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 113 of 160
Found at i:21362809 original size:55 final size:54
Alignment explanation
Indices: 21362715--21362820 Score: 158
Period size: 55 Copynumber: 1.9 Consensus size: 54
21362705 CTATCAAAAA
* * *
21362715 TGCCTTCAATAATCCCTTTCATTTTTTATGAGAGATTATTGAAGGCGTTTCGAG
1 TGCCTTCAATAATCCCTTTAAATTTTTATGAGAGATTATTGAAAGCGTTTCGAG
* *
21362769 TGCCTTTAATAATCCCTTCTAAATTTTTATGAGGGATTATTGAAAGCGTTTC
1 TGCCTTCAATAATCCCTT-TAAATTTTTATGAGAGATTATTGAAAGCGTTTC
21362821 AAGCAAAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
54 17 0.37
55 29 0.63
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (54 bp):
TGCCTTCAATAATCCCTTTAAATTTTTATGAGAGATTATTGAAAGCGTTTCGAG
Found at i:21363770 original size:24 final size:24
Alignment explanation
Indices: 21363743--21363788 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
21363733 CTTTTGCTGC
*
21363743 GCATTCCAATAAAATTTATATCGT
1 GCATTCAAATAAAATTTATATCGT
* *
21363767 GCATTTAAATGAAATTTATATC
1 GCATTCAAATAAAATTTATATC
21363789 TCTTATTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (24 bp):
GCATTCAAATAAAATTTATATCGT
Found at i:21370311 original size:4 final size:4
Alignment explanation
Indices: 21370302--21370331 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
21370292 GGGTCAATGT
*
21370302 GAAA GAAA GAAA GAAA GAAA GAGA GAAA GA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GA
21370332 GAGAGGGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:21370336 original size:12 final size:12
Alignment explanation
Indices: 21370302--21370336 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
21370292 GGGTCAATGT
*
21370302 GAAAGAAAGAAA
1 GAAAGAAAGAGA
21370314 GAAAGAAAGAGA
1 GAAAGAAAGAGA
*
21370326 GAAAGAGAGAG
1 GAAAGAAAGAG
21370337 GGTTCGCACG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (12 bp):
GAAAGAAAGAGA
Found at i:21372155 original size:52 final size:52
Alignment explanation
Indices: 21372072--21372228 Score: 183
Period size: 52 Copynumber: 3.0 Consensus size: 52
21372062 TATAACCATA
* * * *
21372072 CAAACTTGCCCATTAAGAATCTCTCTTCTTTTAGAATTCTTTTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTCTTCTTTTAGAATTCTTCTCCTGCAAGT
*
21372124 CAAACTTGCCTATTAAGAATCCCT-TTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTCTT-CTTTTAGAATTCTTCTCCTGCAAGT
* * * * **
21372176 CAAACTTACCTATTAAGAAT-CTTCTTTCTCTTGGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTC-TTCTTTTAGAATTCTTCTCCTGCAAGT
21372228 C
1 C
21372229 TTCTTGTCCA
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
51 4 0.04
52 86 0.93
53 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.42
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTCTTCTTTTAGAATTCTTCTCCTGCAAGT
Found at i:21372269 original size:11 final size:11
Alignment explanation
Indices: 21372253--21372294 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
21372243 GCAATATCTG
21372253 ACAAATCTCAA
1 ACAAATCTCAA
*
21372264 ACAAATCTCTA
1 ACAAATCTCAA
21372275 ACAAATCTCAA
1 ACAAATCTCAA
21372286 ACAAATCTC
1 ACAAATCTC
21372295 TTATGAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:21372278 original size:22 final size:22
Alignment explanation
Indices: 21372253--21372295 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
21372243 GCAATATCTG
21372253 ACAAATCTCAAACAAATCTCTA
1 ACAAATCTCAAACAAATCTCTA
21372275 ACAAATCTCAAACAAATCTCT
1 ACAAATCTCAAACAAATCTCT
21372296 TATGAGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (22 bp):
ACAAATCTCAAACAAATCTCTA
Found at i:21372951 original size:29 final size:29
Alignment explanation
Indices: 21372911--21372972 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 29
21372901 CAAACGAACC
21372911 AAAAAGTTGAAATAAGTGAT-ATAATGTA
1 AAAAAGTTGAAATAAGTGATGATAATGTA
21372939 AAAAGAGTTGAAATAAGTGATGATAATGTA
1 AAAA-AGTTGAAATAAGTGATGATAATGTA
21372969 AAAA
1 AAAA
21372973 TATGATTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 4 0.12
29 16 0.50
30 12 0.38
ACGTcount: A:0.55, C:0.00, G:0.19, T:0.26
Consensus pattern (29 bp):
AAAAAGTTGAAATAAGTGATGATAATGTA
Found at i:21373780 original size:22 final size:22
Alignment explanation
Indices: 21373755--21373798 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
21373745 TAAGAATAAG
21373755 AATTATAATTA-AAAAATTAAAA
1 AATT-TAATTACAAAAATTAAAA
* *
21373777 AATTTTATTACATAAATTAAAA
1 AATTTAATTACAAAAATTAAAA
21373799 GTGTAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
AATTTAATTACAAAAATTAAAA
Found at i:21373839 original size:17 final size:17
Alignment explanation
Indices: 21373819--21373852 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21373809 TAAATAAATT
*
21373819 TAAATATATTTATTAAA
1 TAAATATATTTAATAAA
*
21373836 TAAATATTTTTAATAAA
1 TAAATATATTTAATAAA
21373853 ATATTAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAATATATTTAATAAA
Found at i:21374209 original size:25 final size:26
Alignment explanation
Indices: 21374153--21374209 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
21374143 TTTTTAATGA
*
21374153 AAATAAATTTATTAATTTAATATAAT
1 AAATAAAATTATTAATTTAATATAAT
*
21374179 AAATAAAATTATATAA-TT-ATCTAAT
1 AAATAAAATTAT-TAATTTAATATAAT
21374204 AAATAA
1 AAATAA
21374210 GTCAATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 12 0.43
26 13 0.46
27 3 0.11
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (26 bp):
AAATAAAATTATTAATTTAATATAAT
Found at i:21374483 original size:3 final size:3
Alignment explanation
Indices: 21374477--21374541 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
21374467 CATCATCATC
21374477 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
21374525 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
21374542 CAACTTACCA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:21374868 original size:40 final size:43
Alignment explanation
Indices: 21374790--21374872 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 43
21374780 AAGTTATCTA
21374790 TTAATATATTATTAAAATAATAAAATACATTTTATATTAATAT
1 TTAATATATTATTAAAATAATAAAATACATTTTATATTAATAT
*
21374833 TTAA-ATATT-TTAAAATAA-AAAATATATTATT-TATTAATAT
1 TTAATATATTATTAAAATAATAAAATACATT-TTATATTAATAT
21374873 AGTAACCCCA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
40 18 0.47
41 11 0.29
42 5 0.13
43 4 0.11
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (43 bp):
TTAATATATTATTAAAATAATAAAATACATTTTATATTAATAT
Found at i:21375415 original size:17 final size:17
Alignment explanation
Indices: 21375379--21375441 Score: 69
Period size: 17 Copynumber: 3.9 Consensus size: 17
21375369 TAAAATTATT
*
21375379 TAAAATTA-T-TAATGA
1 TAAAATTATTATAATAA
21375394 T-AAATTATTATAATAA
1 TAAAATTATTATAATAA
*
21375410 TAAAATTATTTTAATAA
1 TAAAATTATTATAATAA
* *
21375427 TTAAATTATAATAAT
1 TAAAATTATTATAAT
21375442 GATTTAATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
14 6 0.15
15 2 0.05
16 6 0.15
17 26 0.65
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
TAAAATTATTATAATAA
Found at i:21376641 original size:14 final size:13
Alignment explanation
Indices: 21376617--21376668 Score: 54
Period size: 12 Copynumber: 4.1 Consensus size: 13
21376607 TTAATAAATA
*
21376617 AATATATATTTTT
1 AATAAATATTTTT
21376630 AGATAAATATTTTT
1 A-ATAAATATTTTT
* *
21376644 AATAAA-AATATT
1 AATAAATATTTTT
21376656 AATAAA-ATTTTT
1 AATAAATATTTTT
21376668 A
1 A
21376669 TCGTTAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
12 15 0.45
13 6 0.18
14 12 0.36
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (13 bp):
AATAAATATTTTT
Found at i:21376719 original size:12 final size:12
Alignment explanation
Indices: 21376702--21376726 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21376692 TTTGAATTAC
21376702 AAATAATTTTTT
1 AAATAATTTTTT
21376714 AAATAATTTTTT
1 AAATAATTTTTT
21376726 A
1 A
21376727 CATATTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AAATAATTTTTT
Found at i:21376803 original size:14 final size:13
Alignment explanation
Indices: 21376769--21376813 Score: 58
Period size: 12 Copynumber: 3.5 Consensus size: 13
21376759 AGTTATCAGT
21376769 TTAAAT-TTTTTA
1 TTAAATATTTTTA
21376781 TTAAA-ATTTTTA
1 TTAAATATTTTTA
21376793 TTAAATCATTTTTA
1 TTAAAT-ATTTTTA
*
21376807 ATAAATA
1 TTAAATA
21376814 ACTTTATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 16 0.55
13 1 0.03
14 12 0.41
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATATTTTTA
Found at i:21385558 original size:13 final size:13
Alignment explanation
Indices: 21385536--21385566 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
21385526 TTTTGCAAAA
21385536 AAAAAAATTTTTT
1 AAAAAAATTTTTT
*
21385549 AAAAACATTTTTT
1 AAAAAAATTTTTT
21385562 AAAAA
1 AAAAA
21385567 TAAAATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (13 bp):
AAAAAAATTTTTT
Found at i:21385972 original size:3 final size:3
Alignment explanation
Indices: 21385960--21385996 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
21385950 GATAAAAATT
*
21385960 TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA CTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
21385997 TGTTCTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:21389737 original size:3 final size:3
Alignment explanation
Indices: 21389729--21389835 Score: 124
Period size: 3 Copynumber: 35.7 Consensus size: 3
21389719 TGAAAAACAA
* * * *
21389729 GAT GAT GAT GAT AAT GAT AAT GAT GAT GAT GAT AAG GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* * * *
21389777 GAT GAT AAG GAT GAT GAT GAT GAT GAT AAT AAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
21389825 AAT GAT TAT GA
1 GAT GAT GAT GA
21389836 AACACATGAG
Statistics
