Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 70 of 207
Found at i:20207846 original size:134 final size:134
Alignment explanation
Indices: 20207680--20207956 Score: 500
Period size: 134 Copynumber: 2.1 Consensus size: 134
20207670 TATAACTTTA
*
20207680 GAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCA
1 GAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCA
20207745 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCT
66 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCT
*
20207810 TAGG
131 CAGG
*
20207814 GAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCA
1 GAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCA
* * *
20207879 ATCTGCTCCGCTGTAATCTCAGGGAGATAATATCTGAAATTCTTCGGTCTATTCCACTGTAATCT
66 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCT
20207944 CAGG
131 CAGG
20207948 GAGATAAGA
1 GAGATAAGA
20207957 CCTGATGTGA
Statistics
Matches: 137, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 137 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (134 bp):
GAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCA
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCT
CAGG
Found at i:20208279 original size:186 final size:186
Alignment explanation
Indices: 20207958--20208317 Score: 614
Period size: 186 Copynumber: 1.9 Consensus size: 186
20207948 GAGATAAGAC
* *
20207958 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGACAAGATCCTTTATTTTAATCCGCTCCACTT
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGACAAGATCCTTTATTTTAATCCGCTCCACTG
* ** *
20208023 TAATCTCAAGGAGATAGGATTACTGGCTTCAATCTGCTCTGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGAGAGATAAGATT
*
20208088 TCTGGCTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTTCTGACTTCAAT
131 TCTGGCTTCAATCTGCTCCACTATAA-CATCAGGGAGATAAGATTTCTGACTTCAAT
**
20208144 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGACAAGATCCTTTATTTTAATCCGCTCCACTG
*
20208209 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGAGAGATAAGATT
66 TAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGAGAGATAAGATT
20208274 TCTGGCTTCAATCTGCTCCACTATAACATCAGGGAGATAAGATT
131 TCTGGCTTCAATCTGCTCCACTATAACATCAGGGAGATAAGATT
20208318 CACCATTTCC
Statistics
Matches: 163, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
185 1 0.01
186 162 0.99
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (186 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGACAAGATCCTTTATTTTAATCCGCTCCACTG
TAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGAGAGATAAGATT
TCTGGCTTCAATCTGCTCCACTATAACATCAGGGAGATAAGATTTCTGACTTCAAT
Found at i:20209720 original size:19 final size:19
Alignment explanation
Indices: 20209696--20209741 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
20209686 TTAGCCTCTC
20209696 CATTTTTACTTTCATTTTT
1 CATTTTTACTTTCATTTTT
**
20209715 CATTTTTTTTTTCATTTTT
1 CATTTTTACTTTCATTTTT
20209734 CACTTTTT
1 CA-TTTTT
20209742 TTTCCTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (19 bp):
CATTTTTACTTTCATTTTT
Found at i:20209732 original size:8 final size:7
Alignment explanation
Indices: 20209705--20209741 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
20209695 CCATTTTTAC
20209705 TTTCATT
1 TTTCATT
20209712 TTTCATT
1 TTTCATT
20209719 TTT--TT
1 TTTCATT
20209724 TTTCATT
1 TTTCATT
20209731 TTTCACTT
1 TTTCA-TT
20209739 TTT
1 TTT
20209742 TTTCCTCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
5 5 0.19
7 17 0.63
8 5 0.19
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTCATT
Found at i:20209742 original size:19 final size:19
Alignment explanation
Indices: 20209705--20209744 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
20209695 CCATTTTTAC
*
20209705 TTTCATTTTTCATTTTTTT
1 TTTCATTTTTCACTTTTTT
20209724 TTTCATTTTTCACTTTTTT
1 TTTCATTTTTCACTTTTTT
20209743 TT
1 TT
20209745 CCTCAAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTCATTTTTCACTTTTTT
Found at i:20214949 original size:24 final size:24
Alignment explanation
Indices: 20214922--20214968 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
20214912 AAAGGGAAAT
**
20214922 AAGAGAAAGTGAAGGAAAATGTTG
1 AAGAGAAAGAAAAGGAAAATGTTG
*
20214946 AAGAGAAAGAAAAGGAAAGTGTT
1 AAGAGAAAGAAAAGGAAAATGTT
20214969 ATAAATTTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.32, T:0.15
Consensus pattern (24 bp):
AAGAGAAAGAAAAGGAAAATGTTG
Found at i:20217245 original size:22 final size:22
Alignment explanation
Indices: 20217219--20217263 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
20217209 ATTATGTGTA
20217219 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
20217241 TTAATTTTAATCTAATTTAATT
1 TTAATTATAATATAATTTAATT
20217263 T
1 T
20217264 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:20218727 original size:3 final size:3
Alignment explanation
Indices: 20218719--20218766 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
20218709 TGAGGATCCT
20218719 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -AA -AA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
20218765 GA
1 GA
20218767 TCCCACAAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 4 0.09
3 40 0.91
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:20225367 original size:21 final size:22
Alignment explanation
Indices: 20225320--20225367 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
20225310 AAACTCCAAA
* * *
20225320 AAAGATTCAAGTACATGAAACT
1 AAAGATTAAAATACATGAAAAT
*
20225342 GAAGATTAAAATA-ATGAAAAT
1 AAAGATTAAAATACATGAAAAT
20225363 AAAGA
1 AAAGA
20225368 AATCTTGATC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.58, C:0.06, G:0.15, T:0.21
Consensus pattern (22 bp):
AAAGATTAAAATACATGAAAAT
Found at i:20229798 original size:14 final size:14
Alignment explanation
Indices: 20229779--20229818 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
20229769 TTGATTGGCA
20229779 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
20229793 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
20229807 GGAAAATGTTTT
1 GTAAAATGTTTT
20229819 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:20229825 original size:34 final size:35
Alignment explanation
Indices: 20229787--20229853 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
20229777 CAGTAAAATG
* * *
20229787 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACAGGAAAATATTTTAC
*
20229821 TTTTCTGTAAAATGACTTACAGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACAGGAAAATATTTT
20229854 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACAGGAAAATATTTTAC
Found at i:20229840 original size:20 final size:20
Alignment explanation
Indices: 20229802--20229840 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
20229792 CGTAAAATGA
**
20229802 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
20229822 TTTCTGTAAAATGACTTAC
1 TTTCTGGAAAATGACTTAC
20229841 AGGAAAATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:20231227 original size:27 final size:27
Alignment explanation
Indices: 20231197--20231266 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
20231187 AATAATCAAT
*
20231197 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
20231224 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAAC-AATTCAAAACATATA
*
20231252 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
20231267 CTAAAATTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.51, C:0.20, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:20235022 original size:24 final size:24
Alignment explanation
Indices: 20234995--20235067 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
20234985 TGCAATCGAT
20234995 AGGGTGAATAGAGGAGCTGTGGAA
1 AGGGTGAATAGAGGAGCTGTGGAA
* * *
20235019 AGGGTGAAGAGAGGAACAGTGGAA
1 AGGGTGAATAGAGGAGCTGTGGAA
* *
20235043 AAGGTGAATAGATGAGCTGTGGAA
1 AGGGTGAATAGAGGAGCTGTGGAA
20235067 A
1 A
20235068 ATGTCTTACC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.38, C:0.04, G:0.42, T:0.15
Consensus pattern (24 bp):
AGGGTGAATAGAGGAGCTGTGGAA
Found at i:20242795 original size:23 final size:23
Alignment explanation
Indices: 20242769--20242844 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
20242759 ATAAGTGCCA
20242769 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
20242792 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
20242815 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
20242838 CACTGAT
1 CACTGAT
20242845 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:20242944 original size:8 final size:8
Alignment explanation
Indices: 20242931--20242959 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
20242921 ACCCGGGACT
20242931 CACTGTAA
1 CACTGTAA
20242939 CACTGTAA
1 CACTGTAA
20242947 CACTGTAA
1 CACTGTAA
20242955 CACTG
1 CACTG
20242960 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:20243090 original size:18 final size:17
