Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 65 of 163
Found at i:16814875 original size:31 final size:31
Alignment explanation
Indices: 16814810--16814882 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
16814800 TTATTTGATT
*
16814810 AATTTTAATCCTTATACTTTTCAAATTGGTA
1 AATTTTAATCCGTATACTTTTCAAATTGGTA
* *
16814841 AATTTTAGTCCGTATACTTTTCAAATT-TTAA
1 AATTTTAATCCGTATACTTTTCAAATTGGT-A
16814872 AATTTTAATCC
1 AATTTTAATCC
16814883 TGACCCAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 1 0.03
31 36 0.97
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.48
Consensus pattern (31 bp):
AATTTTAATCCGTATACTTTTCAAATTGGTA
Found at i:16816057 original size:26 final size:26
Alignment explanation
Indices: 16816018--16816071 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
16816008 ATTTATCTAC
*
16816018 TTGTTATTTATTTTCA-TATTATGTTA
1 TTGTTATGTATTTT-ATTATTATGTTA
* *
16816044 TTGTTATGTCTTTTATTATTATTTTA
1 TTGTTATGTATTTTATTATTATGTTA
16816070 TT
1 TT
16816072 TAATTTGCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.20, C:0.04, G:0.07, T:0.69
Consensus pattern (26 bp):
TTGTTATGTATTTTATTATTATGTTA
Found at i:16816240 original size:4 final size:4
Alignment explanation
Indices: 16816208--16816391 Score: 71
Period size: 4 Copynumber: 44.2 Consensus size: 4
16816198 TAGACTGCAT
* * * *
16816208 TTTA TATA TTTA CTTT- TTTA TTT- TTTA TTTA TTTA -TTG GTTA TTCA
1 TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
16816254 TTT- TTT- GTTA TTTACA TTCTCG TTTTA TTTAA TTTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTT--A TT-T-A TTT-A TTT-A TT-TA TTTA TTTA TTTA
* * *
16816303 TGTA TTTTA TTTA TTTT TTTA TTT- TTTA TGTTA TTTA TATT- TTTA CCTTCA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA T-TTA TTTA --TTTA
*
16816354 TTTAA TTTTA TTTA TTCA -TTA TATT- TTTA TTTA TTTA T
1 TTT-A -TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA T
16816392 ATGCCATATT
Statistics
Matches: 138, Mismatches: 21, Indels: 42
0.69 0.10 0.21
Matches are distributed among these distances:
3 22 0.16
4 76 0.55
5 26 0.19
6 13 0.09
7 1 0.01
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:16816300 original size:18 final size:18
Alignment explanation
Indices: 16816277--16816391 Score: 87
Period size: 19 Copynumber: 6.3 Consensus size: 18
16816267 ACATTCTCGT
16816277 TTTATTTAATTTTATTTA
1 TTTATTTAATTTTATTTA
16816295 TTTATTTATGTATTTTATTTA
1 TTTATTTA---ATTTTATTTA
*
16816316 TTT-TTTTA-TTT-TTTA
1 TTTATTTAATTTTATTTA
*
16816331 TGTTATTT-ATATT-TTTA
1 T-TTATTTAATTTTATTTA
*
16816348 CCTTCATTTAATTTTATTTA
1 --TTTATTTAATTTTATTTA
* *
16816368 TTCATTATATTTTTATTTA
1 TTTATT-TAATTTTATTTA
16816387 TTTAT
1 TTTAT
16816392 ATGCCATATT
Statistics
Matches: 80, Mismatches: 6, Indels: 21
0.75 0.06 0.20
Matches are distributed among these distances:
15 5 0.06
16 6 0.08
17 10 0.12
18 19 0.24
19 20 0.25
20 7 0.09
21 13 0.16
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTATTTAATTTTATTTA
Found at i:16816581 original size:20 final size:21
Alignment explanation
Indices: 16816558--16816637 Score: 74
Period size: 20 Copynumber: 3.8 Consensus size: 21
16816548 GATTTTATCC
16816558 TATTTA-TTATTTTATTGTGT
1 TATTTATTTATTTTATTGTGT
* * *
16816578 TATTAATTGTATTTAATTGTAT
1 TATTTATT-TATTTTATTGTGT
*
16816600 TCATTTAATTTATTTTATTATG-
1 T-ATTT-ATTTATTTTATTGTGT
*
16816622 TATTTTTTTATTTTAT
1 TATTTATTTATTTTAT
16816638 CATTATAATT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
20 15 0.31
21 5 0.10
22 13 0.27
23 12 0.25
24 3 0.06
ACGTcount: A:0.25, C:0.01, G:0.06, T:0.68
Consensus pattern (21 bp):
TATTTATTTATTTTATTGTGT
Found at i:16822331 original size:27 final size:28
Alignment explanation
Indices: 16822290--16822343 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
