT
39578228 AT
1 AT
39578230 GCATGTTCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (19 bp):
ATTCGGCCTTATCACACAT
Found at i:39583471 original size:13 final size:13
Alignment explanation
Indices: 39583453--39583481 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
39583443 GGTTGTTTAT
39583453 TAAACTAATTAAC
1 TAAACTAATTAAC
39583466 TAAACTAATTAAC
1 TAAACTAATTAAC
39583479 TAA
1 TAA
39583482 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:39594289 original size:49 final size:48
Alignment explanation
Indices: 39594211--39594683 Score: 729
Period size: 49 Copynumber: 9.8 Consensus size: 48
39594201 GAAATGATAG
39594211 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA-TATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAGTATATGTGA
* *
39594258 TAAGGCCTAATGGCCGCGATGTGATGAATGTGAAAGTGTA-TGTATGTAA
1 TAAGGCCTAATGG-C-CGATGTGATGAATGTGAAAGTGTAGTATATGTGA
39594307 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA-GTATATGTGA
*
39594356 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA-TATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAGTATATGTGA
*
39594403 TAAGGCCTAATAGCCGCGATGTGATGAATGTGAAAGTGTATGTATATGTGA
1 TAAGGCCTAAT-GGC-CGATGTGATGAATGTGAAAGTGTA-GTATATGTGA
39594454 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA-GTATATGTGA
39594503 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA-GTATATGTGA
39594552 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA-GTATATGTGA
39594601 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA-TATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAGTATATGTGA
* * * * * * * *
39594648 CAGGGCCGACTGGCCAACGTAATGGATGTGAAAGTG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
39594684 CATAAATGTT
Statistics
Matches: 402, Mismatches: 16, Indels: 16
0.93 0.04 0.04
Matches are distributed among these distances:
47 93 0.23
48 4 0.01
49 284 0.71
50 2 0.00
51 19 0.05
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.29
Consensus pattern (48 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAGTATATGTGA
Found at i:39594873 original size:37 final size:37
Alignment explanation
Indices: 39594817--39594895 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
39594807 CCGAGCTCTA
* * *
39594817 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
39594854 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
39594891 AAGAC
1 AAGAC
39594896 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:39596812 original size:43 final size:43
Alignment explanation
Indices: 39596748--39596849 Score: 186
Period size: 43 Copynumber: 2.4 Consensus size: 43
39596738 TTGGTTTTCA
*
39596748 GCACTAAGTGTGCGGGCAATAAGTGTTCACAGTTGTGAGATTG
1 GCACTAAGTGTGCGGGAAATAAGTGTTCACAGTTGTGAGATTG
*
39596791 GCACTAAGTGTGCGGGAAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGAAATAAGTGTTCACAGTTGTGAGATTG
39596834 GCACTAAGTGTGCGGG
1 GCACTAAGTGTGCGGG
39596850 CTTGAAATGC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.25, C:0.14, G:0.35, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGAAATAAGTGTTCACAGTTGTGAGATTG
Found at i:39596867 original size:29 final size:29
Alignment explanation
Indices: 39596832--39596905 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
39596822 GTTGTGAGAT
* *
39596832 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
39596861 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
39596890 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
39596906 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:39597771 original size:29 final size:30
Alignment explanation
Indices: 39597715--39597771 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
39597705 GTTCGACTGC
* *
39597715 TTTTGGTTGAGTCTTGTTAGTGTCATTAAT
1 TTTTGGTTGAATCTTGTTAGTGTAATTAAT
*
39597745 TTTTGGTTGAAT-TTGTTAGTTTAATTA
1 TTTTGGTTGAATCTTGTTAGTGTAATTA
39597772 TATTCATGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.19, C:0.04, G:0.21, T:0.56
Consensus pattern (30 bp):
TTTTGGTTGAATCTTGTTAGTGTAATTAAT
Found at i:39599123 original size:26 final size:26
Alignment explanation
Indices: 39599083--39599148 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
39599073 ATTTATTAGT
* *
39599083 TTACTTTTAACTTTATTTATTTTTAA
1 TTACTTTTTACTTTATTTATCTTTAA
* *
39599109 TTACTTTTTATTTTATTTCTCTTTAA
1 TTACTTTTTACTTTATTTATCTTTAA
39599135 -TACTATTTTTACTT
1 TTAC--TTTTTACTT
39599149 GATCTTTAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
25 3 0.09
26 22 0.67
27 8 0.24
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.67
Consensus pattern (26 bp):
TTACTTTTTACTTTATTTATCTTTAA
Found at i:39620249 original size:46 final size:46
Alignment explanation
Indices: 39620182--39620400 Score: 239
Period size: 46 Copynumber: 4.7 Consensus size: 46
39620172 TGTAACCCAC
* * * * *
39620182 CCATAAGCGAACTTGAACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
* *
39620228 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGAGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
* *
39620274 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GGC-A-TTCGCAT
* * * *
39620324 -C-TCA-CGAACTCGGACTCTACTCAACGAGTTCGGGCATTGGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
*
39620367 CCATAAGTGAACTCGGGCTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
39620401 AGATGCCCAA
Statistics
Matches: 144, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 3 0.02
45 2 0.01
46 97 0.67
47 26 0.18
48 2 0.01
49 2 0.01
50 4 0.03
51 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
Found at i:39620361 original size:93 final size:93
Alignment explanation
Indices: 39620236--39620407 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
39620226 ATCCATAAGT
39620236 GAACTCAGACTCAACTCAACGAGTTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
39620301 CGAGTTCAGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* * * * *
39620329 GAACTCGGACTCTACTCAACGAGTTCGGGCATTGGCATCCATAAGTGAACTCGGGCTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
39620394 CGAGTTCAGATGCC
66 CGAGTTCAGATGCC
39620408 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGTTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:39627372 original size:47 final size:47
Alignment explanation
Indices: 39627298--39627474 Score: 237
Period size: 47 Copynumber: 3.8 Consensus size: 47
39627288 ACAATTGATA
* * *
39627298 AGTACCTATACCATGGCCCGTAACCAAATCAAGGTAACTTGTCCCAG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTCTCTCAG
* * *
39627345 AGTACCTATACCATGCCCCGTAGCCAAATCAAGGTAACTTTTCTCGG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTCTCTCAG
* * * * * *
39627392 GGTACCTATACAATTGCCCGTACCCAAATCAAGGTAACTCCTCTCTG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTCTCTCAG
*
39627439 AATACCTATACCATGGCCCGTAGCCAAATCAAGGTA
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
39627475 TTATTCACAC
Statistics
Matches: 112, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 112 1.00
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTCTCTCAG
Found at i:39627460 original size:94 final size:94
Alignment explanation
Indices: 39627299--39627474 Score: 271
Period size: 94 Copynumber: 1.9 Consensus size: 94
39627289 CAATTGATAA
* ** *
39627299 GTACCTATACCATGGCCCGTAACCAAATCAAGGTAACTTGTCCCAGAGTACCTATACCATGCCCC
1 GTACCTATACAATGGCCCGTAACCAAATCAAGGTAACTCCTCCCAGAATACCTATACCATGCCCC
39627364 GTAGCCAAATCAAGGTAACTTTTCTCGGG
66 GTAGCCAAATCAAGGTAACTTTTCTCGGG
* * * * *
39627393 GTACCTATACAATTGCCCGTACCCAAATCAAGGTAACTCCTCTCTGAATACCTATACCATGGCCC
1 GTACCTATACAATGGCCCGTAACCAAATCAAGGTAACTCCTCCCAGAATACCTATACCATGCCCC
39627458 GTAGCCAAATCAAGGTA
66 GTAGCCAAATCAAGGTA
39627475 TTATTCACAC
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 73 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.23
Consensus pattern (94 bp):
GTACCTATACAATGGCCCGTAACCAAATCAAGGTAACTCCTCCCAGAATACCTATACCATGCCCC
GTAGCCAAATCAAGGTAACTTTTCTCGGG
Found at i:39628887 original size:23 final size:24
Alignment explanation
Indices: 39628861--39628932 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
39628851 TGAGCTTTTT
* *
39628861 GATA-GGCTCTTTGTGAGCTTCCC
1 GATATGGCTCTTTATGAACTTCCC
*
39628884 GATATGGTTCTTTATGAACTTCCC
1 GATATGGCTCTTTATGAACTTCCC
* * *
39628908 AATTATAGCTC-TTATGAGCTTCCC
1 GA-TATGGCTCTTTATGAACTTCCC
39628932 G
1 G
39628933 TTATATAGCC
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
23 4 0.10
24 29 0.74
25 6 0.15
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (24 bp):
GATATGGCTCTTTATGAACTTCCC
Found at i:39633928 original size:47 final size:47
Alignment explanation
Indices: 39633808--39633938 Score: 181
Period size: 47 Copynumber: 2.8 Consensus size: 47
39633798 GTGCGAATGA
* * *
39633808 TACCTTGATTTGGCTACGGACCATGGTATAGGTATTTCAGAAAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA-CTCAGAAAGAAGT
* ** *
39633856 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCAGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAGAAAGAAGT
*
39633903 TACCTTGATTTGGCTACGGGTCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
39633939 TATCAATTGT
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 42 0.57
48 32 0.43
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAGAAAGAAGT
Found at i:39633955 original size:47 final size:47
Alignment explanation
Indices: 39633809--39633957 Score: 135
Period size: 47 Copynumber: 3.1 Consensus size: 47
39633799 TGCGAATGAT
* *
39633809 ACCTTGATTTGGCTACGGACCATGGTATAGGTA-TT-TCAGAAAG-GA
1 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTATCA-ATAGTGA
* * *** *
39633854 GTTACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCAGGGATAAGT-T
1 ---ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTATCAAT-AGTGA
* *
39633904 ACCTTGATTTGGCTACGGGTCATGGTATAGGTACTTATCAATTGTGA
1 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTATCAATAGTGA
39633951 ACCTTGA
1 ACCTTGA
39633958 GTCTCTGACT
Statistics
Matches: 80, Mismatches: 16, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
46 2 0.03
47 43 0.54
48 31 0.39
49 2 0.03
50 2 0.03
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (47 bp):
ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTATCAATAGTGA
Found at i:39636461 original size:39 final size:39
Alignment explanation
Indices: 39636403--39636533 Score: 201
Period size: 39 Copynumber: 3.4 Consensus size: 39
39636393 GCATGATATT
*