Alignment explanation
Indices: 20243064--20243102 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
20243054 ATTTTCCTTC
20243064 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
20243081 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
20243099 CACA
1 CACA
20243103 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:20250114 original size:23 final size:22
Alignment explanation
Indices: 20250058--20250125 Score: 127
Period size: 22 Copynumber: 3.0 Consensus size: 22
20250048 AGTGCCACAT
20250058 ACTGAATGTAGCCGAAGCTACC
1 ACTGAATGTAGCCGAAGCTACC
20250080 ACTGAATGTAGCCGAAGCTACC
1 ACTGAATGTAGCCGAAGCTACC
20250102 ACTGAAATGTAGCCGAAGCTACC
1 ACTG-AATGTAGCCGAAGCTACC
20250125 A
1 A
20250126 TGATCAATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 26 0.58
23 19 0.42
ACGTcount: A:0.34, C:0.26, G:0.22, T:0.18
Consensus pattern (22 bp):
ACTGAATGTAGCCGAAGCTACC
Found at i:20250229 original size:8 final size:8
Alignment explanation
Indices: 20250216--20250244 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
20250206 ACCCGGGACT
20250216 CACTGTAA
1 CACTGTAA
20250224 CACTGTAA
1 CACTGTAA
20250232 CACTGTAA
1 CACTGTAA
20250240 CACTG
1 CACTG
20250245 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:20252115 original size:31 final size:31
Alignment explanation
Indices: 20252078--20252156 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
20252068 GGCCCTCAAA
*
20252078 AAGTTTAAGTACCAACTTAAGAAAAAGTGTC
1 AAGTTTAAGTACCAAATTAAGAAAAAGTGTC
*
20252109 AAGTTTATGTACCAAATTAAGAAAAAGTGTC
1 AAGTTTAAGTACCAAATTAAGAAAAAGTGTC
* * *
20252140 AACTTCAAGTATCAAAT
1 AAGTTTAAGTACCAAAT
20252157 GTTATATTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.28
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATTAAGAAAAAGTGTC
Found at i:20261772 original size:23 final size:23
Alignment explanation
Indices: 20261722--20261776 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
20261712 ATCAGGATCA
* * *
20261722 CACCATAGTGCTAGGAACAGGAG
1 CACCAAAGTGCAAGGAACAGAAG
*
20261745 CACCAAAGTGCAAGTAACAGAAG
1 CACCAAAGTGCAAGGAACAGAAG
*
20261768 TACCAAAGT
1 CACCAAAGT
20261777 ACAAATCAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.42, C:0.22, G:0.24, T:0.13
Consensus pattern (23 bp):
CACCAAAGTGCAAGGAACAGAAG
Found at i:20262083 original size:39 final size:40
Alignment explanation
Indices: 20262040--20262122 Score: 125
Period size: 39 Copynumber: 2.1 Consensus size: 40
20262030 GAAAGGAAAA
**
20262040 AAATTATTTCTAAGGTATTTATAT-TTTCTT-CATTTTGAT
1 AAATTATTTAAAAGGTATTTATATGTTT-TTACATTTTGAT
20262079 AAATTATTTAAAAGGTATTTATATGTTTTTACATTTTGAT
1 AAATTATTTAAAAGGTATTTATATGTTTTTACATTTTGAT
20262119 AAAT
1 AAAT
20262123 ATCTTTTAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
39 24 0.60
40 16 0.40
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (40 bp):
AAATTATTTAAAAGGTATTTATATGTTTTTACATTTTGAT
Found at i:20265639 original size:6 final size:6
Alignment explanation
Indices: 20265628--20265657 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
20265618 TAAGCTGAGT
20265628 CTATTA CTATTA CTATTA CTATTA CTATTA
1 CTATTA CTATTA CTATTA CTATTA CTATTA
20265658 TTTTGGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (6 bp):
CTATTA
Found at i:20278437 original size:6 final size:6
Alignment explanation
Indices: 20278426--20278455 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
20278416 AAATAAAAGG
20278426 AATAAA AATAAA AATAAA AAT-AA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA AATAAA A
20278456 TGTGTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:20278443 original size:12 final size:11
Alignment explanation
Indices: 20278426--20278455 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
20278416 AAATAAAAGG
20278426 AATAAAAATAAA
1 AATAAAAAT-AA
20278438 AATAAAAATAA
1 AATAAAAATAA
20278449 AATAAAA
1 AATAAAA
20278456 TGTGTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:20280108 original size:3 final size:3
Alignment explanation
Indices: 20280091--20280157 Score: 50
Period size: 3 Copynumber: 22.7 Consensus size: 3
20280081 TATATATAAA
* * * **
20280091 TAT TA- TAT ATAT TAT TAT AAT TAT TAAC CAT TAT TAT GGT T-T TA-
1 TAT TAT TAT -TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
20280135 TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
20280158 AATAAAGTAA
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
2 6 0.12
3 40 0.80
4 4 0.08
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:20280611 original size:14 final size:14
Alignment explanation
Indices: 20280589--20280641 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
20280579 TTATATTATT
*
20280589 ATAACATAAAGTAA
1 ATAAAATAAAGTAA
*
20280603 ATAAAATAAAATGAA
1 ATAAAATAAAGT-AA
* *
20280618 ATAAAACAAAGCAA
1 ATAAAATAAAGTAA
*
20280632 ATGAAATAAA
1 ATAAAATAAA
20280642 AAGAAGGAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
14 20 0.65
15 11 0.35
ACGTcount: A:0.70, C:0.06, G:0.08, T:0.17
Consensus pattern (14 bp):
ATAAAATAAAGTAA
Found at i:20280932 original size:3 final size:3
Alignment explanation
Indices: 20280924--20280949 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
20280914 GTGAGGTAAG
20280924 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
20280950 AGATGAGTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:20285782 original size:26 final size:26
Alignment explanation
Indices: 20285752--20285805 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
20285742 TATTCAAGAA
**
20285752 ATGAAAAATGCTTGATTGAAA-ACTTG
1 ATGAAAAACACTTGA-TGAAAGACTTG
20285778 ATGAAAAACACTTGATGAAAGACTTG
1 ATGAAAAACACTTGATGAAAGACTTG
20285804 AT
1 AT
20285806 TAATGAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (26 bp):
ATGAAAAACACTTGATGAAAGACTTG
Found at i:20287858 original size:27 final size:27
Alignment explanation
Indices: 20287814--20287870 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
20287804 TTTCCTCCGT
* *
20287814 ATTTTTAACTCTAGAAGC-GAGATTAAG
1 ATTTTTAACTCCACAAGCGGA-ATTAAG
20287841 ATTTTTAACTCCACAAGCGGAATTAAG
1 ATTTTTAACTCCACAAGCGGAATTAAG
20287868 ATT
1 ATT
20287871 ATTTTTTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (27 bp):
ATTTTTAACTCCACAAGCGGAATTAAG
Found at i:20295779 original size:20 final size:20
Alignment explanation
Indices: 20295754--20295803 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
20295744 TGGCTTAAAA
20295754 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
20295774 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
20295791 GTGGTAGTGGATT
1 TTGGTAGTGGATT
20295804 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:20300417 original size:20 final size:20
Alignment explanation
Indices: 20300392--20300441 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
20300382 TGGCTTAAAA
20300392 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
20300412 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
20300429 GTGGTAGTGGATT
1 TTGGTAGTGGATT
20300442 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:20306860 original size:18 final size:19
Alignment explanation
Indices: 20306815--20306863 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
20306805 GAATATTTAC
*
20306815 ATAAAAATTAAACTAAGTAA
1 ATAAAAA-TAAACTAAATAA
20306835 A-AATAAATAAA-TAAATAA
1 ATAA-AAATAAACTAAATAA
20306853 ATAAAAATAAA
1 ATAAAAATAAA
20306864 AATAAAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 8 0.31
20 4 0.15
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (19 bp):
ATAAAAATAAACTAAATAA
Found at i:20313339 original size:4 final size:4
Alignment explanation
Indices: 20313330--20313356 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
20313320 AACTAAGTAA
20313330 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
20313357 AATAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:20316440 original size:37 final size:36
Alignment explanation
Indices: 20316391--20316466 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 36
20316381 ATTCCAAAAA
20316391 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATTTTAATAGTGTT-ATATT-AATTTAATAT
*
20316427 TAATACTTATTTTAATAGTGTTTTATTAATTTAATAT
1 TAATA-TTATTTTAATAGTGTTATATTAATTTAATAT
20316464 TAA
1 TAA
20316467 AGTGACTATC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
36 13 0.36
37 21 0.58
38 2 0.06
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (36 bp):
TAATATTATTTTAATAGTGTTATATTAATTTAATAT
Found at i:20318027 original size:27 final size:28
Alignment explanation
Indices: 20317994--20318063 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 28
20317984 GACAAAATCC
*
20317994 AAACTTTTCAATGGA-T-TGAATTGAGT
1 AAACTTTTCAATGAATTGTGAATTGAGT
**
20318020 AAATCTTTTTTATGAATTGTGAATTGAGT
1 AAA-CTTTTCAATGAATTGTGAATTGAGT