16822280 ATGTTTAAAT
16822290 GATGAAATTGCGTATTTTGTGA-GAAAC
1 GATGAAATTGCGTATTTTGTGATGAAAC
*
16822317 GATGAAATTGTGTATTTTGTGATGAAA
1 GATGAAATTGCGTATTTTGTGATGAAA
16822344 ATTTAGGGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (28 bp):
GATGAAATTGCGTATTTTGTGATGAAAC
Found at i:16822857 original size:52 final size:52
Alignment explanation
Indices: 16822780--16822965 Score: 284
Period size: 52 Copynumber: 3.6 Consensus size: 52
16822770 TAAATGAAAA
* *
16822780 AGGTCCGATGA-TATGTGTCATCGTGATTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATG
* *
16822831 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATTCTTTATGGATTGTG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATG
* * *
16822883 AGGTTCGATGACTATGTGTCATCGTGAGTATATGATTCCTTTATGGATTAAG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATG
* *
16822935 AGGTTCGATGACTATGTGTCATCATGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
16822966 TAAATGAAAT
Statistics
Matches: 124, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
51 11 0.09
52 113 0.91
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATG
Found at i:16826658 original size:52 final size:52
Alignment explanation
Indices: 16826573--16826759 Score: 239
Period size: 52 Copynumber: 3.6 Consensus size: 52
16826563 TAAATGAAAA
* * * * *
16826573 AGGTCCGATGATTATGTGTCATCGTGAGCATATGAATCCCTTACAGATTATG
1 AGGTCCGATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATG
* * * *
16826625 AGGTCCGATGACTATGTGTCATCATGATTATATGAATTCTTTATGGATTATA
1 AGGTCCGATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATG
* * *
16826677 AGGTCCGATGACTATGTGTCATCCTGAGTATATGATTCCTTTACGGATTAGG
1 AGGTCCGATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATG
* * *
16826729 AGGTCCGATAACTTTGTGTCATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCATGAGTAT
16826760 TAAATGAAAT
Statistics
Matches: 116, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 116 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.36
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATG
Found at i:16828229 original size:26 final size:26
Alignment explanation
Indices: 16828193--16828280 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 26
16828183 GTATACTGGT
*
16828193 TAAACTCTGTCTGGGCCCATAATAGC
1 TAAACTCTGTCTGGGCCCATAAGAGC
* * * *
16828219 TAAACTCTGTCTAGGCTCGTAAGAGT
1 TAAACTCTGTCTGGGCCCATAAGAGC
* * * *
16828245 TAAACTCTATCTGGGCTCGTATGAGC
1 TAAACTCTGTCTGGGCCCATAAGAGC
16828271 TAAACATCTG
1 TAAAC-TCTG
16828281 GAAGACTTGA
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 48 0.94
27 3 0.06
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (26 bp):
TAAACTCTGTCTGGGCCCATAAGAGC
Found at i:16830794 original size:10 final size:10
Alignment explanation
Indices: 16830781--16830819 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
16830771 ATTAAATTTC
16830781 ATAAAATAAT
1 ATAAAATAAT
16830791 ATAAAAATAAT
1 AT-AAAATAAT
*
16830802 AAAAAATAA-
1 ATAAAATAAT
16830811 ATAAAATAA
1 ATAAAATAA
16830820 AAAATAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 8 0.31
10 9 0.35
11 9 0.35
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
ATAAAATAAT
Found at i:16830799 original size:11 final size:11
Alignment explanation
Indices: 16830783--16830831 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
16830773 TAAATTTCAT
16830783 AAAATAATATA
1 AAAATAATATA
16830794 AAAATAATA-A
1 AAAATAATATA
16830804 AAAATAA-ATA
1 AAAATAATATA
* *
16830814 AAATAAAAAATA
1 AAA-ATAATATA
16830826 AAAATA
1 AAAATA
16830832 CTTACATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 1 0.03
10 12 0.36
11 14 0.42
12 6 0.18
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAATAATATA
Found at i:16830810 original size:16 final size:16
Alignment explanation
