Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 58 of 196
Found at i:16304562 original size:80 final size:80
Alignment explanation
Indices: 16304406--16304555 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
16304396 AATTATTGTA
* **
16304406 TGAATGCACATATGTGCCCCTATTTGTACTTCGATAGCCCTGAATACACACACGTGCTTCTGTTT
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGATAGCCCTGAATACACACACGTGCCCCTGTTT
16304471 GTACTATGGTACCCC
66 GTACTATGGTACCCC
* * * * *
16304486 TGAATGCACATACGTGCCCCTGTTTGTACCTT-GATA-CCCTTGAATGCGCATATGTGCCCCTGT
1 TGAATGCACATACGTGCCCCTATTTGTA-CTTCGATAGCCC-TGAATACACACACGTGCCCCTGT
16304549 TTGTACT
64 TTGTACT
16304556 TCGGTACTCC
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 54 0.90
81 3 0.05
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (80 bp):
TGAATGCACATACGTGCCCCTATTTGTACTTCGATAGCCCTGAATACACACACGTGCCCCTGTTT
GTACTATGGTACCCC
Found at i:16307099 original size:20 final size:20
Alignment explanation
Indices: 16307074--16307122 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
16307064 TGAGTTATTT
16307074 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
16307094 AAGTAAG-ATAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
16307114 AAG-AAGCAA
1 AAGTAAGCAA
16307123 ATACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.22, T:0.14
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:16310547 original size:15 final size:15
Alignment explanation
Indices: 16310527--16310559 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
16310517 CTGATCAGTT
16310527 TTAACGTAGCTTAAG
1 TTAACGTAGCTTAAG
16310542 TTAACGTAGCTTAAG
1 TTAACGTAGCTTAAG
16310557 TTA
1 TTA
16310560 CTTCCACACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (15 bp):
TTAACGTAGCTTAAG
Found at i:16320257 original size:9 final size:9
Alignment explanation
Indices: 16320243--16320273 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
16320233 GTTAAACGAA
16320243 TCGAGTTAT
1 TCGAGTTAT
*
16320252 TCGAGTTAA
1 TCGAGTTAT
16320261 TCGAGTTAT
1 TCGAGTTAT
16320270 TCGA
1 TCGA
16320274 ATCAACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:16321888 original size:21 final size:21
Alignment explanation
Indices: 16321868--16321907 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16321858 TTGTTGTTCA
*
16321868 AAATTT-TGAGATTATAATTC
1 AAATTTGTGAGATTAAAATTC
16321888 AAATTTGTGAGATTAAAATT
1 AAATTTGTGAGATTAAAATT
16321908 TTTTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (21 bp):
AAATTTGTGAGATTAAAATTC
Found at i:16324654 original size:40 final size:39
Alignment explanation
Indices: 16324591--16324699 Score: 121
Period size: 40 Copynumber: 2.8 Consensus size: 39
16324581 GTTTGGACAA
* * *
16324591 AAAACGCCACTAAAAATCAAGCATTAGCGGCGCTAAACAT
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCT-AACAG
* * **
16324631 AAAACGCCGCTAAAGATCGAGCATTAGCAGCGCTTTCAG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTAACAG
*
16324670 AAAAGTGCCGCTAAAAAT-GAGCATTAGCGG
1 AAAA-CGCCGCTAAAAATCGAGCATTAGCGG
16324700 TGTTTTTTGG
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
39 17 0.29
40 41 0.71
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (39 bp):
AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTAACAG
Found at i:16324820 original size:41 final size:39
Alignment explanation
Indices: 16324763--16324997 Score: 256
Period size: 41 Copynumber: 5.7 Consensus size: 39
16324753 ACCTTTCGGG
* * **
16324763 GCTTTAGCGGCATTTTTTCAAAAGCGCTACTAATGCTCTA
1 GCTTTAGCGGC-GTTTTTAAAAAGCGCCGCTAATGCTCTA
*
16324803 GCTTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTCAGA
1 GC-TTTAGCGGCGTTTTTAA-AAAGCGCCGCTAATGCTC-TA
*
16324845 GCTTTAGCGGCGTTTTTAGAAATGCGCCGCTAATGCTCTA
1 GCTTTAGCGGCGTTTTTA-AAAAGCGCCGCTAATGCTCTA
*
16324885 GCTTTTAGCGGCGTTCTTAAGAAAGCGCCGCTAATGCT-TA
1 GC-TTTAGCGGCGTTTTTAA-AAAGCGCCGCTAATGCTCTA
* * * *
16324925 GACCTTTAGCGGCATTTTTGAAAAAGCGCAGCTAATGCTAATG
1 G--CTTTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGCT-CTA
16324968 GCTTTAGCGGCGTTTTTCAAAAAGCGCCGC
1 GCTTTAGCGGCGTTTTT-AAAAAGCGCCGC
16324998 AAAAACACTT
Statistics
Matches: 168, Mismatches: 16, Indels: 21
0.82 0.08 0.10
Matches are distributed among these distances:
40 15 0.09
41 144 0.86
42 7 0.04
43 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (39 bp):
GCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTCTA
Found at i:16324910 original size:82 final size:80
Alignment explanation
Indices: 16324763--16324997 Score: 303
Period size: 82 Copynumber: 2.9 Consensus size: 80
16324753 ACCTTTCGGG
*
16324763 GCTTTAGCGGCATTTTTTCAAAAGCGCTA-CTAATGCTCTAGCTTTTAGCGGCGTTTTTAATAAA
1 GCTTTAGCGGCA-TTTTTGAAAAGCGC-AGCTAATGCTCTAGCTTTTAGCGGCGTTTTTAA-AAA
16324827 GCGCCGCTAATGCTCAGA
63 GCGCCGCTAATGCTCAGA
* * * *
16324845 GCTTTAGCGGCGTTTTTAGAAATGCGCCGCTAATGCTCTAGCTTTTAGCGGCGTTCTTAAGAAAG
1 GCTTTAGCGGCATTTTT-GAAAAGCGCAGCTAATGCTCTAGCTTTTAGCGGCGTTTTTAA-AAAG
*
16324910 CGCCGCTAATGCTTAGA
64 CGCCGCTAATGCTCAGA
* * *
16324927 CCTTTAGCGGCATTTTTGAAAAAGCGCAGCTAATGCTAATGGC-TTTAGCGGCGTTTTTCAAAAA
1 GCTTTAGCGGCATTTTTG-AAAAGCGCAGCTAATGCT-CTAGCTTTTAGCGGCGTTTTT-AAAAA
16324991 GCGCCGC
63 GCGCCGC
16324998 AAAAACACTT
Statistics
Matches: 134, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
81 6 0.04
82 123 0.92
83 5 0.04
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (80 bp):
GCTTTAGCGGCATTTTTGAAAAGCGCAGCTAATGCTCTAGCTTTTAGCGGCGTTTTTAAAAAGCG
CCGCTAATGCTCAGA
Found at i:16325816 original size:7 final size:7
Alignment explanation
Indices: 16325800--16325846 Score: 76
Period size: 7 Copynumber: 6.7 Consensus size: 7
16325790 GTAAAAGAGT
16325800 GGTTAGG
1 GGTTAGG
*
16325807 GGTTAAG
1 GGTTAGG
*
16325814 GGTTAGA
1 GGTTAGG
16325821 GGTTAGG
1 GGTTAGG
16325828 GGTTAGG
1 GGTTAGG
16325835 GGTTAGG
1 GGTTAGG
16325842 GGTTA
1 GGTTA
16325847 AAGGGTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.19, C:0.00, G:0.51, T:0.30
Consensus pattern (7 bp):
GGTTAGG
Found at i:16329035 original size:42 final size:43
Alignment explanation
Indices: 16328956--16329215 Score: 242
Period size: 43 Copynumber: 6.1 Consensus size: 43
16328946 AAAATTTTTT
* * *** * *
16328956 TAAAAGTCATG-TTTTTAGTGGCATTTGTCAAAAAAGCGCCTC
1 TAAAAGTCATGATCTTTAGTGGCGTTTGTGGTAGAAGCGCCGC
* * *
16328998 TAAAAGTCAT-CT-TTATAGTGGCGTTTGTTGTAGAAGCGTCGC
1 TAAAAGTCATGATCTT-TAGTGGCGTTTGTGGTAGAAGCGCCGC
* *
16329040 TAAAGGTCATGATCTTTAGCGGCGTTTGTGGTAGAAGCGCCGC
1 TAAAAGTCATGATCTTTAGTGGCGTTTGTGGTAGAAGCGCCGC
* *
16329083 TAAAGGTCATGATCTTTAGTTGCGTTTGTGGTAGAAGCGCCGC
1 TAAAAGTCATGATCTTTAGTGGCGTTTGTGGTAGAAGCGCCGC
* * * * * *
16329126 T-AAAGATCATGACCTTTAGCGGCGCTTGTGGGAAAAGCGCCAC
1 TAAAAG-TCATGATCTTTAGTGGCGTTTGTGGTAGAAGCGCCGC
* * * *
16329169 T-AAAGTTCTTGGTCTTTAGTGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAAG-TCATGATCTTTAGTGGCGTTTGTGGTAGAAGCGCCGC
16329212 TAAA
1 TAAA
16329216 GTTAGCGACA
Statistics
Matches: 183, Mismatches: 29, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
41 2 0.01
42 43 0.23
43 134 0.73
44 4 0.02
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
TAAAAGTCATGATCTTTAGTGGCGTTTGTGGTAGAAGCGCCGC
Found at i:16329136 original size:86 final size:86
Alignment explanation
Indices: 16328987--16329216 Score: 284
Period size: 86 Copynumber: 2.7 Consensus size: 86
16328977 CATTTGTCAA
* * * * * *
16328987 AAAAGCGCCTCTAAAAGTCAT-CT-TTATAGTGGCGTTTGTTGTAGAAGCGTCGCTAAAGGTCAT
1 AAAAGCGCCACTAAAGGTCATGATCTT-TAGTGGCGTTTGTGGTAGAAGCGCCGCTAAAGATCAT
* * *
16329050 GATCTTTAGCGGCGTTTGTGGT
65 GACCTTTAGCGGCGCTTGTGGG
* * *
16329072 AGAAGCGCCGCTAAAGGTCATGATCTTTAGTTGCGTTTGTGGTAGAAGCGCCGCTAAAGATCATG
1 AAAAGCGCCACTAAAGGTCATGATCTTTAGTGGCGTTTGTGGTAGAAGCGCCGCTAAAGATCATG
16329137 ACCTTTAGCGGCGCTTGTGGG
66 ACCTTTAGCGGCGCTTGTGGG
* * * * *
16329158 AAAAGCGCCACTAAAGTTCTTGGTCTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAG
1 AAAAGCGCCACTAAAGGTCATGATCTTTAGTGGCGTTTGTGGTAGAAGCGCCGCTAAAG
16329217 TTAGCGACAC
Statistics
Matches: 124, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
85 18 0.15
86 104 0.84
87 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (86 bp):
AAAAGCGCCACTAAAGGTCATGATCTTTAGTGGCGTTTGTGGTAGAAGCGCCGCTAAAGATCATG
ACCTTTAGCGGCGCTTGTGGG
Found at i:16329218 original size:43 final size:43
Alignment explanation
Indices: 16329013--16329216 Score: 264
Period size: 43 Copynumber: 4.7 Consensus size: 43
16329003 GTCATCTTTA
* *
16329013 TAGTGGCGTTTGTTGTAGAAGCGTCGCTAAAGGTCATGATCTT
1 TAGTGGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCATGATCTT
*
16329056 TAGCGGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCATGATCTT
1 TAGTGGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCATGATCTT
* * *
16329099 TAGTTGCGTTTGTGGTAGAAGCGCCGCTAAAGATCATGACCTT
1 TAGTGGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCATGATCTT
* * * * * * * *
16329142 TAGCGGCGCTTGTGGGAAAAGCGCCACTAAAGTTCTTGGTCTT
1 TAGTGGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCATGATCTT
* *
16329185 TAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAG
1 TAGTGGCGTTTGTGGTAGAAGCGCCGCTAAAG
16329217 TTAGCGACAC
Statistics
Matches: 141, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 141 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (43 bp):
TAGTGGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCATGATCTT
Found at i:16329603 original size:43 final size:43
Alignment explanation
Indices: 16329546--16329701 Score: 176
Period size: 43 Copynumber: 3.7 Consensus size: 43
16329536 CAATGCCATA
* * * *
16329546 TCCTAGATATGGTCTTACATGTTATCACATATCGATGCCT-TTG
1 TCCTAGACATGGTCTTACACGTAATCACATATCGATG-CTAATG
* * *
16329589 TCCTAGACAGGGTCTTACACG-AATCATATAT-GGTGCTAATG
1 TCCTAGACATGGTCTTACACGTAATCACATATCGATGCTAATG
* *
16329630 TCCCAGACATGGTCTTACACGTAATCTCATATCGATGCTAATG
1 TCCTAGACATGGTCTTACACGTAATCACATATCGATGCTAATG
*
16329673 T-CTCAGACATGGTCTTACATGTAATCACA
1 TCCT-AGACATGGTCTTACACGTAATCACA
16329702 CCTCGAAAGT
