Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 99 of 106
Found at i:21012388 original size:2 final size:2
Alignment explanation
Indices: 21012381--21012405 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21012371 AAAGAACTCC
21012381 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
21012406 CTAGCATACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21013935 original size:53 final size:51
Alignment explanation
Indices: 21013878--21014018 Score: 129
Period size: 54 Copynumber: 2.6 Consensus size: 51
21013868 TAATCATTTC
* *
21013878 ACCATTTAGGCCAAATTAAAAATATTTTCTCTTTTTAAATTTCTAAATTTTTT
1 ACCATTT-GGCCAATTTAAAAATATTTTCT-TTTTTAAATCTCTAAATTTTTT
* * * **
21013931 ACCATTTGAGCCTATTTAGAAAATTTTTTTTATTTTTTTATCTCTAAATTTTTT
1 ACCATTTG-GCCAATTTA-AAAATATTTTCT-TTTTTAAATCTCTAAATTTTTT
* * * *
21013985 ACTATTTGGGTCAATTTAGAAATATTATCTTTTT
1 ACCATTT-GGCCAATTTAAAAATATTTTCTTTTT
21014019 ACAAAATTTT
Statistics
Matches: 70, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
52 5 0.07
53 22 0.31
54 42 0.60
55 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.06, T:0.52
Consensus pattern (51 bp):
ACCATTTGGCCAATTTAAAAATATTTTCTTTTTTAAATCTCTAAATTTTTT
Found at i:21014479 original size:21 final size:22
Alignment explanation
Indices: 21014431--21014479 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 22
21014421 TAAATCATGA
21014431 AAAAATAATAATAAATAAACAC
1 AAAAATAATAATAAATAAACAC
*
21014453 ATAAAAT-A-AATAAATAAAATAC
1 A-AAAATAATAATAAAT-AAACAC
21014475 AAAAA
1 AAAAA
21014480 ATACCAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 11 0.46
22 8 0.33
23 5 0.21
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (22 bp):
AAAAATAATAATAAATAAACAC
Found at i:21015610 original size:41 final size:42
Alignment explanation
Indices: 21015565--21015715 Score: 180
Period size: 41 Copynumber: 3.6 Consensus size: 42
21015555 TTCTAAACAG
*
21015565 AGGCACCACAAC-TTTGAAAAATAAATTGCTCCTTTAAATAT
1 AGGCACCACAACTTTTGAAAAATAAATTGCTCCTTTAAATAA
* * * * * *
21015606 AGGCACTATAGCTTTTGGAAAATAAATTGCTTCTCTAAATAA
1 AGGCACCACAACTTTTGAAAAATAAATTGCTCCTTTAAATAA
* *
21015648 AGGCACCACAAC-TTTGAAAAATAAATTGCTCCTTTAAACAG
1 AGGCACCACAACTTTTGAAAAATAAATTGCTCCTTTAAATAA
**
21015689 AGATACCACAACTTTTGAAAAAATAAA
1 AGGCACCACAACTTTTG-AAAAATAAA
21015716 AGGCTCCTCG
Statistics
Matches: 90, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
41 43 0.48
42 38 0.42
43 9 0.10
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.28
Consensus pattern (42 bp):
AGGCACCACAACTTTTGAAAAATAAATTGCTCCTTTAAATAA
Found at i:21015704 original size:83 final size:84
Alignment explanation
Indices: 21015556--21015715 Score: 223
Period size: 83 Copynumber: 1.9 Consensus size: 84
21015546 AAAATGCTCT
* * * * * * *
21015556 TCTAAACAGAGGCACCACAACTTTGAAAAATAAATTGCTCCTTTAAATATAGGCACTATAGCTTT
1 TCTAAACAAAGGCACCACAACTTTGAAAAATAAATTGCTCCTTTAAACAGAGACACCACAACTTT
*
21015621 TG-GAAAATAAATTGCTTC
66 TGAAAAAATAAATTGCTTC
* *
21015639 TCTAAATAAAGGCACCACAACTTTGAAAAATAAATTGCTCCTTTAAACAGAGATACCACAACTTT
1 TCTAAACAAAGGCACCACAACTTTGAAAAATAAATTGCTCCTTTAAACAGAGACACCACAACTTT
21015704 TGAAAAAATAAA
66 TGAAAAAATAAA
21015716 AGGCTCCTCG
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
83 58 0.88
84 8 0.12
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.28
Consensus pattern (84 bp):
TCTAAACAAAGGCACCACAACTTTGAAAAATAAATTGCTCCTTTAAACAGAGACACCACAACTTT
TGAAAAAATAAATTGCTTC
Found at i:21027709 original size:4 final size:4
Alignment explanation
Indices: 21027700--21027739 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
21027690 AAAAATACTA
* *
21027700 AAAT AAAT AAAT AAAT AAAC ACAT AAAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAA
21027740 ATACAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 28 0.90
5 3 0.10
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:21028295 original size:19 final size:17
Alignment explanation
Indices: 21028264--21028298 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
21028254 AAATTTCAAG
21028264 AAAAAAACCAAAAATTA
1 AAAAAAACCAAAAATTA
21028281 AAAAAAATCCTAAAAATT
1 AAAAAAA-CC-AAAAATT
21028299 CTAGAATTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.17
Consensus pattern (17 bp):
AAAAAAACCAAAAATTA
Found at i:21029704 original size:60 final size:59
Alignment explanation
Indices: 21029640--21029815 Score: 176
Period size: 60 Copynumber: 2.9 Consensus size: 59
21029630 CATACTAAAA
*
21029640 AAATAATAAAATAAATGTCCAATCAAATATTCATTACATGCTAAAAATAAATATTCAAT-C
1 AAATAATAAAATAAATGTCCAATCAAATATACATTACATGCTAAAAATAAATATTC--TGC
* * **
21029700 AAATAATAAAATAAATGTCCAATCAAATA-ACAAATAAATAATAAATAATAATACTATTCTGC
1 AAATAATAAAATAAATGTCCAATCAAATATAC-ATTACATGCTAAA-AATAA-A-TATTCTGC
* * * * *
21029762 AAATTATTAAACAAAGGATCCAATCAAATATGCATTACATGCTAAAAATGAAAT
1 AAATAATAAAATAAATG-TCCAATCAAATATACATTACATGCTAAAAAT-AAAT
21029816 GAGATATACA
Statistics
Matches: 94, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
59 1 0.01
60 38 0.40
61 7 0.07
62 19 0.20
63 28 0.30
64 1 0.01
ACGTcount: A:0.55, C:0.12, G:0.05, T:0.28
Consensus pattern (59 bp):
AAATAATAAAATAAATGTCCAATCAAATATACATTACATGCTAAAAATAAATATTCTGC
Found at i:21029710 original size:24 final size:23
Alignment explanation
Indices: 21029682--21029739 Score: 80
Period size: 24 Copynumber: 2.5 Consensus size: 23
21029672 ATTACATGCT
*
21029682 AAAAATAAATATTCAATCAAATA
1 AAAAATAAATATCCAATCAAATA
*
21029705 ATAAAATAAATGTCCAATCAAATA
1 A-AAAATAAATATCCAATCAAATA
*
21029729 ACAAATAAATA
1 AAAAATAAATA
21029740 ATAAATAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 9 0.30
24 21 0.70
ACGTcount: A:0.64, C:0.10, G:0.02, T:0.24
Consensus pattern (23 bp):
AAAAATAAATATCCAATCAAATA
Found at i:21032185 original size:19 final size:19
Alignment explanation
Indices: 21032142--21032185 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
21032132 ACATGATATA
* *
21032142 ATTAACACAATTAGACACG
1 ATTAATACAATTAAACACG
* *
21032161 AATAATACAATTAAACATG
1 ATTAATACAATTAAACACG
21032180 ATTAAT
1 ATTAAT
21032186 TTATTTATTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.27
Consensus pattern (19 bp):
ATTAATACAATTAAACACG
Found at i:21040275 original size:12 final size:13
Alignment explanation
Indices: 21040252--21040280 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
21040242 ATTTTTGGGG
21040252 GAAAAAAGGAAAA
1 GAAAAAAGGAAAA
21040265 GAAAAAA-GAAAA
1 GAAAAAAGGAAAA
21040277 GAAA
1 GAAA
21040281 CAAAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
GAAAAAAGGAAAA
Found at i:21047449 original size:24 final size:23
Alignment explanation
Indices: 21047397--21047462 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
21047387 TTTCATTTTC
* * *
21047397 ATTTTTGATTTTATATTTTATAT
1 ATTTTTAAATTTATATTTAATAT
*
21047420 ATTTTTATATTTATATTTAATGGAT
1 ATTTTTAAATTTATATTTAAT--AT
*
21047445 A-TTTTAAATTTATCTTTA
1 ATTTTTAAATTTATATTTA
21047463 TTTTTATTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
23 17 0.49
24 15 0.43
25 3 0.09
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (23 bp):
ATTTTTAAATTTATATTTAATAT
Found at i:21047601 original size:118 final size:117
Alignment explanation
Indices: 21047372--21047609 Score: 381
Period size: 118 Copynumber: 2.0 Consensus size: 117
21047362 AGAGACGTCA
* *
21047372 ATAAGGTAGAATGTTTTTCATTTTCATTTTTGATTTTATATTTTATATATTTTTATATTTATATT
1 ATAAGGTAGAATGTTTTTCATTTTAATTTTTGATTTTATATTTTATATAGTTTTATATTTATATT
*
21047437 TAATGGATATTTTAAATTTATCTTTATTTTTATTATTATAGGTATTTAATAG
66 TAATAGATATTTTAAATTTATCTTTATTTTTATTATTATAGGTATTTAATAG
*
21047489 ATAAGGTAGAATGTTTTTCATTTTAATTTTTGATTTTTTATATTTTATAT-GTTTTGTATTTATA
1 ATAAGGTAGAATGTTTTTCATTTTAATTTTTGA--TTTTATATTTTATATAGTTTTATATTTATA
* *
21047553 TTTAGTAGATATTTTAAATTTATCTCTT-TTTTTATTATTATAGTTATTTAATAG
64 TTTAATAGATATTTTAAATTTATCT-TTATTTTTATTATTATAGGTATTTAATAG
21047607 ATA
1 ATA
21047610 TGAGTAATCA
Statistics
Matches: 112, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
117 32 0.29
118 63 0.56
119 17 0.15
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.59
Consensus pattern (117 bp):
ATAAGGTAGAATGTTTTTCATTTTAATTTTTGATTTTATATTTTATATAGTTTTATATTTATATT
TAATAGATATTTTAAATTTATCTTTATTTTTATTATTATAGGTATTTAATAG
Found at i:21047777 original size:20 final size:21
Alignment explanation
Indices: 21047735--21047790 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 21
21047725 ATATAAATAT
21047735 ATTAATTCTAATTAATCTAAAAA
1 ATTAATT-T-ATTAATCTAAAAA
21047758 ATT-ATATTATTAAT-TAAAAA
1 ATTAAT-TTATTAATCTAAAAA
21047778 ATTAATTTATTAA
1 ATTAATTTATTAA
21047791 ATAGATATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
20 16 0.52
21 8 0.26
22 3 0.10
23 4 0.13
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTAATTTATTAATCTAAAAA
Found at i:21049058 original size:2 final size:2
Alignment explanation
Indices: 21049007--21049040 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
21048997 TAGTTAAAGG
21049007 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21049041 AATTTATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21049146 original size:27 final size:27
Alignment explanation
Indices: 21049116--21049168 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
21049106 TCATTTGATT
* *
21049116 AATATATAAATATTAATTTTTAAAATA
1 AATATATAAAAAATAATTTTTAAAATA
21049143 AATATATAAAAAATAATTTTTAAAAT
1 AATATATAAAAAATAATTTTTAAAAT
21049169 TTTTTTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
AATATATAAAAAATAATTTTTAAAATA
Found at i:21049287 original size:11 final size:12
Alignment explanation
Indices: 21049263--21049294 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
21049253 AATACATCAA
21049263 ATATA-AATTAT
1 ATATATAATTAT
21049274 ATATATAATT-T
1 ATATATAATTAT
21049285 ATATATAATT
1 ATATATAATT
21049295 CACTAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATATATAATTAT
Found at i:21049314 original size:73 final size:72
Alignment explanation
Indices: 21049229--21049364 Score: 227
Period size: 73 Copynumber: 1.9 Consensus size: 72
21049219 TATTATTAAA
* * *
21049229 AATATATAAAATTTATATATTAATAATACATCAAATATAAATTATATATATAATTTATATATAAT
1 AATATATAAAATTTATACATTAATAATACATCAAATATAAATCATATATAT-ATATATATATAAT
21049294 TCACTAAT
65 TCACTAAT
*
21049302 AATATATAAAATTTATACATTAATAATACATTAAATATAAATCATATATATATATATATATAA
1 AATATATAAAATTTATACATTAATAATACATCAAATATAAATCATATATATATATATATATAA
21049365 ATTTCCAACC
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
72 11 0.19
73 48 0.81
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (72 bp):
AATATATAAAATTTATACATTAATAATACATCAAATATAAATCATATATATATATATATATAATT
CACTAAT
Found at i:21049337 original size:24 final size:24
Alignment explanation
Indices: 21049223--21049337 Score: 65
Period size: 24 Copynumber: 4.8 Consensus size: 24
21049213 AAATAATATT
* * *
21049223 ATTAAAAATATATAAAATTTATAT
1 ATTAATAATACATAAAATTTATAC
* *
21049247 ATTAATAATACATCAAA--TATAA
1 ATTAATAATACATAAAATTTATAC
* * * *
21049269 ATTATATATATA-ATTTATATATAATTC
1 ATTA-ATA-ATACA-TAAAAT-TTATAC
* *
21049296 ACTAATAATATATAAAATTTATAC
1 ATTAATAATACATAAAATTTATAC
*
21049320 ATTAATAATACATTAAAT
1 ATTAATAATACATAAAAT
21049338 ATAAATCATA
Statistics
Matches: 67, Mismatches: 17, Indels: 14
0.68 0.17 0.14
Matches are distributed among these distances:
22 8 0.12
23 4 0.06
24 39 0.58
25 7 0.10
26 4 0.06
27 5 0.07
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (24 bp):
ATTAATAATACATAAAATTTATAC
Found at i:21055401 original size:14 final size:14
Alignment explanation
Indices: 21055384--21055414 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
21055374 TTTTTTTTCT
21055384 AAATATATTTTATA
1 AAATATATTTTATA
*
21055398 AAATATGTTTTATA
1 AAATATATTTTATA
21055412 AAA
1 AAA
21055415 AAGAAAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
AAATATATTTTATA
Found at i:21055609 original size:31 final size:31
Alignment explanation
Indices: 21055521--21055609 Score: 90
Period size: 31 Copynumber: 2.9 Consensus size: 31
21055511 GATTTGATAA
* * *
21055521 TTTTTACATAATATTTTAATACGATATAGAG
1 TTTTTACTTAATTTTTTAAAACGATATAGAG
* * * *
21055552 TTTTTATTTAATTTCTTAAACCGATATA-ATT
1 TTTTTACTTAATTTTTTAAAACGATATAGA-G
*
21055583 TTTTTACTTAATTTTTTAAAATGATAT
1 TTTTTACTTAATTTTTTAAAACGATAT
21055610 GAAATTTTAA
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
30 1 0.02
31 45 0.98
ACGTcount: A:0.35, C:0.07, G:0.06, T:0.53
Consensus pattern (31 bp):
TTTTTACTTAATTTTTTAAAACGATATAGAG
Found at i:21055767 original size:13 final size:13
Alignment explanation
Indices: 21055718--21055768 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
21055708 ATAATAAAAA
21055718 TTAAATA-ATATT
1 TTAAATATATATT
21055730 TTAAATTATAATATT
1 TTAAA-TAT-ATATT
21055745 TTATAA-ATATATT
1 TTA-AATATATATT
*
21055758 TGAAATATATA
1 TTAAATATATA
21055769 AAAATCAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
12 7 0.21
13 14 0.42
14 2 0.06
15 8 0.24
16 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (13 bp):
TTAAATATATATT
Found at i:21067483 original size:2 final size:2
Alignment explanation
Indices: 21067478--21067511 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
21067468 TCTTTTTTTA
*
21067478 AG AG AG AG AG AG AG AG AG AG AG AG AG CG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
21067512 TAAAGAACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21073236 original size:20 final size:20
Alignment explanation
Indices: 21073211--21073249 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
21073201 AAATAAAATT
21073211 TTAAAAAACAAAG-CAAATGA
1 TTAAAAAA-AAAGTCAAATGA
21073231 TTAAAAAAAAAGTCAAATG
1 TTAAAAAAAAAGTCAAATG
21073250 GAGTGGCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.64, C:0.08, G:0.10, T:0.18
Consensus pattern (20 bp):
TTAAAAAAAAAGTCAAATGA
Found at i:21073557 original size:13 final size:13
Alignment explanation
Indices: 21073539--21073563 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21073529 ATTTAACTAA
21073539 TAAAAAAAAAAAT
1 TAAAAAAAAAAAT
21073552 TAAAAAAAAAAA
1 TAAAAAAAAAAA
21073564 GCAAAAGCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
TAAAAAAAAAAAT
Found at i:21073861 original size:27 final size:29
Alignment explanation
Indices: 21073828--21073882 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
21073818 ATCTAATAAA
21073828 AAATAAAA-TAA-AAAAGTTAAAA-AATAT
1 AAATAAAATTAATAAAA-TTAAAATAATAT
21073855 AAATAAAATTAATAAAATTAAAATAATA
1 AAATAAAATTAATAAAATTAAAATAATA
21073883 ATTAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 8 0.32
28 9 0.36
29 8 0.32
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (29 bp):
AAATAAAATTAATAAAATTAAAATAATAT
Found at i:21073868 original size:15 final size:14
Alignment explanation
Indices: 21073822--21073896 Score: 65
Period size: 13 Copynumber: 5.6 Consensus size: 14
21073812 GAACTTATCT
21073822 AATAA-AAAA-TAA
1 AATAATAAAATTAA
21073834 AATAA-AAAAGTTAA
1 AATAATAAAA-TTAA
21073848 AA-AATATAAA-TAA
1 AATAATA-AAATTAA
21073861 AATTAATAAAATTAA
1 AA-TAATAAAATTAA
21073876 AATAAT--AATTAAA
1 AATAATAAAATT-AA
21073889 AATAATAA
1 AATAATAA
21073897 CAAGTAGAGA
Statistics
Matches: 53, Mismatches: 0, Indels: 17
0.76 0.00 0.24
Matches are distributed among these distances:
12 13 0.25
13 15 0.28
14 13 0.25
15 12 0.23
ACGTcount: A:0.73, C:0.00, G:0.01, T:0.25
Consensus pattern (14 bp):
AATAATAAAATTAA
Found at i:21073883 original size:27 final size:27
Alignment explanation
Indices: 21073822--21073901 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 27
21073812 GAACTTATCT
*
21073822 AATAAAAAATAAAATAA-AAAAGTTAA
1 AATAATAAATAAAATAATAAAAGTTAA
*
21073848 AAAATATAAATAAAATTAATAAAA-TTAA
1 AATA-ATAAATAAAA-TAATAAAAGTTAA
*
21073876 AATAATAATTAAAAATAATAACAAGT
1 AATAATAAAT-AAAATAATAA-AAGT
21073902 AGAGAAGGGA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
26 3 0.07
27 20 0.45
28 16 0.36
29 5 0.11
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.25
Consensus pattern (27 bp):
AATAATAAATAAAATAATAAAAGTTAA
Found at i:21075903 original size:31 final size:31
Alignment explanation
Indices: 21075863--21075921 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
21075853 TATCTAGTAA
* *
21075863 TATTTTTA-TTATTTATCTGCTTTTATTTTTT
1 TATTATTATTTATCTATCT-CTTTTATTTTTT
*
21075894 TATTATTATTTATCTATGTCTTTTATTT
1 TATTATTATTTATCTATCTCTTTTATTT
21075922 ATCTAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 16 0.67
32 8 0.33
ACGTcount: A:0.19, C:0.07, G:0.03, T:0.71
Consensus pattern (31 bp):
TATTATTATTTATCTATCTCTTTTATTTTTT
Found at i:21076354 original size:6 final size:6
Alignment explanation
Indices: 21076343--21076431 Score: 76
Period size: 6 Copynumber: 14.5 Consensus size: 6
21076333 TTTAATATTC
* *
21076343 TTTTAT TTTTAT CTTTA- TTTTAT TTTTAT TTTTAT TTTACTTT TCTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT--TAT T-TTTAT
* *
21076393 TTTTAT TTTCAC TTTTA- TTTTA- TTTTATT ATTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T -TTTTAT TTT
21076432 CTTTAAATAA
Statistics
Matches: 69, Mismatches: 7, Indels: 14
0.77 0.08 0.16
Matches are distributed among these distances:
5 14 0.20
6 41 0.59
7 4 0.06
8 8 0.12
9 2 0.03
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:21076363 original size:17 final size:17
Alignment explanation
Indices: 21076343--21076431 Score: 87
Period size: 17 Copynumber: 5.2 Consensus size: 17
21076333 TTTAATATTC
21076343 TTTTATTTTTATCTTTA
1 TTTTATTTTTATCTTTA
*
21076360 TTTTATTTTTATTTTTA
1 TTTTATTTTTATCTTTA
*
21076377 TTTTA-CTTT-TCTTTA
1 TTTTATTTTTATCTTTA
*
21076392 TTTTTATTTTCA-CTTTTA
1 -TTTTATTTTTATC-TTTA
21076410 TTTTATTTTATTAT-TTTA
1 TTTTA-TTT-TTATCTTTA
21076428 TTTT
1 TTTT
21076432 CTTTAAATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
15 5 0.08
16 8 0.14
17 29 0.49
18 15 0.25
19 2 0.03
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTATTTTTATCTTTA
Found at i:21076364 original size:5 final size:5
Alignment explanation
Indices: 21076343--21076431 Score: 76
Period size: 5 Copynumber: 16.8 Consensus size: 5
21076333 TTTAATATTC
*
21076343 TTTTA TTTTTA TCTTTA TTTTA TTTTTA TTTTTA TTTTA CTTTT- CTTTA
1 TTTTA -TTTTA T-TTTA TTTTA -TTTTA -TTTTA TTTTA -TTTTA TTTTA
21076392 TTTTTA TTTTCA CTTTTA TTTTA TTTTA --TTA TTTTA TTTT
1 -TTTTA TTTT-A -TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
21076432 CTTTAAATAA
Statistics
Matches: 72, Mismatches: 2, Indels: 19
0.77 0.02 0.20
Matches are distributed among these distances:
3 3 0.04
4 3 0.04
5 31 0.43
6 31 0.43
7 4 0.06
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:21076673 original size:60 final size:58
Alignment explanation
Indices: 21076452--21076849 Score: 466
Period size: 60 Copynumber: 6.7 Consensus size: 58
21076442 AATCCAAAAA
* * * *
21076452 AAAAAATA-TTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCC
1 AAAAAATATTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAA-ATTTTC
*
21076510 AAAAAATATTTTTATGA--AAAAGTTGAAAGTATTAA-TTTTCTTTAAAAATAAATTTTC
1 AAAAAATATTTTT-TGAGGAAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAATTTTC
* *
21076567 AAAAAAGGTTTTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAA-----TATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
*
21076630 AAAAAAGGTATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTC
1 AAAAAA--TATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* ** *
21076690 AAAAAAAAGGTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* * * *
21076748 AAAAAAAATTTTTTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTCAAAATTAAAGTTTTC
1 --AAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTC
*
21076809 AGAAAAATA-TTTTTGAAGAAAAGTTGAAAGTATCAATTTTT
1 A-AAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTT
21076850 TCTGCACAAA
Statistics
Matches: 295, Mismatches: 29, Indels: 31
0.83 0.08 0.09
Matches are distributed among these distances:
57 14 0.05
58 81 0.27
59 35 0.12
60 108 0.37
61 7 0.02
62 6 0.02
63 39 0.13
64 5 0.02
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (58 bp):
AAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
Found at i:21076752 original size:118 final size:116
Alignment explanation
Indices: 21076461--21076849 Score: 441
Period size: 118 Copynumber: 3.3 Consensus size: 116
21076451 AAAAAAATAT
* * * *
21076461 TTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCCAAAAAATATTTTTAT
1 TTTTGAGGAAAAA-TTGAAAGTATCAATTTTTCTTAAAAATAA-ATTTTCAAAAAATATTTTT-T
*
21076525 GA--AAAAGTTGAAAGTATTAA-TTTTCTTTAAAAATAAATTTTC--AAAAAAGG
63 GAGGAAAAGTTGAAAGTATTAATTTTTC-TTAAAAATAAAGTTTCAAAAAAAAGG
* *
21076575 TTTTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGTA
1 -------TTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAA--TA
*
21076640 TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTCAAAAAAAAGG
57 TTTTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTTAAAAATAAAGTTTCAAAAAAAAGG
*
21076700 TTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAATTTTTTTTG
1 TTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC--AAAAAATATTTTTTG
* * * *
21076765 AGGAAAAGTTGAAAGTATTAATTTTTCTCAAAATTAAAGTTTTCAGAAAAATA-T
64 AGGAAAAGTTGAAAGTATTAATTTTTCTTAAAAATAAAG-TTTCA-AAAAAAAGG
* *
21076819 TTTTGAAGAAAAGTTGAAAGTATCAATTTTT
1 TTTTGAGGAAAAATTGAAAGTATCAATTTTT
21076850 TCTGCACAAA
Statistics
Matches: 238, Mismatches: 18, Indels: 26
0.84 0.06 0.09
Matches are distributed among these distances:
118 90 0.38
119 34 0.14
120 22 0.09
121 34 0.14
122 13 0.05
123 32 0.13
124 5 0.02
125 8 0.03
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.39
Consensus pattern (116 bp):
TTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAATATTTTTTGAG
GAAAAGTTGAAAGTATTAATTTTTCTTAAAAATAAAGTTTCAAAAAAAAGG
Found at i:21082138 original size:11 final size:12
Alignment explanation
Indices: 21082122--21082160 Score: 55
Period size: 11 Copynumber: 3.4 Consensus size: 12
21082112 TGTAATGATG
21082122 TAATATAAAA-A
1 TAATATAAAATA
21082133 TAATATAAAATA
1 TAATATAAAATA
*
21082145 TAAAATAAAATA
1 TAATATAAAATA
21082157 -AATA
1 TAATA
21082161 ATTTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 13 0.52
12 12 0.48
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TAATATAAAATA
Found at i:21082151 original size:17 final size:18
Alignment explanation
Indices: 21082123--21082158 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
21082113 GTAATGATGT
*
21082123 AATATAAAAATAATATAA
1 AATATAAAAATAAAATAA
21082141 AATAT-AAAATAAAATAA
1 AATATAAAAATAAAATAA
21082158 A
1 A