Indices: 16830791--16830831 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
16830781 ATAAAATAAT
16830791 ATAAAAATAATAAAAA
1 ATAAAAATAATAAAAA
16830807 ATAAATAA-AATAAAAA
1 ATAAA-AATAATAAAAA
16830823 ATAAAAATA
1 ATAAAAATA
16830832 CTTACATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 2 0.09
16 19 0.83
17 2 0.09
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
ATAAAAATAATAAAAA
Found at i:16830813 original size:25 final size:23
Alignment explanation
Indices: 16830784--16830829 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
16830774 AAATTTCATA
*
16830784 AAATAATATAAAAATAATAAAAAAT
1 AAATAAAAT-AAAA-AATAAAAAAT
16830809 AAATAAAATAAAAAATAAAAA
1 AAATAAAATAAAAAATAAAAA
16830830 TACTTACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 4 0.20
25 8 0.40
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (23 bp):
AAATAAAATAAAAAATAAAAAAT
Found at i:16834556 original size:20 final size:20
Alignment explanation
Indices: 16834531--16834581 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
16834521 AGAGTTTCTC
16834531 AAAAAAGTTAATGACCAACG
1 AAAAAAGTTAATGACCAACG
* *
16834551 AAAAAAGTCAATGGCCAACG
1 AAAAAAGTTAATGACCAACG
*
16834571 GAAAAAGTTAA
1 AAAAAAGTTAA
16834582 CGGTCAAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.55, C:0.14, G:0.18, T:0.14
Consensus pattern (20 bp):
AAAAAAGTTAATGACCAACG
Found at i:16837926 original size:50 final size:50
Alignment explanation
Indices: 16837839--16838475 Score: 534
Period size: 50 Copynumber: 12.8 Consensus size: 50
16837829 AGTCACACTA
* * * * ** * *
16837839 AATCTTATACCCCAAAATCTATACAGGGGTACCTTAAAGCTACAAAAAAG
1 AATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAAGCTACAGAAGAG
* * * *
16837889 AATCTTATACCCCTAAAGCTATAGAAGGGCAAATTAAAGCTATAGAAGCG
1 AATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAAGCTACAGAAGAG
* *
16837939 AATCTTATACCCCTAAAGCTATAGAGGGGTAGATTAAAGCTACAGAAGCG
1 AATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAAGCTACAGAAGAG
* * * * *
16837989 AATCATATACCTCTAAAGCTATATAGGGGCAGATTGAA-CTTACAGAAGTG
1 AATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAAGC-TACAGAAGAG
* * * * ** *
16838039 AATTTTATACCTCAAAAGCTATAAAAAGGTAGATTAAAGCTACAGAAGAG
1 AATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAAGCTACAGAAGAG
* * * * *
16838089 AATCTTATACCCCTAAAGCTGTAGAGGGGAAAAATGAAGCTACAGAAGCA-
1 AATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAAGCTACAGAAG-AG
* * * * * * * *
16838139 AATCTTATACTCCTGAAGTTGTAGAGGGGCAGATTGAAGATATAGAAGCG
1 AATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAAGCTACAGAAGAG
* * *
16838189 AATCTTATACCCCTAAAGCTGTAGA-GGACTA-ATTGAAA-CTACAGAAGCG
1 AATCTTATACCCCTAAAGCTATAGAGGGGC-AGATT-AAAGCTACAGAAGAG
* * * * * *
16838238 AATCTTATACTCCTAAAGCTGTAGAGGGGCAGATTGAAGCTATAAAAGCG
1 AATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAAGCTACAGAAGAG
* * *
16838288 AATCTTATACCCCTAAAGCTGTAGAGGGGCAGACTAAAGCTACATAAGCA-
1 AATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAAGCTACAGAAG-AG
* * * * ** * *
16838338 AATCTTATACCCTTAAAACTATATAGAGGCAGATTAAAATTGCAAAAGCA-
1 AATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAAGCTACAGAAG-AG
** * * * **
16838388 AATCTTATACCCCTAAAATTATAGAGAGACAGATTGAAGCTGTAGAAGCA-
1 AATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAAGCTACAGAAG-AG
* * *
16838438 AATCTTATACCCCTAAAGTTGTAGAGGAGCAGATTAAA
1 AATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAA
16838476 ACTCACAGTA
Statistics
Matches: 484, Mismatches: 93, Indels: 20
0.81 0.16 0.03
Matches are distributed among these distances:
49 43 0.09
50 439 0.91
51 2 0.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (50 bp):
AATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAAGCTACAGAAGAG
Found at i:16838019 original size:100 final size:100
