Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, 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: 8646418
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 38 of 43
Found at i:7721330 original size:21 final size:21
Alignment explanation
Indices: 7721306--7721346 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7721296 ATTCTAATAT
*
7721306 AATTTTTATTATTATCTTTTA
1 AATTTTAATTATTATCTTTTA
*
7721327 AATTTTAATTATTATTTTTT
1 AATTTTAATTATTATCTTTT
7721347 TAGTCATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
AATTTTAATTATTATCTTTTA
Found at i:7721403 original size:24 final size:24
Alignment explanation
Indices: 7721331--7721411 Score: 60
Period size: 24 Copynumber: 3.2 Consensus size: 24
7721321 CTTTTAAATT
*
7721331 TTAAT-TATTATTT-TTTTAGTCATA
1 TTAATATATTATTTATTTTA-T-AAA
7721355 TTATATATATTATTTAATTAATTTATAAA
1 TTA-ATATATTATTT-A-T--TTTATAAA
7721384 TTAATATATTATTTATTTTA-AATA
1 TTAATATATTATTTATTTTATAA-A
7721408 TTAA
1 TTAA
7721412 GAAAGGACAG
Statistics
Matches: 48, Mismatches: 1, Indels: 16
0.74 0.02 0.25
Matches are distributed among these distances:
23 2 0.04
24 12 0.25
25 2 0.04
26 9 0.19
27 1 0.02
28 11 0.23
29 6 0.12
30 1 0.02
31 4 0.08
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (24 bp):
TTAATATATTATTTATTTTATAAA
Found at i:7723111 original size:36 final size:36
Alignment explanation
Indices: 7723050--7723121 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
7723040 GAGTTATGCA
* *
7723050 CACAAAGATCATATTATATTAATACCAAAAGTATTC
1 CACAAAGATCATATTAGATTAATACCAAAAGCATTC
* * *
7723086 CACAAAGATCCTGTTAGATTGATACCAAAAGCATTC
1 CACAAAGATCATATTAGATTAATACCAAAAGCATTC
7723122 TACGGTAAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.28
Consensus pattern (36 bp):
CACAAAGATCATATTAGATTAATACCAAAAGCATTC
Found at i:7723830 original size:28 final size:27
Alignment explanation
Indices: 7723708--7723830 Score: 67
Period size: 27 Copynumber: 4.5 Consensus size: 27
7723698 TCATATATGC
* *
7723708 ATTTGCATTTGCATTTCACATCTTTGC
1 ATTTGTATTTGCATTTCACATCTTTGT
*
7723735 ATTT-TCATTTTGCA-TTCGTAC-T-TTTAT
1 ATTTGT-A-TTTGCATTTC--ACATCTTTGT
* * * *
7723762 GTTTGTTTTTGCATTGCACA-ATTTGT
1 ATTTGTATTTGCATTTCACATCTTTGT
* * *
7723788 TTATTATTTTTGCATTTCTACATCTTTGT
1 AT-TTGTATTTGCATTTC-ACATCTTTGT
7723817 ATTTGTATTTGCAT
1 ATTTGTATTTGCAT
7723831 CATTGCACTT
Statistics
Matches: 71, Mismatches: 14, Indels: 21
0.67 0.13 0.20
Matches are distributed among these distances:
25 2 0.03
26 11 0.15
27 29 0.41
28 21 0.30
29 8 0.11
ACGTcount: A:0.18, C:0.15, G:0.11, T:0.56
Consensus pattern (27 bp):
ATTTGTATTTGCATTTCACATCTTTGT
Found at i:7728210 original size:54 final size:53
Alignment explanation
Indices: 7728135--7728288 Score: 193
Period size: 54 Copynumber: 2.8 Consensus size: 53
7728125 AAATCTGACC
* * *
7728135 AGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGCTTTATGAACATCTGGGA
1 AGAAGCCACAGGAAA-GATGAATGTGTTGTCAAATGTTTTACGAACATCTGAGA
* *
7728189 ATAAGCCACAGGAAAGAATGAATGTGTTGTCAAATGTTTTACGAGA-ATCTGAGC
1 AGAAGCCACAGGAAAG-ATGAATGTGTTGTCAAATGTTTTACGA-ACATCTGAGA
* * *
7728243 AGAAACCACATGAGATGATGAATGTGTTGTCAAATGTTTTACGAAC
1 AGAAGCCACAGGA-AAGATGAATGTGTTGTCAAATGTTTTACGAAC
7728289 CAGTTATTCT
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
53 2 0.02
54 82 0.94
55 3 0.03
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (53 bp):
AGAAGCCACAGGAAAGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAGA
Found at i:7728697 original size:18 final size:18
Alignment explanation
Indices: 7728652--7728697 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
7728642 ACATAGATTC
*
7728652 TCTTCAAAAAGGATGTTT
1 TCTTCAAAGAGGATGTTT
7728670 TCTTCAAAGAGGATGTTT
1 TCTTCAAAGAGGATGTTT
*
7728688 TCTTCGAAGA
1 TCTTCAAAGA
7728698 TGATAGATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (18 bp):
TCTTCAAAGAGGATGTTT
Found at i:7729171 original size:29 final size:29
Alignment explanation
Indices: 7729124--7729179 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
7729114 ACTCTATCGT
* *
7729124 AAAAGGAGATAGAATATCATCAACATTAG
1 AAAAAGAGATAGAACATCATCAACATTAG
*
7729153 AAAAAGAGATAGAGCATCATCAACATT
1 AAAAAGAGATAGAACATCATCAACATT
7729180 TCTAGAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.52, C:0.12, G:0.16, T:0.20
Consensus pattern (29 bp):
AAAAAGAGATAGAACATCATCAACATTAG
Found at i:7729295 original size:152 final size:152
Alignment explanation
Indices: 7729018--7729421 Score: 630
Period size: 152 Copynumber: 2.7 Consensus size: 152
7729008 ATGAAGATTG
* * * **
7729018 CATCAACATTTCCGGAAGGAGTTCGTAATAAGAAGAACTC-ATTTGAAGAATAAGAAGAAGTTCA
1 CATCAACATTTCCAGAAGAAGTTCGTAATAAGAAGAACTCAACTT-AAGAGGAAGAAGAAGTTCA
* * *
7729082 TAATCTAAAGAACTTATTCAACCTTTTGCTCGACTCTATCGTAAAAGGAGATAGAATATCATCAA
65 TAATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAAAAGGAGATAGAACATCATCAA
*
7729147 CATTAGAAAAAGAGATAGAGCAT
130 CATTAGAAAAAGAAATAGAGCAT
* *
7729170 CATCAACATTTCTAGAAGAAGTTCGTAATAAGAAGAACTCAACTTAAGAGGATGAAGAAGTTCAT
1 CATCAACATTTCCAGAAGAAGTTCGTAATAAGAAGAACTCAACTTAAGAGGAAGAAGAAGTTCAT
* *
7729235 AATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCATAATGAGATAGAACATCATCAAC
66 AATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAAAAGGAGATAGAACATCATCAAC
*
7729300 ATTAGAAAAGGAAATAGAGCAT
131 ATTAGAAAAAGAAATAGAGCAT
* *
7729322 CATCAACATTTCCAGAAGAAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
1 CATCAACATTTCCAGAAGAAGTTCGTAATAAGAAGAACTCAACTTAAGAGGAAGAAGAAGTTCAT
* *
7729387 AATCTGAAGAACTTATTCAATCTTTTGTTCGACTC
66 AATCTGAAGAACTTATTCAACCTTTTGCTCGACTC
7729422 ATCACAGAGA
Statistics
Matches: 231, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
152 228 0.99
153 3 0.01
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (152 bp):
CATCAACATTTCCAGAAGAAGTTCGTAATAAGAAGAACTCAACTTAAGAGGAAGAAGAAGTTCAT
AATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAAAAGGAGATAGAACATCATCAAC
ATTAGAAAAAGAAATAGAGCAT
Found at i:7729796 original size:47 final size:47
Alignment explanation
Indices: 7729654--7729784 Score: 235
Period size: 47 Copynumber: 2.8 Consensus size: 47
7729644 TCCCTTATTT
* *
7729654 AGCAACCAACGACAGCAACCCCTCCACGTACATTTCCAGTAGCTTCC
1 AGCAACCAACAATAGCAACCCCTCCACGTACATTTCCAGTAGCTTCC
7729701 AGCAACCAACAATAGCAACCCCTCCACGTACATTTCCAGTAGCTTCC
1 AGCAACCAACAATAGCAACCCCTCCACGTACATTTCCAGTAGCTTCC
*
7729748 AGCAACCAACAATAGCAACCCCTCCACGTGCATTTCC
1 AGCAACCAACAATAGCAACCCCTCCACGTACATTTCC
7729785 GGCAGATTCC
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 81 1.00
ACGTcount: A:0.31, C:0.40, G:0.11, T:0.18
Consensus pattern (47 bp):
AGCAACCAACAATAGCAACCCCTCCACGTACATTTCCAGTAGCTTCC
Found at i:7732092 original size:2 final size:2
Alignment explanation
Indices: 7732085--7732110 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7732075 AACTAAATAA
7732085 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7732111 TACATTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7738052 original size:5 final size:5
Alignment explanation
Indices: 7738042--7738079 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
7738032 AAATTGAGTA
*
7738042 TTTAT TTTAT TTTAT TTTAT TTATAA TTT-T TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TT-TAT TTTAT TTTAT TTT
7738080 TTAATTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 3 0.10
5 22 0.76
6 4 0.14
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:7738064 original size:19 final size:19
Alignment explanation
Indices: 7738040--7738092 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
7738030 TCAAATTGAG
7738040 TATTTATTTTATTTTATTT
1 TATTTATTTTATTTTATTT
7738059 TATTTATAATTT-TTTTATTT
1 TATTTAT--TTTATTTTATTT
* *
7738079 T-TTAATTATATTTT
1 TATTTATTTTATTTT
7738093 TAAAAATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
17 2 0.07
18 4 0.14
19 11 0.38
20 9 0.31
21 3 0.10
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (19 bp):
TATTTATTTTATTTTATTT
Found at i:7747705 original size:22 final size:21
Alignment explanation
Indices: 7747673--7747735 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 21
7747663 TTTAGGGCAG
* *
7747673 AGGGAATCGATACCCCCTTGAA
1 AGGGAACCGATTCCCCCTTG-A
7747695 AGGGAACCGATTCCCCCTTTGA
1 AGGGAACCGATTCCCCC-TTGA
7747717 AGTGGAACCGATTCCCCCT
1 AG-GGAACCGATTCCCCCT
7747736 AGGGGAATCG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
22 19 0.51
23 18 0.49
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.21
Consensus pattern (21 bp):
AGGGAACCGATTCCCCCTTGA
Found at i:7747716 original size:23 final size:22
Alignment explanation
Indices: 7747673--7747735 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 22
7747663 TTTAGGGCAG
* *
7747673 AGGGAATCGATACCCCC-TTGAA
1 AGGGAACCGATTCCCCCTTTG-A
7747695 AGGGAACCGATTCCCCCTTTGA
1 AGGGAACCGATTCCCCCTTTGA
7747717 AGTGGAACCGATTCCCCCT
1 AG-GGAACCGATTCCCCCT
7747736 AGGGGAATCG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 18 0.49
23 19 0.51
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.21
Consensus pattern (22 bp):
AGGGAACCGATTCCCCCTTTGA
Found at i:7747758 original size:18 final size:19
Alignment explanation
Indices: 7747720--7747758 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7747710 CCTTTGAAGT
*
7747720 GGAACCGATTCCCCCTAGG
1 GGAACCGATACCCCCTAGG
*
7747739 GGAATCGATACCCCCT-GG
1 GGAACCGATACCCCCTAGG
7747757 GG
1 GG
7747759 TTCTGGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.21, C:0.33, G:0.31, T:0.15
Consensus pattern (19 bp):
GGAACCGATACCCCCTAGG
Found at i:7750455 original size:20 final size:20
Alignment explanation
Indices: 7750427--7750464 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7750417 GTATGCTCGG
*
7750427 AGGGAACCGATTTCCCCTCA
1 AGGGAACCGATTCCCCCTCA
*
7750447 AGGGTACCGATTCCCCCT
1 AGGGAACCGATTCCCCCT
7750465 GTTCAATGGT
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:0.21, C:0.37, G:0.21, T:0.21
Consensus pattern (20 bp):
AGGGAACCGATTCCCCCTCA
Found at i:7761849 original size:2 final size:2
Alignment explanation
Indices: 7761844--7761899 Score: 98
Period size: 2 Copynumber: 29.0 Consensus size: 2
7761834 TATTAAGATC
7761844 AT AT AT AT AT AT A- AT AT AT AT AT A- AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7761884 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
7761900 GATTTTAATT
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 50 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7765548 original size:18 final size:19
Alignment explanation