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
40 2 0.02
41 24 0.26
42 17 0.18
43 51 0.54
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (43 bp):
TCCTAGACATGGTCTTACACGTAATCACATATCGATGCTAATG
Found at i:16333709 original size:15 final size:16
Alignment explanation
Indices: 16333673--16333709 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
16333663 TTTTAACTCG
*
16333673 ATCGGAGCTATTCTAT
1 ATCGGAGCTATTCGAT
16333689 AT-GGAGCTATT-GAT
1 ATCGGAGCTATTCGAT
16333703 ATCGGAG
1 ATCGGAG
16333710 TAGTTCTCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 4 0.21
15 13 0.68
16 2 0.11
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (16 bp):
ATCGGAGCTATTCGAT
Found at i:16341969 original size:25 final size:25
Alignment explanation
Indices: 16341935--16341987 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
16341925 GTTATTTTTG
*
16341935 TTTTCCTTTTTTTACTTCTTTCCTT
1 TTTTCCTTTTTTTACTTCTTTCCAT
* **
16341960 TTTTCTTTTTTTTGTTTCTTTCCAT
1 TTTTCCTTTTTTTACTTCTTTCCAT
16341985 TTT
1 TTT
16341988 CCATTTTCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (25 bp):
TTTTCCTTTTTTTACTTCTTTCCAT
Found at i:16341987 original size:24 final size:25
Alignment explanation
Indices: 16341935--16341994 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
16341925 GTTATTTTTG
*
16341935 TTTTCCTTTTTTTACTTCTTTCCTT
1 TTTTCCTTTTTTTACTTCTTTCCTA
* **
16341960 TTTTCTTTTTTTTGTTTCTTTCC-A
1 TTTTCCTTTTTTTACTTCTTTCCTA
*
16341984 TTTTCCATTTT
1 TTTTCCTTTTT
16341995 CTCATTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
24 9 0.31
25 20 0.69
ACGTcount: A:0.05, C:0.20, G:0.02, T:0.73
Consensus pattern (25 bp):
TTTTCCTTTTTTTACTTCTTTCCTA
Found at i:16342610 original size:15 final size:15
Alignment explanation
Indices: 16342589--16342620 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
16342579 GAAAGAAAGT
16342589 AAAA-AAAAAG-GAA
1 AAAAGAAAAAGAGAA
16342602 AAAAGAAAAAGAGAA
1 AAAAGAAAAAGAGAA
16342617 AAAA
1 AAAA
16342621 ATATTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 4 0.24
14 6 0.35
15 7 0.41
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAGAGAA
Found at i:16342666 original size:20 final size:20
Alignment explanation
Indices: 16342623--16342666 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
16342613 AGAAAAAAAT
*
16342623 ATTTTAAATGATTTTCTATT
1 ATTTTAAATGATTTTCTATA
*
16342643 ATTTTAAAT-ATTTTTTTATA
1 ATTTTAAATGA-TTTTCTATA
16342663 ATTT
1 ATTT
16342667 CTATTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
ATTTTAAATGATTTTCTATA
Found at i:16342676 original size:18 final size:17
Alignment explanation
Indices: 16342653--16342686 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
16342643 ATTTTAAATA
16342653 TTTTTTTATAATTTCTAT
1 TTTTTTTA-AATTTCTAT
16342671 TTTTTTTAAATTTCTA
1 TTTTTTTAAATTTCTA
16342687 AAAATTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTTAAATTTCTAT
Found at i:16345189 original size:38 final size:38
Alignment explanation
Indices: 16345138--16345215 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
16345128 CGTTCTATTC
16345138 ATAATCAGAGTTTTAATCAAGATGACATAACTAACAAT
1 ATAATCAGAGTTTTAATCAAGATGACATAACTAACAAT
16345176 ATAATCAGAGTTTTAATCAAGATGACATAACTAACAAT
1 ATAATCAGAGTTTTAATCAAGATGACATAACTAACAAT
16345214 AT
1 AT
16345216 TGACATAACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.29
Consensus pattern (38 bp):
ATAATCAGAGTTTTAATCAAGATGACATAACTAACAAT
Found at i:16345221 original size:18 final size:18
Alignment explanation
Indices: 16345198--16345233 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
16345188 TTAATCAAGA
16345198 TGACATAACTAACAATAT
1 TGACATAACTAACAATAT
16345216 TGACATAACTAACAATAT
1 TGACATAACTAACAATAT
16345234 ACTATGGTTT
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:0.50, C:0.17, G:0.06, T:0.28
Consensus pattern (18 bp):
TGACATAACTAACAATAT
Found at i:16346987 original size:50 final size:54
Alignment explanation
Indices: 16346891--16347020 Score: 178
Period size: 50 Copynumber: 2.4 Consensus size: 54
16346881 GAGATCTCAT
* * *
16346891 GTAAGACCATGTCTGAGAAATGGCATTGGCATTATTGAAGTTATGAGAGGTCCCAC
1 GTAAGACCATGTCTGGGACATGGCATTGGCATCA-TGAAG-TATGAGAGGTCCCAC
*
16346947 GTAAGACCATGTCTGGGACATGGCATTGGCA-CA-G-AG-ATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGCATCATGAAGTATGAGAGGTCCCAC
16346997 GTAAGACCATGTCTGGGACATGGC
1 GTAAGACCATGTCTGGGACATGGC
16347021 GTGAGCGCCG
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
50 37 0.53
52 2 0.03
53 1 0.01
55 1 0.01
56 29 0.41
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (54 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCATCATGAAGTATGAGAGGTCCCAC
Found at i:16347037 original size:50 final size:50
Alignment explanation
Indices: 16346932--16347061 Score: 154
Period size: 50 Copynumber: 2.6 Consensus size: 50
16346922 TTATTGAAGT
*
16346932 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACAGA
1 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCAGTGGCACAGA
* * * *
16346982 GATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGC-GTGAGCGCCGA
1 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCAGTG-GCACAGA
** * * *
16347032 TATGAGAACTCTCATGTAAGACCATATCTG
1 TATGAGAGGTCCCACGTAAGACCATGTCTG
16347062 AGATATGACA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
49 2 0.03
50 65 0.97
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCAGTGGCACAGA
Found at i:16347355 original size:19 final size:19
Alignment explanation
Indices: 16347331--16347367 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
16347321 TGAGTTATTT
16347331 AAGTAAGCA-AGTAAGTAAC
1 AAGTAAG-AGAGTAAGTAAC
16347350 AAGTAAGAGAGTAAGTAA
1 AAGTAAGAGAGTAAGTAA
16347368 TGAAGAAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.54, C:0.05, G:0.24, T:0.16
Consensus pattern (19 bp):
AAGTAAGAGAGTAAGTAAC
Found at i:16353431 original size:21 final size:21
Alignment explanation
Indices: 16353396--16353445 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
16353386 ATAGTCACAC
*
16353396 GGGCGTGT-GCTCCTTAACAA
1 GGGCGTGTACCTCCTTAACAA
* *
16353416 GGGCGTGTACCTCCTTCACAT
1 GGGCGTGTACCTCCTTAACAA
*
16353437 GGGTGTGTA
1 GGGCGTGTA
16353446 GACCCTCACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.28
Consensus pattern (21 bp):
GGGCGTGTACCTCCTTAACAA
Found at i:16362655 original size:15 final size:15
Alignment explanation
Indices: 16362635--16362666 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16362625 TTCGACTTGG
*
16362635 TTTTATTTTTTTATT
1 TTTTATTTTCTTATT
16362650 TTTTATTTTCTTATT
1 TTTTATTTTCTTATT
16362665 TT
1 TT
16362667 CTTGCGTTTT
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:0.12, C:0.03, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTATTTTCTTATT
Found at i:16362667 original size:8 final size:8
Alignment explanation
Indices: 16362637--16362669 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
16362627 CGACTTGGTT
*
16362637 TTATTTTT
1 TTATTTTC
16362645 TTATTTT-
1 TTATTTTC
16362652 TTATTTTC
1 TTATTTTC
16362660 TTATTTTC
1 TTATTTTC
16362668 TT
1 TT
16362670 GCGTTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (8 bp):
TTATTTTC
Found at i:16364817 original size:3 final size:3
Alignment explanation
Indices: 16364805--16364837 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
16364795 CTTGTATGTT
16364805 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
16364838 ACAGTTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:16366433 original size:27 final size:26
Alignment explanation
Indices: 16366385--16366435 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
16366375 TAGAATTAAT
*
16366385 TTGTTATTCATCATTTGCTTTGTATA
1 TTGTTAATCATCATTTGCTTTGTATA
16366411 TTGTTAATCAATCATATTG-TTTGTA
1 TTGTTAATC-ATCAT-TTGCTTTGTA
16366436 AAAATTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 11 0.50
28 3 0.14
ACGTcount: A:0.24, C:0.10, G:0.12, T:0.55
Consensus pattern (26 bp):
TTGTTAATCATCATTTGCTTTGTATA
Found at i:16367205 original size:9 final size:9
Alignment explanation
Indices: 16367193--16367223 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
16367183 AATATATTTA
16367193 TTTTTTAATT
1 TTTTTTAA-T
16367203 TTTTTTAAT
1 TTTTTTAAT
16367212 TTTTTTAAT
1 TTTTTTAAT
16367221 TTT
1 TTT
16367224 AAAATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.62
10 8 0.38
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:16367208 original size:10 final size:10
Alignment explanation
Indices: 16367193--16367223 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
16367183 AATATATTTA
16367193 TTTTTTAATT
1 TTTTTTAATT
16367203 TTTTTTAA-T
1 TTTTTTAATT
16367212 TTTTTTAATT
1 TTTTTTAATT
16367222 TT
1 TT
16367224 AAAATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTTAATT
Found at i:16367299 original size:39 final size:39
Alignment explanation
Indices: 16367203--16367335 Score: 203
Period size: 39 Copynumber: 3.3 Consensus size: 39
16367193 TTTTTTAATT
*
16367203 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATGC
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
*
16367242 TTTTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAATAC
1 --TTTTTTAAT-TTTTTTAATTTTAAAATATTTTTAAAATAC
* *
16367284 TTTTTAAATTTTTTTAATTTTAAAATACTTTTAAAATAC
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
16367323 TTTTTTAATTTTT
1 TTTTTTAATTTTT
16367336 AAAATAAATT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
39 41 0.48
40 7 0.08
41 8 0.09
42 29 0.34
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (39 bp):
TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:16374416 original size:23 final size:23
Alignment explanation
Indices: 16374368--16374418 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
16374358 ATTTGGAAGC
* *
16374368 ATAAAATAAAATAAAATATATGG
1 ATAAAATAAAATAAAATACATAG
*
16374391 ATAATATAAAAGTAAAATACA-AG
1 ATAAAATAAAA-TAAAATACATAG
16374414 ATAAA
1 ATAAA
