Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 117 of 160
Found at i:21941458 original size:17 final size:18
Alignment explanation
Indices: 21941431--21941468 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
21941421 TTTGATTTTA
*
21941431 AAAAATCAAATTTTAATT
1 AAAAATCAAATTTTAAAT
21941449 AAAAAT-AAATTTTAAAT
1 AAAAATCAAATTTTAAAT
21941466 AAA
1 AAA
21941469 TTATAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAATCAAATTTTAAAT
Found at i:21941829 original size:16 final size:18
Alignment explanation
Indices: 21941807--21941846 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
21941797 ACTACTAAAA
*
21941807 ATTTTTAATG-GTTTAAT
1 ATTTTTAATGCATTTAAT
21941824 -TTTTTAATGCATTTAAT
1 ATTTTTAATGCATTTAAT
21941841 ATTTTT
1 ATTTTT
21941847 TTGAAACAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 9 0.45
17 6 0.30
18 5 0.25
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (18 bp):
ATTTTTAATGCATTTAAT
Found at i:21941990 original size:25 final size:25
Alignment explanation
Indices: 21941962--21942009 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
21941952 TTTAATTAAA
*
21941962 TTAATCTTATATTCTTTTTAAATCT
1 TTAAGCTTATATTCTTTTTAAATCT
21941987 TTAAGCTTATATTCTTTTTAAAT
1 TTAAGCTTATATTCTTTTTAAAT
21942010 TTAATAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.58
Consensus pattern (25 bp):
TTAAGCTTATATTCTTTTTAAATCT
Found at i:21942188 original size:24 final size:23
Alignment explanation
Indices: 21942134--21942188 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
21942124 TTTATTAAAC
21942134 TTATTTATGATTTTTTAAAATTT
1 TTATTTATGATTTTTTAAAATTT
* * * * *
21942157 TAAGTTATGTTATTTTTATATTTT
1 TTATTTATGAT-TTTTTAAAATTT
21942181 TTATTTAT
1 TTATTTAT
21942189 ATCATTTTCA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.67
Consensus pattern (23 bp):
TTATTTATGATTTTTTAAAATTT
Found at i:21943967 original size:17 final size:17
Alignment explanation
Indices: 21943947--21943993 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
21943937 AAATAATTTT
21943947 TTATTATAATTA-AATAA
1 TTATTA-AATTATAATAA
21943964 TTATTAAATTATAATAA
1 TTATTAAATTATAATAA
* *
21943981 -AAATAAATTATAA
1 TTATTAAATTATAA
21943994 GTGAGATGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 16 0.59
17 11 0.41
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTATTAAATTATAATAA
Found at i:21943981 original size:21 final size:20
Alignment explanation
Indices: 21943935--21943981 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
21943925 TGCTAAATTC
**
21943935 ATAAATAATTTTTTATTATA
1 ATAAATAATTTTAAATTATA
21943955 ATTAAATAATTATTAAATTATA
1 A-TAAATAATT-TTAAATTATA
21943977 ATAAA
1 ATAAA
21943982 AATAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.04
21 13 0.57
22 9 0.39
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAAATAATTTTAAATTATA
Found at i:21946063 original size:18 final size:19
Alignment explanation
Indices: 21946028--21946071 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
21946018 TGAAATTTAA
*
21946028 ATTTTTATATCTATA-TTT
1 ATTTTTATATCTAAATTTT
* *
21946046 ATTTTTATTTTTAAATTTT
1 ATTTTTATATCTAAATTTT
21946065 ATTTTTA
1 ATTTTTA
21946072 AGCTACATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTTTATATCTAAATTTT
Found at i:21946066 original size:13 final size:13
Alignment explanation
Indices: 21946048--21946072 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21946038 CTATATTTAT
21946048 TTTTATTTTTAAA
1 TTTTATTTTTAAA
21946061 TTTTATTTTTAA
1 TTTTATTTTTAA
21946073 GCTACATCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTATTTTTAAA
Found at i:21947700 original size:67 final size:67
Alignment explanation
Indices: 21947619--21947847 Score: 178
Period size: 67 Copynumber: 3.3 Consensus size: 67
21947609 AATATGCAAG
*
21947619 TATTTTTATATTATTAATATATGAAACTTATTAAGTTGTAAATGATGAATAATTTATAATTATTT
1 TATTTTAATATTATTAATATATGAAACTTATTAAGTTGTAAATGATGAATAATTTATAATTATTT
21947684 AT
66 AT
* * * * * * *** * *
21947686 TATTTTAATCTTATTTGTATATATTTACATA-TTAAATAAGTAT-CAAAT-TTTTTTATTCCTTT
1 TATTTTAATATTA-TT-AATATA-TGA-A-ACTT-ATTAAGT-TGTAAATGATGAATAAT--TTA
** *
21947748 TAA-TATGCAAG
57 TAATTAT-TTAT
*
21947759 TATTTTTATATTATTAATATATGAAACTTATTAAGTTGTAAATGATGAATAATTTATAATTATTT
1 TATTTTAATATTATTAATATATGAAACTTATTAAGTTGTAAATGATGAATAATTTATAATTATTT
21947824 AT
66 AT
* *
21947826 TATTTTAATCTTATTTATATAT
1 TATTTTAATATTATTAATATAT
21947848 ATTTATGTTA
Statistics
Matches: 115, Mismatches: 33, Indels: 28
0.65 0.19 0.16
Matches are distributed among these distances:
67 37 0.32
68 16 0.14
69 12 0.10
70 4 0.03
71 12 0.10
72 16 0.14
73 18 0.16
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (67 bp):
TATTTTAATATTATTAATATATGAAACTTATTAAGTTGTAAATGATGAATAATTTATAATTATTT
AT
Found at i:21947724 original size:140 final size:140
Alignment explanation
Indices: 21947571--21947852 Score: 555
Period size: 140 Copynumber: 2.0 Consensus size: 140
21947561 ATATATTAAA
21947571 TACATATTAAATAAGTATCAAATTTTTTTATTCCTTTTAATATGCAAGTATTTTTATATTATTAA
1 TACATATTAAATAAGTATCAAATTTTTTTATTCCTTTTAATATGCAAGTATTTTTATATTATTAA
21947636 TATATGAAACTTATTAAGTTGTAAATGATGAATAATTTATAATTATTTATTATTTTAATCTTATT
66 TATATGAAACTTATTAAGTTGTAAATGATGAATAATTTATAATTATTTATTATTTTAATCTTATT
*
21947701 TGTATATATT
131 TATATATATT
21947711 TACATATTAAATAAGTATCAAATTTTTTTATTCCTTTTAATATGCAAGTATTTTTATATTATTAA
1 TACATATTAAATAAGTATCAAATTTTTTTATTCCTTTTAATATGCAAGTATTTTTATATTATTAA
21947776 TATATGAAACTTATTAAGTTGTAAATGATGAATAATTTATAATTATTTATTATTTTAATCTTATT
66 TATATGAAACTTATTAAGTTGTAAATGATGAATAATTTATAATTATTTATTATTTTAATCTTATT
21947841 TATATATATT
131 TATATATATT
21947851 TA
1 TA
21947853 TGTTAATCAT
Statistics
Matches: 141, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 141 1.00
ACGTcount: A:0.38, C:0.05, G:0.06, T:0.51
Consensus pattern (140 bp):
TACATATTAAATAAGTATCAAATTTTTTTATTCCTTTTAATATGCAAGTATTTTTATATTATTAA
TATATGAAACTTATTAAGTTGTAAATGATGAATAATTTATAATTATTTATTATTTTAATCTTATT
TATATATATT
Found at i:21950209 original size:24 final size:25
Alignment explanation
Indices: 21950170--21950216 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
21950160 CCTTGTCTAG
*
21950170 CAAAACAGAACCTTGAAC-TCCTTC
1 CAAAACAGAACATTGAACATCCTTC
*
21950194 CAAAACAGAAGATTGAACATCCT
1 CAAAACAGAACATTGAACATCCT
21950217 GCAACTCCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.43, C:0.28, G:0.11, T:0.19
Consensus pattern (25 bp):
CAAAACAGAACATTGAACATCCTTC
Found at i:21952274 original size:19 final size:19
Alignment explanation
Indices: 21952250--21952292 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
21952240 TGAAATTAAT
**
21952250 AAAAATTCCCTTTAAATTA
1 AAAAATTCCCTCAAAATTA
*
21952269 AAAAATTCTCTCAAAATTA
1 AAAAATTCCCTCAAAATTA
21952288 AAAAA
1 AAAAA
21952293 AAATTACTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAAATTCCCTCAAAATTA
Found at i:21952294 original size:21 final size:20
Alignment explanation
Indices: 21952242--21952312 Score: 58
Period size: 19 Copynumber: 3.5 Consensus size: 20
21952232 ATCTAGTATG
* * *
21952242 AAATTAATAAAAATTCCCTTT
1 AAATTAAAAAAAATTCTC-TA
21952263 AAATT--AAAAAATTCTCTCA
1 AAATTAAAAAAAATTCTCT-A
21952282 AAATTAAAAAAAAATTACTCTA
1 AAATT-AAAAAAAATT-CTCTA
21952304 AAA-TAAAAA
1 AAATTAAAAA
21952313 CATTTTCCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
18 1 0.02
19 14 0.33
20 5 0.12
21 6 0.14
22 12 0.29
23 4 0.10
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (20 bp):
AAATTAAAAAAAATTCTCTA
Found at i:21952296 original size:22 final size:21
Alignment explanation
Indices: 21952268--21952312 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
21952258 CCTTTAAATT
21952268 AAAAAATT-CTCTCAAAATTAAA
1 AAAAAATTACTCT-AAAA-TAAA
21952290 AAAAAATTACTCTAAAATAAA
1 AAAAAATTACTCTAAAATAAA
21952311 AA
1 AA
21952313 CATTTTCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.27
22 12 0.55
23 4 0.18
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAAATTACTCTAAAATAAA
Found at i:21955932 original size:17 final size:17
Alignment explanation
Indices: 21955885--21955932 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
21955875 CAATATAAAT
21955885 GAGAGAATAGAAGTGAAAA
1 GAGAGAA-A-AAGTGAAAA
*
21955904 GAGAGTAGAAAAGTGAGAA
1 GAGAG-A-AAAAGTGAAAA
21955923 GAGAGAAAAA
1 GAGAGAAAAA
21955933 AGTTGACGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 4 0.15
18 1 0.04
19 18 0.69
20 2 0.08
21 1 0.04
ACGTcount: A:0.58, C:0.00, G:0.33, T:0.08
Consensus pattern (17 bp):
GAGAGAAAAAGTGAAAA
Found at i:21957014 original size:108 final size:107
Alignment explanation
Indices: 21956824--21957030 Score: 301
Period size: 108 Copynumber: 1.9 Consensus size: 107
21956814 CAAAGATGGC
* * * * *
21956824 TACAAAAGGCTATATTAACTATAAATTTACAACTCGATCATGAACTAATGATTAAATTATGCTAA
1 TACAAAAGGCTACATTAACTATAAACTTACAACTCGATCATGAAATAATGATCAAATTATCCTAA
*
21956889 AGGTCTTTTTATAATGTCAAAATTAGAAATTTAGTCCATGTAT
66 AGGTCTTTGTATAATGTC-AAATTAGAAATTTAGTCCATGTAT
* *
21956932 TACAAAAGGCTACATTAAAC-GTAAACTTACAACTTGATCATGAAATAATGATCAAATTATCCTA
1 TACAAAAGGCTACATT-AACTATAAACTTACAACTCGATCATGAAATAATGATCAAATTATCCTA
21956996 AAGGTCTTTGTACT-ATGTCAAATTAGAAATTTAGT
65 AAGGTCTTTGTA-TAATGTCAAATTAGAAATTTAGT
21957031 ACACATGTTA
Statistics
Matches: 89, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
107 16 0.18
108 69 0.78
109 4 0.04
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (107 bp):
TACAAAAGGCTACATTAACTATAAACTTACAACTCGATCATGAAATAATGATCAAATTATCCTAA
AGGTCTTTGTATAATGTCAAATTAGAAATTTAGTCCATGTAT
Found at i:21957432 original size:42 final size:41
Alignment explanation
Indices: 21957362--21957440 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 41
21957352 ATTTTACTTT
21957362 TTTAAAAAAATTAATATTTCAAAATTTTAAAGAATTTTCATA
1 TTTAAAAAAATTAATATTTCAAAATTTTAAA-AATTTTCATA
*
21957404 TTTATAAAAAATT-ATATTT-AATATTTTTAAAAATTTT
1 TTTA-AAAAAATTAATATTTCAA-AATTTTAAAAATTTT
21957441 AATTTTTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
41 8 0.24
42 18 0.53
43 8 0.24
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (41 bp):
TTTAAAAAAATTAATATTTCAAAATTTTAAAAATTTTCATA
Found at i:21957447 original size:16 final size:15
