Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 113 of 133
Found at i:22136835 original size:22 final size:23
Alignment explanation
Indices: 22136793--22136840 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
22136783 AAAAATGAAT
*
22136793 AAATAATAAAAACTTGTAAAATA
1 AAATAATAAAAACTTGCAAAATA
22136816 AAATAATAAAAAAC-T-CAAAATA
1 AAATAAT-AAAAACTTGCAAAATA
22136838 AAA
1 AAA
22136841 AAAAACTCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 9 0.39
23 8 0.35
24 6 0.26
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.21
Consensus pattern (23 bp):
AAATAATAAAAACTTGCAAAATA
Found at i:22136837 original size:17 final size:17
Alignment explanation
Indices: 22136815--22136859 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
22136805 CTTGTAAAAT
22136815 AAAATAATAAAAAACTC
1 AAAATAATAAAAAACTC
*
22136832 AAAATAAAAAAAAACTC
1 AAAATAATAAAAAACTC
*
22136849 CAAAT-ATAAAA
1 AAAATAATAAAA
22136860 TAGATGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.73, C:0.11, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAATAATAAAAAACTC
Found at i:22136841 original size:23 final size:24
Alignment explanation
Indices: 22136784--22136841 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 24
22136774 TTACTCAATA
*
22136784 AAAATGAATAAATAATAAAAACTTGT
1 AAAAT-AA-AAATAATAAAAACTTGC
22136810 AAAAT-AAAATAATAAAAAAC-T-C
1 AAAATAAAAATAAT-AAAAACTTGC
22136832 AAAATAAAAA
1 AAAATAAAAA
22136842 AAAACTCCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 5 0.17
23 12 0.41
24 7 0.24
26 5 0.17
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (24 bp):
AAAATAAAAATAATAAAAACTTGC
Found at i:22137713 original size:5 final size:5
Alignment explanation
Indices: 22137697--22137732 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
22137687 CCCAACTAAG
*
22137697 AGAAA AGGAA AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA A
22137733 TAATAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:22137776 original size:16 final size:16
Alignment explanation
Indices: 22137755--22137797 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
22137745 AACATAATAT
22137755 AATATATTATTTACAA
1 AATATATTATTTACAA
* * *
22137771 AATATAATATTTATAC
1 AATATATTATTTACAA
22137787 AATATAATTAT
1 AATAT-ATTAT
22137798 ATTTATATGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (16 bp):
AATATATTATTTACAA
Found at i:22137799 original size:19 final size:19
Alignment explanation
Indices: 22137750--22137804 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
22137740 AATATAACAT
*
22137750 AATATAA-TATATTATTTAC
1 AATATAATTATATT-TATAC
* *
22137769 AAAAT-ATAATATTTATAC
1 AATATAATTATATTTATAC
22137787 AATATAATTATATTTATA
1 AATATAATTATATTTATA
22137805 TGTTTTCTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 9 0.31
19 20 0.69
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (19 bp):
AATATAATTATATTTATAC
Found at i:22140194 original size:76 final size:76
Alignment explanation
Indices: 22140108--22140259 Score: 223
Period size: 76 Copynumber: 2.0 Consensus size: 76
22140098 AACGATAGAT
** * * *
22140108 AAGTTGATAAAATGTTGCTAGGTTTCACTCATAGCAAATTGGGTTGACATGATGCAATTGCAAAT
1 AAGTTGATAAAATGTTGCTAGGTTAAACTCATAACAAATTGGATTGACATGATGCAATTGCAAAG
22140173 AGAGAAGTGGG
66 AGAGAAGTGGG
* * **
22140184 AAGTTGATAAAATTTTGCTAGGTTAAACTTATAACAAATTGGATTGACATGATGCCGTTGCAAAG
1 AAGTTGATAAAATGTTGCTAGGTTAAACTCATAACAAATTGGATTGACATGATGCAATTGCAAAG
22140249 AGAGAAGTGGG
66 AGAGAAGTGGG
22140260 GTTGAGCCTA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 67 1.00
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.29
Consensus pattern (76 bp):
AAGTTGATAAAATGTTGCTAGGTTAAACTCATAACAAATTGGATTGACATGATGCAATTGCAAAG
AGAGAAGTGGG
Found at i:22144291 original size:89 final size:90
Alignment explanation
Indices: 22144153--22144338 Score: 252
Period size: 87 Copynumber: 2.1 Consensus size: 90
22144143 AAGTAATGAG
* *
22144153 TAAAATAATAATTAAAGATGAAAATAATAATAATAATAAGTAAATGTAAAAAAAAGCTAAAAATA
1 TAAAATAATAATTAAAGATG-AAATAATAATAAGAATAAGTAAAAGT--AAAAAAGCTAAAAATA
* *
22144218 AAATGAAAATAAAATA-AAAAAATAAAT
63 AAATGAAAAGAAAATAGAAAAAATAAAA
* *
22144245 TAAATTAATAATTAAAGATG-AA-AATAATAAGAATAAGTAAAAGTAAAAAATCTAAAAATAAAA
1 TAAAATAATAATTAAAGATGAAATAATAATAAGAATAAGTAAAAGTAAAAAAGCTAAAAATAAAA
* *
22144308 TGAGAAGAAAATAGAAAAAGTAAAA
66 TGAAAAGAAAATAGAAAAAATAAAA
22144333 TAAAAT
1 TAAAAT
22144339 CAAAACAGAA
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
87 29 0.35
88 14 0.17
89 20 0.24
90 2 0.02
92 19 0.23
ACGTcount: A:0.68, C:0.01, G:0.09, T:0.22
Consensus pattern (90 bp):
TAAAATAATAATTAAAGATGAAATAATAATAAGAATAAGTAAAAGTAAAAAAGCTAAAAATAAAA
TGAAAAGAAAATAGAAAAAATAAAA
Found at i:22145662 original size:66 final size:65
Alignment explanation
Indices: 22145501--22145690 Score: 168
Period size: 66 Copynumber: 2.9 Consensus size: 65
22145491 TGTAGGTTCA
* * * ** * * * * **
22145501 AAAAATAAAAGGATCTGGACTGAGCTGAGATCAAAA-TATGTGACTAGGATTGAATTGTAGGTTT
1 AAAAATAAAATGATCTGAACTAAGCAAAGATCAAAACGA-GCGACTAGGATTGAACTGCAACTTT
22145565 G
65 G
* * * * * *
22145566 AAAAATAAAATGATTTGGATTAAGCCAAGATCGAAACTGAGCGA-TAGAGATTGGACTGCAACTT
1 AAAAATAAAATGATCTGAACTAAGCAAAGATCAAAAC-GAGCGACTAG-GATTGAACTGCAACTT
22145630 TG
64 TG
* *
22145632 AAAAATAAAATGATCTGAACTGAGCAAAGATCAAAACGAGTGACTAGGATTGAACTGCA
1 AAAAATAAAATGATCTGAACTAAGCAAAGATCAAAACGAGCGACTAGGATTGAACTGCA
22145691 GGTCAAAAAA
Statistics
Matches: 99, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
65 48 0.48
66 50 0.51
67 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.24
Consensus pattern (65 bp):
AAAAATAAAATGATCTGAACTAAGCAAAGATCAAAACGAGCGACTAGGATTGAACTGCAACTTTG
Found at i:22145728 original size:131 final size:130
Alignment explanation
Indices: 22145501--22145736 Score: 294
Period size: 131 Copynumber: 1.8 Consensus size: 130
22145491 TGTAGGTTCA
* ** * * * ***
22145501 AAAAATAAAAGGATCTGGACTGAGCTGAGATCAAAATATGTGACTAGGATTGAATTGTAGGTTTG
1 AAAAATAAAAGGATCTGAACTGAGCAAAGATCAAAAGATGTGACTAGGATTGAACTGCAGGTCAA
* * *
22145566 AAAAATAAAATGATTTGGATTAAGCCAAGATCGAAACTGAGCGATAGAGATTGGACTGCAACTTT
66 AAAAATAAAATGATCTAGATTAAGCCAAGATC-AAAATGAGCGATAGAGATTGGACTGCAACTTT
22145631 G
130 G
*
22145632 AAAAATAAAATGATCTGAACTGAGCAAAGATCAAAACGA-GTGACTAGGATTGAACTGCAGGTCA
1 AAAAATAAAAGGATCTGAACTGAGCAAAGATCAAAA-GATGTGACTAGGATTGAACTGCAGGTCA
* ***
22145696 AAAAAATAAAATGATCTAGATTGAGTTGAGATCAAAATGAG
65 AAAAAATAAAATGATCTAGATTAAGCCAAGATCAAAATGAG
22145737 TGACTGTGAT
Statistics
Matches: 87, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
130 7 0.08
131 79 0.91
132 1 0.01
ACGTcount: A:0.43, C:0.10, G:0.23, T:0.24
Consensus pattern (130 bp):
AAAAATAAAAGGATCTGAACTGAGCAAAGATCAAAAGATGTGACTAGGATTGAACTGCAGGTCAA
AAAAATAAAATGATCTAGATTAAGCCAAGATCAAAATGAGCGATAGAGATTGGACTGCAACTTTG
Found at i:22145768 original size:196 final size:195
Alignment explanation
Indices: 22145437--22145795 Score: 449
Period size: 196 Copynumber: 1.8 Consensus size: 195
22145427 TATAGGTCTA
* ** * ** *
22145437 AAAAATAAAATGATTTAGACTAAGCTGAGATCAAAAAGAGTGATGGGATTGATTTGTAGGTTCAA
1 AAAAATAAAATGATTGAGACTAAGCAAAGATCAAAAAGAGTGATAGGATTGAACTGCAGGTTCAA
* * * * * *
22145502 AAAATAAAAGGATCTGGACTGAGCTGAGATCAAAATATGTGACTAGGATTGAATTGTAGGTTTGA
66 AAAATAAAAGGATCTAGACTGAGCTGAGATCAAAATATGTGACTAGGATTGAATCGCAAGTCTAA
* *
22145567 AAAATAAAATGATTTG-GATTAAGCCAAGATCGAAACTGAGCGATAGAGATTGGACTGCAACTTT
131 AAAATAAAATGATATGAG-CTAAGCCAAGATCGAAACTGAGCGATAGAGATTGGACTGCAACTTT
22145631 G
195 G
* *
22145632 AAAAATAAAATGATCTGA-ACTGAGCAAAGATCAAAACGAGTGACTAGGATTGAACTGCAGG-TC
1 AAAAATAAAATGAT-TGAGACTAAGCAAAGATCAAAAAGAGTGA-TAGGATTGAACTGCAGGTTC
* * *
22145695 AAAAAAATAAAATGATCTAGATTGAGTTGAGATCAAAATGA-GTGACT-GTGATTGAATCGCAAG
64 -AAAAAATAAAAGGATCTAGACTGAGCTGAGATCAAAAT-ATGTGACTAG-GATTGAATCGCAAG
22145758 TCTAAAAAATAAAATGATATGAGCTAAGCCAAGATCGA
126 TCTAAAAAATAAAATGATATGAGCTAAGCCAAGATCGA
22145796 GATGAATGAT
Statistics
Matches: 138, Mismatches: 20, Indels: 11
0.82 0.12 0.07
Matches are distributed among these distances:
195 38 0.28
196 98 0.71
197 2 0.01
ACGTcount: A:0.43, C:0.10, G:0.23, T:0.25
Consensus pattern (195 bp):
AAAAATAAAATGATTGAGACTAAGCAAAGATCAAAAAGAGTGATAGGATTGAACTGCAGGTTCAA
AAAATAAAAGGATCTAGACTGAGCTGAGATCAAAATATGTGACTAGGATTGAATCGCAAGTCTAA
AAAATAAAATGATATGAGCTAAGCCAAGATCGAAACTGAGCGATAGAGATTGGACTGCAACTTTG
Found at i:22145793 original size:65 final size:65
Alignment explanation
Indices: 22145370--22146011 Score: 325
Period size: 65 Copynumber: 9.8 Consensus size: 65
22145360 TCATGAGTTA
* * * * ** **
22145370 AAAAAATGAAATGATCTG-GACTGAGTCGAGATCAAATTTGAGCAACTGAGATTGAA-CTATAGG
1 AAAAAATAAAATGATCTGAGACTAAGCCGAGATCAAA-ATGAGTGACTG-GATTGAATC-GCAGG
22145433 TCT
63 TCT
* * * * * *
22145436 AAAAAATAAAATGAT-TTAGACTAAGCTGAGATCAAAAAGAGTGA-TGGGATTGATTTGTAGGT-
1 AAAAAATAAAATGATCTGAGACTAAGCCGAGATCAAAATGAGTGACT-GGATTGAATCGCAGGTC
22145498 T
65 T
* * * * *
22145499 CAAAAAATAAAAGGATCTG-GACTGAGCTGAGATCAAAAT-ATGTGACTAGGATTGAATTGTAGG
1 -AAAAAATAAAATGATCTGAGACTAAGCCGAGATCAAAATGA-GTGACT-GGATTGAATCGCAGG
*
22145562 TTT
63 TCT
* * * * * * * *
22145565 GAAAAATAAAATGATTTG-GATTAAGCCAAGATCGAAACTGAGCGA-TAGAGATTGGA-CTGCAA
1 AAAAAATAAAATGATCTGAGACTAAGCCGAGATC-AAAATGAGTGACT-G-GATTGAATC-GCAG
* *
22145627 CTTT
62 GTCT
* * ** *
22145631 GAAAAATAAAATGATCTGA-ACTGAGCAAAGATCAAAACGAGTGACTAGGATTGAA-CTGCAGGT
1 AAAAAATAAAATGATCTGAGACTAAGCCGAGATCAAAATGAGTGACT-GGATTGAATC-GCAGGT
*
22145694 CA
64 CT
* * ** *
22145696 AAAAAATAAAATGATCT-AGATTGAGTTGAGATCAAAATGAGTGACTGTGATTGAATCGCAAGTC
1 AAAAAATAAAATGATCTGAGACTAAGCCGAGATCAAAATGAGTGACTG-GATTGAATCGCAGGTC
22145760 T
65 T
* * * * * * * * * *
22145761 AAAAAATAAAATGATATGAG-CTAAGCCAAGATCGAGATGAATGATCAGGGTTAAATCACGGGTC
1 AAAAAATAAAATGATCTGAGACTAAGCCGAGATCAAAATGAGTGA-CTGGATTGAATCGCAGGTC
22145825 T
65 T
* * * * * *
22145826 AAAAAATAAAATGATCT-AAACTGAGCCGATATCAAAACGAGTGACTGAGATTGAATTGCACGT-
1 AAAAAATAAAATGATCTGAGACTAAGCCGAGATCAAAATGAGTGACTG-GATTGAATCGCAGGTC
22145889 T
65 T
* * * * * *
22145890 AGAAAAATAAAATTATCTCA-ACTAAACCGAGATCAAAACTAAGTGACTGGGATTG-AGCTGTGA
1 A-AAAAATAAAATGATCTGAGACTAAGCCGAGATCAAAA-TGAGTGACT-GGATTGAATC-G-CA
*
22145953 GCT-T
61 GGTCT
* * * * *
22145957 AAAAAATAAAATGATCT-AGATTGAGCCAAGATTGAAAACGAGTGACTGGATTGAA
1 AAAAAATAAAATGATCTGAGACTAAGCCGAGA-TCAAAATGAGTGACTGGATTGAA
22146012 CCGTTAGCTA
Statistics
Matches: 444, Mismatches: 102, Indels: 60
0.73 0.17 0.10
Matches are distributed among these distances:
63 2 0.00
64 55 0.12
65 247 0.56
66 129 0.29
67 11 0.02
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.24
Consensus pattern (65 bp):
AAAAAATAAAATGATCTGAGACTAAGCCGAGATCAAAATGAGTGACTGGATTGAATCGCAGGTCT
Found at i:22146001 original size:66 final size:64
Alignment explanation
Indices: 22145827--22146033 Score: 176
Period size: 65 Copynumber: 3.2 Consensus size: 64
22145817 CACGGGTCTA
* *
22145827 AAAAATAAAATGATCTAAACTGAGCC-GATATCAAAACGAGTGACTGAGATTGAAT-TGCA-CGT
1 AAAAATAAAATGATCT-AACTGAGCCAGAT-TCAAAACGAGTGACTGGGATTGACTGTG-AGC-T
22145889 TAG
62 TAG
* * * *
22145892 AAAAATAAAATTATCTCAACTAAACCGAGA-TCAAAACTAAGTGACTGGGATTGAGCTGTGAGCT
1 AAAAATAAAATGATCT-AACTGAGCC-AGATTCAAAAC-GAGTGACTGGGATTGA-CTGTGAGCT
22145956 TA-
62 TAG
* * * *
22145958 AAAAATAAAATGATCTAGATTGAGCCAAGATTGAAAACGAGTGACT-GGATTGAACCGTTAGC-T
1 AAAAATAAAATGATCTA-ACTGAGCC-AGATTCAAAACGAGTGACTGGGATTG-ACTGTGAGCTT
22146021 AG
63 AG
22146023 AAAAATAAAAT
1 AAAAATAAAAT
22146034 TCAAAATTTT