Matches: 86, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 86 1.00
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:21389755 original size:21 final size:21
Alignment explanation
Indices: 21389729--21389835 Score: 169
Period size: 21 Copynumber: 5.1 Consensus size: 21
21389719 TGAAAAACAA
*
21389729 GATGATGATGATAATGATAAT
1 GATGATGATGATAATGATGAT
*
21389750 GATGATGATGATAAGGATGAT
1 GATGATGATGATAATGATGAT
*
21389771 GATGATGATGATAAGGATGAT
1 GATGATGATGATAATGATGAT
*
21389792 GATGATGATGATAATAATGAT
1 GATGATGATGATAATGATGAT
*
21389813 GATGATGATGATAATGATTAT
1 GATGATGATGATAATGATGAT
21389834 GA
1 GA
21389836 AACACATGAG
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 80 1.00
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (21 bp):
GATGATGATGATAATGATGAT
Found at i:21393986 original size:21 final size:20
Alignment explanation
Indices: 21393973--21394015 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
21393963 ATTTGTACTT
21393973 TTACCAATAAAATTTAACTA
1 TTACCAATAAAATTTAACTA
21393993 TTACCAATAAAATTT-ACTA
1 TTACCAATAAAATTTAACTA
21394012 TTAC
1 TTAC
21394016 AAACAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (20 bp):
TTACCAATAAAATTTAACTA
Found at i:21394013 original size:19 final size:19
Alignment explanation
Indices: 21393968--21394015 Score: 78
Period size: 20 Copynumber: 2.5 Consensus size: 19
21393958 GATAAATTTG
*
21393968 TACTTTTACCAATAAAATT
1 TACTATTACCAATAAAATT
21393987 TAACTATTACCAATAAAATT
1 T-ACTATTACCAATAAAATT
21394007 TACTATTAC
1 TACTATTAC
21394016 AAACAGATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.40
Consensus pattern (19 bp):
TACTATTACCAATAAAATT
Found at i:21394089 original size:20 final size:22
Alignment explanation
Indices: 21394064--21394111 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
21394054 TTTTTCATTG
21394064 TTATTACT-GATGAAAATTT-A
1 TTATTACTCGATGAAAATTTAA
*
21394084 TTATTA-TCGATGAAATTTTAA
1 TTATTACTCGATGAAAATTTAA
21394105 TTATTAC
1 TTATTAC
21394112 CAACGAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 1 0.04
20 16 0.67
21 7 0.29
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (22 bp):
TTATTACTCGATGAAAATTTAA
Found at i:21407892 original size:20 final size:20
Alignment explanation
Indices: 21407869--21407906 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21407859 TATATATAAG
* *
21407869 ATGGAAGAATTATACTTTAA
1 ATGGAAAAATTAAACTTTAA
21407889 ATGGAAAAATTAAACTTT
1 ATGGAAAAATTAAACTTT
21407907 TACATTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.34
Consensus pattern (20 bp):
ATGGAAAAATTAAACTTTAA
Found at i:21409421 original size:52 final size:52
Alignment explanation
Indices: 21409333--21409489 Score: 192
Period size: 52 Copynumber: 3.0 Consensus size: 52
21409323 TGGACAAGAA
* * *
21409333 GACTTGTAAAAGAAGAATTCTAAGA-GAAAGAAGATTCTTAATAAGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAG-AGATTCTTAATAGGTAAGTTT
* *
21409385 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGTGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGTAAGTTT
* * * * *
21409437 GACTTAC-AGTAAAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGTAAGTTT
1 GACTTGCAAG-AGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGTAAGTTT
21409489 G
1 G
21409490 TATGGTTATA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.92
53 5 0.05
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.29
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGTAAGTTT
Found at i:21410664 original size:13 final size:12
Alignment explanation
Indices: 21410646--21410678 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
21410636 TTATTTGTAT
21410646 TTTAATTTTTTAG
1 TTTAATTTTTT-G
21410659 TTTAATTTTTTG
1 TTTAATTTTTTG
21410671 TTTAATTT
1 TTTAATTT
21410679 GGTTTTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (12 bp):
TTTAATTTTTTG
Found at i:21411516 original size:21 final size:21
Alignment explanation
Indices: 21411490--21411532 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
21411480 TTTATTTGCC
*
21411490 TAATATATTTGTTTGCGTGAT
1 TAATATATTTATTTGCGTGAT
*
21411511 TAATATATTTATTTGTGTGAT
1 TAATATATTTATTTGCGTGAT
21411532 T
1 T
21411533 TATTAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.02, G:0.16, T:0.56
Consensus pattern (21 bp):
TAATATATTTATTTGCGTGAT
Found at i:21411524 original size:25 final size:25
Alignment explanation
Indices: 21411495--21411546 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
21411485 TTGCCTAATA
* *
21411495 TATTTGTTTGCGTGATTAATATATT
1 TATTTGTGTGAGTGATTAATATATT
* *
21411520 TATTTGTGTGATTTATTAATATATT
1 TATTTGTGTGAGTGATTAATATATT
21411545 TA
1 TA
21411547 CATGATTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (25 bp):
TATTTGTGTGAGTGATTAATATATT
Found at i:21411617 original size:24 final size:24
Alignment explanation
Indices: 21411509--21411671 Score: 114
Period size: 24 Copynumber: 7.1 Consensus size: 24
21411499 TGTTTGCGTG
* **
21411509 ATTAATATATTTATTTGTGTGATTT
1 ATTAATATATTTAATTGCATGA-TT
21411534 ATTAATATATTT-A---CATGATT
1 ATTAATATATTTAATTGCATGATT
* *
21411554 ATTAAT-TAATTAATTTGTATGATT
1 ATTAATATATTTAA-TTGCATGATT
* * *
21411578 A-TACT-TAATTTGATTGGATGATT
1 ATTAATAT-ATTTAATTGCATGATT
* *
21411601 ATTAATATATTTAATTGCTTAATT
1 ATTAATATATTTAATTGCATGATT
*
21411625 ATTAATATATTTATTTGCATG---
1 ATTAATATATTTAATTGCATGATT
*
21411646 ATT-ATATATTTAATTGCATGTTT
1 ATTAATATATTTAATTGCATGATT
21411669 ATT
1 ATT
21411672 TGCATAATTA
Statistics
Matches: 109, Mismatches: 18, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
19 4 0.04
20 25 0.23
21 6 0.06
23 17 0.16
24 44 0.40
25 13 0.12
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (24 bp):
ATTAATATATTTAATTGCATGATT
Found at i:21411654 original size:20 final size:20
Alignment explanation
Indices: 21411605--21411670 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
21411595 ATGATTATTA
*
21411605 ATATATTTAATTGCTTAATTATT
1 ATATATTTAATTGC---ATGATT
*
21411628 AATATATTTATTTGCATGATT
1 -ATATATTTAATTGCATGATT
*
21411649 ATATATTTAATTGCATGTTT
1 ATATATTTAATTGCATGATT
21411669 AT
1 AT
21411671 TTGCATAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 20 0.53
21 5 0.13
24 13 0.34
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.55
Consensus pattern (20 bp):
ATATATTTAATTGCATGATT
Found at i:21411680 original size:116 final size:115
Alignment explanation
Indices: 21411583--21411789 Score: 255
Period size: 116 Copynumber: 1.8 Consensus size: 115
21411573 TGATTATACT
*
21411583 TAATTTG-ATTGGATGAT-TATTAATATATT-TA-ATTGCTTAATTATTA-ATA-TATTTATTTG
1 TAATTTGCA-TGGATGATATATTAATAT-TTATAGATTGCATAATT-TTATATATTA-TTATTTG
*
21411642 CATGATTATATATTTAATTGCATGTTTATTTGCATAATTATATATTTAATTATA
62 CATAATTATATATTTAATTGCATGTTTATTTGCATAATTATATATTTAATTATA
* * * * * *
21411696 TATTTTGCATGGTTTATATATTATTATTTATATGATTGCATGATTTTATGTATTATTATTTGCAT
1 TAATTTGCATGGATGATATATTAATATTTATA-GATTGCATAATTTTATATATTATTATTTGCAT
21411761 AATTATATATTTAATTGCATGTTTATTTG
65 AATTATATATTTAATTGCATGTTTATTTG
21411790 TATGGTTTAT
Statistics
Matches: 79, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
113 14 0.18
114 11 0.14
115 3 0.04
116 49 0.62
117 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.55
Consensus pattern (115 bp):
TAATTTGCATGGATGATATATTAATATTTATAGATTGCATAATTTTATATATTATTATTTGCATA
ATTATATATTTAATTGCATGTTTATTTGCATAATTATATATTTAATTATA
Found at i:21411691 original size:12 final size:12
Alignment explanation
Indices: 21411676--21411700 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21411666 TTTATTTGCA
21411676 TAATTATATATT
1 TAATTATATATT
21411688 TAATTATATATT
1 TAATTATATATT
21411700 T
1 T
21411701 TGCATGGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TAATTATATATT
Found at i:21411727 original size:32 final size:32
Alignment explanation
Indices: 21411679--21411756 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
21411669 ATTTGCATAA
* *
21411679 TTATATATT-TAATTATATAT-TTTGCATG-GT
1 TTATATATTATTATT-TATATGATTGCATGAGT
*
21411709 TTATATATTATTATTTATATGATTGCATGATT
1 TTATATATTATTATTTATATGATTGCATGAGT
*
21411741 TTATGTATTATTATTT
1 TTATATATTATTATTT
21411757 GCATAATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 14 0.34
31 11 0.27
32 16 0.39
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.59
Consensus pattern (32 bp):
TTATATATTATTATTTATATGATTGCATGAGT
Found at i:21411731 original size:84 final size:85
Alignment explanation
Indices: 21411629--21411841 Score: 238
Period size: 84 Copynumber: 2.5 Consensus size: 85
21411619 TTAATTATTA
** *
21411629 ATATA-TTTATTTGCATGATTATATATTTAATTGCATGTTTATTTGCATAATTATATATTTAATT
1 ATATATTTTATTTATATGATTATATATTTAATTGTATGTTTATTTGCATAATTATATATTTAATT
21411693 -ATATAT-TTTGCATGGTTT
66 CATATATATTTGCATGGTTT
** *
21411711 ATATATTATTATTTATATGATTGCATGATTTTA-TGTAT-TATTATTTGCATAATTATATATTTA
1 ATATATT-TTATTTATATGATTATAT-ATTTAATTGTATGT-TTATTTGCATAATTATATATTTA
* * *
21411774 ATTGCATGTTTATTTGTATGGTTT
63 ATT-CATATATATTTGCATGGTTT
* * *
21411798 ATTTATTTTATTTGTATTATTATATATTTAATTGTATGGTTTAT
1 ATATATTTTATTTATATGATTATATATTTAATTGTAT-GTTTAT
21411842 ATATTTTTAT
Statistics
Matches: 106, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
82 5 0.05
83 2 0.02
84 44 0.42
85 10 0.09
86 23 0.22
87 21 0.20
88 1 0.01
ACGTcount: A:0.29, C:0.03, G:0.10, T:0.57
Consensus pattern (85 bp):
ATATATTTTATTTATATGATTATATATTTAATTGTATGTTTATTTGCATAATTATATATTTAATT
CATATATATTTGCATGGTTT
Found at i:21411832 original size:20 final size:20
Alignment explanation
Indices: 21411796--21411873 Score: 72
Period size: 20 Copynumber: 3.9 Consensus size: 20
21411786 TTTGTATGGT
*
21411796 TTATT-TAT-TTTATTTGTA
1 TTATTATATATTTAATTGTA
21411814 TTATTATATATTTAATTGTA
1 TTATTATATATTTAATTGTA