Alignment explanation
Indices: 21957424--21957467 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
21957414 ATTATATTTA
*
21957424 ATATTTTTAAAAATT
1 ATATTTTTAAAAATC
* *
21957439 TTAATTTTTTAAAATC
1 AT-ATTTTTAAAAATC
21957455 ATATTTTTAAAAA
1 ATATTTTTAAAAA
21957468 AATTTTAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTTTTAAAAATC
Found at i:21957484 original size:31 final size:30
Alignment explanation
Indices: 21957424--21957510 Score: 70
Period size: 31 Copynumber: 2.8 Consensus size: 30
21957414 ATTATATTTA
* *
21957424 ATATTTTTAAAAATTTTAATTTTTTAAAATC
1 ATATTTTTAAAAATTTTAA-TATTCAAAATC
*
21957455 ATATTTTTAAAAAAATTTTAA-ATTCAAAATT
1 ATATTTTT--AAAAATTTTAATATTCAAAATC
*
21957486 GT-TGTTACTTAAAAATTTTAATATT
1 ATAT-TT--TTAAAAATTTTAATATT
21957511 TTGACACTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
30 1 0.02
31 29 0.63
32 3 0.07
33 13 0.28
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (30 bp):
ATATTTTTAAAAATTTTAATATTCAAAATC
Found at i:21958331 original size:24 final size:23
Alignment explanation
Indices: 21958287--21958330 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
21958277 CTCAAAATAT
21958287 TAATATTTTAAAAACTTAAAATC
1 TAATATTTTAAAAACTTAAAATC
* * *
21958310 TAATTTTTTTAAAATTTAAAA
1 TAATATTTTAAAAACTTAAAA
21958331 AATATGATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATATTTTAAAAACTTAAAATC
Found at i:21959047 original size:24 final size:24
Alignment explanation
Indices: 21958993--21959047 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
21958983 TTGAATTTAA
*
21958993 TTAATTAAATTCAAATTTAAAAAT
1 TTAATTAAATTCAAATTAAAAAAT
* *
21959017 TAAAATTCAA-TCAAATTAAAAAAAT
1 T-TAATTAAATTCAAATT-AAAAAAT
21959042 TTAATT
1 TTAATT
21959048 TTTAATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (24 bp):
TTAATTAAATTCAAATTAAAAAAT
Found at i:21963009 original size:2 final size:2
Alignment explanation
Indices: 21963004--21963029 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21962994 TATCTTTTTC
21963004 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
21963030 AATCAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21964605 original size:52 final size:52
Alignment explanation
Indices: 21964548--21964693 Score: 163
Period size: 52 Copynumber: 2.8 Consensus size: 52
21964538 ACCGTTATTA
** ** *
21964548 AGAGATTTTTAAGATTTAATTCTAGAATCAATTGGCATTAAAAATGAT-GTTG
1 AGAGATTTTTGGGATTTAATTCTAGAATCAATTCACATTAAAAATGATAG-GG
* * *
21964600 AGAGATTGTTGGGATTTAATTCTATAATCAATTCACATT-AAATTGATAGGG
1 AGAGATTTTTGGGATTTAATTCTAGAATCAATTCACATTAAAAATGATAGGG
* * *
21964651 AGAGA-TTTTGGGATTTGATTTTAGAATCAATTCTCATTAAAAA
1 AGAGATTTTTGGGATTTAATTCTAGAATCAATTCACATTAAAAA
21964694 GGAAATAAAA
Statistics
Matches: 78, Mismatches: 14, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
50 28 0.36
51 16 0.21
52 34 0.44
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.38
Consensus pattern (52 bp):
AGAGATTTTTGGGATTTAATTCTAGAATCAATTCACATTAAAAATGATAGGG
Found at i:21965243 original size:25 final size:24
Alignment explanation
Indices: 21965178--21965243 Score: 64
Period size: 25 Copynumber: 2.8 Consensus size: 24
21965168 TGTTTTGACT
* *
21965178 TTATT-TTTCTTATTTTATTAATG
1 TTATTATTTTTTATTTTATTAATC
* *
21965201 TTATTA-TGTTTATTTTTATTTACTC
1 TTATTATTTTTTA-TTTTA-TTAATC
21965226 TTATTATTTTTTATTTTA
1 TTATTATTTTTTATTTTA
21965244 AATTAAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
23 9 0.26
24 5 0.15
25 15 0.44
26 5 0.15
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (24 bp):
TTATTATTTTTTATTTTATTAATC
Found at i:21965457 original size:3 final size:3
Alignment explanation
Indices: 21965449--21965499 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
21965439 CAGTTTTCAA
21965449 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
21965497 AAT
1 AAT
21965500 TTTTATCCTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:21969562 original size:12 final size:11
Alignment explanation
Indices: 21969537--21969596 Score: 52
Period size: 11 Copynumber: 5.4 Consensus size: 11
21969527 AAAGAGAAAT
21969537 AAAAAATAAGA
1 AAAAAATAAGA
*
21969548 AAAAAATATGCA
1 AAAAAATAAG-A
21969560 AAAAAA-AAGA
1 AAAAAATAAGA
* *
21969570 GAAAAAAGCAAAA
1 -AAAAAA-TAAGA
21969583 AAAAAATAA-A
1 AAAAAATAAGA
21969593 AAAA
1 AAAA
21969597 GGCAAAAACG
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
10 6 0.15
11 19 0.46
12 13 0.32
13 3 0.07
ACGTcount: A:0.82, C:0.03, G:0.08, T:0.07
Consensus pattern (11 bp):
AAAAAATAAGA
Found at i:21969594 original size:20 final size:22
Alignment explanation
Indices: 21969537--21969604 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 22
21969527 AAAGAGAAAT
* * *
21969537 AAAAAATAAGAAAAAAATATGC-
1 AAAAAAAAAGAGAAAAA-AGGCA
21969559 AAAAAAAAAGAGAAAAAA-GCA
1 AAAAAAAAAGAGAAAAAAGGCA
*
21969580 AAAAAAAAATA-AAAAAAGGCA
1 AAAAAAAAAGAGAAAAAAGGCA
21969601 AAAA
1 AAAA
21969605 CGAAACAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
20 8 0.20
21 18 0.44
22 15 0.37
ACGTcount: A:0.79, C:0.04, G:0.10, T:0.06
Consensus pattern (22 bp):
AAAAAAAAAGAGAAAAAAGGCA
Found at i:21969614 original size:21 final size:20
Alignment explanation
Indices: 21969559--21969615 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
21969549 AAAAATATGC
*
21969559 AAAAAAAAAGAGAAAAAAGCA
1 AAAAAAAAACA-AAAAAAGCA
*
21969580 AAAAAAAAATAAAAAAAGGCA
1 AAAAAAAAACAAAAAAA-GCA
**
21969601 AAAACGAAACAAAAA
1 AAAAAAAAACAAAAA
21969616 TATTTGTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.19
21 25 0.81
ACGTcount: A:0.81, C:0.07, G:0.11, T:0.02
Consensus pattern (20 bp):
AAAAAAAAACAAAAAAAGCA
Found at i:21969675 original size:24 final size:24
Alignment explanation
Indices: 21969624--21969676 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
21969614 AATATTTGTA
*
21969624 AAAAATAAAAAGAAGAAAAAAAAT
1 AAAAATAAAAAGAAGAAAAAAAAG
*
21969648 AAAAAT-AAAAGAAGAAAAAAGAGG
1 AAAAATAAAAAGAAGAAAAAA-AAG
21969672 AAAAA
1 AAAAA
21969677 GAGAAACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (24 bp):
AAAAATAAAAAGAAGAAAAAAAAG
Found at i:21970750 original size:121 final size:121
Alignment explanation
Indices: 21970528--21970750 Score: 279
Period size: 121 Copynumber: 1.8 Consensus size: 121
21970518 AGCTCAGTTC
* * *
21970528 AGATCATTTATTATGACTCATGGTTTCATCCTGGTCATTTATTTTTAACCTCGACTCGATCCTAG
1 AGATAATTTATTATGACTCATGGTTTCATCCTGATCATTTATTTTCAACCTCGACTCGATCCTAG
**
21970593 TTACCTTATTTTTTAACTCATGATTTCATCTTGATCACTCGATCTTGGTTCAATCT
66 TTACCTTATTTTTTAACTCATGATTTCATCCCGATCACTCGATCTTGGTTCAATCT
* * * * *
21970649 AGATAATTTCTTATGACTCGTGGTTTCATCCTGATCATTTATTTTCGATCTTGACTCGATCCT-G
1 AGATAATTTATTATGACTCATGGTTTCATCCTGATCATTTATTTTCAACCTCGACTCGATCCTAG
* * ** *
21970713 ATT-GCTTCATTTTTTGACTTGTGGTTTCATCCCGATCA
66 -TTACCTT-ATTTTTTAACTCATGATTTCATCCCGATCA
21970751 TCTAATCTTG
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
120 4 0.05
121 81 0.95
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (121 bp):
AGATAATTTATTATGACTCATGGTTTCATCCTGATCATTTATTTTCAACCTCGACTCGATCCTAG
TTACCTTATTTTTTAACTCATGATTTCATCCCGATCACTCGATCTTGGTTCAATCT
Found at i:21971019 original size:18 final size:18
Alignment explanation
Indices: 21970996--21971030 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21970986 AAATCTATCT
*
21970996 TTCTTGCGAATCTGAAAA
1 TTCTTGCGAACCTGAAAA
*
21971014 TTCTTGTGAACCTGAAA
1 TTCTTGCGAACCTGAAA
21971031 TCTTTACGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (18 bp):
TTCTTGCGAACCTGAAAA
Found at i:21971070 original size:86 final size:86
Alignment explanation
Indices: 21970913--21971099 Score: 234
Period size: 86 Copynumber: 2.2 Consensus size: 86
21970903 ACTTAGAATT
* * * *
21970913 TTACAAATCT-AAAAGTCCTTGTGAACCTGAAATCTTTGCGAATCTAGAACCTTTACGAAACTTG
1 TTACGAATCTGAAAA-TTCTTGTGAACCTGAAATCTTTACGAATCTAGAACCTCTACGAAACTTG
*
21970977 AAATCTTGTAAATCTATCTTTC
65 AAATCTTGTAAATCTATCGTTC
* *
21970999 TTGCGAATCTGAAAATTCTTGTGAACCTGAAATCTTTACGAATCTAGAACCTCTACGAATCTT-A
1 TTACGAATCTGAAAATTCTTGTGAACCTGAAATCTTTACGAATCTAGAACCTCTACGAAACTTGA
* * * *
21971063 GAGTCTTGTGAATTTTTCGTTC
66 -AATCTTGTAAATCTATCGTTC
*
21971085 TTACGAATTTGAAAA
1 TTACGAATCTGAAAA
21971100 CCTTTGCGAA
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
85 1 0.01
86 81 0.94
87 4 0.05
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (86 bp):
TTACGAATCTGAAAATTCTTGTGAACCTGAAATCTTTACGAATCTAGAACCTCTACGAAACTTGA
AATCTTGTAAATCTATCGTTC
Found at i:21971637 original size:50 final size:50
Alignment explanation
Indices: 21971503--21971648 Score: 161
Period size: 52 Copynumber: 2.9 Consensus size: 50
21971493 AATCGTTATT
*
21971503 GAGAGATTTATAGGATTTAATTCCAGAATCAATTGACATTAAAAATGATGTG
1 GAGAGATTT-TAGGATTTAATTCCAGAATCAATTCACATT-AAAATGATGTG
* * * * *
21971555 GAGAGGTTATCGAGATTTAATTCCATAATCAATTCACATTAAATTGATAG-G
1 GAGAGATTTTAG-GATTTAATTCCAGAATCAATTCACATTAAAATGAT-GTG
* *
21971606 GCGAGATTTTAGGATTTAATTTCAGAATCAATTCTA-ATTAAAA
1 GAGAGATTTTAGGATTTAATTCCAGAATCAATTC-ACATTAAAA
21971649 CGAAAATCAA
Statistics
Matches: 78, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
50 26 0.33
51 19 0.24
52 33 0.42
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.34
Consensus pattern (50 bp):
GAGAGATTTTAGGATTTAATTCCAGAATCAATTCACATTAAAATGATGTG
Found at i:21972164 original size:23 final size:24
Alignment explanation
Indices: 21972138--21972198 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 24
21972128 TGTTTTGACT
*
21972138 TTATTTTTCTTATCTTATTTA-TG
1 TTATTTTTCTTATCTTATTTATTC
*
21972161 TTATTTTT-TTATTTTTATTTATTC
1 TTATTTTTCTTA-TCTTATTTATTC
21972185 TTATTATTTCTTAT
1 TTATT-TTTCTTAT
21972199 TTTAAATTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 3 0.09
23 16 0.50
24 6 0.19
25 4 0.12
26 3 0.09
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.74
Consensus pattern (24 bp):
TTATTTTTCTTATCTTATTTATTC
Found at i:21974572 original size:2 final size:2
Alignment explanation
Indices: 21974565--21974589 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21974555 TTACATAAAT
21974565 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
21974590 TTAGTGGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21976715 original size:30 final size:30