Indices: 7765525--7765560 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7765515 AGAAATATAT
7765525 TAAAT-ATTTTTCATTAAA
1 TAAATAATTTTTCATTAAA
*
7765543 TAAATAATTTTTTATTAA
1 TAAATAATTTTTCATTAA
7765561 TTTAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TAAATAATTTTTCATTAAA
Found at i:7765863 original size:11 final size:11
Alignment explanation
Indices: 7765847--7765909 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
7765837 GTATTATAGA
7765847 ATTTTTAATAT
1 ATTTTTAATAT
7765858 ATTTTTAA-A-
1 ATTTTTAATAT
7765867 ATTTTATAAT-T
1 ATTTT-TAATAT
*** * *
7765878 ATCAATAGTGT
1 ATTTTTAATAT
7765889 ATTTTTAATAT
1 ATTTTTAATAT
7765900 ATTTTTAATA
1 ATTTTTAATA
7765910 ATGTAATTTA
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
9 5 0.13
10 7 0.18
11 27 0.69
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:7767405 original size:28 final size:28
Alignment explanation
Indices: 7767365--7767420 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
7767355 ACGACGCAAG
*
7767365 CTTGAAATGTAAACTATGATGGCTTAAA
1 CTTGAAATATAAACTATGATGGCTTAAA
* *
7767393 CTTGAGATATAAACTGTGATGGCTTAAA
1 CTTGAAATATAAACTATGATGGCTTAAA
7767421 TTGGCCAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (28 bp):
CTTGAAATATAAACTATGATGGCTTAAA
Found at i:7771920 original size:4 final size:4
Alignment explanation
Indices: 7771911--7771958 Score: 62
Period size: 4 Copynumber: 11.8 Consensus size: 4
7771901 TTATCATTGT
*
7771911 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTA TTCTAA TATA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-T-A TTTA TTTA TTT
7771959 TTATTTTTCC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
3 3 0.08
4 32 0.82
5 2 0.05
6 2 0.05
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:7773717 original size:101 final size:101
Alignment explanation
Indices: 7773537--7773740 Score: 372
Period size: 101 Copynumber: 2.0 Consensus size: 101
7773527 CTGAACCCAA
* *
7773537 TATCAACATTGCACACCAGATGAAGTGGTTAGCTACAGTTCCATCGAATCGTGTGTTTCTAATTG
1 TATCAACATTGCACACCAGATGAAGTAGTTAGCTACAGTGCCATCGAATCGTGTGTTTCTAATTG
*
7773602 TGTCTACCGCTCTTCGCAGTTGATTGGAGTTAGCAT
66 TGTCTACCGCTCTTCGCAGTTGATTGAAGTTAGCAT
7773638 TATCAACATTGCACACCAGATGAAGTAGTTAGCTACAGTGCCATCGAATCGTGTGTTTCTAATTG
1 TATCAACATTGCACACCAGATGAAGTAGTTAGCTACAGTGCCATCGAATCGTGTGTTTCTAATTG
*
7773703 TGTCTACCGTTCTTCGCAGTTGATTGAAGTTAGCAT
66 TGTCTACCGCTCTTCGCAGTTGATTGAAGTTAGCAT
7773739 TA
1 TA
7773741 CCTACCAACC
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (101 bp):
TATCAACATTGCACACCAGATGAAGTAGTTAGCTACAGTGCCATCGAATCGTGTGTTTCTAATTG
TGTCTACCGCTCTTCGCAGTTGATTGAAGTTAGCAT
Found at i:7779506 original size:18 final size:18
Alignment explanation
Indices: 7779467--7779506 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
7779457 GATTTTTGGT
* *
7779467 TTTTGTTTTTTTACTTTC
1 TTTTGTTATTTTACTTTA
*
7779485 TTTTGTTATTTTATTTTA
1 TTTTGTTATTTTACTTTA
7779503 TTTT
1 TTTT
7779507 TCTTTTCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.10, C:0.05, G:0.05, T:0.80
Consensus pattern (18 bp):
TTTTGTTATTTTACTTTA
Found at i:7779531 original size:37 final size:39
Alignment explanation
Indices: 7779490--7779562 Score: 105
Period size: 37 Copynumber: 1.9 Consensus size: 39
7779480 CTTTCTTTTG
* *
7779490 TTATTTTATTTTATTTT-TCTTTTCT-TTTTTTATTACA
1 TTATTTTATCTTATTTTATCTTTTATGTTTTTTATTACA
*
7779527 TTATTTTCTCTTATTTTATCTTTTATGTTTTTTATT
1 TTATTTTATCTTATTTTATCTTTTATGTTTTTTATT
7779563 GTAATTTCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 15 0.48
38 7 0.23
39 9 0.29
ACGTcount: A:0.15, C:0.08, G:0.01, T:0.75
Consensus pattern (39 bp):
TTATTTTATCTTATTTTATCTTTTATGTTTTTTATTACA
Found at i:7781680 original size:15 final size:13
Alignment explanation
Indices: 7781652--7781676 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7781642 CATGATATTA
7781652 AGAAAAAAATAAT
1 AGAAAAAAATAAT
7781665 AGAAAAAAATAA
1 AGAAAAAAATAA
7781677 AATAAAGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (13 bp):
AGAAAAAAATAAT
Found at i:7781680 original size:18 final size:18
Alignment explanation
Indices: 7781657--7781694 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
7781647 TATTAAGAAA
7781657 AAAATAATAG-AAAAAAAT
1 AAAATAA-AGTAAAAAAAT
*
7781675 AAAATAAAGTAAAAATAT
1 AAAATAAAGTAAAAAAAT
7781693 AA
1 AA
7781695 TATATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (18 bp):
AAAATAAAGTAAAAAAAT
Found at i:7781739 original size:24 final size:24
Alignment explanation
Indices: 7781704--7781766 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
7781694 ATATATATAT
* *
7781704 ATATATAAATAAAATATTAAGAAA
1 ATATATATATAAAATATGAAGAAA
* *
7781728 ATATATATATAAAA-ACGAATAAA
1 ATATATATATAAAATATGAAGAAA
*
7781751 ATATA-ATATTAAATAT
1 ATATATATATAAAATAT
7781767 ATATATATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 7 0.22
23 12 0.38
24 13 0.41
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (24 bp):
ATATATATATAAAATATGAAGAAA
Found at i:7781742 original size:71 final size:74
Alignment explanation
Indices: 7781646--7781785 Score: 191
Period size: 75 Copynumber: 1.9 Consensus size: 74
7781636 GATATACATG
7781646 ATATTAAGAAAAAAATAATAGAAAAA-AATAAAATA-AAGTA-AAAATATA-ATATATATATATA
1 ATATTAAGAAAAAAATAATAGAAAAACAATAAAATATAA-TATAAAATATATATATATATATATA
7781707 TATAAATAAA
65 TATAAATAAA
* * *
7781717 ATATTAAG-AAAATATATATATAAAAACGAATAAAATATAATATTAAATATATATATATATATAT
1 ATATTAAGAAAAAAATA-ATAGAAAAAC-AATAAAATATAATATAAAATATATATATATATATAT
7781781 ATATA
64 ATATA
7781786 TATATAGTAA
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
70 7 0.12
71 16 0.27
73 11 0.18
74 9 0.15
75 17 0.28
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (74 bp):
ATATTAAGAAAAAAATAATAGAAAAACAATAAAATATAATATAAAATATATATATATATATATAT
ATAAATAAA
Found at i:7781770 original size:2 final size:2
Alignment explanation
Indices: 7781751--7781791 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
7781741 AACGAATAAA
*
7781751 AT AT A- AT AT -T AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7781791 A
1 A
7781792 GTAAATGGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:7781854 original size:16 final size:16
Alignment explanation
Indices: 7781817--7781874 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 16
7781807 TTAATACATC
*
7781817 TATATAT-ATAT-ATA
1 TATATATGATATAAAA
*
7781831 TATA-ATGATATAAGA
1 TATATATGATATAAAA
7781846 TATATATGATA-AAAA
1 TATATATGATATAAAA
*
7781861 TA-ATATAATATAAA
1 TATATATGATATAAA
7781875 TAAAAAAAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 2 0.05
14 15 0.41
15 14 0.38
16 6 0.16
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (16 bp):
TATATATGATATAAAA
Found at i:7781866 original size:25 final size:25
Alignment explanation
Indices: 7781820--7781868 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
7781810 ATACATCTAT
* *
7781820 ATATATATATATATAATGATATAAG
1 ATATATATATATAAAATAATATAAG
7781845 ATATATATGATA-AAAATAATATAA
1 ATATATAT-ATATAAAATAATATAA
7781869 TATAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (25 bp):
ATATATATATATAAAATAATATAAG
Found at i:7781909 original size:21 final size:21
Alignment explanation
Indices: 7781871--7781911 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7781861 TAATATAATA
*
7781871 TAAATAAAAAAAGGAATATAG
1 TAAATAAAAAAAGAAATATAG
7781892 TAAATAAATAAAA-AAATATA
1 TAAATAAA-AAAAGAAATATA
7781912 ATTAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (21 bp):
TAAATAAAAAAAGAAATATAG
Found at i:7783457 original size:110 final size:110
Alignment explanation
Indices: 7783303--7783506 Score: 300
Period size: 110 Copynumber: 1.9 Consensus size: 110
7783293 TGGGAAATTG
* * *
7783303 TTTGTTGACAGCCAGCCGCCCCTTCGTTATGAAGTTGAGCTTGTGTTGCCTCGAGTTCAATATCC
1 TTTGTTGACAACCAGCCGCCCCTTCGTTATGAAATTGAGCTTGTGTTGCCTCGAGTCCAATATCC
*
7783368 TTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTA
66 CTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTA
* * * ** * *
7783413 TTTGTTGACAATCAGCCGCCCCTTTGTTGTGAAATTGATTTTGTGTTGTCTTGAGTCCAATATCC
1 TTTGTTGACAACCAGCCGCCCCTTCGTTATGAAATTGAGCTTGTGTTGCCTCGAGTCCAATATCC
*
7783478 CTCGCTGTGAAGTTGAAATTGGCTCTGAA
66 CTCGCTGTGAAGTTGAAATTGACTCTGAA
7783507 ACTGGGAAGC
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
110 82 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.35
Consensus pattern (110 bp):
TTTGTTGACAACCAGCCGCCCCTTCGTTATGAAATTGAGCTTGTGTTGCCTCGAGTCCAATATCC
CTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTA
Found at i:7784337 original size:67 final size:65
Alignment explanation
Indices: 7784220--7784539 Score: 223
Period size: 65 Copynumber: 4.8 Consensus size: 65
7784210 AAAATATCTG
* * * * **
7784220 TTGTTTCATGA-AAACGGTCT-AAGGGAAACAAAATTTTGTTTTAAGGGAAATAGATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTTAAGGGAAATAAATTCAAAGA-
7784283 TT
64 TT
*
7784285 TGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAT
7784350 T
65 T
* * * * * * *
7784351 TTGTTTCAAGGGAAAATGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAG
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA-----T--A-A-AT
* *
7784416 ACAAA-ACT
57 TCAAAGATT
* * * ** * *** * * * *
7784424 TAGTTCCAAAAGAAACTGTCTCAAGGGAGATGAAATTTGTTTCAAATAAAACATATTCAAATAAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
* * *
7784489 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA
7784540 CTGTCTCAAG
Statistics
Matches: 201, Mismatches: 41, Indels: 26
0.75 0.15 0.10
Matches are distributed among these distances:
64 5 0.02
65 88 0.44
66 13 0.06
67 32 0.16
68 12 0.06
70 1 0.00
72 1 0.00
73 44 0.22
74 5 0.02
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
Found at i:7784407 original size:36 final size:36
Alignment explanation
Indices: 7784350--7784662 Score: 239
Period size: 36 Copynumber: 9.0 Consensus size: 36
7784340 ATTCAAAGAT
* * *
7784350 TTTGTTTCAAGGGAAAATGTCTCAAGAGAGACGAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
7784386 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * * **
7784422 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAGATGAAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * *
7784459 TTTGTTTCAA-ATAAAACATAT-TC-----A-A-ATAA
1 TTTGTTTCAAGA-GAAAC-TGTCTCAAGAGAGACAAAA
7784488 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
7784524 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * * *
7784560 TTTATTTCAAGGGAAA-TGTTTTC-A-A-TG-----T
1 TTTGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAA
*
7784588 TTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA
1 TT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * * *
7784625 TTTTGTTTCAAGGGAATCTATCTCAAGCGAGATAAAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
7784662 T
1 T
7784663 CTTCTTTTTT
Statistics
Matches: 219, Mismatches: 34, Indels: 48
0.73 0.11 0.16
Matches are distributed among these distances:
28 4 0.02
29 33 0.15
30 5 0.02
31 1 0.00
32 1 0.00
33 1 0.00
34 2 0.01
35 5 0.02
36 104 0.47
37 61 0.28
38 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.29
Consensus pattern (36 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:7784482 original size:138 final size:138
Alignment explanation
Indices: 7784296--7784559 Score: 402
Period size: 138 Copynumber: 1.9 Consensus size: 138
7784286 GTGTTTCAAG
* ** * * *
7784296 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAG
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACAAATTCAAAGAATTTGTTTCAAG
* *
7784361 GGAAAATGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA
66 AGAAAATGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA
7784426 GTTCCAAA
131 GTTCCAAA
** * * *
7784434 AGAAACTGTCTCAAGGGAGATGAAATTTGTTTCAAATAAAACATATTCAAATAATTTGTTTCAAG
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACAAATTCAAAGAATTTGTTTCAAG
*
7784499 AGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
66 AGAAAATGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
7784560 TTTATTTCAA
Statistics
Matches: 112, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
138 112 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.26
Consensus pattern (138 bp):
AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACAAATTCAAAGAATTTGTTTCAAG
AGAAAATGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA
GTTCCAAA
Found at i:7784596 original size:101 final size:102
Alignment explanation
Indices: 7784384--7784662 Score: 346
Period size: 101 Copynumber: 2.7 Consensus size: 102
7784374 AGAGAGACGA
* * *
7784384 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAG
1 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTGTCTCAAG
* * * *
7784449 GGAGATGAAATTTGTTTCAAATAAAACATATTCAAAT
66 AGAGATAAAATTTATTTCAAAGAAAACATATTCAAAT
7784486 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGAGAAACTGTCTCAAG
1 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTGTCTCAAG
* * * ** *
7784550 AGAGACAAAATTTATTTCAAGGGAAATGTTTTC-AAT
66 AGAGATAAAATTTATTTCAAAGAAAACATATTCAAAT
** * * * * *
7784586 GTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAATCTATCTCAA
1 AATT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTGTCTCAA
*
7784651 GCGAGATAAAAT
65 GAGAGATAAAAT
7784663 CTTCTTTTTT
Statistics
Matches: 154, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
100 5 0.03
101 79 0.51
102 70 0.45
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (102 bp):
AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTGTCTCAAG
AGAGATAAAATTTATTTCAAAGAAAACATATTCAAAT
Found at i:7784649 original size:37 final size:37
Alignment explanation
Indices: 7784591--7784662 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
7784581 TCAATGTTTA
* *
7784591 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATTT
* * *
7784628 TGTTTCAAGGGAATCTATCTCAAGCGAGATAAAAT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAAT
7784663 CTTCTTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATTT
Found at i:7786181 original size:61 final size:64
Alignment explanation
Indices: 7786103--7786232 Score: 167
Period size: 69 Copynumber: 2.0 Consensus size: 64
7786093 TGTCTCTCTC
7786103 TTGATGCTCTATAATCTTC-GAA-TAG-AGTGATTCAGAAATGATTGTGCTTGATCAATCTCAT
1 TTGATGCTCTATAATCTTCGGAAGTAGTAGTGATTCAGAAATGATTGTGCTTGATCAATCTCAT
* * *
7786164 TTGATGCTCTATGATCTTCGAGTGAAGTGGTTCAGTGATTCGGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATAATCTTC--G-GAAGTAG-T-AGTGATTCAGAAATGATTGTGCTTGATCAATC
7786229 TCAT
61 TCAT
7786233 AGTTTGAATC
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
61 18 0.31
65 3 0.05
66 2 0.03
69 35 0.60
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.38
Consensus pattern (64 bp):
TTGATGCTCTATAATCTTCGGAAGTAGTAGTGATTCAGAAATGATTGTGCTTGATCAATCTCAT
Found at i:7789545 original size:18 final size:17
Alignment explanation
Indices: 7789513--7789558 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
7789503 TATTAATGGA
7789513 GTAAAAAAATAAAAAAT
1 GTAAAAAAATAAAAAAT
*
7789530 GTAAAAGAAATTAAAAA-
1 GTAAAA-AAATAAAAAAT
7789547 G-AATAAAAATAA
1 GTAA-AAAAATAA
7789559 TATGTACATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 7 0.28
17 9 0.36
18 9 0.36
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (17 bp):
GTAAAAAAATAAAAAAT
Found at i:7789782 original size:23 final size:23
Alignment explanation
Indices: 7789736--7789782 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
7789726 GAATATTAAG
*
7789736 AAAATATATATATAAAAACGTAT
1 AAAATATATATATAAAAACATAT
*
7789759 AAAATATA-ATATTAAAAATATAT
1 AAAATATATATA-TAAAAACATAT
7789782 A
1 A
7789783 TATACATAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (23 bp):
AAAATATATATATAAAAACATAT
Found at i:7789850 original size:18 final size:17
Alignment explanation
Indices: 7789816--7789858 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
7789806 TTAAAACATC
*
7789816 TATACATATATATATATA
1 TATA-ATATATAGATATA
7789834 TATAATATATAAGATATA
1 TATAATATAT-AGATATA
7789852 TATAATA
1 TATAATA
7789859 AAAATGATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
TATAATATATAGATATA
Found at i:7789879 original size:23 final size:22
Alignment explanation
Indices: 7789847--7789919 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 22
7789837 AATATATAAG
*
7789847 ATATATATAATAAAAATGATATA
1 ATATAAATAATAAAAA-GATATA
7789870 ATATAAATAA-AAAAAGGA-AT-
1 ATATAAATAATAAAAA-GATATA
*
7789890 ATAGTAAATAAATAAAAAAATATA
1 ATA-TAAAT-AATAAAAAGATATA
7789914 AT-TAAA
1 ATATAAA
7789920 ATATATATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
20 3 0.07
21 7 0.17
22 14 0.33
23 16 0.38
24 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.27
Consensus pattern (22 bp):
ATATAAATAATAAAAAGATATA
Found at i:7789880 original size:20 final size:18
Alignment explanation
Indices: 7789829--7789882 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
7789819 ACATATATAT
*
7789829 ATATATATAATATATAA-G
1 ATATATATAATA-AAAATG
7789847 ATATATATAATAAAAATG
1 ATATATATAATAAAAATG
7789865 ATATAATATAAATAAAAA
1 ATAT-ATAT-AATAAAAA
7789883 AAGGAATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 3 0.09
18 17 0.53
19 4 0.12
20 8 0.25
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (18 bp):
ATATATATAATAAAAATG
Found at i:7789911 original size:21 final size:21
Alignment explanation
Indices: 7789873--7789913 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7789863 TGATATAATA
*
7789873 TAAATAAAAAAAGGAATATAG
1 TAAATAAAAAAAGAAATATAG
7789894 TAAATAAATAAAA-AAATATA
1 TAAATAAA-AAAAGAAATATA
7789914 ATTAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (21 bp):
TAAATAAAAAAAGAAATATAG
Found at i:7791494 original size:17 final size:17
Alignment explanation
Indices: 7791465--7791502 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
7791455 TTTATTAAAT
*
7791465 AATTACGTTTAATTA-A
1 AATTACATTTAATTATA
7791481 AATTACATTATAATTATA
1 AATTACATT-TAATTATA
7791499 AATT
1 AATT
7791503 TTTAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (17 bp):
AATTACATTTAATTATA
Found at i:7793437 original size:172 final size:167
Alignment explanation
Indices: 7793119--7793463 Score: 593
Period size: 172 Copynumber: 2.0 Consensus size: 167
7793109 TTTTAGGGGC
7793119 CATTTTGTAAAATTTGAGGAATTTAAGGAATAAGAGTAAATTATTAAAAGTTGGTATACTATGCT
1 CATTTTGTAAAATTTGAGGAATTTAAGGAATAAGAGTAAATTATTAAAAGTTGGTATACTATGCT
*
7793184 TAGTATTAGTATGCTTAATTGGTTAAATTTGAAAGAATTTATAAATTTAGAGATTAAATTACAAA
66 TAGTATTAGTATGCTTAATTGGTTAAATTTAAAAGAATTTATAAATTTAGAGATTAAATTACAAA
*
7793249 GTTTGAAAATGTTGAGAACCAAATAGTAATTAGGGAT
131 GTTTGAAAATGTTGAGAACCAAATAGTAATTAGGAAT
7793286 CATTTTGTAAAATTTGAGGAATTTAAGGAATAAGAGTAAATTATTAAAAGTTGGTATACTATGCT
1 CATTTTGTAAAATTTGAGGAATTTAAGGAATAAGAGTAAATTATTAAAAGTTGGTATACTATGC-
*
7793351 GGAATTTAGTATT-GTATGCTTAATTGGTTAAATTTAAAAGAATTTATAAATTTAGGGATTAAAT
65 -----TTAGTATTAGTATGCTTAATTGGTTAAATTTAAAAGAATTTATAAATTTAGAGATTAAAT
7793415 TACAAAGTTTGAAAATGTTGAGAACCAAATAGTAATTAGGAAT
125 TACAAAGTTTGAAAATGTTGAGAACCAAATAGTAATTAGGAAT
*
7793458 CGTTTT
1 CATTTT
7793464 ATATTTGATG
Statistics
Matches: 168, Mismatches: 4, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
167 64 0.38
172 96 0.57
173 8 0.05
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.37
Consensus pattern (167 bp):
CATTTTGTAAAATTTGAGGAATTTAAGGAATAAGAGTAAATTATTAAAAGTTGGTATACTATGCT
TAGTATTAGTATGCTTAATTGGTTAAATTTAAAAGAATTTATAAATTTAGAGATTAAATTACAAA
GTTTGAAAATGTTGAGAACCAAATAGTAATTAGGAAT
Found at i:7795523 original size:31 final size:31
Alignment explanation
Indices: 7795486--7795922 Score: 379
Period size: 31 Copynumber: 13.7 Consensus size: 31
7795476 ATATCATTAC
*
7795486 TATTATTAAATCATTAAAGTTAACTACTAAT
1 TATTATTAAATCATTAAAGTTAACTAATAAT
*
7795517 TATTATTAAATCATTAAAGTTAACTACTAAT
1 TATTATTAAATCATTAAAGTTAACTAATAAT
*
7795548 TATTATTAAATCATTAAAGTTATCTAATAAT
1 TATTATTAAATCATTAAAGTTAACTAATAAT
* *
7795579 TAGTATCAAATCATTAAAGTTAACTAATAAT
1 TATTATTAAATCATTAAAGTTAACTAATAAT
*
7795610 T-TGTATCAAATCA-TAAAGTTAAATCATTAAAGTTAATT
1 TAT-TATTAAATCATTAAAGTT-AA-C--T-AA--TAA-T
* * *
7795648 ACTAATTATTATTAAATCATTAAAGTTATCTATTAAT
1 --T-ATTATTA--AAT-CATTAAAGTTAACTAATAAT
* * ** *
7795685 TATTATCAAATCTTCTAACTTTAA-TGAT--T
1 TATTATTAAATCAT-TAAAGTTAACTAATAAT
* * * * * * *
7795714 TAATAAT-AATGATTTAATA-ATGATTAAATCAT
1 TATTATTAAATCA-TTAA-AGTTAACT-AATAAT
7795746 TATTATTAAATCATTAAAGTTAAC-AACTAAT
1 TATTATTAAATCATTAAAGTTAACTAA-TAAT
*
7795777 TATTATTAAATCATTAAAGTTAACTACTAAT
1 TATTATTAAATCATTAAAGTTAACTAATAAT
7795808 TATTATTAAATCATTAAAGTTAACTAATAAT
1 TATTATTAAATCATTAAAGTTAACTAATAAT
* *
7795839 TAGTATTAAATCATTAAAGTTAATTAATAAT
1 TATTATTAAATCATTAAAGTTAACTAATAAT
* * *
7795870 TATTATCAAATCATTAAAATTAA-TTATAAT
1 TATTATTAAATCATTAAAGTTAACTAATAAT
*
7795900 TATTATCAAATCATTAAAGTTAA
1 TATTATTAAATCATTAAAGTTAA
7795923 AATTTAATAA
Statistics
Matches: 335, Mismatches: 43, Indels: 57
0.77 0.10 0.13
Matches are distributed among these distances:
28 8 0.02
29 7 0.02
30 39 0.12
31 216 0.64
32 22 0.07
33 4 0.01
34 7 0.02
35 3 0.01
37 4 0.01
38 4 0.01
40 2 0.01
41 5 0.01
42 1 0.00
43 3 0.01
44 3 0.01
45 7 0.02
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (31 bp):