39636403 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTAC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
* * *
39636442 TGGAAACATATCCGAACTTGAGATCTGCAGGCTACGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
*
39636481 TGGAAACATATCCGGACTTGAGGTCCACAGGCTACGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
*
39636520 TGG-AATATATCCGG
1 TGGAAACATATCCGG
39636534 GCCTACAGTC
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
38 10 0.12
39 73 0.88
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
Found at i:39636548 original size:39 final size:39
Alignment explanation
Indices: 39636403--39636552 Score: 144
Period size: 39 Copynumber: 3.8 Consensus size: 39
39636393 GCATGATATT
* * * *
39636403 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTAC
1 TGGAAACATATCCGGACCTGAAGTCCACAGGCTACGTGC
* * **
39636442 TGGAAACATATCCGAACTTG-AGATCTGCAGGCTACGTGC
1 TGGAAACATATCCGGACCTGAAG-TCCACAGGCTACGTGC
* *
39636481 TGGAAACATATCCGGACTTGAGGTCCACAGGCTACGTGC
1 TGGAAACATATCCGGACCTGAAGTCCACAGGCTACGTGC
* *
39636520 TGG-AATATATCCGGGCCT-ACAGTCCCACAGGCT
1 TGGAAACATATCCGGACCTGA-AGT-CCACAGGCT
39636553 TTGTGCTAGT
Statistics
Matches: 95, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
37 1 0.01
38 15 0.16
39 78 0.82
40 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.27, T:0.21
Consensus pattern (39 bp):
TGGAAACATATCCGGACCTGAAGTCCACAGGCTACGTGC
Found at i:39646291 original size:40 final size:40
Alignment explanation
Indices: 39646245--39646328 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 40
39646235 CGGGATTGAA
* *
39646245 CCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACTTAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
39646285 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
39646325 CCGG
1 CCGG
39646329 TTATTATCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
39 1 0.02
40 40 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:39648419 original size:29 final size:29
Alignment explanation
Indices: 39648386--39648445 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
39648376 CTTTTACTTT
39648386 CGGTTCAGCATCTTTAATCAAATCAACTC
1 CGGTTCAGCATCTTTAATCAAATCAACTC
39648415 CGGTTCAGCATCTTTAATCAAATCAACTC
1 CGGTTCAGCATCTTTAATCAAATCAACTC
39648444 CG
1 CG
39648446 AAAATTTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (29 bp):
CGGTTCAGCATCTTTAATCAAATCAACTC
Found at i:39658599 original size:48 final size:48
Alignment explanation
Indices: 39658478--39658646 Score: 153
Period size: 48 Copynumber: 3.5 Consensus size: 48
39658468 TGAGATCCTG
* * * * * * * *
39658478 TGTAAGACCATGTCTGGGACATGGTATCGGCATCTGAGATGAGAGCCCA
1 TGTAAGACCATATCTGGGATATGGCATCAGCATC-GATATGTGATCTCA
* * * ** *
39658527 TGTAAGACCATGTCTGGGACATGGCATTAGTGTTGATATGTG-TGCT-A
1 TGTAAGACCATATCTGGGATATGGCATCAGCATCGATATGTGAT-CTCA
* *
39658574 GTGTAAGACCATATCTGGGATATGGCATCAGCATCGGTATGTGATTTCA
1 -TGTAAGACCATATCTGGGATATGGCATCAGCATCGATATGTGATCTCA
39658623 TGTAAGACCATATCTGGGATATGG
1 TGTAAGACCATATCTGGGATATGG
39658647 TGTTGATATG
Statistics
Matches: 98, Mismatches: 18, Indels: 9
0.78 0.14 0.07
Matches are distributed among these distances:
47 1 0.01
48 67 0.68
49 30 0.31
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (48 bp):
TGTAAGACCATATCTGGGATATGGCATCAGCATCGATATGTGATCTCA
Found at i:39658675 original size:42 final size:42
Alignment explanation
Indices: 39658574--39658717 Score: 135
Period size: 42 Copynumber: 3.3 Consensus size: 42
39658564 ATGTGTGCTA
* *
39658574 GTGTAAGACCATATCTGGGATATGGCATCAGCATCGGTATGTGATTTC
1 GTGTAAGACCATATCTGGGATATGG--T--G--TCGATATGAGATTTC
* *
39658622 ATGTAAGACCATATCTGGGATATGGTGTTGATATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGTGTCGATATGAGATTTC
* * ** * **
39658664 GTGTAAGACCATGTCTGGGATAGGGCATCGATATGAGGTCCC
1 GTGTAAGACCATATCTGGGATATGGTGTCGATATGAGATTTC
39658706 GTGTAAGACCAT
1 GTGTAAGACCAT
39658718 GTTTGGGACA
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
42 57 0.69
44 1 0.01
46 1 0.01
48 24 0.29
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGTGTCGATATGAGATTTC
Found at i:39658718 original size:42 final size:42
Alignment explanation
Indices: 39658623--39658736 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 42
39658613 TGTGATTTCA
* ** * **
39658623 TGTAAGACCATATCTGGGATATGGTGTTGATATGAGATTTCG
1 TGTAAGACCATGTCTGGGATATGGCATCGATATGAGATCCCG
* *
39658665 TGTAAGACCATGTCTGGGATAGGGCATCGATATGAGGTCCCG
1 TGTAAGACCATGTCTGGGATATGGCATCGATATGAGATCCCG
* *
39658707 TGTAAGACCATGTTTGGGACATGGCATCGA
1 TGTAAGACCATGTCTGGGATATGGCATCGA
39658737 CAGCGACATG
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGATATGGCATCGATATGAGATCCCG
Found at i:39658748 original size:90 final size:90
Alignment explanation
Indices: 39658654--39658821 Score: 221
Period size: 90 Copynumber: 1.9 Consensus size: 90
39658644 TGGTGTTGAT
* * * * * * * *
39658654 ATGAGATTTCGTGTAAGACCATGTCTGGGATAGGGCATCGATATG-AGGTCCCGTGTAAGACCAT
1 ATGAGACTTCGTATAACACCATATCTAGGATAGGGCATCGATAAGTA-GACCCATGTAAGACCAT
**
39658718 GTTTGGGACATGGCATCGACAGCGAC
65 GTCGGGGACATGGCATCGACAGCGAC
*
39658744 ATGAGACTTCGTATAACACCATATCTAGGATATGGCATCGATAAGTAGACCCATGTAAGACCATG
1 ATGAGACTTCGTATAACACCATATCTAGGATAGGGCATCGATAAGTAGACCCATGTAAGACCATG
39658809 TCGGGGACATGGC
66 TCGGGGACATGGC
39658822 TTTGGCATTC
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
90 65 0.98
91 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (90 bp):
ATGAGACTTCGTATAACACCATATCTAGGATAGGGCATCGATAAGTAGACCCATGTAAGACCATG
TCGGGGACATGGCATCGACAGCGAC
Found at i:39663062 original size:38 final size:38
Alignment explanation
Indices: 39663029--39663188 Score: 169
Period size: 38 Copynumber: 4.2 Consensus size: 38
39663019 GCAGGCTATA
* *
39663029 TGCTGGAATTATATCTGGGTTAAATCCTACAGGCTTCG
1 TGCTGGAATTATATCCGGGTTAAATCCCACAGGCTTCG
*
39663067 TGCTGGTAA-TATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGG-AATTATATCCGGGTTAAATCCCACAGGCTTCG
* * * * *
39663105 TGCTGGTATTATATCCGGGTTAAATCTCGCAGGCCTAG
1 TGCTGGAATTATATCCGGGTTAAATCCCACAGGCTTCG
* * * **
39663143 TGCTGGTATTATATCTGAGTTTAAAGTCCCGTAGGCTTCG
1 TGCTGGAATTATATCCG-GGTTAAA-TCCCACAGGCTTCG
39663183 TGCTGG
1 TGCTGG
39663189 TGTTATGTTT
Statistics
Matches: 105, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
37 1 0.01
38 80 0.76
39 8 0.08
40 16 0.15
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (38 bp):
TGCTGGAATTATATCCGGGTTAAATCCCACAGGCTTCG
Found at i:39663100 original size:76 final size:78
Alignment explanation
Indices: 39663000--39663188 Score: 206
Period size: 76 Copynumber: 2.4 Consensus size: 78
39662990 ATTTGATGTG
*
39663000 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTATATCTGGGTTAAATC-CTACAGGC
1 TATCCGGGCTTAAAGACCCGCAGGCT-TCATGCTGGAATTATATCCGGGTTAAATCTC-ACAGGC
* *
39663063 TTCGTGCTGGTAATA
64 CTAGTGCTGGTAATA
* * * *
39663078 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCTCGCAGGCCT
1 TATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGAATTATATCCGGGTTAAATCTCACAGGCCT
*
39663141 AGTGCTGGTATTA
66 AGTGCTGGTAATA
* * * * * *
39663154 TATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCTGG
1 TATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGG
39663189 TGTTATGTTT
Statistics
Matches: 96, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
75 1 0.01
76 57 0.59
77 11 0.11
78 27 0.28
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (78 bp):
TATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGAATTATATCCGGGTTAAATCTCACAGGCCT
AGTGCTGGTAATA
Found at i:39667753 original size:28 final size:28
Alignment explanation
Indices: 39667715--39667779 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
39667705 TCAGTGTACG
* * *
39667715 AAATAATGAGAATGGCACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
39667743 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
39667771 AAATATTGA
1 AAATATTGA
39667780 ATGATTAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:39667896 original size:39 final size:39
Alignment explanation
Indices: 39667852--39668073 Score: 286
Period size: 39 Copynumber: 5.7 Consensus size: 39
39667842 GACTTTATAA
* *
39667852 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCAATCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * * *
39667891 TGGTGTT-TATCTGAGCTAAGTCCTGAAGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
39667929 TGGCGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
39667968 TGGTGTTATATCTGGGCTAAGTCCCGAAGGCATTTGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * *
39668007 TGGTGTTATATCCGGGCTAAAGTCTCGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
39668046 TGGTATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
39668074 CATGCTTTGT
Statistics
Matches: 161, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
38 31 0.19
39 110 0.68
40 20 0.12
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:39668160 original size:39 final size:40
Alignment explanation
Indices: 39668105--39668194 Score: 137
Period size: 39 Copynumber: 2.3 Consensus size: 40
39668095 GATTTGGGCA
* *
39668105 TTTGTGCTGGTGTTATATCCGGGC-TAAAGTCTCGCAGGC
1 TTTGTGCTGGTATTATATCCGGGCTTAAAGTCCCGCAGGC
*
39668144 TTTGTGCTGGTATTATATCCGGGCTTAAAGTCCCGCATGC
1 TTTGTGCTGGTATTATATCCGGGCTTAAAGTCCCGCAGGC
*
39668184 TTTGTGGTGGT
1 TTTGTGCTGGT
39668195 GATTGGATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 23 0.50
40 23 0.50
ACGTcount: A:0.14, C:0.19, G:0.30, T:0.37
Consensus pattern (40 bp):
TTTGTGCTGGTATTATATCCGGGCTTAAAGTCCCGCAGGC
Found at i:39668178 original size:105 final size:105
Alignment explanation
Indices: 39667996--39668207 Score: 424
Period size: 105 Copynumber: 2.0 Consensus size: 105
39667986 AAGTCCCGAA
39667996 GGCATTTGTGCTGGTGTTATATCCGGGCTAAAGTCTCGCAGGCTTTGTGCTGGTATTATATCCGG
1 GGCATTTGTGCTGGTGTTATATCCGGGCTAAAGTCTCGCAGGCTTTGTGCTGGTATTATATCCGG
39668061 GCTTAAAGTCCCGCATGCTTTGTGGTGGTGATTGGATTTG
66 GCTTAAAGTCCCGCATGCTTTGTGGTGGTGATTGGATTTG
39668101 GGCATTTGTGCTGGTGTTATATCCGGGCTAAAGTCTCGCAGGCTTTGTGCTGGTATTATATCCGG
1 GGCATTTGTGCTGGTGTTATATCCGGGCTAAAGTCTCGCAGGCTTTGTGCTGGTATTATATCCGG
39668166 GCTTAAAGTCCCGCATGCTTTGTGGTGGTGATTGGATTTG
66 GCTTAAAGTCCCGCATGCTTTGTGGTGGTGATTGGATTTG
39668206 GG
1 GG
39668208 TTTTAAACCT
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 107 1.00
ACGTcount: A:0.15, C:0.17, G:0.32, T:0.36
Consensus pattern (105 bp):