Alignment explanation
Indices: 21976639--21976708 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
21976629 TTTACTATAC
* *
21976639 TCAAATAAATTTTTAATCTTTAATTTACAT
1 TCAAATAAACTCTTAATCTTTAATTTACAT
* *
21976669 TCAAATAAGCTCTTAATCTTTAATTTATAT
1 TCAAATAAACTCTTAATCTTTAATTTACAT
21976699 TCAAATAAAC
1 TCAAATAAAC
21976709 CATTAATATA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.41, C:0.13, G:0.01, T:0.44
Consensus pattern (30 bp):
TCAAATAAACTCTTAATCTTTAATTTACAT
Found at i:21976943 original size:30 final size:30
Alignment explanation
Indices: 21976869--21976943 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
21976859 TGATTTATAT
*
21976869 TAAAGGTTTATTT-AAGTACAAATTAAATGC
1 TAAAGGTTTATTTGGA-TACAAATTAAATGC
* *
21976899 TAAAGGTTTTTTTGGATACAAATTAAA-GT
1 TAAAGGTTTATTTGGATACAAATTAAATGC
*
21976928 TTAAGAGTTTATTTGG
1 TAAAG-GTTTATTTGG
21976944 GATGCAAAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
29 5 0.13
30 32 0.84
31 1 0.03
ACGTcount: A:0.37, C:0.04, G:0.17, T:0.41
Consensus pattern (30 bp):
TAAAGGTTTATTTGGATACAAATTAAATGC
Found at i:21977215 original size:32 final size:32
Alignment explanation
Indices: 21977179--21977242 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
21977169 AATCAAAGTG
21977179 TTAA-GGCTTTATTTAGGTACAAATTAAAAAAA
1 TTAAGGGC-TTATTTAGGTACAAATTAAAAAAA
* **
21977211 TTAAGGGCTTATTTGGGTTTAAATTAAAAAAA
1 TTAAGGGCTTATTTAGGTACAAATTAAAAAAA
21977243 ATTTATTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 25 0.89
33 3 0.11
ACGTcount: A:0.44, C:0.05, G:0.16, T:0.36
Consensus pattern (32 bp):
TTAAGGGCTTATTTAGGTACAAATTAAAAAAA
Found at i:21979205 original size:25 final size:25
Alignment explanation
Indices: 21979156--21979202 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
21979146 CGATTGAAGG
21979156 TTAGAGAGAAGGTAGAGGAAAAATT
1 TTAGAGAGAAGGTAGAGGAAAAATT
21979181 TTAGAGA-AAGAG-AGAGGAAAAA
1 TTAGAGAGAAG-GTAGAGGAAAAA
21979203 ATTGATCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.32, T:0.15
Consensus pattern (25 bp):
TTAGAGAGAAGGTAGAGGAAAAATT
Found at i:21979551 original size:16 final size:16
Alignment explanation
Indices: 21979530--21979590 Score: 70
Period size: 16 Copynumber: 3.6 Consensus size: 16
21979520 AAATTTATAT
21979530 ATTATATTATTGCATG
1 ATTATATTATTGCATG
21979546 ATTATATTATTTTTGCATG
1 ATTATATTA---TTGCATG
*
21979565 ATTATTATTATTGTATG
1 ATTA-TATTATTGCATG
21979582 A-TATATTAT
1 ATTATATTAT
21979591 ATTATTATTG
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
15 6 0.15
16 11 0.28
17 7 0.17
19 11 0.28
20 5 0.12
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (16 bp):
ATTATATTATTGCATG
Found at i:21979593 original size:17 final size:18
Alignment explanation
Indices: 21979534--21979590 Score: 80
Period size: 17 Copynumber: 3.2 Consensus size: 18
21979524 TTATATATTA
21979534 TATTATTGCATGATTATAT
1 TATTATTGCATGA-TATAT
*
21979553 TATTTTTGCATGAT-TAT
1 TATTATTGCATGATATAT
*
21979570 TATTATTGTATGATATAT
1 TATTATTGCATGATATAT
21979588 TAT
1 TAT
21979591 ATTATTATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.44
18 7 0.21
19 12 0.35
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.56
Consensus pattern (18 bp):
TATTATTGCATGATATAT
Found at i:21983316 original size:33 final size:33
Alignment explanation
Indices: 21983279--21983345 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
21983269 AAAAAGAAAG
21983279 CATTTCTTTGTGAAATGAGAAGATATGTTCCAT
1 CATTTCTTTGTGAAATGAGAAGATATGTTCCAT
21983312 CATTTCTTTGTGAAATGAGAAGATATGTTCCAT
1 CATTTCTTTGTGAAATGAGAAGATATGTTCCAT
21983345 C
1 C
21983346 GAGGTTCACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (33 bp):
CATTTCTTTGTGAAATGAGAAGATATGTTCCAT
Found at i:21984390 original size:42 final size:42
Alignment explanation
Indices: 21984298--21984390 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
21984288 GAAAATTTTA
* * * *
21984298 AAGACCTCCCGGCATCAACATGAGAATGAGAAATTTATCCCC
1 AAGACCTCTCGCCATCAAAATGAGAATGACAAATTTATCCCC
* *
21984340 AAGACCTCTCGCCATCAAAATGAGAATGTCAAATTTATCCTC
1 AAGACCTCTCGCCATCAAAATGAGAATGACAAATTTATCCCC
21984382 AAGACCTCT
1 AAGACCTCT
21984391 AAGCATCAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (42 bp):
AAGACCTCTCGCCATCAAAATGAGAATGACAAATTTATCCCC
Found at i:21984398 original size:42 final size:41
Alignment explanation
Indices: 21984309--21984404 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 41
21984299 AGACCTCCCG
* * *
21984309 GCATCAACATGAGAATGAGAAATTTATCCCCAAGACCTCTC
1 GCATCAAAATGAGAATGACAAATTTATCCCCAAGACCTCTA
* *
21984350 GCCATCAAAATGAGAATGTCAAATTTATCCTCAAGACCTCTAA
1 G-CATCAAAATGAGAATGACAAATTTATCCCCAAGACCTCT-A
*
21984393 GCATCAAGATGA
1 GCATCAAAATGA
21984405 CCAATTTGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.02
42 45 0.96
43 1 0.02
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.23
Consensus pattern (41 bp):
GCATCAAAATGAGAATGACAAATTTATCCCCAAGACCTCTA
Found at i:21985195 original size:49 final size:50
Alignment explanation
Indices: 21985141--21985247 Score: 128
Period size: 50 Copynumber: 2.2 Consensus size: 50
21985131 AGATTTATTC
*
21985141 TTAAAGTTGCT-AAGCCTTTGTTTAAA-AAAATTTTTTCAAAATGAGATTT
1 TTAAAGTTGCTGAA-CCTTTATTTAAATAAAATTTTTTCAAAATGAGATTT
* * ** **
21985190 TTAAAGTTGTTGAACCTTTATTTAAATGAGCTTTTTTCAAAATTTGATTT
1 TTAAAGTTGCTGAACCTTTATTTAAATAAAATTTTTTCAAAATGAGATTT
21985240 TTAAAGTT
1 TTAAAGTT
21985248 ATCGAGCTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
49 21 0.43
50 28 0.57
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.47
Consensus pattern (50 bp):
TTAAAGTTGCTGAACCTTTATTTAAATAAAATTTTTTCAAAATGAGATTT
Found at i:21985268 original size:49 final size:50
Alignment explanation
Indices: 21985171--21985273 Score: 138
Period size: 50 Copynumber: 2.1 Consensus size: 50
21985161 TTTAAAAAAA
* *
21985171 TTTTTTCAAAATGAGATTTTTAAAGTTGTTGAACCTTTATTTAAATGAGC
1 TTTTTTCAAAATGAGATTTTTAAAGTTATCGAACCTTTATTTAAATGAGC
** *
21985221 TTTTTTCAAAATTTGATTTTTAAAGTTATCG-AGCTTT-TGTTAAATGAGC
1 TTTTTTCAAAATGAGATTTTTAAAGTTATCGAACCTTTAT-TTAAATGAGC
21985270 TTTT
1 TTTT
21985274 AGATTTATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
48 1 0.02
49 19 0.40
50 27 0.57
ACGTcount: A:0.29, C:0.08, G:0.14, T:0.50
Consensus pattern (50 bp):
TTTTTTCAAAATGAGATTTTTAAAGTTATCGAACCTTTATTTAAATGAGC
Found at i:21985358 original size:21 final size:19
Alignment explanation
Indices: 21985329--21985370 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
21985319 TTAAAAATTC
21985329 AAAAATCAAAAATTTCAAAA
1 AAAAATC-AAAATTTCAAAA
*
21985349 AAAAATTCAAAATTTTAAAA
1 AAAAA-TCAAAATTTCAAAA
21985369 AA
1 AA
21985371 TGGAAAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAATCAAAATTTCAAAA
Found at i:21987488 original size:6 final size:6
Alignment explanation
Indices: 21987477--21987523 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
21987467 ATGAAAATAT
** *
21987477 TTTTCA TTTTCA TTTTCA TTTTTG TTTTCA TTTTCTA TTTTTA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTC-A TTTTCA TTTT
21987524 TTAAGAACAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
6 30 0.86
7 5 0.14
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.74
Consensus pattern (6 bp):
TTTTCA
Found at i:21987504 original size:18 final size:19
Alignment explanation
Indices: 21987474--21987523 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
21987464 TTAATGAAAA
21987474 TATTTTTCATTTTCATTTTC
1 TATTTTT-ATTTTCATTTTC
*
21987494 -ATTTTTGTTTTCATTTTC
1 TATTTTTATTTTCATTTTC
21987512 TATTTTTATTTT
1 TATTTTTATTTT
21987524 TTAAGAACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.74
Consensus pattern (19 bp):
TATTTTTATTTTCATTTTC
Found at i:21995977 original size:6 final size:6
Alignment explanation
Indices: 21995966--21995992 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
21995956 AATTCTCATC
21995966 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
21995993 TTGAGAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:22000397 original size:28 final size:29
Alignment explanation
Indices: 22000344--22000410 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
22000334 TTTACAATAT
* * *
22000344 TGTAATATTTGTTTCAATAATAAATTT-A
1 TGTAATTTTTGTTTAAACAATAAATTTAA
22000372 TGTAATTTTTGTTTAAACAA-AGAATTTAA
1 TGTAATTTTTGTTTAAACAATA-AATTTAA
*
22000401 TTTAATTTTT
1 TGTAATTTTT
22000411 TTAATTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 1 0.03
28 22 0.67
29 10 0.30
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.52
Consensus pattern (29 bp):
TGTAATTTTTGTTTAAACAATAAATTTAA
Found at i:22001729 original size:19 final size:17
Alignment explanation
Indices: 22001700--22001743 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 17
22001690 TAAAGTATTT
22001700 TTTATTTTTATATT-TA
1 TTTATTTTTATATTATA
*
22001716 --AATTTTTATATTATA
1 TTTATTTTTATATTATA
22001731 TTTATTTTTATAT
1 TTTATTTTTATAT
22001744 CAATTGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
14 11 0.48
15 2 0.09
17 10 0.43
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTATTTTTATATTATA
Found at i:22001827 original size:16 final size:15
Alignment explanation
Indices: 22001796--22001825 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22001786 TATTTAATGA
22001796 ATATTAATAATTTTT
1 ATATTAATAATTTTT
*
22001811 ATATTTATAATTTTT
1 ATATTAATAATTTTT
22001826 TAAAAAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATATTAATAATTTTT
Found at i:22003055 original size:14 final size:13
Alignment explanation
Indices: 22003005--22003049 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
22002995 CTGATATGTG
*
22003005 TTTTGGTTCTTGTC
1 TTTTGGTT-TTGTT
*
22003019 TTTTGCTTTTGTT
1 TTTTGGTTTTGTT
22003032 TTTTGGTTTTGGTT
1 TTTTGGTTTT-GTT
22003046 TTTT
1 TTTT
22003050 TTTTTTATGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 13 0.48
14 14 0.52
ACGTcount: A:0.00, C:0.07, G:0.20, T:0.73
Consensus pattern (13 bp):
TTTTGGTTTTGTT
Found at i:22004763 original size:11 final size:11
Alignment explanation
Indices: 22004747--22004771 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22004737 TCTTTGAATA