TATTATTAAATCATTAAAGTTAACTAATAAT
Found at i:7795635 original size:13 final size:14
Alignment explanation
Indices: 7795617--7795645 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7795607 AATTTGTATC
7795617 AAATCA-TAAAGTT
1 AAATCATTAAAGTT
7795630 AAATCATTAAAGTT
1 AAATCATTAAAGTT
7795644 AA
1 AA
7795646 TTACTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (14 bp):
AAATCATTAAAGTT
Found at i:7795654 original size:44 final size:45
Alignment explanation
Indices: 7795491--7795675 Score: 141
Period size: 44 Copynumber: 4.1 Consensus size: 45
7795481 ATTACTATTA
* *
7795491 TTAAATCATTAAAGTTAACTACTAATTATTATTAAATCATTAAAG
1 TTAAATCATTAAAGTTAACTAATAATTATTATCAAATCATTAAAG
* * * * * *
7795536 TTAACT-ACT-AA-TTATTATTAAATCATTAAAGTTATCTAATAATT--AG
1 TTAAATCATTAAAGTTA--ACT-AATAATT--A-TTATCAAATCATTAAAG
7795582 TATCAAATCATTAAAGTTAACTAATAATT-TGTATCAAATCA-TAAAG
1 T-T-AAATCATTAAAGTTAACTAATAATTAT-TATCAAATCATTAAAG
* * *
7795628 TTAAATCATTAAAGTTAATTACTAATTATTATTAAATCATTAAAG
1 TTAAATCATTAAAGTTAACTAATAATTATTATCAAATCATTAAAG
7795673 TTA
1 TTA
7795676 TCTATTAATT
Statistics
Matches: 107, Mismatches: 17, Indels: 32
0.69 0.11 0.21
Matches are distributed among these distances:
42 3 0.03
43 2 0.02
44 38 0.36
45 28 0.26
46 6 0.06
47 2 0.02
48 19 0.18
49 4 0.04
50 2 0.02
51 3 0.03
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.41
Consensus pattern (45 bp):
TTAAATCATTAAAGTTAACTAATAATTATTATCAAATCATTAAAG
Found at i:7795725 original size:14 final size:14
Alignment explanation
Indices: 7795706--7795734 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7795696 CTTCTAACTT
7795706 TAATGATTTAATAA
1 TAATGATTTAATAA
7795720 TAATGATTTAATAA
1 TAATGATTTAATAA
7795734 T
1 T
7795735 GATTAAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (14 bp):
TAATGATTTAATAA
Found at i:7795753 original size:14 final size:14
Alignment explanation
Indices: 7795736--7795960 Score: 55
Period size: 14 Copynumber: 14.9 Consensus size: 14
7795726 TTTAATAATG
7795736 ATTAAATCATTATT
1 ATTAAATCATTATT
*
7795750 ATTAAATCATTA-A
1 ATTAAATCATTATT
*
7795763 AGTTAACAACTAATTATT
1 A-TT-A-AA-TCATTATT
*
7795781 ATTAAATCATTA-A
1 ATTAAATCATTATT
*
7795794 AGTTAACTACTAATTATT
1 A-TTAA--A-TCATTATT
*
7795812 ATTAAATCATTA-A
1 ATTAAATCATTATT
* *
7795825 AGTTAACTAATAATTAGT
1 A-TT-A--AATCATTATT
7795843 ATTAAATCATTAAAGTT
1 ATTAAATCATT--A-TT
*
7795860 AATT-AATAATTATT
1 -ATTAAATCATTATT
* **
7795874 ATCAAATCATTAAA
1 ATTAAATCATTATT
*
7795888 ATTAATTATAATTATT
1 ATTAA--ATCATTATT
* *
7795904 ATCAAATCATTA-A
1 ATTAAATCATTATT
* * *
7795917 AGTTAAAATTTAATAATG
1 A-TT-AAA--TCATTATT
7795935 ATTAAATCATTATT
1 ATTAAATCATTATT
*
7795949 GTTAAATCATTA
1 ATTAAATCATTA
7795961 AATTTTACCA
Statistics
Matches: 151, Mismatches: 33, Indels: 54
0.63 0.14 0.23
Matches are distributed among these distances:
13 6 0.04
14 72 0.48
15 9 0.06
16 19 0.13
17 38 0.25
18 7 0.05
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.42
Consensus pattern (14 bp):
ATTAAATCATTATT
Found at i:7795761 original size:123 final size:123
Alignment explanation
Indices: 7795486--7795922 Score: 436
Period size: 123 Copynumber: 3.4 Consensus size: 123
7795476 ATATCATTAC
*
7795486 TATTATTAAATCATTAAAGTTAACTACTAATTATTATTAAATCATTAAAGTTAACTACTAATTAT
1 TATTATTAAATCATTAAAGTTAATTACTAATTATTATTAAATCATTAAAGTTAACTACTAATTAT
* * * * *
7795551 TATTAAATCATTAAAGTTATCTAATAATTAGT-ATCAAATCATTAAAGTTAACTAATAATTTGT
66 TATCAAATCATTAAAGTTAACTAAT-ATTAATAAT-AAATCATTAAAGATAATTAATAA----T
*
7795614 ATCAAATCATAAAGTTAAATCATTAAAGTTAATTACTAATTATTATTAAATCATTAAAGTTATCT
1 -T---AT--T--A-TTAAATCATTAAAGTTAATTACTAATTATTATTAAATCATTAAAGTTAACT
* * ** * * *
7795679 ATTAATTATTATCAAATCTTCTAACTTTAA-TGAT-TTAATAAT-AATGATTTAATA-ATGATTA
57 ACTAATTATTATCAAATCAT-TAAAGTTAACTAATATTAATAATAAATCA-TTAA-AGATAATT-
*
7795740 AATCAT
118 AATAAT
**
7795746 TATTATTAAATCATTAAAGTTAACAACTAATTATTATTAAATCATTAAAGTTAACTACTAATTAT
1 TATTATTAAATCATTAAAGTTAATTACTAATTATTATTAAATCATTAAAGTTAACTACTAATTAT
* * * *
7795811 TATTAAATCATTAAAGTTAACTAATAATTAGTATTAAATCATTAAAGTTAATTAATAAT
66 TATCAAATCATTAAAGTTAACTAAT-ATTAATAATAAATCATTAAAGATAATTAATAAT
* * *
7795870 TATTATCAAATCATTAAAATTAATTA-TAATTATTATCAAATCATTAAAGTTAA
1 TATTATTAAATCATTAAAGTTAATTACTAATTATTATTAAATCATTAAAGTTAA
7795923 AATTTAATAA
Statistics
Matches: 255, Mismatches: 35, Indels: 42
0.77 0.11 0.13
Matches are distributed among these distances:
122 7 0.03
123 94 0.37
124 29 0.11
125 14 0.05
126 5 0.02
128 2 0.01
129 1 0.00
131 1 0.00
132 3 0.01
134 5 0.02
135 11 0.04
136 8 0.03
137 69 0.27
138 6 0.02
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (123 bp):
TATTATTAAATCATTAAAGTTAATTACTAATTATTATTAAATCATTAAAGTTAACTACTAATTAT
TATCAAATCATTAAAGTTAACTAATATTAATAATAAATCATTAAAGATAATTAATAAT
Found at i:7795945 original size:31 final size:28
Alignment explanation
Indices: 7795747--7795946 Score: 168
Period size: 31 Copynumber: 6.5 Consensus size: 28
7795737 TTAAATCATT
*
7795747 ATTATTAAATCATTAAAGTTAACAACTAATT
1 ATTATTAAATCATTAAAGTT---AACTAATA
*
7795778 ATTATTAAATCATTAAAGTTAACTACTAATT
1 ATTATTAAATCATTAAAGTT-A--ACTAATA
7795809 ATTATTAAATCATTAAAGTTAACTAATA
1 ATTATTAAATCATTAAAGTTAACTAATA
*
7795837 ATTAGTATTAAATCATTAAAGTTAATTAATA
1 A-T--TATTAAATCATTAAAGTTAACTAATA
* *
7795868 ATTATTATCAAATCATTAAAATTAA-TTATA
1 ATTA-T-T-AAATCATTAAAGTTAACTAATA
*
7795898 ATTATTATCAAATCATTAAAGTTAAAATTTAATA
1 ATTA-T-T-AAATCATTAAAGTT--AA-CTAATA
*
7795932 ATGATTAAATCATTA
1 ATTATTAAATCATTA
7795947 TTGTTAAATC
Statistics
Matches: 149, Mismatches: 8, Indels: 24
0.82 0.04 0.13
Matches are distributed among these distances:
28 9 0.06
29 3 0.02
30 29 0.19
31 97 0.65
32 3 0.02
33 1 0.01
34 7 0.05
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (28 bp):
ATTATTAAATCATTAAAGTTAACTAATA
Found at i:7795953 original size:154 final size:154
Alignment explanation
Indices: 7795628--7795946 Score: 376
Period size: 154 Copynumber: 2.1 Consensus size: 154
7795618 AATCATAAAG
* * * *
7795628 TTAAATCATTAAAGTTAATTACTAATTATTATTAAATCATTAAAGTTATCTATTAATTATTATCA
1 TTAAATCATTAAAGTTAACTACTAATTATTATTAAATCATTAAAGTTAACTAATAATTAGTATCA
* ** * * * * * * *
7795693 AATCTTCTAACTTTAATGATTTAATAATAATGATTTAATAATGATTAAATCATTATTATTAAATC
66 AATCATCTAAAGTTAATGATATAATAATAATAAATCAATAATAATTAAATAATTATTATCAAATC
* *
7795758 ATTAAAGTTAACAACTAATTATTA
131 ATTAAAGTTAACAACTAATAATGA
*
7795782 TTAAATCATTAAAGTTAACTACTAATTATTATTAAATCATTAAAGTTAACTAATAATTAGTATTA
1 TTAAATCATTAAAGTTAACTACTAATTATTATTAAATCATTAAAGTTAACTAATAATTAGTATCA
* * * *
7795847 AATCAT-TAAAGTTAATTA-ATAATTATTATCAAATCATTAA-AATTAATTATAATTATTATCAA
66 AATCATCTAAAGTTAATGATATAATAATAAT-AAATCAATAATAATTAA--ATAATTATTATCAA
*
7795909 ATCATTAAAGTTAA-AATTTAATAATGA
128 ATCATTAAAGTTAACAA-CTAATAATGA
7795936 TTAAATCATTA
1 TTAAATCATTA
7795947 TTGTTAAATC
Statistics
Matches: 139, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
152 13 0.09
153 17 0.12
154 109 0.78
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (154 bp):
TTAAATCATTAAAGTTAACTACTAATTATTATTAAATCATTAAAGTTAACTAATAATTAGTATCA
AATCATCTAAAGTTAATGATATAATAATAATAAATCAATAATAATTAAATAATTATTATCAAATC
ATTAAAGTTAACAACTAATAATGA
Found at i:7799149 original size:32 final size:32
Alignment explanation
Indices: 7799104--7799164 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
7799094 TTCCAACACC
* *
7799104 TTTCTTTTACTTTTGCTTTGTTTTCAATCCCA
1 TTTCTTTTACTTTTGATTTGTTTTAAATCCCA
* *
7799136 TTTCTTTTGCTTTTTATTTGTTTTAAATC
1 TTTCTTTTACTTTTGATTTGTTTTAAATC
7799165 AAATAAGTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.13, C:0.16, G:0.07, T:0.64
Consensus pattern (32 bp):
TTTCTTTTACTTTTGATTTGTTTTAAATCCCA
Found at i:7802074 original size:21 final size:21
Alignment explanation
Indices: 7802045--7802141 Score: 142
Period size: 21 Copynumber: 4.7 Consensus size: 21
7802035 ATTCTGACTA
* *
7802045 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTTCCTAAT
* * *
7802066 TCGCGTTGCGATTTACGTAA-
1 TCGCATTGCGATTTTCCTAAT
7802086 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCTAAT
7802107 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCTAAT
7802128 TCGCATTGCGATTT
1 TCGCATTGCGATTT
7802142 AGTAAATCGC
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.25
21 51 0.75
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.39
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCTAAT
Found at i:7802078 original size:41 final size:40
Alignment explanation
Indices: 7802044--7802141 Score: 133
Period size: 41 Copynumber: 2.4 Consensus size: 40
7802034 GATTCTGACT
*
7802044 ATCGCATTGCGATTTCCCAAATTCGCGTTGCGATTTACGTA
1 ATCGCATTGCGATTTCCCAAATTCGCATTGCGATTTAC-TA
* * *
7802085 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTTCCTA
1 ATCGCATTGCGATTTCCCAAATTCGCATTGCGA-TTTACTA
7802126 ATTCGCATTGCGATTT
1 A-TCGCATTGCGATTT
7802142 AGTAAATCGC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
41 33 0.65
42 18 0.35
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.39
Consensus pattern (40 bp):
ATCGCATTGCGATTTCCCAAATTCGCATTGCGATTTACTA
Found at i:7802152 original size:41 final size:40
Alignment explanation
Indices: 7802044--7802152 Score: 128
Period size: 41 Copynumber: 2.6 Consensus size: 40
7802034 GATTCTGACT
* * *
7802044 ATCGCATTGCGATTTCCCAAATTCGCGTTGCGATTTACGTA
1 ATCGCATTGCGATTTCCTAAA-TCGCATTGCGATTTACCTA
* *
7802085 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTTCCTA
1 ATCGCATTGCGA-TTTCCTAAATCGCATTGCGATTTACCTA
**
7802126 ATTCGCATTGCGATTTAGTAAATCGCA
1 A-TCGCATTGCGATTTCCTAAATCGCA
7802153 ACGAGATTCT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 40 0.69
42 18 0.31
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (40 bp):
ATCGCATTGCGATTTCCTAAATCGCATTGCGATTTACCTA
Found at i:7802211 original size:20 final size:20
Alignment explanation
Indices: 7802186--7802235 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
7802176 CTGAATTTCA
7802186 AATTCGCAACTCGATTTCTG
1 AATTCGCAACTCGATTTCTG
7802206 AATTCGCAACTCGATTTCTG
1 AATTCGCAACTCGATTTCTG
7802226 AATTCGCAAC
1 AATTCGCAAC
7802236 AGGTTTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (20 bp):
AATTCGCAACTCGATTTCTG
Found at i:7803308 original size:14 final size:14
Alignment explanation
Indices: 7803289--7803315 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7803279 AAAAAAGAAA
7803289 TCCCCAAAGAAAAG
1 TCCCCAAAGAAAAG
7803303 TCCCCAAAGAAAA
1 TCCCCAAAGAAAA
7803316 TACCACGGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.30, G:0.11, T:0.07
Consensus pattern (14 bp):
TCCCCAAAGAAAAG