21082159 TAATTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (18 bp):
AATATAAAAATAAAATAA
Found at i:21085531 original size:16 final size:15
Alignment explanation
Indices: 21085487--21085535 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
21085477 CTTAAAGCCT
21085487 ATTTATATAAAGGTAAA
1 ATTTATATAAA--TAAA
21085504 ATATTATA-AAATAAA
1 AT-TTATATAAATAAA
21085519 ATTTATAATAAATAAA
1 ATTTAT-ATAAATAAA
21085535 A
1 A
21085536 ATAATGACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.14
15 7 0.24
16 8 0.28
17 5 0.17
18 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (15 bp):
ATTTATATAAATAAA
Found at i:21085649 original size:41 final size:43
Alignment explanation
Indices: 21085578--21085677 Score: 114
Period size: 41 Copynumber: 2.3 Consensus size: 43
21085568 ATTAATATAT
* * * * *
21085578 AATATTCTCTAAATTAATATCCATTCAATTTAGAATATTATTGA
1 AATATTAT-TAAAATAATATCCATTCAATTTAAAATATTACTAA
* *
21085622 AATATTGTTAGAATAATAT-CA-TCAATTTAAAATATTACTAA
1 AATATTATTAAAATAATATCCATTCAATTTAAAATATTACTAA
21085663 AATATTATTAAAATA
1 AATATTATTAAAATA
21085678 TCATTGATAG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 30 0.62
42 2 0.04
43 9 0.19
44 7 0.15
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (43 bp):
AATATTATTAAAATAATATCCATTCAATTTAAAATATTACTAA
Found at i:21085665 original size:11 final size:11
Alignment explanation
Indices: 21085649--21085678 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
21085639 ATCATCAATT
21085649 TAAAATATTAC
1 TAAAATATTAC
*
21085660 TAAAATATTAT
1 TAAAATATTAC
21085671 TAAAATAT
1 TAAAATAT
21085679 CATTGATAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (11 bp):
TAAAATATTAC
Found at i:21086662 original size:23 final size:22
Alignment explanation
Indices: 21086602--21086667 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 22
21086592 ATTAAAAAAT
21086602 ATATTATTTATAATTATAATCTA
1 ATATTATTTA-AATTATAATCTA
* *
21086625 ATTAATTAATT-AATTATAATTTA
1 A-T-ATTATTTAAATTATAATCTA
21086648 ATATTATGTTAAATTTATAA
1 ATATTAT-TTAAA-TTATAA
21086668 AAAAAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
21 4 0.11
22 3 0.09
23 15 0.43
24 7 0.20
25 6 0.17
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
ATATTATTTAAATTATAATCTA
Found at i:21087057 original size:16 final size:16
Alignment explanation
Indices: 21087036--21087073 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
21087026 TTTTATAAGT
21087036 TTGATTTAATTATAT-A
1 TTGATTTAATTAT-TGA
*
21087052 TTGATTTATTTATTGA
1 TTGATTTAATTATTGA
21087068 TTGATT
1 TTGATT
21087074 CATCTATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 1 0.05
16 19 0.95
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.61
Consensus pattern (16 bp):
TTGATTTAATTATTGA
Found at i:21087706 original size:117 final size:117
Alignment explanation
Indices: 21087500--21087826 Score: 503
Period size: 117 Copynumber: 2.8 Consensus size: 117
21087490 TTACTAACTG
* * * *
21087500 ATTTGGGCGCATCTAGTTCTGGGCGTAGTCCCTTCCGACAGATCAACCTCAGGCAGGTGGGCAAC
1 ATTTGGGCGCATCCAGTTCTGGGCGTAGTCCCTTCCGACGGATCGACCTCAGGCAGGTGGGCGAC
* *
21087565 TGGTTGGAACCAGATTCGGGCGCATCCAGACTGGGGGTCTTGTTGGAACCAA
66 TAGTTGGAACCAGATTCGGGCGCATCCAGACTGAGGGTCTTGTTGGAACCAA
*
21087617 ATTTGGGCGCATCCAGTTCTGGGCGTAGTCCCTTCCGATGGATCGACCTCAGGCAGGTGGGCGAC
1 ATTTGGGCGCATCCAGTTCTGGGCGTAGTCCCTTCCGACGGATCGACCTCAGGCAGGTGGGCGAC
* * *
21087682 TAGTTGAAACCAGATTCGGGCGCATCTAGACTGAGGGTCTTGTTGGAACCAG
66 TAGTTGGAACCAGATTCGGGCGCATCCAGACTGAGGGTCTTGTTGGAACCAA
* * * *
21087734 ATTTGAGCGCATCCAGTTTTGGGCGTAGTCCCTTCCGACGGATCGACCTCAGGCAGGTGGGTGAA
1 ATTTGGGCGCATCCAGTTCTGGGCGTAGTCCCTTCCGACGGATCGACCTCAGGCAGGTGGGCGAC
* *
21087799 TAGTTGGAA-CTGATTAGGGCGCATCCAG
66 TAGTTGGAACCAGATTCGGGCGCATCCAG
21087827 TTCTGGGCGT
Statistics
Matches: 191, Mismatches: 19, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
116 16 0.08
117 175 0.92
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (117 bp):
ATTTGGGCGCATCCAGTTCTGGGCGTAGTCCCTTCCGACGGATCGACCTCAGGCAGGTGGGCGAC
TAGTTGGAACCAGATTCGGGCGCATCCAGACTGAGGGTCTTGTTGGAACCAA
Found at i:21092017 original size:16 final size:13
Alignment explanation
Indices: 21091992--21092039 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 13
21091982 AATATTATCT
21091992 TTTTTAATTAATTCA
1 TTTTTAATT-ATT-A
21092007 TTTTTATATTATTA
1 TTTTTA-ATTATTA
21092021 TTTTTAAATATATTA
1 TTTTT-AAT-TATTA
21092036 TTTT
1 TTTT
21092040 ATGAGATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 8 0.27
15 19 0.63
16 3 0.10
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTTAATTATTA
Found at i:21092038 original size:29 final size:29
Alignment explanation
Indices: 21091983--21092039 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
21091973 TTGGTAAATA
*
21091983 ATATTATCTTTTTTAATTAATTCATTTTT
1 ATATTATCTTTTTTAAATAATTCATTTTT
21092012 ATATTAT-TATTTTTAAATATATT-ATTTT
1 ATATTATCT-TTTTTAAATA-ATTCATTTT
21092040 ATGAGATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 1 0.04
29 21 0.84
30 3 0.12
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.65
Consensus pattern (29 bp):
ATATTATCTTTTTTAAATAATTCATTTTT
Found at i:21092402 original size:61 final size:61
Alignment explanation
Indices: 21092294--21092409 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 61
21092284 TGAATTTTAG
* *
21092294 TTTACTAAGTTTTATATATTTCATAATTCCATCATCTATGGTAAGAATTTGTGAGTTTGAA
1 TTTACTAAGTTTTATATATTTCATAATTCCATCATCTATGATAAGAATTTATGAGTTTGAA
* * * * * *
21092355 TTTACTATA-TTTTATGTATTTTATAATTCTATTATTTATGATGAGAATTTATGAG
1 TTTACTA-AGTTTTATATATTTCATAATTCCATCATCTATGATAAGAATTTATGAG
21092410 ATTTTTATTA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
61 45 0.98
62 1 0.02
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (61 bp):
TTTACTAAGTTTTATATATTTCATAATTCCATCATCTATGATAAGAATTTATGAGTTTGAA
Found at i:21094538 original size:25 final size:22
Alignment explanation
Indices: 21094505--21094587 Score: 71
Period size: 25 Copynumber: 3.6 Consensus size: 22
21094495 AGACGTTTAT
21094505 ATAA-ATAATTTTCTTAAATAACA
1 ATAAGATAATTTT-TT-AATAACA
*
21094528 CATAAGATAATTTTTTAA-AATA
1 -ATAAGATAATTTTTTAATAACA
*
21094550 ATAAGATAATTTATTTTAATTACAA
1 ATAAGATAA-TT-TTTTAATAAC-A
*
21094575 ATTAGATAATTTT
1 ATAAGATAATTTT
21094588 AAATTTATTC
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
21 9 0.18
22 5 0.10
23 10 0.20
24 9 0.18
25 17 0.34
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (22 bp):
ATAAGATAATTTTTTAATAACA
Found at i:21096590 original size:23 final size:22
Alignment explanation
Indices: 21096564--21096614 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
21096554 AAAAAACTAT
*
21096564 AAAAAATAATGTTAAAATATAAA
1 AAAAAAAAAT-TTAAAATATAAA
* *
21096587 AAAATAAAAATTTTAAATATTAA
1 AAAA-AAAAATTTAAAATATAAA
21096610 AAAAA
1 AAAAA
21096615 TAGATCATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 1 0.04
23 18 0.75
24 5 0.21
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (22 bp):
AAAAAAAAATTTAAAATATAAA
Found at i:21105451 original size:2 final size:2
Alignment explanation
Indices: 21105444--21105473 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21105434 ATAGATTTGC
21105444 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21105474 TGAAATTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21109362 original size:19 final size:19
Alignment explanation
Indices: 21109334--21109383 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
21109324 ATTATTTTTT
*
21109334 AATTTAATTTTAAGTTTAA
1 AATTTTATTTTAAGTTTAA
*
21109353 TATTTTA-TTT-AGTTTAA
1 AATTTTATTTTAAGTTTAA
21109370 AATTATTTATTTTA
1 AA-T-TTTATTTTA
21109384 TTAATTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
17 8 0.33
18 4 0.17
19 9 0.38
20 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
AATTTTATTTTAAGTTTAA
Found at i:21110268 original size:17 final size:16
Alignment explanation
Indices: 21110228--21110275 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
21110218 AATTGTGATG
*
21110228 ATTTTATAATTTATTA
1 ATTTTATATTTTATTA
*
21110244 A-ATTATATTTTATTGA
1 ATTTTATATTTTATT-A
*
21110260 ATTTTATATGTTATTA
1 ATTTTATATTTTATTA
21110276 GACTATGTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 11 0.42
16 4 0.15
17 11 0.42
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (16 bp):
ATTTTATATTTTATTA
Found at i:21111966 original size:24 final size:24
Alignment explanation
Indices: 21111937--21111990 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
21111927 ATTTATTATA
*
21111937 AATTTTTT-AATCGTAATTATAAT
1 AATTTTTTAAATCATAATTATAAT
* *
21111960 ATTTTTTTAAATTATAATTATAAT
1 AATTTTTTAAATCATAATTATAAT
21111984 AATTTTT
1 AATTTTT
21111991 ATCATTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
AATTTTTTAAATCATAATTATAAT
Found at i:21112556 original size:282 final size:282
Alignment explanation
Indices: 21112052--21112897 Score: 1561
Period size: 282 Copynumber: 3.0 Consensus size: 282
21112042 CCCTCACTCT
* *
21112052 AATCCATCTTAGTAAGTCCTTATGGACTTGACACAATTTTTATATTAATATTTTTAGATATATTT
1 AATCCATCTTAATAAGTCCTAATGGACTTGACACAATTTTTATATTAATATTTTTAGATATATTT
21112117 TAATATTAAATTTGATTAAAAATTAAAATGTTCTTAATAAAATGATAATATGAACATTTTTTGTG
66 TAATATTAAATTTGATTAAAAATTAAAATGTTCTTAATAAAATGATAATATGAACATTTTTTGTG
*
21112182 GTGTCATTTGCTTTATTTTCTTTTTTCAAAATAAAAATATGAAAAGTACCATAGCAAATTTAGTC
131 GTGTCATTTGCTTTATTTTCTTTTTTCAAAATCAAAATATGAAAAGTACCATAGCAAATTTAGTC
21112247 ATTTGCATCAGTAAAACTTTTCATTAAATATTAAAATTTCTTTAATTTTATCCAAAAATCAATAA
196 ATTTGCATCAGTAAAACTTTTCATTAAATATTAAAATTTCTTTAATTTTATCCAAAAATCAATAA
21112312 AATTGAAAGTTTAATGGCAAAA
261 AATTGAAAGTTTAATGGCAAAA
21112334 AATCCATCTTAATAAGTCCTAATGGACTTGACACAATTTTTATATTAATATTTTTAGATATATTT
1 AATCCATCTTAATAAGTCCTAATGGACTTGACACAATTTTTATATTAATATTTTTAGATATATTT
*
21112399 TAATATTAAATTTGATTAAAAATTAAAATGTTCTTAATAAAATGATAATATGAACATTTTTTGTA
66 TAATATTAAATTTGATTAAAAATTAAAATGTTCTTAATAAAATGATAATATGAACATTTTTTGTG
*
21112464 GTGTCATTTGCTTTGTTTTCTTTTTTCAAAATCAAAATATGAAAAGTACCATAGCAAATTTAGTC
131 GTGTCATTTGCTTTATTTTCTTTTTTCAAAATCAAAATATGAAAAGTACCATAGCAAATTTAGTC
*
21112529 ATTTGCATCAATAAAACTTTTCATTAAATATTAAAATTTCTTTAATTTTATCCAAAAATCAATAA
196 ATTTGCATCAGTAAAACTTTTCATTAAATATTAAAATTTCTTTAATTTTATCCAAAAATCAATAA
21112594 AATTGAAAGTTTAATGGCAAAA
261 AATTGAAAGTTTAATGGCAAAA
* *
21112616 AATCCATCTTAATAAGTCCTAATGGACTTGGCACTATTTTTATATTAATATTTTTAGATATATTT
1 AATCCATCTTAATAAGTCCTAATGGACTTGACACAATTTTTATATTAATATTTTTAGATATATTT
* *
21112681 TTAGATTAAATTTGATTAAAAATTAAAAAT-TTCTTAATAAAATGATAATATGAACATTTTTTGT
66 TAATATTAAATTTGATTAAAAATT-AAAATGTTCTTAATAAAATGATAATATGAACATTTTTTGT
*
21112745 GGTGTCATTTGCTTTATTTTCTTTTTTCAAAATCAAAATATGAAAAGTACTATAGCAAATTTAGT
130 GGTGTCATTTGCTTTATTTTCTTTTTTCAAAATCAAAATATGAAAAGTACCATAGCAAATTTAGT
*
21112810 CATTTGCATCAGTAAAACTTTTCATTAAACATTAAAATTT-TTTAATTTTATCCAAAAATCAATA
195 CATTTGCATCAGTAAAACTTTTCATTAAATATTAAAATTTCTTTAATTTTATCCAAAAATCAATA
21112874 AAATTGAAAGTTTAATGGCAAAA
260 AAATTGAAAGTTTAATGGCAAAA
21112897 A
1 A
21112898 TAATTCAGTA
Statistics
Matches: 548, Mismatches: 15, Indels: 3
0.97 0.03 0.01
Matches are distributed among these distances:
281 48 0.09
282 495 0.90
283 5 0.01
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.42
Consensus pattern (282 bp):
AATCCATCTTAATAAGTCCTAATGGACTTGACACAATTTTTATATTAATATTTTTAGATATATTT