22004747 TTGGGTTTAAT
1 TTGGGTTTAAT
22004758 TTGGGTTTAAT
1 TTGGGTTTAAT
22004769 TTG
1 TTG
22004772 AATATTGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (11 bp):
TTGGGTTTAAT
Found at i:22005116 original size:11 final size:12
Alignment explanation
Indices: 22005102--22005147 Score: 51
Period size: 11 Copynumber: 3.8 Consensus size: 12
22005092 TATTTTTTCA
22005102 ATTTATTTT-TT
1 ATTTATTTTATT
22005113 ATTTCGATTTTATT
1 ATTT--ATTTTATT
*
22005127 TTTTATTTTATT
1 ATTTATTTTATT
22005139 -TTTATTTTA
1 ATTTATTTTA
22005148 GATTCTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
11 13 0.42
12 8 0.26
13 5 0.16
14 5 0.16
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (12 bp):
ATTTATTTTATT
Found at i:22005137 original size:30 final size:31
Alignment explanation
Indices: 22005089--22005175 Score: 97
Period size: 31 Copynumber: 2.7 Consensus size: 31
22005079 AAGGTTTGGC
* *
22005089 TTTTATTTTTTCAATTTATTTTTTA-TTTCGA
1 TTTTATTTTTT-ATTTTATTTTTTATTTTAGA
22005120 TTTTATTTTTTATTTTA-TTTTTATTTTAGA
1 TTTTATTTTTTATTTTATTTTTTATTTTAGA
*
22005150 TTCTTTTTATTTTATTATTATTTTTT
1 TT-TTATT-TTTTATT-TTATTTTTT
22005176 TTCTCATCCT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
29 6 0.12
30 12 0.25
31 15 0.31
32 7 0.15
33 3 0.06
34 5 0.10
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.76
Consensus pattern (31 bp):
TTTTATTTTTTATTTTATTTTTTATTTTAGA
Found at i:22005146 original size:16 final size:16
Alignment explanation
Indices: 22005127--22005174 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
22005117 CGATTTTATT
22005127 TTTTATTTTATTTTTA
1 TTTTATTTTATTTTTA
** *
22005143 TTTTAGATTCTTTTTA
1 TTTTATTTTATTTTTA
22005159 TTTTATTATTATTTTT
1 TTTTATT-TTATTTTT
22005175 TTTCTCATCC
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 18 0.72
17 7 0.28
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTTATTTTATTTTTA
Found at i:22006742 original size:20 final size:20
Alignment explanation
Indices: 22006719--22006759 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
22006709 ATATTGATTT
22006719 AATTAAAATATA-AATTAATA
1 AATTAAAATATATAA-TAATA
22006739 AATTAAAATATATAATAATA
1 AATTAAAATATATAATAATA
22006759 A
1 A
22006760 TAAGTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AATTAAAATATATAATAATA
Found at i:22018999 original size:24 final size:24
Alignment explanation
Indices: 22018959--22019071 Score: 64
Period size: 25 Copynumber: 4.8 Consensus size: 24
22018949 TGGTTTTTAA
*
22018959 AAAATTAA-ATTGATAAAAAATATT
1 AAAATTAATATT-TTAAAAAATATT
22018983 AAAATTAATATTTT-AAAAATA-T
1 AAAATTAATATTTTAAAAAATATT
*
22019005 -AAA--AA-ATTTAAAAAGAAT-TT
1 AAAATTAATATTTTAAAA-AATATT
* *
22019025 GAAATATTTATTTTTTAAAAAA-ATT
1 -AAA-ATTAATATTTTAAAAAATATT
*
22019050 AAAATCTAATTTTTTTAAAAAA
1 AAAAT-TAA-TATTTTAAAAAA
22019072 GTGAAAAAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 25
0.69 0.06 0.25
Matches are distributed among these distances:
18 4 0.06
19 5 0.07
20 4 0.06
21 3 0.04
22 3 0.04
23 10 0.14
24 14 0.20
25 20 0.29
26 7 0.10
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.39
Consensus pattern (24 bp):
AAAATTAATATTTTAAAAAATATT
Found at i:22027202 original size:13 final size:13
Alignment explanation
Indices: 22027175--22027213 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
22027165 AATTGATTTT
*
22027175 AATTTTTTATTAAA
1 AATTTTTTA-AAAA
22027189 AATTTTTTAAAAA
1 AATTTTTTAAAAA
22027202 AA-TTTTTAAAAA
1 AATTTTTTAAAAA
22027214 TTTCATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 10 0.42
13 5 0.21
14 9 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
AATTTTTTAAAAA
Found at i:22027233 original size:14 final size:12
Alignment explanation
Indices: 22027175--22027230 Score: 60
Period size: 14 Copynumber: 4.4 Consensus size: 12
22027165 AATTGATTTT
22027175 AATTTTTTATTAAA
1 AATTTTTTA--AAA
22027189 AATTTTTTAAAA
1 AATTTTTTAAAA
*
22027201 AAATTTTT-AAA
1 AATTTTTTAAAA
22027212 AATTTCATTTAAAA
1 AATTT--TTTAAAA
22027226 AATTT
1 AATTT
22027231 CATGTAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
11 7 0.19
12 10 0.27
13 3 0.08
14 17 0.46
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (12 bp):
AATTTTTTAAAA
Found at i:22027238 original size:14 final size:14
Alignment explanation
Indices: 22027209--22027238 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22027199 AAAAATTTTT
*
22027209 AAAAATTTCATTTA
1 AAAAATTTCATGTA
22027223 AAAAATTTCATGTA
1 AAAAATTTCATGTA
22027237 AA
1 AA
22027239 TTTTATCCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (14 bp):
AAAAATTTCATGTA
Found at i:22027365 original size:3 final size:3
Alignment explanation
Indices: 22027357--22027386 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
22027347 TCTTAATTAA
22027357 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22027387 GTGTTTTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22033149 original size:21 final size:20
Alignment explanation
Indices: 22033123--22033167 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
22033113 TCGATGAAAA
22033123 TTTTTTTTT-AACTGACTCTT
1 TTTTTTTTTAAACTGAC-CTT
*
22033143 TTTTTTTTTAAACTGACGTT
1 TTTTTTTTTAAACTGACCTT
22033163 TTTTT
1 TTTTT
22033168 CTTCTTTGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.16, C:0.11, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTTTTTTTAAACTGACCTT
Found at i:22033319 original size:31 final size:31
Alignment explanation
Indices: 22033284--22033342 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
22033274 TAATATTATT
* *
22033284 AAATACGAAATATAAAAAAAATATAAAATAC
1 AAATACAAAATACAAAAAAAATATAAAATAC
* *
22033315 AAATACAAAATACCAAAACAATATAAAA
1 AAATACAAAATACAAAAAAAATATAAAA
22033343 AAATAGAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.71, C:0.10, G:0.02, T:0.17
Consensus pattern (31 bp):
AAATACAAAATACAAAAAAAATATAAAATAC
Found at i:22033324 original size:13 final size:13
Alignment explanation
Indices: 22033284--22033327 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
22033274 TAATATTATT
22033284 AAATACGAAATATA
1 AAATAC-AAATATA
22033298 AAA-A-AAATATA
1 AAATACAAATATA
*
22033309 AAATACAAATACA
1 AAATACAAATATA
22033322 AAATAC
1 AAATAC
22033328 CAAAACAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 10 0.37
12 1 0.04
13 13 0.48
14 3 0.11
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.18
Consensus pattern (13 bp):
AAATACAAATATA
Found at i:22033747 original size:13 final size:14
Alignment explanation
Indices: 22033729--22033757 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22033719 TCCAAATGGA
22033729 TTTTTCT-TTTTTT
1 TTTTTCTCTTTTTT
22033742 TTTTTCTCTTTTTT
1 TTTTTCTCTTTTTT
22033756 TT
1 TT
22033758 ATAGACTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTTCTCTTTTTT
Found at i:22033848 original size:53 final size:53
Alignment explanation
Indices: 22033766--22034014 Score: 132
Period size: 51 Copynumber: 4.9 Consensus size: 53
22033756 TTATAGACTA
* * * *
22033766 CTAAAAAAAAATGCTCCTCTCACTTGAGGCTCGATAATTTTTAAAAATTTAAAAT
1 CTAAAAAAAAA-GCTCCTCTCACTAGAGGCTCAACAA-CTTTAAAAATTTAAAAT
*
22033821 CTAAAAAAAAA-CTCCTCTCAGC-AGAGGCTCAACAACTTTAAAAATTT--TAT
1 CTAAAAAAAAAGCTCCTCTCA-CTAGAGGCTCAACAACTTTAAAAATTTAAAAT
* ** * * * * * *
22033871 CT-TAAAAATGGCTCTTCTCAGC-AGAGGCTTAATAACTTT-AAAATCTCATAT
1 CTAAAAAAAAAGCTCCTCTCA-CTAGAGGCTCAACAACTTTAAAAATTTAAAAT
* * * **
22033922 -T---GAAAAAGCTCCTTTCAGC-AGAGGCTCAACAACTTCAAAAATTT-TCAT
1 CTAAAAAAAAAGCTCCTCTCA-CTAGAGGCTCAACAACTTTAAAAATTTAAAAT
** * *
22033970 CT-TGAAAAAAGCTCCTCTCAGC-ATAGGCTCAACGACTTTAAAAAT
1 CTAAAAAAAAAGCTCCTCTCA-CTAGAGGCTCAACAACTTTAAAAAT
22034015 CATTTTGAAA
Statistics
Matches: 158, Mismatches: 28, Indels: 20
0.77 0.14 0.10
Matches are distributed among these distances:
48 29 0.18
49 18 0.11
50 30 0.19
51 39 0.25
52 11 0.07
53 19 0.12
54 1 0.01
55 11 0.07
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (53 bp):
CTAAAAAAAAAGCTCCTCTCACTAGAGGCTCAACAACTTTAAAAATTTAAAAT
Found at i:22033941 original size:98 final size:97
Alignment explanation
Indices: 22033826--22034173 Score: 410
Period size: 97 Copynumber: 3.6 Consensus size: 97
22033816 AAAATCTAAA
* * *
22033826 AAAAAACTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTTATCTTAAAAATGGCTCTTCTCA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTTATCTTAAAAA-AGCTCATCTCA
* *
22033891 GCAGAGGCTTAATAACTTTAAAATCTCATATTG
65 GCAGAGGCTCAACAACTTTAAAATCTCATATTG
* * *
22033924 AAAAAGCTCCTTTCAGCAGAGGCTCAACAACTTCAAAAATTTTCATCTTGAAAAAAGCTCCTCTC
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTT-ATCTT-AAAAAAGCTCATCTC
* * * *
22033989 AGCATAGGCTCAACGACTTTAAAA-ATCATTTTG
64 AGCAGAGGCTCAACAACTTTAAAATCTCATATTG
* * * * * * *
22034022 AAAAGGGTTCATCTTAGCAGAGGCTCAATAACTTTAAAAATTTCATCTTAAAAAAGCTCATCTTA
1 AAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTTATCTTAAAAAAGCTCATCTCA
* * * *
22034087 ACAGAGGCTCAACAATTTTAAAATCTTATCTTG
65 GCAGAGGCTCAACAACTTTAAAATCTCATATTG
* * * *
22034120 AAAAAGCTCCTCTCAACAAAGGCTCAACAACTTTAAAATTTTTATCTTTAAAAA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTTATCTTAAAAAA
22034174 TTCTTTTAAA
Statistics
Matches: 208, Mismatches: 38, Indels: 9
0.82 0.15 0.04
Matches are distributed among these distances:
97 73 0.35
98 66 0.32
99 64 0.31
100 5 0.02
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (97 bp):
AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTTATCTTAAAAAAGCTCATCTCAG
CAGAGGCTCAACAACTTTAAAATCTCATATTG
Found at i:22033956 original size:48 final size:48
Alignment explanation
Indices: 22033826--22034160 Score: 304
Period size: 48 Copynumber: 6.9 Consensus size: 48
22033816 AAAATCTAAA
* * *
22033826 AAAAAACTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTTATCTT-
1 AAAAAGCTCCTTTCAGCAGAGGCTCAACAACTTT-AAAATTTCATCTTG
* * * *
22033874 AAAAATGGCT-CTTCTCAGCAGAGGCTTAATAACTTTAAAATCTCATATTG
1 AAAAA--GCTCCTT-TCAGCAGAGGCTCAACAACTTTAAAATTTCATCTTG
*
22033924 AAAAAGCTCCTTTCAGCAGAGGCTCAACAACTTCAAAAATTTTCATCTTG
1 AAAAAGCTCCTTTCAGCAGAGGCTCAACAACTT-TAAAA-TTTCATCTTG
* * * * *
22033974 AAAAAAGCTCCTCTCAGCATAGGCTCAACGACTTTAAAA-ATCATTTTG
1 -AAAAAGCTCCTTTCAGCAGAGGCTCAACAACTTTAAAATTTCATCTTG