Statistics
Matches: 116, Mismatches: 16, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
64 2 0.02
65 53 0.46
66 45 0.39
67 13 0.11
68 3 0.03
ACGTcount: A:0.44, C:0.13, G:0.19, T:0.23
Consensus pattern (64 bp):
AAAAATAAAATGATCTAACTGAGCCAGATTCAAAACGAGTGACTGGGATTGACTGTGAGCTTAG
Found at i:22148820 original size:23 final size:23
Alignment explanation
Indices: 22148771--22148825 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
22148761 TCAATAAAAA
*
22148771 TAAAT-AAATAATAAAAACTTGT
1 TAAATAAAATAATAAAAAATTGT
*
22148793 AAAATAAAATAATAAAAAAATT-T
1 TAAATAAAATAAT-AAAAAATTGT
22148816 TAAATGAAAA
1 TAAAT-AAAA
22148826 ACTCAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 4 0.15
23 12 0.44
24 11 0.41
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (23 bp):
TAAATAAAATAATAAAAAATTGT
Found at i:22149223 original size:29 final size:29
Alignment explanation
Indices: 22149178--22149234 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
22149168 ACATTTAACT
22149178 CAAAAAACCTAG-TTTTTCCAAAAATTTC
1 CAAAAAACCTAGATTTTTCCAAAAATTTC
*
22149206 CAAAAAATCCTAGATTTTTCCATAAATTT
1 CAAAAAA-CCTAGATTTTTCCAAAAATTT
22149235 AAGCTTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 7 0.27
29 5 0.19
30 14 0.54
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (29 bp):
CAAAAAACCTAGATTTTTCCAAAAATTTC
Found at i:22150164 original size:14 final size:14
Alignment explanation
Indices: 22150145--22150175 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
22150135 TTATTTAAAG
22150145 AAAAATCAAAATAA
1 AAAAATCAAAATAA
22150159 AAAAATCAAAATAA
1 AAAAATCAAAATAA
22150173 AAA
1 AAA
22150176 GGAATGAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAATCAAAATAA
Found at i:22150355 original size:63 final size:61
Alignment explanation
Indices: 22150210--22150495 Score: 365
Period size: 63 Copynumber: 4.7 Consensus size: 61
22150200 TTTTGTGTAG
**
22150210 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAATCCCTTTTTTGAAAATTTATT-TTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTCAAAAAT-ATTTTTTTGAAAATTTATTCTTTTAA
*
22150270 GAAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTGAAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTCAAAAATATTTTTTTGAAAATTTA---TTCTTTTAA
* *
22150333 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTTG-AAATTTCGATT-TTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTCAAAA-ATA-TTTTTTTGAAAATTT--ATTCTTTTAA
* **
22150396 GGAAAATGGATACTTTCAACTTTT-CCTCAAAAATCCTTTTTTGAAAATTTA--CTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTCAAAAATATTTTTTTGAAAATTTATTCTTTTAA
22150454 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTCAAAAATATTTTTTT
22150496 TTGAATTTTT
Statistics
Matches: 200, Mismatches: 13, Indels: 28
0.83 0.05 0.12
Matches are distributed among these distances:
58 40 0.20
59 19 0.09
60 36 0.18
61 11 0.05
62 9 0.05
63 61 0.31
64 6 0.03
65 9 0.05
66 8 0.04
67 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (61 bp):
GGAAAATTGATACTTTCAACTTTTCCCTCAAAAATATTTTTTTGAAAATTTATTCTTTTAA
Found at i:22150537 original size:6 final size:6
Alignment explanation
Indices: 22150518--22150559 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
22150508 TTATTTAAAG
*
22150518 AAAATAT AATAAT AAAAAT AAATAA- AAAAAT AAAAAT AAAAA
1 AAAA-AT AAAAAT AAAAAT AAA-AAT AAAAAT AAAAAT AAAAA
22150560 GAATATTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
5 2 0.06
6 24 0.77
7 5 0.16
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:22150546 original size:12 final size:12
Alignment explanation
Indices: 22150513--22150551 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 12
22150503 TTTTTTTATT
22150513 TAAAGAAAATATAA
1 TAAA-AAAATA-AA
22150527 TAATAAAAATAAA
1 TAA-AAAAATAAA
22150540 TAAAAAAATAAA
1 TAAAAAAATAAA
22150552 AATAAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 9 0.38
13 5 0.21
14 9 0.38
15 1 0.04
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (12 bp):
TAAAAAAATAAA
Found at i:22150569 original size:18 final size:18
Alignment explanation
Indices: 22150519--22150557 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
22150509 TATTTAAAGA
*
22150519 AAATATAATAATAAAAAT
1 AAATAAAATAATAAAAAT
*
22150537 AAATAAAAAAATAAAAAT
1 AAATAAAATAATAAAAAT
22150555 AAA
1 AAA
22150558 AAGAATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (18 bp):
AAATAAAATAATAAAAAT
Found at i:22151572 original size:25 final size:24
Alignment explanation
Indices: 22151544--22151599 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
22151534 TAAAAAAAAA
22151544 ATAATATA-ATAATAATAATACATAT
1 ATAATATATA-AATAA-AATACATAT
*
22151569 ATAACTATATAAATAAATTACATAT
1 ATAA-TATATAAATAAAATACATAT
22151594 A-AATAT
1 ATAATAT
22151600 TAACAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
23 3 0.11
24 2 0.07
25 13 0.46
26 9 0.32
27 1 0.04
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (24 bp):
ATAATATATAAATAAAATACATAT
Found at i:22151763 original size:20 final size:21
Alignment explanation
Indices: 22151738--22151776 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22151728 TTACCCCATT
22151738 TGGGCCAGG-CCCAATTGGTC
1 TGGGCCAGGACCCAATTGGTC
*
22151758 TGGGCCTGGACCCAATTGG
1 TGGGCCAGGACCCAATTGG
22151777 GTGTCTACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.15, C:0.28, G:0.36, T:0.21
Consensus pattern (21 bp):
TGGGCCAGGACCCAATTGGTC
Found at i:22151894 original size:19 final size:17
Alignment explanation
Indices: 22151870--22151928 Score: 64
Period size: 19 Copynumber: 3.3 Consensus size: 17
22151860 AACATTGTCA
* * *
22151870 TTTTTTATTTTTTGTAT
1 TTTTTTTTTTTTTTTGT
22151887 TTTTTTTTGTTTTTTTGT
1 TTTTTTTT-TTTTTTTGT
22151905 TTTTATTATTTTTTTTTGT
1 TTTT-TT-TTTTTTTTTGT
22151924 TTTTT
1 TTTTT
22151929 AACCAAAGCG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 7 0.19
18 12 0.33
19 15 0.42
20 2 0.06
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.86
Consensus pattern (17 bp):
TTTTTTTTTTTTTTTGT
Found at i:22151907 original size:27 final size:27
Alignment explanation
Indices: 22151870--22151928 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
22151860 AACATTGTCA
22151870 TTTTTTATTTTT-TGTATTTTTTTTTGT
1 TTTTTTATTTTTAT-TATTTTTTTTTGT
*
22151897 TTTTTTGTTTTTATTATTTTTTTTTGT
1 TTTTTTATTTTTATTATTTTTTTTTGT
22151924 TTTTT
1 TTTTT
22151929 AACCAAAGCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.86
Consensus pattern (27 bp):
TTTTTTATTTTTATTATTTTTTTTTGT
Found at i:22151929 original size:20 final size:20
Alignment explanation
Indices: 22151877--22151929 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
22151867 TCATTTTTTA
22151877 TTTTTTGTATTTTT-TTTTGT
1 TTTTTTGT-TTTTTATTTTGT
22151897 TTTTTTG-TTTTTATTATT-T
1 TTTTTTGTTTTTTATT-TTGT
22151916 TTTTTTGTTTTTTA
1 TTTTTTGTTTTTTA
22151930 ACCAAAGCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.17
19 10 0.33
20 15 0.50
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (20 bp):
TTTTTTGTTTTTTATTTTGT
Found at i:22152054 original size:42 final size:41
Alignment explanation
Indices: 22151939--22152534 Score: 834
Period size: 42 Copynumber: 14.7 Consensus size: 41
22151929 AACCAAAGCG
* *
22151939 AGAGGCACCATGACTTTGG--AACTAAATTGCTCCTCTAAAC
1 AGAGG-ACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAAC
* *
22151979 AGAGG-CAACGAACTTT-GAAAAGTAAATTGCTCCTCTGAAC
1 AGAGGACCACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAAC
22152019 AGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAAC
1 AGAGG-ACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAAC
*
22152061 AGAGG-CAACGAACTTT-GAAAAGTAAATTGCTCCTCTAAAC
1 AGAGGACCACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAAC
22152101 AGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAAC
1 AGAGG-ACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAAC
*
22152143 AGAGG-CAACGACTTTGGAAAAGTAAATTGCTCCTCTAAAC
1 AGAGGACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAAC
22152183 AGAGG--CACGACTTT-GAAAAGTAAATTGCTCCTCTAAAC
1 AGAGGACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAAC
22152221 AGAGGTACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAAC
1 AGAGG-ACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAAC
*
22152262 AGAGG-CAACGACTTT-GAAAAGTAAATTGCTCCTCTAAAC
1 AGAGGACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAAC
22152301 AGAGGTACCACGAACTTTGG-AAAGTAAATTGCTCCTCTAAAC
1 AGAGG-ACCACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAAC
*
22152343 AAAGGTACCACGACTTTGG-AAAGTAAATTGCTCCTCTAAAC
1 AGAGG-ACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAAC
* *
22152384 AGAGGTACCACGATTTTGGAAGAGTAAATTGCTCCTCTAAAC
1 AGAGG-ACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAAC
*
22152426 AGAGG-CAACGAACTTT-GAAAAGTAAATTGCTCCTCTAAAC
1 AGAGGACCACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAAC
22152466 AGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAAC
1 AGAGG-ACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAAC
*
22152508 AGAGG-CAACGAACTTT-GAAAAGTAAAT
1 AGAGGACCACG-ACTTTGGAAAAGTAAAT
22152535 ACTCCTAGAC
Statistics
Matches: 512, Mismatches: 21, Indels: 46
0.88 0.04 0.08
Matches are distributed among these distances:
38 33 0.06
39 51 0.10
40 148 0.29
41 117 0.23
42 162 0.32
43 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (41 bp):
AGAGGACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAAC
Found at i:22152074 original size:82 final size:79
Alignment explanation
Indices: 22151961--22152534 Score: 832
Period size: 82 Copynumber: 7.1 Consensus size: 79
22151951 ACTTTGGAAC
* *
22151961 TAAATTGCTCCTCTAAACAGAGG-CAACGAACTTTGAAAAGTAAATTGCTCCTCTGAACAGAGGT
1 TAAATTGCTCCTCTAAACAGAGGACCACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG-
22152025 ACCACGACTTTGGAAAAG
64 -CCACGACTTT-GAAAAG
*
22152043 TAAATTGCTCCTCTAAACAGAGG-CAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGT
1 TAAATTGCTCCTCTAAACAGAGGACCACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG-
22152107 ACCACGACTTTGGAAAAG
64 -CCACGACTTT-GAAAAG
*
22152125 TAAATTGCTCCTCTAAACAGAGG-CAACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG-
1 TAAATTGCTCCTCTAAACAGAGGACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGC
22152188 CACGACTTTGAAAAG
65 CACGACTTTGAAAAG
22152203 TAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGC
1 TAAATTGCTCCTCTAAACAGAGG-ACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGC
*
22152268 AACGACTTTGAAAAG
65 CACGACTTTGAAAAG
* *
22152283 TAAATTGCTCCTCTAAACAGAGGTACCACGAACTTTGGAAAGTAAATTGCTCCTCTAAACAAAGG
1 TAAATTGCTCCTCTAAACAGAGG-ACCACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG
*
22152348 TACCACGACTTTGGAAAG
64 --CCACGACTTTGAAAAG
* *
22152366 TAAATTGCTCCTCTAAACAGAGGTACCACGATTTTGGAAGAGTAAATTGCTCCTCTAAACAGAGG
1 TAAATTGCTCCTCTAAACAGAGG-ACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGG
*
22152431 CAACGAACTTTGAAAAG
64 CCACG-ACTTTGAAAAG
22152448 TAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG
1 TAAATTGCTCCTCTAAACAGAGG-ACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGG
*
22152513 CAACGAACTTTGAAAAG
64 CCACG-ACTTTGAAAAG
22152530 TAAAT
1 TAAAT
22152535 ACTCCTAGAC
Statistics
Matches: 468, Mismatches: 15, Indels: 18
0.93 0.03 0.04
Matches are distributed among these distances:
78 29 0.06
79 38 0.08
80 53 0.11
81 41 0.09
82 237 0.51
83 70 0.15
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (79 bp):