TAATATTAAATTTGATTAAAAATTAAAATGTTCTTAATAAAATGATAATATGAACATTTTTTGTG
GTGTCATTTGCTTTATTTTCTTTTTTCAAAATCAAAATATGAAAAGTACCATAGCAAATTTAGTC
ATTTGCATCAGTAAAACTTTTCATTAAATATTAAAATTTCTTTAATTTTATCCAAAAATCAATAA
AATTGAAAGTTTAATGGCAAAA
Found at i:21112669 original size:14 final size:14
Alignment explanation
Indices: 21112650--21112693 Score: 58
Period size: 12 Copynumber: 3.4 Consensus size: 14
21112640 GACTTGGCAC
*
21112650 TATTTTTATATTAA
1 TATTTTTAGATTAA
21112664 TATTTTTAGA-T-A
1 TATTTTTAGATTAA
21112676 TATTTTTAGATTAA
1 TATTTTTAGATTAA
21112690 -ATTT
1 TATTT
21112694 GATTAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 11 0.41
13 6 0.22
14 10 0.37
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (14 bp):
TATTTTTAGATTAA
Found at i:21116975 original size:52 final size:52
Alignment explanation
Indices: 21116918--21117022 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
21116908 AAATTCTAAT
*
21116918 AACTTCAAATATAAAAATATCCTAATATTAATAAAAATAATTTTCCCAAGCA
1 AACTTCAAATATAAAAATATACTAATATTAATAAAAATAATTTTCCCAAGCA
* * *
21116970 AACTTCAAGTATAAAAATGTACTAATATTAATGAAAATAATTTTCCCAAGCA
1 AACTTCAAATATAAAAATATACTAATATTAATAAAAATAATTTTCCCAAGCA
21117022 A
1 A
21117023 GTGGCTGGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.30
Consensus pattern (52 bp):
AACTTCAAATATAAAAATATACTAATATTAATAAAAATAATTTTCCCAAGCA
Found at i:21123304 original size:52 final size:51
Alignment explanation
Indices: 21123206--21123361 Score: 143
Period size: 52 Copynumber: 3.0 Consensus size: 51
21123196 TATAACGATA
* * * * * * *
21123206 CAAACTTGCCCATTAAGAATCATTTTCCTCTTAGAATCCTTTTCTTGTAAGT
1 CAAACTTGACTATTAAGAATCACTTT-CTCTTAAAATTCTTCTCTTGCAAGT
* * * * *
21123258 CAAACTTGTCTATTAAGAATCCCTTTCTTTTTATAATTCTTCTCTTGCAAAT
1 CAAACTTGACTATTAAGAATCACTTTC-TCTTAAAATTCTTCTCTTGCAAGT
* *
21123310 CAAACTT-ACTTATTAAGAATTCTCTTTCTCTTAAAATTCTTCTTTTGCAAGT
1 CAAACTTGAC-TATTAAGAA-TCACTTTCTCTTAAAATTCTTCTCTTGCAAGT
21123362 TTTTTTGTCC
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
51 2 0.02
52 76 0.89
53 7 0.08
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (51 bp):
CAAACTTGACTATTAAGAATCACTTTCTCTTAAAATTCTTCTCTTGCAAGT
Found at i:21123407 original size:22 final size:22
Alignment explanation
Indices: 21123379--21123447 Score: 102
Period size: 22 Copynumber: 3.1 Consensus size: 22
21123369 TCCATTCAGC
*
21123379 AATATCTAATAAATCTCAAACA
1 AATATCTAACAAATCTCAAACA
*
21123401 AATATCTAACAAATCTCAAATA
1 AATATCTAACAAATCTCAAACA
* *
21123423 AATCTCTAACAAATCTCTAACA
1 AATATCTAACAAATCTCAAACA
21123445 AAT
1 AAT
21123448 CCCAAATAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.28
Consensus pattern (22 bp):
AATATCTAACAAATCTCAAACA
Found at i:21123411 original size:11 final size:11
Alignment explanation
Indices: 21123383--21123462 Score: 88
Period size: 11 Copynumber: 7.3 Consensus size: 11
21123373 TTCAGCAATA
*
21123383 TCTAATAAATC
1 TCTAACAAATC
* *
21123394 TCAAACAAATA
1 TCTAACAAATC
21123405 TCTAACAAATC
1 TCTAACAAATC
* *
21123416 TCAAATAAATC
1 TCTAACAAATC
21123427 TCTAACAAATC
1 TCTAACAAATC
21123438 TCTAACAAATC
1 TCTAACAAATC
* * *
21123449 CCAAATAAATC
1 TCTAACAAATC
21123460 TCT
1 TCT
21123463 TATGAGATTT
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 55 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.28
Consensus pattern (11 bp):
TCTAACAAATC
Found at i:21123462 original size:33 final size:33
Alignment explanation
Indices: 21123386--21123462 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 33
21123376 AGCAATATCT
* *
21123386 AATAAATCTCAAACAAATATCTAACAAATCTCA
1 AATAAATCTCTAACAAATATCTAACAAATCCCA
*
21123419 AATAAATCTCTAACAAATCTCTAACAAATCCCA
1 AATAAATCTCTAACAAATATCTAACAAATCCCA
21123452 AATAAATCTCT
1 AATAAATCTCT
21123463 TATGAGATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (33 bp):
AATAAATCTCTAACAAATATCTAACAAATCCCA
Found at i:21124058 original size:67 final size:66
Alignment explanation
Indices: 21123889--21124091 Score: 193
Period size: 67 Copynumber: 3.1 Consensus size: 66
21123879 TAATTGGTTT
* * * * * * *
21123889 TTTGAGCTTTCATTATCTTTTTGTTTTCTTCA-ATTTAAAAGTAATGTTTATCTATTAATAT-TT
1 TTTG-GCTTTCTTTATCTTTTTATTTTCTTTAGTTTTAAAAATAATATTTAT-TATTAAT-TGTG
*
21123952 TTTC
63 TATC
* *
21123956 TTT-GC-TTCTTTACCTTTTCATTTTCTTT-GATTTTAAAAATAATATTTATTAATTAATTGTGT
1 TTTGGCTTTCTTTATCTTTTTATTTTCTTTAG-TTTTAAAAATAATATTTATT-ATTAATTGTGT
21124018 ATC
64 ATC
* *
21124021 TTTGGCTTTCTTTATCTTTTTATTTTTTTTAGTTTTAAAAATAATATTTATTTATTAAATGTG-A
1 TTTGGCTTTCTTTATCTTTTTATTTTCTTTAGTTTTAAAAATAATATTTA-TTATTAATTGTGTA
21124085 TC
65 TC
*
21124087 ATTGG
1 TTTGG
21124092 TTATGTCTTG
Statistics
Matches: 113, Mismatches: 15, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
64 20 0.18
65 31 0.27
66 9 0.08
67 50 0.44
68 3 0.03
ACGTcount: A:0.25, C:0.09, G:0.08, T:0.58
Consensus pattern (66 bp):
TTTGGCTTTCTTTATCTTTTTATTTTCTTTAGTTTTAAAAATAATATTTATTATTAATTGTGTAT
C
Found at i:21126285 original size:2 final size:2
Alignment explanation
Indices: 21126278--21126304 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21126268 TAATCGAGTT
21126278 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
21126305 CTAATAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21126383 original size:124 final size:124
Alignment explanation
Indices: 21126157--21126386 Score: 329
Period size: 124 Copynumber: 1.9 Consensus size: 124
21126147 AATCCAATAA
* *
21126157 ATATATATATATATATATATATATCTAACATAAAAACTATCTACCTTTTGATTTACTATAAAAGT
1 ATATATATATATATATATATATATCTAACATAAAAACTATCCACCTATTGATTTACTATAAAAGT
* * *
21126222 GTTTATTATATAAATCATCATTCTAACCTATATTTTAATTAAAATCTAATCGAGTTTAT
66 GTTTATTATATAAATCATCACTCTAACATATAGTTTAATTAAAATCTAATCGAGTTTAT
*
21126281 ATATATATATATATATATATATATCT-A-ATAAAGACACTATCCACCTATTGTTTTACTATAAAA
1 ATATATATATATATATATATATATCTAACATAAA-A-ACTATCCACCTATTGATTTACTATAAAA
* * * * *
21126344 GTTTTTATTATATAAATTATTACTCTAATATGTAGTTTAATTA
64 GTGTTTATTATATAAATCATCACTCTAACATATAGTTTAATTA
21126387 TATAAAAGTT
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
122 5 0.05
123 2 0.02
124 86 0.92
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.44
Consensus pattern (124 bp):
ATATATATATATATATATATATATCTAACATAAAAACTATCCACCTATTGATTTACTATAAAAGT
GTTTATTATATAAATCATCACTCTAACATATAGTTTAATTAAAATCTAATCGAGTTTAT
Found at i:21126416 original size:17 final size:17
Alignment explanation
Indices: 21126337--21126409 Score: 55
Period size: 17 Copynumber: 4.4 Consensus size: 17
21126327 ATTGTTTTAC
21126337 TATAAAAGTTTTTATTA
1 TATAAAAGTTTTTATTA
*
21126354 TAT-AAA-TTATTACTCTA
1 TATAAAAGTTTTTA-T-TA
** *
21126371 -ATATGTAG-TTTAATTA
1 TATA-AAAGTTTTTATTA
21126387 TATAAAAGTTTTTATTA
1 TATAAAAGTTTTTATTA
21126404 TATAAA
1 TATAAA
21126410 TTCTTTTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 14
0.65 0.13 0.22
Matches are distributed among these distances:
15 5 0.12
16 10 0.24
17 22 0.54
18 4 0.10
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.49
Consensus pattern (17 bp):
TATAAAAGTTTTTATTA
Found at i:21127828 original size:21 final size:21
Alignment explanation
Indices: 21127794--21127851 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
21127784 GTATTTATAA
*
21127794 GATTCTCATCCAAAGTT-CAAG
1 GATTCACATCCAAA-TTGCAAG
*
21127815 GATTCACATGCAAATTGCAAG
1 GATTCACATCCAAATTGCAAG
21127836 G-TTCACATCCATAATT
1 GATTCACATCCA-AATT
21127852 CAAAATTTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 11 0.34
21 21 0.66
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.29
Consensus pattern (21 bp):
GATTCACATCCAAATTGCAAG
Found at i:21128023 original size:21 final size:21
Alignment explanation
Indices: 21127965--21128166 Score: 109
Period size: 21 Copynumber: 8.9 Consensus size: 21
21127955 GAAACTCAAA
*
21127965 ACTCAAAGATTCTCATTTGAAAAT
1 ACTCAAAGATTCTCATTT---AAG
*
21127989 ATCTTAAAGATTCTCATTTAAG
1 A-CTCAAAGATTCTCATTTAAG
*
21128011 ACTCAAAGGTTCTCATTTGAAAATG
1 ACTCAAAGATTCTCATTT---AA-G
* *
21128036 TA-TTAAAGATTCTCTTTTAAG
1 -ACTCAAAGATTCTCATTTAAG
* * * *
21128057 ACTCAAAGGTTTTCGTTTGAAAAT
1 ACTCAAAGATTCTCATTT---AAG
*
21128081 ATCTTAAAGATTCTCATTTAAG
1 A-CTCAAAGATTCTCATTTAAG
*
21128103 ACTCAAAGGTTCTCATTTGAAG
1 ACTCAAAGATTCTCATTT-AAG
* * *
21128125 ATGTCTTAAAGATTTTTATTTAAG
1 A---CTCAAAGATTCTCATTTAAG
*
21128149 ACTCAAAGTTTCTCATTT
1 ACTCAAAGATTCTCATTT
21128167 GAAAATGTCT
Statistics
Matches: 136, Mismatches: 27, Indels: 33
0.69 0.14 0.17
Matches are distributed among these distances:
20 1 0.01
21 56 0.41
22 12 0.09
24 10 0.07
25 56 0.41
26 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.40
Consensus pattern (21 bp):
ACTCAAAGATTCTCATTTAAG
Found at i:21128032 original size:46 final size:46
Alignment explanation
Indices: 21127965--21128390 Score: 439
Period size: 46 Copynumber: 9.0 Consensus size: 46
21127955 GAAACTCAAA
*
21127965 ACTCAAAGATTCTCATTTGAAAATATCTTAAAGATTCTCATTTAAG
1 ACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAG
* * *
21128011 ACTCAAAGGTTCTCATTTGAAAATGTATTAAAGATTCTCTTTTAAG
1 ACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAG
* * * *
21128057 ACTCAAAGGTTTTCGTTTGAAAATATCTTAAAGATTCTCATTTAAG
1 ACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAG
* * * *
21128103 ACTCAAAGGTTCTCATTTGAAGATGTCTTAAAGATTTTTATTTAAG
1 ACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAG
* *
21128149 ACTCAAAGTTTCTCATTTGAAAATGTCTTAAAGCTTCTCATTTAAAAACGTCTTAAAG
1 ACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTC--------A--T-TT-AAG
** *
21128207 ACTCAAAGATTCTCATTTGAAACCGTCTTAAAGATTCTCATTTAAT
1 ACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAG
* * * *
21128253 ATTCAAAGATTTTCATTT-AAAATCATCTTAAAGTTTCTCATTTAAG
1 ACTCAAAGATTCTCATTTGAAAAT-GTCTTAAAGATTCTCATTTAAG
*
21128299 ACTCAAAGATTCTCATTTGAAAATGTCTTAAAAATTCTCATTTGAAG
1 ACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTT-AAG
* * *
21128346 ATTTTTTAAAGATTTTCATTT-AAAA---CTTAAAGATTCTCATTTAAG
1 A---CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAG
21128391 GGCTCACAAT
Statistics
Matches: 321, Mismatches: 41, Indels: 37
0.80 0.10 0.09
Matches are distributed among these distances:
45 6 0.02
46 242 0.75
47 11 0.03
48 1 0.00
49 4 0.01
50 15 0.05
54 1 0.00
56 1 0.00
57 2 0.01
58 38 0.12
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.39
Consensus pattern (46 bp):
ACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAG
Found at i:21128234 original size:33 final size:33
Alignment explanation
Indices: 21128178--21128240 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
21128168 AAAATGTCTT
*
21128178 AAAGCTTCTCATTTAAAAACGTCTTAAAGACTC
1 AAAGATTCTCATTTAAAAACGTCTTAAAGACTC
* *
21128211 AAAGATTCTCATTTGAAACCGTCTTAAAGA
1 AAAGATTCTCATTTAAAAACGTCTTAAAGA
21128241 TTCTCATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (33 bp):
AAAGATTCTCATTTAAAAACGTCTTAAAGACTC
Found at i:21128262 original size:21 final size:21
Alignment explanation
Indices: 21128236--21128389 Score: 85
Period size: 21 Copynumber: 6.8 Consensus size: 21
21128226 AAACCGTCTT
21128236 AAAGATTCTCATTTAATATTC
1 AAAGATTCTCATTTAATATTC
* *
21128257 AAAGATTTTCATTTAAAATCATCTT
1 AAAGATTCTCATTT--AAT-AT-TC
* * *
21128282 AAAGTTTCTCATTTAAGACTC
1 AAAGATTCTCATTTAATATTC
*
21128303 AAAGATTCTCATTTGAAAATGTC