* *
21411834 TGGT-TTATATATTTTTATTTGGA
1 T--TATTATATA--TTTAATTGTA
21411857 TTATTATATATTTAATT
1 TTATTATATATTTAATT
21411874 ACATGTTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
18 5 0.10
19 3 0.06
20 16 0.33
21 8 0.16
22 8 0.16
23 9 0.18
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (20 bp):
TTATTATATATTTAATTGTA
Found at i:21411838 original size:42 final size:43
Alignment explanation
Indices: 21411782--21411873 Score: 150
Period size: 43 Copynumber: 2.2 Consensus size: 43
21411772 TAATTGCATG
* * *
21411782 TTTATTTGTATGGTTTATTTA-TTTTATTTGTATTATTATATA
1 TTTAATTGTATGGTTTATATATTTTTATTTGGATTATTATATA
21411824 TTTAATTGTATGGTTTATATATTTTTATTTGGATTATTATATA
1 TTTAATTGTATGGTTTATATATTTTTATTTGGATTATTATATA
21411867 TTTAATT
1 TTTAATT
21411874 ACATGTTTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 19 0.41
43 27 0.59
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (43 bp):
TTTAATTGTATGGTTTATATATTTTTATTTGGATTATTATATA
Found at i:21411863 original size:97 final size:98
Alignment explanation
Indices: 21411740--21411928 Score: 267
Period size: 97 Copynumber: 1.9 Consensus size: 98
21411730 ATTGCATGAT
* *
21411740 TTTATGTATTATTATTTGCATAATTATATATTTAATTGCATGTTTATTTGTATGGTT-TAT-TTA
1 TTTATATATTATTATTTGCATAATTATATATTTAATTACATGTTTATTTGTATGGTTATATATT-
* * *
21411803 TTTTAT-TTGTATTATTATATATTTAATTGTATGG
65 TCTTATGTT-CATGATTATATATTTAATTGTATGG
* * *
21411837 TTTATATATTTTTATTTGGATTATTATATATTTAATTACATGTTTATTTGTATGGTTATATATTT
1 TTTATATATTATTATTTGCATAATTATATATTTAATTACATGTTTATTTGTATGGTTATATATTT
21411902 CTTATGTTCATGATTATATATTTAATT
66 CTTATGTTCATGATTATATATTTAATT
21411929 ACATGTCTAT
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
97 52 0.64
98 25 0.31
99 4 0.05
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.60
Consensus pattern (98 bp):
TTTATATATTATTATTTGCATAATTATATATTTAATTACATGTTTATTTGTATGGTTATATATTT
CTTATGTTCATGATTATATATTTAATTGTATGG
Found at i:21411892 original size:55 final size:55
Alignment explanation
Indices: 21411824--21411941 Score: 168
Period size: 55 Copynumber: 2.1 Consensus size: 55
21411814 TTATTATATA
* * *
21411824 TTTAATTGTATGGTTTATATATTT-TTAT-TTGGATTATTATATATTTAATTACATG
1 TTTATTTGTATGG-TTATATATTTCTTATGTT-CATGATTATATATTTAATTACATG
21411879 TTTATTTGTATGGTTATATATTTCTTATGTTCATGATTATATATTTAATTACATG
1 TTTATTTGTATGGTTATATATTTCTTATGTTCATGATTATATATTTAATTACATG
*
21411934 TCTATTTG
1 TTTATTTG
21411942 CATAATTATT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
54 10 0.18
55 45 0.79
56 2 0.04
ACGTcount: A:0.27, C:0.04, G:0.11, T:0.58
Consensus pattern (55 bp):
TTTATTTGTATGGTTATATATTTCTTATGTTCATGATTATATATTTAATTACATG
Found at i:21412097 original size:24 final size:23
Alignment explanation
Indices: 21412024--21412101 Score: 67
Period size: 24 Copynumber: 3.4 Consensus size: 23
21412014 TATTTTTTAT
21412024 TTATATTA-ATATTATTAGCATGA
1 TTATATTATATATTATT-GCATGA
* *
21412047 -T-T-TTATAT-TTATTACATAA
1 TTATATTATATATTATTGCATGA
21412066 TATGATATTATATATTATTGCATGA
1 T-T-ATATTATATATTATTGCATGA
21412091 TTAATATTATA
1 TT-ATATTATA
21412102 ATTGAATGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 13
0.70 0.08 0.21
Matches are distributed among these distances:
19 4 0.09
20 8 0.19
21 4 0.09
22 1 0.02
23 1 0.02
24 15 0.35
25 10 0.23
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.51
Consensus pattern (23 bp):
TTATATTATATATTATTGCATGA
Found at i:21412341 original size:20 final size:19
Alignment explanation
Indices: 21412316--21412353 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
21412306 GATTTAGATA
*
21412316 TGATATTATTACATAATATT
1 TGATATGATTA-ATAATATT
21412336 TGATATGATTAATAATAT
1 TGATATGATTAATAATAT
21412354 ATTTGTATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (19 bp):
TGATATGATTAATAATATT
Found at i:21412752 original size:17 final size:17
Alignment explanation
Indices: 21412730--21412763 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21412720 TAATTTTGTT
*
21412730 TTTTATTTTTATTTTGA
1 TTTTATTTTTAATTTGA
21412747 TTTTATTTTTAATTTGA
1 TTTTATTTTTAATTTGA
21412764 GTTTGGTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (17 bp):
TTTTATTTTTAATTTGA
Found at i:21414324 original size:16 final size:16
Alignment explanation
Indices: 21414273--21414324 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
21414263 ATAAAATATG
*
21414273 TATTATTTGCATGATT
1 TATTATTTGCATGTTT
* **
21414289 TATTATTTGTATGTGA
1 TATTATTTGCATGTTT
21414305 TATTATTTGCATGTTT
1 TATTATTTGCATGTTT
21414321 TATT
1 TATT
21414325 TATGATTTTA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.23, C:0.04, G:0.13, T:0.60
Consensus pattern (16 bp):
TATTATTTGCATGTTT
Found at i:21414330 original size:25 final size:25
Alignment explanation
Indices: 21414302--21414366 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
21414292 TATTTGTATG
* *
21414302 TGATATTATTTGCATG-TTTTATTT
1 TGATATTATTTGCATGCTCTTAGTT
*
21414326 ATGATTTTATTTGCATGCTCTTAGTT
1 -TGATATTATTTGCATGCTCTTAGTT
21414352 TGATATT-TTTGCATG
1 TGATATTATTTGCATG
21414367 AACTTATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 8 0.23
25 21 0.60
26 6 0.17
ACGTcount: A:0.20, C:0.08, G:0.15, T:0.57
Consensus pattern (25 bp):
TGATATTATTTGCATGCTCTTAGTT
Found at i:21414385 original size:18 final size:20
Alignment explanation
Indices: 21414354--21414406 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
21414344 TCTTAGTTTG
*
21414354 ATATTTTTGCATGA-A-CTT
1 ATATTATTGCATGATATCTT
* *
21414372 ATATTATTGTATGATATTTT
1 ATATTATTGCATGATATCTT
*
21414392 ATATTATTACATGAT
1 ATATTATTGCATGAT
21414407 TTATTGCATG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 12 0.43
19 1 0.04
20 15 0.54
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (20 bp):
ATATTATTGCATGATATCTT
Found at i:21414422 original size:32 final size:34
Alignment explanation
Indices: 21414375--21414443 Score: 88
Period size: 35 Copynumber: 2.1 Consensus size: 34
21414365 TGAACTTATA
*
21414375 TTATTGTATGATA-TTTTATA-TTATTACATGAT
1 TTATTGCATGATATTTTTATATTTATTACATGAT
* *
21414407 TTATTGCATGGTATTTTTTATATTTATTGCATGAT
1 TTATTGCATGATA-TTTTTATATTTATTACATGAT
21414442 TT
1 TT
21414444 TTTATAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 11 0.35
34 7 0.23
35 13 0.42
ACGTcount: A:0.26, C:0.04, G:0.12, T:0.58
Consensus pattern (34 bp):
TTATTGCATGATATTTTTATATTTATTACATGAT
Found at i:21414445 original size:21 final size:23
Alignment explanation
Indices: 21414405--21414449 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
21414395 TTATTACATG
21414405 ATTTATTGCATGGTATTTTTTAT
1 ATTTATTGCATGGTATTTTTTAT
21414428 ATTTATTGCAT-G-ATTTTTTAT
1 ATTTATTGCATGGTATTTTTTAT
21414449 A
1 A
21414450 AAATTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 10 0.45
22 1 0.05
23 11 0.50
ACGTcount: A:0.24, C:0.04, G:0.11, T:0.60
Consensus pattern (23 bp):
ATTTATTGCATGGTATTTTTTAT
Found at i:21415991 original size:23 final size:24
Alignment explanation
Indices: 21415949--21415996 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
21415939 TGGCTCATAT
*
21415949 TCTAGATCTAATTTAAGTTTCTAA
1 TCTAGATCTAACTTAAGTTTCTAA
21415973 TCTAGATC-AACTTAAGTTTCTAA
1 TCTAGATCTAACTTAAGTTTCTAA
21415996 T
1 T
21415997 TTGGATGATC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (24 bp):
TCTAGATCTAACTTAAGTTTCTAA
Found at i:21417993 original size:15 final size:15
Alignment explanation
Indices: 21417957--21417995 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
21417947 CTTGAGTTAC
21417957 AAAAAAAAAAAAATG
1 AAAAAAAAAAAAATG
** *
21417972 AGCAAAAGAAAAATG
1 AAAAAAAAAAAAATG
21417987 AAAAAAAAA
1 AAAAAAAAA
21417996 TTGATTGTAA
Statistics
Matches: 18, Mismatches: 6, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.82, C:0.03, G:0.10, T:0.05
Consensus pattern (15 bp):
AAAAAAAAAAAAATG
Found at i:21419918 original size:22 final size:23
Alignment explanation
Indices: 21419849--21419933 Score: 63
Period size: 22 Copynumber: 3.9 Consensus size: 23
21419839 AAATGATTTG
*
21419849 TAAGACCTTC-GAACATAATCTC
1 TAAGACCTTCAGGACATAATCTC
* * * *
21419871 TAAAACCTCCAGG-CATGAGT-TG
1 TAAGACCTTCAGGACAT-AATCTC
21419893 TAAGACCTTC-GGACATAATCTC
1 TAAGACCTTCAGGACATAATCTC
* *
21419915 TAAGAAC-TCTGGACATAAT
1 TAAGACCTTCAGGACATAAT
21419934 TTGTAAAACC
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
21 6 0.12
22 39 0.81
23 3 0.06
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (23 bp):
TAAGACCTTCAGGACATAATCTC
Found at i:21419946 original size:22 final size:22
Alignment explanation
Indices: 21419890--21419955 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
21419880 CAGGCATGAG
*
21419890 TTGTAAGACCT-TCGGACATAAT
1 TTGTAAAACCTCT-GGACATAAT
* *
21419912 CTCTAAGAA-CTCTGGACATAAT
1 TTGTAA-AACCTCTGGACATAAT
**
21419934 TTGTAAAACCTCTAAACATAAT
1 TTGTAAAACCTCTGGACATAAT
21419956 CTTTAAGACC
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (22 bp):
TTGTAAAACCTCTGGACATAAT
Found at i:21419966 original size:22 final size:22
Alignment explanation
Indices: 21419905--21419967 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
21419895 AGACCTTCGG
* * **
21419905 ACATAATCTCTAAGAACTCTGG
1 ACATAATCTTTAAGACCTCTAA
*
21419927 ACATAAT-TTGTAAAACCTCTAA
1 ACATAATCTT-TAAGACCTCTAA
21419949 ACATAATCTTTAAGACCTC
1 ACATAATCTTTAAGACCTC
21419968 CAGGCATGAG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 1 0.03
22 30 0.91
23 2 0.06
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (22 bp):
ACATAATCTTTAAGACCTCTAA
Found at i:21419984 original size:22 final size:22
Alignment explanation
Indices: 21419959--21420186 Score: 70
Period size: 22 Copynumber: 10.3 Consensus size: 22
21419949 ACATAATCTT