Found at i:7805612 original size:20 final size:19
Alignment explanation
Indices: 7805584--7805638 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
7805574 CAATCATCTT
*
7805584 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGC-GA
*
7805604 AATGACTATCGCAATGCGA
1 AATGACTATCGCAACGCGA
**
7805623 AATGAAAATCGCAACG
1 AATGACTATCGCAACG
7805639 AGAGAATCGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:7805648 original size:14 final size:14
Alignment explanation
Indices: 7805629--7805718 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
7805619 GCGAAATGAA
7805629 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
7805643 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
7805662 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
7805676 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
7805695 AATCGCAACGAGGG
1 AATCGCAACGAGAG
7805709 AATCGCAACG
1 AATCGCAACG
7805719 CGAATTTAGT
Statistics
Matches: 61, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
14 29 0.48
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 20 0.33
ACGTcount: A:0.43, C:0.20, G:0.26, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:7805700 original size:19 final size:19
Alignment explanation
Indices: 7805591--7805702 Score: 100
Period size: 19 Copynumber: 6.4 Consensus size: 19
7805581 CTTAATGTCT
* **
7805591 ATCGCAACGCGGAAATGACT
1 ATCGCAATGC-GAAATGAAA
7805611 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
7805630 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
7805644 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
7805663 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
7805677 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
7805696 ATCGCAA
1 ATCGCAA
7805703 CGAGGGAATC
Statistics
Matches: 75, Mismatches: 7, Indels: 21
0.73 0.07 0.20
Matches are distributed among these distances:
14 20 0.27
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 34 0.45
20 9 0.12
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:7805734 original size:33 final size:33
Alignment explanation
Indices: 7805611--7805722 Score: 206
Period size: 33 Copynumber: 3.4 Consensus size: 33
7805601 GGAAATGACT
7805611 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
7805644 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
7805677 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
7805710 ATCGCAACGCGAA
1 ATCGCAATGCGAA
7805723 TTTAGTTTCG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 77 1.00
ACGTcount: A:0.44, C:0.20, G:0.25, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:7805740 original size:19 final size:19
Alignment explanation
Indices: 7805718--7805778 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
7805708 GAATCGCAAC
7805718 GCGAATTT-AGTTTCGCATT
1 GCGAATTTCA-TTTCGCATT
* *
7805737 GCGATTTTCATTTCGCGTT
1 GCGAATTTCATTTCGCATT
7805756 GC-AATTTTCATTTCGCATT
1 GCGAA-TTTCATTTCGCATT
7805775 GCGA
1 GCGA
7805779 TAGTCATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 1 0.03
19 32 0.91
20 2 0.06
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.43
Consensus pattern (19 bp):
GCGAATTTCATTTCGCATT
Found at i:7805787 original size:19 final size:19
Alignment explanation
Indices: 7805728--7805779 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
7805718 GCGAATTTAG
7805728 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
* *
7805747 TTTCGCGTTGCAATTTTCA
1 TTTCGCATTGCGATTTTCA
7805766 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
7805780 AGTCATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.46
Consensus pattern (19 bp):
TTTCGCATTGCGATTTTCA
Found at i:7805906 original size:14 final size:14
Alignment explanation
Indices: 7805887--7805923 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
7805877 CATCAATTAA
7805887 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
7805901 ACAAATCATCTTTT
1 ACAAATCAACTTTT
7805915 ACAAATCAA
1 ACAAATCAA
7805924 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:7807339 original size:21 final size:21
Alignment explanation
Indices: 7807273--7807339 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
7807263 GTGAATCGGG
*
7807273 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
7807293 CCTCTTCAACGATGATAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
7807315 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
7807336 CTCT
1 CTCT
7807340 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.19, G:0.36, T:0.25
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:7807833 original size:19 final size:19
Alignment explanation
Indices: 7807793--7807919 Score: 111
Period size: 19 Copynumber: 6.8 Consensus size: 19
7807783 TCTGGAACTT
*
7807793 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
**
7807814 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
7807833 AAAATCGCAACGAGAGAATG
1 AAAATCGCAACGCGA-AATG
*
7807853 AAAATCGCAACGCGAAACG
1 AAAATCGCAACGCGAAATG
7807872 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
* * *
7807886 AGAATCGCAATGCGAAATT
1 AAAATCGCAACGCGAAATG
*
7807905 AAAATCGCAATGCGA
1 AAAATCGCAACGCGA
7807920 TTATAGTTTC
Statistics
Matches: 89, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
14 10 0.11
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 44 0.49
20 18 0.20
21 11 0.12
ACGTcount: A:0.46, C:0.20, G:0.21, T:0.13
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:7807862 original size:39 final size:39
Alignment explanation
Indices: 7807793--7807890 Score: 142
Period size: 39 Copynumber: 2.5 Consensus size: 39
7807783 TCTGGAACTT
* * ** *
7807793 AAAATCGCAACGTGAAAAATGACTATCGCAACGCGAAATG
1 AAAATCGCAACGAG-AGAATGAAAATCGCAACGCGAAACG
7807833 AAAATCGCAACGAGAGAATGAAAATCGCAACGCGAAACG
1 AAAATCGCAACGAGAGAATGAAAATCGCAACGCGAAACG
7807872 AAAATCGCAACGAGAGAAT
1 AAAATCGCAACGAGAGAAT
7807891 CGCAATGCGA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 40 0.75
40 13 0.25
ACGTcount: A:0.48, C:0.19, G:0.21, T:0.11
Consensus pattern (39 bp):
AAAATCGCAACGAGAGAATGAAAATCGCAACGCGAAACG
Found at i:7807901 original size:33 final size:37
Alignment explanation
Indices: 7807817--7807914 Score: 123
Period size: 39 Copynumber: 2.7 Consensus size: 37
7807807 AAAAATGACT
7807817 ATCGCAACGCGAAATGAAAATCGCAACGAGAGAATGAAA
1 ATCGCAACGCGAAATGAAAATCGCAAC-AGAGAATG-AA
*
7807856 ATCGCAACGCGAAACGAAAATCGCAAC-GAG-A-G-A
1 ATCGCAACGCGAAATGAAAATCGCAACAGAGAATGAA
* *
7807889 ATCGCAATGCGAAATTAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
7807915 TGCGATTATA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
33 24 0.44
35 1 0.02
36 1 0.02
37 3 0.05
39 26 0.47
ACGTcount: A:0.47, C:0.20, G:0.21, T:0.11
Consensus pattern (37 bp):
ATCGCAACGCGAAATGAAAATCGCAACAGAGAATGAA
Found at i:7807950 original size:20 final size:20
Alignment explanation
Indices: 7807925--7807981 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
7807915 TGCGATTATA
*
7807925 GTTTCGCTTTGCGATTTTTG
1 GTTTCGCGTTGCGATTTTTG
7807945 GTTTCGCGTTGCGATTTTCT-
1 GTTTCGCGTTGCGATTTT-TG
*
7807965 -TTTTGCGTTGCGATTTT
1 GTTTCGCGTTGCGATTTT
7807982 CATTCTCTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 16 0.47
20 17 0.50
21 1 0.03
ACGTcount: A:0.05, C:0.16, G:0.25, T:0.54
Consensus pattern (20 bp):
GTTTCGCGTTGCGATTTTTG
Found at i:7807995 original size:20 final size:20
Alignment explanation
Indices: 7807946--7808007 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
7807936 CGATTTTTGG
7807946 TTTC-GCGTTGCGATTTTC-
1 TTTCTGCGTTGCGATTTTCA
*
7807964 TTTTTGCGTTGCGATTTTCA
1 TTTCTGCGTTGCGATTTTCA
7807984 TTCTCT-CGTTGCGATTTTCA
1 TT-TCTGCGTTGCGATTTTCA
7808004 TTTC
1 TTTC
7808008 AACCAAAAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
18 3 0.08
19 16 0.41
20 18 0.46
21 2 0.05
ACGTcount: A:0.08, C:0.21, G:0.18, T:0.53
Consensus pattern (20 bp):
TTTCTGCGTTGCGATTTTCA
Found at i:7808216 original size:94 final size:94
Alignment explanation
Indices: 7808098--7808473 Score: 550
Period size: 94 Copynumber: 4.1 Consensus size: 94
7808088 ATGGATTGCA
* *
7808098 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCATAGTATTAAAGAATACATAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACATAGT
* *
7808162 TTAGCAGTATTGGCAGTAAACGAACAAAT
66 TTAGCAGAATTGGCAGCAAACGAACAAAT
* *
7808191 TTACTTTCAACCAAAAGATAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACATAGT
7808256 TTAGCAGAATTGGCAGC-AACAGAACAAAT
66 TTAGCAGAATTGGCAGCAAAC-GAACAAAT
7808285 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACATAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACATAGT
* * *
7808350 TTAGTAGAATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAAACGAACAAAT
* *
7808379 TTAC-TTCAACCAAAAGATAAAACAAAAGACAAATACTAACTTCACAGTGTT-AATAA-ACA-A-
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACATAG
* * * *
7808439 TTCAGCAGTATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAAACGAACAAAT
7808469 TTACT
1 TTACT
7808474 AAGCAATCTA
Statistics
Matches: 262, Mismatches: 16, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
90 31 0.12
91 1 0.00
92 3 0.01
93 29 0.11
94 196 0.75
95 2 0.01
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACATAGT
TTAGCAGAATTGGCAGCAAACGAACAAAT
Found at i:7808501 original size:18 final size:18
Alignment explanation
Indices: 7808478--7808527 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
7808468 TTTACTAAGC
7808478 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
7808496 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
7808514 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
7808528 TACGAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:7810209 original size:20 final size:20
Alignment explanation
Indices: 7810174--7810236 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
7810164 TTTTGGATGA
7810174 AATGAAAATC-CTAACGAGAG
1 AATGAAAATCGC-AACGAGAG
*
7810194 AATGAAAATCGCAACGCG-G
1 AATGAAAATCGCAACGAGAG
**
7810213 AAATGACTATCGCAACGAGAG
1 -AATGAAAATCGCAACGAGAG
7810234 AAT
1 AAT
7810237 CGCAACGCGA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 1 0.03
20 33 0.92
21 2 0.06
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:7810277 original size:19 final size:19
Alignment explanation
Indices: 7810261--7810368 Score: 99
Period size: 20 Copynumber: 5.5 Consensus size: 19
7810251 AAAATCGCAA
**
7810261 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
7810280 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
* *
7810299 TGCGATTTTCATTTCTCTCAT