GGCATTTGTGCTGGTGTTATATCCGGGCTAAAGTCTCGCAGGCTTTGTGCTGGTATTATATCCGG
GCTTAAAGTCCCGCATGCTTTGTGGTGGTGATTGGATTTG
Found at i:39674392 original size:28 final size:28
Alignment explanation
Indices: 39674331--39674396 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
39674321 TCAGTGTACG
**
39674331 AAATATTGAAAATGACACTTAATGTGCG
1 AAATATTGAAAATGACACTTAATGTGAA
* * *
39674359 AGATATTGAGAATGACACTTAGTGTGAA
1 AAATATTGAAAATGACACTTAATGTGAA
39674387 AAATATTGAA
1 AAATATTGAA
39674397 TGATTAAATA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.29
Consensus pattern (28 bp):
AAATATTGAAAATGACACTTAATGTGAA
Found at i:39674517 original size:39 final size:39
Alignment explanation
Indices: 39674471--39674719 Score: 324
Period size: 39 Copynumber: 6.4 Consensus size: 39
39674461 TTTATAATGC
*
39674471 TGTTATATCCGGGCTAAGTCCCGAAGGCATTCATGTTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGG
*
39674510 T-TGTATATCCGGGCTAAGTCCTGAAGGCATTCATGCTGG
1 TGT-TATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGG
**
39674549 TGTTATATCCGGGCTAAGTCCTTAAGGCATTCATGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGG
* *
39674588 TGTTATATCCGGGCAAAGTCCCGAAGGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGG
* * *
39674627 TGTTATATCTGGGCTAAGTCCCGAAGGTATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGG
* * **
39674666 TGTTATATCCAGGCTAAAGTCTCC-CAGGC-TTTGTGCTGG
1 TGTTATATCCGGGCT-AAGTC-CCGAAGGCATTCATGCTGG
*
39674705 TATTATATCCGGGCT
1 TGTTATATCCGGGCT
39674720 TAAAGTCCTG
Statistics
Matches: 189, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 177 0.94
40 9 0.05
41 2 0.01
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.32
Consensus pattern (39 bp):
TGTTATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGG
Found at i:39674703 original size:117 final size:117
Alignment explanation
Indices: 39674473--39674834 Score: 364
Period size: 117 Copynumber: 3.2 Consensus size: 117
39674463 TATAATGCTG
* * *
39674473 TTATATCCGGGCT-AAGTCCCGAAGGCATTCATGTTGGT-TGTATATCCGGGCTAAGTCCTGAAG
1 TTATATCCGGGCTAAAGTCCCGAAGGCATTCGTGCTGGTGT-TATATCTGGGCTAAGTCC-GAAG
* * * ** ** *
39674536 GCATTCATGCTGGTGTTATATCCGGGCT-AAGTC-CTTAAGGCATTCATGCTGGTG
64 GTATTCGTGCTGGTGTTATATCCAGGCTAAAGTCTC-CCAGGC-TTTGTGCTGGTA
39674590 TTATATCCGGGC-AAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCTGGGCTAAGTCCCGAAGG
1 TTATATCCGGGCTAAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCTGGGCTAAGT-CCGAAGG
39674654 TATTCGTGCTGGTGTTATATCCAGGCTAAAGTCTCCCAGGCTTTGTGCTGGTA
65 TATTCGTGCTGGTGTTATATCCAGGCTAAAGTCTCCCAGGCTTTGTGCTGGTA
* * * * * *
39674707 TTATATCCGGGCTTAAAGTCCTGCATGC-TTTGTGGTGGTGATT-TGATTTGGG-T---T-----
1 TTATATCCGGGC-TAAAGTCCCGAAGGCATTCGTGCTGGTG-TTAT-ATCTGGGCTAAGTCCGAA
39674761 --TATTCGTGCTGGTGTTATATCCAGGCTAAAGTCTCCCAGGCTTTGTGCTGGTA
63 GGTATTCGTGCTGGTGTTATATCCAGGCTAAAGTCTCCCAGGCTTTGTGCTGGTA
39674814 TTATATCCGGGCTTAAAGTCC
1 TTATATCCGGGC-TAAAGTCC
39674835 TGCATGCTTT
Statistics
Matches: 219, Mismatches: 17, Indels: 28
0.83 0.06 0.11
Matches are distributed among these distances:
107 74 0.34
115 1 0.00
117 100 0.46
118 24 0.11
119 20 0.09
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (117 bp):
TTATATCCGGGCTAAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCTGGGCTAAGTCCGAAGGT
ATTCGTGCTGGTGTTATATCCAGGCTAAAGTCTCCCAGGCTTTGTGCTGGTA
Found at i:39674840 original size:107 final size:107
Alignment explanation
Indices: 39674654--39674868 Score: 430
Period size: 107 Copynumber: 2.0 Consensus size: 107
39674644 GTCCCGAAGG
39674654 TATTCGTGCTGGTGTTATATCCAGGCTAAAGTCTCCCAGGCTTTGTGCTGGTATTATATCCGGGC
1 TATTCGTGCTGGTGTTATATCCAGGCTAAAGTCTCCCAGGCTTTGTGCTGGTATTATATCCGGGC
39674719 TTAAAGTCCTGCATGCTTTGTGGTGGTGATTTGATTTGGGTT
66 TTAAAGTCCTGCATGCTTTGTGGTGGTGATTTGATTTGGGTT
39674761 TATTCGTGCTGGTGTTATATCCAGGCTAAAGTCTCCCAGGCTTTGTGCTGGTATTATATCCGGGC
1 TATTCGTGCTGGTGTTATATCCAGGCTAAAGTCTCCCAGGCTTTGTGCTGGTATTATATCCGGGC
39674826 TTAAAGTCCTGCATGCTTTGTGGTGGTGATTTGATTTGGGTT
66 TTAAAGTCCTGCATGCTTTGTGGTGGTGATTTGATTTGGGTT
39674868 T
1 T
39674869 TAAACCTAGC
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 108 1.00
ACGTcount: A:0.16, C:0.17, G:0.28, T:0.40
Consensus pattern (107 bp):
TATTCGTGCTGGTGTTATATCCAGGCTAAAGTCTCCCAGGCTTTGTGCTGGTATTATATCCGGGC
TTAAAGTCCTGCATGCTTTGTGGTGGTGATTTGATTTGGGTT
Found at i:39692096 original size:47 final size:47
Alignment explanation
Indices: 39692039--39692389 Score: 594
Period size: 47 Copynumber: 7.4 Consensus size: 47
39692029 ATTGATGTAC
* * * * *
39692039 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
39692086 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
39692133 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
39692182 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
39692229 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
39692276 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* * * *
39692323 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
39692370 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
39692390 TCCCGAAGGG
Statistics
Matches: 292, Mismatches: 10, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
47 245 0.84
49 47 0.16
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
Found at i:39693333 original size:60 final size:61
Alignment explanation
Indices: 39693262--39693378 Score: 200
Period size: 60 Copynumber: 1.9 Consensus size: 61
39693252 TTGGGATTAT
*
39693262 TGAAGTCGAAGTCGCCCACACTATCAAA-ACCCTTTTGGTACACTTTTGGTTGAACTCTGA
1 TGAAGTCGAAGTCGCCCACACTATCAAAGACCCTTTCGGTACACTTTTGGTTGAACTCTGA
* *
39693322 TGAAGTCGAAGTCTCCCACACTATCAAAGCCCCTTTCGGTACACTTTTGGTTGAACT
1 TGAAGTCGAAGTCGCCCACACTATCAAAGACCCTTTCGGTACACTTTTGGTTGAACT
39693379 TTGAAATGGC
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
60 27 0.51
61 26 0.49
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (61 bp):
TGAAGTCGAAGTCGCCCACACTATCAAAGACCCTTTCGGTACACTTTTGGTTGAACTCTGA
Found at i:39695697 original size:68 final size:67
Alignment explanation
Indices: 39695589--39695724 Score: 200
Period size: 68 Copynumber: 2.0 Consensus size: 67
39695579 GTCGTCAGGT
* * *
39695589 TTGTGACAGCCCTAAAGTGACCCTAGTCGGGAAGTGGTTTCGGGGCCACAAAATCGAGTCATAAA
1 TTGTGACAGCCCAAAAGTGACCCTAGTCGGGAAGTGGTTTCGGGACCACAAAACCGAGTCATAAA
39695654 AA
66 AA
* ***
39695656 TTGTGACAGCCCAAAAATTGACCCTAGTCGGGAAGTGGTTTCGGGACCGTTAAACCGAGTCATAA
1 TTGTGACAGCCC-AAAAGTGACCCTAGTCGGGAAGTGGTTTCGGGACCACAAAACCGAGTCATAA
39695721 AAA
65 AAA
39695724 T
1 T
39695725 AATTAACCGT
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
67 12 0.20
68 49 0.80
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.22
Consensus pattern (67 bp):
TTGTGACAGCCCAAAAGTGACCCTAGTCGGGAAGTGGTTTCGGGACCACAAAACCGAGTCATAAA
AA
Found at i:39697421 original size:40 final size:40
Alignment explanation
Indices: 39697362--39697573 Score: 230
Period size: 40 Copynumber: 5.3 Consensus size: 40
39697352 CATTTGAATG
* *
39697362 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * *
39697402 TTATCCGAGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
39697442 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * * * * *
39697482 TTATCTGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
39697522 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
39697562 ATATCC-GGCTAA
1 ATATCCGGGCTAA
39697574 ATTCCGAAGA
Statistics
Matches: 136, Mismatches: 34, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
39 8 0.06
40 126 0.93
41 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:39697502 original size:80 final size:80
Alignment explanation
Indices: 39697366--39697573 Score: 294
Period size: 80 Copynumber: 2.6 Consensus size: 80
39697356 TGAATGATAT
*
39697366 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGAGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGAGCTAAGACCCGAAGGCATTTG
* *
39697431 TGCGAGTTGCTATAC
66 TGCGAGTTACTAAAC
* * *
39697446 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCTG-GACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGAG-CTAAGACCCGAAGGCATTT
*
39697510 GTGCGAGTTACTAAAT
65 GTGCGAGTTACTAAAC
* * * *
39697526 CCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTATATCCG-GCTAA
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGAGCTAA
39697574 ATTCCGAAGA
Statistics
Matches: 114, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
79 5 0.04
80 109 0.96
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGAGCTAAGACCCGAAGGCATTTG
TGCGAGTTACTAAAC
Found at i:39700819 original size:79 final size:81
Alignment explanation
Indices: 39700683--39700865 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
39700673 TCGAATGATG
* * *
39700683 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
39700747 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
39700762 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
39700824 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
39700842 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
39700866 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:39700881 original size:40 final size:40
Alignment explanation
Indices: 39700684--39700867 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
39700674 CGAATGATGT
* * *
39700684 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
39700724 CCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
39700764 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
39700802 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
39700843 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
39700868 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 34 0.27
40 81 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:39700889 original size:79 final size:79
Alignment explanation
Indices: 39700684--39700890 Score: 228
Period size: 79 Copynumber: 2.6 Consensus size: 79
39700674 CGAATGATGT
* * *
39700684 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGTATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAGATCCGAAGGCATT
*
39700747 TGTGCGAGTTACTAATT
63 TGTGCGAGTTACTAATA
* *
39700764 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGAT-CCGAAGGCATT
39700826 TGTGCGAGTTACT-ATAA
63 TGTGCGAGTTACTAAT-A
* **
39700843 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAA
39700891 ATTCCAAAGG
Statistics
Matches: 108, Mismatches: 11, Indels: 17
0.79 0.08 0.12
Matches are distributed among these distances:
78 3 0.03
79 62 0.57
80 43 0.40
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGATCCGAAGGCATTTGT
GCGAGTTACTAATA
Found at i:39707128 original size:21 final size:21
Alignment explanation
Indices: 39707087--39707128 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
39707077 TCTAATATAA
* *
39707087 ATATATATATCATATAGGTTT
1 ATATACATATCATACAGGTTT
*
39707108 ATATACATATCATACATGTTT
1 ATATACATATCATACAGGTTT
39707129 CATTATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (21 bp):
ATATACATATCATACAGGTTT
Found at i:39708869 original size:40 final size:40
Alignment explanation
Indices: 39708825--39708980 Score: 217
Period size: 40 Copynumber: 3.9 Consensus size: 40
39708815 GGATATAGCT
* * *
39708825 ACTCGCTCAAATGCCTTCAGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
39708865 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATT-TGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
*
39708905 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
*
39708945 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
39708981 CATCCGAATA
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
40 99 0.97
41 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:39708946 original size:80 final size:80
Alignment explanation
Indices: 39708825--39708974 Score: 239
Period size: 80 Copynumber: 1.9 Consensus size: 80
39708815 GGATATAGCT
* * *
39708825 ACTCGCTCAAATGCCTTCAGGACATAGCCCGGTTATAGTAACTCGCACCAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCAGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTT
39708890 AGCCCGGATTTGGTA
66 AGCCCGGATTTGGTA
* *
39708905 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACT
1 ACTCGCACAAATGCCTTCAGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACT
39708969 TAGCCC
65 TAGCCC
39708975 AGTTATCATC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
79 1 0.02
80 63 0.98
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (80 bp):
ACTCGCACAAATGCCTTCAGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTT
AGCCCGGATTTGGTA
Found at i:39719895 original size:40 final size:40
Alignment explanation
Indices: 39719795--39720059 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
39719785 GCTCCTCGTT
* * * *
39719795 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
39719835 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
39719874 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
39719914 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
39719954 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
39719994 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
39720035 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
39720060 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:39720019 original size:80 final size:80
Alignment explanation
Indices: 39719762--39720059 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
39719752 AAATCACGTA
* ** * * *
39719762 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
39719824 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
39719840 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
39719903 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
39719920 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
39719984 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
39720000 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
39720060 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:39720068 original size:41 final size:41
Alignment explanation
Indices: 39719991--39720068 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
39719981 TTTGTATCTC
* * *
39719991 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
39720032 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
39720069 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:39723327 original size:20 final size:20
Alignment explanation
Indices: 39723302--39723340 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
39723292 CCATCGTCTA
39723302 GAAGATACATCAAAAACCCT
1 GAAGATACATCAAAAACCCT
39723322 GAAGATACATCAAAAACCC
1 GAAGATACATCAAAAACCC
39723341 CAAATAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.26, G:0.10, T:0.13
Consensus pattern (20 bp):
GAAGATACATCAAAAACCCT
Found at i:39749323 original size:44 final size:44
Alignment explanation
Indices: 39749275--39749459 Score: 119
Period size: 44 Copynumber: 4.2 Consensus size: 44
39749265 AAGATTGTAG
39749275 ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGACGACAA
1 ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGACGACAA
* * ** *
39749319 ATCTTATCTTTCC--AAGA-TAGTGGGAAGCAGATTTAAG-CCACCAA
1 ATCTTATC-TCCCTAAACAGTAGT-GG-AGCAGATCAAAGACGA-CAA
* * * * * * * ** * * *
39749363 ACCTTGTCTCCCTGAGCAGTAGCGGAGTAGGTTGAAGATTG-TAG
1 ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGA-CGACAA
* *
39749407 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGATAA
1 ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGACGACAA
39749451 ATCTTATCT
1 ATCTTATCT
39749460 TTCCAAGATA
Statistics
Matches: 103, Mismatches: 28, Indels: 20
0.68 0.19 0.13
Matches are distributed among these distances:
42 4 0.04
43 11 0.11
44 78 0.76
45 7 0.07
46 3 0.03
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGACGACAA
Found at i:39749368 original size:132 final size:132
Alignment explanation
Indices: 39749131--39749530 Score: 667
Period size: 132 Copynumber: 3.0 Consensus size: 132
39749121 AACAGATCAG
* * * * * *
39749131 TGAAGATAGCAGATCTTATCTCCC-AAAGTAGTAGTGGAGCATATCGAAGACGGCAAATCTTATC
1 TGAAGATTGTAGATCTTATCTCCCTAAA-CAGTAGTGGAGCAGATCAAAGACGACAAATCTTATC
* *
39749195 TTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCGAACCTTGTCTCCCTAAGCAGCAGCGGAGTA
65 TTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAACCTTGTCTCCCTGAGCAGCAGCGGAGTA
39749260 GGT
130 GGT
39749263 TGAAGATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCT
*
39749328 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAACCTTGTCTCCCTGAGCAGTAGCGGAGTAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAACCTTGTCTCCCTGAGCAGCAGCGGAGTAG
39749393 GT
131 GT
* *
39749395 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGATAAATCTTATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCT
* *
39749460 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAACCTTGTCTCCCTGAGCAGCAGCGGAGTAG
39749525 GT
131 GT
39749527 TGAA
1 TGAA
39749531 AATAGCAGGT
Statistics
Matches: 253, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
132 250 0.99
133 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (132 bp):
TGAAGATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCT
TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAACCTTGTCTCCCTGAGCAGCAGCGGAGTAG
GT
Found at i:39749564 original size:45 final size:45
Alignment explanation
Indices: 39749513--39749684 Score: 141
Period size: 45 Copynumber: 3.8 Consensus size: 45
39749503 TCCCTGAGCA
* *
39749513 GCAGTGGAGTAGGTTGAAAATAGCAGGTCTTATCCCCCTGAGGTT
1 GCAGTGGAGTAGATTGAAAATAGCAAGTCTTATCCCCCTGAGGTT
* * * * * *
39749558 GCAGTGGGGTAGATCGAAGAT-GATAAATCTTATCTCCCTGAGGTT
1 GCAGTGGAGTAGATTGAAAATAG-CAAGTCTTATCCCCCTGAGGTT
* * * * *
39749603 GCAGTGGAGCAGACTGAGAAGA-CAAGTCTTATCCCCCTGAAGTT
1 GCAGTGGAGTAGATTGAAAATAGCAAGTCTTATCCCCCTGAGGTT
* * * * * *
39749647 CCAGTGGGGCAGACTGAGAATAGCAATTCTTACTCCCC
1 GCAGTGGAGTAGATTGAAAATAGCAAGTCTTA-TCCCC
39749685 AGGCGATGCA
Statistics
Matches: 100, Mismatches: 23, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
44 38 0.38
45 57 0.57
46 5 0.05
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (45 bp):
GCAGTGGAGTAGATTGAAAATAGCAAGTCTTATCCCCCTGAGGTT
Found at i:39749652 original size:44 final size:44
Alignment explanation
Indices: 39749539--39749684 Score: 159
Period size: 44 Copynumber: 3.2 Consensus size: 44
39749529 AAAATAGCAG
* * *
39749539 GTCTTATCCCCCTGAGGTTGCAGTGGGGTAGA-TCGAAGATGATAA
1 GTCTTATCCCCCTGAGGTTGCAGTGGGGCAGACT-G-AGAAGACAA
* * *
39749584 ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGAAGACAA
1 GTCTTATCCCCCTGAGGTTGCAGTGGGGCAGACTGAGAAGACAA
* * *
39749628 GTCTTATCCCCCTGAAGTTCCAGTGGGGCAGACTGAGAATAGCAA
1 GTCTTATCCCCCTGAGGTTGCAGTGGGGCAGACTGAGAAGA-CAA
*
39749673 TTCTTACTCCCC
1 GTCTTA-TCCCC
39749685 AGGCGATGCA
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
44 42 0.49
45 37 0.44
46 6 0.07
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (44 bp):
GTCTTATCCCCCTGAGGTTGCAGTGGGGCAGACTGAGAAGACAA
Found at i:39749756 original size:50 final size:50
Alignment explanation
Indices: 39749699--39749960 Score: 247
Period size: 50 Copynumber: 5.2 Consensus size: 50
39749689 GATGCAGTGG
* *
39749699 AACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTA
1 AACAGATTAAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTA
* * ** * ** **
39749749 AAAAGATTAAAGCTACAACAGTGAATCTTACTT-TTCAAGCGGTGCAGTGG
1 AACAGATTAAAGCTACAACAGTGAATCTTGCTTCCCCGA-CATTGCAGTTA
* *
39749799 AACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTA
1 AACAGATTAAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTA
* ** * * * ** * **
39749849 AAAAGATTAAAGCTACAACAGCCAATCTTACTTCCCGGGCGGTGTAGTGG
1 AACAGATTAAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTA
* * * **
39749899 AACAGATTGAAGCTACAACAGCGAATCTTGCTTCCTCGACATCACAGTTA
1 AACAGATTAAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTA
39749949 AACAGATTAAAG
1 AACAGATTAAAG
39749961 TTACGAGTTA
Statistics
Matches: 160, Mismatches: 50, Indels: 4
0.75 0.23 0.02
Matches are distributed among these distances:
49 2 0.01
50 156 0.98
51 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (50 bp):
AACAGATTAAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTA
Found at i:39749847 original size:100 final size:100
Alignment explanation
Indices: 39749674--39749960 Score: 412
Period size: 100 Copynumber: 2.9 Consensus size: 100
39749664 GAATAGCAAT
* * *
39749674 TCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGAC
1 TCTTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGAC
**
39749739 ATTGCAGTTAAAAAGATTAAAGCTACAACAGTGAA
66 ATTGCAGTTAAAAAGATTAAAGCTACAACAGCCAA
**
39749774 TCTTACTTTTCAAGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGAC
1 TCTTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGAC
39749839 ATTGCAGTTAAAAAGATTAAAGCTACAACAGCCAA
66 ATTGCAGTTAAAAAGATTAAAGCTACAACAGCCAA