20318049 AAACTTTTCAATGAA
1 AAACTTTTCAATGAA
20318064 GTAAGGTGTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 3 0.08
27 9 0.25
28 11 0.31
29 13 0.36
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (28 bp):
AAACTTTTCAATGAATTGTGAATTGAGT
Found at i:20319490 original size:21 final size:21
Alignment explanation
Indices: 20319474--20319520 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
20319464 TCTGGTTTCT
20319474 GGTTTTGGGTGAATGGTTTAG
1 GGTTTTGGGTGAATGGTTTAG
20319495 GGTTTTGGGTGAATGGTTTAG
1 GGTTTTGGGTGAATGGTTTAG
20319516 GGTTT
1 GGTTT
20319521 AGGATTAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.13, C:0.00, G:0.43, T:0.45
Consensus pattern (21 bp):
GGTTTTGGGTGAATGGTTTAG
Found at i:20320040 original size:126 final size:125
Alignment explanation
Indices: 20319815--20320358 Score: 776
Period size: 126 Copynumber: 4.3 Consensus size: 125
20319805 TTGTTAATTT
*
20319815 AAAGAAGCTCCCATGTGGAC-GCATTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCAAGTTGA
1 AAAGAAGCTCCCACGTGGACAGC--TTTTGCTACAGTAGCTCTTGAAAAAATAATTTCAAGTTGA
* * * *
20319879 CGTTTCTGAGCAAATAGTGTCAAAAACGCTTT-AGTTAGGATGATTTGTTAGCAAAAGTACTG
64 CGTTTCTGAACAAATAGTGTCAAAAACGCTTTAAG-CAGGATGCTTTGTCAGCAAAAGTACTG
* * **
20319941 AAAGAAGCTCCCACGTGGACATGCTTTTCCTACAGTAGCTCCTGAAAAAATAATTTTGAGTTGAC
1 AAAGAAGCTCCCACGTGGACA-GCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCAAGTTGAC
* * *
20320006 GTTTCTGAACAAATAGTGTCAAAAACGCTTT-AGTTAGGATGCTTTGTTAGCAAAAGTATTG
65 GTTTCTGAACAAATAGTGTCAAAAACGCTTTAAG-CAGGATGCTTTGTCAGCAAAAGTACTG
* * *
20320067 AAAGAAGCTCCCACGTGGACGAGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCGAGTAGAT
1 AAAGAAGCTCCCACGTGGAC-AGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCAAGTTGAC
* * * *
20320132 GTTTTTGAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTATTG
65 GTTTCTGAACAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTG
20320193 AAAGAAGCTCCCACGTGGACGAGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCAAGTAT-A
1 AAAGAAGCTCCCACGTGGAC-AGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCAAGT-TGA
20320257 CGTTTCTGAGA-AAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTG
64 CGTTTCTGA-ACAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTG
20320319 AAAGAAGCTCCCACGTGGAC-GCGTTTTTGCTACAGTAGCT
1 AAAGAAGCTCCCACGTGGACAGC--TTTTGCTACAGTAGCT
20320359 TCTGTTAGGC
Statistics
Matches: 385, Mismatches: 25, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
124 2 0.01
126 378 0.98
127 3 0.01
128 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (125 bp):
AAAGAAGCTCCCACGTGGACAGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCAAGTTGACG
TTTCTGAACAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTG
Found at i:20323476 original size:33 final size:32
Alignment explanation
Indices: 20323437--20323535 Score: 107
Period size: 28 Copynumber: 3.2 Consensus size: 32
20323427 TATAATCTAT
* *
20323437 TAAAAATATTAAAGTAAATTACAATTGGTACA
1 TAAAAATGTAAAAGTAAATTACAATTGGTACA
* * * *
20323469 TAGAAAATGTAAAAG--AATTTCTATT-ATA-T
1 TA-AAAATGTAAAAGTAAATTACAATTGGTACA
20323498 TAAAAATGTAAAAGTAAATTACAATTGGTACA
1 TAAAAATGTAAAAGTAAATTACAATTGGTACA
20323530 TAAAAA
1 TAAAAA
20323536 ATCTAATCTA
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
28 12 0.23
29 2 0.04
30 10 0.19
31 10 0.19
32 8 0.15
33 10 0.19
ACGTcount: A:0.54, C:0.05, G:0.10, T:0.31
Consensus pattern (32 bp):
TAAAAATGTAAAAGTAAATTACAATTGGTACA
Found at i:20323476 original size:49 final size:50
Alignment explanation
Indices: 20323421--20323556 Score: 121
Period size: 61 Copynumber: 2.5 Consensus size: 50
20323411 CTTATTTAAA
20323421 AGAAAATATAATCTATTAAAAATATT-AAAGTAAATTACAATTGGTACAT
1 AGAAAATATAATCTATTAAAAATATTAAAAGTAAATTACAATTGGTACAT
* *
20323470 AGAAAATGTAAAAGAATTTCTATTATATTAAAAATGTAAAAGTAAATTACAATTGGTACAT
1 AGAAAA--T---ATAA--TCTATTA-A--AAATAT-TAAAAGTAAATTACAATTGGTACAT
* * *
20323531 AAAAAATCTAATCTATTAAACATATT
1 AGAAAATATAATCTATTAAAAATATT
20323557 GCCTTATTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 23
0.69 0.07 0.23
Matches are distributed among these distances:
49 6 0.09
50 1 0.01
51 5 0.07
53 1 0.01
54 10 0.15
56 9 0.13
57 1 0.01
59 6 0.09
60 1 0.01
61 28 0.41
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.33
Consensus pattern (50 bp):
AGAAAATATAATCTATTAAAAATATTAAAAGTAAATTACAATTGGTACAT
Found at i:20323483 original size:61 final size:61
Alignment explanation
Indices: 20323417--20323537 Score: 170
Period size: 61 Copynumber: 2.0 Consensus size: 61
20323407 TTGACTTATT
* * *
20323417 TAAAAGAAAATATAATCTATTAAAAATATTAAAGTAAATTACAATTGGTACATAGAAAATG
1 TAAAAGAAAATATAATATATTAAAAATATAAAAGTAAATTACAATTGGTACATAAAAAATG
** * * *
20323478 TAAAAGAATTTCTATTATATTAAAAATGTAAAAGTAAATTACAATTGGTACATAAAAAAT
1 TAAAAGAAAATATAATATATTAAAAATATAAAAGTAAATTACAATTGGTACATAAAAAAT
20323538 CTAATCTATT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.31
Consensus pattern (61 bp):
TAAAAGAAAATATAATATATTAAAAATATAAAAGTAAATTACAATTGGTACATAAAAAATG
Found at i:20323537 original size:33 final size:33
Alignment explanation
Indices: 20323438--20323537 Score: 102
Period size: 33 Copynumber: 3.2 Consensus size: 33
20323428 ATAATCTATT
* *
20323438 AAAAATATTAAAGTAAATTACAATTGGTACATA
1 AAAAATGTAAAAGTAAATTACAATTGGTACATA
* * * * *
20323471 GAAAATGTAAAAG--AATTTCTA-T--TATATT
1 AAAAATGTAAAAGTAAATTACAATTGGTACATA
20323499 AAAAATGTAAAAGTAAATTACAATTGGTACATA
1 AAAAATGTAAAAGTAAATTACAATTGGTACATA
20323532 AAAAAT
1 AAAAAT
20323538 CTAATCTATT
Statistics
Matches: 50, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
28 16 0.32
30 7 0.14
31 7 0.14
33 20 0.40
ACGTcount: A:0.54, C:0.05, G:0.10, T:0.31
Consensus pattern (33 bp):
AAAAATGTAAAAGTAAATTACAATTGGTACATA
Found at i:20324116 original size:18 final size:18
Alignment explanation
Indices: 20324090--20324132 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
20324080 ACTAGAAAAA
*
20324090 AGGAAACATATAAA-GGCT
1 AGGATACATA-AAAGGGCT
20324108 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
20324126 AGGATAC
1 AGGATAC
20324133 GCACCGGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.47, C:0.12, G:0.26, T:0.16
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:20324785 original size:7 final size:7
Alignment explanation
Indices: 20324773--20324804 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
20324763 TTAATTATAT
20324773 ATACTAA
1 ATACTAA
20324780 ATACTAA
1 ATACTAA
20324787 ATACTAA
1 ATACTAA
20324794 ATACTAA
1 ATACTAA
20324801 ATAC
1 ATAC
20324805 CAATCGACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACTAA
Found at i:20326339 original size:43 final size:43
Alignment explanation
Indices: 20326291--20326531 Score: 246
Period size: 43 Copynumber: 5.7 Consensus size: 43
20326281 CTTTGAATGT
*
20326291 AAGG-GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTG
1 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTATG
* *
20326333 AAAGG-GGTTGCTATGTGCTGATTCC-CCGTATCATTGATTAT-
1 -AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTATG
* * * * *
20326374 AAGGTGGTTGTTAAGTGTTGATTCTACCGTATCCTTAATTGTG
1 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTATG
* * *
20326417 AAAGG-GGTTGCTATGTGTTGATTCC-CCGTATCATTGATTAT-
1 -AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTATG
* * * **
20326458 AAGGTGGTTGCTAAGTGTTGATTCTACCGGGATCCTTTGAACATG
1 AAGGTGGTTGCTAAGTGCTGATTCCACC-GTATCC-TTGATTATG
20326503 -AGGTGGTTGCTAAGTGCTGATTCCACCGT
1 AAGGTGGTTGCTAAGTGCTGATTCCACCGT
20326532 GTAACGGTTA
Statistics
Matches: 164, Mismatches: 25, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
40 8 0.05
41 34 0.21
42 42 0.26
43 45 0.27
44 35 0.21
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.36
Consensus pattern (43 bp):
AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTATG
Found at i:20326396 original size:41 final size:40
Alignment explanation
Indices: 20326290--20326481 Score: 213
Period size: 42 Copynumber: 4.6 Consensus size: 40
20326280 TCTTTGAATG
* * *
20326290 TAAGGGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTG
1 TAAGGGGTTGCTAAGTGTTGATTCC-CCGTATCATTGATTA
* *
20326331 TGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTA
1 T--AAGGGGTTGCTAAGTGTTGATTCCCCGTATCATTGATTA
* * * * *
20326373 TAAGGTGGTTGTTAAGTGTTGATTCTACCGTATCCTTAATTG
1 TAAGG-GGTTGCTAAGTGTTGATTC-CCCGTATCATTGATTA
*
20326415 TGAAAGGGGTTGCTATGTGTTGATTCCCCGTATCATTGATTA
1 T--AAGGGGTTGCTAAGTGTTGATTCCCCGTATCATTGATTA
20326457 TAAGGTGGTTGCTAAGTGTTGATTC
1 TAAGG-GGTTGCTAAGTGTTGATTC
20326482 TACCGGGATC
Statistics
Matches: 127, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
40 8 0.06
41 35 0.28
42 40 0.31
43 40 0.31
44 4 0.03
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.38
Consensus pattern (40 bp):
TAAGGGGTTGCTAAGTGTTGATTCCCCGTATCATTGATTA