21419959 TAAGACCTCCAGGCATGAGTTG
1 TAAGACCTCCAGGCATGAGTTG
** ** * *
21419981 TAAGACCTCTGGGTGTGTAATCTT
1 TAAGACCTCCAGGCATG-AGT-TG
* * * *
21420005 TAACACCTTCAAGCATAAGTTG
1 TAAGACCTCCAGGCATGAGTTG
*
21420027 TAAGACCTCC-GAGCAT-AATCT-
1 TAAGACCTCCAG-GCATGAGT-TG
* * *
21420048 TCAAGATCTCC-GAACATAAGTTG
1 T-AAGACCTCCAG-GCATGAGTTG
* ** *
21420071 TAAGACCTTCAAACATGATTTG
1 TAAGACCTCCAGGCATGAGTTG
* ** * * * *
21420093 TAAAACCTCTGGGTATAATTTT
1 TAAGACCTCCAGGCATGAGTTG
**
21420115 TAAGACCTCTGGGCATGAGTTG
1 TAAGACCTCCAGGCATGAGTTG
* * * *
21420137 TAAGACCTCAAAGCAT-AATCTC
1 TAAGACCTCCAGGCATGAGT-TG
*
21420159 TAAGACCTCCAGGCATGATTTG
1 TAAGACCTCCAGGCATGAGTTG
21420181 TAAGAC
1 TAAGAC
21420187 TTCCGGACGT
Statistics
Matches: 145, Mismatches: 51, Indels: 20
0.67 0.24 0.09
Matches are distributed among these distances:
21 5 0.03
22 121 0.83
23 9 0.06
24 10 0.07
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (22 bp):
TAAGACCTCCAGGCATGAGTTG
Found at i:21419989 original size:44 final size:44
Alignment explanation
Indices: 21419841--21420086 Score: 176
Period size: 44 Copynumber: 5.5 Consensus size: 44
21419831 AAGATAAGAA
* *
21419841 ATGATTTGTAAGACCTTCGAACATAATCTCTAAAACCTCCAGGC
1 ATGAGTTGTAAGACCTTCGAACATAATCTCTAAGACCTCCAGGC
* * *
21419885 ATGAGTTGTAAGACCTTCGGACATAATCTCTAAGAACT-CTGGAC
1 ATGAGTTGTAAGACCTTCGAACATAATCTCTAAGACCTCCAGG-C
* * * * *
21419929 ATAATTTGTAAAACC-TCTAAACATAATCTTTAAGACCTCCAGGC
1 ATGAGTTGTAAGACCTTC-GAACATAATCTCTAAGACCTCCAGGC
* **** * * * *
21419973 ATGAGTTGTAAGACCTCTGGGTGTGTAATCTTTAACACCTTCAAGC
1 ATGAGTTGTAAGACCT-T-CGAACATAATCTCTAAGACCTCCAGGC
* * * * *
21420019 ATAAGTTGTAAGACCTCCGAGCATAATCT-TCAAGATCTCC-GAAC
1 ATGAGTTGTAAGACCTTCGAACATAATCTCT-AAGACCTCCAG-GC
* *
21420063 ATAAGTTGTAAGACCTTCAAACAT
1 ATGAGTTGTAAGACCTTCGAACAT
21420087 GATTTGTAAA
Statistics
Matches: 155, Mismatches: 39, Indels: 16
0.74 0.19 0.08
Matches are distributed among these distances:
43 6 0.04
44 112 0.72
45 3 0.02
46 34 0.22
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (44 bp):
ATGAGTTGTAAGACCTTCGAACATAATCTCTAAGACCTCCAGGC
Found at i:21420185 original size:66 final size:66
Alignment explanation
Indices: 21419891--21420186 Score: 192
Period size: 66 Copynumber: 4.5 Consensus size: 66
21419881 AGGCATGAGT
* * * * * *
21419891 TGTAAGACCTTC-GGACATAATCTCTAAGAACTCTGGACATAATTTGTAAAACC-TCTAAACATA
1 TGTAAGACCTCCAGG-CATAATTTGTAAGACCTCTGGACATAAGTTGTAAGACCTTC-AAACATA
21419954 ATC
64 ATC
* * * *** * * *
21419957 TTTAAGACCTCCAGGCATGAGTTGTAAGACCTCTGGGTGTGTAA-TCTTTAACACCTTCAAGCAT
1 TGTAAGACCTCCAGGCATAATTTGTAAGACCTCT-GG-ACATAAGT-TGTAAGACCTTCAAACAT
21420021 AAGT-
63 AA-TC
* * * * *
21420025 TGTAAGACCTCC-GAGCATAATCTT-CAAGATCTCCGAACATAAGTTGTAAGACCTTCAAACATG
1 TGTAAGACCTCCAG-GCATAAT-TTGTAAGACCTCTGGACATAAGTTGTAAGACCTTCAAACATA
*
21420088 ATT
64 ATC
* ** * * * *
21420091 TGTAAAACCTCTGGGTATAATTTTTAAGACCTCTGGGCATGAGTTGTAAGACC-TCAAAGCATAA
1 TGTAAGACCTCCAGGCATAATTTGTAAGACCTCTGGACATAAGTTGTAAGACCTTCAAA-CATAA
21420155 TC
65 TC
* *
21420157 TCTAAGACCTCCAGGCATGATTTGTAAGAC
1 TGTAAGACCTCCAGGCATAATTTGTAAGAC
21420187 TTCCGGACGT
Statistics
Matches: 172, Mismatches: 45, Indels: 26
0.71 0.19 0.11
Matches are distributed among these distances:
65 8 0.05
66 110 0.64
67 9 0.05
68 40 0.23
69 5 0.03
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (66 bp):
TGTAAGACCTCCAGGCATAATTTGTAAGACCTCTGGACATAAGTTGTAAGACCTTCAAACATAAT
C
Found at i:21420583 original size:21 final size:21
Alignment explanation
Indices: 21420559--21420617 Score: 50
Period size: 22 Copynumber: 2.7 Consensus size: 21
21420549 TTTGTAAAAC
21420559 CTTTGGGCATAATCTT-AAAGA
1 CTTT-GGCATAATCTTGAAAGA
* *
21420580 CTTTTAGGCATGAT-TTGTAAGA
1 C-TTT-GGCATAATCTTGAAAGA
21420602 CTCTTGGCATAATCTT
1 CT-TTGGCATAATCTT
21420618 TACGACCTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
21 11 0.37
22 19 0.63
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (21 bp):
CTTTGGCATAATCTTGAAAGA
Found at i:21420603 original size:22 final size:22
Alignment explanation
Indices: 21420526--21420602 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
21420516 TATAAGAATA
* *
21420526 ATTTCTAAGACCTCTAGGCATG
1 ATTTGTAAGACCTTTAGGCATG
* * *
21420548 ATTTGTAAAACCTTTGGGCATA
1 ATTTGTAAGACCTTTAGGCATG
* *
21420570 ATCTT-AAAGACTTTTAGGCATG
1 AT-TTGTAAGACCTTTAGGCATG
21420592 ATTTGTAAGAC
1 ATTTGTAAGAC
21420603 TCTTGGCATA
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
21 2 0.05
22 38 0.90
23 2 0.05
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (22 bp):
ATTTGTAAGACCTTTAGGCATG
Found at i:21423103 original size:23 final size:23
Alignment explanation
Indices: 21423077--21423136 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
21423067 TTTAATATCT
**
21423077 GGTTTTAAGGTTTCGAGGTTTAA
1 GGTTTTAAGGTTTAAAGGTTTAA
* *
21423100 GGTTTTAGGGTTTAAAGTTTTAA
1 GGTTTTAAGGTTTAAAGGTTTAA
*
21423123 GGTTTCAAAGGTTT
1 GGTTT-TAAGGTTT
21423137 TTTTTTTATG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 24 0.80
24 6 0.20
ACGTcount: A:0.23, C:0.03, G:0.28, T:0.45
Consensus pattern (23 bp):
GGTTTTAAGGTTTAAAGGTTTAA
Found at i:21423106 original size:8 final size:8
Alignment explanation
Indices: 21423077--21423137 Score: 54
Period size: 8 Copynumber: 7.8 Consensus size: 8
21423067 TTTAATATCT
21423077 GGTTTTAA
1 GGTTTTAA
**
21423085 GGTTTCGA
1 GGTTTTAA
21423093 GG-TTTAA
1 GGTTTTAA
21423100 GGTTTT-A
1 GGTTTTAA
*
21423107 GGGTTTAA
1 GGTTTTAA
*
21423115 AGTTTTAA
1 GGTTTTAA
*
21423123 GGTTTCAAA
1 GGTTT-TAA
21423132 GGTTTT
1 GGTTTT
21423138 TTTTTTATGA
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
7 11 0.28
8 22 0.55
9 7 0.17
ACGTcount: A:0.23, C:0.03, G:0.28, T:0.46
Consensus pattern (8 bp):
GGTTTTAA
Found at i:21423111 original size:15 final size:15
Alignment explanation
Indices: 21423080--21423137 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
21423070 AATATCTGGT
*
21423080 TTTAAGG-TTTCGAGG
1 TTTAAGGTTTTAG-GG
21423095 TTTAAGGTTTTAGGG
1 TTTAAGGTTTTAGGG
* *
21423110 TTTAAAGTTTTAAGG
1 TTTAAGGTTTTAGGG
21423125 TTTCAAAGGTTTT
1 TTT--AAGGTTTT
21423138 TTTTTTATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
15 25 0.69
16 4 0.11
17 7 0.19
ACGTcount: A:0.24, C:0.03, G:0.26, T:0.47
Consensus pattern (15 bp):
TTTAAGGTTTTAGGG
Found at i:21425085 original size:16 final size:16
Alignment explanation
Indices: 21425060--21425098 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
21425050 AAACTTCTAC
21425060 TAACTTTTTTTTT-TT
1 TAACTTTTTTTTTCTT
21425075 TAACTTTTTTTTTCTT
1 TAACTTTTTTTTTCTT
*
21425091 TAAGTTTT
1 TAACTTTT
21425099 CTTAAGAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.74
Consensus pattern (16 bp):
TAACTTTTTTTTTCTT
Found at i:21428952 original size:65 final size:64
Alignment explanation
Indices: 21428883--21429006 Score: 169
Period size: 65 Copynumber: 1.9 Consensus size: 64
21428873 AAATTGAATA
* * * *
21428883 GGATTATTAAATGCATTTT-TGGCTAAAAACGCCTTCAATAATCCATTCAAAAAAAATTTTTTTA
1 GGATTATTAAAGGCATTTTCAGTC-AAAAACGCCTTCAATAATCCA-TAAAAAAAAATTTTTTTA
21428947 T
64 T
* *
21428948 GGATTATTGAAGGCATTTTCAGTCAAAAATGCCTTCAATAATCCATAAAAAAAAATTTT
1 GGATTATTAAAGGCATTTTCAGTCAAAAACGCCTTCAATAATCCATAAAAAAAAATTTT
21429007 GTATGAATTA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
64 13 0.25
65 37 0.71
66 2 0.04
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.35
Consensus pattern (64 bp):
GGATTATTAAAGGCATTTTCAGTCAAAAACGCCTTCAATAATCCATAAAAAAAAATTTTTTTAT
Found at i:21429405 original size:13 final size:13
Alignment explanation
Indices: 21429387--21429414 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
21429377 GTTGAGGGGG
21429387 TTATTGAAGGCGT
1 TTATTGAAGGCGT
21429400 TTATTGAAGGCGT
1 TTATTGAAGGCGT
21429413 TT
1 TT
21429415 TTTTACCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.29, T:0.43
Consensus pattern (13 bp):
TTATTGAAGGCGT
Found at i:21429650 original size:65 final size:63
Alignment explanation
Indices: 21429572--21429737 Score: 161
Period size: 64 Copynumber: 2.6 Consensus size: 63
21429562 TTTTTTTTCT
* *** *
21429572 AAAAACGCCTTCAATAATCTAAATAAAAATTTTTGTTGAGGGAATTATTGAATGCATTTTTAGCC
1 AAAAACACCTTCAATAATC-AAATAAAAATTTTTGAAAAGGGAA-TATTGAAAGCATTTTTAGCC
* * * * * *
21429637 AAAAACACATTCAATAATCCATTCAAAAAATTTTGAAAAGGGAATATTGAAAGTATTTTTAGTC
1 AAAAACACCTTCAATAATCAAAT-AAAAATTTTTGAAAAGGGAATATTGAAAGCATTTTTAGCC
* * * *
21429701 AAAAATACCTTCAATTATCCATACAAAAATTTTTGAA
1 AAAAACACCTTCAATAAT-CAAATAAAAATTTTTGAA
21429738 GGGGATTATT
Statistics
Matches: 80, Mismatches: 19, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
64 46 0.57
65 34 0.43
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (63 bp):
AAAAACACCTTCAATAATCAAATAAAAATTTTTGAAAAGGGAATATTGAAAGCATTTTTAGCC
Found at i:21429715 original size:64 final size:65
Alignment explanation
Indices: 21429610--21429766 Score: 178
Period size: 64 Copynumber: 2.5 Consensus size: 65
21429600 ATTTTTGTTG
* *
21429610 AGGGAATTATTGAATGCATTTTTAGCCAAAAACACATTCAATAATCCATTCAAAAAATTTTGAAA
1 AGGGAATTATTGAAAGCATTTTTAGCCAAAAACACATTCAATAATCCATACAAAAAATTTTGAAA
* * * * * *
21429675 AGGGAA-TATTGAAAGTATTTTTAGTCAAAAATACCTTCAATTATCCATACAAAAATTTTTG--A
1 AGGGAATTATTGAAAGCATTTTTAGCCAAAAACACATTCAATAATCCATACAAAAAATTTTGAAA
* * * *
21429737 AGGGGATTATTAAAAACA-TTTTGGCCAAAA
1 AGGGAATTATTGAAAGCATTTTTAGCCAAAA
21429767 TTTGAAAGGG
Statistics
Matches: 77, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
62 16 0.21
63 8 0.10
64 47 0.61
65 6 0.08
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (65 bp):
AGGGAATTATTGAAAGCATTTTTAGCCAAAAACACATTCAATAATCCATACAAAAAATTTTGAAA
Found at i:21429792 original size:35 final size:36