* * * * *
22034022 AAAAGGGTTCATCTT-AGCAGAGGCTCAATAACTTTAAAAATTTCATCTTA
1 AAAA-AGCTCCT-TTCAGCAGAGGCTCAACAACTTT-AAAATTTCATCTTG
* * *
22034072 AAAAAGCTCATCTT-AACAGAGGCTCAACAATTTTAAAATCTT-ATCTTG
1 AAAAAGCTCCT-TTCAGCAGAGGCTCAACAACTTTAAAAT-TTCATCTTG
* * *
22034120 AAAAAGCTCCTCTCAACAAAGGCTCAACAACTTTAAAATTT
1 AAAAAGCTCCTTTCAGCAGAGGCTCAACAACTTTAAAATTT
22034161 TTATCTTTAA
Statistics
Matches: 235, Mismatches: 38, Indels: 29
0.78 0.13 0.10
Matches are distributed among these distances:
47 7 0.03
48 98 0.42
49 51 0.22
50 49 0.21
51 30 0.13
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (48 bp):
AAAAAGCTCCTTTCAGCAGAGGCTCAACAACTTTAAAATTTCATCTTG
Found at i:22034261 original size:64 final size:64
Alignment explanation
Indices: 22034115--22034299 Score: 250
Period size: 64 Copynumber: 2.9 Consensus size: 64
22034105 TAAAATCTTA
* * * * * **
22034115 TCTTGAAAAA--GCTCCTCTCAACAAAGGCTCAACAACTTTAAAATTTTTATCTTTAAAAATTC
1 TCTTGAAAAAGGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAAATTC
* *
22034177 T-TTTAAAAAGGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAAATTC
1 TCTTGAAAAAGGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAAATTC
* *
22034240 TCTTGAAAAAGGGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAAATCTCATATGAAAAA
1 TCTTGAAAAAGGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAA
22034300 GCTCTTTCAG
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
61 7 0.07
62 1 0.01
63 45 0.42
64 54 0.50
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (64 bp):
TCTTGAAAAAGGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAAATTC
Found at i:22034285 original size:49 final size:47
Alignment explanation
Indices: 22034232--22034380 Score: 194
Period size: 49 Copynumber: 3.1 Consensus size: 47
22034222 TCTCATCTGA
*
22034232 AAAAATTCTCTTGAAAAAGGGCTCCTCTCAGCAGAGGCTCCACAACTTT
1 AAAAATTCTCTTGAAAAA--GCTCCTCTCAGCAGAGGCTCAACAACTTT
* *
22034281 AAAAA-TCTCATATGAAAAAGCT-CTTTCAGCAGAGGCTCAACAATTTT
1 AAAAATTCTC-T-TGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT
*
22034328 AAAAATCTCATCTTGAAAAAGCTCTTCTCAGCAGAGGCTCAACAACTTT
1 AAAAAT-TC-TCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT
22034377 AAAA
1 AAAA
22034381 TCTCATATGT
Statistics
Matches: 88, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
47 27 0.31
48 17 0.19
49 35 0.40
50 9 0.10
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (47 bp):
AAAAATTCTCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT
Found at i:22034318 original size:47 final size:48
Alignment explanation
Indices: 22034243--22034389 Score: 217
Period size: 47 Copynumber: 3.0 Consensus size: 48
22034233 AAAATTCTCT
* *
22034243 TGAAAAAGGGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAAATCTCATA
1 TGAAAAA--GCTCTTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATA
* *
22034293 TGAAAAAGCTCTT-TCAGCAGAGGCTCAACAATTTTAAAAATCTCATCT
1 TGAAAAAGCTCTTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCAT-A
22034341 TGAAAAAGCTCTTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATA
1 TGAAAAAGCTCTTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATA
22034388 TG
1 TG
22034390 TTCTCAAAAC
Statistics
Matches: 89, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
47 33 0.37
48 28 0.31
49 21 0.24
50 7 0.08
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (48 bp):
TGAAAAAGCTCTTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATA
Found at i:22035111 original size:17 final size:18
Alignment explanation
Indices: 22035086--22035128 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
22035076 ATATGAGTCA
22035086 TTATTTTTCATTTTTTAC
1 TTATTTTTCATTTTTTAC
*
22035104 TT-TTTTTCATTTTTTTC
1 TTATTTTTCATTTTTTAC
22035121 TTATTTTT
1 TTATTTTT
22035129 TTCAAGCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (18 bp):
TTATTTTTCATTTTTTAC
Found at i:22038102 original size:33 final size:33
Alignment explanation
Indices: 22038038--22038108 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
22038028 AATCAACATT
** *
22038038 TGCATAGCATACATTACATTTTTCAATGTCTAG
1 TGCATAGCATACATTACATTTGACAAGGTCTAG
* * *
22038071 TGCATATCATACGTTACATTTGAGAAGGTCTAG
1 TGCATAGCATACATTACATTTGACAAGGTCTAG
22038104 TGCAT
1 TGCAT
22038109 GAATTTAGGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (33 bp):
TGCATAGCATACATTACATTTGACAAGGTCTAG
Found at i:22038489 original size:43 final size:43
Alignment explanation
Indices: 22038325--22038619 Score: 196
Period size: 43 Copynumber: 6.9 Consensus size: 43
22038315 TAAGCTTTAT
* * *
22038325 TTTATTTTTCAAAGTTGTTAAGCCTCTGATTAAA--TGCAC-T-
1 TTTATTTTTCAAAGTTGTTGAGCTTCTGATTAAAGGAGC-CTTA
*
22038365 TTTATTTTTCAAAGTTATTGAGCTTCT-ACTTAAAGGAGCCTTA
1 TTTATTTTTCAAAGTTGTTGAGCTTCTGA-TTAAAGGAGCCTTA
* * ** * * * *
22038408 TTTATTCTCCAAAAGTCATTAAGTTTCTGCTTATAGGAGCCTTA
1 TTTATTTTTC-AAAGTTGTTGAGCTTCTGATTAAAGGAGCCTTA
* * * *
22038452 TTTATTTTTCAAAGTCGTTAAGCCTCTGATTAAAGGAGTCTTA
1 TTTATTTTTCAAAGTTGTTGAGCTTCTGATTAAAGGAGCCTTA
* * *
22038495 TTTAATTTTTTAAA-TTCGTTGAGCTTCT-ATTTATAA-TAGCTTTA
1 TTT-ATTTTTCAAAGTT-GTTGAGCTTCTGA-TTA-AAGGAGCCTTA
* * * * *
22038539 TTTATTTTTTAAAGTTGTTGAGCTTTTGTTTAAAGAAG-ATGTA
1 TTTATTTTTCAAAGTTGTTGAGCTTCTGATTAAAGGAGCCT-TA
* * *
22038582 TTTATTTTTTCAAAGTTG-TGAGCCTCTGCTTAGAGGAG
1 TTTA-TTTTTCAAAGTTGTTGAGCTTCTGATTAAAGGAG
22038620 TTTTGTGTTA
Statistics
Matches: 203, Mismatches: 36, Indels: 29
0.76 0.13 0.11
Matches are distributed among these distances:
39 1 0.00
40 29 0.14
41 1 0.00
42 6 0.03
43 86 0.42
44 78 0.38
45 2 0.01
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (43 bp):
TTTATTTTTCAAAGTTGTTGAGCTTCTGATTAAAGGAGCCTTA
Found at i:22038671 original size:15 final size:15
Alignment explanation
Indices: 22038651--22038686 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
22038641 TAAGTGTTTG
22038651 AAAAAAAAA-CAAAAC
1 AAAAAAAAAGC-AAAC
22038666 AAAAAAAAAGCAAAC
1 AAAAAAAAAGCAAAC
22038681 AAAAAA
1 AAAAAA
22038687 TATGAACACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 19 0.95
16 1 0.05
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGCAAAC
Found at i:22038910 original size:5 final size:5
Alignment explanation
Indices: 22038900--22038925 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22038890 AGATTTTTAC
22038900 ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT A
22038926 ATGGCTATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:22038984 original size:22 final size:23
Alignment explanation
Indices: 22038941--22038994 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
22038931 TATCTATGAT
* * *
22038941 TTTTTTAGTTTATTTTTTTTTA-
1 TTTTTTAGTTGATTTATCTTTAG
22038963 TTTTTTAGTTGATTTATCTTTAG
1 TTTTTTAGTTGATTTATCTTTAG
22038986 TGTTTTTAG
1 T-TTTTTAG
22038995 ATAATGATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 19 0.70
23 1 0.04
24 7 0.26
ACGTcount: A:0.15, C:0.02, G:0.11, T:0.72
Consensus pattern (23 bp):
TTTTTTAGTTGATTTATCTTTAG
Found at i:22042202 original size:18 final size:18
Alignment explanation
Indices: 22042140--22042220 Score: 66
Period size: 18 Copynumber: 4.6 Consensus size: 18
22042130 TTATTAAAGT
22042140 ATATTAAAAT--TA-TTA
1 ATATTAAAATAATATTTA
22042155 ATATTCAAAAATAAT-TTT-
1 ATATT--AAAATAATATTTA
*
22042173 ATTTTAATAATAATATTTA
1 ATATTAA-AATAATATTTA
*
22042192 ATATTAAAATATTATGTTA
1 ATATTAAAATAATAT-TTA
22042211 ATA-TAAAATA
1 ATATTAAAATA
22042221 CCTAAAATAA
Statistics
Matches: 54, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
15 5 0.09
16 2 0.04
17 11 0.20
18 21 0.39
19 15 0.28
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (18 bp):
ATATTAAAATAATATTTA
Found at i:22042272 original size:18 final size:18
Alignment explanation
Indices: 22042249--22042418 Score: 123
Period size: 18 Copynumber: 9.6 Consensus size: 18
22042239 ATTATTCTTT
22042249 ATATTATTTATTAATATA
1 ATATTATTTATTAATATA
22042267 ATATTATAATTTTTATTAAT-TA
1 ATA-T-T-A--TTTATTAATATA
*
22042289 ATATTATTTATTTAT-TA
1 ATATTATTTATTAATATA
22042306 ATATTATATTATATTAATAGT-
1 ATA-T-TATT-TATTAATA-TA
22042327 ATATTATTTATT-A-ATA
1 ATATTATTTATTAATATA
22042343 ATA-TA-TTA-T--TATA
1 ATATTATTTATTAATATA
22042356 ATATTTATTTATTAATATA
1 ATA-TTATTTATTAATATA
*
22042375 ATAATATTTATT-A-AT-
1 ATATTATTTATTAATATA
*
22042390 ATATTATTTGTTAATATA
1 ATATTATTTATTAATATA
*
22042408 GTATTATTTAT
1 ATATTATTTAT
22042419 AAGTAAAATT
Statistics
Matches: 124, Mismatches: 7, Indels: 42
0.72 0.04 0.24
Matches are distributed among these distances:
13 7 0.06
14 3 0.02
15 15 0.12
16 10 0.08
17 18 0.15
18 25 0.20
19 17 0.14
20 9 0.07
21 5 0.04
22 6 0.05
23 9 0.07
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
ATATTATTTATTAATATA
Found at i:22042282 original size:27 final size:27
Alignment explanation
Indices: 22042252--22042377 Score: 107
Period size: 27 Copynumber: 4.7 Consensus size: 27
22042242 ATTCTTTATA
22042252 TTATTTATTAATATAATATTATAATTT
1 TTATTTATTAATATAATATTATAATTT
* * * *
22042279 TTATTAATTAATATTAT-TTATTTATTA
1 TTATTTATTAATATAATATTA-TAATTT
* *
22042306 ATATTATATT-ATATTAATAGTAT-ATTAT
1 TTATT-TATTAATA-TAATATTATAATT-T
* * *
22042334 TTA-TTAATAATATATTATTATAATAT
1 TTATTTATTAATATAATATTATAATTT
22042360 TTATTTATTAATATAATA
1 TTATTTATTAATATAATA
22042378 ATATTTATTA
Statistics
Matches: 75, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
26 17 0.23
27 47 0.63
28 9 0.12
29 2 0.03
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (27 bp):
TTATTTATTAATATAATATTATAATTT
Found at i:22042330 original size:78 final size:80
Alignment explanation
Indices: 22042248--22042418 Score: 226
Period size: 81 Copynumber: 2.1 Consensus size: 80
22042238 TATTATTCTT
* * *
22042248 TATATTATTTATTAAT-ATA-A-TATTATAATTTTTATTAATTAATATTAT-TTATTTATTAATA
1 TATATTATTTATTAATAATATATTATTATAATATTTATTAATTAATATAATAATATTTATTAATA
22042309 T-TATATTATATTAATA
66 TAT-TATT-TATTAATA
*
22042325 GTATATTATTTATTAATAATATATTATTATAATATTTATTTATTAATATAATAATATTTATTAAT
1 -TATATTATTTATTAATAATATATTATTATAATATTTATTAATTAATATAATAATATTTATTAAT
*
22042390 ATATTATTTGTTAATA
65 ATATTATTTATTAATA
22042406 TAGTATTATTTAT
1 TA-TATTATTTAT
22042419 AAGTAAAATT
Statistics