Found at i:20326439 original size:84 final size:84
Alignment explanation
Indices: 20326290--20326486 Score: 342
Period size: 84 Copynumber: 2.4 Consensus size: 84
20326280 TCTTTGAATG
* * *
20326290 TAAGG-GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGA
1 TAAGGTGGTTGCTAAGTGTTGATTCTACCGTATCCTTAATTGTGAAAGGGGTTGCTATGTGCTGA
20326354 TTCCCCGTATCATTGATTA
66 TTCCCCGTATCATTGATTA
* *
20326373 TAAGGTGGTTGTTAAGTGTTGATTCTACCGTATCCTTAATTGTGAAAGGGGTTGCTATGTGTTGA
1 TAAGGTGGTTGCTAAGTGTTGATTCTACCGTATCCTTAATTGTGAAAGGGGTTGCTATGTGCTGA
20326438 TTCCCCGTATCATTGATTA
66 TTCCCCGTATCATTGATTA
20326457 TAAGGTGGTTGCTAAGTGTTGATTCTACCG
1 TAAGGTGGTTGCTAAGTGTTGATTCTACCG
20326487 GGATCCTTTG
Statistics
Matches: 107, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
83 5 0.05
84 102 0.95
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (84 bp):
TAAGGTGGTTGCTAAGTGTTGATTCTACCGTATCCTTAATTGTGAAAGGGGTTGCTATGTGCTGA
TTCCCCGTATCATTGATTA
Found at i:20329024 original size:29 final size:29
Alignment explanation
Indices: 20328987--20329043 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
20328977 TCAAAAAAAT
*
20328987 AAAATTTAAAACTTTTTTAAAAATAATTA
1 AAAAATTAAAACTTTTTTAAAAATAATTA
*
20329016 AAAAATTAAACCTTTTTTAAAAATAATT
1 AAAAATTAAAACTTTTTTAAAAATAATT
20329044 TGAGAGGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.40
Consensus pattern (29 bp):
AAAAATTAAAACTTTTTTAAAAATAATTA
Found at i:20329082 original size:10 final size:10
Alignment explanation
Indices: 20329040--20329084 Score: 54
Period size: 11 Copynumber: 4.2 Consensus size: 10
20329030 TTTTAAAAAT
20329040 AATTTGAGAGG
1 AATTTGAGA-G
20329051 AATTTGAGAG
1 AATTTGAGAG
*
20329061 AATATTAAAGAG
1 AAT-TT-GAGAG
20329073 AATTTGAGAG
1 AATTTGAGAG
20329083 AA
1 AA
20329085 ATGATTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
10 10 0.33
11 13 0.43
12 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.27, T:0.27
Consensus pattern (10 bp):
AATTTGAGAG
Found at i:20330803 original size:15 final size:15
Alignment explanation
Indices: 20330785--20330816 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20330775 AAATGTCGCG
20330785 ATAACAAATACAACA
1 ATAACAAATACAACA
*
20330800 ATAATAAATACAACA
1 ATAACAAATACAACA
20330815 AT
1 AT
20330817 GACATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.16, G:0.00, T:0.19
Consensus pattern (15 bp):
ATAACAAATACAACA
Found at i:20330842 original size:13 final size:14
Alignment explanation
Indices: 20330824--20330860 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
20330814 AATGACATAA
20330824 AAATAATATAAAC-
1 AAATAATATAAACG
20330837 AAATAA-ATAAACG
1 AAATAATATAAACG
20330850 AAACTAATATA
1 AAA-TAATATA
20330861 CATAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.68, C:0.08, G:0.03, T:0.22
Consensus pattern (14 bp):
AAATAATATAAACG
Found at i:20331390 original size:21 final size:22
Alignment explanation
Indices: 20331334--20331391 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
20331324 AATAAAAACA
20331334 AAAACATATGTATAAAATATAT
1 AAAACATATGTATAAAATATAT
* * **
20331356 ATAAGCATACGTATACTATATAT
1 A-AAACATATGTATAAAATATAT
20331379 AAAACA-ATGTATA
1 AAAACATATGTATA
20331392 TATTACATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 6 0.21
22 5 0.17
23 18 0.62
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.31
Consensus pattern (22 bp):
AAAACATATGTATAAAATATAT
Found at i:20332869 original size:27 final size:26
Alignment explanation
Indices: 20332825--20332875 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
20332815 AATACTCATA
*
20332825 TTTATATAATTGAAATAT-TCATATT
1 TTTATATAATTAAAATATGTCATATT
20332850 TTTATACTAGATTAAAATATGTCATA
1 TTTATA-TA-ATTAAAATATGTCATA
20332876 AGTCATTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 2 0.09
27 9 0.41
28 5 0.23
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (26 bp):
TTTATATAATTAAAATATGTCATATT
Found at i:20337400 original size:108 final size:108
Alignment explanation
Indices: 20337205--20337406 Score: 246
Period size: 108 Copynumber: 1.9 Consensus size: 108
20337195 TCATATGGAA
* * * * *
20337205 ATCCCATGTTTGTTGCAGTTCCATTCACATGGAAATTCTGTTGCTGCTGAAATTGAGTAGTCCAA
1 ATCCCACGTTTGCTGCAGTTCCATTCACATGGAAATTCTGCTGCTGCTGAAATTGAGGAGTCAAA
* *
20337270 GGATCGGTTTGTCCAGTCAAACCATGTGTGTCATATCCAGGTG
66 GGATCGGTTTGACCAGCCAAACCATGTGTGTCATATCCAGGTG
* * * * *
20337313 ATCCCACGTTTGCTGCATTTCCATTCGCGT-GAAAGTTCTGCTGGTGCTGAATTTGAGGAGTCAA
1 ATCCCACGTTTGCTGCAGTTCCATTCACATGGAAA-TTCTGCTGCTGCTGAAATTGAGGAGTCAA
* *
20337377 AGGATTGGTTTGACCA-CCAAAACCTTGTGT
65 AGGATCGGTTTGACCAGCC-AAACCATGTGT
20337407 TCTTGAAGAA
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
107 5 0.06
108 73 0.94
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (108 bp):
ATCCCACGTTTGCTGCAGTTCCATTCACATGGAAATTCTGCTGCTGCTGAAATTGAGGAGTCAAA
GGATCGGTTTGACCAGCCAAACCATGTGTGTCATATCCAGGTG
Found at i:20338957 original size:20 final size:20
Alignment explanation
Indices: 20338932--20338981 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
20338922 TGGCTTAAAA
20338932 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
20338952 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
20338969 GTGGTAGTGGATT
1 TTGGTAGTGGATT
20338982 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:20343594 original size:20 final size:20
Alignment explanation
Indices: 20343569--20343618 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
20343559 TGGCTTAAAA
20343569 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
20343589 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
20343606 GTGGTAGTGGATT
1 TTGGTAGTGGATT
20343619 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:20351492 original size:100 final size:100
Alignment explanation
Indices: 20351317--20351518 Score: 377
Period size: 100 Copynumber: 2.0 Consensus size: 100
20351307 ATACATGAGT
20351317 ATCTCATATTACTTATATATATGGTTTTAATGTAAAACACATGAAAGTTTTATTCAACATATATC
1 ATCTCATATTACTTATATATATGGTTTTAATGTAAAACACATGAAAGTTTTATTCAACATATATC
* *
20351382 TTCTTGATCTGAAAAACAATATTATATTTTACGAA
66 TTATTAATCTGAAAAACAATATTATATTTTACGAA
*
20351417 ATCTCATATTATTTATATATATGGTTTTAATGTAAAACACATGAAAGTTTTATTCAACATATATC
1 ATCTCATATTACTTATATATATGGTTTTAATGTAAAACACATGAAAGTTTTATTCAACATATATC
20351482 TTATTAATCTGAAAAACAATATTATATTTTACGAA
66 TTATTAATCTGAAAAACAATATTATATTTTACGAA
20351517 AT
1 AT
20351519 TTTGCATCAC
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (100 bp):
ATCTCATATTACTTATATATATGGTTTTAATGTAAAACACATGAAAGTTTTATTCAACATATATC
TTATTAATCTGAAAAACAATATTATATTTTACGAA
Found at i:20352847 original size:16 final size:16
Alignment explanation
Indices: 20352790--20352863 Score: 62
Period size: 16 Copynumber: 4.8 Consensus size: 16
20352780 ATTTTTCGGA
20352790 TTAAATTATTTT-AA-
1 TTAAATTATTTTGAAT
*
20352804 TTGAATTATTTTGAAT
1 TTAAATTATTTTGAAT
* * **
20352820 TTAGATTTTTTTGGGT
1 TTAAATTATTTTGAAT
* *
20352836 TTAAATTATTTTAAAC
1 TTAAATTATTTTGAAT
*
20352852 TCAAATTATTTT
1 TTAAATTATTTT
20352864 TAAATTTGAA
Statistics
Matches: 45, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
14 11 0.24
15 2 0.04
16 32 0.71
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.57
Consensus pattern (16 bp):
TTAAATTATTTTGAAT
Found at i:20353205 original size:16 final size:16
Alignment explanation
Indices: 20353184--20353226 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
20353174 CAAATGACTC
20353184 AAACCCAAAACAATTA
1 AAACCCAAAACAATTA
* * *
20353200 AAACCCGAAATAATTT
1 AAACCCAAAACAATTA
*
20353216 AAACTCAAAAC
1 AAACCCAAAAC
20353227 CACCTTAACA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.58, C:0.23, G:0.02, T:0.16
Consensus pattern (16 bp):
AAACCCAAAACAATTA
Found at i:20353396 original size:9 final size:9
Alignment explanation
Indices: 20353382--20353411 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
20353372 TCTATCTTCC
20353382 AAAAAATAA
1 AAAAAATAA
20353391 AAAAAATAAA
1 AAAAAAT-AA
20353401 AAAAAATAA
1 AAAAAATAA
20353410 AA
1 AA
20353412 CACAGGTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAATAA
Found at i:20353402 original size:10 final size:10
Alignment explanation
Indices: 20353382--20353411 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
20353372 TCTATCTTCC
20353382 AAAAAAT-AA
1 AAAAAATAAA
20353391 AAAAAATAAA
1 AAAAAATAAA
20353401 AAAAAATAAA
1 AAAAAATAAA
20353411 A
1 A
20353412 CACAGGTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.35
10 13 0.65
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:20360501 original size:12 final size:11
Alignment explanation
Indices: 20360475--20360503 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
20360465 TATATTTTAA
20360475 TTTTTATGAAC
1 TTTTTATGAAC
20360486 TTTTTATGAAC
1 TTTTTATGAAC
20360497 TTTTTAT
1 TTTTTAT
20360504 ATAATTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.62