TAAATTGCTCCTCTAAACAGAGGACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCC
ACGACTTTGAAAAG
Found at i:22153845 original size:7 final size:7
Alignment explanation
Indices: 22153782--22153844 Score: 76
Period size: 7 Copynumber: 9.1 Consensus size: 7
22153772 TTGAATCTCT
*
22153782 TTTTTTA
1 TTTTTTC
*
22153789 TTTTTTA
1 TTTTTTC
22153796 TTTTTTC
1 TTTTTTC
22153803 ATTTTTTC
1 -TTTTTTC
22153811 TTTTTTC
1 TTTTTTC
22153818 TTTTTT-
1 TTTTTTC
22153824 TTTTTT-
1 TTTTTTC
22153830 TTTTTTC
1 TTTTTTC
*
22153837 TCTTTTC
1 TTTTTTC
22153844 T
1 T
22153845 CATTTTTCAT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
6 12 0.23
7 33 0.63
8 7 0.13
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTC
Found at i:22153851 original size:1 final size:1
Alignment explanation
Indices: 22153781--22153835 Score: 56
Period size: 1 Copynumber: 55.0 Consensus size: 1
22153771 TTTGAATCTC
* * ** * *
22153781 TTTTTTTATTTTTTATTTTTTCATTTTTTCTTTTTTCTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
22153836 CTCTTTTCTC
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.05, C:0.05, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:22157610 original size:14 final size:14
Alignment explanation
Indices: 22157591--22157621 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
22157581 TTATTTAAAG
22157591 AAAAATCAAAATAA
1 AAAAATCAAAATAA
22157605 AAAAATCAAAATAA
1 AAAAATCAAAATAA
22157619 AAA
1 AAA
22157622 GGAATGAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAATCAAAATAA
Found at i:22157799 original size:63 final size:61
Alignment explanation
Indices: 22157654--22157939 Score: 365
Period size: 63 Copynumber: 4.7 Consensus size: 61
22157644 TTTTGTGTAG
**
22157654 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAATCCCTTTTTTGAAAATTTATT-TTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTCAAAAAT-ATTTTTTTGAAAATTTATTCTTTTAA
*
22157714 GAAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTGAAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTCAAAAATATTTTTTTGAAAATTTA---TTCTTTTAA
* *
22157777 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTTG-AAATTTCGATT-TTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTCAAAA-ATA-TTTTTTTGAAAATTT--ATTCTTTTAA
* **
22157840 GGAAAATGGATACTTTCAACTTTT-CCTCAAAAATCCTTTTTTGAAAATTTA--CTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTCAAAAATATTTTTTTGAAAATTTATTCTTTTAA
22157898 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTCAAAAATATTTTTTT
22157940 TTGAATTTTT
Statistics
Matches: 200, Mismatches: 13, Indels: 28
0.83 0.05 0.12
Matches are distributed among these distances:
58 40 0.20
59 19 0.09
60 36 0.18
61 11 0.05
62 9 0.05
63 61 0.31
64 6 0.03
65 9 0.05
66 8 0.04
67 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (61 bp):
GGAAAATTGATACTTTCAACTTTTCCCTCAAAAATATTTTTTTGAAAATTTATTCTTTTAA
Found at i:22157986 original size:13 final size:14
Alignment explanation
Indices: 22157965--22158009 Score: 65
Period size: 13 Copynumber: 3.2 Consensus size: 14
22157955 TTATTTAAAG
22157965 AAAATATAATAATAA
1 AAAATA-AATAATAA
22157980 AAAATAAATAA-AA
1 AAAATAAATAATAA
*
22157993 AAAATAAAAAATAA
1 AAAATAAATAATAA
22158007 AAA
1 AAA
22158010 GAATATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 12 0.43
14 10 0.36
15 6 0.21
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (14 bp):
AAAATAAATAATAA
Found at i:22157987 original size:7 final size:7
Alignment explanation
Indices: 22157965--22158009 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
22157955 TTATTTAAAG
22157965 AAAATATA
1 AAAATA-A
*
22157973 ATAATAA
1 AAAATAA
22157980 AAAATAA
1 AAAATAA
*
22157987 ATAA-AA
1 AAAATAA
22157993 AAAATAA
1 AAAATAA
22158000 AAAATAA
1 AAAATAA
22158007 AAA
1 AAA
22158010 GAATATTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
6 5 0.16
7 22 0.69
8 5 0.16
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (7 bp):
AAAATAA
Found at i:22157991 original size:11 final size:11
Alignment explanation
Indices: 22157975--22158007 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
22157965 AAAATATAAT
22157975 AATAAAAAATA
1 AATAAAAAATA
22157986 AAT-AAAAA-A
1 AATAAAAAATA
22157995 AATAAAAAATA
1 AATAAAAAATA
22158006 AA
1 AA
22158008 AAGAATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.20
10 10 0.50
11 6 0.30
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AATAAAAAATA
Found at i:22157993 original size:121 final size:120
Alignment explanation
Indices: 22157770--22157994 Score: 256
Period size: 121 Copynumber: 1.9 Consensus size: 120
22157760 ATTTATTTTT
22157770 CTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTTGAAATTTCGATTT
1 CTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTTGAAATTTCGATTT
* * * * *** ***
22157835 TTCAAGGAAAATGGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTA
66 TTCAAAGAAAAT-GATAATATAAAAAATAAATCAAAAATCCTTTTTTGAAAATTTA
* **
22157891 CTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTTTTTGAATTTTTGCTTT
1 CTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTTGAA-ATTT-CGAT
* *
22157955 TTATTTAAAGAAAAT-ATAATAATAAAAAATAAATAAAAAA
64 TT-TTCAAAGAAAATGATAAT-ATAAAAAATAAATCAAAAA
22157995 AATAAAAAAT
Statistics
Matches: 85, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
120 11 0.13
121 50 0.59
122 14 0.16
123 10 0.12
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (120 bp):
CTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTTGAAATTTCGATTT
TTCAAAGAAAATGATAATATAAAAAATAAATCAAAAATCCTTTTTTGAAAATTTA
Found at i:22159014 original size:17 final size:19
Alignment explanation
Indices: 22158994--22159034 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
22158984 TAAACCTAAA
*
22158994 AATATATTATAA-AA-AAT
1 AATATAATATAATAATAAT
22159011 AATAATAATATAATAATAAT
1 AAT-ATAATATAATAATAAT
22159031 AATA
1 AATA
22159035 CATATATAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 3 0.15
18 8 0.40
19 3 0.15
20 6 0.30
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AATATAATATAATAATAAT
Found at i:22159025 original size:14 final size:14
Alignment explanation
Indices: 22159008--22159034 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22158998 TATTATAAAA
22159008 AATAATAATAATAT
1 AATAATAATAATAT
22159022 AATAATAATAATA
1 AATAATAATAATA
22159035 CATATATAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AATAATAATAATAT
Found at i:22159234 original size:20 final size:21
Alignment explanation
Indices: 22159209--22159247 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22159199 TTACCCCATT
22159209 TGGGCCAGG-CCCAATTGGTC
1 TGGGCCAGGACCCAATTGGTC
*
22159229 TGGGCCTGGACCCAATTGG
1 TGGGCCAGGACCCAATTGG
22159248 GTGTCTACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.15, C:0.28, G:0.36, T:0.21
Consensus pattern (21 bp):
TGGGCCAGGACCCAATTGGTC
Found at i:22159296 original size:6 final size:6
Alignment explanation
Indices: 22159287--22159326 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
22159277 TATTTATATG
* *
22159287 TTTTCT TTTTCT TTTTCCT TTTTTT TTTTCT TTTTAT TTT
1 TTTTCT TTTTCT TTTT-CT TTTTCT TTTTCT TTTTCT TTT
22159327 ATACTTTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:22162100 original size:21 final size:21
Alignment explanation
Indices: 22162076--22162117 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
22162066 AAAAAAGCAC
*
22162076 TAAAAACAATGAAAAATAGAT
1 TAAAAACAAAGAAAAATAGAT
**
22162097 TAAAATGAAAGAAAAATAGAT
1 TAAAAACAAAGAAAAATAGAT
22162118 GAACAATAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.67, C:0.02, G:0.12, T:0.19
Consensus pattern (21 bp):
TAAAAACAAAGAAAAATAGAT
Found at i:22165238 original size:160 final size:160
Alignment explanation
Indices: 22164974--22165309 Score: 654
Period size: 160 Copynumber: 2.1 Consensus size: 160
22164964 TTAAATCTTT
22164974 CAATAGTTTGGTAAGACTTAATTTAGGATGCAAATCCTCCAAAATTTGTTAGGATCACAACAAAA
1 CAATAGTTTGGTAAGACTTAATTTAGGATGCAAATCCTCCAAAATTTGTTAGGATCACAACAAAA
*
22165039 TATTTTATTAGTAAATTTTTTTATAAAATTGATTTATGAGATTCTTCAATAGTTTGGTAAAATTT
66 TATTTTATTAGTAAATTTTTTTATAAAATTGATTTATGAGATTCTACAATAGTTTGGTAAAATTT
22165104 ATAAAAAATTTAAATTCATGAAAAATCCTC
131 ATAAAAAATTTAAATTCATGAAAAATCCTC
22165134 CAATAGTTTGGTAAGACTTAATTTAGGATGCAAATCCTCCAAAATTTGTTAGGATCACAACAAAA
1 CAATAGTTTGGTAAGACTTAATTTAGGATGCAAATCCTCCAAAATTTGTTAGGATCACAACAAAA
22165199 TATTTTATTAGTAAATTTTTTTATAAAATTGATTTATGAGATTCTACAATAGTTTGGTAAAATTT
66 TATTTTATTAGTAAATTTTTTTATAAAATTGATTTATGAGATTCTACAATAGTTTGGTAAAATTT
22165264 ATAAAAAATTTAAATTCATGAAAAATCCTC
131 ATAAAAAATTTAAATTCATGAAAAATCCTC
*
22165294 CAATAGTTTAGTAAGA
1 CAATAGTTTGGTAAGA
22165310 TTGATGAATT
Statistics
Matches: 174, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
160 174 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (160 bp):
CAATAGTTTGGTAAGACTTAATTTAGGATGCAAATCCTCCAAAATTTGTTAGGATCACAACAAAA
TATTTTATTAGTAAATTTTTTTATAAAATTGATTTATGAGATTCTACAATAGTTTGGTAAAATTT
ATAAAAAATTTAAATTCATGAAAAATCCTC
Found at i:22165456 original size:19 final size:18
Alignment explanation
Indices: 22165431--22165547 Score: 61
Period size: 19 Copynumber: 6.7 Consensus size: 18
22165421 AAGTAATGAG
22165431 TAAAATAATAATTAAATA
1 TAAAATAATAATTAAATA
*
22165449 TGAAAATAATAA-TAAGTA
1 T-AAAATAATAATTAAATA
* *
22165467 -AAAGTAA-AA--AAATC
1 TAAAATAATAATTAAATA
*
22165481 TAAAAATAA-AATGAAA-A
1 T-AAAATAATAATTAAATA
* * *
22165498 TAAAAGAGAAAAAGTAAA-A
1 T-AAA-ATAATAATTAAATA
*
22165517 TAAAATAATAATTAAAGA
1 TAAAATAATAATTAAATA
22165535 TGAAAATAATAAT
1 T-AAAATAATAAT
22165548 AATAAGTAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
14 3 0.04
15 2 0.03
16 14 0.18
17 14 0.18
18 17 0.22
19 28 0.36
ACGTcount: A:0.68, C:0.01, G:0.08, T:0.23
Consensus pattern (18 bp):
TAAAATAATAATTAAATA
Found at i:22165459 original size:22 final size:21
Alignment explanation
Indices: 22165434--22165550 Score: 75
Period size: 22 Copynumber: 5.4 Consensus size: 21
22165424 TAATGAGTAA
22165434 AATAATAATTAAATATGAAAAT
1 AATAATAATTAAA-ATGAAAAT
* *
22165456 AATAATAAGTAAAA-GTAAAAA
1 AATAATAATTAAAATG-AAAAT
*
22165477 AATCTAA-AAATAAAATGAAAAT
1 AA--TAATAATTAAAATGAAAAT
*
22165499 AA-AAGAGA--AAAA-GTAAAAT
1 AATAATA-ATTAAAATG-AAAAT
22165518 AAAATAATAATTAAAGATGAAAAT
1 --AATAATAATTAAA-ATGAAAAT
22165542 AATAATAAT
1 AATAATAAT
22165551 AAGTAAAAAT
Statistics
Matches: 76, Mismatches: 5, Indels: 28
0.70 0.05 0.26
Matches are distributed among these distances:
18 1 0.01
19 11 0.14
20 2 0.03
21 11 0.14
22 37 0.49
23 7 0.09
24 6 0.08
25 1 0.01
ACGTcount: A:0.68, C:0.01, G:0.08, T:0.23
Consensus pattern (21 bp):
AATAATAATTAAAATGAAAAT
Found at i:22165527 original size:89 final size:88
Alignment explanation
Indices: 22165431--22165611 Score: 269
Period size: 89 Copynumber: 2.1 Consensus size: 88
22165421 AAGTAATGAG
* *
22165431 TAAAATAATAATTAAATATG-AA-AATAATAATAAGTAAAAGTAAAAAAATCTAAAAATAAAATG
1 TAAAATAATAATTAAAGATGAAATAATAATAATAAGTAAAAATAAAAAAATCTAAAAATAAAATG
22165494 AAAATAAAAGAGAAAAAGT-AAAA
66 AAAATAAAAGAGAAAAA-TAAAAA
* * *
22165517 TAAAATAATAATTAAAGATGAAAATAATAATAATAAGTAAAAATAAGAAATTGTAAAAATAAAAT
1 TAAAATAATAATTAAAGATG-AAATAATAATAATAAGTAAAAATAAAAAAATCTAAAAATAAAAT
*
22165582 GAAAATAAAATAGAAAAATAAAAA
65 GAAAATAAAAGAGAAAAATAAAAA
22165606 TAAAAT
1 TAAAAT
22165612 CAAAAAAGAA
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
86 19 0.22
88 3 0.04
89 63 0.74
ACGTcount: A:0.70, C:0.01, G:0.08, T:0.22