Alignment explanation
Indices: 16837838--16838475 Score: 589
Period size: 100 Copynumber: 6.4 Consensus size: 100
16837828 AAGTCACACT
* * * * ** **
16837838 AAATCTTATACCCCAAAATCTATACAGGGGTACCTTAAAGCTACAAAAAAGAATCTTATACCCCT
1 AAATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAAGCTACAAAAGCGAATCTTATACCCCT
* *
16837903 AAAGCTATAGAAGGGCAAATTAAAGCTATAGAAGC
66 AAAGCTATAGAGGGGCAAATTAAAGCTACAGAAGC
* * * * *
16837938 GAATCTTATACCCCTAAAGCTATAGAGGGGTAGATTAAAGCTACAGAAGCGAATCATATACCTCT
1 AAATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAAGCTACAAAAGCGAATCTTATACCCCT
* * * *
16838003 AAAGCTATATAGGGGCAGATTGAA-CTTACAGAAGT
66 AAAGCTATAGAGGGGCAAATTAAAGC-TACAGAAGC
* * * * * ** * * *
16838038 GAATTTTATACCTCAAAAGCTATAAAAAGGTAGATTAAAGCTACAGAAGAGAATCTTATACCCCT
1 AAATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAAGCTACAAAAGCGAATCTTATACCCCT
* * * *
16838103 AAAGCTGTAGAGGGGAAAAATGAAGCTACAGAAGC
66 AAAGCTATAGAGGGGCAAATTAAAGCTACAGAAGC
* * * * * * * *
16838138 AAATCTTATACTCCTGAAGTTGTAGAGGGGCAGATTGAAGATATAGAAGCGAATCTTATACCCCT
1 AAATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAAGCTACAAAAGCGAATCTTATACCCCT
* * *
16838203 AAAGCTGTAGA-GGACTAATTGAAA-CTACAGAAGC
66 AAAGCTATAGAGGGGCAAATT-AAAGCTACAGAAGC
* * * * *
16838237 GAATCTTATACTCCTAAAGCTGTAGAGGGGCAGATTGAAGCTATAAAAGCGAATCTTATACCCCT
1 AAATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAAGCTACAAAAGCGAATCTTATACCCCT
* * * *
16838302 AAAGCTGTAGAGGGGCAGACTAAAGCTACATAAGC
66 AAAGCTATAGAGGGGCAAATTAAAGCTACAGAAGC
* * * * ** * *
16838337 AAATCTTATACCCTTAAAACTATATAGAGGCAGATTAAAATTGCAAAAGCAAATCTTATACCCCT
1 AAATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAAGCTACAAAAGCGAATCTTATACCCCT
** * * * * **
16838402 AAAATTATAGAGAGACAGATTGAAGCTGTAGAAGC
66 AAAGCTATAGAGGGGCAAATTAAAGCTACAGAAGC
* * *
16838437 AAATCTTATACCCCTAAAGTTGTAGAGGAGCAGATTAAA
1 AAATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAA
16838476 ACTCACAGTA
Statistics
Matches: 440, Mismatches: 93, Indels: 10
0.81 0.17 0.02
Matches are distributed among these distances:
99 90 0.20
100 349 0.79
101 1 0.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (100 bp):
AAATCTTATACCCCTAAAGCTATAGAGGGGCAGATTAAAGCTACAAAAGCGAATCTTATACCCCT
AAAGCTATAGAGGGGCAAATTAAAGCTACAGAAGC
Found at i:16839913 original size:21 final size:22
Alignment explanation
Indices: 16839880--16839928 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 22
16839870 ACATTCTCAC
*
16839880 TTTTATTTAATTTTATTTATTT
1 TTTTATGTAATTTTATTTATTT
16839902 TTTTATGT-ATTTTATTTATTT
1 TTTTATGTAATTTTATTTATTT
16839923 TTTTAT
1 TTTTAT
16839929 TTTTATGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTATGTAATTTTATTTATTT
Found at i:16839946 original size:17 final size:16
Alignment explanation
Indices: 16839901--16839949 Score: 54
Period size: 17 Copynumber: 3.3 Consensus size: 16
16839891 TTTATTTATT
16839901 TTTTTATG-TATTTTA
1 TTTTTATGTTATTTTA
16839916 --TTTAT-TT-TTTTA
1 TTTTTATGTTATTTTA
16839928 TTTTTATGTTATTTATA
1 TTTTTATGTTATTT-TA
16839945 TTTTT
1 TTTTT
16839950 GCCTTCATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
12 5 0.18
13 6 0.21
14 5 0.18
15 2 0.07
16 3 0.11
17 7 0.25
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (16 bp):
TTTTTATGTTATTTTA
Found at i:16849939 original size:31 final size:30
Alignment explanation
Indices: 16849878--16849941 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
16849868 TAGACCCACT
*
16849878 TATTTATTTTTTAATTTTTTAAAATATTTA
1 TATTTATTTTTTAATTATTTAAAATATTTA
16849908 TATTATATTATTTTAA-TATTTAATAAT-TTTA
1 TATT-TATT-TTTTAATTATTTAA-AATATTTA
16849939 TAT
1 TAT
16849942 ATCTTTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 4 0.13
31 17 0.57
32 9 0.30
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (30 bp):