Consensus pattern (11 bp):
TTTTTATGAAC
Found at i:20370532 original size:31 final size:32
Alignment explanation
Indices: 20370487--20370549 Score: 110
Period size: 31 Copynumber: 2.0 Consensus size: 32
20370477 AGATAATTTT
20370487 AAAGAGTTTTTATTAAGATTCAATTACTCTTG
1 AAAGAGTTTTTATTAAGATTCAATTACTCTTG
*
20370519 AAAGAG-TTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTTATTAAGATTCAATTACTCTTG
20370550 TAATTTGCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 24 0.80
32 6 0.20
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (32 bp):
AAAGAGTTTTTATTAAGATTCAATTACTCTTG
Found at i:20371074 original size:12 final size:11
Alignment explanation
Indices: 20371057--20371107 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
20371047 CTCTTATTCT
20371057 TAAAAAATACCG
1 TAAAAAA-ACCG
20371069 TAAAAAAACCG
1 TAAAAAAACCG
*
20371080 T--AAAAAGCG
1 TAAAAAAACCG
*
20371089 TAAAATAACCG
1 TAAAAAAACCG
*
20371100 CAAAAAAA
1 TAAAAAAA
20371108 AGTTGCCTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
9 8 0.25
11 17 0.53
12 7 0.22
ACGTcount: A:0.63, C:0.16, G:0.10, T:0.12
Consensus pattern (11 bp):
TAAAAAAACCG
Found at i:20371092 original size:20 final size:20
Alignment explanation
Indices: 20371067--20371105 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20371057 TAAAAAATAC
*
20371067 CGTAAAAAAACCGTAAAAAG
1 CGTAAAAAAACCGCAAAAAG
*
20371087 CGTAAAATAACCGCAAAAA
1 CGTAAAAAAACCGCAAAAA
20371106 AAAGTTGCCT
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:0.59, C:0.18, G:0.13, T:0.10
Consensus pattern (20 bp):
CGTAAAAAAACCGCAAAAAG
Found at i:20376668 original size:31 final size:31
Alignment explanation
Indices: 20376619--20376681 Score: 110
Period size: 31 Copynumber: 2.0 Consensus size: 31
20376609 TATTAGATAA
20376619 TTTTAAAGAGTTTTTATTAGGATTCAATTAC
1 TTTTAAAGAGTTTTTATTAGGATTCAATTAC
20376650 TTTTGAAAGAG-TTTTATTAGGATTCAATTAC
1 TTTT-AAAGAGTTTTTATTAGGATTCAATTAC
20376681 T
1 T
20376682 CTTGTAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 25 0.81
32 6 0.19
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.48
Consensus pattern (31 bp):
TTTTAAAGAGTTTTTATTAGGATTCAATTAC
Found at i:20379723 original size:24 final size:24
Alignment explanation
Indices: 20379667--20379727 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
20379657 ATATAACAGA
* *
20379667 ATCAAATTCAGAACATGTCTCAAT
1 ATCAAAATCAGAACATATCTCAAT
* *
20379691 ATCAGAATCAGAACATATGTC-AT
1 ATCAAAATCAGAACATATCTCAAT
20379714 AGTCAAAATCAGAA
1 A-TCAAAATCAGAA
20379728 TTAAAACATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 3 0.10
24 28 0.90
ACGTcount: A:0.46, C:0.18, G:0.11, T:0.25
Consensus pattern (24 bp):
ATCAAAATCAGAACATATCTCAAT
Found at i:20383055 original size:42 final size:42
Alignment explanation
Indices: 20382983--20383099 Score: 150
Period size: 40 Copynumber: 2.8 Consensus size: 42
20382973 CCGGGATTCT
* *
20382983 TTAAATGTAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCC
1 TTAATTGTAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCA
* *
20383025 TTAATTGTGAAGG-GGTTGCTATGTGCTGATT-C-CTGTATCA
1 TTAATTGT-AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCA
* *
20383065 TTGATTATAAGGTGGTTGCTAAGTGCTGATTCCAC
1 TTAATTGTAAGGTGGTTGCTAAGTGCTGATTCCAC
20383100 TGGGATCCTT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
39 4 0.06
40 29 0.45
41 2 0.03
42 25 0.39
43 4 0.06
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (42 bp):
TTAATTGTAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCA
Found at i:20383128 original size:44 final size:42
Alignment explanation
Indices: 20382992--20383143 Score: 159
Period size: 44 Copynumber: 3.6 Consensus size: 42
20382982 TTTAAATGTA
* *
20382992 AGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTT-AATTGTG
1 AGGTGGTTGCTAAGTGCTGATTCCACTGTATCCTTGAA-TATG
* * * *
20383034 AAGG-GGTTGCTATGTGCTGATT-C-CTGTATCATTGATTATA
1 -AGGTGGTTGCTAAGTGCTGATTCCACTGTATCCTTGAATATG
* *
20383074 AGGTGGTTGCTAAGTGCTGATTCCACTGGGATCCTTTGAACATG
1 AGGTGGTTGCTAAGTGCTGATTCCACT-GTATCC-TTGAATATG
*
20383118 AGGTGGTTGCTAAGTGTTGATTCCAC
1 AGGTGGTTGCTAAGTGCTGATTCCAC
20383144 CGTGTAATGG
Statistics
Matches: 90, Mismatches: 13, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
39 3 0.03
40 27 0.30
41 3 0.03
42 19 0.21
43 7 0.08
44 31 0.34
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (42 bp):
AGGTGGTTGCTAAGTGCTGATTCCACTGTATCCTTGAATATG
Found at i:20390418 original size:28 final size:28
Alignment explanation
Indices: 20390386--20390487 Score: 107
Period size: 28 Copynumber: 3.5 Consensus size: 28
20390376 TGATTATGCA
20390386 TATATAATATATATGCATGGATTTATTT
1 TATATAATATATATGCATGGATTTATTT
** *
20390414 TATATAATATATATTAATGGATTTTGATGT
1 TATATAATATATATGCATGGA-TTT-ATTT
*
20390444 TATATATATAATATATGCATGG-TTCTATTG
1 TATATA-AT-ATATATGCATGGATT-TATTT
*
20390474 TATACAATATATAT
1 TATATAATATATAT
20390488 AATTATGGGT
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
28 25 0.41
29 5 0.08
30 18 0.30
31 3 0.05
32 10 0.16
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (28 bp):
TATATAATATATATGCATGGATTTATTT
Found at i:20399906 original size:22 final size:22
Alignment explanation
Indices: 20399848--20399906 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
20399838 TATATTAAAT
*
20399848 ATGTGATAAATATG-TTTGTGA
1 ATGTGATAAATATGAATTGTGA
*
20399869 ATTGTGATAAA-GTGAATTGTG-
1 A-TGTGATAAATATGAATTGTGA
20399890 ATGTGATGAAATATGAA
1 ATGTGAT-AAATATGAA
20399907 CATGTTGTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 6 0.19
21 7 0.23
22 18 0.58
ACGTcount: A:0.37, C:0.00, G:0.25, T:0.37
Consensus pattern (22 bp):
ATGTGATAAATATGAATTGTGA
Found at i:20404420 original size:35 final size:35
Alignment explanation
Indices: 20404381--20404517 Score: 157
Period size: 35 Copynumber: 3.9 Consensus size: 35
20404371 CTCTTTGGAG
** *
20404381 TGACACCGTGTAAGTGATATACAGGCTCTTCATAA
1 TGACACCGTGTAAACGATATACAGGCTCTTCAAAA
* * * * ** *
20404416 TGACACCGTGTAAATGGTATATATGCTCTTCGGAG
1 TGACACCGTGTAAACGATATACAGGCTCTTCAAAA
20404451 TGACACCGTGTAAACGATATACAGGCTCTTCAAAA
1 TGACACCGTGTAAACGATATACAGGCTCTTCAAAA
* * *
20404486 CGACACCGTGTAAACCATATACATGCTCTTCA
1 TGACACCGTGTAAACGATATACAGGCTCTTCA
20404518 GAGTGAAACC
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 85 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (35 bp):
TGACACCGTGTAAACGATATACAGGCTCTTCAAAA
Found at i:20404453 original size:70 final size:70
Alignment explanation
Indices: 20404370--20404523 Score: 218
Period size: 70 Copynumber: 2.2 Consensus size: 70
20404360 TTATCTATTG
* ** * * ***
20404370 GCTCTTTGGAGTGACACCGTGTAAGTGATATACAGGCTCTTCATAATGACACCGTGTAAATGGTA
1 GCTCTTCGGAGTGACACCGTGTAAACGATATACAGGCTCTTCAAAACGACACCGTGTAAACCATA
*
20404435 TATAT
66 TACAT
20404440 GCTCTTCGGAGTGACACCGTGTAAACGATATACAGGCTCTTCAAAACGACACCGTGTAAACCATA
1 GCTCTTCGGAGTGACACCGTGTAAACGATATACAGGCTCTTCAAAACGACACCGTGTAAACCATA
20404505 TACAT
66 TACAT
*
20404510 GCTCTTCAGAGTGA
1 GCTCTTCGGAGTGA
20404524 AACCTTGCAA
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
70 74 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (70 bp):
GCTCTTCGGAGTGACACCGTGTAAACGATATACAGGCTCTTCAAAACGACACCGTGTAAACCATA
TACAT
Found at i:20411608 original size:12 final size:13
Alignment explanation
Indices: 20411585--20411614 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
20411575 ACTTAGTTAT
20411585 TTTTAGGGTTTTA
1 TTTTAGGGTTTTA
20411598 TTTTA-GGTTTTA
1 TTTTAGGGTTTTA
20411610 TTTTA
1 TTTTA
20411615 TTTCAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.67
Consensus pattern (13 bp):
TTTTAGGGTTTTA
Found at i:20414094 original size:4 final size:4
Alignment explanation
Indices: 20414085--20414114 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
20414075 TCCAAATAGG
*
20414085 AAGA AAGA AAGA AAAA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
20414115 AATTTTCTCT
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:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:20414106 original size:16 final size:16
Alignment explanation
Indices: 20414085--20414116 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
20414075 TCCAAATAGG
20414085 AAGAAAGAAAGAAAAA
1 AAGAAAGAAAGAAAAA
20414101 AAGAAAGAAAGAAAAA
1 AAGAAAGAAAGAAAAA
20414117 TTTTCTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAGAAAGAAAGAAAAA
Found at i:20415720 original size:19 final size:19
Alignment explanation
Indices: 20415696--20415740 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
20415686 TGTTTCCTTA
*
20415696 AAGTATTTGTAC-TTCGCTT
1 AAGTATCTGTACATT-GCTT
20415715 AAGTATCTGTACATTGCTT
1 AAGTATCTGTACATTGCTT
20415734 AAGTATC
1 AAGTATC
20415741 GATACTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 22 0.92
20 2 0.08