Consensus pattern (88 bp):
TAAAATAATAATTAAAGATGAAATAATAATAATAAGTAAAAATAAAAAAATCTAAAAATAAAATG
AAAATAAAAGAGAAAAATAAAAA
Found at i:22165559 original size:19 final size:19
Alignment explanation
Indices: 22165518--22165562 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
22165508 AAAGTAAAAT
* *
22165518 AAAATAATAATTAAAGATG
1 AAAATAATAATAAAAGATA
22165537 AAAATAATAATAATAAG-TA
1 AAAATAATAATAA-AAGATA
22165556 AAAATAA
1 AAAATAA
22165563 GAAATTGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (19 bp):
AAAATAATAATAAAAGATA
Found at i:22165581 original size:83 final size:84
Alignment explanation
Indices: 22165431--22165604 Score: 196
Period size: 86 Copynumber: 2.1 Consensus size: 84
22165421 AAGTAATGAG
* *
22165431 TAAAATAATAATTAAATATGAAAATAATAATAAGTAAAAGTAAAAAAATCTAAAAATAAAATGAA
1 TAAAATAATAATTAAAGATGAAAATAATAATAAGT-AAAGTAAAAAAA-CGAAAAATAAAATGAA
*
22165496 AAT-AAAAGAGAAAAAGTAAAA
64 AATGAAAAGA-AAAAAGAAAAA
**
22165517 TAAAATAATAATTAAAGATGAAAATAATAATAA-T-AAGTAAAAATAA-GAAATTGTAAAAAT-A
1 TAAAATAATAATTAAAGATGAAAATAATAATAAGTAAAGTAAAAA-AACGAAA-AAT-AAAATGA
* *
22165578 AAATGAAAATAAAATAGAAAAA
63 AAATGAAAAGAAAAAAGAAAAA
22165600 TAAAA
1 TAAAA
22165605 ATAAAATCAA
Statistics
Matches: 77, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
82 3 0.04
83 29 0.38
84 12 0.16
85 1 0.01
86 32 0.42
ACGTcount: A:0.70, C:0.01, G:0.08, T:0.22
Consensus pattern (84 bp):
TAAAATAATAATTAAAGATGAAAATAATAATAAGTAAAGTAAAAAAACGAAAAATAAAATGAAAA
TGAAAAGAAAAAAGAAAAA
Found at i:22165599 original size:19 final size:19
Alignment explanation
Indices: 22165577--22165625 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
22165567 TTGTAAAAAT
22165577 AAAATGAAAATAAAAT-AGA
1 AAAATGAAAATAAAATCA-A
*
22165596 AAAATAAAAATAAAATCAA
1 AAAATGAAAATAAAATCAA
22165615 AAAA-GAAAATA
1 AAAATGAAAATA
22165626 GGATGAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 6 0.22
19 20 0.74
20 1 0.04
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (19 bp):
AAAATGAAAATAAAATCAA
Found at i:22165602 original size:24 final size:24
Alignment explanation
Indices: 22165571--22165646 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
22165561 AAGAAATTGT
*
22165571 AAAAATAAAATGAAAATAAAATAG
1 AAAAATAAAATGAAAATAAAAAAG
22165595 AAAAATAAAAAT-AAAATCAAAAAAG
1 AAAAAT-AAAATGAAAAT-AAAAAAG
** *
22165620 -AAAATAGGATGAAAAAAAAAAAG
1 AAAAATAAAATGAAAATAAAAAAG
22165643 AAAA
1 AAAA
22165647 CCTACAATTG
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
23 10 0.23
24 23 0.52
25 11 0.25
ACGTcount: A:0.78, C:0.01, G:0.09, T:0.12
Consensus pattern (24 bp):
AAAAATAAAATGAAAATAAAAAAG
Found at i:22165616 original size:6 final size:5
Alignment explanation
Indices: 22165483--22165616 Score: 51
Period size: 5 Copynumber: 24.8 Consensus size: 5
22165473 AAAAAATCTA
* * *
22165483 AAAAT AAAAT GAAAAT AAAAG AGAA- AAAGT AAAAT AAAAT AATAATT
1 AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA-AA-T
***
22165530 AAAGAT GAAAAT AATAAT AATAAGT AAAAAT AAGAA- ATTGT AAAAAT AAAAT
1 AAA-AT -AAAAT AA-AAT AA-AA-T -AAAAT AA-AAT AAAAT -AAAAT AAAAT
*
22165582 GAAAAT AAAAT -AGA- AAAAT AAAAAT AAAAT CAAAA
1 -AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT -AAAA
22165617 AAGAAAATAG
Statistics
Matches: 99, Mismatches: 13, Indels: 33
0.68 0.09 0.23
Matches are distributed among these distances:
4 6 0.06
5 43 0.43
6 38 0.38
7 10 0.10
8 2 0.02
ACGTcount: A:0.72, C:0.01, G:0.08, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:22165623 original size:6 final size:6
Alignment explanation
Indices: 22165481--22165610 Score: 70
Period size: 6 Copynumber: 20.8 Consensus size: 6
22165471 TAAAAAAATC
* * *
22165481 TAAAAA T-AAAA TGAAAA TAAAAGA GAAAAA GT-AAAA T-AAAA TAATAAT
1 TAAAAA TAAAAA TAAAAA TAAAA-A TAAAAA -TAAAAA TAAAAA TAA-AAA
* * * *
22165529 TAAAGA TGAAAA TAATAA TAATAAG TAAAAA TAAGAAA TTGTAAAAA T-AAAA
1 TAAAAA TAAAAA TAAAAA TAA-AAA TAAAAA TAA-AAA ---TAAAAA TAAAAA
* *
22165581 TGAAAA TAAAATA GAAAAA TAAAAA TAAAA
1 TAAAAA TAAAA-A TAAAAA TAAAAA TAAAA
22165611 TCAAAAAAGA
Statistics
Matches: 96, Mismatches: 16, Indels: 24
0.71 0.12 0.18
Matches are distributed among these distances:
5 16 0.17
6 52 0.54
7 22 0.23
9 3 0.03
10 3 0.03
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:22165641 original size:18 final size:18
Alignment explanation
Indices: 22165583--22165646 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
22165573 AAATAAAATG
*
22165583 AAAATAAAATAGAAAAATA
1 AAAATAAAAT-GAAAAAAA
* *
22165602 AAAATAAAATCAAAAAAG
1 AAAATAAAATGAAAAAAA
**
22165620 AAAATAGGATGAAAAAAA
1 AAAATAAAATGAAAAAAA
*
22165638 AAAAGAAAA
1 AAAATAAAA
22165647 CCTACAATTG
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
18 25 0.71
19 10 0.29
ACGTcount: A:0.78, C:0.02, G:0.09, T:0.11
Consensus pattern (18 bp):
AAAATAAAATGAAAAAAA
Found at i:22166971 original size:65 final size:65
Alignment explanation
Indices: 22166790--22166961 Score: 220
Period size: 65 Copynumber: 2.6 Consensus size: 65
22166780 TGTAGGTCTA
* ** * * * *
22166790 AAAAATAAAATGATCTTAACTAAGCTAAGATAAAAAAAAGTGTTCGGGAGTGAACTGCGGGTTTG
1 AAAAATAAAATGATATGGACTAAGCAAAGATCAAAATAAGTGTTCGGGATTGAACTGCGGGTTTG
* ** *
22166855 AAAAATAAAATGATTTGGACTAAGCTAAA-ATCAAAATGGGTGTTCGGGATTGAACTGTGGGTTT
1 AAAAATAAAATGATATGGACTAAGC-AAAGATCAAAATAAGTGTTCGGGATTGAACTGCGGGTTT
22166919 G
65 G
*
22166920 AAAAATAAAATGATATGGACTGAGCAAAGATCAAAATAAGTG
1 AAAAATAAAATGATATGGACTAAGCAAAGATCAAAATAAGTG
22166962 ACCAGGATTG
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
64 3 0.03
65 86 0.95
66 2 0.02
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.25
Consensus pattern (65 bp):
AAAAATAAAATGATATGGACTAAGCAAAGATCAAAATAAGTGTTCGGGATTGAACTGCGGGTTTG
Found at i:22167027 original size:65 final size:65
Alignment explanation
Indices: 22166920--22167128 Score: 192
Period size: 65 Copynumber: 3.2 Consensus size: 65
22166910 TGTGGGTTTG
* * * *
22166920 AAAAATAAAATGATAT-GGACTGAGCAAAGATCAAAATAAGTGACCAGGATTGTACCACAGGTCA
1 AAAAATAAAATGATATAGG-CTGAGCCAAGATCGAAATGAGTGACTAGGATTGTACCACAGGTCA
22166984 A
65 A
* * * *
22166985 AAAAATAAAATGATATAGGTTGAGCCAAGATCGAGATGAGTGACTATGATTGAATAGCA-A-GTC
1 AAAAATAAAATGATATAGGCTGAGCCAAGATCGAAATGAGTGACTAGGATTG--TACCACAGGTC
*
22167048 TA
64 AA
* * * ** * * * *
22167050 AAAAATAAAATGATCTAGACTGAGTCGCGATCGAAATGAGTGACTGGGATTGAATCGCAGG-CTA
1 AAAAATAAAATGATATAGGCTGAGCCAAGATCGAAATGAGTGACTAGGATTGTACCACAGGTC-A
22167114 A
65 A
22167115 AAAAATAAAATGAT
1 AAAAATAAAATGAT
22167129 CACGATCAAG
Statistics
Matches: 116, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
63 2 0.02
64 2 0.02
65 105 0.91
66 3 0.03
67 4 0.03
ACGTcount: A:0.45, C:0.11, G:0.22, T:0.22
Consensus pattern (65 bp):
AAAAATAAAATGATATAGGCTGAGCCAAGATCGAAATGAGTGACTAGGATTGTACCACAGGTCAA
Found at i:22167129 original size:65 final size:66
Alignment explanation
Indices: 22166983--22167256 Score: 208
Period size: 65 Copynumber: 4.2 Consensus size: 66
22166973 ACCACAGGTC
** * * ** * ** *
22166983 AAAAAAATAAAATGATATAGGTTGAGCCAAGATCGAGATGAGTGACTATGATTGAATAGCA-AGT
1 AAAAAAATAAAATGATATAGACTAAGTCGCGATCGAAATGAGTGACTGGGATTGAATCGCAGAG-
22167047 CT
65 CT
* *
22167049 -AAAAAATAAAATGATCTAGACTGAGTCGCGATCGAAATGAGTGACTGGGATTGAATCGCAG-GC
1 AAAAAAATAAAATGATATAGACTAAGTCGCGATCGAAATGAGTGACTGGGATTGAATCGCAGAGC
22167112 T
66 T
* * * * * *
22167113 AAAAAAATAAAATGATCA-CGA-TCAAG-CTGGGATCGAAACTAAGTGATTGGTATTGAATCG-T
1 AAAAAAATAAAATGAT-ATAGACT-AAGTC-GCGATCGAAA-TGAGTGACTGGGATTGAATCGCA
22167174 GAGCT
62 GAGCT
** * *
22167179 TGAAAAATAAAATGATATGGACTAAGTCGCGATTGAAATGAGTGACCT-GGATTGAA-CTGC-GA
1 AAAAAAATAAAATGATATAGACTAAGTCGCGATCGAAATGAGTGA-CTGGGATTGAATC-GCAGA
22167241 GCT
64 GCT
*
22167244 AGAAAAATAAAAT
1 AAAAAAATAAAAT
22167257 TCAAAACTTC
Statistics
Matches: 168, Mismatches: 27, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
64 5 0.03
65 112 0.67
66 49 0.29
67 2 0.01
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.23
Consensus pattern (66 bp):
AAAAAAATAAAATGATATAGACTAAGTCGCGATCGAAATGAGTGACTGGGATTGAATCGCAGAGC
T
Found at i:22167724 original size:4 final size:4
Alignment explanation
Indices: 22167715--22167844 Score: 58
Period size: 4 Copynumber: 32.8 Consensus size: 4
22167705 CTTATGTATT
* *
22167715 TTTA TTTA TTTA TTTA -TTA TTACTA TTTA TTAATA TATA TATA TTTA
1 TTTA TTTA TTTA TTTA TTTA TT--TA TTTA TT--TA TTTA TTTA TTTA
* * * *
22167762 TTT- TTTA -TTA TTTA TCT- GTTA GTATA TGTA TTTA -TTA -TTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA
* * * * *
22167806 TCTA TTTA TCTA TTAA TATT- TTTA TTTA TCTA ATTA TTT
1 TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTT
22167845 TCTTTTAATT
Statistics
Matches: 95, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
3 18 0.19
4 67 0.71
5 3 0.03
6 7 0.07
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (4 bp):
TTTA
Found at i:22167770 original size:7 final size:7
Alignment explanation
Indices: 22167706--22167834 Score: 63
Period size: 7 Copynumber: 17.6 Consensus size: 7
22167696 TTTTTGTATC
22167706 TTATGTAT
1 TTAT-TAT
22167714 TT-TTAT
1 TTATTAT
22167720 TTATTTAT
1 TTA-TTAT
22167728 TTATTA-
1 TTATTAT
*
22167734 TTACTAT
1 TTATTAT
22167741 TTATTAAT
1 TTATT-AT
22167749 ATATATATAT
1 -T-TAT-TAT
*
22167759 TTATTTT
1 TTATTAT
22167766 TTATTAT
1 TTATTAT
*
22167773 TTATCT-G
1 TTAT-TAT
22167780 TTAGTATAT
1 TTA-T-TAT
*
22167789 GTATT-T
1 TTATTAT
22167795 ATTATTAT
1 -TTATTAT
22167803 TTATCTAT
1 TTAT-TAT
22167811 TTATCTA-
1 TTAT-TAT
*
22167818 TTAATAT
1 TTATTAT
22167825 TT-TTAT
1 TTATTAT
22167831 TTAT
1 TTAT
22167835 CTAATTATTT
Statistics
Matches: 95, Mismatches: 11, Indels: 31
0.69 0.08 0.23
Matches are distributed among these distances:
6 18 0.19
7 38 0.40
8 29 0.31
9 4 0.04
10 5 0.05
11 1 0.01
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (7 bp):
TTATTAT
Found at i:22167832 original size:38 final size:37
Alignment explanation
Indices: 22167711--22167844 Score: 121
Period size: 38 Copynumber: 3.6 Consensus size: 37
22167701 GTATCTTATG
*
22167711 TATTTTTATTTA-T-TTATTTATTATTACTATTTATTAA
1 TATTTTTATTTATTATTATTTATTATT--TATCTATTAA
* * * * * *
22167748 TATATATATAT-TTATTTTTTATTATTTATCTGTTAG
1 TATTTTTATTTATTATTATTTATTATTTATCTATTAA
* *
22167784 TATATGTATTTATTATTATTTATCTATTTATCTATTAA
1 TATTTTTATTTATTATTATTTAT-TATTTATCTATTAA
22167822 TATTTTTATTTATCTAATTATTT
1 TATTTTTATTTAT-T-ATTATTT
22167845 TCTTTTAATT
Statistics
Matches: 77, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
36 16 0.21
37 19 0.25
38 34 0.44
39 1 0.01
40 7 0.09
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (37 bp):
TATTTTTATTTATTATTATTTATTATTTATCTATTAA
Found at i:22168167 original size:21 final size:22
Alignment explanation
Indices: 22168143--22168185 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
22168133 TAGCTTTAGG
22168143 AATTGATGG-GAATTTTTTTTT
1 AATTGATGGTGAATTTTTTTTT
** *
22168164 AATTTTTGGTGATTTTTTTTTT
1 AATTGATGGTGAATTTTTTTTT
22168186 GGAAATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.65
Consensus pattern (22 bp):
AATTGATGGTGAATTTTTTTTT
Found at i:22168205 original size:25 final size:22
Alignment explanation
Indices: 22168153--22168205 Score: 52
Period size: 25 Copynumber: 2.3 Consensus size: 22
22168143 AATTGATGGG
**
22168153 AATTTTTTTTTAATTTTTGGTG
1 AATTTTTTTTTAATTTTTGGAA
*
22168175 ATTTTTTTTTTGGAAATTTTTGGAA
1 AATTTTTTTTT---AATTTTTGGAA
22168200 AATTTT
1 AATTTT