** * * * * * *
39749874 TCTTACTTCCCGGGCGGTGTAGTGGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCTCGAC
1 TCTTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGAC
** *
39749939 ATCACAGTTAAACAGATTAAAG
66 ATTGCAGTTAAAAAGATTAAAG
39749961 TTACGAGTTA
Statistics
Matches: 167, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 167 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (100 bp):
TCTTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGAC
ATTGCAGTTAAAAAGATTAAAGCTACAACAGCCAA
Found at i:39752894 original size:25 final size:25
Alignment explanation
Indices: 39752866--39752958 Score: 91
Period size: 25 Copynumber: 3.7 Consensus size: 25
39752856 TGTGAATCAA
*
39752866 TATGCCCACTCGAGCTGTAGATAGG
1 TATGCCCACACGAGCTGTAGATAGG
* * * *
39752891 TATGCTCTCACGAGCTGTAAATTGG
1 TATGCCCACACGAGCTGTAGATAGG
* *
39752916 TATGCTCACATGAGCTGTAGATCA-G
1 TATGCCCACACGAGCTGTAGAT-AGG
39752941 TAT-CCTCACACGAGCTGT
1 TATGCC-CACACGAGCTGT
39752959 GAGTCAGAAC
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
24 1 0.02
25 54 0.98
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.28
Consensus pattern (25 bp):
TATGCCCACACGAGCTGTAGATAGG
Found at i:39752905 original size:50 final size:50
Alignment explanation
Indices: 39752840--39752960 Score: 131
Period size: 50 Copynumber: 2.4 Consensus size: 50
39752830 TCCTGTACAT
39752840 GTATGCTCGT-ACGAGCTGTGAATCAATATGCCCAC-TCGAGCTGTAGAT-A
1 GTATGCTC-TCACGAGCTGTGAATCAATATGCCCACAT-GAGCTGTAGATCA
* *** *
39752889 GGTATGCTCTCACGAGCTGTAAATTGGTATGCTCACATGAGCTGTAGATCA
1 -GTATGCTCTCACGAGCTGTGAATCAATATGCCCACATGAGCTGTAGATCA
* *
39752940 GTATCCTCACACGAGCTGTGA
1 GTATGCTCTCACGAGCTGTGA
39752961 GTCAGAACGT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
49 1 0.02
50 57 0.95
51 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (50 bp):
GTATGCTCTCACGAGCTGTGAATCAATATGCCCACATGAGCTGTAGATCA
Found at i:39752965 original size:25 final size:24
Alignment explanation
Indices: 39752915--39752965 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
39752905 CTGTAAATTG
* *
39752915 GTATGCTCACATGAGCTGTAGATCA
1 GTATCCTCACACGAGCTGTAG-TCA
39752940 GTATCCTCACACGAGCTGTGAGTCA
1 GTATCCTCACACGAGCTGT-AGTCA
39752965 G
1 G
39752966 AACGTAGCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (24 bp):
GTATCCTCACACGAGCTGTAGTCA
Found at i:39754147 original size:17 final size:17
Alignment explanation
Indices: 39754127--39754159 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
39754117 TTAATAACCC
39754127 AATTAAATTAATTCTAT
1 AATTAAATTAATTCTAT
*
39754144 AATTAATTTAATTCTA
1 AATTAAATTAATTCTA
39754160 GCGACAACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTAAATTAATTCTAT
Found at i:39761845 original size:16 final size:16
Alignment explanation
Indices: 39761824--39761855 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
39761814 GTTTTGTTGC
*
39761824 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
39761840 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
39761856 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:39762054 original size:46 final size:43
Alignment explanation
Indices: 39761979--39762077 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 43
39761969 AATAATAACA
*
39761979 GATACACGGTGGATTCAGCACACAACAACCACCCTTTGTAATCAAT
1 GATAC-CGGTGGATTCAGCACACAACAACCA-CC-TTATAATCAAT
* * *
39762025 GATATCCGGTGGGA-TCAGCACATAGCAACCACCTTATAATTAAT
1 GATA-CCGGT-GGATTCAGCACACAACAACCACCTTATAATCAAT
39762069 GATACCGGT
1 GATACCGGT
39762078 TCACATAGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
43 5 0.11
44 13 0.28
45 2 0.04
46 23 0.49
47 4 0.09
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (43 bp):
GATACCGGTGGATTCAGCACACAACAACCACCTTATAATCAAT
Found at i:39762141 original size:51 final size:51
Alignment explanation
Indices: 39762073--39762273 Score: 221
Period size: 51 Copynumber: 4.0 Consensus size: 51
39762063 ATTAATGATA
* * *
39762073 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTAT
1 CCGGTACACGTAGTAGCCTACACATAGTACTACACATGTGACCATCACTAT
* * *
39762124 CCGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGA--AGCTAT
1 CCGGTACACGTAGTAGCCTACACATAGTACTACACATGTGA-CCATCA-CTAT
* * * *
39762175 CCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-T
1 CCGGTACACGTAGTAGCCTACACATAGTACTACACATGTGACC-ATCACTAT
* * * *
39762225 CTGGTACATGTAGTAGCCTACACTTAGTACTACACATGTGACCGTCACT
1 CCGGTACACGTAGTAGCCTACACATAGTACTACACATGTGACCATCACT
39762274 TTCACTTTCA
Statistics
Matches: 123, Mismatches: 21, Indels: 13
0.78 0.13 0.08
Matches are distributed among these distances:
49 3 0.02
50 40 0.33
51 77 0.63
52 2 0.02
53 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (51 bp):
CCGGTACACGTAGTAGCCTACACATAGTACTACACATGTGACCATCACTAT
Found at i:39762280 original size:6 final size:6
Alignment explanation
Indices: 39762269--39762296 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
39762259 CATGTGACCG
39762269 TCACTT TCACTT TCACTT TCACTT TCAC
1 TCACTT TCACTT TCACTT TCACTT TCAC
39762297 ATAGTGGCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.36, G:0.00, T:0.46
Consensus pattern (6 bp):
TCACTT
Found at i:39765393 original size:25 final size:25
Alignment explanation
Indices: 39765365--39765441 Score: 93
Period size: 25 Copynumber: 3.1 Consensus size: 25
39765355 TTTTCTCACT
*
39765365 CGAGCTATAGATCGATATGCTCTCA
1 CGAGCTGTAGATCGATATGCTCTCA
* * *
39765390 CGAGCTGTAAAT-TAGTATGCTCACA
1 CGAGCTGTAGATCGA-TATGCTCTCA
*
39765415 CGAGCTGTAGATCGGTATGCTCTCA
1 CGAGCTGTAGATCGATATGCTCTCA
39765440 CG
1 CG
39765442 CACTCTAACT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
CGAGCTGTAGATCGATATGCTCTCA
Found at i:39765553 original size:25 final size:25
Alignment explanation
Indices: 39765524--39765596 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
39765514 CTCACTCGAG
* *
39765524 CTATAGATCGGTATGCTCTCATGAG
1 CTATAGATCGGTATGCTCTCACGAA
* * * *
39765549 TTATAAATTGGTATGCTCACACGAA
1 CTATAGATCGGTATGCTCTCACGAA
*
39765574 CTGTAGATCGGTATGCTCTCACG
1 CTATAGATCGGTATGCTCTCACG
39765597 CACTGTAGGT
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (25 bp):
CTATAGATCGGTATGCTCTCACGAA
Found at i:39765578 original size:155 final size:155
Alignment explanation
Indices: 39765291--39765600 Score: 566
Period size: 155 Copynumber: 2.0 Consensus size: 155
39765281 ACATTGTGTG
39765291 CTAACTCATATAACTGTAATCTATCAAATCCTGTACATGTATGCTCATACGAGCTGTGAATCGGT
1 CTAACTCATATAACTGTAATCTATCAAATCCTGTACATGTATGCTCATACGAGCTGTGAATCGGT
* *
39765356 TTTCTCACTCGAGCTATAGATCGATATGCTCTCACGAGCTGTAAATTAGTATGCTCACACGAGCT
66 TTTCTCACTCGAGCTATAGATCGATATGCTCTCACGAGCTATAAATTAGTATGCTCACACGAACT
39765421 GTAGATCGGTATGCTCTCACGCACT
131 GTAGATCGGTATGCTCTCACGCACT
39765446 CTAACTCATATAACTGTAATCTATCAAATCCTGTACATGTATGCTCATACGAGCTGTGAATCGGT
1 CTAACTCATATAACTGTAATCTATCAAATCCTGTACATGTATGCTCATACGAGCTGTGAATCGGT
* * * *
39765511 TTTCTCACTCGAGCTATAGATCGGTATGCTCTCATGAGTTATAAATTGGTATGCTCACACGAACT
66 TTTCTCACTCGAGCTATAGATCGATATGCTCTCACGAGCTATAAATTAGTATGCTCACACGAACT
39765576 GTAGATCGGTATGCTCTCACGCACT
131 GTAGATCGGTATGCTCTCACGCACT
39765601 GTAGGTCAGA
Statistics
Matches: 149, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
155 149 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (155 bp):
CTAACTCATATAACTGTAATCTATCAAATCCTGTACATGTATGCTCATACGAGCTGTGAATCGGT
TTTCTCACTCGAGCTATAGATCGATATGCTCTCACGAGCTATAAATTAGTATGCTCACACGAACT
GTAGATCGGTATGCTCTCACGCACT
Found at i:39765601 original size:25 final size:24
Alignment explanation
Indices: 39765527--39765604 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 24
39765517 ACTCGAGCTA
* * *
39765527 TAGATCGGTATGCTCTCATGAGTTA
1 TAGATCGGTATGCTCTCACGA-CTG
* * *
39765552 TAAATTGGTATGCTCACACGAACTG
1 TAGATCGGTATGCTCTCACG-ACTG
39765577 TAGATCGGTATGCTCTCACGCACTG
1 TAGATCGGTATGCTCTCACG-ACTG
39765602 TAG
1 TAG
39765605 GTCAGAACGT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
25 41 0.98
26 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (24 bp):
TAGATCGGTATGCTCTCACGACTG
Found at i:39766007 original size:16 final size:17
Alignment explanation
Indices: 39765986--39766020 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
39765976 TCAATTTAAC
39765986 CCAAAATCA-TATTTTG
1 CCAAAATCATTATTTTG
*
39766002 CCAAAATTATTATTTTG
1 CCAAAATCATTATTTTG
39766019 CC
1 CC
39766021 CCTTCAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (17 bp):
CCAAAATCATTATTTTG
Found at i:39767403 original size:26 final size:24
Alignment explanation
Indices: 39767355--39767407 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 24
39767345 CGCTGAATAT
39767355 TTTTTAATTTTTTTCTTGATTTCATA
1 TTTTTAATTTTTTTCTT-ATTTC-TA
39767381 TTTTTAATTTTTTTGACTT-TTTCTA
1 TTTTTAATTTTTTT--CTTATTTCTA
39767406 TT
1 TT
39767408 GATTTTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 4 0.16
26 18 0.72
28 3 0.12
ACGTcount: A:0.17, C:0.08, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTTTAATTTTTTTCTTATTTCTA
Found at i:39770032 original size:6 final size:6
Alignment explanation
Indices: 39770021--39770052 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
39770011 GCATCGATGT
39770021 AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA AA
1 AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA AA
39770053 GGTTTCGACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (6 bp):
AAAGGA
Found at i:39783238 original size:9 final size:9
Alignment explanation
Indices: 39783224--39783254 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
39783214 GTTAAACGAA
39783224 TCGAGTTAT
1 TCGAGTTAT
*
39783233 TCGAGTTAA
1 TCGAGTTAT
39783242 TCGAGTTAT
1 TCGAGTTAT
39783251 TCGA
1 TCGA
39783255 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:39783325 original size:9 final size:9
Alignment explanation
Indices: 39783308--39783353 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
39783298 TGAGTTTTAG
39783308 AATTCGAAT
1 AATTCGAAT
*
39783317 AACTCGAAT
1 AATTCGAAT
*
39783326 AATTCAAAT
1 AATTCGAAT
39783335 AATTCGAAT
1 AATTCGAAT
39783344 AATTCGAAT
1 AATTCGAAT
39783353 A
1 A
39783354 TCAAACTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:39783430 original size:21 final size:21
Alignment explanation
Indices: 39783389--39783431 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
39783379 ATCCCAGACT
* *
39783389 CTCAAACATTTTTACTTTTCC
1 CTCAAACACTTTTACTATTCC
39783410 CTCAAA-ACTTTTACTCATTCC