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (19 bp):
AAGTATCTGTACATTGCTT
Found at i:20416580 original size:15 final size:17
Alignment explanation
Indices: 20416550--20416597 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
20416540 GTAATTTAGA
20416550 ATTTTATCTCATTCACT
1 ATTTTATCTCATTCACT
20416567 -TTTTATCTCA-TCACT
1 ATTTTATCTCATTCACT
*
20416582 ATTTCATCTCACTTCA
1 ATTTTATCTCA-TTCA
20416598 TTTATATTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 5 0.19
16 19 0.70
18 3 0.11
ACGTcount: A:0.23, C:0.27, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTTATCTCATTCACT
Found at i:20422940 original size:16 final size:16
Alignment explanation
Indices: 20422919--20422955 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
20422909 TTGGTTCGTT
20422919 GTAATGGAATAAAGGC
1 GTAATGGAATAAAGGC
*
20422935 GTAATGGAATAGAGGC
1 GTAATGGAATAAAGGC
20422951 GTAAT
1 GTAAT
20422956 AATAATTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.32, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAAAGGC
Found at i:20423001 original size:45 final size:45
Alignment explanation
Indices: 20422935--20423031 Score: 126
Period size: 45 Copynumber: 2.1 Consensus size: 45
20422925 GAATAAAGGC
*
20422935 GTAATGGAATAGAGGCGTAATAATAATTC-A-ATTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCATAATAAT-ATTCTATATT-TTTGGTTGAAT
*
20422980 GTAATGGAATAGAGGCATAATAGTATTCTTATATTTTTGGTTGAAT
1 GTAATGGAATAGAGGCATAATAATATTC-TATATTTTTGGTTGAAT
*
20423026 ATAATG
1 GTAATG
20423032 ATGTTGTAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
44 4 0.09
45 22 0.48
46 17 0.37
47 3 0.07
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.38
Consensus pattern (45 bp):
GTAATGGAATAGAGGCATAATAATATTCTATATTTTTGGTTGAAT
Found at i:20423232 original size:24 final size:23
Alignment explanation
Indices: 20423205--20423260 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
20423195 ATTTAATAAA
*
20423205 AATATATAATTTAATAAAATTCTT
1 AATATATAATTTAATAAAA-TCAT
* *
20423229 AATAT-TAAATTACTAAAATCAT
1 AATATATAATTTAATAAAATCAT
20423251 AATATATAAT
1 AATATATAAT
20423261 ACTATAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 8 0.30
23 14 0.52
24 5 0.19
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (23 bp):
AATATATAATTTAATAAAATCAT
Found at i:20423291 original size:105 final size:111
Alignment explanation
Indices: 20423249--20423597 Score: 439
Period size: 119 Copynumber: 2.9 Consensus size: 111
20423239 TACTAAAATC
20423249 ATAATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAAAAA
1 ATAA-ATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAAT-AAAAAA
* *
20423314 TATAATTTAATAAAATTCCTAATATTAAAAATTCTTATATGAATTTACTAAAATC
64 TATAATTTAATAAAATTCTTAATATT--AAATTCTTATA-GAA-TTAC---AATA
20423369 ATAATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAAAAT
1 ATAA-ATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAAAAT
*
20423434 ATAATTTAATAAAATTCTTAATATTAAATATTCTGATATA-AATTTACTAAAATC
65 ATAATTTAATAAAATTCTTAATATT-AA-ATTCT--TATAGAA-TTAC---AATA
*
20423488 ATAATATATAATGCTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATA
1 ATAA-ATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAAA-A
*
20423553 TATAATTTAATGAAATTCTTAATATTAAATATTCTTATATGAATT
64 TATAATTTAATAAAATTCTTAATATT-AA-ATTCTTATA-GAATT
20423598 TACTAAAATC
Statistics
Matches: 220, Mismatches: 3, Indels: 13
0.93 0.01 0.06
Matches are distributed among these distances:
118 7 0.03
119 114 0.52
120 95 0.43
121 4 0.02
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (111 bp):
ATAAATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAAAATA
TAATTTAATAAAATTCTTAATATTAAATTCTTATAGAATTACAATA
Found at i:20423316 original size:18 final size:18
Alignment explanation
Indices: 20423293--20423328 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
20423283 AATTATTATT
20423293 AAATATAATTTAATAAAA
1 AAATATAATTTAATAAAA
20423311 AAATATAATTTAATAAAA
1 AAATATAATTTAATAAAA
20423329 TTCCTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATATAATTTAATAAAA
Found at i:20423369 original size:120 final size:120
Alignment explanation
Indices: 20423188--20423628 Score: 715
Period size: 120 Copynumber: 3.7 Consensus size: 120
20423178 AATTATTATT
* * * *
20423188 AAATATAATTTAATAAAAATATATAAT-TTAATAAAATTCTTAATATTAAATTACTAAAATCATA
1 AAATATAATTTAATAAAATTCT-TAATATT-A-AAAATTCTT-ATATGAATTTACTAAAATCATA
20423252 ATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAA
62 ATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAA
*
20423311 AAATATAATTTAATAAAATTCCTAATATTAAAAATTCTTATATGAATTTACTAAAATCATAATAT
1 AAATATAATTTAATAAAATTCTTAATATTAAAAATTCTTATATGAATTTACTAAAATCATAATAT
20423376 ATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAAT-AAA
66 ATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAA
* * *
20423430 AAATATAATTTAATAAAATTCTTAATATTAAATATTCTGATATAAATTTACTAAAATCATAATAT
1 AAATATAATTTAATAAAATTCTTAATATTAAAAATTCTTATATGAATTTACTAAAATCATAATAT
*
20423495 ATAATGCTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAA
66 ATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAA
* * *
20423550 ATATATAATTTAATGAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATAT
1 AAATATAATTTAATAAAATTCTTAATATTAAAAATTCTTATATGAATTTACTAAAATCATAATAT
*
20423615 ATAATGCTATAAAA
66 ATAATACTATAAAA
20423629 ATATTGTATA
Statistics
Matches: 302, Mismatches: 14, Indels: 7
0.93 0.04 0.02
Matches are distributed among these distances:
119 114 0.38
120 153 0.51
121 9 0.03
122 5 0.02
123 21 0.07
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (120 bp):
AAATATAATTTAATAAAATTCTTAATATTAAAAATTCTTATATGAATTTACTAAAATCATAATAT
ATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAA
Found at i:20423435 original size:17 final size:17
Alignment explanation
Indices: 20423413--20423447 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
20423403 AATTATTATT
20423413 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
20423430 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
20423447 A
1 A
20423448 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:20423610 original size:239 final size:242
Alignment explanation
Indices: 20423188--20423628 Score: 739
Period size: 239 Copynumber: 1.8 Consensus size: 242
20423178 AATTATTATT
20423188 AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATTACTAAAATCATAA
1 AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATTACTAAAATCATAA
20423253 TATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAAAAATATA
66 TATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAAAAATATA
20423318 ATTTAATAAAATTCCTAATATTAAAAATTCTTATATGAATTTACTAAAATCATAATATATAATAC
131 ATTTAATAAAATTCCTAATATTAAAAATTCTTATATGAATTTACTAAAATCATAATATATAATAC
20423383 TATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAA
196 TATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAA
* * * *
20423430 AAATATAATTTAATAAAATTCT-TAATATT-A-AATATTC-TGATA-TAAATTTACTAAAATCAT
1 AAATATAATTTAATAAAAATATATAAT-TTAATAAAATTCTTAATATTAAA-TTACTAAAATCAT
* *
20423490 AATATATAATGCTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATA
64 AATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAAAAATA
* * *
20423555 TAATTTAATGAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAAT
129 TAATTTAATAAAATTCCTAATATTAAAAATTCTTATATGAATTTACTAAAATCATAATATATAAT
*
20423620 GCTATAAAA
194 ACTATAAAA
20423629 ATATTGTATA
Statistics
Matches: 187, Mismatches: 10, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
238 4 0.02
239 150 0.80
240 6 0.03
241 5 0.03
242 22 0.12
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (242 bp):
AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATTACTAAAATCATAA
TATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAAAAATATA
ATTTAATAAAATTCCTAATATTAAAAATTCTTATATGAATTTACTAAAATCATAATATATAATAC
TATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAA
Found at i:20425955 original size:13 final size:13
Alignment explanation
Indices: 20425937--20425966 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
20425927 CCAAGGGGTT
*
20425937 AACAAGGAAATCA
1 AACAAGAAAATCA
20425950 AACAAGAAAATCA
1 AACAAGAAAATCA
20425963 AACA
1 AACA
20425967 TGCAATACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.17, G:0.10, T:0.07
Consensus pattern (13 bp):
AACAAGAAAATCA
Found at i:20430183 original size:30 final size:31
Alignment explanation
Indices: 20430149--20430208 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
20430139 AAACCTTTTA
*
20430149 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
** *
20430179 TTTTCCCTTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
20430209 TCCCACCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:20430331 original size:21 final size:21
Alignment explanation
Indices: 20430302--20430341 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