22168206 CAGATTTTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
22 10 0.42
25 14 0.58
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.64
Consensus pattern (22 bp):
AATTTTTTTTTAATTTTTGGAA
Found at i:22168256 original size:31 final size:31
Alignment explanation
Indices: 22168221--22168279 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
22168211 TTTGGTTGAA
*
22168221 TTTTTTGACAAAGTTTGAATTTTTCGGTGAC
1 TTTTTCGACAAAGTTTGAATTTTTCGGTGAC
* *
22168252 TTTTTCGGCCAAGTTTGAATTTTTCGGT
1 TTTTTCGACAAAGTTTGAATTTTTCGGT
22168280 CAGCTACCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.19, C:0.12, G:0.20, T:0.49
Consensus pattern (31 bp):
TTTTTCGACAAAGTTTGAATTTTTCGGTGAC
Found at i:22168662 original size:7 final size:7
Alignment explanation
Indices: 22168659--22168696 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
22168649 TTCTTATTAT
22168659 TTATTTA
1 TTATTTA
22168666 TTATTTA
1 TTATTTA
22168673 TTATTTTTA
1 TTA--TTTA
22168682 TTATTT-
1 TTATTTA
22168688 TTATTTA
1 TTATTTA
22168695 TT
1 TT
22168697 GATTAGATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
6 6 0.21
7 15 0.54
9 7 0.25
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTATTTA
Found at i:22168706 original size:22 final size:23
Alignment explanation
Indices: 22168659--22168706 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
22168649 TTCTTATTAT
**
22168659 TTATTTATTATTTATTATTTTTA
1 TTATTTATTATTTATTATTTAGA
22168682 TTATTT-TTATTTATTGA-TTAGA
1 TTATTTATTATTTATT-ATTTAGA
22168704 TTA
1 TTA
22168707 GAATTGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (23 bp):
TTATTTATTATTTATTATTTAGA
Found at i:22168767 original size:21 final size:21
Alignment explanation
Indices: 22168721--22168761 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
22168711 TGTTTAATAC
*
22168721 TTTTTATTTTACTTTTCTTTA
1 TTTTTATTTTACTTTTATTTA
22168742 TTTTTATTTTTA-TTTTATTT
1 TTTTTA-TTTTACTTTTATTT
22168762 TCTTTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTATTTTACTTTTATTTA
Found at i:22168849 original size:57 final size:58
Alignment explanation
Indices: 22168784--22168944 Score: 182
Period size: 60 Copynumber: 2.8 Consensus size: 58
22168774 ATAAAATTCA
* * * *
22168784 AAAAAAAAATTTTAAGGAAAAGTTTAAAATATCAATTTTCCTTGAAAAT-AAGTTTTT
1 AAAAAAAAATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTCT
* *
22168841 CAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCT
1 -AAAAAAAA-A-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTCT
** * * *
22168902 -AAAAAATCTTTTGGGGAAAAGTTGAAAGTATTAATTTTTCTTG
1 AAAAAAAAATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
22168945 TACAAAAGCA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
57 31 0.35
58 8 0.09
59 7 0.08
60 35 0.40
61 7 0.08
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (58 bp):
AAAAAAAAATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTCT
Found at i:22172119 original size:15 final size:15
Alignment explanation
Indices: 22172099--22172129 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22172089 TTTACATACA
*
22172099 TGCATTCTCATTCAT
1 TGCATTCTCACTCAT
22172114 TGCATTCTCACTCAT
1 TGCATTCTCACTCAT
22172129 T
1 T
22172130 ACACTTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.29, G:0.06, T:0.45
Consensus pattern (15 bp):
TGCATTCTCACTCAT
Found at i:22179366 original size:15 final size:15
Alignment explanation
Indices: 22179337--22179376 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
22179327 AAAAAAAATG
22179337 AAAAATG-AAACAAA
1 AAAAATGAAAACAAA
*
22179351 AAAAATGAAAAGAAA
1 AAAAATGAAAACAAA
22179366 AAAAATGAAAA
1 AAAAATGAAAA
22179377 AAAGTGAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.80, C:0.03, G:0.10, T:0.07
Consensus pattern (15 bp):
AAAAATGAAAACAAA
Found at i:22180433 original size:41 final size:41
Alignment explanation
Indices: 22180388--22180513 Score: 132
Period size: 41 Copynumber: 3.0 Consensus size: 41
22180378 TTGTCAAAGG
*
22180388 GCAATCTATTTTTC-AAAGTTATGATGCCTCTGATTAGAGGA
1 GCAATTTA-TTTTCAAAAGTTATGATGCCTCTGATTAGAGGA
** * *
22180429 GCAATTTACTTCCCAAAAGTTGTGATGCCT-TTATTTAGAGGA
1 GCAATTTA-TTTTCAAAAGTTATGATGCCTCTGA-TTAGAGGA
* *
22180471 ACAATTTATTTTCAAAAGTTGTTGA-GCCTCTGATTAGAGGA
1 GCAATTTATTTTCAAAAGTT-ATGATGCCTCTGATTAGAGGA
22180512 GC
1 GC
22180514 TTTGTTTATT
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
41 35 0.51
42 34 0.49
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (41 bp):
GCAATTTATTTTCAAAAGTTATGATGCCTCTGATTAGAGGA
Found at i:22180449 original size:42 final size:41
Alignment explanation
Indices: 22180402--22180513 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 41
22180392 TCTATTTTTC
22180402 AAAGTTATGATGCCTCTGATTAGAGGAGCAATTTACTTCCCA
1 AAAGTTATGATGCCTCTGATTAGAGGAGCAATTTA-TTCCCA
* * * **
22180444 AAAGTTGTGATGCCT-TTATTTAGAGGAACAATTTATTTTCA
1 AAAGTTATGATGCCTCTGA-TTAGAGGAGCAATTTATTCCCA
*
22180485 AAAGTTGTTGA-GCCTCTGATTAGAGGAGC
1 AAAGTT-ATGATGCCTCTGATTAGAGGAGC
22180514 TTTGTTTATT
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
41 25 0.42
42 34 0.58
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.34
Consensus pattern (41 bp):
AAAGTTATGATGCCTCTGATTAGAGGAGCAATTTATTCCCA
Found at i:22180544 original size:46 final size:46
Alignment explanation
Indices: 22180474--22180608 Score: 182
Period size: 46 Copynumber: 2.9 Consensus size: 46
22180464 TAGAGGAACA
*
22180474 ATTTATTTTCAAAAGTTGTTGAGCCTCTGATTAGAGGAGCTTTGTTT
1 ATTTATTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTT
* *
22180521 ATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGAAACTTTGTTT
1 ATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTT
* * * * *
22180567 ATGT-TTTCCAAAGTCGTTGAGCCTCTGCTTAGAAGAGTTTTG
1 ATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
22180609 ATCAAATTTT
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 32 0.41
46 36 0.46
47 10 0.13
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.42
Consensus pattern (46 bp):
ATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTT
Found at i:22180849 original size:14 final size:14
Alignment explanation
Indices: 22180783--22180969 Score: 70
Period size: 14 Copynumber: 13.4 Consensus size: 14
22180773 GTAGGCCCAT
22180783 TTTATTTTTTATTT-
1 TTTA-TTTTTATTTA
* *
22180797 TGTATTTTATATATA
1 TTTATTTT-TATTTA
* *
22180812 TTTCTTTTT-TGTA
1 TTTATTTTTATTTA
*
22180825 TCTTATGTATT-TTTA
1 T-TTAT-TTTTATTTA
22180840 TTTA--TTTATTTA
1 TTTATTTTTATTTA
*
22180852 -TTATTCTTATTTA
1 TTTATTTTTATTTA
* * *
22180865 TTAATATATATTTA
1 TTTATTTTTATTTA
*
22180879 TTAATTTTT-TTTA
1 TTTATTTTTATTTA
*
22180892 TTTATTTGTTAGTATA
1 TTTATTT-TTA-TTTA
*
22180908 TATATGTATTTA-TTA
1 TTTAT-T-TTTATTTA
22180923 -TTATTTATCTATTTA
1 TTTATTT-T-TATTTA
* *
22180938 TATATTATTATTTA
1 TTTATTTTTATTTA
* *
22180952 TCTATTATTA-TTA
1 TTTATTTTTATTTA
22180965 TTTAT
1 TTTAT
22180970 CTATTAGTAT
Statistics
Matches: 131, Mismatches: 25, Indels: 35
0.69 0.13 0.18
Matches are distributed among these distances:
11 5 0.04
12 5 0.04
13 34 0.26
14 52 0.40
15 19 0.15
16 11 0.08
17 4 0.03
18 1 0.01
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (14 bp):
TTTATTTTTATTTA
Found at i:22180877 original size:31 final size:31
Alignment explanation
Indices: 22180805--22180989 Score: 91
Period size: 31 Copynumber: 5.5 Consensus size: 31
22180795 TTTGTATTTT
* * * * *
22180805 ATATATATTTCTTTTTTGTATCTTATGTATTT
1 ATATATATTTATTTATTAT-TCTTATTTATTA
* *
22180837 TTATTTATTTATTTATTATTCTTATTTATTA
1 ATATATATTTATTTATTATTCTTATTTATTA
* * *
22180868 ATATATATTTATTAATTTTTTTTATTTATTTGTTA
1 ATATATATTTATTTATTATTCTTATTTA----TTA
* * *
22180903 GTATATATATGTATTTATTATTATTTATCTATTTA
1 --ATATATATTTATTTATTATT-CTTATTTA-TTA
* *
22180938 TATATTATTATTTATCTATTATTATTATTTATCTA
1 -ATA-TA-TATTTATTTATTATTCTTATTTAT-TA
* *
22180973 TTAGTATTTTTATTTAT
1 ATA-TATATTTATTTAT
22180990 CAAATTATTT
Statistics
Matches: 118, Mismatches: 25, Indels: 19
0.73 0.15 0.12
Matches are distributed among these distances:
31 33 0.28
32 14 0.12
33 9 0.08
34 9 0.08
35 16 0.14
36 13 0.11
37 17 0.14
38 7 0.06
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (31 bp):
ATATATATTTATTTATTATTCTTATTTATTA
Found at i:22180974 original size:14 final size:13
Alignment explanation
Indices: 22180827--22180986 Score: 86
Period size: 14 Copynumber: 12.2 Consensus size: 13
22180817 TTTTTGTATC
22180827 TTATGTATTT-TTA
1 TTAT-TATTTATTA
22180840 TTTATTTATTTATTA
1 -TTA-TTATTTATTA
*
22180855 TTCTTATTTATTA
1 TTATTATTTATTA
*
22180868 ATATATATTTATTA
1 TTAT-TATTTATTA
*
22180882 --ATT-TTTTTTA
1 TTATTATTTATTA
*
22180892 -T-TTATTTGTTA
1 TTATTATTTATTA
*
22180903 GTATATATATGTATTTA
1 -T-TAT-TATTTA-TTA
22180920 TTATTATTTATCTA
1 TTATTATTTAT-TA
*
22180934 -T-TTATATATTA
1 TTATTATTTATTA
*
22180945 TTATTTATCTATTA
1 TTA-TTATTTATTA
22180959 TTATTATTTATCTA
1 TTATTATTTAT-TA
*
22180973 TTAGTATTT-TTA
1 TTATTATTTATTA
22180985 TT
1 TT
22180987 TATCAAATTA
Statistics
Matches: 118, Mismatches: 12, Indels: 34
0.72 0.07 0.21
Matches are distributed among these distances:
10 8 0.07
11 9 0.08
12 14 0.12
13 22 0.19
14 49 0.42
15 8 0.07
16 5 0.04
17 3 0.03
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (13 bp):
TTATTATTTATTA
Found at i:22180988 original size:4 final size:4
Alignment explanation
Indices: 22180836--22180974 Score: 62
Period size: 4 Copynumber: 35.5 Consensus size: 4
22180826 CTTATGTATT
* *
22180836 TTTA TTTA TTTA TTTA -TTA TTCTTA TTTA TTAATA TATA TTTA TTAA
1 TTTA TTTA TTTA TTTA TTTA -T-TTA TTTA TT--TA TTTA TTTA TTTA
* * * * *
22180883 TTTTT TTTA TTTA TTT- GTTA GTATA TATA TGTA TTTA -TTA -TTA TTTA
1 -TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * *
22180930 TCTA TTTA TATA -TTA -TTA TTTA TCTA -TTA -TTA -TTA TTTA TCTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
22180973 TT
1 TT
22180975 AGTATTTTTA
Statistics
Matches: 105, Mismatches: 19, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
3 24 0.23
4 70 0.67
5 5 0.05
6 6 0.06
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:22181600 original size:16 final size:17
Alignment explanation
Indices: 22181561--22181608 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
22181551 TCGCTGGTTT
*
22181561 AGAGAAAGGGAGGAGAA
1 AGAGAAGGGGAGGAGAA
22181578 A-AGGAAGGGGA-GAGAA
1 AGA-GAAGGGGAGGAGAA
22181594 AGAGAA-GGGAGGAGA
1 AGAGAAGGGGAGGAGA
22181609 TATCTACTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 4 0.15
16 14 0.52
17 9 0.33
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (17 bp):
AGAGAAGGGGAGGAGAA
Found at i:22181846 original size:16 final size:17
Alignment explanation
Indices: 22181825--22181857 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
22181815 CATTATTTAT
22181825 TTATTATTTATT-ATTA
1 TTATTATTTATTGATTA
22181841 TTATTATTTATTGATTA
1 TTATTATTTATTGATTA
22181858 GATTAGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TTATTATTTATTGATTA
Found at i:22181988 original size:59 final size:60
Alignment explanation
Indices: 22181906--22182250 Score: 438
Period size: 59 Copynumber: 5.7 Consensus size: 60
22181896 AATAAAATTA
* * *
22181906 AAAAAAAACTATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG-TTTTT
1 AAAAAATA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
* *
22181966 CAAAAAATATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATATGCTTTCT
1 -AAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