Alignment explanation
Indices: 21429732--21429802 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 36
21429722 TACAAAAATT
*
21429732 TTTGAAGGGGATTATTAAAAACA-TTTTGGCCAAAA
1 TTTGAAAGGGATTATTAAAAACATTTTTGGCCAAAA
** *
21429767 TTTGAAAGGGATTATTAAAGGCATTTTTTGCCAAAA
1 TTTGAAAGGGATTATTAAAAACATTTTTGGCCAAAA
21429803 ATACCTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 20 0.65
36 11 0.35
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (36 bp):
TTTGAAAGGGATTATTAAAAACATTTTTGGCCAAAA
Found at i:21431662 original size:26 final size:26
Alignment explanation
Indices: 21431612--21431683 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 26
21431602 TTAATATAAC
* *
21431612 TATTAAAATAT-TAGAAATTATTTAT
1 TATTAAAATATATTGAAATTAATTAT
21431637 TATTAAAATATATTGAAATTAATTAT
1 TATTAAAATATATTGAAATTAATTAT
21431663 TATTAAAAT-TATT-AATATTAA
1 TATTAAAATATATTGAA-ATTAA
21431684 AAATAACTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.05
25 20 0.47
26 21 0.49
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (26 bp):
TATTAAAATATATTGAAATTAATTAT
Found at i:21431686 original size:16 final size:16
Alignment explanation
Indices: 21431646--21431722 Score: 57
Period size: 15 Copynumber: 4.6 Consensus size: 16
21431636 TTATTAAAAT
*
21431646 ATATTGAAATTAATTA
1 ATATTAAAATTAATTA
*
21431662 TTATTAAAATT-ATTA
1 ATATTAAAATTAATTA
* *
21431677 ATATTAAAAATAACTA
1 ATATTAAAATTAATTA
* *
21431693 TATTTTAATAATAATATTTA
1 -ATATTAA-AAT--TAATTA
21431713 ATATTAAAAT
1 ATATTAAAAT
21431723 CTTATTTTAA
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
15 13 0.28
16 12 0.26
17 6 0.13
18 5 0.11
19 6 0.13
20 4 0.09
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (16 bp):
ATATTAAAATTAATTA
Found at i:21431731 original size:19 final size:20
Alignment explanation
Indices: 21431709--21431746 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
21431699 AATAATAATA
*
21431709 TTTAATATTAAAAT-CTTAT
1 TTTAATATAAAAATACTTAT
21431728 TTTAATATAAAAATACTTA
1 TTTAATATAAAAATACTTA
21431747 AAATAAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTAATATAAAAATACTTAT
Found at i:21431798 original size:16 final size:16
Alignment explanation
Indices: 21431779--21431857 Score: 64
Period size: 16 Copynumber: 5.2 Consensus size: 16
21431769 TTACATTATT
21431779 TATTAATGTATT-ATAA
1 TATT-ATGTATTAATAA
*
21431795 TATTATTTATTAATAA
1 TATTATGTATTAATAA
21431811 TA-T-T-TATTAAT-A
1 TATTATGTATTAATAA
21431823 TATTA--TATTAATATTA
1 TATTATGTATTAATA--A
*
21431839 TATTATTTATTAATAA
1 TATTATGTATTAATAA
21431855 TAT
1 TAT
21431858 ATTATTTATT
Statistics
Matches: 54, Mismatches: 1, Indels: 16
0.76 0.01 0.23
Matches are distributed among these distances:
12 3 0.06
13 15 0.28
14 1 0.02
15 7 0.13
16 20 0.37
18 8 0.15
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (16 bp):
TATTATGTATTAATAA
Found at i:21431799 original size:23 final size:22
Alignment explanation
Indices: 21431773--21432173 Score: 116
Period size: 23 Copynumber: 17.4 Consensus size: 22
21431763 TATTCTTTAC
21431773 ATTATTTATTAATGTATTATAAT
1 ATTATTTATTAAT-TATTATAAT
* *
21431796 ATTATTTATTAA-TAATAT-TT
1 ATTATTTATTAATTATTATAAT
* * *
21431816 ATTAATATATTATATTAATATTAT
1 ATT-ATTTATTA-ATTATTATAAT
21431840 ATTATTTATTAA-TA--AT-AT
1 ATTATTTATTAATTATTATAAT
* *
21431858 ATTATTTATTCATATATTATCAT
1 ATTATTTATTAAT-TATTATAAT
*
21431881 AATATTTATTAATTAAATTAATAAT
1 ATTATTTATTAATT--ATT-ATAAT
21431906 ATT-TATTATTATATTACTTATGAATATAAT
1 ATTAT-TTATTA-ATTA-TTA------TAAT
* *
21431936 ATTATTTCTTTATATATTATAAT
1 ATTATTTATTAAT-TATTATAAT
* *
21431959 GTTATTTCTTAATATTATTTATTAAT
1 ATTATTTATT-A-ATTA-TTA-TAAT
*
21431985 ATTATATTATTTATTAATATATAATAAT
1 ATT-----ATTTATTAAT-TATTATAAT
* *
21432013 ATTATTTATGAATATGTTATAAT
1 ATTATTTATTAAT-TATTATAAT
*
21432036 ATT-TTTATTAA-TATGT-T-TT
1 ATTATTTATTAATTAT-TATAAT
** *
21432055 ATTAATACATTATATTAATAGT-AT
1 ATT-ATTTATTA-ATTATTA-TAAT
*
21432079 ATTATTTA-T--TCA-TATAAT
1 ATTATTTATTAATTATTATAAT
* *
21432097 ATTATTTATTAATAGATTGTAAT
1 ATTATTTATTAAT-TATTATAAT
* *
21432120 ATAATATTAGTT-ATTAATATAAT
1 ATTAT-TTA-TTAATTATTATAAT
* * **
21432143 CTTATTTATTTATTAACATAAT
1 ATTATTTATTAATTATTATAAT
21432165 ATTATTTAT
1 ATTATTTAT
21432174 AAGTAAAATT
Statistics
Matches: 289, Mismatches: 40, Indels: 99
0.68 0.09 0.23
Matches are distributed among these distances:
17 1 0.00
18 25 0.09
19 9 0.03
20 9 0.03
21 23 0.08
22 37 0.13
23 94 0.33
24 22 0.08
25 21 0.07
26 9 0.03
28 7 0.02
29 9 0.03
30 16 0.06
31 7 0.02
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
ATTATTTATTAATTATTATAAT
Found at i:21431814 original size:13 final size:13
Alignment explanation
Indices: 21431775--21432084 Score: 84
Period size: 13 Copynumber: 23.6 Consensus size: 13
21431765 TTCTTTACAT
*
21431775 TATTTATTAAT-G
1 TATTTATTAATAA
*
21431787 TA-TTA-TAATAT
1 TATTTATTAATAA
21431798 TATTTATTAATAA
1 TATTTATTAATAA
21431811 TATTTATTAAT-A
1 TATTTATTAATAA
21431823 TATTATATTAATATTATA
1 TATT-TATT-A-A-TA-A
21431841 TTATTTATTAATAA
1 -TATTTATTAATAA
* *
21431855 TATATTATTTATTCA
1 TAT-TTA-TTAATAA
*
21431870 TATATTA-TCATAA
1 TAT-TTATTAATAA
21431883 TATTTATTAAT--
1 TATTTATTAATAA
*
21431894 TA--AATTAATAA
1 TATTTATTAATAA
*
21431905 TATTTATTATTATAT
1 TATTTATTA--ATAA
*
21431920 TACTTATGAATATAATAT
1 TA-TT-T--AT-TAATAA
* *
21431938 TATTTCTTTAT-A
1 TATTTATTAATAA
**
21431950 TA-TTA-TAATGT
1 TATTTATTAATAA
* *
21431961 TATTTCTTAATAT
1 TATTTATTAATAA
*
21431974 TATTTATTAATAT
1 TATTTATTAATAA
*
21431987 TATATTATTTATTAA
1 TAT-TTA-TTAATAA
21432002 TA--TA-TAATAA
1 TATTTATTAATAA
*
21432012 TA-TTATTTATGAA
1 TATTTATTAAT-AA
21432025 TATGTTA-TAAT-A
1 TAT-TTATTAATAA
*
21432037 TTTTTATTAAT-A
1 TATTTATTAATAA
*
21432049 TGTTTTATTAATACA
1 T-ATTTATTAATA-A
* *
21432064 T-TATATTAATAG
1 TATTTATTAATAA
21432076 TATATTATT
1 TAT-TTATT
21432085 TATTCATATA
Statistics
Matches: 229, Mismatches: 29, Indels: 78
0.68 0.09 0.23
Matches are distributed among these distances:
9 6 0.03
10 14 0.06
11 18 0.08
12 32 0.14
13 83 0.36
14 16 0.07
15 32 0.14
16 5 0.02
17 4 0.02
18 11 0.05
19 6 0.03
20 2 0.01
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (13 bp):
TATTTATTAATAA
Found at i:21431849 original size:18 final size:18
Alignment explanation
Indices: 21431773--21432173 Score: 151
Period size: 18 Copynumber: 22.5 Consensus size: 18
21431763 TATTCTTTAC
21431773 ATTATTTATTAATGTATTAT
1 ATTATTTATTAA--TATTAT
*
21431793 AATA-TTATT--TATTAAT
1 ATTATTTATTAATATT-AT
*
21431809 AATATTTATT-A-A-TAT
1 ATTATTTATTAATATTAT
21431824 ATTA--TATTAATATTAT
1 ATTATTTATTAATATTAT
*
21431840 ATTATTTATTAATAATAT
1 ATTATTTATTAATATTAT
21431858 ATTATTTATTCATATATTAT
1 ATTATTTATT-A-ATATTAT
21431878 CATAATATTTATTAATTAAATTAAT
1 -AT--TATTTATTAA-T--ATT-AT
*
21431903 AATATTTA-T--TATTAT
1 ATTATTTATTAATATTAT
* * *
21431918 ATTACTTATGAATATAAT
1 ATTATTTATTAATATTAT
*
21431936 ATTATTTCTTTATATATTAT
1 ATTATTT-ATTA-ATATTAT
*
21431956 A--ATGTTATT--TCTTAAT
1 ATTAT-TTATTAATATT-AT
21431972 ATTATTTATTAATATTAT
1 ATTATTTATTAATATTAT
21431990 ATTATTTATTAATATATAATAAT
1 ATTATTTATT-A-ATAT--T-AT
*
21432013 ATTATTTATGAATATGTTAT
1 ATTATTTATTAATA--TTAT
* *
21432033 AATATTT-TT-AT-TAAT
1 ATTATTTATTAATATTAT
*
21432048 ATGT-TTTATT-A-A-TAC
1 AT-TATTTATTAATATTAT
*
21432063 ATTA--TATTAATAGTAT
1 ATTATTTATTAATATTAT
* *
21432079 ATTATTTATTCATATAAT
1 ATTATTTATTAATATTAT
*
21432097 ATTATTTATTAATA-GAT
1 ATTATTTATTAATATTAT
*
21432114 -TGTA-ATA-TAATATTA-
1 AT-TATTTATTAATATTAT
* * *
21432129 GTTATTAATATAATCTTAT
1 ATTATTTAT-TAATATTAT
* *
21432148 -TTATTTATTAACATAAT
1 ATTATTTATTAATATTAT
21432165 ATTATTTAT
1 ATTATTTAT
21432174 AAGTAAAATT
Statistics
Matches: 291, Mismatches: 38, Indels: 106
0.67 0.09 0.24
Matches are distributed among these distances:
13 8 0.03
14 3 0.01
15 39 0.13
16 36 0.12
17 21 0.07
18 97 0.33
19 15 0.05
20 28 0.10
21 8 0.03
22 10 0.03
23 20 0.07
24 4 0.01
25 2 0.01
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
ATTATTTATTAATATTAT
Found at i:21431853 original size:41 final size:41
Alignment explanation
Indices: 21431775--21432093 Score: 126
Period size: 41 Copynumber: 8.1 Consensus size: 41
21431765 TTCTTTACAT
* *
21431775 TATTTATTAATGTA-T-TA-TAATATTAT-TTA-TTAATAA
1 TATTTATTAATATATTATATTAATATTATATTATTTATTAA
21431811 TATTTATTAATATATTATATTAATATTATATTATTTATTAA
1 TATTTATTAATATATTATATTAATATTATATTATTTATTAA
* * * * *
21431852 TAATATATT-ATTTATTCATA-TATTATCATAATATTTATTAA
1 T-ATTTATTAATATATT-ATATTAATATTATATTATTTATTAA
** * * *
21431893 T-TAAATTAATA-A-TAT-TTATTATTATATTACTTATGAA
1 TATTTATTAATATATTATATTAATATTATATTATTTATTAA
* * * * * * *
21431930 TATAATATT-ATTTCTT-TATATATTATAATGTTATTTCTTAA
1 TAT-TTATTAATATATTATAT-TAATATTATATTATTTATTAA
* * * *
21431971 TA-TTATTTATTAATATTATATT-AT-TTATTAATATATAATAA
1 TATTTA-TTAAT-ATATTATATTAATATTA-TATTATTTATTAA
* *
21432012 TA-TTATT--TATGAATATGTT-ATA--ATATT-TTTATTAA
1 TATTTATTAATAT-ATTATATTAATATTATATTATTTATTAA
* * *
21432047 TATGTTTTATTAATACATTATATTAATAGTATATTATTTATTCA
1 TA---TTTATTAATATATTATATTAATATTATATTATTTATTAA
21432091 TAT
1 TAT
21432094 AATATTATTT
Statistics
Matches: 210, Mismatches: 41, Indels: 59
0.68 0.13 0.19
Matches are distributed among these distances:
35 8 0.04
36 16 0.08
37 24 0.11
38 15 0.07
39 27 0.13
40 19 0.09
41 71 0.34
42 13 0.06
43 8 0.04
44 9 0.04
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (41 bp):
TATTTATTAATATATTATATTAATATTATATTATTTATTAA
Found at i:21433209 original size:34 final size:34
Alignment explanation
Indices: 21433150--21433249 Score: 114
Period size: 34 Copynumber: 2.9 Consensus size: 34
21433140 CTAACATATG
*
21433150 GCATTTTTATCATAAAATG-CAGCTAAATTTAGAA
1 GCATTTTTATCATAAAACGTC-GCTAAATTTAGAA
* *