16374419 GGATCGAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.24
Consensus pattern (23 bp):
ATAAAATAAAATAAAATACATAG
Found at i:16377946 original size:18 final size:17
Alignment explanation
Indices: 16377898--16377948 Score: 50
Period size: 18 Copynumber: 3.0 Consensus size: 17
16377888 CACGTAGCAG
16377898 ATATAAATTAA-AAAAA
1 ATATAAATTAATAAAAA
* ***
16377914 ATAAAAATCCTTAAAAA
1 ATATAAATTAATAAAAA
16377931 TATATAAATTAATAAAAA
1 -ATATAAATTAATAAAAA
16377949 GTGTAAATTT
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
16 7 0.28
17 5 0.20
18 13 0.52
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (17 bp):
ATATAAATTAATAAAAA
Found at i:16378245 original size:8 final size:8
Alignment explanation
Indices: 16378232--16378297 Score: 52
Period size: 8 Copynumber: 8.6 Consensus size: 8
16378222 AGTTATTTTA
16378232 TATATATT
1 TATATATT
16378240 TATATATT
1 TATATATT
16378248 TATCAT-TT
1 TAT-ATATT
*
16378256 TAT-CATT
1 TATATATT
16378263 T-T-TATT
1 TATATATT
16378269 TATATA-T
1 TATATATT
16378276 TATATATT
1 TATATATT
* *
16378284 CTAAATTTT
1 -TATATATT
16378293 TATAT
1 TATAT
16378298 GTTTTTCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
6 5 0.11
7 11 0.23
8 23 0.49
9 8 0.17
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATATT
Found at i:16378293 original size:29 final size:29
Alignment explanation
Indices: 16378236--16378295 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
16378226 ATTTTATATA
* *
16378236 TATTTATATATTTATCATTTTATCATTTT
1 TATTTATATATTTATCATTCTATAATTTT
16378265 TATTTATATATTATAT-ATTCTA-AATTTT
1 TATTTATATATT-TATCATTCTATAATTTT
16378293 TAT
1 TAT
16378296 ATGTTTTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 8 0.29
29 17 0.61
30 3 0.11
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (29 bp):
TATTTATATATTTATCATTCTATAATTTT
Found at i:16387856 original size:25 final size:25
Alignment explanation
Indices: 16387823--16387892 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
16387813 CAGGCCCATT
16387823 TTCACAGCTCATGTGAGCATTCTGA
1 TTCACAGCTCATGTGAGCATTCTGA
*
16387848 TTCATAGCTCATGTGAGCATTCTGA
1 TTCACAGCTCATGTGAGCATTCTGA
* *
16387873 TTCACAACTCGTGTGAGCAT
1 TTCACAGCTCATGTGAGCAT
16387893 ACATGTACAC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (25 bp):
TTCACAGCTCATGTGAGCATTCTGA
Found at i:16388572 original size:20 final size:20
Alignment explanation
Indices: 16388539--16388582 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
16388529 TAAAGAAAGT
* *
16388539 AAATGCAATGGAAAGTAATG
1 AAATGCAATGGAAAATAATA
16388559 AAATGCAAAT-GAAAATAATA
1 AAATGC-AATGGAAAATAATA
16388579 AAAT
1 AAAT
16388583 TTTAAAGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.59, C:0.05, G:0.16, T:0.20
Consensus pattern (20 bp):
AAATGCAATGGAAAATAATA
Found at i:16389049 original size:15 final size:16
Alignment explanation
Indices: 16389029--16389058 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16389019 TGGTGCCTTG
16389029 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
16389044 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
16389059 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:16394859 original size:25 final size:25
Alignment explanation
Indices: 16394831--16394884 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
16394821 TGTAGTGGCA
16394831 AGGTGGCAACACAGGTGTGGCAAGG
1 AGGTGGCAACACAGGTGTGGCAAGG
*** *
16394856 AGGTGGTGTCACAGGTGTGGTAAGG
1 AGGTGGCAACACAGGTGTGGCAAGG
16394881 AGGT
1 AGGT
16394885 CAGAGGTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.11, G:0.46, T:0.19
Consensus pattern (25 bp):
AGGTGGCAACACAGGTGTGGCAAGG
Found at i:16395033 original size:24 final size:21
Alignment explanation
Indices: 16395000--16395046 Score: 58
Period size: 24 Copynumber: 2.1 Consensus size: 21
16394990 TCAAATGAGT
*
16395000 GATTTAAGGAGTGGATCATGGAG
1 GATTTAAGGAGAGGAT--TGGAG
16395023 GATTTCAAGGAGAGGATTGGAG
1 GATTT-AAGGAGAGGATTGGAG
16395045 GA
1 GA
16395047 GAGATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 5 0.23
24 10 0.45
ACGTcount: A:0.32, C:0.04, G:0.40, T:0.23
Consensus pattern (21 bp):
GATTTAAGGAGAGGATTGGAG
Found at i:16395060 original size:25 final size:24
Alignment explanation
Indices: 16395019--16395070 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
16395009 AGTGGATCAT
16395019 GGAGGATTTCAAGGAGAGGATTGGA
1 GGAGGATTTCAAGGAGA-GATTGGA
* *
16395044 GGAGAGATTTTAA-GAGAGATTTGA
1 GGAG-GATTTCAAGGAGAGATTGGA
16395068 GGA
1 GGA
16395071 ATTTGAGTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.38
25 8 0.33
26 7 0.29
ACGTcount: A:0.35, C:0.02, G:0.40, T:0.23
Consensus pattern (24 bp):
GGAGGATTTCAAGGAGAGATTGGA
Found at i:16396165 original size:27 final size:27
Alignment explanation
Indices: 16396127--16396248 Score: 156
Period size: 27 Copynumber: 4.5 Consensus size: 27
16396117 GTCGTTAACT
16396127 TTATCGAAATACCCTCGATGGGTAAAA
1 TTATCGAAATACCCTCGATGGGTAAAA
* **
16396154 TTATTGAAATACCCTTAATGGGTAAAA
1 TTATCGAAATACCCTCGATGGGTAAAA
16396181 TTA-CTGAAATACCCTCGATGGGTAAAA
1 TTATC-GAAATACCCTCGATGGGTAAAA
* * * *
16396208 TTACCAAAATACCCTCGAAGAGTAAAA
1 TTATCGAAATACCCTCGATGGGTAAAA
*
16396235 TTATCGTAATACCC
1 TTATCGAAATACCC
16396249 CTGTTAGGGC
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
27 80 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (27 bp):
TTATCGAAATACCCTCGATGGGTAAAA
Found at i:16396484 original size:26 final size:26
Alignment explanation
Indices: 16396435--16396484 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
16396425 ACATATACTG
* **
16396435 TACTGGCAACTCTGCTGCGTTATTAT
1 TACTGGCAACTATGCTGCAATATTAT
*
16396461 TACTGGCAGCTATGCTGCAATATT
1 TACTGGCAACTATGCTGCAATATT
16396485 GGTGTGTGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (26 bp):
TACTGGCAACTATGCTGCAATATTAT
Found at i:16401166 original size:50 final size:49
Alignment explanation
Indices: 16401061--16401167 Score: 135
Period size: 50 Copynumber: 2.1 Consensus size: 49
16401051 TTATTGAGGT
*
16401061 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGCTGGTACCAA
1 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACAT-GCGCTGGAACCAA
* * * *
16401111 GATGAGAGGTCCCTCGTAAGATCATGTCTGGGACAT-CGCATAGGAACCGA
1 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGCGC-T-GGAACCAA
16401161 TATGAGA
1 TATGAGA
16401168 ACTCTCATGT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
48 3 0.06
49 1 0.02
50 45 0.92
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (49 bp):
TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGCGCTGGAACCAA
Found at i:16401483 original size:20 final size:20
Alignment explanation
Indices: 16401458--16401496 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
16401448 TGAGTTATTT
16401458 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAA-CAGAGTAAGTAAAC
16401478 AAGTAACAGAGTAAGTAAA
1 AAGTAACAGAGTAAGTAAA
16401497 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.56, C:0.08, G:0.21, T:0.15
Consensus pattern (20 bp):
AAGTAACAGAGTAAGTAAAC
Found at i:16402920 original size:40 final size:40
Alignment explanation
Indices: 16402828--16402933 Score: 110
Period size: 40 Copynumber: 2.7 Consensus size: 40
16402818 GTTTGGAAAA
*
16402828 AAAT-GCCGCTAAAAATCGAGCATTAGCGGCACTTTACAC
1 AAATCGCCGCTAAAAATCGAGCATTAGCAGCACTTTACAC
* * ** * * *
16402867 AAAACACTACTAAAGATCGAGCATTAGCAGCGCTTT-CAGG
1 AAATCGCCGCTAAAAATCGAGCATTAGCAGCACTTTACA-C
16402907 AAATCGCCGCTAAAAAT-GAGCATTAGC
1 AAATCGCCGCTAAAAATCGAGCATTAGC
16402934 GGCATTTTTA
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
39 15 0.29
40 37 0.71
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.20
Consensus pattern (40 bp):
AAATCGCCGCTAAAAATCGAGCATTAGCAGCACTTTACAC
Found at i:16403062 original size:41 final size:41
Alignment explanation
Indices: 16403001--16403233 Score: 297
Period size: 41 Copynumber: 5.7 Consensus size: 41
16402991 TTTTCGGGGC
* * * *
16403001 TTTAGTGGTGTTTTTAAAAAAGCGCCGCTAATGCTTAGGGA
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGGA
* *
16403042 TTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGGA
* * * *
16403083 TTGAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCAGGGG
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGGA
* *
16403124 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATACTCA-GGA
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGGA
* * *
16403164 CTTTAGTGGCGTTTTTGAAAAAGCGTCGCTAATGCTCAGGGC
1 -TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGGA
* *
16403206 TTTAGCGGCGTTTTTAAAAAAGTGCCGC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGC
16403234 AAAAACATTT
Statistics
Matches: 168, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 2 0.01
41 164 0.98
42 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.30
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGGA
Found at i:16403579 original size:14 final size:14
Alignment explanation
Indices: 16403562--16403595 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
16403552 GGGTTTAATA
16403562 TATATGGTTTAGGG
1 TATATGGTTTAGGG
*
16403576 TATATGGTTTGGGG
1 TATATGGTTTAGGG
16403590 TATATG
1 TATATG
16403596 ATTAATTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (14 bp):
TATATGGTTTAGGG
Found at i:16403838 original size:14 final size:14
Alignment explanation
Indices: 16403819--16403852 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
16403809 TATTAAATAA
*
16403819 GGTTTATGGGTTAG
1 GGTTTAAGGGTTAG
*
16403833 GGTTTAAGGTTTAG
1 GGTTTAAGGGTTAG
16403847 GGTTTA
1 GGTTTA
16403853 GATTAATTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (14 bp):
GGTTTAAGGGTTAG
Found at i:16403841 original size:68 final size:70
Alignment explanation
Indices: 16403768--16403902 Score: 229
Period size: 68 Copynumber: 2.0 Consensus size: 70
16403758 CAGTGTTAGG
* *
16403768 TTAAGGTTTAGGGTTTAGATTAATTAGTGTATTTTAA-TT-TATATTAAATAAGGTTTATGGGTT
1 TTAAGGTTTAGGGTTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAAAGTTTAGGGGTT
16403831 AGGGT
66 AGGGT
*
16403836 TTAAGGTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAGGGGTT
1 TTAAGGTTTAGGGTTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAAAGTTTAGGGGTT
16403901 AG
66 AG
16403903 TAGTTAGGGG
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
68 36 0.58
69 2 0.03
70 24 0.39
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.47
Consensus pattern (70 bp):
TTAAGGTTTAGGGTTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAAAGTTTAGGGGTT
AGGGT
Found at i:16408338 original size:22 final size:22
Alignment explanation
Indices: 16408310--16408358 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
16408300 GGAAAACTGG
16408310 AAATAGGCATGGCAACATGCAA
1 AAATAGGCATGGCAACATGCAA
16408332 AAATAGGCATGGCAACATGCAA
1 AAATAGGCATGGCAACATGCAA
16408354 AAATA
1 AAATA
16408359 AAAAGAGGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.49, C:0.16, G:0.20, T:0.14
Consensus pattern (22 bp):
AAATAGGCATGGCAACATGCAA
Found at i:16422535 original size:27 final size:31
Alignment explanation
Indices: 16422475--16422541 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 31
16422465 ACATAAGCAT
*
16422475 TTTAGTTAAGTTTTAATTACATTTTTGTAAAA
1 TTTAGTTAAGTTTTAATTACATTTGTGT-AAA
16422507 TTTAGTTAAG-TTTAA-TA-ATTTGTGT-AA
1 TTTAGTTAAGTTTTAATTACATTTGTGTAAA
16422534 TTTGAGTT
1 TTT-AGTT
16422542 TTTTATTGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 5 0.15
28 4 0.12
29 7 0.21
30 2 0.06
31 5 0.15
32 10 0.30
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.54
Consensus pattern (31 bp):
TTTAGTTAAGTTTTAATTACATTTGTGTAAA
Found at i:16427426 original size:20 final size:20
Alignment explanation
Indices: 16427403--16427441 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
16427393 GGATTCAGAG
16427403 TTAATTCAGAAGATTTTGTT
1 TTAATTCAGAAGATTTTGTT
16427423 TTAATTCAGAAGATTTTGT
1 TTAATTCAGAAGATTTTGT
16427442 ATGAAGCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (20 bp):
TTAATTCAGAAGATTTTGTT
Found at i:16430287 original size:25 final size:26
Alignment explanation
Indices: 16430245--16430298 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
16430235 TTCTCCTAAA
*
16430245 TTTCAATTTTATTTAATTATTTAAT-T
1 TTTCAATTTTATTGAATTA-TTAATAT
16430271 TTTCAA-TTTATTGAATTATTAATAT
1 TTTCAATTTTATTGAATTATTAATAT
16430296 TTT
1 TTT
16430299 ATACTAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 15 0.58
26 6 0.23
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTCAATTTTATTGAATTATTAATAT
Found at i:16434972 original size:30 final size:30
Alignment explanation
Indices: 16434938--16434997 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
16434928 TTATCCTTAG
*
16434938 TCCATTTACTAATTAAGGCTATGTTAGCTA
1 TCCATTTACTAATTAAGGCTATATTAGCTA
*
16434968 TCCATTTTCTAATTAAGGCTATATTAGCTA
1 TCCATTTACTAATTAAGGCTATATTAGCTA
16434998 AATTTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.42
Consensus pattern (30 bp):
TCCATTTACTAATTAAGGCTATATTAGCTA
Found at i:16436934 original size:17 final size:17
Alignment explanation
Indices: 16436902--16436939 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
16436892 TTCAATTCTA
16436902 ATTTGACCCAAAATATTT
1 ATTTGACCCAAAATA-TT
*
16436920 ATTTTACCC-AAATATT
1 ATTTGACCCAAAATATT
16436936 ATTT
1 ATTT
16436940 AAAACTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 5 0.26
18 8 0.42
ACGTcount: A:0.37, C:0.16, G:0.03, T:0.45
Consensus pattern (17 bp):
ATTTGACCCAAAATATT
Found at i:16444061 original size:49 final size:49
Alignment explanation
Indices: 16443989--16444083 Score: 156
Period size: 49 Copynumber: 1.9 Consensus size: 49
16443979 ATCTATTCAT
* *
16443989 AGGTTGAAAAACCTTATTCTAATTAATGTCAAATAGAAGTAGTGTAGTA
1 AGGTTGAAAAACCTTATTCTAATTAATATCAAATAGAAGAAGTGTAGTA
16444038 AGGTTGAAACAA-CTTATTCTAATTAATATCAAATAGAAGAAGTGTA
1 AGGTTGAAA-AACCTTATTCTAATTAATATCAAATAGAAGAAGTGTA
16444084 CTTCTCTACG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
49 41 0.95
50 2 0.05
ACGTcount: A:0.43, C:0.08, G:0.17, T:0.32
Consensus pattern (49 bp):
AGGTTGAAAAACCTTATTCTAATTAATATCAAATAGAAGAAGTGTAGTA
Found at i:16445787 original size:23 final size:22
Alignment explanation
Indices: 16445755--16445801 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
16445745 TTTAACATTA
16445755 TCTTTTATTTCCTTT-TAGGTTT
1 TCTTTTATTTCCTTTCTA-GTTT
*
16445777 TCTTTTCATTTTCTTTCTAGTTT
1 TCTTTT-ATTTCCTTTCTAGTTT
16445800 TC
1 TC
16445802 ACTCAAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
23 14 0.64
24 2 0.09
ACGTcount: A:0.09, C:0.17, G:0.06, T:0.68
Consensus pattern (22 bp):
TCTTTTATTTCCTTTCTAGTTT
Found at i:16445962 original size:15 final size:14
Alignment explanation
Indices: 16445912--16445962 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 14
16445902 CTCTTGTCAA
16445912 TTATTATTTTTATG
1 TTATTATTTTTATG
*
16445926 ATTATTTATTTTTGT-
1 -TTA-TTATTTTTATG
*
16445941 TTGTTATTTTTATG
1 TTATTATTTTTATG
16445955 TTCATTAT
1 TT-ATTAT
16445963 GAACTAATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 9 0.31
14 4 0.14
15 7 0.24
16 9 0.31
ACGTcount: A:0.20, C:0.02, G:0.08, T:0.71
Consensus pattern (14 bp):
TTATTATTTTTATG
Found at i:16446471 original size:13 final size:12
Alignment explanation
Indices: 16446452--16446490 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
16446442 AAATTAGTTA
16446452 TTTTATTTTATT
1 TTTTATTTTATT
16446464 TGTTTATTTTATT
1 T-TTTATTTTATT
16446477 TTTT-TGTTTATT
1 TTTTAT-TTTATT
16446489 TT
1 TT
16446491 ATTTTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.04
12 12 0.48
13 12 0.48
ACGTcount: A:0.13, C:0.00, G:0.05, T:0.82
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:16446484 original size:17 final size:17
Alignment explanation
Indices: 16446449--16446496 Score: 87
Period size: 17 Copynumber: 2.8 Consensus size: 17
16446439 ACTAAATTAG
16446449 TTATTTTATTTTATTTGT
1 TTATTTTATTTT-TTTGT
16446467 TTATTTTATTTTTTTGT
1 TTATTTTATTTTTTTGT
16446484 TTATTTTATTTTT
1 TTATTTTATTTTT
16446497 AAATAATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 18 0.60
18 12 0.40
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (17 bp):
TTATTTTATTTTTTTGT
Found at i:16447681 original size:14 final size:14
Alignment explanation
Indices: 16447662--16447688 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16447652 ATTAAATTTG
16447662 AGAAATAATCTCCC
1 AGAAATAATCTCCC
16447676 AGAAATAATCTCC
1 AGAAATAATCTCC
16447689 TAGTTAAACT
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:0.44, C:0.26, G:0.07, T:0.22
Consensus pattern (14 bp):
AGAAATAATCTCCC
Found at i:16449477 original size:29 final size:29
Alignment explanation
Indices: 16449433--16449499 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
16449423 TGCAGAAATT
* * *
16449433 TTGCCATATAATGAATACATGCCATAAAA
1 TTGCCAAATAACGAATAAATGCCATAAAA
**
16449462 TTGCCAAATAACGAATAAATGTGATAAAA
1 TTGCCAAATAACGAATAAATGCCATAAAA
*
16449491 TCGCCAAAT
1 TTGCCAAAT
16449500 CCCCTCGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.25
Consensus pattern (29 bp):
TTGCCAAATAACGAATAAATGCCATAAAA
Found at i:16452463 original size:23 final size:23
Alignment explanation
Indices: 16452437--16452535 Score: 126
Period size: 23 Copynumber: 4.3 Consensus size: 23
16452427 AGTGTTATTG
16452437 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* * *
16452460 ATCATTTGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
16452483 TTTAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
16452506 ATCAATGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
*
16452529 ATTAGTG
1 ATCAGTG
16452536 TGGCACTTAT
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:16452493 original size:46 final size:46
Alignment explanation
Indices: 16452440--16452535 Score: 165
Period size: 46 Copynumber: 2.1 Consensus size: 46
16452430 GTTATTGATC
* * *
16452440 AGTGGTAGCTACGGCTACATATCATTTGTAGCTTCGGCTACATTTT
1 AGTGGTAGCTACGGCTACATATCAATGGTAGCTTCGGCTACATATT
16452486 AGTGGTAGCTACGGCTACATATCAATGGTAGCTTCGGCTACATATT
1 AGTGGTAGCTACGGCTACATATCAATGGTAGCTTCGGCTACATATT
16452532 AGTG
1 AGTG
16452536 TGGCACTTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (46 bp):
AGTGGTAGCTACGGCTACATATCAATGGTAGCTTCGGCTACATATT
Found at i:16465725 original size:27 final size:27
Alignment explanation
Indices: 16465249--16465724 Score: 506
Period size: 27 Copynumber: 17.7 Consensus size: 27
16465239 GACTTATAGG
* *
16465249 AAAATGACTGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTTGAAGGGT
* * * *
16465276 AAAACGACTGAAATACCTTTGAACGGT
1 AAAATGACCGAAATACCCTTGAAGGGT
* **
16465303 AAAATGACCAAAATACCCTCAAAGGGT
1 AAAATGACCGAAATACCCTTGAAGGGT
* *
16465330 AAAATGACTGAAATACCCTTGAAGGAT
1 AAAATGACCGAAATACCCTTGAAGGGT
* *
16465357 AAAATGATCGAAATGCCCTTGAAGGGT
1 AAAATGACCGAAATACCCTTGAAGGGT
*
16465384 AAAATGATCGAAATACCCTTGAAGGGT
1 AAAATGACCGAAATACCCTTGAAGGGT
* * * *
16465411 AAAATGATCGAAATGCCATCGAAGGGT
1 AAAATGACCGAAATACCCTTGAAGGGT
* *
16465438 AAAATGATCGAAATACCCTTAAAGGGT
1 AAAATGACCGAAATACCCTTGAAGGGT
*
16465465 AAAATGACTGAAATACCCTTGAAGGGT
1 AAAATGACCGAAATACCCTTGAAGGGT
*
16465492 AAAATGACCGAAATGCCCTTGAAGGGT
1 AAAATGACCGAAATACCCTTGAAGGGT
* * *
16465519 AAAATAACTGAAATACCTTTGAAGGGT
1 AAAATGACCGAAATACCCTTGAAGGGT
* *
16465546 AAAATGACCAAAATACCCTTAAAGGGT
1 AAAATGACCGAAATACCCTTGAAGGGT
* * * *
16465573 AAAATGACTGAAATGCCCTTGAAAGAT
1 AAAATGACCGAAATACCCTTGAAGGGT
* * * *
16465600 AAAATGATCAAAACACCCCTGAAGGGT
1 AAAATGACCGAAATACCCTTGAAGGGT
* * * *
16465627 AAAATGATCAAAATACCCCTGAACGGT
1 AAAATGACCGAAATACCCTTGAAGGGT
* *
16465654 AAAATGATCGAAATACCC-TCATAGGGT
1 AAAATGACCGAAATACCCTTGA-AGGGT
* * * * *
16465681 AAAAGGAACGAAA-ACCCCTAAAGAGT
1 AAAATGACCGAAATACCCTTGAAGGGT
*
16465707 GAAATGACCGAAATACCC
1 AAAATGACCGAAATACCC
16465725 CCATAAGGTA
Statistics
Matches: 378, Mismatches: 68, Indels: 6
0.84 0.15 0.01
Matches are distributed among these distances:
26 20 0.05
27 358 0.95
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.19
Consensus pattern (27 bp):
AAAATGACCGAAATACCCTTGAAGGGT
Found at i:16465944 original size:26 final size:26
Alignment explanation
Indices: 16465921--16465991 Score: 124
Period size: 26 Copynumber: 2.7 Consensus size: 26
16465911 CATATACTGC
16465921 TACTGGCAGCTTTGCTGCGTTACTAT
1 TACTGGCAGCTTTGCTGCGTTACTAT
*
16465947 TACTGGCAGCTTTGCTGCGTCACTAT
1 TACTGGCAGCTTTGCTGCGTTACTAT
*
16465973 TACTGGCAGCTTGGCTGCG
1 TACTGGCAGCTTTGCTGCG
16465992 ATATTGGTGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.14, C:0.25, G:0.27, T:0.34
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCGTTACTAT
Found at i:16466103 original size:28 final size:28
Alignment explanation
Indices: 16466059--16466151 Score: 105
Period size: 28 Copynumber: 3.2 Consensus size: 28
16466049 TACTGCATTG
*
16466059 CACTGATTACTATATTGGGCTAAGGCCCC
1 CACTG-TTACTATATTGGGCTAAGGCCCA
* * *
16466088 CACTGTTATTGTATTGGGTTAAGGCCTACA
1 CACTGTTACTATATTGGGCTAAGGCC--CA
* *
16466118 CACTGTTACTATAATGGGCTAAAGCCCA
1 CACTGTTACTATATTGGGCTAAGGCCCA
16466146 CACTGT
1 CACTGT
16466152 ACTGATACTA
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
28 26 0.49
29 5 0.09
30 22 0.42
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (28 bp):
CACTGTTACTATATTGGGCTAAGGCCCA
Found at i:16473253 original size:27 final size:27
Alignment explanation
Indices: 16473207--16473598 Score: 382
Period size: 27 Copynumber: 14.6 Consensus size: 27
16473197 CATGGGCAAT
* *
16473207 TGATTGAAATA-CCTTCGAAGGATAAAA
1 TGATCGAAATACCCTT-GAAGGGTAAAA
*
16473234 TGACCGAAATACCCTTGAAGGGTAAAA
1 TGATCGAAATACCCTTGAAGGGTAAAA
16473261 TGATCGAAATACCCTTGAAGGGTAAAA
1 TGATCGAAATACCCTTGAAGGGTAAAA
* * * ** *
16473288 TGA-CCAAAAACTCTCAAAAGGTAAAA
1 TGATCGAAATACCCTTGAAGGGTAAAA
* ** *
16473314 TTATTAAAATGCCCTTGAAGGGTAAAA
1 TGATCGAAATACCCTTGAAGGGTAAAA
*
16473341 TGA-CAGAAATACCCTTAAAGGGTAAAA
1 TGATC-GAAATACCCTTGAAGGGTAAAA
* * *
16473368 TGATCGAAATGCCCTCGAAGGCTAAAA
1 TGATCGAAATACCCTTGAAGGGTAAAA
* * * *
16473395 TGATCAAAATTCCCTCGAAGAGTAAAA
1 TGATCGAAATACCCTTGAAGGGTAAAA
*
16473422 TGATCGAAATACCCCTGAAGGGTAAAA
1 TGATCGAAATACCCTTGAAGGGTAAAA
* *
16473449 TGA-CAAAAATACCCTTAAAGGGTAAAA
1 TGATC-GAAATACCCTTGAAGGGTAAAA
* ** *
16473476 TTATTAAAATGA-CCTCGAAGGGTAAAA
1 TGATCGAAAT-ACCCTTGAAGGGTAAAA
* * *
16473503 TGATTGAAATACCCCTGAAAGGTAAAA
1 TGATCGAAATACCCTTGAAGGGTAAAA
*
16473530 TGATCGAAATACCCTTAAAGGGTAAAA
1 TGATCGAAATACCCTTGAAGGGTAAAA
* * *
16473557 TGATTGAAATGCCCTCGAAGGGTAAAA
1 TGATCGAAATACCCTTGAAGGGTAAAA
16473584 TGAAT-GAAATACCCT
1 TG-ATCGAAATACCCT
16473599 CATAAGATAA
Statistics
Matches: 298, Mismatches: 58, Indels: 18
0.80 0.16 0.05
Matches are distributed among these distances:
26 21 0.07
27 269 0.90
28 8 0.03
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.22
Consensus pattern (27 bp):
TGATCGAAATACCCTTGAAGGGTAAAA
Found at i:16473431 original size:81 final size:81
Alignment explanation
Indices: 16473207--16473616 Score: 427
Period size: 81 Copynumber: 5.1 Consensus size: 81
16473197 CATGGGCAAT
* * * * *** * *
16473207 TGATTGAAATACCTTCGAAGGATAAAATGACCGAAATACCCTTGAAGGGTAAAATGATCGAAATA
1 TGATCGAAATACCCTCAAAGGGTAAAATGATTAAAATGCCCTCGAAGGGTAAAATGATCGAAATA
*
16473272 CCCTTGAAGGGTAAAA
66 CCCTTAAAGGGTAAAA
* * * * * *
16473288 TGA-CCAAAAACTCTCAAAAGGTAAAATTATTAAAATGCCCTTGAAGGGTAAAATGA-CAGAAAT
1 TGATCGAAATACCCTCAAAGGGTAAAATGATTAAAATGCCCTCGAAGGGTAAAATGATC-GAAAT
16473351 ACCCTTAAAGGGTAAAA
65 ACCCTTAAAGGGTAAAA
* * * * * *
16473368 TGATCGAAATGCCCTCGAAGGCTAAAATGATCAAAATTCCCTCGAAGAGTAAAATGATCGAAATA
1 TGATCGAAATACCCTCAAAGGGTAAAATGATTAAAATGCCCTCGAAGGGTAAAATGATCGAAATA
* *
16473433 CCCCTGAAGGGTAAAA
66 CCCTTAAAGGGTAAAA
* * * * *
16473449 TGA-CAAAAATACCCTTAAAGGGTAAAATTATTAAAATGACCTCGAAGGGTAAAATGATTGAAAT
1 TGATC-GAAATACCCTCAAAGGGTAAAATGATTAAAATGCCCTCGAAGGGTAAAATGATCGAAAT
*
16473513 ACCCCTGAAA-GGTAAAA
65 A-CCCTTAAAGGGTAAAA
* *
16473530 TGATCGAAATACCCTTAAAGGGTAAAATGATTGAAATGCCCTCGAAGGGTAAAATGAAT-GAAAT
1 TGATCGAAATACCCTCAAAGGGTAAAATGATTAAAATGCCCTCGAAGGGTAAAATG-ATCGAAAT
* *
16473594 ACCCTCATAA-GATAAAA
65 ACCCTTA-AAGGGTAAAA
16473611 TGATCG
1 TGATCG
16473617 TTAAACCCCT
Statistics
Matches: 273, Mismatches: 48, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
79 1 0.00
80 70 0.26
81 193 0.71
82 9 0.03
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.22
Consensus pattern (81 bp):
TGATCGAAATACCCTCAAAGGGTAAAATGATTAAAATGCCCTCGAAGGGTAAAATGATCGAAATA
CCCTTAAAGGGTAAAA
Found at i:16474017 original size:27 final size:30
Alignment explanation
Indices: 16473979--16474061 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
16473969 TGATTGCTGC
16473979 ATTGGGCTAAGGGCCC-C-A-TGTTACTGT
1 ATTGGGCTAAGGGCCCACAACTGTTACTGT
*
16474006 ATTGGGC-AAAGGCCCACAGACTGTTACTGT
1 ATTGGGCTAAGGGCCCACA-ACTGTTACTGT
16474036 ATTGGGCTAA-GGCCCAC-ACTG-TACTG
1 ATTGGGCTAAGGGCCCACAACTGTTACTG
16474062 ATACTGTATA
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
26 7 0.14
27 13 0.26
28 4 0.08
29 1 0.02
30 23 0.46
31 2 0.04
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (30 bp):
ATTGGGCTAAGGGCCCACAACTGTTACTGT
Found at i:16474033 original size:30 final size:30
Alignment explanation
Indices: 16473997--16474053 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
16473987 AAGGGCCCCA
16473997 TGTTACTGTATTGGGCAAAGGCCCACAGAC
1 TGTTACTGTATTGGGCAAAGGCCCACAGAC
*
16474027 TGTTACTGTATTGGGCTAAGGCCCACA
1 TGTTACTGTATTGGGCAAAGGCCCACA
16474054 CTGTACTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (30 bp):
TGTTACTGTATTGGGCAAAGGCCCACAGAC
Found at i:16474082 original size:33 final size:33
Alignment explanation
Indices: 16474000--16474088 Score: 94
Period size: 33 Copynumber: 2.8 Consensus size: 33
16473990 GGCCCCATGT
* * * *
16474000 TACTGTATTGGGCAAAGGCCCACA--G-ACTGT
1 TACTGTATAGGACTAAGGCCCACACTGTACTGA
* *
16474030 TACTGTATTGGGCTAAGGCCCACACTGTACTGA
1 TACTGTATAGGACTAAGGCCCACACTGTACTGA
*
16474063 TACTGTATAGGACTTAGGCCCACACT
1 TACTGTATAGGACTAAGGCCCACACT
16474089 AATTCTACAT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
30 23 0.45
32 1 0.02
33 27 0.53
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.26
Consensus pattern (33 bp):
TACTGTATAGGACTAAGGCCCACACTGTACTGA
Found at i:16478177 original size:29 final size:29
Alignment explanation
Indices: 16478126--16478212 Score: 115
Period size: 29 Copynumber: 3.0 Consensus size: 29
16478116 CGCAGTTTCC
*
16478126 ATAAGAAA-TCCTTGTGGCGATCTCTATT
1 ATAAGAAATTCTTTGTGGCGATCTCTATT
* *
16478154 ATAAGAAATTCTTTCTGGCGATCTCTTTT
1 ATAAGAAATTCTTTGTGGCGATCTCTATT
*
16478183 ATAAGAAAATT-TTTGTGGCTATCTCTATT
1 ATAAG-AAATTCTTTGTGGCGATCTCTATT
16478212 A
1 A
16478213 AAGGAATGTC
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
28 8 0.16
29 38 0.75
30 5 0.10
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (29 bp):
ATAAGAAATTCTTTGTGGCGATCTCTATT
Found at i:16487854 original size:5 final size:5
Alignment explanation
Indices: 16487844--16487868 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
16487834 GGTAATTTGG
16487844 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
16487869 ACAAAAGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:16490650 original size:30 final size:30
Alignment explanation
Indices: 16490616--16490672 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
16490606 ACGACCTTAG
* *
16490616 ACACGGGCATGTGTCTCAGCCGTGTGTGAC
1 ACACGGGCATGCGTCACAGCCGTGTGTGAC
**
16490646 ACACGGTTATGCGTCACAGCCGTGTGT
1 ACACGGGCATGCGTCACAGCCGTGTGT
16490673 CCCCTGTAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.18, C:0.26, G:0.32, T:0.25
Consensus pattern (30 bp):
ACACGGGCATGCGTCACAGCCGTGTGTGAC
Found at i:16494671 original size:20 final size:20
Alignment explanation
Indices: 16494605--16494671 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
16494595 TTGTACGGGA
16494605 TTTGCACTTCGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
* * * * *
16494625 TATACACTTTGGTGCCTCTA
1 TTTGCACTTCGGTGCCCCTG
* *
16494645 TTCGCACTACGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
16494665 TTTGCAC
1 TTTGCAC
16494672 ATTTGTGCCC
Statistics
Matches: 34, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.12, C:0.33, G:0.21, T:0.34
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCCCTG
Found at i:16494680 original size:40 final size:40
Alignment explanation
Indices: 16494608--16494686 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
16494598 TACGGGATTT
* *
16494608 GCACTTCGGTGCCCCTGTATACACTTTGGTGCCTCTATTC
1 GCACTACGGTGCCCCTGTATACACTTTGGTGCCCCTATTC
* *
16494648 GCACTACGGTGCCCCTGTTTGCACATTT-GTGCCCCTATT
1 GCACTACGGTGCCCCTGTATACAC-TTTGGTGCCCCTATT
16494687 ATGCATCTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 31 0.91
41 3 0.09
ACGTcount: A:0.13, C:0.33, G:0.20, T:0.34
Consensus pattern (40 bp):
GCACTACGGTGCCCCTGTATACACTTTGGTGCCCCTATTC
Found at i:16497543 original size:34 final size:36
Alignment explanation
Indices: 16497505--16497597 Score: 120
Period size: 36 Copynumber: 2.6 Consensus size: 36
16497495 TAGGTACGTG
16497505 TATATATAATATAAATATGTGTGCATGGTTTTATTA
1 TATATATAATATAAATATGTGTGCATGGTTTTATTA
* *
16497541 TATATATAATATAAATATGAGTGCAT--TTTT-TTGT
1 TATATATAATATAAATATGTGTGCATGGTTTTATT-A
* *
16497575 TATATATAATATATATAGGTGTG
1 TATATATAATATAAATATGTGTG
16497598 GCTTTGTCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
33 2 0.04
34 24 0.47
36 25 0.49
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (36 bp):
TATATATAATATAAATATGTGTGCATGGTTTTATTA
Found at i:16500452 original size:39 final size:39
Alignment explanation
Indices: 16500409--16500486 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
16500399 TTACTTTTAG
* *
16500409 GCATATATCACATTACACATATAATCACATAACATTCAA
1 GCATATACCACAATACACATATAATCACATAACATTCAA
* *
16500448 GCATATACCATAATACTCATATAATCACATAACATTCAA
1 GCATATACCACAATACACATATAATCACATAACATTCAA