1 AAAGATTCTCATTT-AATAT-TC
* * *
21128326 TTAAAAATTCTCATTTGAAGATTTTTT
1 --AAAGATTCTCATTT--A-A-TATTC
* *
21128353 AAAGATTTTCATTTAAAACTT-
1 AAAGATTCTCATTTAATA-TTC
21128374 AAAGATTCTCATTTAA
1 AAAGATTCTCATTTAA
21128390 GGGCTCACAA
Statistics
Matches: 101, Mismatches: 20, Indels: 24
0.70 0.14 0.17
Matches are distributed among these distances:
21 42 0.42
22 7 0.07
23 8 0.08
24 2 0.02
25 38 0.38
26 1 0.01
27 2 0.02
28 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.42
Consensus pattern (21 bp):
AAAGATTCTCATTTAATATTC
Found at i:21128282 original size:104 final size:104
Alignment explanation
Indices: 21128100--21128297 Score: 276
Period size: 104 Copynumber: 1.9 Consensus size: 104
21128090 ATTCTCATTT
* * * *
21128100 AAGACTCAAAGGTTCTCATTTGAAGATGTCTTAAAGATTTTTATTTAAGACTCAAAGTTTCTCAT
1 AAGACTCAAAGATTCTCATTTGAAGACGTCTTAAAGATTCTCATTTAAGACTCAAAGTTTCTCAT
*
21128165 TTGAAAATGTCTTAAAGCTTCTCATTTAAAAACGTCTTA
66 TTGAAAATATCTTAAAGCTTCTCATTTAAAAACGTCTTA
* *
21128204 AAGACTCAAAGATTCTCATTTGAA-ACCGTCTTAAAGATTCTCATTTAATATTCAAAGATTT-TC
1 AAGACTCAAAGATTCTCATTTGAAGA-CGTCTTAAAGATTCTCATTTAAGACTCAAAG-TTTCTC
*
21128267 ATTT-AAAATCATCTTAAAGTTTCTCATTTAA
64 ATTTGAAAAT-ATCTTAAAGCTTCTCATTTAA
21128298 GACTCAAAGA
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
103 6 0.07
104 74 0.89
105 3 0.04
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (104 bp):
AAGACTCAAAGATTCTCATTTGAAGACGTCTTAAAGATTCTCATTTAAGACTCAAAGTTTCTCAT
TTGAAAATATCTTAAAGCTTCTCATTTAAAAACGTCTTA
Found at i:21128325 original size:150 final size:150
Alignment explanation
Indices: 21128054--21128341 Score: 400
Period size: 150 Copynumber: 1.9 Consensus size: 150
21128044 ATTCTCTTTT
* * * * *
21128054 AAGACTCAAAGGTTTTCGTTTGAAAATATCTTAAAGATTCTCATTTAAGACTCAAAGGTTCTCAT
1 AAGACTCAAAGATTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCAT
* * * * **
21128119 TTGAAGATGTCTTAAAGATTTTTATTTAAGACTCAAAGTTTCTCATTTGAAAATGTCTTAAAGCT
66 TTGAAAATATCTTAAAGATTTTCATTTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAAAT
21128184 TCTCATTTAAAAACGTCTTA
131 TCTCATTTAAAAACGTCTTA
* * * * *
21128204 AAGACTCAAAGATTCTCATTTGAAACCGTCTTAAAGATTCTCATTTAATATTCAAAGATTTTCAT
1 AAGACTCAAAGATTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCAT
21128269 TT-AAAATCATCTTAAAG-TTTCTCATTTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAA
66 TTGAAAAT-ATCTTAAAGATTT-TCATTTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAA
21128332 ATTCTCATTT
129 ATTCTCATTT
21128342 GAAGATTTTT
Statistics
Matches: 120, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
149 7 0.06
150 113 0.94
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (150 bp):
AAGACTCAAAGATTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCAT
TTGAAAATATCTTAAAGATTTTCATTTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAAAT
TCTCATTTAAAAACGTCTTA
Found at i:21128377 original size:196 final size:194
Alignment explanation
Indices: 21128008--21128389 Score: 502
Period size: 196 Copynumber: 1.9 Consensus size: 194
21127998 ATTCTCATTT
* * * * *
21128008 AAGACTCAAAGGTTCTCATTTGAAAATGTATTAAAGATTCTCTTTTAAGACTCAAAGGTTTTCGT
1 AAGACTCAAAGATTCTCATTTGAAAACGTATTAAAGATTCTCATTTAAGACTCAAAGATTTTCAT
* * *
21128073 TTGAAAATATCTTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAGATGTCTTAAAGAT
66 TTGAAAATATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAAAT
* * *
21128138 TTTTATTTAAGACTCAAAGTTTCTCATTTGAAAATGTCTTAAAGCTTCTCATTTAAAAACGTCTT
131 TCTCATTTAAGACTCAAAGTTTCTCATTTGAAAA--TCTTAAAGATTCTCATTTAAAAACGTCTT
21128203 A
194 A
* * * *
21128204 AAGACTCAAAGATTCTCATTTGAAACCGTCTTAAAGATTCTCATTTAATATTCAAAGATTTTCAT
1 AAGACTCAAAGATTCTCATTTGAAAACGTATTAAAGATTCTCATTTAAGACTCAAAGATTTTCAT
*
21128269 TT-AAAATCATCTTAAAGTTTCTCATTTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAAA
66 TTGAAAAT-ATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAAA
* *
21128333 TTCTCATTTGAAGATTTTTTAAAGATTT-TCATTT-AAAA-CTTAAAGATTCTCATTTAA
130 TTCTCATTT-AAGA---CTCAAAG-TTTCTCATTTGAAAATCTTAAAGATTCTCATTTAA
21128390 GGGCTCACAA
Statistics
Matches: 162, Mismatches: 18, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
195 5 0.03
196 135 0.83
197 4 0.02
199 4 0.02
200 11 0.07
201 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (194 bp):
AAGACTCAAAGATTCTCATTTGAAAACGTATTAAAGATTCTCATTTAAGACTCAAAGATTTTCAT
TTGAAAATATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAAAT
TCTCATTTAAGACTCAAAGTTTCTCATTTGAAAATCTTAAAGATTCTCATTTAAAAACGTCTTA
Found at i:21137279 original size:16 final size:17
Alignment explanation
Indices: 21137258--21137295 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
21137248 ATGTTTAAAA
*
21137258 AAAAACAAAAAACAAG-
1 AAAAACAAAAAAAAAGT
21137274 AAAAACAAAAAAAAAGT
1 AAAAACAAAAAAAAAGT
21137291 AAAAA
1 AAAAA
21137296 AAGAAAGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.84, C:0.08, G:0.05, T:0.03
Consensus pattern (17 bp):
AAAAACAAAAAAAAAGT
Found at i:21138791 original size:86 final size:85
Alignment explanation
Indices: 21138682--21138862 Score: 204
Period size: 85 Copynumber: 2.1 Consensus size: 85
21138672 TATATCAATT
* *
21138682 ACATGTGCATTATCAAAAAGATATTTAATCTACATGTTGTA-AAAAATAAAAAAATATTCA-CAT
1 ACATGTGCATCATCAAAAAGATATTTAATCTACATG--CTACAAAAATAAAAAAATATT-AGCAT
* **
21138745 TTGCATCACTTGTATTTACACTA
63 TTACATCACTTACATTTACACTA
* * * * * *
21138768 ACATGTGTATCATGAAAAGGATATTTGATTTGCATGCTACAAAAATAAAAAAATATTAGCATTTA
1 ACATGTGCATCATCAAAAAGATATTTAATCTACATGCTACAAAAATAAAAAAATATTAGCATTTA
* *
21138833 CATCACTTACATTTGCACTT
66 CATCACTTACATTTACACTA
21138853 ACATGTGCAT
1 ACATGTGCAT
21138863 TATGAGAAAG
Statistics
Matches: 79, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
84 3 0.04
85 47 0.59
86 29 0.37
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.34
Consensus pattern (85 bp):
ACATGTGCATCATCAAAAAGATATTTAATCTACATGCTACAAAAATAAAAAAATATTAGCATTTA
CATCACTTACATTTACACTA
Found at i:21138893 original size:85 final size:85
Alignment explanation
Indices: 21138723--21138963 Score: 256
Period size: 85 Copynumber: 2.8 Consensus size: 85
21138713 ACATGTTGTA
* * * *
21138723 AAAAATAAAAAAATATTCACATTTGCATCACTTGTATTTACACTAACATGTGTATCATGA-AAAG
1 AAAAATAAAAAAATATTCACATTTGCATCACTTGCATTTGCACTTACATGTGCATCATGAGAAA-
* *
21138787 GATATTTGATTTGCATGCTAC
65 GATATTTCACTTGCATGCTAC
* * *
21138808 AAAAATAAAAAAATATT-AGCATTTACATCACTTACATTTGCACTTACATGTGCATTATGAGAAA
1 AAAAATAAAAAAATATTCA-CATTTGCATCACTTGCATTTGCACTTACATGTGCATCATGAGAAA
* *
21138872 GACATTTACACTTGCCT-CTAC
65 GATATTT-CACTTGCATGCTAC
** * * * * *
21138893 -ATCATGAAAAAGACATTCACATTTGCATCACTTGCATTTGTATTTGCATGTGCATCATGAGAAA
1 AAAAAT-AAAAAAATATTCACATTTGCATCACTTGCATTTGCACTTACATGTGCATCATGAGAAA
21138957 GATATTT
65 GATATTT
21138964 GCATTTACAT
Statistics
Matches: 129, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
84 4 0.03
85 115 0.89
86 10 0.08
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (85 bp):
AAAAATAAAAAAATATTCACATTTGCATCACTTGCATTTGCACTTACATGTGCATCATGAGAAAG
ATATTTCACTTGCATGCTAC
Found at i:21139047 original size:14 final size:14
Alignment explanation
Indices: 21139028--21139064 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
21139018 AAGACATTTA
*
21139028 CATTTGTATCATGG
1 CATTTGCATCATGG
21139042 CATTTGCATCATGG
1 CATTTGCATCATGG
*
21139056 CATCTGCAT
1 CATTTGCAT
21139065 GATAGAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (14 bp):
CATTTGCATCATGG
Found at i:21139512 original size:23 final size:23
Alignment explanation
Indices: 21139486--21139530 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
21139476 CCAAGCCTCG
*
21139486 ATTACCTAACATTTTAAGCTTAT
1 ATTACCTAACATTTTAAACTTAT
** *
21139509 ATTAGTTGACATTTTAAACTTA
1 ATTACCTAACATTTTAAACTTA
21139531 GTTTAGCTGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (23 bp):
ATTACCTAACATTTTAAACTTAT
Found at i:21139614 original size:23 final size:23
Alignment explanation
Indices: 21139530--21139614 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 23
21139520 TTTTAAACTT
* * *
21139530 AGTTTAGCTGGCACATTAAGCTC
1 AGTTTAGCTAGCACACTAAGCCC
* ** **
21139553 AGTTTAACTAGCACTTTAAATCC
1 AGTTTAGCTAGCACACTAAGCCC
21139576 AGTTTAGCT-GACACACTAAGCCC
1 AGTTTAGCTAG-CACACTAAGCCC
21139599 AGTTTAGCTAGCACAC
1 AGTTTAGCTAGCACAC
21139615 AGATTAAACC
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
22 1 0.02
23 47 0.96
24 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (23 bp):
AGTTTAGCTAGCACACTAAGCCC
Found at i:21139907 original size:126 final size:125
Alignment explanation
Indices: 21139682--21140012 Score: 367
Period size: 126 Copynumber: 2.6 Consensus size: 125
21139672 AGCACCCAAG
* ** * * *
21139682 ATAATTTCTAAGACTTTCGAGCATAATCTGTAAGACCCTTGGATAAAATATTTTAAATTTTTAAA
1 ATAATCTCTAAGACTTTCGAGCATAATCTGTAAGACTTTTGGGTAAAACATTTTAAA-ATTTAAA
* * * *
21139747 GTTTCAATTCCTCTGATATGAAGAGCATTCAAAGATGTCAAGATTGATAAAACCTCTAAAC
65 ATTTCAATACCTCTGATACGAAGAGCATTCAAAGATGTCAAAATTGATAAAACCTCTAAAC
* * *
21139808 ATAATCTCTAAGACTTTCGAGCATAATATGTAAAACTTTTGGGCAAAACATTTTAAAATTTCAAA
1 ATAATCTCTAAGACTTTCGAGCATAATCTGTAAGACTTTTGGGTAAAACATTTTAAAATTT-AAA
* * * * * ****
21139873 ATTTCAATACCTCTGATACGATGAGTATTCAAAGATGTTAAAATTTATAAAACCTTTGGGT
65 ATTTCAATACCTCTGATACGAAGAGCATTCAAAGATGTCAAAATTGATAAAACCTCTAAAC
* * * ***
21139934 ACAATCTGTAAGAC-TTCTGGGCATAATCTGTAAGACTTACAGGTAAAACATTTTAAAATTTAAA
1 ATAATCTCTAAGACTTTC-GAGCATAATCTGTAAGACTTTTGGGTAAAACATTTTAAAATTTAAA
21139998 AGTTTCAATACCTCT
65 A-TTTCAATACCTCT
21140013 AATCTGAGAA
Statistics
Matches: 171, Mismatches: 31, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
125 10 0.06
126 161 0.94
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (125 bp):
ATAATCTCTAAGACTTTCGAGCATAATCTGTAAGACTTTTGGGTAAAACATTTTAAAATTTAAAA
TTTCAATACCTCTGATACGAAGAGCATTCAAAGATGTCAAAATTGATAAAACCTCTAAAC
Found at i:21140032 original size:126 final size:126
Alignment explanation
Indices: 21139688--21140086 Score: 341
Period size: 126 Copynumber: 3.2 Consensus size: 126
21139678 CAAGATAATT
* * * * *
21139688 TCTAAGACTTTCGAGCATAATCTGTAAGACCCTT---GGATAAAATATTTTAAATTTTTAAAGTT
1 TCTAAGACTTTCGAGCATAATATGTAA-A-ACTTACAGG-TAAAACATTTTAAAATTTAAAAGTT
* * * * **** *
21139750 TCAATTCCTCTGATATGA-AGAGCATTCAAAGATGTCAAGATTGATAAAACCTCTAAACATAATC
63 TCAATACCTCTGATCTGAGA-AGCATTCAAAGATGTTAAGATTTATAAAACCTCTGGGTACAATC
*** *
21139814 TCTAAGACTTTCGAGCATAATATGTAAAACTTTTGGGCAAAACATTTTAAAATTTCAAAA-TTTC
1 TCTAAGACTTTCGAGCATAATATGTAAAACTTACAGGTAAAACATTTTAAAATTT-AAAAGTTTC
* * *
21139878 AATACCTCTGATAC-GATG-AGTATTCAAAGATGTTAAAATTTATAAAACCTTTGGGTACAATC
65 AATACCTCTGAT-CTGA-GAAGCATTCAAAGATGTTAAGATTTATAAAACCTCTGGGTACAATC
* * * *
21139940 TGTAAGAC-TTCTGGGCATAATCTGTAAGACTTACAGGTAAAACATTTTAAAATTTAAAAGTTTC
1 TCTAAGACTTTC-GAGCATAATATGTAAAACTTACAGGTAAAACATTTTAAAATTTAAAAGTTTC
* * * * * *
21140004 AATACCTCTAATCTGAGAAGCATCCAAAGAT-TTCGAGATTTGTAAAACCTCTGGGTATAATT
65 AATACCTCTGATCTGAGAAGCATTCAAAGATGTT-AAGATTTATAAAACCTCTGGGTACAATC
* *
21140066 TATAAGACCTTT-AAGCATAAT
1 TCTAAGA-CTTTCGAGCATAAT
21140087 TTTTAAGGTC
Statistics
Matches: 221, Mismatches: 38, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
124 3 0.01
125 12 0.05
126 198 0.90
127 6 0.03
128 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (126 bp):