Matches: 82, Mismatches: 5, Indels: 9
0.85 0.05 0.09
Matches are distributed among these distances:
78 16 0.20
79 3 0.04
80 3 0.04
81 42 0.51
82 17 0.21
83 1 0.01
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (80 bp):
TATATTATTTATTAATAATATATTATTATAATATTTATTAATTAATATAATAATATTTATTAATA
TATTATTTATTAATA
Found at i:22042398 original size:37 final size:37
Alignment explanation
Indices: 22042248--22042398 Score: 121
Period size: 34 Copynumber: 4.3 Consensus size: 37
22042238 TATTATTCTT
* * *
22042248 TATATTATTTATTAATATAATATTATAATTTTTATTAA
1 TATATTATTTATTTAT-TAATATAATAATATTTATTAA
22042286 TTAATATTATTTATTTATTAATAT--T-ATATTATATTAA
1 -T-ATATTATTTATTTATTAATATAATAATATT-TATTAA
*
22042323 TAGTA-TA-TTATTTATTAATA-ATATATTA-TTA-TAA
1 TA-TATTATTTATTTATTAATATA-ATAATATTTATTAA
22042357 TAT-TTATTTA-TTA---ATATAATAATATTTATTAA
1 TATATTATTTATTTATTAATATAATAATATTTATTAA
22042389 TATATTATTT
1 TATATTATTT
22042399 GTTAATATAG
Statistics
Matches: 95, Mismatches: 4, Indels: 32
0.73 0.03 0.24
Matches are distributed among these distances:
30 8 0.08
31 4 0.04
32 6 0.06
33 12 0.13
34 21 0.22
35 5 0.05
36 9 0.09
37 9 0.09
39 7 0.07
40 14 0.15
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.58
Consensus pattern (37 bp):
TATATTATTTATTTATTAATATAATAATATTTATTAA
Found at i:22044325 original size:46 final size:46
Alignment explanation
Indices: 22044257--22044344 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 46
22044247 GGTTCCTTGC
* *
22044257 AATTAACAAACAGTTAAGAAATTCAGCACTTGTGCTTATTTATTGT
1 AATTAACAAACAGCTAACAAATTCAGCACTTGTGCTTATTTATTGT
* *
22044303 AATTAGCAAACAGCTAACAAATTCGGCACTTGTGCTTATTTA
1 AATTAACAAACAGCTAACAAATTCAGCACTTGTGCTTATTTA
22044345 GAGTACAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (46 bp):
AATTAACAAACAGCTAACAAATTCAGCACTTGTGCTTATTTATTGT
Found at i:22051647 original size:19 final size:19
Alignment explanation
Indices: 22051623--22051659 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
22051613 AAATATATGT
22051623 AAGAATAATGTAATTTTTC
1 AAGAATAATGTAATTTTTC
*
22051642 AAGAATCATGTAATTTTT
1 AAGAATAATGTAATTTTT
22051660 GACAGCAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (19 bp):
AAGAATAATGTAATTTTTC
Found at i:22058466 original size:21 final size:21
Alignment explanation
Indices: 22058444--22058510 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 21
22058434 GTAAAAAATT
*
22058444 TTATTTATTTTTTAAATTTTT
1 TTATTTATTTTTTAAATTTTA
*
22058465 TTGA-TT-TTTTTTAAATATTA
1 TT-ATTTATTTTTTAAATTTTA
*
22058485 TT-TTTATTACTTTAAATTTTA
1 TTATTTATT-TTTTAAATTTTA
22058506 TTATT
1 TTATT
22058511 AATATTTATG
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
19 2 0.05
20 16 0.43
21 16 0.43
22 3 0.08
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.70
Consensus pattern (21 bp):
TTATTTATTTTTTAAATTTTA
Found at i:22062181 original size:61 final size:63
Alignment explanation
Indices: 22062086--22062279 Score: 201
Period size: 61 Copynumber: 3.2 Consensus size: 63
22062076 AAACGTATTC
* *
22062086 AATAAT-CTCTTTCC-A-TTTTTTTGAAGATTATTCAAAAAGTTTTT-GACAAAAAATACCTTT
1 AATAATCCTC-TTCCAATTTTTTTTGAAGATTATTCAAGAAGTTTTTGGACAAAAAATACCTTA
** *
22062146 AATAATCCTC-TCCAATTTTTTTTGAAGATTATTCAAGGTGTTTTTGGTA-AAAAAACACCTTA
1 AATAATCCTCTTCCAATTTTTTTTGAAGATTATTCAAGAAGTTTTTGG-ACAAAAAATACCTTA
* * * * *
22062208 AATAATTCTCTTCCATTTTTTTTTG-A-ATTATTCAAGGCA-TTTTTGGCCAAAAAATACCTTG
1 AATAATCCTCTTCCAATTTTTTTTGAAGATTATTCAA-GAAGTTTTTGGACAAAAAATACCTTA
22062269 AATAAT-CTCTT
1 AATAATCCTCTT
22062280 ACAAAAAATT
Statistics
Matches: 114, Mismatches: 12, Indels: 16
0.80 0.08 0.11
Matches are distributed among these distances:
59 3 0.03
60 12 0.11
61 62 0.54
62 23 0.20
63 14 0.12
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.43
Consensus pattern (63 bp):
AATAATCCTCTTCCAATTTTTTTTGAAGATTATTCAAGAAGTTTTTGGACAAAAAATACCTTA
Found at i:22076425 original size:41 final size:41
Alignment explanation
Indices: 22076380--22076459 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
22076370 CCTGCTAAAA
* * *
22076380 ATCTTAGTATTCATAACTTGAAAATTGAGCTTAATGCCATC
1 ATCTTAGTATTCATAACCTAAAAATTAAGCTTAATGCCATC
** *
22076421 ATCTTAGTATTTGTAACCTAAAAATTAAGCTTGATGCCA
1 ATCTTAGTATTCATAACCTAAAAATTAAGCTTAATGCCA
22076460 CCATTGTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.36
Consensus pattern (41 bp):
ATCTTAGTATTCATAACCTAAAAATTAAGCTTAATGCCATC
Found at i:22077300 original size:8 final size:8
Alignment explanation
Indices: 22077287--22077335 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
22077277 ATATATAAAA
22077287 ATACATAT
1 ATACATAT
22077295 ATACATAT
1 ATACATAT
* *
22077303 ATATAAAT
1 ATACATAT
*
22077311 A-ACA-AA
1 ATACATAT
22077317 ATACATAT
1 ATACATAT
22077325 ATACATAT
1 ATACATAT
22077333 ATA
1 ATA
22077336 AATACTTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
6 2 0.06
7 5 0.15
8 27 0.79
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (8 bp):
ATACATAT
Found at i:22077310 original size:22 final size:21
Alignment explanation
Indices: 22077264--22077327 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
22077254 ATATCAAAGT
*
22077264 TAAATAAATAATA-ATATATA
1 TAAATACATAATACATATATA
*
22077284 AAAATACATATATACATATATA
1 TAAATACATA-ATACATATATA
*
22077306 TAAATAACAAAATACATATATA
1 TAAAT-ACATAATACATATATA
22077328 CATATATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
20 8 0.22
21 3 0.08
22 22 0.59
23 4 0.11
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (21 bp):
TAAATACATAATACATATATA
Found at i:22080462 original size:18 final size:17
Alignment explanation
Indices: 22080439--22080497 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
22080429 TTATTTAAAT
*
22080439 AAAAAATAAAATATATAA
1 AAAAAAAAAAATATAT-A
* *
22080457 AAAAAACAAAAATTTGTA
1 AAAAAA-AAAAATATATA
*
22080475 AAAAAAAAAAAGATAGTA
1 AAAAAAAAAAATATA-TA
22080493 AAAAA
1 AAAAA
22080498 GATTTAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 6 0.18
18 20 0.61
19 7 0.21
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (17 bp):
AAAAAAAAAAATATATA
Found at i:22080468 original size:19 final size:18
Alignment explanation
Indices: 22080434--22080485 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
22080424 CAAATTTATT
22080434 TAAATAAAAAATAAAATATA
1 TAAA-AAAAAA-AAAATATA
* *
22080454 TAAAAAAAACAAAAATTTG
1 TAAAAAAAA-AAAAATATA
22080473 TAAAAAAAAAAAA
1 TAAAAAAAAAAAA
22080486 GATAGTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 4 0.14
19 20 0.69
20 5 0.17
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (18 bp):
TAAAAAAAAAAAAATATA
Found at i:22080496 original size:19 final size:18
Alignment explanation
Indices: 22080434--22080497 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
22080424 CAAATTTATT
22080434 TAAATAAAAAATAAAATATA-
1 TAAA-AAAAAA-AAAA-ATAG
* *
22080454 TAAAAAAAACAAAAATTTG
1 TAAAAAAAA-AAAAAATAG
*
22080473 TAAAAAAAAAAAAGATAG
1 TAAAAAAAAAAAAAATAG
22080491 TAAAAAA
1 TAAAAAA
22080498 GATTTAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
18 14 0.38
19 18 0.49
20 5 0.14
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.19
Consensus pattern (18 bp):
TAAAAAAAAAAAAAATAG
Found at i:22082764 original size:18 final size:20
Alignment explanation
Indices: 22082733--22082785 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
22082723 TTTAAAAAAG
*
22082733 AAAAAAAGTTAAAG-TTAAA
1 AAAAAAAGTAAAAGATTAAA
22082752 AAAAAAAG-AAAAGCATTAAA
1 AAAAAAAGTAAAAG-ATTAAA
*
22082772 AATAAAAATTAAAA
1 AA-AAAAAGTAAAA
22082786 ACCAAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 4 0.14
19 8 0.29
20 7 0.25
21 5 0.18
22 4 0.14
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.17
Consensus pattern (20 bp):
AAAAAAAGTAAAAGATTAAA
Found at i:22086064 original size:24 final size:23
Alignment explanation
Indices: 22086016--22086072 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
22086006 ATATCATTAT
*
22086016 ATAATTAATTAATAAATTAAAAC
1 ATAATTAAATAATAAATTAAAAC
*
22086039 ATAATTAAATAACTAAACTT-ACAC
1 ATAATTAAATAA-TAAA-TTAAAAC
*
22086063 ATAATAAAAT
1 ATAATTAAAT
22086073 TTAAACTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.38
24 16 0.55
25 2 0.07
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.32
Consensus pattern (23 bp):
ATAATTAAATAATAAATTAAAAC
Found at i:22087508 original size:16 final size:16
Alignment explanation
Indices: 22087487--22087520 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
22087477 TATATTTTAT
22087487 TATTATAGA-TTATAAA
1 TATTATA-ACTTATAAA
22087503 TATTATAACTTATAAA
1 TATTATAACTTATAAA
22087519 TA
1 TA
22087521 ACTATGAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 16 0.94
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (16 bp):
TATTATAACTTATAAA
Found at i:22097481 original size:3 final size:3
Alignment explanation
Indices: 22097473--22097512 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
22097463 CCTTTGTAAA
22097473 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
22097513 GTAATAGTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:22099903 original size:60 final size:60
Alignment explanation
Indices: 22099786--22100283 Score: 315
Period size: 60 Copynumber: 8.1 Consensus size: 60
22099776 TTATGCAGAA
* * ** *
22099786 AAAATTGATATTTTTAACTTTTCCCCCAAAAATATTTTTTTGTGGAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTTCAAAAATA-TTTTTT-TGGAAAACTTATTTTCAAGG
*
22099848 AAAATTGATACTTTCAACTTTT-CTTCAAAAATATTTTTTGTGGAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTTCAAAAATATTTTTT-TGGAAAACTTATTTTCAAGG
* * * *
22099908 AAAATTGATACTTTCAACTTTTATCAACTTTTCCTCAAAATCCTTTTTTTTTTGAAAATTTATTT
1 AAAATTGATACTTTCAAC-TTT-TC--C---T--TCAAAA--ATATTTTTTTGGAAAACTTATTT
* *
22099973 TTAAGA
55 TCAAGG
* * * *
22099979 AAAATTGATAATTTCAACTTTTTCC-CCAAAAATA-TTTTTTGG-AAACTTTTAATTTT-GAGA
1 AAAATTGATACTTTCAAC-TTTTCCTTCAAAAATATTTTTTTGGAAAAC--TT-ATTTTCAAGG
** * * *
22100039 AAAATTGATACTTTCAACTTTTCCTAAAAAAAAAACTTTTTTT--AAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCT-TCAAAAATA-TTTTTTTGGAAAACTTATTTTCAAGG
* * * *
22100099 AAAATTGATACTTTCAA-TTTT-TTTCCAAAAATA-TTTTTT-GAAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCTT-CAAAAATATTTTTTTGGAAAAC-TTATTTTCAAGG