1 CTCAAACACTTTTACT-ATTCC
39783431 C
1 C
39783432 ACTTTCGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.26, C:0.33, G:0.00, T:0.42
Consensus pattern (21 bp):
CTCAAACACTTTTACTATTCC
Found at i:39792210 original size:19 final size:19
Alignment explanation
Indices: 39792195--39792256 Score: 79
Period size: 20 Copynumber: 3.2 Consensus size: 19
39792185 AAAAGGGAGG
*
39792195 AAATCAGTGTAAAGGGGAA
1 AAATCAGTGTAAAGGGAAA
* *
39792214 AAGTCAGTGTAAAGAGAAAA
1 AAATCAGTGTAAAG-GGAAA
39792234 AAATCAGTGTAAAGGGAAGA
1 AAATCAGTGTAAAGGGAA-A
39792254 AAA
1 AAA
39792257 AAAATCAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.44
20 20 0.56
ACGTcount: A:0.53, C:0.05, G:0.27, T:0.15
Consensus pattern (19 bp):
AAATCAGTGTAAAGGGAAA
Found at i:39792256 original size:20 final size:19
Alignment explanation
Indices: 39792186--39792256 Score: 81
Period size: 19 Copynumber: 3.6 Consensus size: 19
39792176 ATATTCATAA
*
39792186 AAAGGGAGGAAATCAGTGT
1 AAAGGGAGAAAATCAGTGT
39792205 AAAGGG-GAAAAGTCAGTGT
1 AAAGGGAGAAAA-TCAGTGT
* *
39792224 AAAGAGAAAAAAATCAGTGT
1 AAAG-GGAGAAAATCAGTGT
39792244 AAAGGGAAGAAAA
1 AAAGGG-AGAAAA
39792257 AAAATCAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
18 4 0.09
19 18 0.42
20 17 0.40
21 4 0.09
ACGTcount: A:0.52, C:0.04, G:0.31, T:0.13
Consensus pattern (19 bp):
AAAGGGAGAAAATCAGTGT
Found at i:39793093 original size:24 final size:22
Alignment explanation
Indices: 39793063--39793124 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 22
39793053 AGTTTATTGT
39793063 ATATTATTAGTTTAGATTTATCA
1 ATATTATTAGTTTA-ATTTATCA
* * *
39793086 TGTTTTATTATTTGTAATTTATCA
1 -ATATTATTAGTT-TAATTTATCA
39793110 ATATTATTAGTTTAA
1 ATATTATTAGTTTAA
39793125 ATTCATCGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
22 3 0.10
23 9 0.29
24 17 0.55
25 2 0.06
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.56
Consensus pattern (22 bp):
ATATTATTAGTTTAATTTATCA
Found at i:39793186 original size:24 final size:22
Alignment explanation
Indices: 39793028--39793198 Score: 103
Period size: 23 Copynumber: 7.5 Consensus size: 22
39793018 CTTATTATCA
*
39793028 TTAAATTAATCATTAATATTAT
1 TTAAATTTATCATTAATATTAT
* * ** *
39793050 CTAAGTTTATTGTATATTATTAGT
1 TTAAATTTATCAT-TAATATTA-T
* **
39793074 TTAGATTTATCATGTTTTATTAT
1 TTAAATTTATCAT-TAATATTAT
* * *
39793097 TTGTAATTTATCAATATTATTAGT
1 TT-AAATTTATCATTAATATTA-T
* * *
39793121 TTAAATTCATCGTTAACATTATT
1 TTAAATTTATCATTAATATTA-T
*
39793144 TTAAATTTATCCTGT-ATATTTAT
1 TTAAATTTATCAT-TAATA-TTAT
39793167 TTCAAATTTATCATTAATATT-T
1 TT-AAATTTATCATTAATATTAT
39793189 TTAAATTTAT
1 TTAAATTTAT
39793199 TATATACTAT
Statistics
Matches: 113, Mismatches: 28, Indels: 17
0.72 0.18 0.11
Matches are distributed among these distances:
21 8 0.07
22 11 0.10
23 50 0.44
24 44 0.39
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.54
Consensus pattern (22 bp):
TTAAATTTATCATTAATATTAT
Found at i:39793315 original size:24 final size:23
Alignment explanation
Indices: 39793257--39793315 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 23
39793247 CATAAAAATT
39793257 TTTAAATT-TTATATGTATTATTA
1 TTTAAATTATTATA-GTATTATTA
39793280 TTTCAAATTTATTATA-TATTATTTA
1 TTT-AAA-TTATTATAGTATTA-TTA
39793305 TTGTAAATTAT
1 TT-TAAATTAT
39793316 CTAATTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
23 3 0.10
24 12 0.39
25 10 0.32
26 6 0.19
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (23 bp):
TTTAAATTATTATAGTATTATTA
Found at i:39796985 original size:22 final size:22
Alignment explanation
Indices: 39796960--39797014 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
39796950 AAAGGAAAAA
39796960 AAAAAGAAAAAACATCAAAATC
1 AAAAAGAAAAAACATCAAAATC
**
39796982 AAAATA-AAAAGTCATCAAAATC
1 AAAA-AGAAAAAACATCAAAATC
39797004 AAAAATGAAAA
1 AAAAA-GAAAA
39797015 TGAAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 1 0.04
22 22 0.79
23 5 0.18
ACGTcount: A:0.71, C:0.11, G:0.05, T:0.13
Consensus pattern (22 bp):
AAAAAGAAAAAACATCAAAATC
Found at i:39798281 original size:11 final size:11
Alignment explanation
Indices: 39798265--39798291 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
39798255 TAGATCTCCT
39798265 AAACACATGTC
1 AAACACATGTC
39798276 AAACACATGTC
1 AAACACATGTC
39798287 AAACA
1 AAACA
39798292 TATTGAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.26, G:0.07, T:0.15
Consensus pattern (11 bp):
AAACACATGTC
Found at i:39799289 original size:44 final size:41
Alignment explanation
Indices: 39799234--39799992 Score: 336
Period size: 44 Copynumber: 17.7 Consensus size: 41
39799224 AAACCAACCC
* **
39799234 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCT
1 TATCT-CCTGAAGTTGCAGTAGAGCAGATTAAAA-C-CAGATCT
* * * *
39799278 TATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCTAG-TCT
1 TATCTC-CTGAAGTTGCAGTAGAGCAGATTAAAACCAGATCT
* * * *
39799319 CATTTCCTTGAAGTTGCAATAGAGCAGATTGAAGAAACCA-ATCC
1 TATCTCC-TGAAGTTGCAGTAGAGCAGATT--A-AAACCAGATCT
* *
39799363 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACACAGATCT
1 TATCTCC-TGAAGTTGCAGTAGAGCAGATTAAAAC-CAGATCT
* *** *
39799406 TATCTCTCTGAAGTTGTAG-AGAGCAGATCGCATCCA-ATCT
1 TATCTC-CTGAAGTTGCAGTAGAGCAGATTAAAACCAGATCT
* * * * **
39799446 TATCTCTTTGAAGTTGCAGTGGGGCAGACTAAAGATGACGAATCT
1 TATCTC-CTGAAGTTGCAGTAGAGCAGATTAAA-ACCA-G-ATCT
* * * * *
39799491 TATCTCCCTAAAGTTGCAGCAGAGCAGATTGAAACCAATAATCC
1 TATCT-CCTGAAGTTGCAGTAGAGCAGATTAAAACC-A-GATCT
* * *
39799535 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAATGCTAGATCT
1 TATCT-CCTGAAGTTGCAGTAGAGCAGATTAAAA--CCAGATCT
* *** *
39799579 TATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCCAG-TCT
1 TATCTC-CTGAAGTTGCAGTAGAGCAGATTAAAACCAGATCT
* *
39799620 TATCTCCCTGAAGTTACAGTAGAGCAGACTGAATAAACCA-ATCT
1 TATCT-CCTGAAGTTGCAGTAGAGCAGA-T-TA-AAACCAGATCT
* * * * *
39799664 TATCTCCTTGAAGTTACAGTGGAGCAGATTGAATAA-AATAATCC
1 TATCTCC-TGAAGTTGCAGTAGAGCAGATT-AA-AACCA-GATCT
* * ***
39799708 TATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAGTGATGGATCT
1 TATCTC-CTGAAGTTGCAGTAGAGCAGATTAAAACCA--GATCT
* * *** * *
39799752 TATCTCTCTAAAGTTGTAGTAGAGCAGA-TCGCATCAGGTCT
1 TATCTC-CTGAAGTTGCAGTAGAGCAGATTAAAACCAGATCT
* **
39799793 TATCTTCCTGAAGTTGCAGTGGAGCAGACGAAATAAACCA-ATCT
1 TATC-TCCTGAAGTTGCAGTAGAGCAGA--TTA-AAACCAGATCT
* * *
39799837 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACCAAAAATC-
1 TATCT-CCTGAAGTTGCAGTAGAGCAGATTAAAACC--AGATCT
* * **
39799880 TATCTCTCTGAAGTTGCAGT-GAATCAGATCAAAATGATGGATCT
1 TATCTC-CTGAAGTTGCAGTAG-AGCAGATTAAAACCA--GATCT
* * **** *
39799924 TATCTCTCTGAAGTTACAGTAGAGAAGATCGCTACAAG-TCT
1 TATCTC-CTGAAGTTGCAGTAGAGCAGATTAAAACCAGATCT
* *
39799965 TATCTCACTGAAGTTGTAGTGGAGCAGA
1 TATCTC-CTGAAGTTGCAGTAGAGCAGA
39799993 CGGAAGATAG
Statistics
Matches: 545, Mismatches: 123, Indels: 97
0.71 0.16 0.13
Matches are distributed among these distances:
40 22 0.04
41 125 0.23
42 29 0.05
43 67 0.12
44 265 0.49
45 35 0.06
46 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (41 bp):
TATCTCCTGAAGTTGCAGTAGAGCAGATTAAAACCAGATCT
Found at i:39799622 original size:129 final size:129
Alignment explanation
Indices: 39799488--39799732 Score: 300
Period size: 129 Copynumber: 1.9 Consensus size: 129
39799478 AGATGACGAA
* * * *
39799488 TCTTATCTCCCTAAAGTTGCAGCAGAGCAGATTGAA-ACCAA-TAATCCTATCTCCCTGAAGTTG
1 TCTTATCTCCCTAAAGTTACAGCAGAGCAGACTGAATA--AACCAATCCTATCTCCCTGAAGTTA
* ** * *
39799551 TAGTGGAGCAGATT-AA-AATGCTAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATC
64 CAGTGGAGCAGATTGAATAA-AATA-ATCCTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC
39799614 CAG
127 CAG
* * * *
39799617 TCTTATCTCCCTGAAGTTACAGTAGAGCAGACTGAATAAACCAATCTTATCTCCTTGAAGTTACA
1 TCTTATCTCCCTAAAGTTACAGCAGAGCAGACTGAATAAACCAATCCTATCTCCCTGAAGTTACA
*
39799682 GTGGAGCAGATTGAATAAAATAATCCTATCTCTCTGAAGTTGCAGTGGAGC
66 GTGGAGCAGATTGAATAAAATAATCCTATCTCTCTGAAGTTGCAGTAGAGC
39799733 GGATTAAAGT
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
128 2 0.02
129 89 0.91
130 5 0.05
131 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (129 bp):
TCTTATCTCCCTAAAGTTACAGCAGAGCAGACTGAATAAACCAATCCTATCTCCCTGAAGTTACA
GTGGAGCAGATTGAATAAAATAATCCTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAG
Found at i:39799694 original size:173 final size:173
Alignment explanation
Indices: 39799327--39799993 Score: 794
Period size: 173 Copynumber: 3.9 Consensus size: 173
39799317 CTCATTTCCT
* * * *
39799327 TGAAGTTGCAATAGAGCAGATTGAAGA-AACCAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGA
1 TGAAGTTGCAGTAGAGCAGATTGAAGACAA-TAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGA
* * * **
39799391 TTAAAA-CACAGATCTTATCTCTCTGAAGTTGTAG-AGAGCAGATCGCATCCAATCTTATCTCTT
65 TTAAAATGATAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCCAGTCTTATCTCCC
* * * * *
39799454 TGAAGTTGCAGTGGGGCAGACTAAAGATGACGAATCTTATCTCCC
130 TGAAGTTGCAGTGGAGCAGACTGAATA-AACCAATCTTATCTCCC
* * *
39799499 TAAAGTTGCAGCAGAGCAGATTGAA-ACCAATAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGA
1 TGAAGTTGCAGTAGAGCAGATTGAAGA-CAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGA
*
39799563 TTAAAATGCTAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCCAGTCTTATCTCCC
65 TTAAAATGATAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCCAGTCTTATCTCCC
* * *
39799628 TGAAGTTACAGTAGAGCAGACTGAATAAACCAATCTTATCTCCT
130 TGAAGTTGCAGTGGAGCAGACTGAATAAACCAATCTTATCTCCC
* * * * * *
39799672 TGAAGTTACAGTGGAGCAGATTGAATAAAATAATCCTATCTCTCTGAAGTTGCAGTGGAGCGGAT
1 TGAAGTTGCAGTAGAGCAGATTGAAGACAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * *
39799737 TAAAGTGATGGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATCGCAT-CAGGTCTTATCTTCC
66 TAAAATGATAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCCA-GTCTTATCTCCC
39799801 TGAAGTTGCAGTGGAGCAGAC-GAAATAAACCAATCTTATCTCCC
130 TGAAGTTGCAGTGGAGCAGACTG-AATAAACCAATCTTATCTCCC
* * * * * * *
39799845 TGAAGTTGTAGTGGAGCAGATT-AAAACCAAAAAT-CTATCTCTCTGAAGTTGCAGTGAATCAGA
1 TGAAGTTGCAGTAGAGCAGATTGAAGA-CAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGA
* * ** * * *
39799908 TCAAAATGATGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGC-TACAAGTCTTATCTCA
65 TTAAAATGATAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCAT-CCAGTCTTATCTCC
*
39799972 CTGAAGTTGTAGTGGAGCAGAC
129 CTGAAGTTGCAGTGGAGCAGAC
39799994 GGAAGATAGC
Statistics
Matches: 430, Mismatches: 55, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