TATTTATTTTTTAATTATTTAAAATATTTA
Found at i:16858109 original size:66 final size:66
Alignment explanation
Indices: 16858003--16858138 Score: 263
Period size: 66 Copynumber: 2.1 Consensus size: 66
16857993 CTGAGCTTTC
*
16858003 AATTCTTTTAGCTTTGTTAGAGCCATTCTGTAAGGAGAAATTGAAATTGAAGTTGTTCCCGACAT
1 AATTCTTTTAGCTTTGTTAGAGCCATTCTGTAAAGAGAAATTGAAATTGAAGTTGTTCCCGACAT
16858068 T
66 T
16858069 AATTCTTTTAGCTTTGTTAGAGCCATTCTGTAAAGAGAAATTGAAATTGAAGTTGTTCCCGACAT
1 AATTCTTTTAGCTTTGTTAGAGCCATTCTGTAAAGAGAAATTGAAATTGAAGTTGTTCCCGACAT
16858134 T
66 T
16858135 AATT
1 AATT
16858139 GAATAACAAA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 69 1.00
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.38
Consensus pattern (66 bp):
AATTCTTTTAGCTTTGTTAGAGCCATTCTGTAAAGAGAAATTGAAATTGAAGTTGTTCCCGACAT
T
Found at i:16861411 original size:26 final size:26
Alignment explanation
Indices: 16861381--16861465 Score: 125
Period size: 26 Copynumber: 3.3 Consensus size: 26
16861371 ACATAGTACT
16861381 TGCTAAACATTCACAGGCTCGAAGCC
1 TGCTAAACATTCACAGGCTCGAAGCC
** * *
16861407 TGCTAATGAATCACAGGCTCAAAGCC
1 TGCTAAACATTCACAGGCTCGAAGCC
*
16861433 TGCTAAACATTCACCGGCTCGAAGCC
1 TGCTAAACATTCACAGGCTCGAAGCC
16861459 TGCTAAA
1 TGCTAAA
16861466 AGTCACTGCA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (26 bp):
TGCTAAACATTCACAGGCTCGAAGCC
Found at i:16862435 original size:69 final size:70
Alignment explanation
Indices: 16862252--16862456 Score: 216
Period size: 69 Copynumber: 2.9 Consensus size: 70
16862242 AATATCGTAG
* * ** * * *
16862252 CCTCCAAAACAGTTAGCACGAGCATACACTCCCAGCTGATATTACAAAGGCTCGTCGATTTATGA
1 CCTCCAAAACAGCTAGCA-GA-CCTACGTTCCCAGCTGATATTATAAAGGCTCGTTGATTTAAGA
16862317 TCGTCAA
64 TCGTCAA
* * *
16862324 CCTCCAACACAGCTAGCGGACCTACGTTCCCAGCTGATATTATAAAGGCTTGTTGATTTAAGATC
1 CCTCCAAAACAGCTAGCAGACCTACGTTCCCAGCTGATATTATAAAGGCTCGTTGATTTAAGATC
*
16862389 G-CAG
66 GTCAA
* * * * * *
16862393 CCTCCAAAACAGTTCA-TAGACCTACGTTTCTAGCTGATATTATAAAGGCTCGCTGGTTTAAGAT
1 CCTCCAAAACAGCT-AGCAGACCTACGTTCCCAGCTGATATTATAAAGGCTCGTTGATTTAAGAT
16862457 TGCAACTCTT
Statistics
Matches: 112, Mismatches: 20, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
69 55 0.49
70 40 0.36
71 2 0.02
72 15 0.13
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (70 bp):
CCTCCAAAACAGCTAGCAGACCTACGTTCCCAGCTGATATTATAAAGGCTCGTTGATTTAAGATC
GTCAA
Found at i:16862889 original size:17 final size:17
Alignment explanation
Indices: 16862867--16862900 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
16862857 ATAGTAATAA
16862867 TTTATATATTT-TTATAT
1 TTTATAT-TTTATTATAT
16862884 TTTATATTTTATTATAT
1 TTTATATTTTATTATAT
16862901 AATAACCAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATATTTTATTATAT
Found at i:16863018 original size:19 final size:19
Alignment explanation
Indices: 16862994--16863038 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
16862984 AAGGGGTTGT
*
16862994 TGGCTCTCCTATCTGCTGC
1 TGGCTCTCCTATCTGATGC
*
16863013 TGGCTCTCCTCTCTGATGC
1 TGGCTCTCCTATCTGATGC
16863032 TGGCTCT
1 TGGCTCT
16863039 ATGCTCCTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.04, C:0.36, G:0.22, T:0.38
Consensus pattern (19 bp):
TGGCTCTCCTATCTGATGC
Found at i:16867827 original size:24 final size:24
Alignment explanation
Indices: 16867800--16867846 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
16867790 TATTTTTTCG
*
16867800 AATTTTTATAAGTTTT-TAAATATA
1 AATTTTGA-AAGTTTTATAAATATA
*
16867824 AATTTTGAAATTTTTATAAATAT
1 AATTTTGAAAGTTTTATAAATAT
16867847 TTTGATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (24 bp):
AATTTTGAAAGTTTTATAAATATA
Found at i:16868644 original size:4 final size:4
Alignment explanation
Indices: 16868635--16868664 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
16868625 CCAATTTAAT