21433184 GCATTTTTATCATAAAACGTCGCTAAAATTAAAA
1 GCATTTTTATCATAAAACGTCGCTAAATTTAGAA
* * *
21433218 GCGTTTATAGT-ATAAAACGTCACTAAATTTAG
1 GCATTTTTA-TCATAAAACGTCGCTAAATTTAG
21433250 TGGAGTTTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
34 54 0.96
35 2 0.04
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (34 bp):
GCATTTTTATCATAAAACGTCGCTAAATTTAGAA
Found at i:21434520 original size:62 final size:63
Alignment explanation
Indices: 21434445--21434770 Score: 267
Period size: 62 Copynumber: 5.3 Consensus size: 63
21434435 TTTTTACAAA
*
21434445 AAAAAATATCTTCAATAATCCTCTCT-ATTTTTTATGAGGGGATTATTGAAGGCGTTTTAGGC
1 AAAAAATACCTTCAATAATCCTCTCTAATTTTTTATGAGGGGATTATTGAAGGCGTTTTAGGC
* * * * * * *
21434507 AAAAAATACCTTCAATAATCC-CTTTAAATTTTGATGAGGAGATTATTGAAGGTGTTTTTGAC
1 AAAAAATACCTTCAATAATCCTCTCTAATTTTTTATGAGGGGATTATTGAAGGCGTTTTAGGC
* * * ** * *
21434569 CAAAAATACCTTCAATAATCC-CTTTCAATTTTTTA-CAAAGGATTATTAAAGGCATTTTAGG-
1 AAAAAATACCTTCAATAATCCTCTCT-AATTTTTTATGAGGGGATTATTGAAGGCGTTTTAGGC
* ** * * * * * * *
21434630 --TAAATGTCTTTAATAATTCTCT-TAAATTTTGATGAGGAGATTATTGAAGGCGTTTTTGAC
1 AAAAAATACCTTCAATAATCCTCTCTAATTTTTTATGAGGGGATTATTGAAGGCGTTTTAGGC
** * * * * *
21434690 AAAAAATGTCTTCAATAATCC-CTTTCATTTTTTATGA-GGGATTATTAAAGGTGTTTCAGGC
1 AAAAAATACCTTCAATAATCCTCTCTAATTTTTTATGAGGGGATTATTGAAGGCGTTTTAGGC
*
21434751 AAAAAAATACCTTGAATAAT
1 -AAAAAATACCTTCAATAAT
21434771 TTGCTCATAA
Statistics
Matches: 205, Mismatches: 50, Indels: 18
0.75 0.18 0.07
Matches are distributed among these distances:
58 7 0.03
59 33 0.16
60 2 0.01
61 23 0.11
62 133 0.65
63 7 0.03
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (63 bp):
AAAAAATACCTTCAATAATCCTCTCTAATTTTTTATGAGGGGATTATTGAAGGCGTTTTAGGC
Found at i:21434798 original size:183 final size:181
Alignment explanation
Indices: 21434473--21434809 Score: 383
Period size: 183 Copynumber: 1.8 Consensus size: 181
21434463 TCCTCTCTAT
* * *
21434473 TTTTTATGAGGGGATTATTGAAGGCGTTTTAGGCAAAAAATACCTTCAATAATCCCTTTAAATTT
1 TTTTGATGAGGAGATTATTGAAGGCGTTTTAGACAAAAAATACCTTCAATAATCCCTTTAAATTT
* ** * *****
21434538 TGATGAGGAGATTATTGAAGGTGTTTTTGACCAAAAATACCTTCAATAATCCCTTTCAATTTTTT
66 TGATGAGGAGATTATTAAAGGTGTTTCAGACAAAAAATACCTTCAATAAT--CTTTCAAAAAAAT
*
21434603 ACAAAGGATTATTAAAGGCATTTTAGGTAAATGTCTTTAATAATTCTCTTAAA
129 ACAAACGATTATTAAAGGCATTTTAGGTAAATGTCTTTAATAATTCTCTTAAA
* ** * *
21434656 TTTTGATGAGGAGATTATTGAAGGCGTTTTTGACAAAAAATGTCTTCAATAATCCCTTTCATTTT
1 TTTTGATGAGGAGATTATTGAAGGCGTTTTAGACAAAAAATACCTTCAATAATCCCTTTAAATTT
* * *
21434721 TTATGAGG-GATTATTAAAGGTGTTTCAGGCAAAAAAATACCTTGAATAAT-TTGCTCATAAAAA
66 TGATGAGGAGATTATTAAAGGTGTTTCAGAC-AAAAAATACCTTCAATAATCTT--TCA-AAAAA
* *
21434784 ATA-AAGACGATTATTGAAGGTATTTT
127 ATACAA-ACGATTATTAAAGGCATTTT
21434810 CTACAATAAT
Statistics
Matches: 126, Mismatches: 23, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
180 2 0.02
182 23 0.18
183 101 0.80
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (181 bp):
TTTTGATGAGGAGATTATTGAAGGCGTTTTAGACAAAAAATACCTTCAATAATCCCTTTAAATTT
TGATGAGGAGATTATTAAAGGTGTTTCAGACAAAAAATACCTTCAATAATCTTTCAAAAAAATAC
AAACGATTATTAAAGGCATTTTAGGTAAATGTCTTTAATAATTCTCTTAAA
Found at i:21444216 original size:52 final size:52
Alignment explanation
Indices: 21444130--21444286 Score: 163
Period size: 52 Copynumber: 3.0 Consensus size: 52
21444120 TATAACCATA
* * * *
21444130 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTTTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCACTCTCCTCTTAGAATTCTTCTCCTGCAAGT
* * * * *
21444182 CAAACTTGCTTATTAAGAATCACTTTTCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCACTCTCCTCTTAGAATTCTTCTCCTGCAAGT
* * * * **
21444234 CAAACTTACCTATTAAGAATC-TTCTTTCTCTTGGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCACTC-TCCTCTTAGAATTCTTCTCCTGCAAGT
21444286 C
1 C
21444287 TTCTTGTCCA
Statistics
Matches: 88, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
51 1 0.01
52 87 0.99
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.41
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCACTCTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:21444327 original size:11 final size:11
Alignment explanation
Indices: 21444311--21444352 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
21444301 GCAATATCTG
21444311 ACAAATCTCAA
1 ACAAATCTCAA
*
21444322 ACAAATCTCTA
1 ACAAATCTCAA
21444333 ACAAATCTCAA
1 ACAAATCTCAA
21444344 ACAAATCTC
1 ACAAATCTC
21444353 TTATGAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:21444336 original size:22 final size:22
Alignment explanation
Indices: 21444311--21444353 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
21444301 GCAATATCTG
21444311 ACAAATCTCAAACAAATCTCTA
1 ACAAATCTCAAACAAATCTCTA
21444333 ACAAATCTCAAACAAATCTCT
1 ACAAATCTCAAACAAATCTCT
21444354 TATGAGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (22 bp):
ACAAATCTCAAACAAATCTCTA
Found at i:21444696 original size:31 final size:32
Alignment explanation
Indices: 21444658--21444741 Score: 127
Period size: 31 Copynumber: 2.7 Consensus size: 32
21444648 TCAAATCTTC
*
21444658 AGCTCTGATACCACTTGTTGGGGAACACCA-T
1 AGCTCTGATACCATTTGTTGGGGAACACCACT
*
21444689 AGCTCTGATACCATTTGTTGGGGATCACCACT
1 AGCTCTGATACCATTTGTTGGGGAACACCACT
*
21444721 -GCTTTGATACCATTTGTTGGG
1 AGCTCTGATACCATTTGTTGGG
21444742 CTAAAAGCCT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
31 48 0.98
32 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (32 bp):
AGCTCTGATACCATTTGTTGGGGAACACCACT
Found at i:21445313 original size:52 final size:53
Alignment explanation
Indices: 21445227--21445383 Score: 205
Period size: 52 Copynumber: 3.0 Consensus size: 53
21445217 TATAACCATA
* * * *
21445227 CAAACTTGCCCATTAAGAATCCATCTCCTCTTAGAATTCTTTTTC-TGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTTTTCTTGCAAGT
*
21445279 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTC-TTTTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTTTTCTTGCAAGT
* * *
21445331 CAAACTTACCTATTAAGAATCTTCTTT-CTCTTAGAATTCTTCTT-TTGCAAGT
1 CAAACTTGCCTATTAAGAATC-CCTTTCCTCTTAGAATTCTTTTTCTTGCAAGT
21445383 C
1 C
21445384 TTCTTGTCCA
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
51 5 0.05
52 81 0.87
53 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41
Consensus pattern (53 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTTTTCTTGCAAGT
Found at i:21445424 original size:11 final size:11
Alignment explanation
Indices: 21445408--21445449 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
21445398 GCAATATCTG
21445408 ACAAATCTCAA
1 ACAAATCTCAA
**
21445419 ACAAATCTTTA
1 ACAAATCTCAA
21445430 ACAAATCTCAA
1 ACAAATCTCAA
21445441 ACAAATCTC
1 ACAAATCTC
21445450 TTATGAGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:21446106 original size:29 final size:29
Alignment explanation
Indices: 21446066--21446127 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 29
21446056 CAAACGAACC
21446066 AAAAAGTTGAAATAAGTGAT-ATAATGTA
1 AAAAAGTTGAAATAAGTGATGATAATGTA
21446094 AAAAGAGTTGAAATAAGTGATGATAATGTA
1 AAAA-AGTTGAAATAAGTGATGATAATGTA
21446124 AAAA
1 AAAA
21446128 TATGATTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 4 0.12
29 16 0.50
30 12 0.38
ACGTcount: A:0.55, C:0.00, G:0.19, T:0.26
Consensus pattern (29 bp):
AAAAAGTTGAAATAAGTGATGATAATGTA
Found at i:21447002 original size:13 final size:12
Alignment explanation
Indices: 21446955--21447023 Score: 54
Period size: 12 Copynumber: 5.8 Consensus size: 12
21446945 TTAAAAGTGT
*
21446955 AAATTTTAAAT-
1 AAATTTTTAATA
*
21446966 AAA-TTTAAAT-
1 AAATTTTTAATA
21446976 AAATTTATTAAATA
1 AAATTT-TT-AATA
21446990 AATATTTTTAATA
1 AA-ATTTTTAATA
* *
21447003 AAAATATTAATA
1 AAATTTTTAATA
21447015 AAATTTTTA
1 AAATTTTTA
21447024 TTACTAAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
10 10 0.21
11 5 0.10
12 16 0.33
13 9 0.19
14 4 0.08
15 4 0.08
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
AAATTTTTAATA
Found at i:21447639 original size:3 final size:3
Alignment explanation
Indices: 21447633--21447674 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
21447623 TCATTAATTT
*
21447633 TAA TAA T-A TTA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
21447675 CAACTTACCA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:21448003 original size:42 final size:42
Alignment explanation
Indices: 21447928--21448007 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
21447918 ATCTATTACT
21447928 ATATTATTAAAATAATAAAATACATTTTATATTAATATTTAA
1 ATATTATTAAAATAATAAAATACATTTTATATTAATATTTAA
* *
21447970 ATATT-TTAAAATAA-AAAATATATATTATTTATTAATAT
1 ATATTATTAAAATAATAAAATACAT-TT-TATATTAATAT
21448008 AGTAACCCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 8 0.24
41 11 0.32
42 15 0.44
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (42 bp):
ATATTATTAAAATAATAAAATACATTTTATATTAATATTTAA
Found at i:21449224 original size:17 final size:17
Alignment explanation
Indices: 21449199--21449253 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
21449189 TTAAAACTAT
*
21449199 TAATGATAAAATTATTA
1 TAATAATAAAATTATTA
* *
21449216 TAATAATAAAACTATTT
1 TAATAATAAAATTATTA
* *
21449233 TAATAATTAAATTATAA
1 TAATAATAAAATTATTA
21449250 TAAT
1 TAAT
21449254 GATTTAATTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
TAATAATAAAATTATTA
Found at i:21449245 original size:34 final size:32
Alignment explanation
Indices: 21449190--21449253 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 32
21449180 TAAAATTATT
* *
21449190 TAAAACTATTAATGATAAAATTATTATAATAA
1 TAAAACTATTAATAATAAAATTATAATAATAA
*
21449222 TAAAACTATTTTAATAATTAAATTATAATAAT
1 TAAAACTA--TTAATAATAAAATTATAATAAT