* * *
22100157 AAAATTGATACTTTCAACTTTTCCTCCAAAAAAAAAACTTTTTTT-GTAAACTTTAATTTT-AAG
1 AAAATTGATACTTTCAACTTTTCCTTC---AAAAATA-TTTTTTTGGAAAAC-TT-ATTTTCAAG
22100220 G
60 G
* * * * * * *
22100221 AAAACTGATACTTTCAACTTTTTC-TCAAAACCT-TTTTTTTTGAAAATTTGTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTTCAAAA-ATATTTTTTTGGAAAACTTATTTTCAAGG
22100280 AAAA
1 AAAA
22100284 ATATTTTTTC
Statistics
Matches: 352, Mismatches: 49, Indels: 73
0.74 0.10 0.15
Matches are distributed among these distances:
56 6 0.02
57 4 0.01
58 39 0.11
59 44 0.12
60 98 0.28
61 23 0.07
62 35 0.10
63 7 0.02
64 38 0.11
65 5 0.01
68 2 0.01
70 8 0.02
71 36 0.10
72 7 0.02
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTCCTTCAAAAATATTTTTTTGGAAAACTTATTTTCAAGG
Found at i:22100089 original size:120 final size:121
Alignment explanation
Indices: 22099953--22100244 Score: 446
Period size: 120 Copynumber: 2.4 Consensus size: 121
22099943 CAAAATCCTT
* *
22099953 TTTTTTTTGAAAATTTATTTTTAAGAAAAATTGATAATTTCAACTTTTTCCCCAAAAATATTTTT
1 TTTTTTTT-AAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTCCCCAAAAATATTTTT
* *
22100018 TGGAAACTTTTAATTTTGAGAAAAATTGATACTTTCAACTTTTCCT-AAAAAAAAAAC
65 TGAAAAC-TTTAATTTCGAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAAAC
**
22100075 -TTTTTTTAAAATTTATTTTTAAGGAAAATTGATACTTTCAA-TTTTTTTCCAAAAATATTTTTT
1 TTTTTTTTAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTCCCCAAAAATATTTTTT
22100138 GAAAACTTTAATTTCGAGAAAAATTGATACTTTCAACTTTTCCTCCAAAAAAAAAAC
66 GAAAACTTTAATTTCGAGAAAAATTGATACTTTCAACTTTTCCT-CAAAAAAAAAAC
* * *
22100195 TTTTTTTGTAAACTTTAATTTTAAGGAAAACTGATACTTTCAACTTTTTC
1 TTTTTTT-TAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTC
22100245 TCAAAACCTT
Statistics
Matches: 155, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
118 37 0.24
119 25 0.16
120 43 0.28
121 13 0.08
122 32 0.21
123 5 0.03
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.45
Consensus pattern (121 bp):
TTTTTTTTAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTCCCCAAAAATATTTTTT
GAAAACTTTAATTTCGAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAAAC
Found at i:22100331 original size:10 final size:10
Alignment explanation
Indices: 22100312--22100442 Score: 67
Period size: 9 Copynumber: 14.1 Consensus size: 10
22100302 TATTTAAAGA
22100312 AAAT-AAAAT
1 AAATAAAAAT
22100321 AAATAAAAAT
1 AAATAAAAAT
22100331 --A-AAAAAT
1 AAATAAAAAT
22100338 AAA-AAAAA-
1 AAATAAAAAT
22100346 AAATAAAAA-
1 AAATAAAAAT
22100355 AAATAAAAA-
1 AAATAAAAAT
22100364 AATATTAAACAAT
1 AA-A-TAAA-AAT
**
22100377 -CCT-AAAAT
1 AAATAAAAAT
*
22100385 AATAAAAAAAT
1 AA-ATAAAAAT
22100396 AAA-ATAAAA-
1 AAATA-AAAAT
*
22100405 AAATAAAAAA
1 AAATAAAAAT
22100415 AAAT-AAAA-
1 AAATAAAAAT
*
22100423 AAATGAAAAT
1 AAATAAAAAT
22100433 AAA-AAAAAT
1 AAATAAAAAT
22100442 A
1 A
22100443 TTAAACAATC
Statistics
Matches: 100, Mismatches: 6, Indels: 32
0.72 0.04 0.23
Matches are distributed among these distances:
7 6 0.06
8 11 0.11
9 50 0.50
10 20 0.20
11 11 0.11
12 2 0.02
ACGTcount: A:0.81, C:0.02, G:0.01, T:0.16
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:22100342 original size:8 final size:8
Alignment explanation
Indices: 22100306--22100442 Score: 93
Period size: 8 Copynumber: 16.2 Consensus size: 8
22100296 TTACTTTATT
22100306 TAAAGAAAA
1 TAAA-AAAA
22100315 TAAAATAAA
1 TAAAA-AAA
22100324 TAAAAATAA
1 TAAAAA-AA
22100333 -AAAATAAA
1 TAAAA-AAA
*
22100341 AAAAAAAA
1 TAAAAAAA
22100349 TAAAAAAAA
1 T-AAAAAAA
22100358 TAAAAAAA
1 TAAAAAAA
*
22100366 TATTAAACAATCC
1 TA--AAA-AA--A
*
22100379 TAAAATAA
1 TAAAAAAA
22100387 TAAAAAAA
1 TAAAAAAA
22100395 TAAAATAAA
1 TAAAA-AAA
*
22100404 -AAAATAA
1 TAAAAAAA
22100411 -AAAAAAA
1 TAAAAAAA
22100418 TAAAAAAA
1 TAAAAAAA
* *
22100426 TGAAAATA
1 TAAAAAAA
22100434 -AAAAAAA
1 TAAAAAAA
22100441 TA
1 TA
22100443 TTAAACAATC
Statistics
Matches: 104, Mismatches: 11, Indels: 27
0.73 0.08 0.19
Matches are distributed among these distances:
7 13 0.12
8 50 0.48
9 30 0.29
10 4 0.04
11 5 0.05
13 2 0.02
ACGTcount: A:0.80, C:0.02, G:0.01, T:0.16
Consensus pattern (8 bp):
TAAAAAAA
Found at i:22100346 original size:18 final size:18
Alignment explanation
Indices: 22100316--22100440 Score: 87
Period size: 18 Copynumber: 6.7 Consensus size: 18
22100306 TAAAGAAAAT
*
22100316 AAAAT-AAATAAAAATAA
1 AAAATAAAAAAAAAATAA
22100333 AAAATAAAAAAAAAAATAA
1 AAAAT-AAAAAAAAAATAA
22100352 AAAA-AATAAAAAAATATTAA
1 AAAATAA-AAAAAAA-A-TAA
* *** *
22100372 ACAATCCTAAAATAATAAA
1 AAAATAAAAAAAAAAT-AA
22100391 AAAATAAAATAAAAAAATAA
1 AAAAT-AAA-AAAAAAATAA
*
22100411 AAAA-AAATAAAAAAAT-G
1 AAAATAAA-AAAAAAATAA
22100428 AAAATAAAAAAAA
1 AAAATAAAAAAAA
22100441 TATTAAACAA
Statistics
Matches: 86, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
17 16 0.19
18 23 0.27
19 23 0.27
20 17 0.20
21 7 0.08
ACGTcount: A:0.82, C:0.02, G:0.01, T:0.15
Consensus pattern (18 bp):
AAAATAAAAAAAAAATAA
Found at i:22100383 original size:42 final size:39
Alignment explanation
Indices: 22100311--22100442 Score: 124
Period size: 42 Copynumber: 3.3 Consensus size: 39
22100301 TTATTTAAAG
* *
22100311 AAAATAAAATAAATAAA-AATAAAAAATAAAAAAAAAAAT
1 AAAA-AAAATAAAAAAATAAAAAAAAATAAAAAAAAAAAT
*** *
22100350 AAAAAAAATAAAAAAATATTAAACAATCCTAAAATAATAAAA-
1 AAAAAAAATAAAAAAATA--AAA-AAAAATAAAA-AAAAAAAT
*
22100392 AAATAAAATAAAAAAATAAAAAAAAATAAAAAAATGAAAAT
1 AAAAAAAATAAAAAAATAAAAAAAAATAAAAAAA--AAAAT
22100433 AAAAAAAATA
1 AAAAAAAATA
22100443 TTAAACAATC
Statistics
Matches: 73, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
38 13 0.18
39 12 0.16
40 7 0.10
41 11 0.15
42 24 0.33
43 6 0.08
ACGTcount: A:0.81, C:0.02, G:0.01, T:0.16
Consensus pattern (39 bp):
AAAAAAAATAAAAAAATAAAAAAAAATAAAAAAAAAAAT
Found at i:22100441 original size:75 final size:72
Alignment explanation
Indices: 22100313--22100490 Score: 229
Period size: 75 Copynumber: 2.4 Consensus size: 72
22100303 ATTTAAAGAA
*
22100313 AATAAAATAAATAAAA-ATAAAAAATAAAAAAAAAAATAAAAAAAATAAAAAAATATTAAACAAT
1 AATAAAATAAATAAAATA-AAAAAATAAAAAAAAAAAAAAAAAAAATAAAAAAATATTAAACAAT
22100377 CCTAAAAT
65 CCTAAAAT
22100385 AATAAAA-AAATAAAATAAAAAAATAAAAAAAAATAAAAAAATGAAAATAAAAAAAATATTAAAC
1 AATAAAATAAATAAAATAAAAAAATAAAAAAAAA-AAAAAAA--AAAAT-AAAAAAATATTAAAC
* *
22100449 AATCTTAATAT
62 AATCCTAAAAT
* *
22100460 AATAATAATAAA-AAGATGAAAAAA-AAAAAAA
1 AATAA-AATAAATAAAATAAAAAAATAAAAAAA
22100491 CCTGCGAACG
Statistics
Matches: 94, Mismatches: 5, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
71 24 0.26
72 14 0.15
74 5 0.05
75 36 0.38
76 12 0.13
77 3 0.03
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.18
Consensus pattern (72 bp):
AATAAAATAAATAAAATAAAAAAATAAAAAAAAAAAAAAAAAAAATAAAAAAATATTAAACAATC
CTAAAAT
Found at i:22100865 original size:3 final size:3
Alignment explanation
Indices: 22100851--22100912 Score: 97
Period size: 3 Copynumber: 19.7 Consensus size: 3
22100841 ATAAAACTAT
22100851 TAA TAGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
22100897 TAGA TAAA TAA TAA TA
1 TA-A T-AA TAA TAA TA
22100913 TGTATATCAA
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
3 48 0.86
4 7 0.12
5 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:22101305 original size:44 final size:44
Alignment explanation
Indices: 22101204--22101337 Score: 171
Period size: 45 Copynumber: 3.0 Consensus size: 44
22101194 AAAATTTAAT
* * * *
22101204 CAAAACTCCTCTAAGCAGAGGTTTAACGAC-TTTGAATAACATAAA
1 CAAAACTCCTCTAATCAGAGGCTCAAAGACTTTTGAA-AA-ATAAA
* *
22101249 CAAAACTTCTCTAATCAGAGGCTCAAATACTTTTGAAAAATAAA
1 CAAAACTCCTCTAATCAGAGGCTCAAAGACTTTTGAAAAATAAA
*
22101293 CAAAACTCCTCTAATCAGAGGCTCAAAGACTTTTTGGAAAATAAA
1 CAAAACTCCTCTAATCAGAGGCTCAAAGAC-TTTTGAAAAATAAA
22101338 TGGCTTCTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
44 33 0.42
45 39 0.50
46 6 0.08
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.25
Consensus pattern (44 bp):
CAAAACTCCTCTAATCAGAGGCTCAAAGACTTTTGAAAAATAAA
Found at i:22101367 original size:43 final size:42
Alignment explanation
Indices: 22101257--22101399 Score: 162
Period size: 42 Copynumber: 3.3 Consensus size: 42
22101247 AACAAAACTT
* **
22101257 CTCTAATCAGAGGCTCAAATACTTTT-GAAAAATAAACAAAACTC
1 CTCTAATCAGAGGCTCAAAGACTTTTAG-AAAAT-AA-AAGGCTC
* * *
22101301 CTCTAATCAGAGGCTCAAAGACTTTTTGGAAAATAAATGGCTT
1 CTCTAATCAGAGGCTCAAAGAC-TTTTAGAAAATAAAAGGCTC
* * *
22101344 CTTTAATTAGAGGCTCAACGACTTTTAGAAAATAAAAGGCTC
1 CTCTAATCAGAGGCTCAAAGACTTTTAGAAAATAAAAGGCTC
22101386 CTCTAATCAGAGGC
1 CTCTAATCAGAGGC
22101400 AAAATTTTTT
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
42 29 0.35
43 22 0.26
44 23 0.27
45 9 0.11
46 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.27
Consensus pattern (42 bp):
CTCTAATCAGAGGCTCAAAGACTTTTAGAAAATAAAAGGCTC
Found at i:22101438 original size:16 final size:14
Alignment explanation
Indices: 22101407--22101461 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 14
22101397 GGCAAAATTT
22101407 TTTTTATTTTTATTTA
1 TTTTT-TTTTT-TTTA
22101423 TTTTTTTTGGTTTTTA
1 TTTTTTTT--TTTTTA
22101439 TGTTTTTGTTTTTTTA
1 T-TTTTT-TTTTTTTA
22101455 TTTTTTT
1 TTTTTTT
22101462 AAAAAATGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 1 0.03
15 8 0.23
16 17 0.49
17 7 0.20
18 2 0.06
ACGTcount: A:0.09, C:0.00, G:0.07, T:0.84
Consensus pattern (14 bp):
TTTTTTTTTTTTTA
Found at i:22101604 original size:41 final size:41
Alignment explanation
Indices: 22101546--22102019 Score: 512
Period size: 41 Copynumber: 11.3 Consensus size: 41
22101536 CCATGACTTC
* * *
22101546 AAAAATAAA-TGCTCCTCTAAACAGAGGTACCACAACTTTG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
*
22101586 AAAAGTAAATTGCTCCTCTAAATAGAGGCAACCACGACTTTG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGC-ACCACGACTTTG
* *
22101628 AAAAATAAATTGCTCCTCTAAACAGAGGCACCATGACTTTG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
*
22101669 AAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
* *
22101710 AAAAGTAAATTGCTCCTCTACAACAGAGGCATCA-AACTTTGGG
1 AAAAGTAAATTGCTCCTCTA-AACAGAGGCACCACGACTTT--G
* * *
22101753 AAAA-TAAAATTACT-CTCTAAACAGAGGCAGCCGCAACTTTG