16500487 ACTAGCCTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.28
Consensus pattern (39 bp):
GCATATACCACAATACACATATAATCACATAACATTCAA
Found at i:16504754 original size:43 final size:43
Alignment explanation
Indices: 16504658--16504763 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 43
16504648 AAAAAATGCT
* * *
16504658 GCTATAGAACATGACATTTAACGGCGCTTTTTCCACGAACGCC
1 GCTATAGAACATGACATTTAACGGCGCTATTCCCACAAACGCC
** * * *
16504701 ATTATCGAACATGACTTTTAATGGCGCTATTCCCACAAACGCC
1 GCTATAGAACATGACATTTAACGGCGCTATTCCCACAAACGCC
* *
16504744 GCTAAAGAACAT-ACCTTTAA
1 GCTATAGAACATGACATTTAA
16504764 AACAAATTTA
Statistics
Matches: 50, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
42 7 0.14
43 43 0.86
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (43 bp):
GCTATAGAACATGACATTTAACGGCGCTATTCCCACAAACGCC
Found at i:16508240 original size:36 final size:38
Alignment explanation
Indices: 16508193--16508264 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
16508183 GGGCAAGTCA
*
16508193 ATGTAAAAAT-AAAAAA-AAAACCAGAGGTTACCATAG
1 ATGTAAAAATAAAAAAATAAAAACAGAGGTTACCATAG
16508229 ATGTAAAAATAAAAAAATAAAAACAGAGGTTACCAT
1 ATGTAAAAATAAAAAAATAAAAACAGAGGTTACCAT
16508265 TGCTGAACCA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
36 10 0.30
37 6 0.18
38 17 0.52
ACGTcount: A:0.60, C:0.10, G:0.12, T:0.18
Consensus pattern (38 bp):
ATGTAAAAATAAAAAAATAAAAACAGAGGTTACCATAG
Found at i:16509295 original size:13 final size:14
Alignment explanation
Indices: 16509274--16509314 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
16509264 TTAATAAATT
16509274 ATTTAATTTT-ACA
1 ATTTAATTTTAACA
*
16509287 ATTTTATTTTAACA
1 ATTTAATTTTAACA
*
16509301 A-TAAATTTTAACA
1 ATTTAATTTTAACA
16509314 A
1 A
16509315 CAATAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 20 0.83
14 4 0.17
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTTAATTTTAACA
Found at i:16509324 original size:15 final size:16
Alignment explanation
Indices: 16509297--16509326 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16509287 ATTTTATTTT
16509297 AACAATAAATTTTAAC
1 AACAATAAATTTTAAC
16509313 AACAAT-AATTTTAA
1 AACAATAAATTTTAA
16509327 ATTTTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (16 bp):
AACAATAAATTTTAAC
Found at i:16509641 original size:37 final size:39
Alignment explanation
Indices: 16509596--16509668 Score: 89
Period size: 37 Copynumber: 1.9 Consensus size: 39
16509586 ATTATAAAGT
16509596 TTATATATTATATTTATTTTA-T-AAAAT-AATTTTCGA
1 TTATATATTATATTTATTTTATTAAAAATAAATTTTCGA
* * *
16509632 TTATGATATTGTGTTTGTTTTATTAAAAATAAATTTT
1 TTAT-ATATTATATTTATTTTATTAAAAATAAATTTT
16509669 AGAAAATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
36 4 0.13
37 14 0.47
38 1 0.03
39 5 0.17
40 6 0.20
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.56
Consensus pattern (39 bp):
TTATATATTATATTTATTTTATTAAAAATAAATTTTCGA
Found at i:16509681 original size:13 final size:14
Alignment explanation
Indices: 16509657--16509687 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
16509647 TGTTTTATTA
16509657 AAAATAAATTTTAG
1 AAAATAAATTTTAG
16509671 AAAAT-AATTTTAG
1 AAAATAAATTTTAG
16509684 AAAA
1 AAAA
16509688 ATTTACGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (14 bp):
AAAATAAATTTTAG
Found at i:16509688 original size:14 final size:15
Alignment explanation
Indices: 16509656--16509689 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
16509646 TTGTTTTATT
16509656 AAAAATAAATTTTAG
1 AAAAATAAATTTTAG
16509671 -AAAAT-AATTTTAG
1 AAAAATAAATTTTAG
16509684 AAAAAT
1 AAAAAT
16509690 TTACGAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
AAAAATAAATTTTAG
Found at i:16520234 original size:21 final size:21
Alignment explanation
Indices: 16520208--16520261 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
16520198 AATTGATGGA
**
16520208 TGTGTCGTGACTTGGAACCCT
1 TGTGTCGTGACACGGAACCCT
*
16520229 TGTGTCATGACACGGAACCCT
1 TGTGTCGTGACACGGAACCCT
*
16520250 TGTGTTGTGACA
1 TGTGTCGTGACA
16520262 TTGTTGGAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.31
Consensus pattern (21 bp):
TGTGTCGTGACACGGAACCCT
Found at i:16523980 original size:20 final size:22
Alignment explanation
Indices: 16523954--16524004 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
16523944 ATGCCATTAG
16523954 CTTAGATTAT-TTCTTTAG-TTT
1 CTTAGATT-TGTTCTTTAGCTTT
*
16523975 -TTAGATTTGTTCTTTTGCTTT
1 CTTAGATTTGTTCTTTAGCTTT
16523996 CTTAGATTT
1 CTTAGATTT
16524005 TTTGTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 1 0.04
20 14 0.54
21 3 0.12
22 8 0.31
ACGTcount: A:0.16, C:0.10, G:0.12, T:0.63
Consensus pattern (22 bp):
CTTAGATTTGTTCTTTAGCTTT
Found at i:16525863 original size:29 final size:30
Alignment explanation
Indices: 16525821--16525880 Score: 113
Period size: 29 Copynumber: 2.0 Consensus size: 30
16525811 GTTGATTGGG
16525821 TGGAAATCAACACACA-TTAGAATGAACCA
1 TGGAAATCAACACACATTTAGAATGAACCA
16525850 TGGAAATCAACACACATTTAGAATGAACCA
1 TGGAAATCAACACACATTTAGAATGAACCA
16525880 T
1 T
16525881 CCTTCTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 16 0.53
30 14 0.47
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (30 bp):
TGGAAATCAACACACATTTAGAATGAACCA
Found at i:16527450 original size:40 final size:40
Alignment explanation
Indices: 16527352--16527614 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
16527342 TCCTCGTTCA
* * * * *
16527352 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
16527391 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
16527431 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
16527471 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
16527511 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
16527551 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
16527591 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
16527615 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:16534537 original size:40 final size:40
Alignment explanation
Indices: 16534439--16534701 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
16534429 TCCTCGTTCA
* * * * *
16534439 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
16534478 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
16534518 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
16534558 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
16534598 AATGCCTCCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
16534638 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
16534678 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
16534702 CAGCATTCAA
Statistics
Matches: 196, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
39 37 0.19
40 151 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:16541082 original size:40 final size:40
Alignment explanation
Indices: 16540984--16541246 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
16540974 TCCTCGTTCA
* * * * *
16540984 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
16541023 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
16541063 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
16541103 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
16541143 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
16541183 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
16541223 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
16541247 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:16555893 original size:30 final size:30
Alignment explanation
Indices: 16555859--16555927 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
16555849 GTGTGACTTA
16555859 GTCGTGTGTAACACACGGCCTAGCGACACG
1 GTCGTGTGTAACACACGGCCTAGCGACACG
* * * *
16555889 GTCGTATGTGACATATGGCCTAGCGACACG
1 GTCGTGTGTAACACACGGCCTAGCGACACG
**
16555919 ACCGTGTGT
1 GTCGTGTGT
16555928 CCCCTGTAGG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.22, C:0.26, G:0.30, T:0.22
Consensus pattern (30 bp):
GTCGTGTGTAACACACGGCCTAGCGACACG
Found at i:16558104 original size:17 final size:17
Alignment explanation
Indices: 16558082--16558116 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
16558072 TTAGGAGAGC
16558082 TAGACATGCATGAAAGT
1 TAGACATGCATGAAAGT
16558099 TAGACATGCATGAAAGT
1 TAGACATGCATGAAAGT
16558116 T
1 T
16558117 TAAGTCTCTA
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:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (17 bp):
TAGACATGCATGAAAGT
Found at i:16560700 original size:51 final size:51
Alignment explanation
Indices: 16560560--16560754 Score: 232
Period size: 51 Copynumber: 3.8 Consensus size: 51
16560550 GTGAAAGTGA
*
16560560 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-A-TGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT-AT
* * * * *
16560610 AGGTCGCATGTCTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTTT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTAT
* * * * * * *
16560661 TGATCACGTGTGTAGTACTATGTGTAGGCTAATACGTGTATCGGATGGTAA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTAT
* *
16560712 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
16560755 AACATCATTG
Statistics
Matches: 118, Mismatches: 25, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
50 40 0.34
51 77 0.65
52 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (51 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTAT
Found at i:16560766 original size:102 final size:101
Alignment explanation
Indices: 16560563--16560766 Score: 277
Period size: 102 Copynumber: 2.0 Consensus size: 101
16560553 AAAGTGATGG
* *
16560563 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCGCATGTCTAGTAC
1 TCACGTGTGTAGTACTATGTGCAGGCTAATACGTGTACCGGAATGATAGGTCACATGTCTAGTAC
* * * *
16560628 TATGTGCAGGCTACTATGTGTACCGGATAGTTTTGA
66 TATGTGCAGGCTACTATGTGAACCGAACAGTATTGA
* * * *
16560664 TCACGTGTGTAGTACTATGTGTAGGCTAATACGTGTATCGG-ATGGTAATGGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTAATACGTGTACCGGAATGAT-A-GGTCACATGTCTAGT