1 TGCGATTTTCA-TT-TCGCGT
** *
7810320 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTCA-TTTCGCGT
**
7810340 TGCGATTTTCATTTTCATGT
1 TGCGATTTTCA-TTTCGCGT
7810360 TGCGATTTT
1 TGCGATTTT
7810369 AAGTTTAGAA
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
19 28 0.37
20 31 0.41
21 16 0.21
ACGTcount: A:0.12, C:0.18, G:0.20, T:0.50
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:7810363 original size:40 final size:40
Alignment explanation
Indices: 7810277--7810365 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 40
7810267 TTTGGTTTCG
**
7810277 CGTTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCTCT
1 CGTTGCGATAGTCATTTCGCGTTGCGATTTTCATTTCTCT
* *
7810317 CATTGCGATAGTCATTTTCGTGTTGCGATTTTCATTT-TCAT
1 CGTTGCGATAGTCA-TTTCGCGTTGCGATTTTCATTTCTC-T
7810358 -GTTGCGAT
1 CGTTGCGAT
7810366 TTTAAGTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
40 20 0.48
41 22 0.52
ACGTcount: A:0.13, C:0.19, G:0.19, T:0.48
Consensus pattern (40 bp):
CGTTGCGATAGTCATTTCGCGTTGCGATTTTCATTTCTCT
Found at i:7810366 original size:20 final size:20
Alignment explanation
Indices: 7810272--7810368 Score: 108
Period size: 20 Copynumber: 4.8 Consensus size: 20
7810262 GCGATTTTGG
*
7810272 TTTCGCGTTGCGATTTTCA-
1 TTTCGTGTTGCGATTTTCAT
*
7810291 TTTCGCGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTCAT
* **
7810311 TTCTC-TCATTGCGATAGTCAT
1 TT-TCGT-GTTGCGATTTTCAT
7810332 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTCAT
*
7810352 TTTCATGTTGCGATTTT
1 TTTCGTGTTGCGATTTT
7810369 AAGTTTAGAA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
19 19 0.29
20 31 0.47
21 16 0.24
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.51
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTCAT
Found at i:7810942 original size:20 final size:20
Alignment explanation
Indices: 7810919--7811176 Score: 169
Period size: 20 Copynumber: 12.7 Consensus size: 20
7810909 CGATAGTCAG
7810919 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * *
7810939 ATTCGCGTTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGT
*
7810959 AATTCGCATTGCAATTTACGT
1 -ATTCGCATTGCGATTTACGT
* *
7810980 AATCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * *
7811000 ATTCGCATTGCGAATTAGGAA
1 ATTCGCATTGCGATTTACG-T
* ** * * *
7811021 AATCGCAACGTGA-ATACAT
1 ATTCGCATTGCGATTTACGT
* * * * *
7811040 AAATCGCAATGCGAATTAGGAA
1 -ATTCGCATTGCGATTTACG-T
* * * * *
7811062 AATCGCAATGCGAATTAGGAAA
1 ATTCGCATTGCGATTTACG--T
7811084 ATT-GCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * *
7811103 ATTCGTATTGCGATTTTCCGA
1 ATTCGCATTGCGA-TTTACGT
7811124 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
7811144 AATCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
7811164 ATTCGCATTGCGA
1 ATTCGCATTGCGA
7811177 ATTAGGAAAA
Statistics
Matches: 186, Mismatches: 44, Indels: 16
0.76 0.18 0.07
Matches are distributed among these distances:
19 3 0.02
20 104 0.56
21 75 0.40
22 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:7810966 original size:41 final size:41
Alignment explanation
Indices: 7810919--7811176 Score: 191
Period size: 41 Copynumber: 6.3 Consensus size: 41
7810909 CGATAGTCAG
* * * *
7810919 ATTCGCATTGCGATTTACGTATTCGCGTTGCGATTTTCCTA
1 ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACATA
* * *
7810960 ATTCGCATTGCAATTTACGTAATCGCGTTGCGATTTACGT-
1 ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACATA
* * * ** * *
7811000 ATTCGCATTGCGAATTAGGAAAATCGCAACGTGA-ATACATA
1 ATTCGCATTGCGATTTACG-TAATCGCATTGCGATTTACATA
* * * * * * * * *
7811041 AATCGCAATGCGAATTAGGAAAATCGCAATGCGAATTAGGAAA
1 ATTCGCATTGCGATTTACG-TAATCGCATTGCGATTTA-CATA
* * * **
7811084 ATT-GCATTGCGATTTACGTATTCGTATTGCGATTTTCCGA
1 ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACATA
* *
7811124 ATTCGCATTGCGATTTACGTAATCGCGTTGCGATTTACGT-
1 ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACATA
7811164 ATTCGCATTGCGA
1 ATTCGCATTGCGA
7811177 ATTAGGAAAA
Statistics
Matches: 172, Mismatches: 40, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
40 37 0.22
41 117 0.68
42 14 0.08
43 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (41 bp):
ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACATA
Found at i:7811035 original size:21 final size:21
Alignment explanation
Indices: 7811002--7811095 Score: 111
Period size: 21 Copynumber: 4.5 Consensus size: 21
7810992 ATTTACGTAT
*
7811002 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* * *
7811023 TCGCAACGTGAA-TA-CATAAA
1 TCGCAATGCGAATTAGGA-AAA
7811043 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
7811064 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* *
7811085 TTGCATTGCGA
1 TCGCAATGCGA
7811096 TTTACGTATT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
19 1 0.02
20 15 0.25
21 44 0.72
22 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:7811191 original size:61 final size:62
Alignment explanation
Indices: 7810962--7811219 Score: 182
Period size: 61 Copynumber: 4.2 Consensus size: 62
7810952 TTTTCCTAAT
* * * * * * * * *
7810962 TCGCATTGCAATTTACGTAATCGCGTTGCGATTTACG-TATTCGCATTGCGAATTAGGAAAA
1 TCGCATTGCGATTTACGTATTCGCATTGCGAATTAGGAAAATCGCAATGCGAATTACGAAAA
** * * * * * *
7811023 TCGCAACGTGA-ATACATAAATCGCAATGCGAATTAGGAAAATCGCAATGCGAATTAGGAAAA
1 TCGCATTGCGATTTACGT-ATTCGCATTGCGAATTAGGAAAATCGCAATGCGAATTACGAAAA
* * * ** * * * *
7811085 TTGCATTGCGATTTACGTATTCGTATTGCGATTTTCCG-AATTCGCATTGCGATTTACG-TAA
1 TCGCATTGCGATTTACGTATTCGCATTGCGA-ATTAGGAAAATCGCAATGCGAATTACGAAAA
* * ** *
7811146 TCGCGTTGCGATTTACGTATTCGCATTGCGAATTAGGAAAATCGCAACGCGAATTTGGGAAA
1 TCGCATTGCGATTTACGTATTCGCATTGCGAATTAGGAAAATCGCAATGCGAATTACGAAAA
*
7811208 TCGCAATGCGAT
1 TCGCATTGCGAT
7811220 AGTCAGAATC
Statistics
Matches: 146, Mismatches: 45, Indels: 11
0.72 0.22 0.05
Matches are distributed among these distances:
60 7 0.05
61 66 0.45
62 66 0.45
63 7 0.05
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (62 bp):
TCGCATTGCGATTTACGTATTCGCATTGCGAATTAGGAAAATCGCAATGCGAATTACGAAAA
Found at i:7811197 original size:21 final size:21
Alignment explanation
Indices: 7811173--7811218 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
7811163 TATTCGCATT
7811173 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
7811194 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
7811215 GCGA
1 GCGA
7811219 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:7812382 original size:32 final size:31
Alignment explanation
Indices: 7812346--7812414 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 31
7812336 TTAAAAAACA
*
7812346 TAAGATACAA-CTACTTTCATTTTTTATTTAAT
1 TAAGATACAATC-ACTTTCATTTTTAATTT-AT
* *
7812378 TAAGATATAATCACTTTCGTTTTTAATTTAT
1 TAAGATACAATCACTTTCATTTTTAATTTAT
7812409 TAAGAT
1 TAAGAT
7812415 GTGGTCATCA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 8 0.24
32 24 0.73
33 1 0.03
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.49
Consensus pattern (31 bp):
TAAGATACAATCACTTTCATTTTTAATTTAT
Found at i:7812611 original size:22 final size:22
Alignment explanation
Indices: 7812571--7812623 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 22
7812561 TAAATAAAAA
7812571 ATAAAAATATTTAATAAGTTAAT
1 ATAAAAATATTT-ATAAGTTAAT
7812594 ATAAAAATATTT-TGAAGTTAAT
1 ATAAAAATATTTAT-AAGTTAAT
7812616 ATATAAAA
1 ATA-AAAA
7812624 AATATTATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 1 0.04
22 11 0.39
23 16 0.57
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.38
Consensus pattern (22 bp):
ATAAAAATATTTATAAGTTAAT
Found at i:7812634 original size:25 final size:24
Alignment explanation
Indices: 7812571--7812639 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 24
7812561 TAAATAAAAA
7812571 ATAAAAATATTTAAT-AAGTT-A-AT
1 ATAAAAATA-TT-ATGAAGTTAATAT
*
7812594 ATAAAAATATTTTGAAGTTAATAT
1 ATAAAAATATTATGAAGTTAATAT
*
7812618 ATAAAAAATATTATGAATTTAA
1 AT-AAAAATATTATGAAGTTAA
7812640 GTATTTATAC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
21 1 0.03
22 7 0.18
23 10 0.26
24 4 0.10
25 17 0.44
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (24 bp):
ATAAAAATATTATGAAGTTAATAT
Found at i:7814381 original size:14 final size:13
Alignment explanation
Indices: 7814357--7814564 Score: 57
Period size: 12 Copynumber: 16.2 Consensus size: 13
7814347 TACATAATTA
7814357 TTATTATTTTTAT
1 TTATTATTTTTAT
7814370 TTATTCATTTTTAT
1 TTATT-ATTTTTAT
***
7814384 TT-TTCGGTTT-T
1 TTATTATTTTTAT
7814395 TTATTA--TTTAT
1 TTATTATTTTTAT
* *
7814406 TTCTT-TTTATAT
1 TTATTATTTTTAT
* *
7814418 TTACTCTTTTT-T
1 TTATTATTTTTAT
* *
7814430 TCCATTATATTTATT
1 T-TATTATTTTTA-T
7814445 TTATTACTGTATTTAT
1 TTATTA-T-T-TTTAT
7814461 TT-TTACTTTTTA-
1 TTATTA-TTTTTAT
* * *
7814473 TTCTTGTTCTTAT
1 TTATTATTTTTAT
*
7814486 TTATT-TATTTAT
1 TTATTATTTTTAT
* *
7814498 GGTATATATTATTA-
1 -TTAT-TATTTTTAT
7814512 TTATT-TTCTTATAT
1 TTATTATT-TT-TAT
*
7814526 TATATTATTTATAT
1 T-TATTATTTTTAT
*
7814540 TTA-TATTTATA-
1 TTATTATTTTTAT
7814551 TT-TTATTTTTAT
1 TTATTATTTTTAT
7814563 TT
1 TT
7814565 CATTTTTTAT
Statistics
Matches: 144, Mismatches: 27, Indels: 49
0.65 0.12 0.22
Matches are distributed among these distances:
10 3 0.02
11 19 0.13
12 38 0.26
13 37 0.26
14 21 0.15
15 17 0.12
16 5 0.03
17 4 0.03
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.70
Consensus pattern (13 bp):
TTATTATTTTTAT
Found at i:7814414 original size:17 final size:17
Alignment explanation
Indices: 7814392--7814491 Score: 59
Period size: 17 Copynumber: 5.9 Consensus size: 17
7814382 ATTTTTCGGT
7814392 TTTTTATTATTTATTTC
1 TTTTTATTATTTATTTC
*
7814409 TTTTTA-TATTTA-CTC
1 TTTTTATTATTTATTTC
7814424 TTTTT-TTCCATTATATTT-
1 TTTTTATT--ATT-TATTTC
* * *
7814442 ATTTTATTACTGTATTTA
1 TTTTTATTA-TTTATTTC
7814460 TTTTTACTT-TTTA-TTC
1 TTTTTA-TTATTTATTTC
* *
7814476 TTGTTCTTATTTATTT
1 TTTTTATTATTTATTT
7814492 ATTTATGGTA
Statistics
Matches: 63, Mismatches: 9, Indels: 22
0.67 0.10 0.23
Matches are distributed among these distances:
15 10 0.16
16 16 0.25
17 20 0.32
18 12 0.19
19 5 0.08
ACGTcount: A:0.18, C:0.09, G:0.02, T:0.71
Consensus pattern (17 bp):
TTTTTATTATTTATTTC
Found at i:7814427 original size:15 final size:17
Alignment explanation
Indices: 7814392--7814428 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
7814382 ATTTTTCGGT
*
7814392 TTTTTATTATTTATTTC
1 TTTTTATTATTTATCTC
7814409 TTTTTA-TATTTA-CTC
1 TTTTTATTATTTATCTC
7814424 TTTTT
1 TTTTT
7814429 TTCCATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 6 0.32
17 6 0.32