16868635 TTTA TTTA TTTA TTTA TTTA TTTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
16868665 TAAAATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:16870014 original size:30 final size:29
Alignment explanation
Indices: 16869972--16870065 Score: 118
Period size: 30 Copynumber: 3.2 Consensus size: 29
16869962 GCTTTATTTT
*
16869972 AAAATTGT-TTTTGACCCCCAAACTATCA
1 AAAATTATATTTTGACCCCCAAACTATCA
*
16870000 AAAACTTATATTTTGACCCCCAAACTATCT
1 AAAA-TTATATTTTGACCCCCAAACTATCA
* * *
16870030 AAAATTATGTTTTGACCCTCAAACTTTTCA
1 AAAATTATATTTTGACCCCCAAAC-TATCA
16870060 AAAATT
1 AAAATT
16870066 CAAATTTGAC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
28 4 0.07
29 21 0.37
30 32 0.56
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.35
Consensus pattern (29 bp):
AAAATTATATTTTGACCCCCAAACTATCA
Found at i:16870074 original size:30 final size:30
Alignment explanation
Indices: 16870040--16870167 Score: 168
Period size: 30 Copynumber: 4.3 Consensus size: 30
16870030 AAAATTATGT
*
16870040 TTTGA-CCCTCAAACTTTTCAAAAATTCAAA
1 TTTGACCCCT-AAACTTTCCAAAAATTCAAA
* * *
16870070 TTTGACTCCTAAAATTTCCAAAAATACAAA
1 TTTGACCCCTAAACTTTCCAAAAATTCAAA
** *
16870100 TTTGACCCCTAAACTTTATAAAAATTCTAA
1 TTTGACCCCTAAACTTTCCAAAAATTCAAA
*
16870130 TTTGACCCCTGAACTTTCCAAAAATTCAAA
1 TTTGACCCCTAAACTTTCCAAAAATTCAAA
16870160 TTTGACCC
1 TTTGACCC
16870168 GATTTTAATG
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
30 80 0.96
31 3 0.04
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.33
Consensus pattern (30 bp):
TTTGACCCCTAAACTTTCCAAAAATTCAAA
Found at i:16873782 original size:39 final size:40
Alignment explanation
Indices: 16873729--16873840 Score: 136
Period size: 39 Copynumber: 2.8 Consensus size: 40
16873719 TGAAAACATC
*
16873729 ATCCAGTCTCTTACCCCGACCATGGGGCAGATTGAA-ACA
1 ATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACA
* * * *
16873768 ATCCAATCTTTTACCCTGACCATGGGCCAGATTGAAGACC
1 ATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACA
* * * *
16873808 ATTCGATGTCTTACCCCGACCATGGGGTAGATT
1 ATCCAATCTCTTACCCCGACCATGGGGCAGATT
16873841 AAGGTAGTCC
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
39 32 0.53
40 28 0.47
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
ATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACA
Found at i:16873927 original size:50 final size:49
Alignment explanation
Indices: 16873875--16874034 Score: 167
Period size: 50 Copynumber: 3.2 Consensus size: 49
16873865 CTGTAGAAGT
*
16873875 GCAAATTAAAGCTGCAATGACAAATCTCATACACCTAAAGCTGTAAAGGT
1 GCAAATTAAAGCTGCAATG-CAAATCTCATACACCTAAAGCTGTAAAGGG
* * * *
16873925 GCAAATTGAAGCCGTAATGGCAAATCTCATACACCTAAAGCTATAAAGGG
1 GCAAATTAAAGCTGCAAT-GCAAATCTCATACACCTAAAGCTGTAAAGGG
* * * * * * * *
16873975 GTAAATTGAAGCTACAGAAGCAAATCTTATACCCCTAAAGTTGTAGAGGG
1 GCAAATTAAAGCTGCA-ATGCAAATCTCATACACCTAAAGCTGTAAAGGG
*
16874025 GCAGATTAAA
1 GCAAATTAAA
16874035 ACTCACAATA
Statistics
Matches: 90, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
50 88 0.98
51 2 0.02
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (49 bp):
GCAAATTAAAGCTGCAATGCAAATCTCATACACCTAAAGCTGTAAAGGG
Found at i:16875089 original size:21 final size:21
Alignment explanation
Indices: 16875064--16875112 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
16875054 TTATATTTAC
16875064 TTTATATT-TTACTTATT-TTA
1 TTTATATTATTA-TTATTATTA
16875084 TATTATATTATTATTATTATTA
1 T-TTATATTATTATTATTATTA
16875106 TTTATAT
1 TTTATAT
16875113 CGAAACTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 1 0.04
21 18 0.69
22 7 0.27
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTATATTATTATTATTATTA
Found at i:16875100 original size:16 final size:16
Alignment explanation
Indices: 16875050--16875106 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