16560728 ACTATGTGCAGGCTACTATGTGAACCGAACA-TCATTGA
64 ACTATGTGCAGGCTACTATGTGAACCGAACAGT-ATTGA
16560766 T
1 T
16560767 TAGTAAGGTG
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
100 4 0.04
101 40 0.44
102 46 0.51
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAGGCTAATACGTGTACCGGAATGATAGGTCACATGTCTAGTAC
TATGTGCAGGCTACTATGTGAACCGAACAGTATTGA
Found at i:16564298 original size:144 final size:144
Alignment explanation
Indices: 16564038--16564329 Score: 557
Period size: 144 Copynumber: 2.0 Consensus size: 144
16564028 TCCCTGTGGG
* *
16564038 TACAATAACTTGACACTTACTTGTCACTTTATTACTTGATATGATTGTGTCCATATTTCCATCTT
1 TACAATAACTCGACACTTACTTGTCACTTTATTACTTGATATGATTGTGTCCATATTTCCATCGT
16564103 TCTACTTGCTTACCTTATTTCTCCAAATTTTAAGAAGTTATTATGCGATATTGGCACTTACAAAA
66 TCTACTTGCTTACCTTATTTCTCCAAATTTTAAGAAGTTATTATGCGATATTGGCACTTACAAAA
16564168 CTAGTACACATGAA
131 CTAGTACACATGAA
*
16564182 TACAATAACTCGACATTTACTTGTCACTTTATTACTTGATATGATTGTGTCCATATTTCCATCGT
1 TACAATAACTCGACACTTACTTGTCACTTTATTACTTGATATGATTGTGTCCATATTTCCATCGT
16564247 TCTACTTGCTTACCTTATTTCTCCAAATTTTAAGAAGTTATTATGCGATATTGGCACTTACAAAA
66 TCTACTTGCTTACCTTATTTCTCCAAATTTTAAGAAGTTATTATGCGATATTGGCACTTACAAAA
16564312 CTAGTACACATGAA
131 CTAGTACACATGAA
16564326 TACA
1 TACA
16564330 TTGTAAATCA
Statistics
Matches: 145, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
144 145 1.00
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.40
Consensus pattern (144 bp):
TACAATAACTCGACACTTACTTGTCACTTTATTACTTGATATGATTGTGTCCATATTTCCATCGT
TCTACTTGCTTACCTTATTTCTCCAAATTTTAAGAAGTTATTATGCGATATTGGCACTTACAAAA
CTAGTACACATGAA
Found at i:16565371 original size:18 final size:18
Alignment explanation
Indices: 16565323--16565371 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
16565313 AAGAAAACTC
16565323 AAAT-AAAACAATAGCAA
1 AAATAAAAACAATAGCAA
*
16565340 ATAATAACAA-AATATG-AA
1 A-AATAAAAACAATA-GCAA
16565358 AAATAAAAACAATA
1 AAATAAAAACAATA
16565372 AAACAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
17 8 0.31
18 14 0.54
19 4 0.15
ACGTcount: A:0.71, C:0.08, G:0.04, T:0.16
Consensus pattern (18 bp):
AAATAAAAACAATAGCAA
Found at i:16577488 original size:50 final size:50
Alignment explanation
Indices: 16577376--16577617 Score: 263
Period size: 50 Copynumber: 4.7 Consensus size: 50
16577366 ATTTGGGTAA
* *
16577376 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAG---ATG
*
16577432 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* * * *
16577482 AGAGGTCCCATATAATACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* *
16577532 AGAGGTCGTCC--GTAAGACCATGTTTGGGACATGGCATGGGCACCGACATG
1 AGAGGTC--CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
** * * *
16577582 AGAACATACCATGTAAGACCATTTTTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
16577618 TTTGGCATGT
Statistics
Matches: 163, Mismatches: 18, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
49 2 0.01
50 90 0.55
51 25 0.15
52 2 0.01
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
Found at i:16577564 original size:100 final size:103
Alignment explanation
Indices: 16577376--16577625 Score: 310
Period size: 100 Copynumber: 2.4 Consensus size: 103
16577366 ATTTGGGTAA
*
16577376 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCC
1 AGAGATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGA--ATGAGAGGTCCC
*
16577441 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
63 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
* * * *
16577482 AGAGGTCCCATATAATACCATGTCTGGGACATGGCGTTGGCA-CC-GAG-ATGAGAGGTCGTCC-
1 AGAGATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTC-CCCT
*
16577543 GTAAGACCATGTTTGGGACATGGCATGGGCACCGACATG
65 GTAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
* * * * * *
16577582 AGAACATACCATGTAAGACCATTTTTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATATAAGACCATGTCTGGGACATGGCATTGGCAT
16577626 GTTTTTACCA
Statistics
Matches: 126, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
100 49 0.39
101 34 0.27
103 3 0.02
105 2 0.02
106 38 0.30
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.23
Consensus pattern (103 bp):
AGAGATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCCTG
TAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
Found at i:16584284 original size:38 final size:39
Alignment explanation
Indices: 16584181--16584290 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 39
16584171 GGCGTTTGAA
* * *
16584181 TAAAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTT
1 TAAAAAACGCCGCTAAAAATCGAGCATTAGC-GCGCATTT
* * *
16584221 TAAAAAATGCCGCTAAAGATCGAGCATTAGCGTG-ATTT
1 TAAAAAACGCCGCTAAAAATCGAGCATTAGCGCGCATTT
*
16584259 TAGGAAAACGCCGCTAAAAAT-GAGCATTAGCG
1 TA-AAAAACGCCGCTAAAAATCGAGCATTAGCG
16584291 ACATTTTCCC
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
38 16 0.27
39 17 0.28
40 27 0.45
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (39 bp):
TAAAAAACGCCGCTAAAAATCGAGCATTAGCGCGCATTT
Found at i:16584471 original size:41 final size:41
Alignment explanation
Indices: 16584356--16584513 Score: 156
Period size: 41 Copynumber: 3.9 Consensus size: 41
16584346 TTTTTAGGGC
* ** * *
16584356 TTTAGCGGCGTTTCAAAAAAAGCACCGCTAATGCTTGGGGA
1 TTTAGTGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGGGGA
* * * ** *
16584397 TTTAGTGGCATTTTTGAAAAGGCGTTGCTAATGCTCGGGGG
1 TTTAGTGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGGGGA
* ****
16584438 TTTAGTGGCGTTTTTAAAAAAGCGCCGCGAATGCTC-TATT
1 TTTAGTGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGGGGA
*
16584478 TTTAGTAGCGTTTTTAAAAAAGCGCCGCTAATGCTC
1 TTTAGTGGCGTTTTTAAAAAAGCGCCGCTAATGCTC
16584514 TATTTTTAGC
Statistics
Matches: 94, Mismatches: 23, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
40 34 0.36
41 60 0.64
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (41 bp):
TTTAGTGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGGGGA
Found at i:16584490 original size:40 final size:40
Alignment explanation
Indices: 16584438--16584522 Score: 152
Period size: 40 Copynumber: 2.1 Consensus size: 40
16584428 TGCTCGGGGG
*
16584438 TTTAGTGGCGTTTTTAAAAAAGCGCCGCGAATGCTCTATT
1 TTTAGTAGCGTTTTTAAAAAAGCGCCGCGAATGCTCTATT
*
16584478 TTTAGTAGCGTTTTTAAAAAAGCGCCGCTAATGCTCTATT
1 TTTAGTAGCGTTTTTAAAAAAGCGCCGCGAATGCTCTATT
16584518 TTTAG
1 TTTAG
16584523 CAATTCTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (40 bp):
TTTAGTAGCGTTTTTAAAAAAGCGCCGCGAATGCTCTATT
Found at i:16584598 original size:7 final size:7
Alignment explanation
Indices: 16584577--16584715 Score: 57
Period size: 7 Copynumber: 19.4 Consensus size: 7
16584567 TTAACTATCA
*
16584577 TTATAGT
1 TTATGGT
*
16584584 TTAGGGT
1 TTATGGT
16584591 TTATGGT
1 TTATGGT
*
16584598 TTAGGGT
1 TTATGGT
* *
16584605 TTAAGAT
1 TTATGGT
*
16584612 TTAAGAGT
1 TTATG-GT
* **
16584620 TTCTATT
1 TTATGGT
*
16584627 TTAAGGT
1 TTATGGT
* *
16584634 TTAGGGA
1 TTATGGT
*
16584641 TTATGTAT
1 TTATG-GT
16584649 TTA-GGT
1 TTATGGT
* *
16584655 ATTATAGA
1 -TTATGGT
16584663 TTATGGT
1 TTATGGT
16584670 TTATGGT
1 TTATGGT
16584677 TTATGGT
1 TTATGGT
* *
16584684 TTAAGGG
1 TTATGGT
16584691 TTATGGGT
1 TTAT-GGT
16584699 TT-TGGGT
1 TTAT-GGT
*
16584706 TTAGGGT
1 TTATGGT
16584713 TTA
1 TTA
16584716 GATTAATTGA
Statistics
Matches: 96, Mismatches: 30, Indels: 12
0.70 0.22 0.09
Matches are distributed among these distances:
6 1 0.01
7 84 0.88
8 11 0.11
ACGTcount: A:0.22, C:0.01, G:0.28, T:0.49
Consensus pattern (7 bp):
TTATGGT
Found at i:16586469 original size:18 final size:18
Alignment explanation
Indices: 16586446--16586492 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
16586436 TGTTTGGTTA
*
16586446 CCCTTCTTC-TCCTCTTTC
1 CCCTTCTCCTTCC-CTTTC
16586464 CCCTTCTCCTTCCCTTTC
1 CCCTTCTCCTTCCCTTTC
*
16586482 CCCTTCCCCTT
1 CCCTTCTCCTT
16586493 GGGTTGCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 23 0.88
19 3 0.12
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (18 bp):
CCCTTCTCCTTCCCTTTC
Found at i:16592526 original size:445 final size:445
Alignment explanation
Indices: 16591697--16592588 Score: 1784
Period size: 445 Copynumber: 2.0 Consensus size: 445
16591687 GAGTAGCCTT
16591697 CATAGAGCTCTGCATTTTGGTCATCTTGCTGTAGCTAGTGTTCTCCTTCAGTCTGGTGCTTCTAT
1 CATAGAGCTCTGCATTTTGGTCATCTTGCTGTAGCTAGTGTTCTCCTTCAGTCTGGTGCTTCTAT
16591762 TACATTGGAAGATTCAAACTGTAGAACACCTATAGATCTCCTTTCTGGGCCTGTGTTGAAGGTTT
66 TACATTGGAAGATTCAAACTGTAGAACACCTATAGATCTCCTTTCTGGGCCTGTGTTGAAGGTTT
16591827 TCGAAAGTGGGCTTGATTCAGGTACCCGCTACCATCTTTACTTTGTTGGGATCTTTAGATGTTGA
131 TCGAAAGTGGGCTTGATTCAGGTACCCGCTACCATCTTTACTTTGTTGGGATCTTTAGATGTTGA
16591892 AATCTGTTAGTTTAAATTTTACATCATGTTTTTTTTTTAATTTACTTTTTTTCTGGAATACCATA
196 AATCTGTTAGTTTAAATTTTACATCATGTTTTTTTTTTAATTTACTTTTTTTCTGGAATACCATA
16591957 TTGAAAATTTTAAAATTTTGAAACAGTTCTGTTTTTATTTTTATTTTGGGTATACAGGATGATGT
261 TTGAAAATTTTAAAATTTTGAAACAGTTCTGTTTTTATTTTTATTTTGGGTATACAGGATGATGT
16592022 GAGTCAACAACCATGAATGTATTATTTTATCCTTTATACTTTTCAGTGGTCAAGCTGCAGTTATC
326 GAGTCAACAACCATGAATGTATTATTTTATCCTTTATACTTTTCAGTGGTCAAGCTGCAGTTATC
16592087 AGTCCCCGCCAAGTGACTTTTGGTTTGGGGGCTCGTCAGGTGAAAGCAATTGCTG
391 AGTCCCCGCCAAGTGACTTTTGGTTTGGGGGCTCGTCAGGTGAAAGCAATTGCTG
16592142 CATAGAGCTCTGCATTTTGGTCATCTTGCTGTAGCTAGTGTTCTCCTTCAGTCTGGTGCTTCTAT
1 CATAGAGCTCTGCATTTTGGTCATCTTGCTGTAGCTAGTGTTCTCCTTCAGTCTGGTGCTTCTAT
16592207 TACATTGGAAGATTCAAACTGTAGAACACCTATAGATCTCCTTTCTGGGCCTGTGTTGAAGGTTT
66 TACATTGGAAGATTCAAACTGTAGAACACCTATAGATCTCCTTTCTGGGCCTGTGTTGAAGGTTT
16592272 TCGAAAGTGGGCTTGATTCAGGTACCCGCTACCATCTTTACTTTGTTGGGATCTTTAGATGTTGA
131 TCGAAAGTGGGCTTGATTCAGGTACCCGCTACCATCTTTACTTTGTTGGGATCTTTAGATGTTGA
16592337 AATCTGTTAGTTTAAATTTTACATCATGTTTTTTTTTTAATTTACTTTTTTTCTGGAATACCATA
196 AATCTGTTAGTTTAAATTTTACATCATGTTTTTTTTTTAATTTACTTTTTTTCTGGAATACCATA
16592402 TTGAAAATTTTAAAATTTTGAAACAGTTCTGTTTTTATTTTTATTTTGGGTATACAGGATGATGT