20430292 TCCCTCAAAC
20430302 TTTTGCTCCCCATAACTTTTTA
1 TTTTGCTCCCCA-AACTTTTTA
*
20430324 TTTT-CTCCCTAAACTTTT
1 TTTTGCTCCCCAAACTTTT
20430342 ACTTCTCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 6 0.35
22 4 0.24
ACGTcount: A:0.17, C:0.28, G:0.03, T:0.53
Consensus pattern (21 bp):
TTTTGCTCCCCAAACTTTTTA
Found at i:20430374 original size:54 final size:54
Alignment explanation
Indices: 20430316--20430422 Score: 214
Period size: 54 Copynumber: 2.0 Consensus size: 54
20430306 GCTCCCCATA
20430316 ACTTTTTATTTTCTCCCTAAACTTTTACTTCTCACCCTTTACTCTCAAATAAAT
1 ACTTTTTATTTTCTCCCTAAACTTTTACTTCTCACCCTTTACTCTCAAATAAAT
20430370 ACTTTTTATTTTCTCCCTAAACTTTTACTTCTCACCCTTTACTCTCAAATAAA
1 ACTTTTTATTTTCTCCCTAAACTTTTACTTCTCACCCTTTACTCTCAAATAAA
20430423 AAATCAAAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.26, C:0.28, G:0.00, T:0.46
Consensus pattern (54 bp):
ACTTTTTATTTTCTCCCTAAACTTTTACTTCTCACCCTTTACTCTCAAATAAAT
Found at i:20437125 original size:23 final size:24
Alignment explanation
Indices: 20437088--20437132 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
20437078 AGTTAGACCT
20437088 GAAATTTAAAATTTAAAAAATAGA
1 GAAATTTAAAATTTAAAAAATAGA
* *
20437112 GAAA-TTAAATTTTATAAAATA
1 GAAATTTAAAATTTAAAAAATA
20437133 AAAATATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (24 bp):
GAAATTTAAAATTTAAAAAATAGA
Found at i:20440295 original size:22 final size:22
Alignment explanation
Indices: 20440270--20440315 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
20440260 GTATATAGAG
20440270 AATATAAAATA-ATAAATAAATA
1 AATATAAAATATA-AAATAAATA
* *
20440292 AATATAACATATAAAATACATA
1 AATATAAAATATAAAATAAATA
20440314 AA
1 AA
20440316 GGGTTGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (22 bp):
AATATAAAATATAAAATAAATA
Found at i:20441874 original size:143 final size:143
Alignment explanation
Indices: 20441639--20442121 Score: 666
Period size: 143 Copynumber: 3.4 Consensus size: 143
20441629 GAGATAAGAC
* *
20441639 TGGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTTGTAGCTTTA
1 TGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTA
* * * * *
20441704 ATCTGTTCCACTACAACACTAGAGAAATAAG-ACCTGCTGTTTTCAGTCTGCTCCACTGCAATTT
66 ATCTGTTCCACTGCAACGCTAGGGAAATAAGAATC-GCTGTTTTCAGTCTGCTCCGCTGCAATTT
20441768 CAGGGATATAAGGT
130 CAGGGATATAAGGT
* * * * *
20441782 TAGTGGTTTCAATCTGTTCCACTGCAACTTCAAGAAGATAAGATCCACCATAATTTGTAGCTTTA
1 TGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTA
* * * * *
20441847 ATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGTTGTCTTT-AGTCTGCTCTGCTGCAACTT
66 ATCTGTTCCACTGCAACGCTAGGGAAATAAGAATCGCTGT-TTTCAGTCTGCTCCGCTGCAATTT
20441911 CAGGGATATAAGGT
130 CAGGGATATAAGGT
* *
20441925 TGGTGGCTTCAATCTGCTCCACTGTAACTTCAGGAAGATAAGATCTGCCATAATTTGTAGCTTTA
1 TGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTA
* **
20441990 ATCTGTTACACTGCAACGCTAGGGAAATAAGAATCGCTGTCCTCAGTCTGCTCCGCTGCAACTTT
66 ATCTGTTCCACTGCAACGCTAGGGAAATAAGAATCGCTGTTTTCAGTCTGCTCCGCTGCAA-TTT
* * *
20442055 -AGAGAGATAAGGC
130 CAGGGATATAAGGT
* * *
20442068 TGGCGGCTTCAATCTGATCCACTGCAACTTCAGGAAAATAAGATCCGCCATAAT
1 TGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAAT
20442122 GACTTCAATC
Statistics
Matches: 296, Mismatches: 40, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
142 1 0.00
143 289 0.98
144 6 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (143 bp):
TGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTA
ATCTGTTCCACTGCAACGCTAGGGAAATAAGAATCGCTGTTTTCAGTCTGCTCCGCTGCAATTTC
AGGGATATAAGGT
Found at i:20449836 original size:22 final size:22
Alignment explanation
Indices: 20449811--20449856 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
20449801 GTATATAGAG
20449811 AATATAAAATA-ATAAATAAATA
1 AATATAAAATATA-AAATAAATA
* *
20449833 AATATAACATATAAAATACATA
1 AATATAAAATATAAAATAAATA
20449855 AA
1 AA
20449857 GGGTTGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (22 bp):
AATATAAAATATAAAATAAATA
Found at i:20451355 original size:20 final size:19
Alignment explanation
Indices: 20451313--20451363 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
20451303 TTCTGATTTT
* *
20451313 TATTTTTAATATTTAAAAA
1 TATTATTAATTTTTAAAAA
* *
20451332 TATTCATTAATTTTTTAAAT
1 TATT-ATTAATTTTTAAAAA
20451352 TATTATTAATTT
1 TATTATTAATTT
20451364 ATTCTTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTATTAATTTTTAAAAA
Found at i:20451918 original size:4 final size:4
Alignment explanation
Indices: 20451909--20452186 Score: 281
Period size: 4 Copynumber: 69.2 Consensus size: 4
20451899 TACGTTATCT
* *
20451909 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATA TATA TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
20451957 TATG TAATG TATG TATG TATG TATG TATG TATG TATG CATG TATG TATG
1 TATG T-ATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
20452006 TATG TATG TATG TATG TATG CATG CATG CATG TATAG -ATG CATG GATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT-G TATG TATG TATG
* * * * * * * *
20452054 TATA TATG GATG TATG TATG CATG GATG TATG GATG CATG CATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * * * * *
20452102 TATG CT-TC CATA CATG CATA TATG CATG CATG CATG GATG TATG TATG
1 TATG -TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
20452150 TATG TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG T
20452187 TTTTTGTGAA
Statistics
Matches: 241, Mismatches: 28, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
3 1 0.00
4 234 0.97
5 6 0.02
ACGTcount: A:0.27, C:0.06, G:0.24, T:0.42
Consensus pattern (4 bp):
TATG
Found at i:20454066 original size:25 final size:25
Alignment explanation
Indices: 20454031--20454244 Score: 125
Period size: 25 Copynumber: 8.6 Consensus size: 25
20454021 CCTAGCATTG
*
20454031 GTGGCGGGTTATCTATAAAGCCTTT
1 GTGGCGAGTTATCTATAAAGCCTTT
*
20454056 GTGGCGAGTTATCTGTAAAGCCTTT
1 GTGGCGAGTTATCTATAAAGCCTTT
* * *
20454081 ATGG-GAGTTAAT-TGTAAAGTCTTT
1 GTGGCGAGTT-ATCTATAAAGCCTTT
* * *
20454105 GTGGTGAGTTAAT-TGTAAGGCCTTT
1 GTGGCGAGTT-ATCTATAAAGCCTTT
* * * **
20454130 ATGGCAAGTTATCTGTAAAGAATTT
1 GTGGCGAGTTATCTATAAAGCCTTT
* ** *
20454155 TTGGAAAATTATCTATAAAG-CTCTT
1 GTGGCGAGTTATCTATAAAGCCT-TT
* * * *
20454180 GTGGTGAATTATCTAAAAAGCCTAT
1 GTGGCGAGTTATCTATAAAGCCTTT
* *
20454205 GTGACGTA-TTAT-TCATAAAGCCTTA
1 GTGGCG-AGTTATCT-ATAAAGCCTTT
20454230 GTGGCGAAGTTATCT
1 GTGGCG-AGTTATCT
20454245 GGGAAGCCCT
Statistics
Matches: 150, Mismatches: 30, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
24 23 0.15
25 119 0.79
26 7 0.05
27 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (25 bp):
GTGGCGAGTTATCTATAAAGCCTTT
Found at i:20455763 original size:32 final size:32
Alignment explanation
Indices: 20455718--20455795 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
20455708 CAATAATTTT
* * *
20455718 TAAAGGTTGATTAATACAAATGCC-TGAAGAAA
1 TAAAGATTGATTAATACAAA-CCCTTAAAGAAA
* *
20455750 TTAGGATTGATTAATACAAACCCTTAAAGAAA
1 TAAAGATTGATTAATACAAACCCTTAAAGAAA
20455782 TAAAGATTGATTAA
1 TAAAGATTGATTAA
20455796 AAATTTACCA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 2 0.05
32 36 0.95
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.28
Consensus pattern (32 bp):
TAAAGATTGATTAATACAAACCCTTAAAGAAA
Found at i:20487447 original size:20 final size:20
Alignment explanation
Indices: 20487422--20487462 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
20487412 AGAGCTAAGT
20487422 AATCGAGCATG-AATGTGTTC
1 AATCGA-CATGAAATGTGTTC
*
20487442 AATCGACTTGAAATGTGTTC
1 AATCGACATGAAATGTGTTC
20487462 A
1 A
20487463 GTAAGAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.32
Consensus pattern (20 bp):
AATCGACATGAAATGTGTTC
Found at i:20490317 original size:6 final size:6
Alignment explanation
Indices: 20490306--20490353 Score: 89
Period size: 6 Copynumber: 8.2 Consensus size: 6
20490296 TTATGGAATG
20490306 AATGAA AATGAA AATGAA AATGAA AATGAA AATGAA AATGAA AA-GAA
1 AATGAA AATGAA AATGAA AATGAA AATGAA AATGAA AATGAA AATGAA
20490353 A
1 A
20490354 TATATTGCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 4 0.10
6 38 0.90
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.15
Consensus pattern (6 bp):
AATGAA
Found at i:20500346 original size:13 final size:13
Alignment explanation
Indices: 20500328--20500359 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
20500318 TTTCCAGCAA
20500328 TTATGAATTTATT
1 TTATGAATTTATT
20500341 TTATGAATTTATT
1 TTATGAATTTATT
*
20500354 TGATGA
1 TTATGA
20500360 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:20500567 original size:50 final size:50
Alignment explanation
Indices: 20500454--20500695 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
20500444 ATTTGGGTAA
* * *
20500454 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