16875040 CACACATATA
* *
16875050 TATATTATATTTACTT
1 TATATTATACTTATTT
*
16875066 TATATTTTACTTATTT
1 TATATTATACTTATTT
16875082 TATATTATA-TTATTAT
1 TATATTATACTTATT-T
16875098 TATTATTAT
1 TA-TATTAT
16875107 TTATATCGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
15 5 0.14
16 24 0.69
17 6 0.17
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.65
Consensus pattern (16 bp):
TATATTATACTTATTT
Found at i:16875887 original size:31 final size:30
Alignment explanation
Indices: 16875825--16875949 Score: 139
Period size: 30 Copynumber: 4.2 Consensus size: 30
16875815 ACTTTATTTT
* * *
16875825 AAAATTAT-TTTTAACCC-CAAACCATCAA
1 AAAATTATGTTTTGACCCTCAAACTATCCA
16875853 AAAATTATGTTTTGACCCATCAAACTATCCA
1 AAAATTATGTTTTGACCC-TCAAACTATCCA
*
16875884 AAAATTATGTTTTGACCC-CTAAACTATTCA
1 AAAATTATGTTTTGACCCTC-AAACTATCCA
* ** *
16875914 AAAATTATTTTTTGACCCTTGAACTTTCCA
1 AAAATTATGTTTTGACCCTCAAACTATCCA
16875944 AAAATT
1 AAAATT
16875950 CAAATTTGAC
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
28 8 0.10
29 9 0.11
30 39 0.47
31 27 0.33
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (30 bp):
AAAATTATGTTTTGACCCTCAAACTATCCA
Found at i:16875910 original size:30 final size:30
Alignment explanation
Indices: 16875852--16876110 Score: 217
Period size: 30 Copynumber: 8.6 Consensus size: 30
16875842 CAAACCATCA
** * *
16875852 AAAAATTATGTTTTGACCCATCAAACTATCC
1 AAAAATTATAATTTGACCCCT-AAACTTTCC
**
16875883 AAAAATTATGTTTTGACCCCTAAACTATT-C
1 AAAAATTATAATTTGACCCCTAAACT-TTCC
** * *
16875913 AAAAATTATTTTTTGACCCTTGAACTTTCC
1 AAAAATTATAATTTGACCCCTAAACTTTCC
* *
16875943 AAAAATTCA-AATTTGACCTC-GAACTTTCC
1 AAAAATT-ATAATTTGACCCCTAAACTTTCC
*
16875972 AAAAATT-TAAATTTAACCCCTAAACTTTCC
1 AAAAATTAT-AATTTGACCCCTAAACTTTCC
* *
16876002 AAAAATT-TAAATTTGACCCATGAACTTTCC
1 AAAAATTAT-AATTTGACCCCTAAACTTTCC
*
16876032 AAAAATTCA-AATTTGACCCCTAAACTTTCT
1 AAAAATT-ATAATTTGACCCCTAAACTTTCC
* * * * *
16876062 AAAAATTTTGATTTGACCCCTGAATTTTTC
1 AAAAATTATAATTTGACCCCTAAACTTTCC
16876092 AAAAATTCAT-ATTTGACCC
1 AAAAATT-ATAATTTGACCC
16876111 GATTTTAATG
Statistics
Matches: 193, Mismatches: 25, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
29 27 0.14
30 143 0.74
31 23 0.12
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.36
Consensus pattern (30 bp):
AAAAATTATAATTTGACCCCTAAACTTTCC
Found at i:16875920 original size:61 final size:58
Alignment explanation
Indices: 16875825--16875949 Score: 153
Period size: 60 Copynumber: 2.1 Consensus size: 58
16875815 ACTTTATTTT
16875825 AAAATTATTTTTAACCCCAAACCATCAAAAAATTATGTTTTGACCCATCAAACTATCCA
1 AAAATTATTTTTAACCCCAAACCATCAAAAAATTATGTTTTGACCC-TCAAACTATCCA
* * * ** *
16875884 AAAATTATGTTTTGACCCCTAAACTATTC-AAAAATTATTTTTTGACCCTTGAACTTTCCA
1 AAAATTAT-TTTTAACCCC-AAACCA-TCAAAAAATTATGTTTTGACCCTCAAACTATCCA
16875944 AAAATT
1 AAAATT
16875950 CAAATTTGAC
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
59 8 0.14
60 24 0.42
61 23 0.40
62 2 0.04
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (58 bp):
AAAATTATTTTTAACCCCAAACCATCAAAAAATTATGTTTTGACCCTCAAACTATCCA
Found at i:16875958 original size:60 final size:60
Alignment explanation
Indices: 16875852--16876110 Score: 242
Period size: 60 Copynumber: 4.3 Consensus size: 60
16875842 CAAACCATCA
** * * ** *
16875852 AAAAATTATGTTTTGACCCATCAAACTATCCAAAAA-TTATGTTTTGACCCCTAAACTATT-C
1 AAAAATTATAATTTGACCCCT-AAACTTTCCAAAAATTTA-AATTTGACCCCTGAACT-TTCC
** * * * *
16875913 AAAAATTATTTTTTGACCCTTGAACTTTCCAAAAATTCAAATTTGACCTC-GAACTTTCC
1 AAAAATTATAATTTGACCCCTAAACTTTCCAAAAATTTAAATTTGACCCCTGAACTTTCC
* *
16875972 AAAAATT-TAAATTTAACCCCTAAACTTTCCAAAAATTTAAATTTGACCCATGAACTTTCC
1 AAAAATTAT-AATTTGACCCCTAAACTTTCCAAAAATTTAAATTTGACCCCTGAACTTTCC
* ** * *
16876032 AAAAATTCA-AATTTGACCCCTAAACTTTCTAAAAATTTTGATTTGACCCCTGAATTTTTC