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTATTATTTATCTC
Found at i:7814542 original size:6 final size:6
Alignment explanation
Indices: 7814520--7814564 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
7814510 TATTATTTTC
*
7814520 TTATAT TATATTAT TTATAT TTATAT TTATAT TT-TAT TTTTAT TT
1 TTATAT T-TA-TAT TTATAT TTATAT TTATAT TTATAT TTATAT TT
7814565 CATTTTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.14
6 23 0.64
7 4 0.11
8 4 0.11
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTATAT
Found at i:7814549 original size:21 final size:20
Alignment explanation
Indices: 7814483--7814586 Score: 66
Period size: 18 Copynumber: 5.5 Consensus size: 20
7814473 TTCTTGTTCT
**
7814483 TATTTAT-TTATTTATGGTA
1 TATTTATATTATTTATCTTA
7814502 TATATTATTATTATTT-TCTTA
1 TAT-TTA-TATTATTTATCTTA
*
7814523 TA-TTATATTATTTATATTTA
1 TATTTATATTATTTAT-CTTA
*
7814543 TATTTATA-T-TTTAT-TTT
1 TATTTATATTATTTATCTTA
7814560 TATTTCAT-TT-TTTATCTT-
1 TATTT-ATATTATTTATCTTA
7814578 TATTT-TATT
1 TATTTATATT
7814587 TGCTTCCCTA
Statistics
Matches: 71, Mismatches: 4, Indels: 22
0.73 0.04 0.23
Matches are distributed among these distances:
16 1 0.01
17 9 0.13
18 21 0.30
19 14 0.20
20 9 0.13
21 11 0.15
22 6 0.08
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (20 bp):
TATTTATATTATTTATCTTA
Found at i:7814583 original size:12 final size:11
Alignment explanation
Indices: 7814506--7814587 Score: 58
Period size: 11 Copynumber: 7.1 Consensus size: 11
7814496 ATGGTATATA
*
7814506 TTATTATTATT
1 TTATTTTTATT
* *
7814517 TTCTTATATTATA
1 TTATT-T-TTATT
*
7814530 TTATTTATATT
1 TTATTTTTATT
*
7814541 TATATTTATATT
1 T-TATTTTTATT
7814553 TTATTTTTATT
1 TTATTTTTATT
*
7814564 TCATTTTTTATCT
1 TTA-TTTTTAT-T
7814577 TTA-TTTTATT
1 TTATTTTTATT
7814587 T
1 T
7814588 GCTTCCCTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
10 2 0.04
11 25 0.44
12 19 0.33
13 11 0.19
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:7818782 original size:95 final size:95
Alignment explanation
Indices: 7818664--7818845 Score: 249
Period size: 95 Copynumber: 1.9 Consensus size: 95
7818654 ATATTATTTA
* * *
7818664 TATACAATGAAGCTTGAGTTGTCCCTCT-AGAGAAATTGGTTAAACGCCCCGGCTCTATGGATAA
1 TATACAATAAAGCTTGAGCTGTCCCTCTAAG-GAAATTGGTTAAACGCCCCGGATCTATGGATAA
* *
7818728 TATTCAGCTAGCCTGATAAAGGTGATTATAC
65 GATTCAGCTAACCTGATAAAGGTGATTATAC
* * * *
7818759 TATATAATAAAGCTTGAGCTGTCCCTCTAAGGCAATTGGTTAAACGCCCTGGATTTATGGATAAG
1 TATACAATAAAGCTTGAGCTGTCCCTCTAAGGAAATTGGTTAAACGCCCCGGATCTATGGATAAG
* *
7818824 ATTCAGTTAACTTGATAAAGGT
66 ATTCAGCTAACCTGATAAAGGT
7818846 ATTTACATAT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
95 73 0.97
96 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (95 bp):
TATACAATAAAGCTTGAGCTGTCCCTCTAAGGAAATTGGTTAAACGCCCCGGATCTATGGATAAG
ATTCAGCTAACCTGATAAAGGTGATTATAC
Found at i:7820102 original size:72 final size:72
Alignment explanation
Indices: 7820024--7820521 Score: 743
Period size: 72 Copynumber: 6.9 Consensus size: 72
7820014 TACAGATGAT
* * *
7820024 TTGTCTCACTTGAGATTGTTTTACTTGAAAGAATATTTATTTCCCTTGAGATTGTCATTCTTAAA
1 TTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTTAAGATTGTCATTCTTAAA
7820089 ACAGACC
66 ACAGACC
* *
7820096 TTGTCTCACTTGAGACTATTTTACTTGAAAGAAGATTTATTTCCCTTGAGATTGTCATTCTTAAA
1 TTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTTAAGATTGTCATTCTTAAA
7820161 ACAGACC
66 ACAGACC
*
7820168 TTGTCTCACTTGAGACTGTTTTACTTGAAAGAATATTTATTTCCCTTAAGATTGTCATTCTTAAA
1 TTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTTAAGATTGTCATTCTTAAA
7820233 ACA-AGCC
66 ACAGA-CC
*
7820240 TTGTCTTC-CTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTTGAGATTGTCATTCTTAA
1 TTGTC-TCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTTAAGATTGTCATTCTTAA
* *
7820304 AACGGACT
65 AACAGACC
* * **
7820312 TTGTCTCACTTGAGACTGTTTTACTTGAAAGAGGATTTATTTCCCTCAAGATTGTTTTTCTTAAA
1 TTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTTAAGATTGTCATTCTTAAA
*
7820377 ACAGACT
66 ACAGACC
* * **
7820384 TTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGATTTATTTCCCTCAAGATTGTTTTTCTTAAA
1 TTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTTAAGATTGTCATTCTTAAA
*
7820449 ACAGACT
66 ACAGACC
* * * *
7820456 TTGTCTCACTTGAGGCTGTTTTACTCGAAAGAAGATTTATTTCCCTCAAGATT-T-TTTCTTAAA
1 TTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTTAAGATTGTCATTCTTAAA
7820519 ACA
66 ACA
7820522 AGATTTTATC
Statistics
Matches: 403, Mismatches: 19, Indels: 10
0.93 0.04 0.02
Matches are distributed among these distances:
70 12 0.03
71 4 0.01
72 384 0.95
73 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (72 bp):
TTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTTAAGATTGTCATTCTTAAA
ACAGACC
Found at i:7820671 original size:37 final size:37
Alignment explanation
Indices: 7820628--7820700 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
7820618 CCTTGAAATG
7820628 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
1 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
7820665 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
7820701 TAACATTGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (37 bp):
AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
Found at i:7820733 original size:101 final size:101
Alignment explanation
Indices: 7820524--7820929 Score: 661
Period size: 101 Copynumber: 4.0 Consensus size: 101
7820514 TTAAAACAAG
* * * * *
7820524 ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAAATTTTTTTTGTCTCCCTTGAGATAGTGTC
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAA----TTTTGTCTCCCTTGAGACAGTTTC
7820589 TCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
62 TCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
* * *
7820629 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCT
7820694 TGAAACAT-AACATTGAAAACATTTCCCTTGAAATGA
65 TGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
*
7820730 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGGCAGTTTCTCTT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
7820795 GAAACATAAACATTGAAAACATTTCCCTTGAAATGA
66 GAAACATAAACATTGAAAACATTTCCCTTGAAATGA
7820831 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
*
7820896 GAAACATAAACTTTGAAAACAGTTTCCCTTGAAA
66 GAAACATAAACATTGAAAACA-TTTCCCTTGAAA
7820930 CAAAACCTTT
Statistics
Matches: 285, Mismatches: 13, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
100 37 0.13
101 171 0.60
102 45 0.16
105 29 0.10
106 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (101 bp):
ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
GAAACATAAACATTGAAAACATTTCCCTTGAAATGA
Found at i:7820762 original size:36 final size:36
Alignment explanation
Indices: 7820715--7820800 Score: 118
Period size: 36 Copynumber: 2.4 Consensus size: 36
7820705 ATTGAAAACA
** * *
7820715 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
*
7820751 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGGCAG
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
*
7820787 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
7820801 TAAACATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
Found at i:7820863 original size:36 final size:36
Alignment explanation
Indices: 7820816--7820901 Score: 127
Period size: 36 Copynumber: 2.4 Consensus size: 36
7820806 ATTGAAAACA
** * *
7820816 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
7820852 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
*
7820888 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
7820902 TAAACTTTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
Found at i:7820955 original size:29 final size:29
Alignment explanation
Indices: 7820884--7820968 Score: 100
Period size: 30 Copynumber: 2.9 Consensus size: 29
7820874 CTCCCTTGAG
7820884 ACAGTTTCTCTTGAAACATAAACTTTGAAA
1 ACAGTTTCTCTTGAAACA-AAACTTTGAAA
* *
7820914 ACAGTTTCCCTTGAAACAAAACCTTTGAAT
1 ACAGTTTCTCTTGAAACAAAA-CTTTGAAA
** *
7820944 A-TTTTTCTCTTGAAACAAAATTTTG
1 ACAGTTTCTCTTGAAACAAAACTTTG
7820969 CCTCCCTGGA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.08
29 19 0.40
30 25 0.52
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (29 bp):
ACAGTTTCTCTTGAAACAAAACTTTGAAA
Found at i:7821034 original size:37 final size:37
Alignment explanation
Indices: 7820993--7821137 Score: 176
Period size: 38 Copynumber: 4.0 Consensus size: 37
7820983 GTTTCTCTTG
*
7820993 AAAAA-AAATCCTTTGAAATCGTTTTCTCTTGAAACAC
1 AAAAAGAAAACCTTTGAAATCG-TTTCTCTTGAAACAC
* *
7821030 ---AA-AAAACCTTTGAAATCGTTTCTCTGGGAACAC
1 AAAAAGAAAACCTTTGAAATCGTTTCTCTTGAAACAC
* *
7821063 AAAAAGAAAACCTTTGAAATTGTTTCTCTTGAAACAAA
1 AAAAAGAAAACCTTTGAAATCGTTTCTCTTGAAAC-AC
7821101 AAAAAGAAAACCTTTGAACAT-GTTTCTCTTGAAACAC
1 AAAAAGAAAACCTTTGAA-ATCGTTTCTCTTGAAACAC
7821138 CAAAGCTTTG
Statistics
Matches: 94, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
33 13 0.14
34 17 0.18
36 2 0.02
37 27 0.29
38 33 0.35
39 2 0.02
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (37 bp):
AAAAAGAAAACCTTTGAAATCGTTTCTCTTGAAACAC
Found at i:7821114 original size:38 final size:35
Alignment explanation
Indices: 7820993--7821136 Score: 159
Period size: 37 Copynumber: 4.0 Consensus size: 35
7820983 GTTTCTCTTG
*
7820993 AAAAAAAATCCTTTGAAATCGTTTTCTCTTGAAAC-
1 AAAAAAAAACCTTTGAAATCG-TTTCTCTTGAAACA
* *
7821028 -ACAAAAAACCTTTGAAATCGTTTCTCTGGGAACACA
1 AAAAAAAAACCTTTGAAATCGTTTCTCT-TGAA-ACA
* *
7821064 AAAAGAAAACCTTTGAAATTGTTTCTCTTGAAACAAA
1 AAAAAAAAACCTTTGAAATCGTTTCTCTTGAAAC--A
7821101 AAAAAGAAAACCTTTGAACAT-GTTTCTCTTGAAACA
1 AAAAA-AAAACCTTTGAA-ATCGTTTCTCTTGAAACA
7821137 CCAAAGCTTT
Statistics
Matches: 93, Mismatches: 8, Indels: 15
0.80 0.07 0.13
Matches are distributed among these distances:
33 7 0.08
34 21 0.23
35 4 0.04
36 4 0.04
37 29 0.31
38 26 0.28
39 2 0.02
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.29
Consensus pattern (35 bp):
AAAAAAAAACCTTTGAAATCGTTTCTCTTGAAACA
Found at i:7822693 original size:29 final size:29
Alignment explanation
Indices: 7822661--7822719 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
7822651 TCTTTTTCTC
7822661 TTTA-TATTTATT-TTATTACTGTATTTATT
1 TTTACTATTTATTCTTATT-CT-TATTTATT
* *
7822690 TTTACTTTTTATTCTTGTTCTTATTTATT
1 TTTACTATTTATTCTTATTCTTATTTATT
7822719 T
1 T
7822720 ATTTATGGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 13 0.50
30 9 0.35
31 4 0.15
ACGTcount: A:0.19, C:0.07, G:0.03, T:0.71
Consensus pattern (29 bp):
TTTACTATTTATTCTTATTCTTATTTATT
Found at i:7822740 original size:3 final size:3
Alignment explanation