21449254 GATTTAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 8 0.30
34 19 0.70
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (32 bp):
TAAAACTATTAATAATAAAATTATAATAATAA
Found at i:21449487 original size:18 final size:15
Alignment explanation
Indices: 21449442--21449479 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
21449432 ATTTTAAATT
*
21449442 TTATTAATAAAAAAA
1 TTATTATTAAAAAAA
21449457 TTATTATTAAAAAAA
1 TTATTATTAAAAAAA
21449472 TTATTATT
1 TTATTATT
21449480 TTATAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTATTATTAAAAAAA
Found at i:21450364 original size:12 final size:13
Alignment explanation
Indices: 21450336--21450374 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
21450326 TAAATTTTTT
21450336 ATTAAAAATAATAAA
1 ATTAAAAAT--TAAA
21450351 ATT-AAAATTAAA
1 ATTAAAAATTAAA
21450363 ATTAAAAATTAA
1 ATTAAAAATTAA
21450375 TATATTAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.30
13 8 0.35
14 5 0.22
15 3 0.13
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATTAAAAATTAAA
Found at i:21450456 original size:13 final size:13
Alignment explanation
Indices: 21450424--21450457 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
21450414 TTAATAAATA
21450424 AATAATATATTTTT
1 AATAA-ATATTTTT
21450438 AGATAAATATTTTT
1 A-ATAAATATTTTT
21450452 AATAAA
1 AATAAA
21450458 AATACTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.26
14 10 0.53
15 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (13 bp):
AATAAATATTTTT
Found at i:21450597 original size:14 final size:13
Alignment explanation
Indices: 21450569--21450607 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
21450559 CAATTTATAT
21450569 TTTTTATTAAA-A
1 TTTTTATTAAATA
21450581 TTTTTATTAAATCA
1 TTTTTATTAAAT-A
*
21450595 TTTTTAATAAATA
1 TTTTTATTAAATA
21450608 ACTTTACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 11 0.46
13 1 0.04
14 12 0.50
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTTATTAAATA
Found at i:21452768 original size:16 final size:16
Alignment explanation
Indices: 21452730--21452761 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21452720 CCCAATCAAC
21452730 CTAAATTTAAAATAAT
1 CTAAATTTAAAATAAT
*
21452746 CTAAATTTTAAATAAT
1 CTAAATTTAAAATAAT
21452762 TTGAATTCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
CTAAATTTAAAATAAT
Found at i:21454997 original size:51 final size:52
Alignment explanation
Indices: 21454893--21454997 Score: 176
Period size: 52 Copynumber: 2.0 Consensus size: 52
21454883 ATTTTATTGC
* *
21454893 ATGATAATTTTTATTTATTTTAATTTCTTTTTTTCTCTCAAATTTAAAAAAA
1 ATGATAATTTTTATTTATTTTAATTTATTTTTTTCTCTCAAAATTAAAAAAA
*
21454945 ATGATAATTTTTGTTTATTTTAATTTATTTTTTTCTCT-AAAATTAAAAAAA
1 ATGATAATTTTTATTTATTTTAATTTATTTTTTTCTCTCAAAATTAAAAAAA
21454996 AT
1 AT
21454998 TTATTTTCAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
51 14 0.28
52 36 0.72
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (52 bp):
ATGATAATTTTTATTTATTTTAATTTATTTTTTTCTCTCAAAATTAAAAAAA
Found at i:21457292 original size:75 final size:76
Alignment explanation
Indices: 21457211--21457362 Score: 288
Period size: 75 Copynumber: 2.0 Consensus size: 76
21457201 AAATCCAGTT
21457211 AAAAAATTTTATGACAGTGAATTGCTAAAGGTGAAGTCCAAAAAAAAAA-GGGATTACTTGCTGT
1 AAAAAATTTTATGACAGTGAATTGCTAAAGGTGAAGTCCAAAAAAAAAATGGGATTACTTGCTGT
21457275 AAAAGCTCACA
66 AAAAGCTCACA
21457286 AAAAAATTTTATGACAGTGAATTGCTAAAGGTGAAGTCCAAAAAAAAAATGGGATTACTTGCTGT
1 AAAAAATTTTATGACAGTGAATTGCTAAAGGTGAAGTCCAAAAAAAAAATGGGATTACTTGCTGT
*
21457351 AGAAGCTCACA
66 AAAAGCTCACA
21457362 A
1 A
21457363 CTGGTTAGTT
Statistics
Matches: 75, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
75 49 0.65
76 26 0.35
ACGTcount: A:0.45, C:0.12, G:0.19, T:0.24
Consensus pattern (76 bp):
AAAAAATTTTATGACAGTGAATTGCTAAAGGTGAAGTCCAAAAAAAAAATGGGATTACTTGCTGT
AAAAGCTCACA
Found at i:21459187 original size:43 final size:43
Alignment explanation
Indices: 21459139--21459283 Score: 161
Period size: 43 Copynumber: 3.4 Consensus size: 43
21459129 AGTTAGAGGG
*
21459139 TTTCTCATTTTAAAGTTATTTAACCTCTATTCAAAAGAACCCA
1 TTTCTCATTTTAAAGTTATTTAGCCTCTATTCAAAAGAACCCA
* * * *
21459182 TTTCTCATTTTAATGTTGTTTAGCCTCTGTTCAAAA-AAGCCTA
1 TTTCTCATTTTAAAGTTATTTAGCCTCTATTCAAAAGAA-CCCA
* * * *
21459225 TTTCAT-ATTTTAAAATCATTTAGCCTCTATAT-AAAAGAGCTCA
1 TTTC-TCATTTTAAAGTTATTTAGCCTCTAT-TCAAAAGAACCCA
21459268 TTTCTCATTTTAAAGT
1 TTTCTCATTTTAAAGT
21459284 CGCTTAACCT
Statistics
Matches: 83, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
42 3 0.04
43 77 0.93
44 3 0.04
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.43
Consensus pattern (43 bp):
TTTCTCATTTTAAAGTTATTTAGCCTCTATTCAAAAGAACCCA
Found at i:21459399 original size:43 final size:43
Alignment explanation
Indices: 21459139--21459407 Score: 155
Period size: 43 Copynumber: 6.2 Consensus size: 43
21459129 AGTTAGAGGG
* * * * * * *
21459139 TTTCTCATTTTAAAGTTATTTAACCTCTATTCAAAAGAACCCA
1 TTTCTTATTCTAAAGTTGTTTAGCCTCTGTTTAAAAGAGCCCA
* * * * * *
21459182 TTTCTCATTTTAATGTTGTTTAGCCTCTGTTCAAAAAAGCCTA
1 TTTCTTATTCTAAAGTTGTTTAGCCTCTGTTTAAAAGAGCCCA
* * * ** * * *
21459225 TTTCATATTTTAAAATCATTTAGCCTCTATATAAAAGAGCTCA
1 TTTCTTATTCTAAAGTTGTTTAGCCTCTGTTTAAAAGAGCCCA
* * * * * **
21459268 TTTCTCATTTTAAAGTCGCTTAACCTCTGTTTAGAGAA-A-CATA
1 TTTCTTATTCTAAAGTTGTTTAGCCTCTGTTTA-A-AAGAGCCCA
* * * * * * * *
21459311 TTTCTTACTCTAAAGTTGTTTAACTTTTATCTAAAGGAGCTCA
1 TTTCTTATTCTAAAGTTGTTTAGCCTCTGTTTAAAAGAGCCCA
**
21459354 TTTCTTATTCTAAAGTTGTTTAGCCTCTGTTTTGAAGAGCCCA
1 TTTCTTATTCTAAAGTTGTTTAGCCTCTGTTTAAAAGAGCCCA
21459397 TTTCTTGATTC
1 TTTCTT-ATTC
21459408 ATTTAAAAAA
Statistics
Matches: 170, Mismatches: 51, Indels: 9
0.74 0.22 0.04
Matches are distributed among these distances:
41 1 0.01
42 2 0.01
43 159 0.94
44 6 0.04
45 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.10, T:0.43
Consensus pattern (43 bp):
TTTCTTATTCTAAAGTTGTTTAGCCTCTGTTTAAAAGAGCCCA
Found at i:21460634 original size:22 final size:22
Alignment explanation
Indices: 21460609--21460656 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
21460599 CCCGAAATTA
21460609 ATAAAAATATT-TTTTTTAAA-
1 ATAAAAATATTATTTTTTAAAT
21460629 ATATAAAATATTATTTTTTAAAT
1 ATA-AAAATATTATTTTTTAAAT
21460652 ATAAA
1 ATAAA
21460657 TATTAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.12
21 8 0.32
22 11 0.44
23 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAAAATATTATTTTTTAAAT
Found at i:21460638 original size:21 final size:21
Alignment explanation
Indices: 21460608--21460661 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
21460598 ACCCGAAATT
21460608 AATA-AAAATATT-TTTTTTAA
1 AATATAAAATATTATTTTTT-A
21460628 AATATAAAATATTATTTTTTA
1 AATATAAAATATTATTTTTTA
21460649 AATAT-AAATATTA
1 AATATAAAATATTA
21460662 AAAAATATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.38
21 14 0.44
22 6 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AATATAAAATATTATTTTTTA
Found at i:21460990 original size:13 final size:14
Alignment explanation
Indices: 21460972--21461005 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
21460962 TATCCTTTTC
21460972 TTTTTTTG-TTTAT
1 TTTTTTTGTTTTAT
*
21460985 TTTTTTAGTTTTAT
1 TTTTTTTGTTTTAT
21460999 TTTTTTT
1 TTTTTTT
21461006 AATTAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.85
Consensus pattern (14 bp):
TTTTTTTGTTTTAT
Found at i:21460997 original size:14 final size:13
Alignment explanation
Indices: 21460967--21461004 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
21460957 AGGTTTATCC
*
21460967 TTTTCTTTTTTTG
1 TTTTATTTTTTTG
21460980 -TTTATTTTTTTAG
1 TTTTATTTTTTT-G
21460993 TTTTATTTTTTT
1 TTTTATTTTTTT
21461005 TAATTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 10 0.45
13 1 0.05
14 11 0.50
ACGTcount: A:0.08, C:0.03, G:0.05, T:0.84
Consensus pattern (13 bp):
TTTTATTTTTTTG
Found at i:21461458 original size:37 final size:37
Alignment explanation
Indices: 21461417--21461495 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
21461407 TATATTTTTT
* * * *
21461417 AAAAATAAATTTACAAAG-AAATTTTATCAAACTATTG
1 AAAAATAAATATA-AAAGTAAATCTAATCAAACTATTA
**
21461454 AAAAATCTATATAAAAGTAAATCTAATCAAACTATTA
1 AAAAATAAATATAAAAGTAAATCTAATCAAACTATTA
21461491 AAAAA
1 AAAAA
21461496 ATTTATTAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
36 4 0.11
37 31 0.89
ACGTcount: A:0.58, C:0.09, G:0.04, T:0.29
Consensus pattern (37 bp):
AAAAATAAATATAAAAGTAAATCTAATCAAACTATTA
Found at i:21464283 original size:39 final size:39
Alignment explanation
Indices: 21464223--21464301 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 39
21464213 GAGTTGCCAA
*
21464223 CAATTGAATTTGTCATCTGAGGATGAGTGGTCATACCAC
1 CAATCGAATTTGTCATCTGAGGATGAGTGGTCATACCAC
* * *
21464262 CAATCGAATTTGTCA-CATGAGGCTGGGTGGTCATGCCAC
1 CAATCGAATTTGTCATC-TGAGGATGAGTGGTCATACCAC
21464301 C
1 C
21464302 CTGCATTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.03
39 34 0.97
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (39 bp):
CAATCGAATTTGTCATCTGAGGATGAGTGGTCATACCAC
Found at i:21467466 original size:24 final size:26
Alignment explanation
Indices: 21467416--21467469 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 26
21467406 ATTAAAATAT
*
21467416 ATATTTATATTATATTTTATATAAAA
1 ATATTTATATTATATTTGATATAAAA
*
21467442 ATATTTATCTTA-A-TTGATATAAAA
1 ATATTTATATTATATTTGATATAAAA
21467466 ATAT
1 ATAT
21467470 AAAATATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 14 0.54
25 1 0.04
26 11 0.42
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (26 bp):
ATATTTATATTATATTTGATATAAAA
Found at i:21468192 original size:19 final size:18
Alignment explanation
Indices: 21468168--21468223 Score: 69