22182027 AAAAAATA-A-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCAATTTTCCTTGAAAATAAGCTT
1 AAAAAATATATTTTTGAGGAAAAGTTGAAAG--T--A----TCAATTTTCCTTGAAAATAAGCTT
22182090 TCT
58 TCT
22182093 AAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
1 AAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
* * *
22182152 AAAAAA-ATATTTTTG-GCAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAG-TTT-T
1 AAAAAATATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
*
22182209 TAAAAATGA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
1 AAAAAAT-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
22182251 TCTGTACAAA
Statistics
Matches: 256, Mismatches: 13, Indels: 33
0.85 0.04 0.11
Matches are distributed among these distances:
57 6 0.02
58 52 0.20
59 78 0.30
60 52 0.20
61 11 0.04
62 1 0.00
63 1 0.00
65 2 0.01
66 33 0.13
67 20 0.08
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (60 bp):
AAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
Found at i:22182229 original size:184 final size:186
Alignment explanation
Indices: 22181907--22182249 Score: 554
Period size: 184 Copynumber: 1.9 Consensus size: 186
22181897 ATAAAATTAA
*
22181907 AAAAAAACTATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTCAAAAA
1 AAAAAAACTATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTCTCAAAAA
* * *
22181972 ATATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATATGCTTTCTAAAAAATAAT
66 ATATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAGCTTTCTAAAAAATAAT
22182037 TTTGAGGAAAAGTTGAAAGTATCAATTTTTCAATTTTCCTTGAAAATAAGCTTTCT
131 TTTGAGGAAAAGTTGAAAGTATCAATTTTTCAATTTTCCTTGAAAATAAGCTTTCT
*
22182093 AAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT-AAAA
1 AAAAAAACTATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG-TTTCTCAAAA
*
22182156 AA-ATATTTTTG-GCAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAG-TTT-TTAAAAATG
65 AATATATTTTTGAG-AAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAGCTTTCTAAAAAAT-
22182217 AATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
128 AA-TTTTGAGGAAAAGTTGAAAGTATCAATTTT
22182250 CTCTGTACAA
Statistics
Matches: 147, Mismatches: 6, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
182 7 0.05
183 6 0.04
184 72 0.49
185 51 0.35
186 11 0.07
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (186 bp):
AAAAAAACTATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTCTCAAAAA
ATATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAGCTTTCTAAAAAATAAT
TTTGAGGAAAAGTTGAAAGTATCAATTTTTCAATTTTCCTTGAAAATAAGCTTTCT
Found at i:22182282 original size:117 final size:118
Alignment explanation
Indices: 22181926--22182250 Score: 372
Period size: 125 Copynumber: 2.7 Consensus size: 118
22181916 ATTTTTAAGG
* * * *
22181926 AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG-TTTTTCAAAAAATATATTTTTGAGAAAAA
1 AAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAGCTTTCT-AAAAAA-ATATTTTTGAGGAAAA
* ** * *
22181990 GTTGAAAGTATCAATTTTCCTTGAAAATATGCTTTCT-AAAAAATAATTTTGAG-G
64 GTTGAAAGTATCAATTTTCCTTGAAAATAAGCAATCTAAAAAAATATTTTTG-GCA
* *
22182044 AAAAGTTGAAAGTATCAATTTTTCAATTTTCCTTGAAAATAAGCTTTCTAAAAAAATATTTTTGA
1 AAAAGTTAAAAG--T--A----TCAATTTTCCTTAAAAATAAGCTTTCTAAAAAAATATTTTTGA
**
22182109 GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAAATATTTTTGGCA
58 GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCAATCTAAAAAAATATTTTTGGCA
* *
22182170 AAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAG-TTTTTAAAAATGA-ATTTTTGAGGAAAAG
1 AAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAGCTTTCTAAAAA-AATATTTTTGAGGAAAAG
22182233 TTGAAAGTATCAATTTTC
65 TTGAAAGTATCAATTTTC
22182251 TCTGTACAAA
Statistics
Matches: 186, Mismatches: 9, Indels: 25
0.85 0.04 0.11
Matches are distributed among these distances:
117 42 0.23
118 33 0.18
120 1 0.01
122 2 0.01
124 1 0.01
125 52 0.28
126 51 0.27
127 4 0.02
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.37
Consensus pattern (118 bp):
AAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAGCTTTCTAAAAAAATATTTTTGAGGAAAAGT
TGAAAGTATCAATTTTCCTTGAAAATAAGCAATCTAAAAAAATATTTTTGGCA
Found at i:22185015 original size:20 final size:20
Alignment explanation
Indices: 22184981--22185024 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
22184971 AAAAACTCTT
22184981 AAAAAAATAATTTTATAG-TA
1 AAAAAAATAATTTTA-AGATA
22185001 AAAAAAATACA-TTTAAGATA
1 AAAAAAATA-ATTTTAAGATA
22185021 AAAA
1 AAAA
22185025 CATTATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.09
20 19 0.86
21 1 0.05
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAAAAATAATTTTAAGATA
Found at i:22186521 original size:2 final size:2
Alignment explanation
Indices: 22186514--22186545 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
22186504 TTGTCTAAGC
22186514 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22186546 TTCAGACCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22188145 original size:26 final size:26
Alignment explanation
Indices: 22188080--22188138 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
22188070 AAATGAATAA
22188080 TAAACGAATAAATTTTAAACGAACTT
1 TAAACGAATAAATTTTAAACGAACTT
** * **
22188106 TAAGTGAATGAATTTTAATTGAACTT
1 TAAACGAATAAATTTTAAACGAACTT
22188132 TAAACGA
1 TAAACGA
22188139 GTTAATTCAC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (26 bp):
TAAACGAATAAATTTTAAACGAACTT
Found at i:22193101 original size:19 final size:20
Alignment explanation
Indices: 22193067--22193105 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
22193057 TGGAAAGGAG
22193067 AAAGGAAAATGAGAAAAAAA
1 AAAGGAAAATGAGAAAAAAA
*
22193087 AAAGGGAAA-GAGAAAAAAA
1 AAAGGAAAATGAGAAAAAAA
22193106 TAAAAGAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (20 bp):
AAAGGAAAATGAGAAAAAAA
Found at i:22193845 original size:22 final size:23
Alignment explanation
Indices: 22193810--22193853 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
22193800 TATGGTAAAT
*
22193810 TTTACTTTAGTTTTATTTATTTA
1 TTTACTTTAGTTTTATATATTTA
*
22193833 TTTA-TTTATTTTTATATATTT
1 TTTACTTTAGTTTTATATATTT
22193854 TGGTATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTACTTTAGTTTTATATATTTA
Found at i:22199652 original size:124 final size:125
Alignment explanation
Indices: 22199296--22199729 Score: 408
Period size: 131 Copynumber: 3.4 Consensus size: 125
22199286 AGTAAAAAAA
* * * *
22199296 AAAAAAAAAGAGATAGAATTCAAGAAAGTAGAATACTAAAGTTGAAATCAAAGAAAGAAAGACAT
1 AAAAAAAAA-AGATAAAATTCAAGAAAGAAGAATGCTAAAGTTGAAATCAAAGAAAGAAAGATAT
* * * * * * * *
22199361 ACATCTCAGATATGAGAGTCTGGGGCAAAATGCGAATAAAGCTTTAGTTAAAATTCTAAGT
65 ACACCTCGGATATAAGAGTCTAGGGCAAAAAGTGAATAAAGCTTTAGTTAGAATTCCAAGT
* ** * * * *
22199422 GAAAAAAGAAA-ATGGAATTTAAGAAAAAAGAATGTTAAAGTTGAAGA-AAAGAGCAAAAGAAAA
1 -AAAAAAAAAAGATAAAATTCAAGAAAGAAGAATGCTAAAGTTGAA-ATCAA-AG--AAAG--AA
* * * *
22199485 ATGATATACACCTCGGTTATAAGAATCTAGGGCAAAAAGTGAATGAAGCTTTAGTTAGAATCCCA
59 A-GATATACACCTCGGATATAAGAGTCTAGGGCAAAAAGTGAATAAAGCTTTAGTTAGAATTCCA
22199550 AGT
123 AGT
*
22199553 -AAAAAAAAAGATAAAATTCAAGAAAGTAGAATGCTAAAGTTGAAATCAAAGAAAGAAAGATATA
1 AAAAAAAAAAGATAAAATTCAAGAAAGAAGAATGCTAAAGTTGAAATCAAAGAAAGAAAGATATA
* * *** * * * *
22199617 CACCTTGGAGATAAGAGTCTAAAACAAAAAATGAATAAAGGTTCA-ATAGAATTCCAAGT
66 CACCTCGGATATAAGAGTCTAGGGCAAAAAGTGAATAAAGCTTTAGTTAGAATTCCAAGT
* * *
22199676 AAAAATAAAATAAAATAAAATTCAAGAAAGAAGAATGTTAAAGTTGAAGTCAAA
1 -AAAA-AAAA-AAGATAAAATTCAAGAAAGAAGAATGCTAAAGTTGAAATCAAA
22199730 TGTTTCCAAA
Statistics
Matches: 248, Mismatches: 46, Indels: 26
0.77 0.14 0.08
Matches are distributed among these distances:
123 12 0.05
124 40 0.16
125 36 0.15
126 8 0.03
127 51 0.21
128 4 0.02
129 11 0.04
130 33 0.13
131 53 0.21
ACGTcount: A:0.53, C:0.08, G:0.18, T:0.21
Consensus pattern (125 bp):
AAAAAAAAAAGATAAAATTCAAGAAAGAAGAATGCTAAAGTTGAAATCAAAGAAAGAAAGATATA
CACCTCGGATATAAGAGTCTAGGGCAAAAAGTGAATAAAGCTTTAGTTAGAATTCCAAGT
Found at i:22200720 original size:86 final size:85
Alignment explanation
Indices: 22200629--22201023 Score: 285
Period size: 86 Copynumber: 4.6 Consensus size: 85
22200619 AATCTTAGCA
* * * * *
22200629 TTTGCATAACTTGTATTCACATTCACATTTATATTATGAGAAAGACATTTGATCTGTATGCTACA
1 TTTGCATCACTTGCATTCACATT-ACATTTGTATCATGAGAAAGACATTTGATCTGCATGCTACA
22200694 AAAATAAAAAAGACATTCACT
65 AAAATAAAAAAGACATTCACT
* * *
22200715 TTTGCATCACTTGCATTCACATTA-ATGTGTGCATCATAAGAAAGACATTTGATTTGCATGCTAC
1 TTTGCATCACTTGCATTCACATTACAT-T-TGTATCATGAGAAAGACATTTGATCTGCATGCTAC
* *
22200779 AAAAATGAAAAAGGCATTCA-T
64 AAAAATAAAAAAGACATTCACT
* * ** * * * *
22200800 GTTTGCATCACTTGCATTCATACTGACATGCGTATCATGACAAAGACATTTAATCTACATGCTGC
1 -TTTGCATCACTTGCATTCACA-TTACATTTGTATCATGAGAAAGACATTTGATCTGCATGCTAC
* * * * *
22200865 GAAAACAAAAAAAACATTTACA
64 AAAAATAAAAAAGACATTCACT
* * * * * * * * *
22200887 TTTGCATCACTTGTATTCGCACTTAC-TTATGCATCAT-AGGAAAAACATATGATTTACAAGCTG
1 TTTGCATCACTTGCATTCACA-TTACATT-TGTATCATGA-GAAAGACATTTGATCTGCATGCTA
* * ** *
22200950 CAAAAACAAAAACGACATTTGCA
63 CAAAAATAAAAAAGACATTCACT
* * * * * * *
22200973 TTAGCATCACGTGCTTTCACACTTGCATGTGCATCATGAGAAAAACATTTG
1 TTTGCATCACTTGCATTCACA-TTACATTTGTATCATGAGAAAGACATTTG
22201024 CATTCACATC
Statistics
Matches: 246, Mismatches: 53, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
84 2 0.01
85 5 0.02
86 233 0.95
87 4 0.02
88 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.31
Consensus pattern (85 bp):
TTTGCATCACTTGCATTCACATTACATTTGTATCATGAGAAAGACATTTGATCTGCATGCTACAA
AAATAAAAAAGACATTCACT
Found at i:22200982 original size:172 final size:171
Alignment explanation
Indices: 22200664--22201022 Score: 375
Period size: 172 Copynumber: 2.1 Consensus size: 171
22200654 CATTTATATT
* ** * * *
22200664 ATGAGAAAGACATTTGATCTGTATGCTACAAAAATAAAAAAGACATTCACTTTTGCATCACTTGC
1 ATGAGAAAGACATTTAATCTACATGCTACAAAAACAAAAAAAACATTCACATTTGCATCACTTGC
* * * * * * *
22200729 ATTCACATTAATGTGTGCATCATAAGAAAGACATTTGATTTGCATGCTACAAAAATGAAAAAGGC
66 ATTCACATTAATGTATGCATCATAAGAAAAACATATGATTTACAAGCTACAAAAATCAAAAAGAC
* * * *
22200794 ATTCATGTTTGCATCACTTGCATTCATAC-TGACATGCGTATC
131 ATTCA-GTTAGCATCACGTGCATTCACACTTG-CATGCGCATC
* * * * *
22200836 ATGACAAAGACATTTAATCTACATGCTGCGAAAACAAAAAAAACATTTACATTTGCATCACTTGT
1 ATGAGAAAGACATTTAATCTACATGCTACAAAAACAAAAAAAACATTCACATTTGCATCACTTGC
* * * *
22200901 ATTCGCACTTACT-TATGCATCATAGGAAAAACATATGATTTACAAGCTGCAAAAA-CAAAAACG
66 ATTCACA-TTAATGTATGCATCATAAGAAAAACATATGATTTACAAGCTACAAAAATCAAAAA-G
* *
22200964 ACATTTGCA-TTAGCATCACGTGCTTTCACACTTGCATGTGCATC
129 ACA-TT-CAGTTAGCATCACGTGCATTCACACTTGCATGCGCATC
*
22201008 ATGAGAAAAACATTT
1 ATGAGAAAGACATTT
22201023 GCATTCACAT
Statistics
Matches: 152, Mismatches: 30, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
171 5 0.03
172 137 0.90
173 8 0.05
174 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (171 bp):
ATGAGAAAGACATTTAATCTACATGCTACAAAAACAAAAAAAACATTCACATTTGCATCACTTGC
ATTCACATTAATGTATGCATCATAAGAAAAACATATGATTTACAAGCTACAAAAATCAAAAAGAC
ATTCAGTTAGCATCACGTGCATTCACACTTGCATGCGCATC
Found at i:22201046 original size:32 final size:32
Alignment explanation
Indices: 22201005--22201065 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
22200995 TTGCATGTGC
22201005 ATCATGAGAAAAACATTTGCATTCACATCTAT
1 ATCATGAGAAAAACATTTGCATTCACATCTAT
* *
22201037 ATCATGAGAAAGACATTTGCATTTACATC
1 ATCATGAGAAAAACATTTGCATTCACATC
22201066 ATCTACATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.31