Indices: 7822732--7822786 Score: 64
Period size: 3 Copynumber: 19.3 Consensus size: 3
7822722 TTATGGTATA
7822732 TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT TA- TAT TATT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
*
7822775 T-T TAT TTT TAT T
1 TAT TAT TAT TAT T
7822787 TCATTTTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 8 0.17
3 35 0.76
4 3 0.07
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (3 bp):
TAT
Found at i:7822792 original size:18 final size:17
Alignment explanation
Indices: 7822740--7822810 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 17
7822730 TATATTATTA
*
7822740 TTATTATTA-TTATTATT
1 TTATTTTTATTTATT-TT
7822757 TTATTATATTATTTATTTT
1 TTATT-T-TTATTTATTTT
7822776 TTATTTTTATTTCATTTT
1 TTATTTTTATTT-ATTTT
*
7822794 TTATCTTTATTTTATTT
1 TTATTTTTA-TTTATTT
7822811 ATTTTATTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
17 11 0.23
18 18 0.38
19 13 0.28
20 5 0.11
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (17 bp):
TTATTTTTATTTATTTT
Found at i:7822813 original size:9 final size:9
Alignment explanation
Indices: 7822710--7822819 Score: 61
Period size: 9 Copynumber: 11.7 Consensus size: 9
7822700 ATTCTTGTTC
7822710 TTATTTA-T
1 TTATTTATT
7822718 TTATTTATGGT
1 TTATTTAT--T
*
7822729 ATATATTATT
1 TTAT-TTATT
7822739 ATTA-TTATT
1 -TTATTTATT
7822748 ATTA-TTATT
1 -TTATTTATT
*
7822757 TTA-TTATA
1 TTATTTATT
7822765 TTATTTA-T
1 TTATTTATT
7822773 TT-TTTATTT
1 TTATTTA-TT
7822782 TTATTTCATTTT
1 TTATTT-A--TT
7822794 TTATCTTTATT
1 TTA--TTTATT
7822805 TTATTTATT
1 TTATTTATT
7822814 TTATTT
1 TTATTT
7822820 GCTTCCCTAT
Statistics
Matches: 85, Mismatches: 4, Indels: 25
0.75 0.04 0.22
Matches are distributed among these distances:
7 4 0.05
8 19 0.22
9 32 0.38
10 4 0.05
11 12 0.14
12 10 0.12
13 1 0.01
14 3 0.04
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (9 bp):
TTATTTATT
Found at i:7837685 original size:17 final size:17
Alignment explanation
Indices: 7837663--7837699 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
7837653 GATCCGATCC
*
7837663 AAAATTTTGAATATTTA
1 AAAATTTTGAATAATTA
*
7837680 AAAATTTTGGATAATTA
1 AAAATTTTGAATAATTA
7837697 AAA
1 AAA
7837700 TAGTGATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (17 bp):
AAAATTTTGAATAATTA
Found at i:7838223 original size:14 final size:14
Alignment explanation
Indices: 7838204--7838235 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
7838194 ATTAAAATAG
7838204 AATTTGGCACCACA
1 AATTTGGCACCACA
7838218 AATTTGGCACCACA
1 AATTTGGCACCACA
7838232 AATT
1 AATT
7838236 ATCCTTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (14 bp):
AATTTGGCACCACA
Found at i:7839247 original size:33 final size:33
Alignment explanation
Indices: 7839209--7839436 Score: 182
Period size: 33 Copynumber: 7.3 Consensus size: 33
7839199 TAATAAACAA
*
7839209 AACTATATACTATATAGTTTATATAAACTAATG
1 AACTATATACTATATAGTTTATATATACTAATG
*
7839242 ------A-ACTATATAGTTTATATAAACTAATG
1 AACTATATACTATATAGTTTATATATACTAATG
*
7839268 -A--A----CTATATAGTTTATATAAACTAATG
1 AACTATATACTATATAGTTTATATATACTAATG
* *
7839294 AACTATATAGTTTATAAATAGTTTATATATACTAATA
1 AACTATATA--CTAT--ATAGTTTATATATACTAATG
* *
7839331 AACTATTTACTATATAG-TTA-ATATACTATTG
1 AACTATATACTATATAGTTTATATATACTAATG
* * * *
7839362 AACTTTATAATATATAGGTTATATATACTAATA
1 AACTATATACTATATAGTTTATATATACTAATG
* *
7839395 AACTATATAATATATAATTTATATATACTAATG
1 AACTATATACTATATAGTTTATATATACTAATG
*
7839428 AAATATATA
1 AACTATATA
7839437 GTTTATTAAT
Statistics
Matches: 163, Mismatches: 17, Indels: 30
0.78 0.08 0.14
Matches are distributed among these distances:
26 49 0.30
27 2 0.01
29 1 0.01
31 23 0.14
32 6 0.04
33 50 0.31
35 6 0.04
37 26 0.16
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (33 bp):
AACTATATACTATATAGTTTATATATACTAATG
Found at i:7839248 original size:26 final size:26
Alignment explanation
Indices: 7839217--7839309 Score: 186
Period size: 26 Copynumber: 3.6 Consensus size: 26
7839207 AAAACTATAT
7839217 ACTATATAGTTTATATAAACTAATGA
1 ACTATATAGTTTATATAAACTAATGA
7839243 ACTATATAGTTTATATAAACTAATGA
1 ACTATATAGTTTATATAAACTAATGA
7839269 ACTATATAGTTTATATAAACTAATGA
1 ACTATATAGTTTATATAAACTAATGA
7839295 ACTATATAGTTTATA
1 ACTATATAGTTTATA
7839310 AATAGTTTAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 67 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.40
Consensus pattern (26 bp):
ACTATATAGTTTATATAAACTAATGA
Found at i:7839324 original size:22 final size:23
Alignment explanation
Indices: 7839208--7839360 Score: 105
Period size: 26 Copynumber: 6.3 Consensus size: 23
7839198 CTAATAAACA
*
7839208 AAACTATATACTATATAGTTTATAT
1 AAACTATTTACTATATAG-TTA-AT
**
7839233 AAACTAATGAACTATATAGTTTATAT
1 AAACT-ATTTACTATATAG-TTA-AT
**
7839259 AAACTAATGAACTATATAGTTTATAT
1 AAACT-ATTTACTATATAG-TTA-AT
** *
7839285 AAACTAATGAACTATATAGTTTAT
1 AAACT-ATTTACTATATAGTTAAT
*
7839309 AAA-TAGTTTA-TATATA-CTAAT
1 AAACTA-TTTACTATATAGTTAAT
7839330 AAACTATTTACTATATAGTTAAT
1 AAACTATTTACTATATAGTTAAT
*
7839353 ATACTATT
1 AAACTATT
7839361 GAACTTTATA
Statistics
Matches: 114, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
21 10 0.09
22 15 0.13
23 14 0.12
24 5 0.04
25 7 0.06
26 63 0.55
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (23 bp):
AAACTATTTACTATATAGTTAAT
Found at i:7839539 original size:7 final size:8
Alignment explanation
Indices: 7839525--7839573 Score: 61
Period size: 7 Copynumber: 6.5 Consensus size: 8
7839515 ATATACTGTA
7839525 TATAAAAT
1 TATAAAAT
7839533 TAT-AAA-
1 TATAAAAT
7839539 TATAAAAT
1 TATAAAAT
7839547 TAT-AAA-
1 TATAAAAT
7839553 TATAAAAT
1 TATAAAAT
7839561 ATATAAAAT
1 -TATAAAAT
7839570 TATA
1 TATA
7839574 TACACTATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
6 6 0.17
7 12 0.33
8 10 0.28
9 8 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
TATAAAAT
Found at i:7839543 original size:14 final size:14
Alignment explanation
Indices: 7839524--7839567 Score: 79
Period size: 14 Copynumber: 3.1 Consensus size: 14
7839514 TATATACTGT
7839524 ATATAAAATTATAA
1 ATATAAAATTATAA
7839538 ATATAAAATTATAA
1 ATATAAAATTATAA
7839552 ATATAAAATATATAA
1 ATATAAAAT-TATAA
7839567 A
1 A
7839568 ATTATATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 23 0.79
15 6 0.21
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATATAAAATTATAA
Found at i:7846930 original size:20 final size:21
Alignment explanation
Indices: 7846901--7847078 Score: 173
Period size: 20 Copynumber: 8.9 Consensus size: 21
7846891 AACCCAGATT
*
7846901 TCAATTTCGCAACGCGAATATG
1 TCAAATTCGCAACGCGAATA-G
*
7846923 T-AAA-TCGCAACGCGAATCTG
1 TCAAATTCGCAACGCGAAT-AG
*
7846943 T-AAA-TCGCAACAC-AGA-AG
1 TCAAATTCGCAACGCGA-ATAG
*
7846961 TCAAATCCGCAACGCG-ATAG
1 TCAAATTCGCAACGCGAATAG
*
7846981 TCAAATTCGCAACGCGAATTTG
1 TCAAATTCGCAACGCGAA-TAG
* *
7847003 T-AAA-TCGCAACAC-AAAAG
1 TCAAATTCGCAACGCGAATAG
7847021 TCAAATTCGCAACGCG-ATAG
1 TCAAATTCGCAACGCGAATAG
7847041 TCAAATTCGCAACGCGAA-AG
1 TCAAATTCGCAACGCGAATAG
7847061 TCAAATTCGCAACGCGAA
1 TCAAATTCGCAACGCGAA
7847079 ACACAATATT
Statistics
Matches: 131, Mismatches: 13, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
18 4 0.03
19 10 0.08
20 106 0.81
21 7 0.05
22 4 0.03
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.19
Consensus pattern (21 bp):
TCAAATTCGCAACGCGAATAG
Found at i:7846972 original size:60 final size:60
Alignment explanation
Indices: 7846908--7847058 Score: 243
Period size: 60 Copynumber: 2.5 Consensus size: 60
7846898 ATTTCAATTT
*
7846908 CGCAACGCGAATATGT-AAA-TCGCAACGCGAATCTGTAAATCGCAACACAGAAGTCAAATC
1 CGCAACGCG-ATA-GTCAAATTCGCAACGCGAATCTGTAAATCGCAACACAAAAGTCAAATC
* *
7846968 CGCAACGCGATAGTCAAATTCGCAACGCGAATTTGTAAATCGCAACACAAAAGTCAAATT
1 CGCAACGCGATAGTCAAATTCGCAACGCGAATCTGTAAATCGCAACACAAAAGTCAAATC
7847028 CGCAACGCGATAGTCAAATTCGCAACGCGAA
1 CGCAACGCGATAGTCAAATTCGCAACGCGAA
7847059 AGTCAAATTC
Statistics
Matches: 86, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
58 2 0.02
59 6 0.07
60 78 0.91
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.17
Consensus pattern (60 bp):
CGCAACGCGATAGTCAAATTCGCAACGCGAATCTGTAAATCGCAACACAAAAGTCAAATC
Found at i:7847005 original size:80 final size:80
Alignment explanation
Indices: 7846901--7847078 Score: 236
Period size: 80 Copynumber: 2.2 Consensus size: 80
7846891 AACCCAGATT
* * **
7846901 TCAATTTCGCAACGCGAATATGTAAATCGCAACGCGAATCTGT-AAA-TCGCAACACAGA-AGTC
1 TCAAATTCGCAACGCGAATATGTAAATCGCAACAC-AA-AAGTCAAATTCGCAACAC-GATAGTC
*
7846963 AAATCCGCAACGCGATAG
63 AAATCCGCAACGCGAAAG
* *
7846981 TCAAATTCGCAACGCGAATTTGTAAATCGCAACACAAAAGTCAAATTCGCAACGCGATAGTCAAA
1 TCAAATTCGCAACGCGAATATGTAAATCGCAACACAAAAGTCAAATTCGCAACACGATAGTCAAA
*
7847046 TTCGCAACGCGAAAG
66 TCCGCAACGCGAAAG
7847061 TCAAATTCGCAACGCGAA
1 TCAAATTCGCAACGCGAA
7847079 ACACAATATT
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
78 2 0.02
79 7 0.08
80 78 0.90
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.19
Consensus pattern (80 bp):
TCAAATTCGCAACGCGAATATGTAAATCGCAACACAAAAGTCAAATTCGCAACACGATAGTCAAA
TCCGCAACGCGAAAG
Found at i:7850642 original size:20 final size:21
Alignment explanation
Indices: 7850567--7850650 Score: 64
Period size: 20 Copynumber: 4.0 Consensus size: 21
7850557 CAGAACCCCC
* *
7850567 ATGGGGGTATCGATTCCC-CT
1 ATGGGGGGATCGATTCCCTCA
* *
7850587 GTGGGGGGAATCGGTTCCCCTTCA
1 ATGGGGGG-ATCGATT-CCC-TCA
* * *
7850611 AAGGGGGAATCGGTTCCCTC-
1 ATGGGGGGATCGATTCCCTCA
7850631 ATGGGGGGATCGATTCCCTC
1 ATGGGGGGATCGATTCCCTC
7850651 TGCACCAAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
20 23 0.46
21 8 0.16
22 6 0.12
23 7 0.14
24 6 0.12
ACGTcount: A:0.15, C:0.25, G:0.35, T:0.25
Consensus pattern (21 bp):
ATGGGGGGATCGATTCCCTCA
Found at i:7854503 original size:22 final size:21
Alignment explanation
Indices: 7854461--7854500 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7854451 GAGTTTGTTT
*
7854461 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
7854482 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
7854501 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:7857118 original size:20 final size:21
Alignment explanation
Indices: 7857090--7857128 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
7857080 TTTGAAACTT
*
7857090 AAATGCGCAACACGAAAATGA
1 AAATGCGCAACACCAAAATGA
7857111 AAAT-CGCAACACCAAAAT
1 AAATGCGCAACACCAAAAT
7857129 CGCAACGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.54, C:0.23, G:0.13, T:0.10
Consensus pattern (21 bp):
AAATGCGCAACACCAAAATGA
Done.