171 2 0.00
172 162 0.38
173 217 0.50
174 49 0.11
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (173 bp):
TGAAGTTGCAGTAGAGCAGATTGAAGACAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
TAAAATGATAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCCAGTCTTATCTCCCT
GAAGTTGCAGTGGAGCAGACTGAATAAACCAATCTTATCTCCC
Found at i:39800428 original size:19 final size:19
Alignment explanation
Indices: 39800404--39800444 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
39800394 TATTCATAAA
39800404 AAAGGGTGGAAA-TCAGTGT
1 AAAGGG-GGAAAGTCAGTGT
39800423 AAA-GGGGAAAGTCAGTGT
1 AAAGGGGGAAAGTCAGTGT
39800441 AAAG
1 AAAG
39800445 AGAAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
17 5 0.25
18 12 0.60
19 3 0.15
ACGTcount: A:0.41, C:0.05, G:0.37, T:0.17
Consensus pattern (19 bp):
AAAGGGGGAAAGTCAGTGT
Found at i:39800449 original size:17 final size:17
Alignment explanation
Indices: 39800412--39800465 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
39800402 AAAAAGGGTG
*
39800412 GAAATCAGTGTAAAGGG
1 GAAATCAGTGTAAAGGA
39800429 GAAAGTCAGTGTAAAGAGAAA
1 GAAA-TCAGTGTAAAG-G--A
*
39800450 AAAATCAGTGTAAAGG
1 GAAATCAGTGTAAAGG
39800466 GAGGGAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 4 0.13
18 11 0.35
19 2 0.06
20 11 0.35
21 3 0.10
ACGTcount: A:0.48, C:0.06, G:0.30, T:0.17
Consensus pattern (17 bp):
GAAATCAGTGTAAAGGA
Found at i:39800459 original size:20 final size:18
Alignment explanation
Indices: 39800413--39800465 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
39800403 AAAAGGGTGG
**
39800413 AAATCAGTGTAAAGGGGA
1 AAATCAGTGTAAAGGAAA
*
39800431 AAGTCAGTGTAAAGAGAAAA
1 AAATCAGTGTAAAG-G-AAA
39800451 AAATCAGTGTAAAGG
1 AAATCAGTGTAAAGG
39800466 GAGGGAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 13 0.45
19 2 0.07
20 14 0.48
ACGTcount: A:0.49, C:0.06, G:0.28, T:0.17
Consensus pattern (18 bp):
AAATCAGTGTAAAGGAAA
Found at i:39801309 original size:24 final size:24
Alignment explanation
Indices: 39801244--39801506 Score: 146
Period size: 24 Copynumber: 11.4 Consensus size: 24
39801234 CTTATTATCA
*
39801244 TTAAATTAATCAT-TAATATTA-T
1 TTAAATTTATCATGTAATATTATT
* *
39801266 CTAAGTTTAT--TGTATATTATTATT
1 TTAAATTTATCATGTA-A-TATTATT
* **
39801290 TTAGATTTATCATGTTTTATTATT
1 TTAAATTTATCATGTAATATTATT
* *
39801314 TGT-AATTTATCA-ATATTATTATT
1 T-TAAATTTATCATGTAATATTATT
* * *
39801337 TTAAATTCATCGT-TAACATTATT
1 TTAAATTTATCATGTAATATTATT
*
39801360 TTAAATTTATCCTGT-ATATTTATT
1 TTAAATTTATCATGTAATA-TTATT
*
39801384 TCAAATTTATCAT-TAATA-T-TT
1 TTAAATTTATCATGTAATATTATT
* *
39801405 TTAAATTTATTATATAATATTATT
1 TTAAATTTATCATGTAATATTATT
*
39801429 TTAGATTTATCATGT-ATGATTATT
1 TTAAATTTATCATGTAAT-ATTATT
* * * *
39801453 CTAGAA-TCATCAT-CAA-AAT-TT
1 TTA-AATTTATCATGTAATATTATT
*
39801474 TTAAATTTTAT-ATGTATTATTATT
1 TTAAA-TTTATCATGTAATATTATT
*
39801498 TCAAATTTA
1 TTAAATTTA
39801507 ATATAAATTA
Statistics
Matches: 182, Mismatches: 36, Indels: 45
0.69 0.14 0.17
Matches are distributed among these distances:
20 3 0.02
21 21 0.12
22 21 0.12
23 53 0.29
24 79 0.43
25 2 0.01
26 3 0.02
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.54
Consensus pattern (24 bp):
TTAAATTTATCATGTAATATTATT
Found at i:39801360 original size:70 final size:69
Alignment explanation
Indices: 39801284--39801452 Score: 180
Period size: 70 Copynumber: 2.4 Consensus size: 69
39801274 ATTGTATATT
** * *
39801284 ATTATTTTAGATTTATCATGTTTTATTATTTGTAATTTATCAATATTATTATTTTAAATTCATCG
1 ATTATTTTAGATTTATCATGTTTTATTATTTCAAATTTATCAATAATA-T-TTTTAAATTCATCA
39801349 T-TAAC
64 TATAAC
* * * * * *
39801354 ATTATTTTAAATTTATCCTG-TATATTTATTTCAAATTTATCATTAATATTTTTAAATTTATTAT
1 ATTATTTTAGATTTATCATGTTTTA-TTATTTCAAATTTATCAATAATATTTTTAAATTCATCAT
*
39801418 ATAAT
65 ATAAC
* *
39801423 ATTATTTTAGATTTATCATGTATGATTATT
1 ATTATTTTAGATTTATCATGTTTTATTATT
39801453 CTAGAATCAT
Statistics
Matches: 80, Mismatches: 16, Indels: 7
0.78 0.16 0.07
Matches are distributed among these distances:
68 12 0.15
69 30 0.38
70 38 0.47
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.56
Consensus pattern (69 bp):
ATTATTTTAGATTTATCATGTTTTATTATTTCAAATTTATCAATAATATTTTTAAATTCATCATA
TAAC
Found at i:39801465 original size:69 final size:68
Alignment explanation
Indices: 39801247--39801498 Score: 208
Period size: 69 Copynumber: 3.6 Consensus size: 68
39801237 ATTATCATTA
* * * * * *
39801247 AATTAATCATTAATATTATCTAAGTTTATTGTATATTATTATTTTAGATTTATCATGTTTTATTA
1 AATTTATCATTAATATT-TTTAAATTTATTATATAATATTATTTTAGATTTATCATG-TATATTA
39801312 TTT-G
64 TTTAG
* * * ** * * *
39801316 TAATTTATCAATATTATTATTTTAAATTCATCGT-TAACATTATTTTAAATTTATCCTGTATATT
1 -AATTTATCATTAATA-T-TTTTAAATTTATTATATAATATTATTTTAGATTTATCATGTATA-T
39801380 TATTTCA-
62 TATTT-AG
39801387 AATTTATCATTAATATTTTTAAATTTATTATATAATATTATTTTAGATTTATCATGTATGATTAT
1 AATTTATCATTAATATTTTTAAATTTATTATATAATATTATTTTAGATTTATCATGTAT-ATTAT
39801452 TCTAG
65 T-TAG
* * * * *
39801457 AA-TCATCATCAAAATTTTTAAATTT-TATATGTATTATTATTT
1 AATTTATCATTAATATTTTTAAATTTAT-TATATAATATTATTT
39801499 CAAATTTAAT
Statistics
Matches: 147, Mismatches: 25, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
68 13 0.09
69 67 0.46
70 55 0.37
71 11 0.07
72 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.54
Consensus pattern (68 bp):
AATTTATCATTAATATTTTTAAATTTATTATATAATATTATTTTAGATTTATCATGTATATTATT
TAG
Found at i:39801901 original size:42 final size:42
Alignment explanation
Indices: 39801850--39802001 Score: 191
Period size: 42 Copynumber: 3.6 Consensus size: 42
39801840 TGAAAAAACG
39801850 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCACAACA
1 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCACAACA
* *
39801892 CCGCTAAAGAACATGACCTTTAGCAGCGCTTTTGTCACAAACG
1 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCAC-AACA
* * * *
39801935 CCGCTAAAGAACATGACCTTTAGTGACGCTTTTATCATAA-A
1 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCACAACA
* *
39801976 CGCTGTTAAAGAACA-AACCTTTAGCG
1 C-C-GCTAAAGAACATGACCTTTAGCG
39802002 ACACTTCTTG
Statistics
Matches: 96, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.01
42 49 0.51
43 46 0.48
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCACAACA
Found at i:39801953 original size:43 final size:43
Alignment explanation
Indices: 39801845--39802000 Score: 210
Period size: 43 Copynumber: 3.7 Consensus size: 43
39801835 TTATGTGAAA
*
39801845 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCAGCGCTTTTGTCAC
*
39801888 -AACACCGCTAAAGAACATGACCTTTAGCAGCGCTTTTGTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCAGCGCTTTTGTCAC
* * *
39801930 AAACGCCGCTAAAGAACATGACCTTTAG-TGACGCTTTTATCAT
1 AAACGCCGCTAAAGAACATGACCTTTAGCAG-CGCTTTTGTCAC
* * *
39801973 AAACGCTGTTAAAGAACA-AACCTTTAGC
1 AAACGCCGCTAAAGAACATGACCTTTAGC
39802001 GACACTTCTT
Statistics
Matches: 101, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
42 49 0.49
43 52 0.51
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCAGCGCTTTTGTCAC
Found at i:39801996 original size:85 final size:85
Alignment explanation
Indices: 39801845--39802000 Score: 226
Period size: 85 Copynumber: 1.8 Consensus size: 85
39801835 TTATGTGAAA
* * *
39801845 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCACAACACCGCTAAAGAACATGACC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCACAACACCGCTAAAGAACATAACC
39801910 TTTAGCAGCGCTTTTGTCAC
66 TTTAGCAGCGCTTTTGTCAC
* * *
39801930 AAACGCCGCTAAAGAACATGACCTTTAGTGACGCTTTTATCATAA-ACGCTGTTAAAGAACA-AA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCACAACAC-C-GCTAAAGAACATAA
39801993 CCTTTAGC
64 CCTTTAGC
39802001 GACACTTCTT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
84 2 0.03
85 51 0.81
86 10 0.16
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (85 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCACAACACCGCTAAAGAACATAACC
TTTAGCAGCGCTTTTGTCAC
Found at i:39802019 original size:85 final size:85
Alignment explanation
Indices: 39801843--39802021 Score: 222
Period size: 85 Copynumber: 2.1 Consensus size: 85
39801833 GTTTATGTGA
* * *
39801843 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCACAACACCGCTAAAGAACATGA
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCACAACACCGCTAAAGAACATAA
*
39801908 CCTTTAGCAGCGCTTTTGTC
66 CCTTTAGCAGCACTTTTGTC
* * * *
39801928 ACAAACGCCGCTAAAGAACATGACCTTTAGTGACGCTTTTATCATAA-ACGCTGTTAAAGAACA-
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCACAACAC-C-GCTAAAGAACAT
39801991 AACCTTTAGC-GACACTTCTTG-C
64 AACCTTTAGCAG-CACTT-TTGTC
39802013 AAAAACGCC
1 AAAAACGCC
39802022 ACAAAAAAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
84 3 0.04
85 65 0.80
86 13 0.16
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (85 bp):
AAAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCACAACACCGCTAAAGAACATAA
CCTTTAGCAGCACTTTTGTC
Found at i:39806805 original size:14 final size:15
Alignment explanation
Indices: 39806786--39806818 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
39806776 CTTAAACTAG
39806786 AATCCCT-ATTCCAT
1 AATCCCTAATTCCAT
39806800 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
39806815 AATC
1 AATC
39806819 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:39807134 original size:41 final size:41
Alignment explanation
Indices: 39807077--39807181 Score: 158
Period size: 41 Copynumber: 2.6 Consensus size: 41
39807067 GTTTTTGCAG
39807077 CGCTTTTTCAAAAACGCCGCTAAAAACCAGAGCATTAGCGA
1 CGCTTTTTCAAAAACGCCGCTAAAAACCAGAGCATTAGCGA
* * * *
39807118 CGCTTCTTT-AAAAACGCCTCTAAAAGCCTGAGCATTAGCGG
1 CGCTT-TTTCAAAAACGCCGCTAAAAACCAGAGCATTAGCGA
39807159 CGCTTTTTCAAAAACGCCGCTAA
1 CGCTTTTTCAAAAACGCCGCTAA
39807182 TGCCCCGAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
40 3 0.05
41 51 0.89
42 3 0.05
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (41 bp):
CGCTTTTTCAAAAACGCCGCTAAAAACCAGAGCATTAGCGA
Found at i:39809105 original size:12 final size:13
Alignment explanation
Indices: 39809088--39809117 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
39809078 CTCATACATG
39809088 AATAAATAAA-GC
1 AATAAATAAATGC
39809100 AATAAATAAATGC
1 AATAAATAAATGC
39809113 AATAA
1 AATAA
39809118 TTATACCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.20
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:39815486 original size:20 final size:20
Alignment explanation