1 AAAAGT-AAATTGCTCCTCTAAACAGAGGCA-CCACGACTTTG
*
22101794 AAAAGTAAATTGCTCCTCTAAATAGAGGCAACCACGAC-TTG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGC-ACCACGACTTTG
* *
22101835 AAAA-TAAATTGCT-CTCTAAAACAGAAGGCAAGTAGAATCGCGACTTTG
1 AAAAGTAAATTGCTCCTCT-AAACAG-AGGC-------ACCACGACTTTG
* * * *
22101883 AAAAGTAAAATGCTCCTCTAAATAGAGGCACTACGAATTTG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
* **
22101924 AAAAGTAAATTGCTCCTCTAAACAGAGGCAACAAAACTTTG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
* ** *
22101965 AAAAATAAATTGCTTTTCTAAACAGGGGCACCACGACTTTG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
*
22102006 AAAAATAAATTGCT
1 AAAAGTAAATTGCT
22102020 TATTGACAAT
Statistics
Matches: 369, Mismatches: 43, Indels: 43
0.81 0.09 0.09
Matches are distributed among these distances:
39 4 0.01
40 22 0.06
41 214 0.58
42 75 0.20
43 19 0.05
47 7 0.02
48 11 0.03
49 13 0.04
50 4 0.01
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (41 bp):
AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
Found at i:22101898 original size:89 final size:89
Alignment explanation
Indices: 22101702--22101954 Score: 262
Period size: 89 Copynumber: 2.9 Consensus size: 89
22101692 AGAGGTACCA
* * *
22101702 CGACTTTGAAAAGTAAATTGCTCCTCTACAACAGAGGCATCA--AACTTTGGGAAAA-TAAAATT
1 CGACTTTGAAAAGTAAAATGCTCCTCTA-AATAGAGGCACCACGAAC-TT--GAAAAGT-AAATT
* *
22101764 ACT-CTCTAAACAGAGGC----AG--CCG
61 GCTCCTCTAAACAGAGGCAAGTAGAATCG
* *
22101786 CAACTTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCAACCACG-ACTTGAAAA-TAAATTGCT-
1 CGACTTTGAAAAGTAAAATGCTCCTCTAAATAGAGGC-ACCACGAACTTGAAAAGTAAATTGCTC
22101848 CTCTAAAACAGAAGGCAAGTAGAATCG
65 CTCT-AAACAG-AGGCAAGTAGAATCG
* *
22101875 CGACTTTGAAAAGTAAAATGCTCCTCTAAATAGAGGCACTACGAATTTGAAAAGTAAATTGCTCC
1 CGACTTTGAAAAGTAAAATGCTCCTCTAAATAGAGGCACCACGAACTTGAAAAGTAAATTGCTCC
22101940 TCTAAACAGAGGCAA
66 TCTAAACAGAGGCAA
22101955 CAAAACTTTG
Statistics
Matches: 146, Mismatches: 9, Indels: 23
0.82 0.05 0.13
Matches are distributed among these distances:
81 11 0.08
82 12 0.08
83 12 0.08
84 32 0.22
85 2 0.01
87 2 0.01
88 5 0.03
89 51 0.35
90 15 0.10
91 4 0.03
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (89 bp):
CGACTTTGAAAAGTAAAATGCTCCTCTAAATAGAGGCACCACGAACTTGAAAAGTAAATTGCTCC
TCTAAACAGAGGCAAGTAGAATCG
Found at i:22103613 original size:24 final size:24
Alignment explanation
Indices: 22103586--22103655 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
22103576 AATTTGAATA
*
22103586 TCTTTTTTCATTTTTCATTTTTTT
1 TCTTCTTTCATTTTTCATTTTTTT
* **
22103610 TCTTCTTTCTTTTTTTTTTTTTTT
1 TCTTCTTTCATTTTTCATTTTTTT
* *
22103634 TCATCATTT-TTTTTTCATTTTT
1 TCTTC-TTTCATTTTTCATTTTT
22103656 CATCCATTGT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
24 35 0.92
25 3 0.08
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (24 bp):
TCTTCTTTCATTTTTCATTTTTTT
Found at i:22103622 original size:16 final size:17
Alignment explanation
Indices: 22103588--22103658 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 17
22103578 TTTGAATATC
22103588 TTTTTTCATTTTTCATT
1 TTTTTTCATTTTTCATT
*
22103605 TTTTTTC-TTCTTTCTTTT
1 TTTTTTCATT-TTTC-ATT
**
22103623 TTTTTTTTTTTTCATCATTT
1 TTTTTTCATTTT--TCA-TT
22103643 TTTTTTCATTTTTCAT
1 TTTTTTCATTTTTCAT
22103659 CCATTGTTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
16 2 0.05
17 12 0.28
18 13 0.30
19 2 0.05
20 14 0.33
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTCATTTTTCATT
Found at i:22103654 original size:21 final size:21
Alignment explanation
Indices: 22103619--22103659 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22103609 TTCTTCTTTC
**
22103619 TTTTTTTTTTTTTTTTCATCA
1 TTTTTTTTTCATTTTTCATCA
22103640 TTTTTTTTTCATTTTTCATC
1 TTTTTTTTTCATTTTTCATC
22103660 CATTGTTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTTTTTCATTTTTCATCA
Found at i:22107938 original size:59 final size:58
Alignment explanation
Indices: 22107528--22108016 Score: 541
Period size: 59 Copynumber: 8.4 Consensus size: 58
22107518 TTGTTCAGAA
* ** *
22107528 AAAATTGATACTTTCAATTTTTCCCCAAAAATATTCTTTT-GAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATT-TTTTGGAAACTTTAATTTTAAGG
** * *
22107586 AAAATTGATACTTTCAACTTTTCCTTAAAAAT-TCATTTTTGAAAAC-TTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATAT--TTTTTGGAAACTTTAATTTTAAGG
22107644 -AAATTGATACTTTCAACTTTTCTCCCAAAAATATTTTTTTGTGGAAAGC-TT-ATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTC-CCCAAAAATA--TTTTT-TGGAAA-CTTTAATTTT-AAGG
* **** *
22107705 AAAATTGATACTTTCAACTTTTCCTCAAAAA-CCCCTTT-GAAAATTT-ATCTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTAAT-TTTAAGG
* * *
22107761 AAAATTGATACTTTTAACTTTTTCCCAAAAATATTTTTTGAAAACTTTAA-TTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTAATTTTAAGG
* * * * * *
22107818 AAAATTGATACTTTCAACTTTTCCTC-AAAATCTTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTAATTTTAAGG
*
22107875 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTTAATTTTGAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAAC-TTTAATTTTAAGG
* * * *
22107934 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTAGAAACTTTTAATTTTGAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAAC-TTTAATTTTAAGG
22107993 AAAATTGATACTTTCAACTTTTCC
1 AAAATTGATACTTTCAACTTTTCC
22108017 TCAGAACTTT
Statistics
Matches: 365, Mismatches: 47, Indels: 37
0.81 0.10 0.08
Matches are distributed among these distances:
56 58 0.16
57 91 0.25
58 71 0.19
59 99 0.27
60 9 0.02
61 15 0.04
62 22 0.06
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTAATTTTAAGG
Found at i:22108030 original size:59 final size:57
Alignment explanation
Indices: 22107527--22108058 Score: 499
Period size: 57 Copynumber: 9.1 Consensus size: 57
22107517 TTTGTTCAGA
* * * **
22107527 AAAAATTGATACTTTCAATTTTTCCCCAAAAATATTCTTTTGAAACTTTAATTTCGAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTGAAACTTTAATTTTAAG
* * *
22107585 AAAAATTGATACTTTCAACTTTTCCTTAAAAATTCATTTTTGAAAAC-TTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATT-TTTTTTG-AAACTTTAATTTTAAG
* *
22107643 -GAAATTGATACTTTCAACTTTTCTCCCAAAAATATTTTTTTGTGGAAAGC-TT-ATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTC-CTC-AAAA-ATTTTTTT-T-GAAA-CTTTAATTTT-AAG
* **** *
22107704 GAAAATTGATACTTTCAACTTTTCCTCAAAAA-CCCCTTTGAAAATTT-ATCTTTAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTGAAACTTTAAT-TTTAAG
* * *
22107760 GAAAATTGATACTTTTAACTTTTTCC-CAAAAATATTTTTTGAAAACTTTAA-TTTAAG
1 AAAAATTGATACTTTCAAC-TTTTCCTCAAAAATTTTTTTTG-AAACTTTAATTTTAAG
* * *
22107817 GAAAATTGATACTTTCAACTTTTCCTC-AAAATCTTTTTTTGAAAATTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTGAAACTTTAATTTTAAG
* * *
22107874 AAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTTAATTTTGAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTGAAAC-TTTAATTTTAAG
* * *
22107933 GAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTAGAAACTTTTAATTTTGAG
1 AAAAATTGATACTTTCAAC-TTTTCCTCAAAAAT-TTTTTTTGAAAC-TTTAATTTTAAG
** * *
22107992 AAAAATTGATACTTTCAACTTTTCCTCAGAACTTTTTTTTTTTGAAAATTTATTTTTAAGG
1 AAAAATTGATACTTTCAACTTTTCCTCA-AA--AATTTTTTTTGAAACTTTAATTTTAA-G
22108053 AAAAAT
1 AAAAAT
22108059 ATTTTTTTTT
Statistics
Matches: 401, Mismatches: 46, Indels: 51
0.81 0.09 0.10
Matches are distributed among these distances:
56 53 0.13
57 100 0.25
58 73 0.18
59 94 0.23
60 32 0.08
61 26 0.06
62 23 0.06
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (57 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTGAAACTTTAATTTTAAG
Found at i:22108105 original size:6 final size:6
Alignment explanation
Indices: 22108094--22108220 Score: 82
Period size: 6 Copynumber: 19.8 Consensus size: 6
22108084 AAAATAAAAT
22108094 AAATAA AAATAAA AAATAAA AAATAA AAA-ACGA AAATAA AAA-AA TAAA-AA
1 AAATAA AAAT-AA AAAT-AA AAATAA AAATA--A AAATAA AAATAA -AAATAA
* * *
22108144 AATTAA ACAATCTTA AAATAA TAAAAAA TAAATAAA AAATAA AAATAA
1 AAATAA A-AA--TAA AAATAA -AAATAA -AAAT-AA AAATAA AAATAA
*
22108192 AAATAA AAA-AT AAATAAA AAATAA AAATA
1 AAATAA AAATAA AAAT-AA AAATAA AAATA
22108221 TTAAACAATC
Statistics
Matches: 100, Mismatches: 8, Indels: 26
0.75 0.06 0.19
Matches are distributed among these distances:
5 9 0.09
6 47 0.47
7 36 0.36
8 5 0.05
9 3 0.03
ACGTcount: A:0.80, C:0.02, G:0.01, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:22108110 original size:7 final size:7
Alignment explanation
Indices: 22108084--22108218 Score: 97
Period size: 7 Copynumber: 19.4 Consensus size: 7
22108074 TTATTTAAAG
22108084 AAAATAA
1 AAAATAA
22108091 AATAA-ATA
1 AA-AATA-A
22108099 AAAATAA
1 AAAATAA
22108106 AAAATAA
1 AAAATAA
22108113 AAAATAA
1 AAAATAA
**
22108120 AAAA-CG
1 AAAATAA
22108126 AAAATAAA
1 AAAAT-AA
22108134 AAAATAAA
1 AAAAT-AA
22108142 AAAATTAA
1 AAAA-TAA
* **
22108150 ACAATCTT
1 AAAAT-AA
22108158 AAAATAA
1 AAAATAA
22108165 TAAAA-AA
1 -AAAATAA
*
22108172 TAAATAA
1 AAAATAA
22108179 AAAAT-A
1 AAAATAA
22108185 AAAAT-A
1 AAAATAA
22108191 AAAATAA
1 AAAATAA
22108198 AAAAT--
1 AAAATAA
22108203 -AAATAA
1 AAAATAA
22108209 AAAATAA
1 AAAATAA
22108216 AAA
1 AAA
22108219 TATTAAACAA
Statistics
Matches: 103, Mismatches: 12, Indels: 26
0.73 0.09 0.18
Matches are distributed among these distances:
4 4 0.04
6 19 0.18
7 48 0.47
8 31 0.30
9 1 0.01
ACGTcount: A:0.80, C:0.02, G:0.01, T:0.17
Consensus pattern (7 bp):
AAAATAA
Found at i:22108199 original size:30 final size:30
Alignment explanation
Indices: 22108094--22108220 Score: 125
Period size: 30 Copynumber: 4.2 Consensus size: 30
22108084 AAAATAAAAT
**
22108094 AAATAAAAATAAAAAATAAAAAATAAAAAACGA
1 AAATAAAAATAAAAAAT---AAATAAAAAATAA
* **
22108127 AAATAAAAA-AATAAAA-AAATTAAACAATCT
1 AAATAAAAATAA-AAAATAAA-TAAAAAATAA
* *
22108157 TAA-AATAATAAAAAATAAATAAAAAATAA
1 AAATAAAAATAAAAAATAAATAAAAAATAA
22108186 AAATAAAAATAAAAAATAAATAAAAAATAA
1 AAATAAAAATAAAAAATAAATAAAAAATAA
22108216 AAATA
1 AAATA
22108221 TTAAACAATC
Statistics
Matches: 78, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
29 20 0.26
30 43 0.55
32 2 0.03
33 13 0.17
ACGTcount: A:0.80, C:0.02, G:0.01, T:0.17
Consensus pattern (30 bp):
AAATAAAAATAAAAAATAAATAAAAAATAA
Done.