TCTAAGACTTTCGAGCATAATATGTAAAACTTACAGGTAAAACATTTTAAAATTTAAAAGTTTCA
ATACCTCTGATCTGAGAAGCATTCAAAGATGTTAAGATTTATAAAACCTCTGGGTACAATC
Found at i:21140380 original size:23 final size:23
Alignment explanation
Indices: 21140329--21140381 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
21140319 AGATGTTGAG
*
21140329 ATTTGTAAGACTTTCGGGTATAAT
1 ATTT-TAAGACTTTCGGGTAAAAT
*
21140353 -CTTTAAGATCTTT-GGGTAAAAT
1 ATTTTAAGA-CTTTCGGGTAAAAT
21140375 ATTTTAA
1 ATTTTAA
21140382 ATTTTTAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (23 bp):
ATTTTAAGACTTTCGGGTAAAAT
Found at i:21140569 original size:104 final size:103
Alignment explanation
Indices: 21140262--21140569 Score: 357
Period size: 104 Copynumber: 3.0 Consensus size: 103
21140252 CAAGACAGTC
* * *
21140262 GAGCAAAATATTTTAAAATTTCAAAGTTTCAATGCCTTTGATATGATGAGCATTCAAAGATGTTG
1 GAGCAAAATATTTTAAATTTTTAAAGTTTCAATGCCTCTGATATGATGAGCATTCAAAGATGTTG
* * * * *
21140327 AGATTTGTAAGACTTTCGGGTATAATCTTTAAGATCTTT
66 AGATTTGTAAGACTTTTGGGCATAATC-TTAAAACCTCT
* * * ** * * *
21140366 GGGTAAAATATTTTAAATTTTTAAAGTTTTAACACCTCTAATATGA-GTAGCATCCAAAGATGTC
1 GAGCAAAATATTTTAAATTTTTAAAGTTTCAATGCCTCTGATATGATG-AGCATTCAAAGATGTT
* * *
21140430 GACATTTGTAAGACCTTTGGACATAATCTTCAAAACCTCT
65 GAGATTTGTAAGACTTTTGGGCATAATCTT-AAAACCTCT
* * * *
21140470 GAGCAAAATATTTTAAATTTTTAAAGTTTCAATGTCTCTGATACGATGAGCATTCATAGATTTTG
1 GAGCAAAATATTTTAAATTTTTAAAGTTTCAATGCCTCTGATATGATGAGCATTCAAAGATGTTG
*
21140535 AGATTTATAAGACTTTTGGGCATAATCTCTAAAAC
66 AGATTTGTAAGACTTTTGGGCATAATCT-TAAAAC
21140570 TTGTGGACAT
Statistics
Matches: 165, Mismatches: 35, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
103 3 0.02
104 160 0.97
105 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (103 bp):
GAGCAAAATATTTTAAATTTTTAAAGTTTCAATGCCTCTGATATGATGAGCATTCAAAGATGTTG
AGATTTGTAAGACTTTTGGGCATAATCTTAAAACCTCT
Found at i:21140580 original size:22 final size:22
Alignment explanation
Indices: 21140546--21140588 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
21140536 GATTTATAAG
* *
21140546 ACTTTTGGGCATAATCTCTAAA
1 ACTTGTGGACATAATCTCTAAA
21140568 ACTTGTGGACATAATCTCTAA
1 ACTTGTGGACATAATCTCTAA
21140589 GACCTTCGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (22 bp):
ACTTGTGGACATAATCTCTAAA
Found at i:21140625 original size:22 final size:22
Alignment explanation
Indices: 21140553--21140626 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
21140543 AAGACTTTTG
**
21140553 GGCATAATCTCTAA-AACTTGT
1 GGCATAATCTCTAAGAACTTCA
* *
21140574 GGACATAATCTCTAAGACCTTCG
1 GG-CATAATCTCTAAGAACTTCA
*
21140597 GGTATAATCTCTAAGAACTTCA
1 GGCATAATCTCTAAGAACTTCA
*
21140619 AGCATAAT
1 GGCATAAT
21140627 TTCCAAGACC
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
21 2 0.05
22 35 0.81
23 6 0.14
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (22 bp):
GGCATAATCTCTAAGAACTTCA
Found at i:21140625 original size:44 final size:44
Alignment explanation
Indices: 21140542--21140637 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 44
21140532 TTGAGATTTA
* * ***
21140542 TAAGACTTTTGGGCATAATCTCTAAAACTTGTGGACATAATCTC
1 TAAGACCTTCGGGCATAATCTCTAAAACTTCAAGACATAATCTC
* *
21140586 TAAGACCTTCGGGTATAATCTCTAAGAACTTCAAG-CATAATTTC
1 TAAGACCTTCGGGCATAATCTCTAA-AACTTCAAGACATAATCTC
*
21140630 CAAGACCT
1 TAAGACCT
21140638 CTAGGTAAAG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
44 37 0.86
45 6 0.14
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (44 bp):
TAAGACCTTCGGGCATAATCTCTAAAACTTCAAGACATAATCTC
Found at i:21141028 original size:15 final size:15
Alignment explanation
Indices: 21140955--21141028 Score: 62
Period size: 15 Copynumber: 4.9 Consensus size: 15
21140945 AAAATTTAGG
*
21140955 AAAAACCAAAAAAATT
1 AAAAA-CAAAAAAAAT
*
21140971 GAAAAC--AAAAAAT
1 AAAAACAAAAAAAAT
* **
21140984 AAAAATAAAAAATAGG
1 AAAAACAAAAAA-AAT
21141000 AAAAACAAAAAAAAT
1 AAAAACAAAAAAAAT
*
21141015 TAAAACAAAAAAAA
1 AAAAACAAAAAAAA
21141029 CTTTTGAAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
13 10 0.22
15 19 0.42
16 16 0.36
ACGTcount: A:0.80, C:0.07, G:0.04, T:0.09
Consensus pattern (15 bp):
AAAAACAAAAAAAAT
Found at i:21141718 original size:20 final size:20
Alignment explanation
Indices: 21141681--21141719 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
21141671 GCTCACGGTA
*
21141681 AAAAATTAAAAAATTAAAAG
1 AAAAATTAAAAAACTAAAAG
21141701 AAAAA-TAAAAACACTAAAA
1 AAAAATTAAAAA-ACTAAAA
21141720 AAATACATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.77, C:0.05, G:0.03, T:0.15
Consensus pattern (20 bp):
AAAAATTAAAAAACTAAAAG
Found at i:21141795 original size:7 final size:8
Alignment explanation
Indices: 21141781--21141805 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
21141771 ATAAATCATG
21141781 ATTAAAAA
1 ATTAAAAA
21141789 ATTAAAAA
1 ATTAAAAA
21141797 ATTAAAAA
1 ATTAAAAA
21141805 A
1 A
21141806 ATTATCTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
ATTAAAAA
Found at i:21142441 original size:217 final size:213
Alignment explanation
Indices: 21141921--21142492 Score: 630
Period size: 217 Copynumber: 2.6 Consensus size: 213
21141911 AAAAAAGATG
* * * * ** * *
21141921 AAAAGCCATAAGTCATAAGAAAATCAAAAGACAAAAATATAAACATTGCAAAATTAAAGATTTGA
1 AAAAACCATAAGTCATAAGAAAAT-AAAAAATATAAATATAAATGTTACAAAATTAAAGAGTTGA
* * *
21141986 TCAATACATTTTAAAAAATAATGGTTTTAAAGAAAATGAATACAAAAAAATCAAAAGTCAATAAT
65 TCAATACAATTT-AAAAATAATGGTTTTAAA-AAAATGAATACAAGAAAATCAAAAGTTAATAAT
* * *
21142051 CCAAATAATATAACAAATAGGAATTGGGAAAAAAAGTGTAAAAGAGACATAAAATATCTCATATA
128 -CAAATAATATAACAAATAAGAATTGGAAAAAAAAGTGTAAAAGAGACATAAAACATCTCATATA
*
21142116 ACTCTCACCCCTAAAACAAATA
192 ACTCTCACCCATAAAACAAATA
* ** * *
21142138 AAAAACCATAAATCATAAGAAAATTTAAAGTATAAAGTATAAATGTTACAAAATCAAA-AGTTTG
1 AAAAACCATAAGTCATAAGAAAATAAAAAATATAAA-TATAAATGTTACAAAATTAAAGAG-TTG
21142202 ATCAATA-AATTTTAACAAATAATGGTTTTAAATAAAATGAATACAAGAAAATCAAAAGTTAATA
64 ATCAATACAA-TTTAA-AAATAATGGTTTTAAA-AAAATGAATACAAGAAAATCAAAAGTTAATA
* * *
21142266 ATCAAAGTAATATGACAAATAATAATTGGAAGAAAAAAGTGTAGTAA-AGACATGAAAGACAT-T
126 ATCAAA-TAATATAACAAATAAGAATTGGAA-AAAAAAGTGTA-AAAGAGACAT-AAA-ACATCT
* * *
21142329 CATATAACTCTCACTCATAAAAGAGATA
186 CATATAACTCTCACCCATAAAACAAATA
* ** * *
21142357 AAAGATTATAAGTCACAAGAAAATAAAAAATATAAATATAAATGTTATAAAATTAAAGAGTTGAT
1 AAAAACCATAAGTCATAAGAAAATAAAAAATATAAATATAAATGTTACAAAATTAAAGAGTTGAT
* * * * * * *
21142422 TAGTACAATTTAAAAATAATGATTTTAAAATTAATGAATACGAGAAAGTTAAAAGTTAATAATCC
66 CAATACAATTTAAAAATAATGGTTTTAAAA-AAATGAATACAAGAAAATCAAAAGTTAATAAT-C
21142487 AAATAA
129 AAATAA
21142493 ATATTAGATA
Statistics
Matches: 298, Mismatches: 44, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
216 15 0.05
217 165 0.55
218 53 0.18
219 62 0.21
220 3 0.01
ACGTcount: A:0.55, C:0.09, G:0.10, T:0.26
Consensus pattern (213 bp):
AAAAACCATAAGTCATAAGAAAATAAAAAATATAAATATAAATGTTACAAAATTAAAGAGTTGAT
CAATACAATTTAAAAATAATGGTTTTAAAAAAATGAATACAAGAAAATCAAAAGTTAATAATCAA
ATAATATAACAAATAAGAATTGGAAAAAAAAGTGTAAAAGAGACATAAAACATCTCATATAACTC
TCACCCATAAAACAAATA
Found at i:21143069 original size:20 final size:21
Alignment explanation
Indices: 21143046--21143099 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
21143036 AATGTATATT
21143046 AATC-TTATATAAATATATAA
1 AATCATTATATAAATATATAA
* *
21143066 AATCATTTTAT-TATATATAA
1 AATCATTATATAAATATATAA
21143086 AATCATTATA-AAAT
1 AATCATTATATAAAT
21143100 CATTTTATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 23 0.82
21 5 0.18
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.43
Consensus pattern (21 bp):
AATCATTATATAAATATATAA
Found at i:21143079 original size:26 final size:29
Alignment explanation
Indices: 21143050--21143118 Score: 85
Period size: 31 Copynumber: 2.5 Consensus size: 29
21143040 TATATTAATC
21143050 TTATATAAAT-A-TATAAAATCATTTTAT
1 TTATATAAATCATTATAAAATCATTTTAT
21143077 TATATATAAAATCATTATAAAATCATTTTA-
1 T-TATAT-AAATCATTATAAAATCATTTTAT
21143107 -TATA-AAATCATT
1 TTATATAAATCATT
21143119 TTATATAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
26 8 0.21
27 1 0.03
28 9 0.24
29 4 0.11
30 1 0.03
31 15 0.39
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (29 bp):
TTATATAAATCATTATAAAATCATTTTAT
Found at i:21143095 original size:15 final size:15
Alignment explanation
Indices: 21143075--21143161 Score: 91
Period size: 15 Copynumber: 6.3 Consensus size: 15
21143065 AAATCATTTT
21143075 ATTATATATAAAATC
1 ATTATATATAAAATC
21143090 ---AT-TATAAAATC
1 ATTATATATAAAATC
*
21143101 ATTTTATATAAAATC
1 ATTATATATAAAATC
*
21143116 ATTTTATATAAAATC
1 ATTATATATAAAATC
21143131 ---AT-TATAAAATC
1 ATTATATATAAAATC
*
21143142 ATTTTATATAAAATC
1 ATTATATATAAAATC
21143157 ATTAT
1 ATTAT
21143162 TTAATTGAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
11 18 0.30
12 3 0.05
14 2 0.03
15 37 0.62
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTATATATAAAATC
Found at i:21143124 original size:41 final size:41
Alignment explanation
Indices: 21143079--21143159 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
21143069 CATTTTATTA
21143079 TATATAAAATCATTATAAAATCATTTTATATAAAATCATTT
1 TATATAAAATCATTATAAAATCATTTTATATAAAATCATTT
21143120 TATATAAAATCATTATAAAATCATTTTATATAAAATCATT
1 TATATAAAATCATTATAAAATCATTTTATATAAAATCATT
21143160 ATTTAATTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.43
Consensus pattern (41 bp):
TATATAAAATCATTATAAAATCATTTTATATAAAATCATTT
Found at i:21143136 original size:26 final size:26
Alignment explanation
Indices: 21143107--21143161 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
21143097 AATCATTTTA
21143107 TATAAAATCATTTTATATAAAATCAT
1 TATAAAATCATTTTATATAAAATCAT
21143133 TATAAAATCATTTTATATAAAATCAT
1 TATAAAATCATTTTATATAAAATCAT
21143159 TAT
1 TAT
21143162 TTAATTGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (26 bp):
TATAAAATCATTTTATATAAAATCAT
Found at i:21143799 original size:44 final size:44
Alignment explanation
Indices: 21143701--21143799 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 44
21143691 CACAACCCAT
* * *
21143701 ATATAAAAAATCTAACATTATAATGTACTATTGATTTTAGAACAA
1 ATAT-AAAAATCTAACATTATAATATACTATTAATCTTAGAACAA
* * *
21143746 AAACAAAAATCTAACATTATAATATA-TCATTAATCTTA-TACAA
1 ATATAAAAATCTAACATTATAATATACT-ATTAATCTTAGAACAA
21143789 ATATATAAAAT
1 ATATA-AAAAT
21143800 AACTCTATTA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
43 8 0.18
44 34 0.77
45 2 0.05
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.34
Consensus pattern (44 bp):
ATATAAAAATCTAACATTATAATATACTATTAATCTTAGAACAA
Found at i:21159873 original size:24 final size:24
Alignment explanation
Indices: 21159846--21159925 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
21159836 GAAAAAGATC
21159846 TAAATGGTGTCTAATATTTAAAAT
1 TAAATGGTGTCTAATATTTAAAAT
* * * **
21159870 TAAATGGTAGGTTCCAATGGTTCAACTT
1 TAAATGGT--G-TCTAAT-ATTTAAAAT
*
21159898 TAAATGGTGTCTAGTATTTAAAAT
1 TAAATGGTGTCTAATATTTAAAAT
21159922 TAAA
1 TAAA
21159926 CTGTAAGTTC
Statistics
Matches: 41, Mismatches: 11, Indels: 8
0.68 0.18 0.13
Matches are distributed among these distances:
24 17 0.41
25 4 0.10
26 2 0.05
27 5 0.12
28 13 0.32
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (24 bp):
TAAATGGTGTCTAATATTTAAAAT
Found at i:21159924 original size:52 final size:53