261 TTGAAAATTTTAAAATTTTGAAACAGTTCTGTTTTTATTTTTATTTTGGGTATACAGGATGATGT
16592467 GAGTCAACAACCATGAATGTATTATTTTATCCTTTATACTTTTCAGTGGTCAAGCTGCAGTTATC
326 GAGTCAACAACCATGAATGTATTATTTTATCCTTTATACTTTTCAGTGGTCAAGCTGCAGTTATC
16592532 AGTCCCCGCCAAGTGACTTTTGGTTTGGGGGCTCGTCAGGTGAAAGCAATTGCTG
391 AGTCCCCGCCAAGTGACTTTTGGTTTGGGGGCTCGTCAGGTGAAAGCAATTGCTG
16592587 CA
1 CA
16592589 GCGAAACATC
Statistics
Matches: 447, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
445 447 1.00
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (445 bp):
CATAGAGCTCTGCATTTTGGTCATCTTGCTGTAGCTAGTGTTCTCCTTCAGTCTGGTGCTTCTAT
TACATTGGAAGATTCAAACTGTAGAACACCTATAGATCTCCTTTCTGGGCCTGTGTTGAAGGTTT
TCGAAAGTGGGCTTGATTCAGGTACCCGCTACCATCTTTACTTTGTTGGGATCTTTAGATGTTGA
AATCTGTTAGTTTAAATTTTACATCATGTTTTTTTTTTAATTTACTTTTTTTCTGGAATACCATA
TTGAAAATTTTAAAATTTTGAAACAGTTCTGTTTTTATTTTTATTTTGGGTATACAGGATGATGT
GAGTCAACAACCATGAATGTATTATTTTATCCTTTATACTTTTCAGTGGTCAAGCTGCAGTTATC
AGTCCCCGCCAAGTGACTTTTGGTTTGGGGGCTCGTCAGGTGAAAGCAATTGCTG
Found at i:16594402 original size:44 final size:44
Alignment explanation
Indices: 16594318--16594469 Score: 138
Period size: 43 Copynumber: 3.6 Consensus size: 44
16594308 AATATTTTTT
** * *
16594318 AAGTC-ATG-TTTTTAGCAGCGTTTGT-GAAAAAGCGTCGCTAA
1 AAGTCAATGATTTTTAGTGGCGTTTGTGGTAGAAGCGTCGCTAA
*
16594359 AAGTCAAT-TTTTTATAGTGGCGTTTGTGGTAGAAGCGTCGCTAA
1 AAGTCAATGATTTT-TAGTGGCGTTTGTGGTAGAAGCGTCGCTAA
* *
16594403 ATA-TC-ATGATTTTTAGTGGCGTTTGTGGTATAAGCGCCGCTAA
1 A-AGTCAATGATTTTTAGTGGCGTTTGTGGTAGAAGCGTCGCTAA
* * * *
16594446 AGGTC-ATCATCTTTAGCGGCGTTT
1 AAGTCAATGATTTTTAGTGGCGTTT
16594470 TTCTCACATA
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
41 5 0.05
42 6 0.06
43 60 0.65
44 21 0.23
45 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (44 bp):
AAGTCAATGATTTTTAGTGGCGTTTGTGGTAGAAGCGTCGCTAA
Found at i:16607809 original size:20 final size:21
Alignment explanation
Indices: 16607778--16607816 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
16607768 TAATTGAATA
*
16607778 AATAATAATACATGATAAAGG
1 AATAATAATACATAATAAAGG
16607799 AATAA-AATACATAATAAA
1 AATAATAATACATAATAAA
16607817 ATAAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.64, C:0.05, G:0.08, T:0.23
Consensus pattern (21 bp):
AATAATAATACATAATAAAGG
Found at i:16608274 original size:4 final size:4
Alignment explanation
Indices: 16608265--16608289 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
16608255 TTTACAGAAC
16608265 TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA T
16608290 GAAACCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:16609553 original size:44 final size:43
Alignment explanation
Indices: 16609440--16609563 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 43
16609430 AGACTTGATA
* * * * *
16609440 CAATCTGCTCTGCTGTAACTTCAGAGAGATAAGATCTATTACTT
1 CAATCTGCTCTACTGCAACTTCAGGGAGATAAGAT-TATGAATT
* * * * *
16609484 TAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGAATT
1 CAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTAT-GAATT
*
16609528 CAATCTGCTCTACTGCAACGTCAGGGAGATAAGATT
1 CAATCTGCTCTACTGCAACTTCAGGGAGATAAGATT
16609564 TGCTTCTTCA
Statistics
Matches: 63, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
43 3 0.05
44 60 0.95
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (43 bp):
CAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTATGAATT
Found at i:16609579 original size:44 final size:43
Alignment explanation
Indices: 16609490--16609650 Score: 146
Period size: 44 Copynumber: 3.7 Consensus size: 43
16609480 ACTTTAATCC
* * * *
16609490 GCTCCACTACAACTTCAGGGAGATAGGA-TT-ATCGAATTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGTTC---TTCAGTCT
* * *
16609534 GCTCTACTGCAACGTCAGGGAGATAAGATTTGCTTCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTG-TTCTTCAGTCT
* ** * *
16609578 GCCCCACTGTGACTTCAGGGGGATAAGACTTGTTTTCTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGTTCT-TCAGTCT
*
16609622 GCTCCGCTGCAACTTCAGGGAGATAAGAC
1 GCTCCACTGCAACTTCAGGGAGATAAGAC
16609651 CCGATGCGAT
Statistics
Matches: 94, Mismatches: 19, Indels: 8
0.78 0.16 0.07
Matches are distributed among these distances:
43 3 0.03
44 87 0.93
45 2 0.02
47 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (43 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTTGTTCTTCAGTCT
Found at i:16609985 original size:128 final size:128
Alignment explanation
Indices: 16609749--16610004 Score: 316
Period size: 128 Copynumber: 2.0 Consensus size: 128
16609739 TTCTTCTGTT
* * * **
16609749 TGCTCCACTATTGCTTAGGGAGATAAGACTTGTAATTTCCAACCTATTCCACTGCTGGTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGACAAGACTTGCAATTTCCAACCTATTCCACTGCTGACCAGGGA
* * * * * *
16609814 CATAAGACTTGTGGCTTGACTCTATTTCCCTACTCCTGGAGATAATATTTGCCATCTTCGATC
66 CATAAGACTTGTGGCTTGAATCTACTTCCCTACACCTGAAGATAAGATTCGCCATCTTCGATC
* * *
16609877 TGCTCCGCTACTGCTTAGGGAGACAAGA-TCTGCAATTTCTAACCTATTCCACTGTTGACCAGGG
1 TGCTCCACTACTGCTTAGGGAGACAAGACT-TGCAATTTCCAACCTATTCCACTGCTGACCAGGG
* * * * * *
16609941 ATATAGGACTTGTGGCTTGAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATC
65 ACATAAGACTTGTGGCTTGAATCTACTTCCCTACACCTGAAGATAAGATTCGCCATCTTCGATC
16610005 CACTTCACTG
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
127 1 0.01
128 106 0.99
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.32
Consensus pattern (128 bp):
TGCTCCACTACTGCTTAGGGAGACAAGACTTGCAATTTCCAACCTATTCCACTGCTGACCAGGGA
CATAAGACTTGTGGCTTGAATCTACTTCCCTACACCTGAAGATAAGATTCGCCATCTTCGATC
Found at i:16610281 original size:13 final size:13
Alignment explanation
Indices: 16610265--16610290 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16610255 TCTTTCATTT
16610265 TTTTCATTTTTCA
1 TTTTCATTTTTCA
16610278 TTTTCATTTTTCA
1 TTTTCATTTTTCA
16610291 ACTTTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:16610733 original size:27 final size:27
Alignment explanation
Indices: 16610695--16610755 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
16610685 TTGACTTTAA
16610695 TTGA-TTTCTC-TTTTTTGCTTTTAACT
1 TTGATTTTCTCTTTTTTTG-TTTTAACT
* * *
16610721 TTGATTTTTTCTTTTTTTGTTTTGATT
1 TTGATTTTCTCTTTTTTTGTTTTAACT
16610748 TTGATTTT
1 TTGATTTT
16610756 GATTTTTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 4 0.13
27 19 0.63
28 7 0.23
ACGTcount: A:0.10, C:0.08, G:0.10, T:0.72
Consensus pattern (27 bp):
TTGATTTTCTCTTTTTTTGTTTTAACT
Found at i:16610762 original size:27 final size:28
Alignment explanation
Indices: 16610705--16610764 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
16610695 TTGATTTCTC
*
16610705 TTTTTTGCTTTTAACTTTGATTTTTTCT
1 TTTTTTGCTTTTAACTTTGATTTTATCT
* *
16610733 TTTTTTG-TTTTGATTTTGATTTTGAT-T
1 TTTTTTGCTTTTAACTTTGATTTT-ATCT
16610760 TTTTT
1 TTTTT
16610765 CTCTCTTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 20 0.71
28 8 0.29
ACGTcount: A:0.10, C:0.05, G:0.10, T:0.75
Consensus pattern (28 bp):
TTTTTTGCTTTTAACTTTGATTTTATCT
Found at i:16615043 original size:20 final size:21
Alignment explanation
Indices: 16615012--16615050 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
16615002 TAATTGAATA
*
16615012 AATAATAATACATGATAAAGG
1 AATAATAATACATAATAAAGG
16615033 AATAA-AATACATAATAAA
1 AATAATAATACATAATAAA
16615051 ATAAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.64, C:0.05, G:0.08, T:0.23
Consensus pattern (21 bp):
AATAATAATACATAATAAAGG
Found at i:16617587 original size:5 final size:5
Alignment explanation
Indices: 16617577--16617602 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
16617567 CCAAAATTAC
16617577 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
16617603 TAAAAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:16618312 original size:50 final size:50
Alignment explanation
Indices: 16618251--16618887 Score: 311
Period size: 50 Copynumber: 12.7 Consensus size: 50
16618241 CGCAACTTTT
* * *
16618251 GGGAAGTAAGATTCGCCATTGTAGCTTCAATCTTTTTAACTGCACTGCCA
1 GGGAAGTAAGATTCACCATTGTAGCTTTAATCTTTTTAACTGCAATGCCA
** * * * * * * *
16618301 GGGAAGTAAGATTTGCCTTTATGGCAGCTTTAATCCTTTTAGCTACAATACCG
1 GGGAAGTAAGATTCACC---ATTGTAGCTTTAATCTTTTTAACTGCAATGCCA
** * * ** **
16618354 GGGAAGCGAGATTCACCGA-TGTGGCTTTAATCTGTTCCACTGCACCGCCA
1 GGGAAGTAAGATTCACC-ATTGTAGCTTTAATCTTTTTAACTGCAATGCCA
***** * * *
16618404 GGGAAGTAAGATTTGTTGTTGTAGCTTTAATCTCTTTAACTGCAATGTCG
1 GGGAAGTAAGATTCACCATTGTAGCTTTAATCTTTTTAACTGCAATGCCA
* * ** *
16618454 GGGAAGCAAGATTCACCGA-TGTGGCTTTAAT-TTGTTCCACTGC-ATCGCCT
1 GGGAAGTAAGATTCACC-ATTGTAGCTTTAATCTT-TTTAACTGCAAT-GCCA
* * ** * * *
16618504 GTGAGGTAAGATTCACTGTTATAGCTTTAATCTTTTTGAACTGCAATGTCG
1 GGGAAGTAAGATTCACCATTGTAGCTTTAATCTTTTT-AACTGCAATGCCA
* * ** ** *** *
16618555 GGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGCTCCACTGCACCACCT
1 GGGAAGTAAGATTCACC-ATTGTAGCTTTAATCTTTTTAACTGCAATGCCA
* * ** * *
16618605 GGGAGGTAAGATTCGCTGTTGTAGCTTTAATCTCTTTAACTGCAATGTCA
1 GGGAAGTAAGATTCACCATTGTAGCTTTAATCTTTTTAACTGCAATGCCA
* * * **
16618655 GGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTTCCACTGC-ATCGCCA
1 GGGAAGTAAGATTCACC-ATTGTAGCTTTAATCTTTTTAACTGCAAT-GCCA
* * * * * *
16618705 GGGAAGTAACG-CTCGCCGTTGTGGCTTTAGTCTTTTTAACTGCAATGTCA
1 GGGAAGTAA-GATTCACCATTGTAGCTTTAATCTTTTTAACTGCAATGCCA
* * * * * * *
16618755 GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTTCACTGC-ATCACCT
1 GGGAAGTAAGATTCACCATTGTAGCTTTAATCTTTTTAACTGCAAT-GCCA
** * ** * * * *
16618805 GGGGTGTAAGATTCGCTGTTTTAGCTTTAATCTTTCTAACTGCAATGTCG
1 GGGAAGTAAGATTCACCATTGTAGCTTTAATCTTTTTAACTGCAATGCCA
* * * *
16618855 GGGAAGCAAGATTCATCGTTGTGGCTTTAATCT
1 GGGAAGTAAGATTCACCATTGTAGCTTTAATCT
16618888 GTTGGCTTTA
Statistics
Matches: 420, Mismatches: 146, Indels: 42
0.69 0.24 0.07
Matches are distributed among these distances:
49 8 0.02
50 332 0.79
51 41 0.10
52 2 0.00
53 37 0.09
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (50 bp):
GGGAAGTAAGATTCACCATTGTAGCTTTAATCTTTTTAACTGCAATGCCA
Done.