Consensus pattern (32 bp):
ATCATGAGAAAAACATTTGCATTCACATCTAT
Found at i:22201101 original size:26 final size:26
Alignment explanation
Indices: 22201065--22201116 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
22201055 GCATTTACAT
22201065 CATCTACATCATAACCAAGGCATTTG
1 CATCTACATCATAACCAAGGCATTTG
*
22201091 CATCTGCATCATAACCAAGGCATTTG
1 CATCTACATCATAACCAAGGCATTTG
22201117 TATATGCTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (26 bp):
CATCTACATCATAACCAAGGCATTTG
Found at i:22201128 original size:26 final size:26
Alignment explanation
Indices: 22201071--22201128 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
22201061 ACATCATCTA
*
22201071 CATCATAACCAAGGCATTTGCATCTG
1 CATCATAACCAAGGCATTTGCATATG
*
22201097 CATCATAACCAAGGCATTTGTATATG
1 CATCATAACCAAGGCATTTGCATATG
*
22201123 CTTCAT
1 CATCAT
22201129 TACATCTGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (26 bp):
CATCATAACCAAGGCATTTGCATATG
Found at i:22201401 original size:17 final size:17
Alignment explanation
Indices: 22201358--22201393 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
22201348 TTTAAGTAGT
*
22201358 AAAATAAAAAAAAAACA
1 AAAACAAAAAAAAAACA
22201375 AAAACAAAAAAAAAACA
1 AAAACAAAAAAAAAACA
22201392 AA
1 AA
22201394 GAGAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.89, C:0.08, G:0.00, T:0.03
Consensus pattern (17 bp):
AAAACAAAAAAAAAACA
Found at i:22201825 original size:23 final size:23
Alignment explanation
Indices: 22201799--22201858 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
22201789 TTTTAAACAT
* *
22201799 AGTTTAGCTAGTACTTTAAGTCC
1 AGTTTAGCTAGCACTTTAAGCCC
* *
22201822 AGTTTATCTGGCACTTTAAGCCC
1 AGTTTAGCTAGCACTTTAAGCCC
* *
22201845 AATTTAGCTGGCAC
1 AGTTTAGCTAGCAC
22201859 CCAAATCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (23 bp):
AGTTTAGCTAGCACTTTAAGCCC
Found at i:22201923 original size:23 final size:23
Alignment explanation
Indices: 22201874--22201928 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
22201864 TCAAACTAAG
** *
22201874 CCCAGATTAGTTAGCACTTTAAG
1 CCCAGATTAACTAGCACTTTAAA
22201897 CCCAGATTAACTAGCA-TCTTAAA
1 CCCAGATTAACTAGCACT-TTAAA
*
22201920 CCCAAATTA
1 CCCAGATTA
22201929 GGCTTGCACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.27
Consensus pattern (23 bp):
CCCAGATTAACTAGCACTTTAAA
Found at i:22202219 original size:40 final size:41
Alignment explanation
Indices: 22202129--22202220 Score: 116
Period size: 41 Copynumber: 2.3 Consensus size: 41
22202119 TTTGTAATTT
* * *
22202129 CTCTAGGCAAAATCTTCAATTTCTTAATGATTTCCAAATAC
1 CTCTAAGCAAAATCTTAAATTTCTGAATGATTTCCAAATAC
* *
22202170 CT-TAAAGCAAAATTTTAAATTTCTGAATGATTT-TAAATAC
1 CTCT-AAGCAAAATCTTAAATTTCTGAATGATTTCCAAATAC
22202210 CTCTAAGCAAA
1 CTCTAAGCAAA
22202221 GCCTCAGAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
40 16 0.36
41 28 0.64
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (41 bp):
CTCTAAGCAAAATCTTAAATTTCTGAATGATTTCCAAATAC
Found at i:22202385 original size:22 final size:22
Alignment explanation
Indices: 22202360--22202430 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
22202350 TGACAATATC
22202360 TTTAATACCTTCAGGCATAATT
1 TTTAATACCTTCAGGCATAATT
* ** *
22202382 TTTAAAATTTTCAGGCATAATC
1 TTTAATACCTTCAGGCATAATT
*
22202404 TCTAATACC-TCTAGGCATAATT
1 TTTAATACCTTC-AGGCATAATT
22202426 TTTAA
1 TTTAA
22202431 AATCTTTGAG
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 2 0.05
22 36 0.95
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.41
Consensus pattern (22 bp):
TTTAATACCTTCAGGCATAATT
Found at i:22202425 original size:44 final size:45
Alignment explanation
Indices: 22202357--22202459 Score: 149
Period size: 44 Copynumber: 2.3 Consensus size: 45
22202347 ACATGACAAT
22202357 ATCTTTAATACCT-TCAGGCATAATTTTTAAAAT-TTTCAGGCATA
1 ATCTTTAATACCTCTCAGGCATAATTTTTAAAATCTTTCA-GCATA
* *
22202401 ATCTCTAATACCTCT-AGGCATAATTTTTAAAATCTTTGAGCATA
1 ATCTTTAATACCTCTCAGGCATAATTTTTAAAATCTTTCAGCATA
*
22202445 ATCTTTAAGACCTCT
1 ATCTTTAATACCTCT
22202460 GGATAAAACA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
44 48 0.91
45 5 0.09
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.40
Consensus pattern (45 bp):
ATCTTTAATACCTCTCAGGCATAATTTTTAAAATCTTTCAGCATA
Found at i:22202443 original size:22 final size:22
Alignment explanation
Indices: 22202357--22202452 Score: 79
Period size: 22 Copynumber: 4.4 Consensus size: 22
22202347 ACATGACAAT
* * *
22202357 ATCTTTAATACCTTCAGGCATA
1 ATCTTTAAAATCTTTAGGCATA
*
22202379 ATTTTTAAAAT-TTTCAGGCATA
1 ATCTTTAAAATCTTT-AGGCATA
* * * *
22202401 ATCTCTAATACCTCTAGGCATA
1 ATCTTTAAAATCTTTAGGCATA
*
22202423 ATTTTTAAAATCTTT-GAGCATA
1 ATCTTTAAAATCTTTAG-GCATA
22202445 ATCTTTAA
1 ATCTTTAA
22202453 GACCTCTGGA
Statistics
Matches: 56, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
21 3 0.05
22 51 0.91
23 2 0.04
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.41
Consensus pattern (22 bp):
ATCTTTAAAATCTTTAGGCATA
Found at i:22202584 original size:82 final size:82
Alignment explanation
Indices: 22202446--22202608 Score: 229
Period size: 82 Copynumber: 2.0 Consensus size: 82
22202436 TTGAGCATAA
* * * * * *
22202446 TCTTTAAGACCTCTGGATAAAACATTTTAAAATTTTAAAGTTTTAAGGCCTTTAATAAGAGGAGC
1 TCTTTAAGACCTCAGGATAAAACATTTTAAAATTTTAAAGTTTCAAGACCTCTAATAAAAGAAGC
22202511 CTTCATACATGACAAGT
66 CTTCATACATGACAAGT
* * *
22202528 TCTTTAAGACTCTCAGG-TAAAATATTTTAAATTTTTAAAGTTTCAAGATCTCTAATAAAAGAAG
1 TCTTTAAGAC-CTCAGGATAAAACATTTTAAAATTTTAAAGTTTCAAGACCTCTAATAAAAGAAG
22202592 CCTTCATACATGACAAG
65 CCTTCATACATGACAAG
22202609 ATTTCTACGA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
82 66 0.93
83 5 0.07
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (82 bp):
TCTTTAAGACCTCAGGATAAAACATTTTAAAATTTTAAAGTTTCAAGACCTCTAATAAAAGAAGC
CTTCATACATGACAAGT
Found at i:22202726 original size:104 final size:104
Alignment explanation
Indices: 22202546--22202741 Score: 256
Period size: 104 Copynumber: 1.9 Consensus size: 104
22202536 ACTCTCAGGT
* *
22202546 AAAATATTTTAAATTTTTAAAGTTTCAAGATCTCTAATAAAAGAAGCCTTCATACATGACAAGAT
1 AAAATATTTTAAAATTTTAAAGTTTCAAGATCTCTAATAAAAGAAGCCTTCATACATAACAAGAT
*
22202611 TTCTACGACCTCCA-AGCATAATCTCTAGAACCTCAAAGC
66 CTCTACGACCTCCAGA-CATAATCTCTAGAACCTCAAAGC
* * * *
22202650 AAAATATTTTAAAATTTTAAAGTTTCAAG-GCTTCTAATCAAAGGAA-CTTTCATATATAACAAG
1 AAAATATTTTAAAATTTTAAAGTTTCAAGATC-TCTAAT-AAAAGAAGCCTTCATACATAACAAG
*
22202713 ATCTCTGA-GACCTCCGGACATAATCTCTA
64 ATCTCT-ACGACCTCCAGACATAATCTCTA
22202742 AGACCTTCGG
Statistics
Matches: 80, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
103 1 0.01
104 71 0.89
105 8 0.10
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (104 bp):
AAAATATTTTAAAATTTTAAAGTTTCAAGATCTCTAATAAAAGAAGCCTTCATACATAACAAGAT
CTCTACGACCTCCAGACATAATCTCTAGAACCTCAAAGC
Found at i:22202745 original size:22 final size:22
Alignment explanation
Indices: 22202713--22202792 Score: 97
Period size: 22 Copynumber: 3.6 Consensus size: 22
22202703 ATATAACAAG
*
22202713 ATCTCTGAGACCTCCGGACATA
1 ATCTCTAAGACCTCCGGACATA
* *
22202735 ATCTCTAAGACCTTCGGGCATA
1 ATCTCTAAGACCTCCGGACATA
* * * *
22202757 ATTTTTAAGACTTTCGGACATA
1 ATCTCTAAGACCTCCGGACATA
22202779 ATCTCTAAGACCTC
1 ATCTCTAAGACCTC
22202793 TAAGCAAAAC
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (22 bp):
ATCTCTAAGACCTCCGGACATA
Found at i:22202896 original size:148 final size:148
Alignment explanation
Indices: 22202627--22202896 Score: 330
Period size: 148 Copynumber: 1.8 Consensus size: 148
22202617 GACCTCCAAG
* *
22202627 CATAATCTCTAGAACCTCAAAGCAAAATATTTTAAAATTTTAAAGTTTCAAGGCTTCTAATCAAA
1 CATAATCTCTAGAACCTCAAAGCAAAACATTTTAAAATTTTAAAGTTTCAAGGCCTCTAATCAAA
* * * * * * *
22202692 GGAACTTTCATATATAACAAGATCTCTGAGACCTCCGGACATAATCTCTAAGACCTTCGGGCATA
66 AGAACTTTAAAAAATAACAAGATCTCTAAGACCTCCGAACATAATCTCTAAAACCTTCGGGCATA
22202757 ATTTTTAAGACTTTCGGA
131 ATTTTTAAGACTTTCGGA
* * *
22202775 CATAATCTCTA-AGACCTCTAAGCAAAACATTTT-AAGTTTGTAAAGTTTCAAGGCCTCTAATTA
1 CATAATCTCTAGA-ACCTCAAAGCAAAACATTTTAAAATTT-TAAAGTTTCAAGGCCTCTAATCA
** * * * *
22202838 AAAGAGA-TTTAAAAAATGTCGAGATTTGTAAGACCTTCGAACATAATCTCTAAAACCTT
64 AAAGA-ACTTTAAAAAATAACAAGATCTCTAAGACCTCCGAACATAATCTCTAAAACCTT
22202897 TAAGCATAAT
Statistics
Matches: 101, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
147 6 0.06
148 94 0.93
149 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.31
Consensus pattern (148 bp):
CATAATCTCTAGAACCTCAAAGCAAAACATTTTAAAATTTTAAAGTTTCAAGGCCTCTAATCAAA
AGAACTTTAAAAAATAACAAGATCTCTAAGACCTCCGAACATAATCTCTAAAACCTTCGGGCATA
ATTTTTAAGACTTTCGGA
Found at i:22203105 original size:19 final size:19
Alignment explanation
Indices: 22203068--22203123 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
22203058 ACTCAAAATC
22203068 ACAAAATCAA-AAAACAAAA
1 ACAAAATCAAGAAAA-AAAA
*
22203087 AGAAAAATCAAGAAAAAAAA
1 A-CAAAATCAAGAAAAAAAA
*
22203107 ACCAAATCAAGAAAAAA
1 ACAAAATCAAGAAAAAA
22203124 CAAAAAAGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 15 0.47
20 13 0.41
21 4 0.12
ACGTcount: A:0.77, C:0.12, G:0.05, T:0.05
Consensus pattern (19 bp):
ACAAAATCAAGAAAAAAAA
Found at i:22203136 original size:29 final size:28
Alignment explanation
Indices: 22203076--22203151 Score: 77
Period size: 29 Copynumber: 2.8 Consensus size: 28
22203066 TCACAAAATC
*
22203076 AAAAAA-C-AAAAAGAAAAATCAAGAAA
1 AAAAAACCAAAAAAGAAAAAACAAGAAA
*
22203102 AAAAAACCAAATCAAGAAAAAACAA-AAA
1 AAAAAACCAAA-AAAGAAAAAACAAGAAA
* *
22203130 AGGAAAACGAAAAAAGAAAAAA
1 A-AAAAACCAAAAAAGAAAAAA
22203152 AAATTTTGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
26 6 0.15
27 1 0.02
28 15 0.37
29 19 0.46
ACGTcount: A:0.79, C:0.09, G:0.09, T:0.03
Consensus pattern (28 bp):
AAAAAACCAAAAAAGAAAAAACAAGAAA
Found at i:22205533 original size:12 final size:12
Alignment explanation
Indices: 22205516--22205542 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22205506 GAAATGATTT
22205516 AAAAAAAAAAGA
1 AAAAAAAAAAGA
22205528 AAAAAAAAAAGA
1 AAAAAAAAAAGA
22205540 AAA
1 AAA
22205543 GTTGAAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:22214261 original size:20 final size:20
Alignment explanation
Indices: 22214233--22214294 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
22214223 TAATGTCATA
*
22214233 CAAATATATTAATTATCATG
1 CAAATATATTAATTACCATG
* *
22214253 C-AATAATATAAAATACCATG
1 CAAAT-ATATTAATTACCATG
*
22214273 CAAATATATTAATAACCATG
1 CAAATATATTAATTACCATG
22214293 CA
1 CA
22214295 TGCAAATATG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 3 0.09
20 28 0.82
21 3 0.09
ACGTcount: A:0.50, C:0.15, G:0.05, T:0.31
Consensus pattern (20 bp):
CAAATATATTAATTACCATG
Found at i:22214483 original size:33 final size:33
Alignment explanation
Indices: 22214428--22214507 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 33
22214418 TAATAATAAA
* * * *
22214428 TAAATAAATAACT-ATGCAAATAAATATGTAAT
1 TAAATATATAAATCATGCAAATAAACATGCAAT
22214460 TAAATATATAAATCATGCAAATAAACATGCAAT
1 TAAATATATAAATCATGCAAATAAACATGCAAT
*
22214493 TAAATGTAT-AATCAT
1 TAAATATATAAATCAT
22214508 TTAAATAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
32 17 0.40
33 25 0.60
ACGTcount: A:0.54, C:0.09, G:0.06, T:0.31
Consensus pattern (33 bp):
TAAATATATAAATCATGCAAATAAACATGCAAT
Found at i:22214546 original size:31 final size:31
Alignment explanation
Indices: 22214502--22214648 Score: 136
Period size: 31 Copynumber: 5.1 Consensus size: 31
22214492 TTAAATGTAT