Alignment explanation
Indices: 21159846--21159949 Score: 158
Period size: 52 Copynumber: 2.0 Consensus size: 53
21159836 GAAAAAGATC
*
21159846 TAAATGGTGTCTAATATTTAAAATTAAA-TGGTAGGTTCCAAT-GGTTCAACTT
1 TAAATGGTGTCTAATATTTAAAATTAAACT-GTAAGTTCCAATGGGTTCAACTT
* *
21159898 TAAATGGTGTCTAGTATTTAAAATTAAACTGTAAGTTCTAATGGGTTCAACT
1 TAAATGGTGTCTAATATTTAAAATTAAACTGTAAGTTCCAATGGGTTCAACT
21159950 AGAGCTTTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
52 37 0.79
53 10 0.21
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (53 bp):
TAAATGGTGTCTAATATTTAAAATTAAACTGTAAGTTCCAATGGGTTCAACTT
Found at i:21168693 original size:21 final size:20
Alignment explanation
Indices: 21168654--21168693 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
21168644 TCATAACATA
*
21168654 TAGATTTAAAAATCTATAGC
1 TAGATTTAAAAATCAATAGC
*
21168674 TAGATTTAACAAATGAATAG
1 TAGATTTAA-AAATCAATAG
21168694 AGTCGTTACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.33
Consensus pattern (20 bp):
TAGATTTAAAAATCAATAGC
Found at i:21170214 original size:8 final size:8
Alignment explanation
Indices: 21170201--21170251 Score: 66
Period size: 8 Copynumber: 6.2 Consensus size: 8
21170191 AACTACCTAT
*
21170201 TTTTTTTG
1 TTTTTTTA
*
21170209 TTTTTTCA
1 TTTTTTTA
*
21170217 TTCTTTTA
1 TTTTTTTA
21170225 TTTTTTTA
1 TTTTTTTA
21170233 TTTTTTTTA
1 -TTTTTTTA
21170242 TTTTTTTA
1 TTTTTTTA
21170250 TT
1 TT
21170252 AGCAAAAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
8 29 0.78
9 8 0.22
ACGTcount: A:0.10, C:0.04, G:0.02, T:0.84
Consensus pattern (8 bp):
TTTTTTTA
Found at i:21170229 original size:17 final size:17
Alignment explanation
Indices: 21170198--21170251 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
21170188 CTTAACTACC
* *
21170198 TATTTTTTTTGTTTTTT
1 TATTTCTTTTATTTTTT
*
21170215 CA-TTCTTTTATTTTTT
1 TATTTCTTTTATTTTTT
*
21170231 TATTTTTTTTATTTTTT
1 TATTTCTTTTATTTTTT
21170248 TATT
1 TATT
21170252 AGCAAAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
16 13 0.42
17 18 0.58
ACGTcount: A:0.11, C:0.04, G:0.02, T:0.83
Consensus pattern (17 bp):
TATTTCTTTTATTTTTT
Found at i:21170237 original size:25 final size:25
Alignment explanation
Indices: 21170198--21170251 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
21170188 CTTAACTACC
21170198 TATTTTTTTTGTTTTTTCATTCTTT
1 TATTTTTTTTGTTTTTTCATTCTTT
* *
21170223 TATTTTTTTAT-TTTTTTTATTTTTT
1 TATTTTTTT-TGTTTTTTCATTCTTT
21170248 TATT
1 TATT
21170252 AGCAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.11, C:0.04, G:0.02, T:0.83
Consensus pattern (25 bp):
TATTTTTTTTGTTTTTTCATTCTTT
Found at i:21170603 original size:85 final size:85
Alignment explanation
Indices: 21170418--21170850 Score: 464
Period size: 86 Copynumber: 5.1 Consensus size: 85
21170408 AGTAAACAAA
* * * **
21170418 GCTCCTCTAAATAGAGGCTCAACAAC-TTGGAAAAAAATAAATGCTCATCTAAACAGAGGCACCA
1 GCTCATCTAAATAGAGGCACCACAACTTTGGAAAAGTA-AAATGCTCATCTAAACAGAGGCACCA
*
21170482 CAACTTTTG--ACAAATAAAAT
65 CAAC-TTTGAAAAAAATAAAAT
* * * * * * **
21170502 GCTCCTCTAAACAAAGGCACTACAACTTTGGAAAAGTAAAATGTTCCTCTAAACAGAGGCATTAC
1 GCTCATCTAAATAGAGGCACCACAACTTTGGAAAAGTAAAATGCTCATCTAAACAGAGGCACCAC
21170567 AACTTTGAAAAAAATAAAAT
66 AACTTTGAAAAAAATAAAAT
* * * * *
21170587 GCTCATCTAAATAAAGGCACCACAACTTTGGAAAAAATAAAATGTTCTTCTAAACAAAGGCACCA
1 GCTCATCTAAATAGAGGCACCACAACTTTGG-AAAAGTAAAATGCTCATCTAAACAGAGGCACCA
21170652 CAACTTTGAAAAAAATAAAAT
65 CAACTTTGAAAAAAATAAAAT
* * * * * *
21170673 GCTCTTCTAAACAGA-GCACCATAACTTTAGAAAAGATAAAATGCTCCTTTAAACAGAGGCACCA
1 GCTCATCTAAATAGAGGCACCACAACTTTGGAAAAG-TAAAATGCTCATCTAAACAGAGGCACCA
* *
21170737 CAATTTTTAAAAAAAATAAAAT
65 CAA-CTTTGAAAAAAATAAAAT
** * * *
21170759 GCTTTTCTAAATAGAGGTAACACAACTTTGGAAAAAGATAAAATGCTCATCTAAACAAAGGCACC
1 GCTCATCTAAATAGAGGCACCACAACTTTGG-AAAAG-TAAAATGCTCATCTAAACAGAGGCACC
*
21170824 ACAACTTT-AGAAAAAT-AAAT
64 ACAACTTTGAAAAAAATAAAAT
21170844 GCTCATC
1 GCTCATC
21170851 GATAATCATG
Statistics
Matches: 297, Mismatches: 44, Indels: 15
0.83 0.12 0.04
Matches are distributed among these distances:
83 4 0.01
84 52 0.18
85 96 0.32
86 97 0.33
87 14 0.05
88 34 0.11
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (85 bp):
GCTCATCTAAATAGAGGCACCACAACTTTGGAAAAGTAAAATGCTCATCTAAACAGAGGCACCAC
AACTTTGAAAAAAATAAAAT
Found at i:21170605 original size:43 final size:43
Alignment explanation
Indices: 21170418--21170850 Score: 450
Period size: 42 Copynumber: 10.2 Consensus size: 43
21170408 AGTAAACAAA
* * * * *
21170418 GCTCCTCTAAATAGAGGCTCAACAACTTGGAAAAAAAT-AAAT
1 GCTCATCTAAACAGAGGCACCACAACTTTGAAAAAAATAAAAT
*
21170460 GCTCATCTAAACAGAGGCACCACAACTTTTG--ACAAATAAAAT
1 GCTCATCTAAACAGAGGCACCACAAC-TTTGAAAAAAATAAAAT
* * * * *
21170502 GCTCCTCTAAACAAAGGCACTACAACTTTG-GAAAAGTAAAAT
1 GCTCATCTAAACAGAGGCACCACAACTTTGAAAAAAATAAAAT
* * **
21170544 GTTCCTCTAAACAGAGGCATTACAACTTTGAAAAAAATAAAAT
1 GCTCATCTAAACAGAGGCACCACAACTTTGAAAAAAATAAAAT
* * *
21170587 GCTCATCTAAATAAAGGCACCACAACTTTGGAAAAAATAAAAT
1 GCTCATCTAAACAGAGGCACCACAACTTTGAAAAAAATAAAAT
* * *
21170630 GTTCTTCTAAACAAAGGCACCACAACTTTGAAAAAAATAAAAT
1 GCTCATCTAAACAGAGGCACCACAACTTTGAAAAAAATAAAAT
* * *
21170673 GCTCTTCTAAACAGA-GCACCATAACTTT-AGAAAAGATAAAAT
1 GCTCATCTAAACAGAGGCACCACAACTTTGA-AAAAAATAAAAT
* * * *
21170715 GCTCCTTTAAACAGAGGCACCACAATTTTTAAAAAAAATAAAAT
1 GCTCATCTAAACAGAGGCACCACAA-CTTTGAAAAAAATAAAAT
** * * * *
21170759 GCTTTTCTAAATAGAGGTAACACAACTTTGGAAAAAGATAAAAT
1 GCTCATCTAAACAGAGGCACCACAACTTT-GAAAAAAATAAAAT
* *
21170803 GCTCATCTAAACAAAGGCACCACAACTTT-AGAAAAAT-AAAT
1 GCTCATCTAAACAGAGGCACCACAACTTTGAAAAAAATAAAAT
21170844 GCTCATC
1 GCTCATC
21170851 GATAATCATG
Statistics
Matches: 329, Mismatches: 53, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
41 21 0.06
42 127 0.39
43 112 0.34
44 68 0.21
45 1 0.00
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (43 bp):
GCTCATCTAAACAGAGGCACCACAACTTTGAAAAAAATAAAAT
Found at i:21171366 original size:79 final size:79
Alignment explanation
Indices: 21171245--21171620 Score: 479
Period size: 79 Copynumber: 4.7 Consensus size: 79
21171235 TTTTCATTCT
* * *
21171245 AGTTCGAAGATTCACATCCGATGAACA-TTAGGGTTTCACACCTCAAAGAAATT-T-ATTTGAAA
1 AGTTCAAAGATTCACATTCGAT-AA-ATTTTGGGTTTCACACCTCAAAG--ATTCTCATTTGAAA
* *
21171307 CACAAAGATTCTGATTTG
62 CTCAAAGATTCTCATTTG
* *
21171325 AGTTCAAAAATTCACATTCAATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAACTCA
1 AGTTCAAAGATTCACATTCGATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAACTCA
*
21171390 AAGATTATCATTTG
66 AAGATTCTCATTTG
* * * **
21171404 AGTTCGAAGATTCACATTCGATAATTTTTGGGTTTCACTCCTCAAAGATTCTCATTTGAATTTCA
1 AGTTCAAAGATTCACATTCGATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAACTCA
21171469 AAGATTCTCATTTG
66 AAGATTCTCATTTG
* * * * * *
21171483 AGTTCAAAGATTCATATTCGACAAATTTTGAGTTTCACACCTCAAAGATTCTTACTTGAAATTCA
1 AGTTCAAAGATTCACATTCGATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAACTCA
*
21171548 AAGATTTTCATTTG
66 AAGATTCTCATTTG
** * *
21171562 AGTTTGAAGATTCACATTCGATAAATTTTGGGTTTCATACCTCAAAGATTTTCATTTGA
1 AGTTCAAAGATTCACATTCGATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGA
21171621 GTTCGAAGAT
Statistics
Matches: 258, Mismatches: 35, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
77 3 0.01
78 2 0.01
79 235 0.91
80 18 0.07
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (79 bp):
AGTTCAAAGATTCACATTCGATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAACTCA
AAGATTCTCATTTG
Found at i:21171389 original size:21 final size:21
Alignment explanation
Indices: 21171365--21171404 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
21171355 GGTTTCACAC
*
21171365 CTCAAAGATTCTCATTTGAAA
1 CTCAAAGATTATCATTTGAAA
21171386 CTCAAAGATTATCATTTGA
1 CTCAAAGATTATCATTTGA
21171405 GTTCGAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (21 bp):
CTCAAAGATTATCATTTGAAA
Found at i:21171490 original size:20 final size:21
Alignment explanation
Indices: 21171445--21171495 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
21171435 GTTTCACTCC
*
21171445 TCAAAGATTCTCATTTGAATT
1 TCAAAGATTCTCATTTGAAGT
21171466 TCAAAGATTCTCATTTG-AGT
1 TCAAAGATTCTCATTTGAAGT
21171486 TCAAAGATTC
1 TCAAAGATTC
21171496 ATATTCGACA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAGT
Found at i:21171612 original size:58 final size:58
Alignment explanation
Indices: 21171545--21171696 Score: 216
Period size: 58 Copynumber: 2.6 Consensus size: 58
21171535 TACTTGAAAT
* * *
21171545 TCAAAGATTTTCATTTGAGTTTGAAGATTCACATTCGATAAATTTTGGGTTTCATACC
1 TCAAAGATTTTCATTTGAGTTCGAAGATTCACATTCGATAAATTTTGGGTCTCACACC
21171603 TCAAAGATTTTCATTTGAGTTCGAAGATTCACATTCGATAAATTTTGGGTCTCACACC
1 TCAAAGATTTTCATTTGAGTTCGAAGATTCACATTCGATAAATTTTGGGTCTCACACC
* * * *
21171661 TCATAA-ATTCTCATTTGAAATTCAAAGATTCTCATT
1 TCA-AAGATTTTCATTTG-AGTTCGAAGATTCACATT
21171697 TGAAAATCCA
Statistics
Matches: 85, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
58 68 0.80
59 17 0.20
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.39
Consensus pattern (58 bp):
TCAAAGATTTTCATTTGAGTTCGAAGATTCACATTCGATAAATTTTGGGTCTCACACC
Found at i:21171708 original size:22 final size:21
Alignment explanation
Indices: 21171667--21171708 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
21171657 CACCTCATAA
*
21171667 ATTCTCATTTGAAATTCAAAG
1 ATTCTCATTTGAAATCCAAAG
21171688 ATTCTCATTTGAAAATCCAAA
1 ATTCTCATTTG-AAATCCAAA
21171709 CTTTATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
ATTCTCATTTGAAATCCAAAG
Found at i:21173018 original size:15 final size:15
Alignment explanation
Indices: 21172979--21173032 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
21172969 CTGAGTCTTC
*
21172979 ATTTTTTCTTCTTTT
1 ATTTTTTATTCTTTT
21172994 CATCTTTTTATTCTTTT
1 -AT-TTTTTATTCTTTT
*
21173011 ATTTTTTATTTTTTT
1 ATTTTTTATTCTTTT
21173026 ATTTTTT
1 ATTTTTT
21173033 CTCTTTCTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
15 19 0.54
16 4 0.11
17 12 0.34
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (15 bp):
ATTTTTTATTCTTTT
Found at i:21173024 original size:23 final size:23
Alignment explanation
Indices: 21172998--21173089 Score: 80
Period size: 23 Copynumber: 3.9 Consensus size: 23
21172988 TCTTTTCATC
21172998 TTTTTATTCTTTTATTTTTTATT
1 TTTTTATTCTTTTATTTTTTATT
* *
21173021 TTTTTATTTTTTCTCTTTCTTTA-T
1 TTTTTATTCTTT-TATTT-TTTATT
* * *
21173045 TCTTCATTC-TTCATTTTTTATT
1 TTTTTATTCTTTTATTTTTTATT
21173067 TTTTTCATTCTTTTTTATTTTTT
1 TTTTT-ATTC--TTTTATTTTTT
21173090 CTCTTTCATT
Statistics
Matches: 52, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
21 4 0.08
22 7 0.13
23 17 0.33
24 11 0.21
25 4 0.08
26 9 0.17
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTATTCTTTTATTTTTTATT
Found at i:21173031 original size:47 final size:47
Alignment explanation
Indices: 21172976--21173080 Score: 119
Period size: 46 Copynumber: 2.2 Consensus size: 47
21172966 AGTCTGAGTC
*
21172976 TTCATTTTTTCTTCTTTTCATCT-TT-TT-ATTCTTTTATTTTTTATTTTT
1 TTCATTTTTTC-TC-TTTC-TCTATTCTTCATTC-TTCATTTTTTATTTTT
*
21173024 TT-ATTTTTTCTCTTTCTTTATTCTTCATTCTTCATTTTTTATTTTT
1 TTCATTTTTTCTCTTTCTCTATTCTTCATTCTTCATTTTTTATTTTT
21173070 TTCATTCTTTT
1 TTCATT-TTTT
21173081 TTATTTTTTC
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
44 2 0.04