20500510 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
20500560 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
20500610 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
20500660 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
20500696 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:20500643 original size:100 final size:103
Alignment explanation
Indices: 20500454--20500703 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
20500444 ATTTGGGTAA
20500454 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
20500519 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
20500560 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
20500622 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
20500660 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
20500704 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:20502564 original size:12 final size:12
Alignment explanation
Indices: 20502547--20502571 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20502537 CATGTTATGT
20502547 GTATATATATAA
1 GTATATATATAA
20502559 GTATATATATAA
1 GTATATATATAA
20502571 G
1 G
20502572 AGTCAAATTT
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:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (12 bp):
GTATATATATAA
Found at i:20503014 original size:13 final size:13
Alignment explanation
Indices: 20502996--20503023 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
20502986 TGATCTCTTC
20502996 TGGGTATTCTATA
1 TGGGTATTCTATA
20503009 TGGGTATTCTATA
1 TGGGTATTCTATA
20503022 TG
1 TG
20503024 CTCTTTTATC
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:0.25, T:0.46
Consensus pattern (13 bp):
TGGGTATTCTATA
Found at i:20506029 original size:50 final size:50
Alignment explanation
Indices: 20505915--20506156 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
20505905 ATTTTGGTAA
* * * *
20505915 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
20505971 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
20506021 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
20506071 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
20506121 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
20506157 TTTGGCATGT
Statistics
Matches: 165, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:20506099 original size:100 final size:103
Alignment explanation
Indices: 20505915--20506164 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
20505905 ATTTTGGTAA
*
20505915 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
20505980 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
20506021 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
20506083 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
20506121 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
20506165 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.39
101 39 0.30
105 2 0.02
106 39 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:20518091 original size:12 final size:12
Alignment explanation
Indices: 20518074--20518101 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
20518064 ATGTCATCAT
20518074 ATTAATTTTTGA
1 ATTAATTTTTGA
20518086 ATTAATTTTTGA
1 ATTAATTTTTGA
20518098 ATTA
1 ATTA
20518102 CACTATCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (12 bp):
ATTAATTTTTGA
Found at i:20528233 original size:17 final size:17
Alignment explanation
Indices: 20528179--20528234 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
20528169 CCCCTCCTAC
20528179 TATATTACATAATAT-TA
1 TATATTA-ATAATATATA
*
20528196 TATATT-ATAGTATATAA
1 TATATTAATAATATAT-A
*
20528213 TATATTAATAATTTATA
1 TATATTAATAATATATA
20528230 TATAT
1 TATAT
20528235 GCATAAATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 6 0.18
16 1 0.03
17 19 0.58
18 7 0.21
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
TATATTAATAATATATA
Found at i:20528317 original size:7 final size:7
Alignment explanation
Indices: 20528307--20528339 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
20528297 GTACATTATA
20528307 TATTAAT
1 TATTAAT
20528314 TATTAAT
1 TATTAAT
20528321 TATTAAT
1 TATTAAT
20528328 TATTATAT
1 TATTA-AT
20528336 TATT
1 TATT
20528340 TGAAATATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TATTAAT
Found at i:20528324 original size:14 final size:15
Alignment explanation
Indices: 20528301--20528339 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
20528291 ATAGAAGTAC
20528301 ATTATA-TATTAATT
1 ATTATATTATTAATT
20528315 ATTA-ATTATTAATT
1 ATTATATTATTAATT
20528329 ATTATATTATT
1 ATTATATTATT
20528340 TGAAATATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.04
14 16 0.70
15 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTATATTATTAATT
Found at i:20528462 original size:19 final size:18
Alignment explanation
Indices: 20528412--20528463 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 18
20528402 ATGTAATACT
* *
20528412 ATATCATATAGTAT-ATA
1 ATATTATATAATATAATA
*
20528429 ATATTATGTAATATAATA
1 ATATTATATAATATAATA
*
20528447 ATAATTATATACTATAA
1 AT-ATTATATAATATAA
20528464 ATTTTGATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
17 11 0.39
18 5 0.18
19 12 0.43
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (18 bp):
ATATTATATAATATAATA
Found at i:20539329 original size:17 final size:17
Alignment explanation
Indices: 20539307--20539342 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
20539297 ACAAGAGGAT
20539307 ATAGAGATTAATGAAAG
1 ATAGAGATTAATGAAAG
20539324 ATAGAGATTAATGAAAG
1 ATAGAGATTAATGAAAG
20539341 AT
1 AT
20539343 TTATTGACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.25
Consensus pattern (17 bp):
ATAGAGATTAATGAAAG
Found at i:20541489 original size:16 final size:16
Alignment explanation
Indices: 20541468--20541499 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20541458 ATAAATCAAA
*
20541468 TAGATATGTAGCAGAC
1 TAGATATGTACCAGAC
20541484 TAGATATGTACCAGAC
1 TAGATATGTACCAGAC
20541500 ACAATCATGT
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:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (16 bp):
TAGATATGTACCAGAC
Found at i:20544914 original size:27 final size:27
Alignment explanation
Indices: 20544876--20544929 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
20544866 ACTAAACATA
20544876 AATCTACTCCCAGGTTCATGCATTGGC
1 AATCTACTCCCAGGTTCATGCATTGGC
*
20544903 AATCTACTCCCAGGTTCATGTATTGGC
1 AATCTACTCCCAGGTTCATGCATTGGC
20544930 TTTTCCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (27 bp):
AATCTACTCCCAGGTTCATGCATTGGC
Found at i:20548613 original size:16 final size:16
Alignment explanation
Indices: 20548592--20548625 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
20548582 TATTAATCGT
*
20548592 ATTGAAATTATAATTA
1 ATTGAAATAATAATTA
*
20548608 ATTGAAATAATATTTA
1 ATTGAAATAATAATTA
20548624 AT
1 AT
20548626 CAGTGCATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (16 bp):
ATTGAAATAATAATTA
Found at i:20552273 original size:13 final size:13
Alignment explanation
Indices: 20552255--20552315 Score: 86
Period size: 13 Copynumber: 4.7 Consensus size: 13
20552245 CTCAAATTTT
*
20552255 TCAAAAACACTTC
1 TCAAAAGCACTTC
*
20552268 TCAAAAGCACTTT
1 TCAAAAGCACTTC
* *
20552281 TGAAAAGCATTTC
1 TCAAAAGCACTTC
20552294 TCAAAAGCACTTC
1 TCAAAAGCACTTC
20552307 TCAAAAGCA
1 TCAAAAGCA
20552316 ATAAAGAACT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.43, C:0.25, G:0.08, T:0.25
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:20557264 original size:24 final size:24
Alignment explanation
Indices: 20557224--20557269 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
20557214 TCCTTTTGTT
*
20557224 TTCTTAAATTTCATCTTTCCTTTC
1 TTCTTAAATTTCATCTTACCTTTC
*
20557248 TTCTT-AATTTGCTTCTTACCTT
1 TTCTTAAATTT-CATCTTACCTT
20557270 GCTGCCATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.15, C:0.24, G:0.02, T:0.59
Consensus pattern (24 bp):
TTCTTAAATTTCATCTTACCTTTC
Found at i:20560272 original size:20 final size:19
Alignment explanation
Indices: 20560239--20560277 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
20560229 GTAGATCATA
20560239 ATTCTTAGAAAATAGAATTT
1 ATTCTTAGAAAATA-AATTT
**
20560259 ATTCTTAGTTAATAAATTT
1 ATTCTTAGAAAATAAATTT
20560278 CTACTACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (19 bp):
ATTCTTAGAAAATAAATTT
Found at i:20563359 original size:24 final size:25
Alignment explanation
Indices: 20563327--20563375 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
20563317 AACCATTAAC
20563327 TTTTA-TTTTTATTTTATT-GTTTGT
1 TTTTATTTTTTA-TTTATTAGTTTGT
*
20563351 TTTTCTTTTTTATTTATTAGTTTGT
1 TTTTATTTTTTATTTATTAGTTTGT
20563376 GTTTGGTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.12, C:0.02, G:0.08, T:0.78
Consensus pattern (25 bp):
TTTTATTTTTTATTTATTAGTTTGT
Done.