* *
22214502 AATCATTTAAATAATAATACATAAATCATGC
1 AATCATGTAAATAATAATATATAAATCATGC
* *
22214533 AATCATGTGAATAATAATATATAAACCATGC
1 AATCATGTAAATAATAATATATAAATCATGC
* * *
22214564 AAAACATG-CAATTA-AATATAT-AATCAT--
1 -AATCATGTAAATAATAATATATAAATCATGC
*
22214591 -A-C----AAATAATAATACATAAATCATGC
1 AATCATGTAAATAATAATATATAAATCATGC
22214616 AATCATGTAAATAATAATATATAAATCATGC
1 AATCATGTAAATAATAATATATAAATCATGC
22214647 AA
1 AA
22214649 AATATGCAAT
Statistics
Matches: 93, Mismatches: 12, Indels: 22
0.73 0.09 0.17
Matches are distributed among these distances:
21 4 0.04
22 6 0.06
23 6 0.06
24 1 0.01
25 1 0.01
26 1 0.01
27 1 0.01
29 5 0.05
30 7 0.08
31 55 0.59
32 6 0.06
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.29
Consensus pattern (31 bp):
AATCATGTAAATAATAATATATAAATCATGC
Found at i:22214586 original size:83 final size:83
Alignment explanation
Indices: 22214462--22214681 Score: 350
Period size: 83 Copynumber: 2.6 Consensus size: 83
22214452 TATGTAATTA
* **
22214462 AATATATAAATCATGCAAATAAACATGCAATTAAATGTATAATCATTTAAATAATAATACATAAA
1 AATATATAAATCATGC--A-AAACATGCAATTAAATATATAATCATACAAATAATAATACATAAA
*
22214527 TCATGCAATCATGTGAATAAT
63 TCATGCAATCATGTAAATAAT
*
22214548 AATATATAAACCATGCAAAACATGCAATTAAATATATAATCATACAAATAATAATACATAAATCA
1 AATATATAAATCATGCAAAACATGCAATTAAATATATAATCATACAAATAATAATACATAAATCA
22214613 TGCAATCATGTAAATAAT
66 TGCAATCATGTAAATAAT
* *
22214631 AATATATAAATCATGCAAAATATGCAATTAAATATATAATCGTACAAATAA
1 AATATATAAATCATGCAAAACATGCAATTAAATATATAATCATACAAATAA
22214682 ACATGCAATT
Statistics
Matches: 126, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
83 110 0.87
84 1 0.01
86 15 0.12
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.30
Consensus pattern (83 bp):
AATATATAAATCATGCAAAACATGCAATTAAATATATAATCATACAAATAATAATACATAAATCA
TGCAATCATGTAAATAAT
Found at i:22214596 original size:115 final size:113
Alignment explanation
Indices: 22214446--22214710 Score: 288
Period size: 115 Copynumber: 2.3 Consensus size: 113
22214436 TAACTATGCA
* * * * *
22214446 AATAAATATGTAATTAAATATATAAATCATGCAAATAA-ACATGCAATTAAATGTAT-AATCATT
1 AATAAACATGCAATTAAATATAT-AATCATGCAAATAATA-ATAC-A-TAAAT-CATCAATCATG
* * *
22214509 TAAATAATAATACATAAATCATGCAATCATGTG-AATAATAATATATAAACCATGC
61 TAAATAATAATACATAAATCATGCAA-AATATGCAATAA-AATATAT-AACCATAC
*
22214564 -A-AAACATGCAATTAAATATATAATCATACAAATAATAATACATAAATCATGCAATCATGTAAA
1 AATAAACATGCAATTAAATATATAATCATGCAAATAATAATACATAAATCAT-CAATCATGTAAA
* * * *
22214627 TAATAATATATAAATCATGCAAAATATGCAATTAAATATATAATCGTAC
65 TAATAATACATAAATCATGCAAAATATGCAATAAAATATATAACCATAC
22214676 AAATAAACATGCAATTAAATATATAATCATGCAAA
1 -AATAAACATGCAATTAAATATATAATCATGCAAA
22214711 AAAATATATT
Statistics
Matches: 126, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
112 7 0.06
113 16 0.13
114 37 0.29
115 46 0.37
116 19 0.15
117 1 0.01
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.30
Consensus pattern (113 bp):
AATAAACATGCAATTAAATATATAATCATGCAAATAATAATACATAAATCATCAATCATGTAAAT
AATAATACATAAATCATGCAAAATATGCAATAAAATATATAACCATAC
Found at i:22214701 original size:20 final size:20
Alignment explanation
Indices: 22214678--22214743 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
22214668 AATCGTACAA
22214678 ATAAACATGCAATTAAATAT
1 ATAAACATGCAATTAAATAT
* **
22214698 ATAATCATGCAAAAAAATAT
1 ATAAACATGCAATTAAATAT
*
22214718 ATTAATAATCAAGCAATTAAATAT
1 A-T-A-AA-CATGCAATTAAATAT
22214742 AT
1 AT
22214744 TAATAATCAT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
20 18 0.51
21 1 0.03
22 1 0.03
23 2 0.06
24 13 0.37
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (20 bp):
ATAAACATGCAATTAAATAT
Found at i:22214725 original size:24 final size:24
Alignment explanation
Indices: 22214698--22214804 Score: 114
Period size: 24 Copynumber: 4.5 Consensus size: 24
22214688 AATTAAATAT
22214698 ATAATCATGCAAAAAAATATATTA
1 ATAATCATGCAAAAAAATATATTA
* **
22214722 ATAATCAAGCAATTAAATATATTA
1 ATAATCATGCAAAAAAATATATTA
** *
22214746 ATAATCATGCAATCAAAT-TA-AA
1 ATAATCATGCAAAAAAATATATTA
22214768 TATAATCAT--AAAATAAATATATTA
1 -ATAATCATGCAAAA-AAATATATTA
22214792 ATAATCATGCAAA
1 ATAATCATGCAAA
22214805 TATGTTAATA
Statistics
Matches: 68, Mismatches: 9, Indels: 11
0.77 0.10 0.12
Matches are distributed among these distances:
21 2 0.03
22 5 0.07
23 20 0.29
24 38 0.56
25 3 0.04
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.31
Consensus pattern (24 bp):
ATAATCATGCAAAAAAATATATTA
Found at i:22214865 original size:16 final size:17
Alignment explanation
Indices: 22214829--22214874 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
22214819 TATTAATCAT
* *
22214829 GCAAACAAATATATTAG
1 GCAAATAAATATATTAA
22214846 GCAAATAAAT-TATTAA
1 GCAAATAAATATATTAA
22214862 GCAAATATAATAT
1 GCAAATA-AATAT
22214875 TAGTTATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 12 0.48
17 12 0.48
18 1 0.04
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (17 bp):
GCAAATAAATATATTAA
Found at i:22215527 original size:13 final size:13
Alignment explanation
Indices: 22215498--22215542 Score: 65
Period size: 12 Copynumber: 3.5 Consensus size: 13
22215488 CTTTTGACTA
22215498 TAAAAAATTAAAC
1 TAAAAAATTAAAC
22215511 -AAAAAATTAAAC
1 TAAAAAATTAAAC
*
22215523 TAAAAAATTTAAAA
1 TAAAAAA-TTAAAC
22215537 TAAAAA
1 TAAAAA
22215543 TAAAATTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 12 0.41
13 6 0.21
14 11 0.38
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (13 bp):
TAAAAAATTAAAC
Found at i:22215541 original size:25 final size:25
Alignment explanation
Indices: 22215498--22215546 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
22215488 CTTTTGACTA
*
22215498 TAAAAAATTAAACAAAAAATTAAAC
1 TAAAAAATTAAACAAAAAAATAAAC
*
22215523 TAAAAAATTTAAA-ATAAAAATAAA
1 TAAAAAA-TTAAACAAAAAAATAAA
22215547 ATTTAGGGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (25 bp):
TAAAAAATTAAACAAAAAAATAAAC
Found at i:22215885 original size:42 final size:43
Alignment explanation
Indices: 22215819--22216104 Score: 144
Period size: 42 Copynumber: 6.8 Consensus size: 43
22215809 CTCTACAACT
*
22215819 GAGGC-TTCGAAACTTTTGAAAAATAAAATGCTCCCCCATAACA
1 GAGGCTTTTGAAACTTTTG-AAAATAAAATGCTCCCCCATAACA
* ** **
22215862 GAGG-TTTTGAAACTTTTGAAAATAAAATTCTCCTTCATAATT
1 GAGGCTTTTGAAACTTTTGAAAATAAAATGCTCCCCCATAACA
* * ** * *
22215904 GAGGCTTTTG-AACTTTGGAAAATAAAATGCTCTCTTACAATTA
1 GAGGCTTTTGAAACTTTTGAAAATAAAATGCTCCCCCATAA-CA
* * * * *
22215947 -AGGC-TTTGACAC-TTGGAAAAATAAAATGCTCCCTCACAACT
1 GAGGCTTTTGAAACTTTTG-AAAATAAAATGCTCCCCCATAACA
* * * * * **
22215988 GAAGC-TTTGGAA-GTTTGAAAAGTAAAATGCTCCTCTATAATT
1 GAGGCTTTTGAAACTTTTGAAAA-TAAAATGCTCCCCCATAACA
* *** ** * *
22216030 GAAGC-TTTGAAACTTGAAAAAATAAAATGCTCCCTTACAACT
1 GAGGCTTTTGAAACTTTTGAAAATAAAATGCTCCCCCATAACA
* *
22216072 GAAGC-TTTGAAAC-TTTGAAAAATAAAATACTCC
1 GAGGCTTTTGAAACTTTTG-AAAATAAAATGCTCC
22216105 TCCACCGAGT
Statistics
Matches: 193, Mismatches: 40, Indels: 21
0.76 0.16 0.08
Matches are distributed among these distances:
41 13 0.07
42 153 0.79
43 27 0.14
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.30
Consensus pattern (43 bp):
GAGGCTTTTGAAACTTTTGAAAATAAAATGCTCCCCCATAACA
Found at i:22215955 original size:84 final size:84
Alignment explanation
Indices: 22215867--22216106 Score: 249
Period size: 84 Copynumber: 2.9 Consensus size: 84
22215857 TAACAGAGGT
* * * * *
22215867 TTTGAAACTTTTGAAAATAAAATTCTCCTTCATAATTGAGGCTTTTGAACTTTGGAAAATAAAAT
1 TTTGAAACTTTAGAAAATAAAATGCTCCTTCACAACTGAAGCTTTTGAACTTTGGAAAATAAAAT
22215932 GCT-CTCTTACAATT-AAGGC
66 GCTCCTC-TACAATTGAA-GC
* * * * *
22215951 TTTGACAC-TTGGAAAAATAAAATGCTCCCTCACAACTGAAGCTTTGGAAGTTT-GAAAAGTAAA
1 TTTGAAACTTTAG-AAAATAAAATGCTCCTTCACAACTGAAGCTTTTGAACTTTGGAAAA-TAAA
*
22216014 ATGCTCCTCTATAATTGAAGC
64 ATGCTCCTCTACAATTGAAGC
* * *
22216035 TTTGAAACTTGAAAAAATAAAATGCTCCCTT-ACAACTGAAGC-TTTGAAACTTTGAAAAATAAA
1 TTTGAAACTTTAGAAAATAAAATGCT-CCTTCACAACTGAAGCTTTTG-AACTTTGGAAAATAAA
*
22216098 ATACTCCTC
64 ATGCTCCTC
22216107 CACCGAGTTG
Statistics
Matches: 129, Mismatches: 19, Indels: 16
0.79 0.12 0.10
Matches are distributed among these distances:
83 11 0.09
84 105 0.81
85 13 0.10
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (84 bp):
TTTGAAACTTTAGAAAATAAAATGCTCCTTCACAACTGAAGCTTTTGAACTTTGGAAAATAAAAT
GCTCCTCTACAATTGAAGC
Found at i:22215966 original size:126 final size:126
Alignment explanation
Indices: 22215801--22216109 Score: 342
Period size: 126 Copynumber: 2.5 Consensus size: 126
22215791 TTTTTTTTGA
* * * * * *
22215801 AAAATACTCTC-TACAACTGAGGCTTCGAAACTTTTGAAAAATAAAATGCTCCCCCATAACAGAG
1 AAAATGCTCTCTTACAATTAAGGCTTTGAAAC-TTTGAAAAATAAAATGCTCCCCCACAACAGAA
* * * * *
22215865 GTTTTGAAACTTTTGAAAA-TAAAATTCTCCT-TCATAATTGAGGCTTTTG-AACTTTG-GAAAA
65 GCTTTGAAA-GTTTGAAAAGTAAAATGCTCCTCT-ATAATTGAAGC-TTTGAAAC-TTGAAAAAA
22215926 T
126 T
* * * *
22215927 AAAATGCTCTCTTACAATTAAGGCTTTGACACTTGGAAAAATAAAATGCTCCCTCACAACTGAAG
1 AAAATGCTCTCTTACAATTAAGGCTTTGAAACTTTGAAAAATAAAATGCTCCCCCACAACAGAAG
*
22215992 CTTTGGAAGTTTGAAAAGTAAAATGCTCCTCTATAATTGAAGCTTTGAAACTTGAAAAAAT
66 CTTTGAAAGTTTGAAAAGTAAAATGCTCCTCTATAATTGAAGCTTTGAAACTTGAAAAAAT
* * * *
22216053 AAAATGCTCCCTTACAACTGAA-GCTTTGAAACTTTGAAAAATAAAATACTCCTCCAC
1 AAAATGCTCTCTTACAA-TTAAGGCTTTGAAACTTTGAAAAATAAAATGCTCCCCCAC
22216110 CGAGTTGTTA
Statistics
Matches: 154, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
125 15 0.10
126 119 0.77
127 20 0.13
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (126 bp):
AAAATGCTCTCTTACAATTAAGGCTTTGAAACTTTGAAAAATAAAATGCTCCCCCACAACAGAAG
CTTTGAAAGTTTGAAAAGTAAAATGCTCCTCTATAATTGAAGCTTTGAAACTTGAAAAAAT
Found at i:22218820 original size:6 final size:6
Alignment explanation
Indices: 22218809--22218869 Score: 54
Period size: 6 Copynumber: 10.2 Consensus size: 6
22218799 TGAGTAATAA
* * *
22218809 AAAAAT AAAAAT AAACA- CAAAAT AAAATAT AAAAAT TAAAAT ATAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA-AT AAAAAT AAAAAT A-AAAAT
*
22218858 GAAAA- AAAAAT A
1 AAAAAT AAAAAT A
22218870 GAGTTATAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
5 7 0.16
6 25 0.58
7 11 0.26
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:22218857 original size:13 final size:14
Alignment explanation
Indices: 22218827--22218856 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
22218817 AAATAAACAC
22218827 AAAA-TAAAATATA
1 AAAATTAAAATATA
22218840 AAAATTAAAATATA
1 AAAATTAAAATATA
22218854 AAA
1 AAA
22218857 TGAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAATTAAAATATA
Found at i:22219863 original size:46 final size:46
Alignment explanation
Indices: 22219794--22219883 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 46
22219784 TTCAGTAACA
* ** *
22219794 TAATTGCATAAATCACGTGCCAAAACTTCCTGCAAAATCTTCAATG
1 TAATTGCATAAATCAAGCACCAAAACTTACTGCAAAATCTTCAATG
* * *
22219840 TAATTGCATGAATCAAGCACCAAAATTTATTGCAAAATCTTCAA
1 TAATTGCATAAATCAAGCACCAAAACTTACTGCAAAATCTTCAA
22219884 CGTTTTTTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (46 bp):
TAATTGCATAAATCAAGCACCAAAACTTACTGCAAAATCTTCAATG
Found at i:22219962 original size:14 final size:14
Alignment explanation
Indices: 22219945--22219972 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
22219935 GAATTAAACA
22219945 AAATAAAATCAAAT
1 AAATAAAATCAAAT
22219959 AAATAAAATCAAAT
1 AAATAAAATCAAAT
22219973 TAAAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAAAATCAAAT
Done.