Period size: 19 Copynumber: 3.1 Consensus size: 18
21468158 ACAATACATG
21468168 TAATAATAAATTTTGTATA
1 TAATAATAAATTTT-TATA
*
21468187 TAATAATAAAATTTTATCA
1 TAATAATAAATTTTTAT-A
*
21468206 TAAT-ATAATTTTTTATA
1 TAATAATAAATTTTTATA
21468223 T
1 T
21468224 TTTTAACAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 2 0.06
18 13 0.39
19 18 0.55
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (18 bp):
TAATAATAAATTTTTATA
Found at i:21472931 original size:16 final size:16
Alignment explanation
Indices: 21472912--21472953 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
21472902 TATGAAAGTC
21472912 TATAGTTATATGTACA
1 TATAGTTATATGTACA
* *
21472928 TATAGTAACATGTACA
1 TATAGTTATATGTACA
*
21472944 TATAATTATA
1 TATAGTTATA
21472954 ATAACATGTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (16 bp):
TATAGTTATATGTACA
Found at i:21472953 original size:22 final size:22
Alignment explanation
Indices: 21472928--21473032 Score: 113
Period size: 22 Copynumber: 4.8 Consensus size: 22
21472918 TATATGTACA
*
21472928 TATAGTAACATGTACATATAAT
1 TATAGTAACATGTACATATAGT
* *
21472950 TATAATAACATGTACTTATAGT
1 TATAGTAACATGTACATATAGT
* * * *
21472972 TGTAGTCA-ATGTATATACAGT
1 TATAGTAACATGTACATATAGT
**
21472993 TATAGTAACATGTGTATATAGT
1 TATAGTAACATGTACATATAGT
*
21473015 TATAGTAACATATACATA
1 TATAGTAACATGTACATA
21473033 GTAAAGTAAA
Statistics
Matches: 66, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
21 16 0.24
22 50 0.76
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (22 bp):
TATAGTAACATGTACATATAGT
Found at i:21473065 original size:18 final size:19
Alignment explanation
Indices: 21473010--21473068 Score: 77
Period size: 18 Copynumber: 3.2 Consensus size: 19
21473000 ACATGTGTAT
21473010 ATAGTTATAGTAACATATAC
1 ATAGTTATAGTAA-ATATAC
* *
21473030 ATAG-TAAAGTAAAAATAC
1 ATAGTTATAGTAAATATAC
21473048 ATAGTTATAG-AAATATAC
1 ATAGTTATAGTAAATATAC
21473066 ATA
1 ATA
21473069 TAGATATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
18 19 0.56
19 11 0.32
20 4 0.12
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.31
Consensus pattern (19 bp):
ATAGTTATAGTAAATATAC
Found at i:21476092 original size:16 final size:17
Alignment explanation
Indices: 21476054--21476092 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
21476044 CAACAAACAG
*
21476054 ATTTTTAAATAAAACTA
1 ATTTTTAAATAAAAATA
*
21476071 AATTTTAAA-AAAAATA
1 ATTTTTAAATAAAAATA
21476087 ATTTTT
1 ATTTTT
21476093 GGTACTCTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTTTTAAATAAAAATA
Found at i:21482023 original size:2 final size:2
Alignment explanation
Indices: 21482016--21482043 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21482006 TTAACATCTT
21482016 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21482044 AGTTTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21486958 original size:20 final size:20
Alignment explanation
Indices: 21486933--21486971 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21486923 AAAAAGGCAA
21486933 AAAAAAAAAGAAAGGAAAAG
1 AAAAAAAAAGAAAGGAAAAG
* *
21486953 AAAAAAGAGGAAAGGAAAA
1 AAAAAAAAAGAAAGGAAAA
21486972 CAACGATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGAAAGGAAAAG
Found at i:21486963 original size:15 final size:15
Alignment explanation
Indices: 21486920--21486971 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
21486910 AATCTACATG
21486920 GAAAAAA-AGGCAAAA
1 GAAAAAAGAGG-AAAA
*
21486935 AAAAAAAGAAAGGAAAA
1 GAAAAAAG--AGGAAAA
*
21486952 GAAAAAAGAGGAAAG
1 GAAAAAAGAGGAAAA
21486967 GAAAA
1 GAAAA
21486972 CAACGATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 17 0.55
17 11 0.35
18 3 0.10
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (15 bp):
GAAAAAAGAGGAAAA
Found at i:21488344 original size:16 final size:16
Alignment explanation
Indices: 21488323--21488354 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21488313 AGTTGATTTA
*
21488323 ATTTGTTTAATTAATT
1 ATTTGTTAAATTAATT
21488339 ATTTGTTAAATTAATT
1 ATTTGTTAAATTAATT
21488355 TTAATTGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (16 bp):
ATTTGTTAAATTAATT
Found at i:21488784 original size:22 final size:21
Alignment explanation
Indices: 21488754--21488794 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
21488744 TCTTTTTTGA
21488754 TAAAAAATTAAGAATCAATATT
1 TAAAAAATTAA-AATCAATATT
* *
21488776 TAAATAATTAAAATTAATA
1 TAAAAAATTAAAATCAATA
21488795 ATTGTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
TAAAAAATTAAAATCAATATT
Found at i:21489414 original size:58 final size:57
Alignment explanation
Indices: 21489277--21489718 Score: 477
Period size: 57 Copynumber: 7.7 Consensus size: 57
21489267 TTTGTGTGAA
* * * **
21489277 AAAAATTGATACTTTCAACTTTTCC-CCAAAA-TATCTTTTGAAACTTTAAATTCGAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAACT-TTTTTTGAAAATTT-AATTTTAAG
*
21489334 -AAAATTGATACTTTCAACTTTTCTTCAAAAAACTTTTTTTGAAAATTTAATTTTAAG
1 AAAAATTGATACTTTCAACTTTTCCTC-AAAAACTTTTTTTGAAAATTTAATTTTAAG
* * * * * **
21489391 AAAATTTGATGCTTTTAA-TTTTTCTCAAAAAATATTTTTTGAAAACTTTAATTTCGAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAACT-TTTTTTGAAAA-TTTAATTTTAAG
** * *
21489449 AAAAATTGATACTTTCAACTTTTCCTCAAAAAC-CGTTTTAAAAATTTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTGAAAA-TTTAATTTTAAG
* * * * * *
21489506 AAAAATTAATACTTTTAACTTTT-CTCCAAAAA-TATTTTTAGACAGTTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCCT-CAAAAACT-TTTTTTGAAAATTTAATTTTAAG
* * *
21489563 GAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTAAAAATTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTGAAAATTTAATTTTAAG
21489620 AAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTGAAAATTT-ATTTTAAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAAC-TTTTTTTGAAAATTTAATTTT-AAG
* *
21489678 AAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAA-CTTTTTTT
21489719 TGGATTTTAT
Statistics
Matches: 324, Mismatches: 46, Indels: 29
0.81 0.12 0.07
Matches are distributed among these distances:
56 31 0.10
57 162 0.50
58 118 0.36
59 13 0.04
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.44
Consensus pattern (57 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTGAAAATTTAATTTTAAG
Found at i:21489451 original size:115 final size:114
Alignment explanation
Indices: 21489277--21489718 Score: 521
Period size: 115 Copynumber: 3.9 Consensus size: 114
21489267 TTTGTGTGAA
* * ** * *
21489277 AAAAATTGATACTTTCAACTTTTC-CCCAAAATATCTTTTGAAACTTTAAATTCGAAG-AAAATT
1 AAAAATTGATACTTTTAATTTTTCTCAAAAAATATTTTTTGAAACTTTAATTTC-AAGAAAAATT
* * *
21489340 GATACTTTCAACTTTTCTTCAAAAAACTTTTTTTGAAAATTTAATTTTAAG
65 GATACTTTCAACTTTTCCTC-AAAAACTTTTTTTAAAAATTTATTTTTAAG
* * *
21489391 AAAATTTGATGCTTTTAATTTTTCTCAAAAAATATTTTTTGAAAACTTTAATTTCGAGAAAAATT
1 AAAAATTGATACTTTTAATTTTTCTCAAAAAATATTTTTTG-AAACTTTAATTTCAAGAAAAATT
**
21489456 GATACTTTCAACTTTTCCTCAAAAAC-CGTTTTAAAAATTTTATTTTTAAG
65 GATACTTTCAACTTTTCCTCAAAAACTTTTTTTAAAAA-TTTATTTTTAAG
* * * * * * * * *
21489506 AAAAATTAATACTTTTAACTTTTCTCCAAAAATATTTTTAGACAGTTTATTTTTAAGGAAAATTG
1 AAAAATTGATACTTTTAATTTTTCTCAAAAAATATTTTTTGAAACTTTAATTTCAAGAAAAATTG
21489571 ATACTTTCAACTTTTCCTCAAAAACTTTTTTTAAAAATTTATTTTTAAG
66 ATACTTTCAACTTTTCCTCAAAAACTTTTTTTAAAAATTTATTTTTAAG
* * * * * * *
21489620 AAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTGAAAATTTATTTTAAAGAAAAATT
1 AAAAATTGATACTTTTAA-TTTTTCTCAAAAAATATTTTTTGAAACTTTAATTTCAAGAAAAATT
* *
21489685 GATACTTTCAACTTTTCCCCAAAAATATTTTTTT
65 GATACTTTCAACTTTTCCTCAAAAA-CTTTTTTT
21489719 TGGATTTTAT
Statistics
Matches: 279, Mismatches: 42, Indels: 12
0.84 0.13 0.04
Matches are distributed among these distances:
114 99 0.35
115 136 0.49
116 44 0.16
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.44
Consensus pattern (114 bp):
AAAAATTGATACTTTTAATTTTTCTCAAAAAATATTTTTTGAAACTTTAATTTCAAGAAAAATTG
ATACTTTCAACTTTTCCTCAAAAACTTTTTTTAAAAATTTATTTTTAAG
Found at i:21489756 original size:13 final size:12
Alignment explanation
Indices: 21489735--21489816 Score: 71
Period size: 13 Copynumber: 6.8 Consensus size: 12
21489725 TTATTTAAAG
21489735 AAAATAAAATAA
1 AAAATAAAATAA
*
21489747 TAAAACAAAAT-A
1 -AAAATAAAATAA
21489759 AAAATGAAAATAA
1 AAAAT-AAAATAA
*
21489772 AAAATAAAAAAA
1 AAAATAAAATAA
*
21489784 ATAAAGAAAAGTAA
1 A-AAATAAAA-TAA
*
21489798 AACA-AAAAT-A
1 AAAATAAAATAA
21489808 AAAATAAAA
1 AAAATAAAA
21489817 GAATATTAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
10 4 0.07
11 9 0.16
12 17 0.30
13 24 0.42
14 3 0.05
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.13
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:21489777 original size:37 final size:35
Alignment explanation
Indices: 21489735--21489821 Score: 72
Period size: 38 Copynumber: 2.4 Consensus size: 35
21489725 TTATTTAAAG
*
21489735 AAAATAAAATAATAAA-ACAAAATAAAA-ATGAAAATA
1 AAAATAAAAAAATAAAGA-AAAATAAAACA--AAAATA
*
21489771 AAAA-ATAAAAAAAATAAAGAAAAGTAAAACAAAAATA
1 AAAATA-AAA--AAATAAAGAAAAATAAAACAAAAATA
*
21489808 AAAATAAAAGAATA
1 AAAATAAAAAAATA
21489822 TTAAATAAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
35 5 0.12
36 7 0.17
37 13 0.31
38 15 0.36
39 2 0.05
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (35 bp):
AAAATAAAAAAATAAAGAAAAATAAAACAAAAATA
Found at i:21489866 original size:17 final size:16
Alignment explanation
Indices: 21489845--21489882 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
21489835 ATCTAATAAT
*
21489845 AAAAATATATATAAAA
1 AAAAAAATATATAAAA
21489861 AGAAAAAATATATAAAA
1 A-AAAAAATATATAAAA
21489878 AAAAA
1 AAAAA
21489883 GGAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (16 bp):
AAAAAAATATATAAAA
Done.