45 6 0.12
46 21 0.42
47 15 0.30
48 6 0.12
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.75
Consensus pattern (47 bp):
TTCATTTTTTCTCTTTCTCTATTCTTCATTCTTCATTTTTTATTTTT
Found at i:21173098 original size:40 final size:37
Alignment explanation
Indices: 21172976--21173103 Score: 109
Period size: 39 Copynumber: 3.3 Consensus size: 37
21172966 AGTCTGAGTC
* *
21172976 TTCATTTTTTCTTCTTTTCATC-TTTTTATTCTTTTATTT
1 TTCATTTTTT-TTTTTTTCATCTTTTTTATT-TTTT-CTT
* *
21173015 TTTATTTTTTTATTTTTTC-TCTTTCTTTA-TTCTTCATT
1 TTCATTTTTTT-TTTTTTCATCTTT-TTTATTTTTTC-TT
21173053 CTTCATTTTTTATTTTTTTCATTCTTTTTTATTTTTTCTCT
1 -TTCATTTTTT-TTTTTTTCA-TCTTTTTTATTTTTTCT-T
21173094 TTCATTTTTT
1 TTCATTTTTT
21173104 CTCATCTTTC
Statistics
Matches: 73, Mismatches: 6, Indels: 19
0.74 0.06 0.19
Matches are distributed among these distances:
38 8 0.11
39 34 0.47
40 20 0.27
41 11 0.15
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (37 bp):
TTCATTTTTTTTTTTTTCATCTTTTTTATTTTTTCTT
Found at i:21173104 original size:8 final size:8
Alignment explanation
Indices: 21172976--21173104 Score: 62
Period size: 8 Copynumber: 16.4 Consensus size: 8
21172966 AGTCTGAGTC
21172976 TTCATTTT
1 TTCATTTT
21172984 TTC-TTCTT
1 TTCATT-TT
21172992 TTCATCTTT
1 TTCAT-TTT
21173001 TT-ATTCTT
1 TTCATT-TT
21173009 TT-ATTTT
1 TTCATTTT
21173016 TT-ATTTT
1 TTCATTTT
*
21173023 TTTATTTT
1 TTCATTTT
21173031 TTC-TCTTT
1 TTCAT-TTT
* *
21173039 CTTTA-TTC
1 -TTCATTTT
*
21173047 TTCA-TTC
1 TTCATTTT
21173054 TTCATTTT
1 TTCATTTT
21173062 TT-ATTTTT
1 TTCA-TTTT
21173070 TTCATTCTTT
1 TTCA-T-TTT
*
21173080 TTTATTTT
1 TTCATTTT
*
21173088 TTC--TCT
1 TTCATTTT
21173094 TTCATTTT
1 TTCATTTT
21173102 TTC
1 TTC
21173105 TCATCTTTCA
Statistics
Matches: 98, Mismatches: 9, Indels: 28
0.73 0.07 0.21
Matches are distributed among these distances:
6 5 0.05
7 26 0.27
8 49 0.50
9 11 0.11
10 7 0.07
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (8 bp):
TTCATTTT
Found at i:21184752 original size:33 final size:32
Alignment explanation
Indices: 21184681--21184744 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
21184671 AGATTTTTAA
* *
21184681 CATTTAAAGTTTGTTGCTTTGGTTAAATGAGT
1 CATTTAAAGTTTGTTGCTCTGGTTAAAGGAGT
*
21184713 CATTTAAAGTTTGTTGCCTCTGGTTATAGGAG
1 CATTTAAAGTTTGTTG-CTCTGGTTAAAGGAG
21184745 CTTTTTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.23, C:0.09, G:0.23, T:0.44
Consensus pattern (32 bp):
CATTTAAAGTTTGTTGCTCTGGTTAAAGGAGT
Found at i:21184939 original size:74 final size:74
Alignment explanation
Indices: 21184844--21185022 Score: 231
Period size: 74 Copynumber: 2.4 Consensus size: 74
21184834 CAAATTTTTA
* * * * *
21184844 ATTTAAAGTTTGTTGCTTTTGGTTAAATG-AGCCATTTAAAGTTTGTTGCCTCTAGTCAGAA-GA
1 ATTTAAAGTTTATTGCCTTTGGTTAAATGAAGCCATTTAAAATTCGTTACCTCTAGTCA-AAGGA
*
21184907 ACTTTTTTAAC
65 AC-CTTTTAAC
* * *
21184918 ATTTAAAGTTTATTGCCTTTGGTTAAA-GAAGTCATTTAAAATTCGTTACCTCTGGTCAAAGGAG
1 ATTTAAAGTTTATTGCCTTTGGTTAAATGAAGCCATTTAAAATTCGTTACCTCTAGTCAAAGGAA
21184982 CCTTTTAAC
66 CCTTTTAAC
21184991 ATTTAAAGTTTATTGCCTTTGGTTAAAT-AAGC
1 ATTTAAAGTTTATTGCCTTTGGTTAAATGAAGC
21185023 TTTTTAATAT
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
73 40 0.43
74 52 0.57
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (74 bp):
ATTTAAAGTTTATTGCCTTTGGTTAAATGAAGCCATTTAAAATTCGTTACCTCTAGTCAAAGGAA
CCTTTTAAC
Found at i:21184994 original size:40 final size:40
Alignment explanation
Indices: 21184951--21185399 Score: 293
Period size: 40 Copynumber: 11.3 Consensus size: 40
21184941 TAAAGAAGTC
* * * * * *
21184951 ATTTAAAATTCGTTACCTCTGGTCAAAGGAGCCTTTTAAC
1 ATTTAAAGTTTGTTGCCTTTGGTGAAAGGAGCCTTTTAAT
* * ** *
21184991 ATTTAAAGTTTATTGCCTTTGGTTAAATAAGCTTTTTAAT
1 ATTTAAAGTTTGTTGCCTTTGGTGAAAGGAGCCTTTTAAT
* * *
21185031 ATTTAAAGTTTGTTGCCTTTGGTTAAATGAGCGCTTTTGA-
1 ATTTAAAGTTTGTTGCCTTTGGTGAAAGGAGC-CTTTTAAT
* * *
21185071 ATTTAAAGTTTGTTG-CTTCTAGTGAGAGAAGCCTTTTAAT
1 ATTTAAAGTTTGTTGCCTT-TGGTGAAAGGAGCCTTTTAAT
* * * *
21185111 ATTTAAAGTTTGTTGTCTTTGGTTAAAGAAGCACTTTTGA-
1 ATTTAAAGTTTGTTGCCTTTGGTGAAAGGAGC-CTTTTAAT
* * * *
21185151 ATTTAAAGTTCGTTGCCTCTGGTGAGAGGAACCTTTTAAT
1 ATTTAAAGTTTGTTGCCTTTGGTGAAAGGAGCCTTTTAAT
** * * * * * *
21185191 ATTTAAAAATTGTTGCCTTTGATCAAAAGAACATATTTGA-
1 ATTTAAAGTTTGTTGCCTTTGGTGAAAGGAGCCT-TTTAAT
* * *
21185231 ATTTAAAATTTGCTGCCTTTGGTGAGAGGAGCCTTTTAAT
1 ATTTAAAGTTTGTTGCCTTTGGTGAAAGGAGCCTTTTAAT
* * * * *
21185271 ATTTAAAGTTTGTTGCTTTTGGTTAGATGAGCTCTTTTGA-
1 ATTTAAAGTTTGTTGCCTTTGGTGAAAGGAGC-CTTTTAAT
*** * * *
21185311 ATTTAAAGTCCATTGCTTTTGGTGAGAA-AAGCCTTTTGA-
1 ATTTAAAGTTTGTTGCCTTTGGTGA-AAGGAGCCTTTTAAT
*** * * ** *
21185350 ATTTAAAGTCCATTGCCTTTGGTCAAAAGAGTTTTTTGA-
1 ATTTAAAGTTTGTTGCCTTTGGTGAAAGGAGCCTTTTAAT
21185389 ATTTAAAGTTT
1 ATTTAAAGTTT
21185400 CATAGCCTCT
Statistics
Matches: 328, Mismatches: 70, Indels: 23
0.78 0.17 0.05
Matches are distributed among these distances:
38 2 0.01
39 66 0.20
40 235 0.72
41 25 0.08
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (40 bp):
ATTTAAAGTTTGTTGCCTTTGGTGAAAGGAGCCTTTTAAT
Found at i:21185108 original size:80 final size:80
Alignment explanation
Indices: 21184951--21185399 Score: 410
Period size: 80 Copynumber: 5.6 Consensus size: 80
21184941 TAAAGAAGTC
* * * * * * * *
21184951 ATTTAAAATTCGTTACCTCTGGTCAAAGGAGC-CTTTTAACATTTAAAGTTTATTGCCTT-TGGT
1 ATTTAAAGTTTGTTGCCTTTGGTTAAAAGAGCTCTTTTGA-ATTTAAAGTTTGTTG-CTTCTGGT
* * * *
21185014 TAAATAAGCTTTTTAAT
64 GAGAGAAGCCTTTTAAT
* * *
21185031 ATTTAAAGTTTGTTGCCTTTGGTTAAATGAGCGCTTTTGAATTTAAAGTTTGTTGCTTCTAGTGA
1 ATTTAAAGTTTGTTGCCTTTGGTTAAAAGAGCTCTTTTGAATTTAAAGTTTGTTGCTTCTGGTGA
21185096 GAGAAGCCTTTTAAT
66 GAGAAGCCTTTTAAT
* * * *
21185111 ATTTAAAGTTTGTTGTCTTTGGTT-AAAGAAGCACTTTTGAATTTAAAGTTCGTTGCCTCTGGTG
1 ATTTAAAGTTTGTTGCCTTTGGTTAAAAG-AGCTCTTTTGAATTTAAAGTTTGTTGCTTCTGGTG
21185175 AGAGGAA-CCTTTTAAT
65 AGA-GAAGCCTTTTAAT
** * * * * * *
21185191 ATTTAAAAATTGTTGCCTTTGATCAAAAGAACAT-ATTTGAATTTAAAATTTGCTGCCTT-TGGT
1 ATTTAAAGTTTGTTGCCTTTGGTTAAAAGAGC-TCTTTTGAATTTAAAGTTTGTTG-CTTCTGGT
*
21185254 GAGAGGAGCCTTTTAAT
64 GAGAGAAGCCTTTTAAT
* * * *** *
21185271 ATTTAAAGTTTGTTGCTTTTGGTTAGATGAGCTCTTTTGAATTTAAAGTCCATTGCTTTTGGTGA
1 ATTTAAAGTTTGTTGCCTTTGGTTAAAAGAGCTCTTTTGAATTTAAAGTTTGTTGCTTCTGGTGA
* *
21185336 GAAAAGCCTTTTGA-
66 GAGAAGCCTTTTAAT
*** * *
21185350 ATTTAAAGTCCATTGCCTTTGGTCAAAAGAG-TTTTTTGAATTTAAAGTTT
1 ATTTAAAGTTTGTTGCCTTTGGTTAAAAGAGCTCTTTTGAATTTAAAGTTT
21185400 CATAGCCTCT
Statistics
Matches: 300, Mismatches: 59, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
78 16 0.05
79 36 0.12
80 233 0.78
81 15 0.05
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (80 bp):
ATTTAAAGTTTGTTGCCTTTGGTTAAAAGAGCTCTTTTGAATTTAAAGTTTGTTGCTTCTGGTGA
GAGAAGCCTTTTAAT
Found at i:21185192 original size:160 final size:159
Alignment explanation
Indices: 21184991--21185399 Score: 452
Period size: 160 Copynumber: 2.6 Consensus size: 159
21184981 GCCTTTTAAC
** * * * *
21184991 ATTTAAAGTTTATTGCCTTTGGTTA-AATAAGCTTTTTAATATTTAAAGTTTGTTGCCTTTGGTT
1 ATTTAAAGTCCATTGCCTCTGGTGAGAA-AAGCCTTTTAATATTTAAAGTTTGTTGCCTTTGGTC
* * *
21185055 AAATGAGCGCTTTTGAATTTAAAGTTTGTTG-CTTCTAGTGAGAGAAGCCTTTTAATATTTAAAG
65 AAAAGAGC-ATTTTGAATTTAAAGTTTGCTGCCTT-TAGTGAGAGAAGCCTTTTAATATTTAAAG
21185119 TTTGTTG-TCTTTGGTTA-AAGAAGCACTTTTGA
128 TTTGTTGCT-TTTGGTTAGAAG-AGCACTTTTGA
* * * ** *
21185151 ATTTAAAGTTCGTTGCCTCTGGTGAGAGGAA-CCTTTTAATATTTAAAAATTGTTGCCTTTGATC
1 ATTTAAAGTCCATTGCCTCTGGTGAGA-AAAGCCTTTTAATATTTAAAGTTTGTTGCCTTTGGTC
* * * *
21185215 AAAAGAACATATTTGAATTTAAAATTTGCTGCCTTTGGTGAGAGGAGCCTTTTAATATTTAAAGT
65 AAAAGAGCAT-TTTGAATTTAAAGTTTGCTGCCTTTAGTGAGAGAAGCCTTTTAATATTTAAAGT
* *
21185280 TTGTTGCTTTTGGTTAGATGAGCTCTTTTGA
129 TTGTTGCTTTTGGTTAGAAGAGCACTTTTGA
* * * ***
21185311 ATTTAAAGTCCATTGCTTTTGGTGAGAAAAGCCTTTTGA-ATTTAAAGTCCATTGCCTTTGGTCA
1 ATTTAAAGTCCATTGCCTCTGGTGAGAAAAGCCTTTTAATATTTAAAGTTTGTTGCCTTTGGTCA
**
21185375 AAAGAGTTTTTTGAATTTAAAGTTT
66 AAAGAGCATTTTGAATTTAAAGTTT
21185400 CATAGCCTCT
Statistics
Matches: 207, Mismatches: 35, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
158 15 0.07
159 28 0.14
160 155 0.75
161 9 0.04
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.43
Consensus pattern (159 bp):
ATTTAAAGTCCATTGCCTCTGGTGAGAAAAGCCTTTTAATATTTAAAGTTTGTTGCCTTTGGTCA
AAAGAGCATTTTGAATTTAAAGTTTGCTGCCTTTAGTGAGAGAAGCCTTTTAATATTTAAAGTTT
GTTGCTTTTGGTTAGAAGAGCACTTTTGA
Found at i:21185358 original size:39 final size:39
Alignment explanation
Indices: 21185248--21185397 Score: 149
Period size: 39 Copynumber: 3.8 Consensus size: 39
21185238 ATTTGCTGCC
** * ***
21185248 TTTGGTGAGAGGAGCCTTTTAATATTTAAAGTTTGTTGCT
1 TTTGGTGAGAAAAGCCTTTTGA-ATTTAAAGTCCATTGCT
* **
21185288 TTTGGTTAGATGAGCTCTTTTGAATTTAAAGTCCATTGCT
1 TTTGGTGAGAAAAGC-CTTTTGAATTTAAAGTCCATTGCT
*
21185328 TTTGGTGAGAAAAGCCTTTTGAATTTAAAGTCCATTGCC
1 TTTGGTGAGAAAAGCCTTTTGAATTTAAAGTCCATTGCT
* **
21185367 TTTGGTCA-AAAGAGTTTTTTGAATTTAAAGT
1 TTTGGTGAGAAA-AGCCTTTTGAATTTAAAGT
21185398 TTCATAGCCT
Statistics
Matches: 95, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
38 3 0.03
39 47 0.49
40 39 0.41
41 6 0.06
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (39 bp):
TTTGGTGAGAAAAGCCTTTTGAATTTAAAGTCCATTGCT
Found at i:21186450 original size:12 final size:12
Alignment explanation
Indices: 21186429--21186469 Score: 50
Period size: 11 Copynumber: 3.4 Consensus size: 12
21186419 TTTTACAGGT
21186429 TTTTTC-TTTTA
1 TTTTTCTTTTTA
21186440 TTTTTCTTTTTA
1 TTTTTCTTTTTA
21186452 -TTTTCTATTTTGA
1 TTTTTCT-TTTT-A
21186465 TTTTT
1 TTTTT
21186470 TGATTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 12 0.46
12 9 0.35
13 1 0.04
14 4 0.15
ACGTcount: A:0.10, C:0.07, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTTCTTTTTA
Found at i:21186475 original size:14 final size:14
Alignment explanation
Indices: 21186458--21186522 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
21186448 TTTATTTTCT
21186458 ATTTTGATTTTTTG
1 ATTTTGATTTTTTG
21186472 ATTTT-ATTTATTTTG
1 ATTTTGA-TT-TTTTG
*
21186487 -TGTTGA-TTTTT-
1 ATTTTGATTTTTTG
* *
21186498 ATGTTGATTTTTTT
1 ATTTTGATTTTTTG
21186512 ATTTT-ATTTTT
1 ATTTTGATTTTT
21186523 CATGATATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
12 10 0.23
13 13 0.30
14 14 0.33
15 6 0.14
ACGTcount: A:0.15, C:0.00, G:0.11, T:0.74
Consensus pattern (14 bp):
ATTTTGATTTTTTG
Found at i:21186521 original size:12 final size:12
Alignment explanation
Indices: 21186428--21186559 Score: 63
Period size: 12 Copynumber: 10.1 Consensus size: 12
21186418 GTTTTACAGG
*
21186428 TTTTTTCTTTTA
1 TTTTTTATTTTA
21186440 TTTTTCT-TTTTA
1 TTTTT-TATTTTA
*
21186452 TTTTCTATTTTGA
1 TTTTTTATTTT-A
21186465 TTTTTTGATTTTA
1 TTTTTT-ATTTTA
21186478 TTTATTT-TGTGTTGA
1 TTT-TTTAT-T-TT-A
*
21186493 -TTTTTATGTTGA
1 TTTTTTAT-TTTA
21186505 TTTTTTTATTTTA
1 -TTTTTTATTTTA
* **
21186518 TTTTTCATGATA
1 TTTTTTATTTTA
21186530 TTATTGTTATTATTA
1 TT-TT-TTATT-TTA
21186545 TTATTGTTATTTTA
1 TT-TT-TTATTTTA
21186559 T
1 T
21186560 ATTAATAATT
Statistics
Matches: 96, Mismatches: 10, Indels: 26
0.73 0.08 0.20
Matches are distributed among these distances:
11 1 0.01
12 31 0.32
13 21 0.22
14 29 0.30
15 14 0.15
ACGTcount: A:0.17, C:0.03, G:0.08, T:0.73
Consensus pattern (12 bp):
TTTTTTATTTTA
Done.