Indices: 39815461--39815499 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
39815451 TACTTTCGTC
39815461 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
39815481 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
39815500 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:39815818 original size:50 final size:49
Alignment explanation
Indices: 39815756--39815891 Score: 164
Period size: 50 Copynumber: 2.8 Consensus size: 49
39815746 TGTACTGCAA
* * * * **
39815756 ATGCCATATCCTAGATATGGTTTTACATGAGAGTTCTCATATCGGTGCCC
1 ATGCCATGTCCTAGACATGGTCTTACGTGAGACCTCTCATATCGGTG-CC
* * *
39815806 ATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCC
1 ATGCCATGTCCTAGACATGGTCTTACGTGAGACCTCTCATATCGGTGCC
* *
39815855 ACGCCATGTCCCAGACATGGTCTTACGTGAGACCTCT
1 ATGCCATGTCCTAGACATGGTCTTACGTGAGACCTCT
39815892 TAGAACCTCA
Statistics
Matches: 73, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
49 35 0.48
50 38 0.52
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.29
Consensus pattern (49 bp):
ATGCCATGTCCTAGACATGGTCTTACGTGAGACCTCTCATATCGGTGCC
Found at i:39815876 original size:49 final size:50
Alignment explanation
Indices: 39815790--39815891 Score: 152
Period size: 49 Copynumber: 2.1 Consensus size: 50
39815780 ACATGAGAGT
* * *
39815790 TCTCATATCGGTGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACC
1 TCTCATATCGGTGCCCACGCCATGTCCCAGACATGGTCTTACGGGAGACC
* *
39815840 TCTCATCTCGGTG-CCACGCCATGTCCCAGACATGGTCTTACGTGAGACC
1 TCTCATATCGGTGCCCACGCCATGTCCCAGACATGGTCTTACGGGAGACC
39815889 TCT
1 TCT
39815892 TAGAACCTCA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 35 0.74
50 12 0.26
ACGTcount: A:0.18, C:0.32, G:0.24, T:0.26
Consensus pattern (50 bp):
TCTCATATCGGTGCCCACGCCATGTCCCAGACATGGTCTTACGGGAGACC
Found at i:39823258 original size:52 final size:50
Alignment explanation
Indices: 39823180--39823302 Score: 122
Period size: 50 Copynumber: 2.4 Consensus size: 50
39823170 ATGAACAAAA
* * *
39823180 GAGTTACTTAATGCAAGACTTAATTTAATAATTCAGACTTAAACTAACATGG
1 GAGTTACATAATGCATGACTTAATTT-ATAATGCAGACTT-AACTAACATGG
* * * *
39823232 GAGTTACATAATGCATGTCATT-ATTTATGATGCATACTTAACTAGCATGG
1 GAGTTACATAATGCATGAC-TTAATTTATAATGCAGACTTAACTAACATGG
* * *
39823282 AAGTTACACAATGCATAACTT
1 GAGTTACATAATGCATGACTT
39823303 TATTAAATGT
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
49 2 0.03
50 25 0.42
51 10 0.17
52 20 0.34
53 2 0.03
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (50 bp):
GAGTTACATAATGCATGACTTAATTTATAATGCAGACTTAACTAACATGG
Found at i:39824848 original size:20 final size:20
Alignment explanation
Indices: 39824823--39824861 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
39824813 TACTTTCTTC
39824823 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
39824843 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
39824862 AAATAACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:39825189 original size:50 final size:50
Alignment explanation
Indices: 39825064--39825305 Score: 171
Period size: 50 Copynumber: 4.7 Consensus size: 50
39825054 GATAATAACA
* * * * ** * * *
39825064 TGCCAAAGTCATGTCCAAGACATGGTCTTACATGGGATGTTTCATGT-AC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCAG
** * * * **
39825113 TGTAAATGCCATATCCTAGATATGGTCTTACATGAGAGTTCTCATATCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCAG
* ** * * *
39825163 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCAG
* * * * *
39825213 TGCCAACGTCATGTCCCAGACATGGTCTTACGTGAGACCTCTTATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCAT-A--TC---AG
*
39825269 TGTCAATGCCATGTCCCAGACATGGTCTTACATGAGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGA
39825306 TCTCATTCCC
Statistics
Matches: 147, Mismatches: 39, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
49 35 0.24
50 77 0.52
53 2 0.01
56 33 0.22
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCAG
Found at i:39834699 original size:50 final size:50
Alignment explanation
Indices: 39834622--39834863 Score: 227
Period size: 50 Copynumber: 4.8 Consensus size: 50
39834612 TATCATTCAA
* * * * *
39834622 TACACGTAGTAGCCTTCACATACTACTACACACGTGATCAATCTTTCTGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAATCTATCCGG
* * * * * * *
39834672 TTCACGTAGTAGCCTGCACATAGTACTATACACGTGGCCATTAATATCTGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAT-CTATCCGG
* * *
39834723 TACACGTAGTA-CCTTGCACATAATACTACACACGTGATCGAAGCTATCCGG
1 TACACGTAGTAGCC-TGCACATAGTACTACACACGTGA-CCAATCTATCCGG
* * * * * **
39834774 TACGCATAGTAGCCTGCACATAGTACTACACATGCGCCCTTTC-ATTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAATCTA-TCCGG
*
39834824 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
39834864 TCACTTTCAC
Statistics
Matches: 150, Mismatches: 37, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
49 1 0.01
50 77 0.51
51 68 0.45
52 4 0.03
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAATCTATCCGG
Found at i:39834828 original size:101 final size:101
Alignment explanation
Indices: 39834621--39834860 Score: 295
Period size: 101 Copynumber: 2.4 Consensus size: 101
39834611 TTATCATTCA
* * * * * *
39834621 ATACACGTAGTAGCCTTCACATACTACTACACACGTGATCAATCTTTCTGGTTCACGTAGTAGCC
1 ATACACGTAGTAGCCTTCACATAATACTACACACGTGATCAAGCTATCCGGTACACATAGTAGCC
* * * *
39834686 TGCACATAGTACTATACACGTGGCCATTAATATCTG
66 TGCACATAGTACTACACACGCGCCCATTAATATCCG
*
39834722 ATACACGTAGTA-CCTTGCACATAATACTACACACGTGATCGAAGCTATCCGGTACGCATAGTAG
1 ATACACGTAGTAGCCTT-CACATAATACTACACACGTGATC-AAGCTATCCGGTACACATAGTAG
* * *
39834786 CCTGCACATAGTACTACACATGCGCCCTTTCAT-TCCG
64 CCTGCACATAGTACTACACACGCGCCCATTAATATCCG
* * *
39834823 GTACACGTAGTAGCCTACACATAGTACTACACACGTGA
1 ATACACGTAGTAGCCTTCACATAATACTACACACGTGA
39834861 CCATCACTTT
Statistics
Matches: 119, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
100 4 0.03
101 68 0.57
102 47 0.39
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (101 bp):
ATACACGTAGTAGCCTTCACATAATACTACACACGTGATCAAGCTATCCGGTACACATAGTAGCC
TGCACATAGTACTACACACGCGCCCATTAATATCCG
Found at i:39842407 original size:37 final size:37
Alignment explanation
Indices: 39842301--39842407 Score: 99
Period size: 37 Copynumber: 2.9 Consensus size: 37
39842291 TTGTCAACTA
*
39842301 AAACACACCATCCTAGGGCGTTTGATACTCTAATGAC
1 AAACACACCATCCTAGGGGGTTTGATACTCTAATGAC
* ** ** *** *
39842338 AAACTCAGTAGACTCAACAGG-TAGATACTCTAATGAC
1 AAACACACCATCCT-AGGGGGTTTGATACTCTAATGAC
*
39842375 AAACACACCATCCTAGGGGGTTTGATAATCTAA
1 AAACACACCATCCTAGGGGGTTTGATACTCTAA
39842408 ATTCTCACAC
Statistics
Matches: 48, Mismatches: 20, Indels: 4
0.67 0.28 0.06
Matches are distributed among these distances:
36 3 0.06
37 43 0.90
38 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (37 bp):
AAACACACCATCCTAGGGGGTTTGATACTCTAATGAC
Found at i:39844267 original size:16 final size:15
Alignment explanation
Indices: 39844242--39844271 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
39844232 GGCGTCTTTT
39844242 GAACCGATTTAGATG
1 GAACCGATTTAGATG
39844257 GAACACGATTTAGAT
1 GAAC-CGATTTAGAT
39844272 TGAAAGCAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (15 bp):
GAACCGATTTAGATG
Found at i:39845682 original size:42 final size:42
Alignment explanation
Indices: 39845628--39845771 Score: 191
Period size: 42 Copynumber: 3.4 Consensus size: 42
39845618 ATAGTCTGAA
**
39845628 TGTTTCACCGGCATTAAGCCTGTTAGACGTAAATTCTGATAT
1 TGTTTCACCGGCATTAAGCCTACTAGACGTAAATTCTGATAT
* *
39845670 TGTTTCATCGGCATTAAGCCTACTAGACGTAAAGTT-TGAAAT
1 TGTTTCACCGGCATTAAGCCTACTAGACGTAAA-TTCTGATAT
* * *
39845712 TATTTCACCGGCATTAAGCCTACTAGACGTAAAGTCAGATAT
1 TGTTTCACCGGCATTAAGCCTACTAGACGTAAATTCTGATAT
* *
39845754 TGTTTCACTGGCAATAAG
1 TGTTTCACCGGCATTAAG
39845772 TCTGCTAGGC
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
41 1 0.01
42 85 0.97
43 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (42 bp):
TGTTTCACCGGCATTAAGCCTACTAGACGTAAATTCTGATAT
Found at i:39852046 original size:40 final size:39
Alignment explanation
Indices: 39852015--39852224 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
39852005 GGACTAAGAT
* *
39852015 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
39852055 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
39852095 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
39852135 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
39852175 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
39852214 CCGAAGGCATT
1 CCGAAGGCATT
39852225 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:39852178 original size:120 final size:120
Alignment explanation
Indices: 39851962--39852224 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
39851952 TTGAATGCTG
* *
39851962 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
39852026 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
39852082 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
39852145 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
39852201 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
39852225 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:39852244 original size:79 final size:80
Alignment explanation
Indices: 39851963--39852259 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
39851953 TGAATGCTGT
* ** * * * **
39851963 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
39852026 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
39852043 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
39852107 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
39852123 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
39852187 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
39852202 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
39852260 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:39859996 original size:40 final size:39
Alignment explanation
Indices: 39859965--39860174 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
39859955 GGACTAAGAT
* *
39859965 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
39860005 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
39860045 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
39860085 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
39860125 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
39860164 CCGAAGGCATT
1 CCGAAGGCATT
39860175 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Done.