1 AAAAATT-ATAATTTGACCCCTAAACTTTCCAAAAATTTAAATTTGACCCCTGAACTTTCC
16876092 AAAAATTCAT-ATTTGACCC
1 AAAAATT-ATAATTTGACCC
16876111 GATTTTAATG
Statistics
Matches: 167, Mismatches: 24, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
58 3 0.02
59 45 0.27
60 98 0.59
61 21 0.13
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.36
Consensus pattern (60 bp):
AAAAATTATAATTTGACCCCTAAACTTTCCAAAAATTTAAATTTGACCCCTGAACTTTCC
Found at i:16875967 original size:29 final size:30
Alignment explanation
Indices: 16875894--16876110 Score: 233
Period size: 30 Copynumber: 7.3 Consensus size: 30
16875884 AAAATTATGT
* **
16875894 TTTGACCCCTAAACTATT-CAAAAATT-ATTT
1 TTTGACCCCTGAACT-TTCCAAAAATTCA-AA
*
16875924 TTTGACCCTTGAACTTTCCAAAAATTCAAA
1 TTTGACCCCTGAACTTTCCAAAAATTCAAA
* *
16875954 TTTGACCTC-GAACTTTCCAAAAATTTAAA
1 TTTGACCCCTGAACTTTCCAAAAATTCAAA
* * *
16875983 TTTAACCCCTAAACTTTCCAAAAATTTAAA
1 TTTGACCCCTGAACTTTCCAAAAATTCAAA
*
16876013 TTTGACCCATGAACTTTCCAAAAATTCAAA
1 TTTGACCCCTGAACTTTCCAAAAATTCAAA
* * ***
16876043 TTTGACCCCTAAACTTTCTAAAAATTTTGA
1 TTTGACCCCTGAACTTTCCAAAAATTCAAA
* * *
16876073 TTTGACCCCTGAATTTTTCAAAAATTCATA
1 TTTGACCCCTGAACTTTCCAAAAATTCAAA
16876103 TTTGACCC
1 TTTGACCC
16876111 GATTTTAATG
Statistics
Matches: 157, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
29 28 0.18
30 128 0.82
31 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (30 bp):
TTTGACCCCTGAACTTTCCAAAAATTCAAA
Found at i:16875973 original size:89 final size:88
Alignment explanation
Indices: 16875863--16876110 Score: 275
Period size: 89 Copynumber: 2.8 Consensus size: 88
16875853 AAAATTATGT
* * * **
16875863 TTTGACCCATCAAACTATCCAAAAATTATGTTTTGACCCCTAAACTATTCAAAAA-TTATTTTTT
1 TTTGACCCCT-AAACTTTCCAAAAATT-TGATTTGACCCCTAAACT-TTCAAAAATTTA-AATTT
*
16875927 GACCCTTGAACTTTCCAAAAATTCAAA
62 GACCCATGAACTTTCCAAAAATTCAAA
* * * *
16875954 TTTGACCTC-GAACTTTCCAAAAATTTAAATTTAACCCCTAAACTTTCCAAAAATTTAAATTTGA
1 TTTGACCCCTAAACTTTCCAAAAATTT-GATTTGACCCCTAAACTTT-CAAAAATTTAAATTTGA
16876018 CCCATGAACTTTCCAAAAATTCAAA
64 CCCATGAACTTTCCAAAAATTCAAA
* ** * *
16876043 TTTGACCCCTAAACTTTCTAAAAATTTTGATTTGACCCCTGAATTTTTCAAAAATTCATATTTGA
1 TTTGACCCCTAAACTTTCCAAAAA-TTTGATTTGACCCCT-AAACTTTCAAAAATTTAAATTTGA
16876108 CCC
64 CCC
16876111 GATTTTAATG
Statistics
Matches: 132, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
88 3 0.02
89 71 0.54
90 43 0.33
91 15 0.11
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (88 bp):
TTTGACCCCTAAACTTTCCAAAAATTTGATTTGACCCCTAAACTTTCAAAAATTTAAATTTGACC
CATGAACTTTCCAAAAATTCAAA
Found at i:16881888 original size:22 final size:22
Alignment explanation
Indices: 16881849--16881890 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16881839 AGTAAATTAA
* *
16881849 TTATTTTTTTTATAAAAAATAT
1 TTATTTTTATCATAAAAAATAT
*
16881871 TTATTTTTATCATTAAAAAT
1 TTATTTTTATCATAAAAAAT
16881891 TGACATGATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATTTTTATCATAAAAAATAT
Found at i:16882811 original size:16 final size:17
Alignment explanation
Indices: 16882790--16882834 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
16882780 AAAACTCTTT
16882790 AAAATTTCAAAA-ATAA
1 AAAATTTCAAAATATAA
*
16882806 AAAA-TTGAAAATATAA
1 AAAATTTCAAAATATAA
16882822 AAAATTTCAAAAT
1 AAAATTTCAAAAT
16882835 TCAATGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.24
16 12 0.48
17 7 0.28
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (17 bp):
AAAATTTCAAAATATAA
Found at i:16885571 original size:22 final size:22
Alignment explanation
Indices: 16885515--16885571 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
16885505 ATTTTCACAA
* * *
16885515 TTTTAATTTATAAACCCTTGAT
1 TTTTAATTTATACACCCATGAC
16885537 TTTTAATTTATACACCCATGAC
1 TTTTAATTTATACACCCATGAC
16885559 TTTTAATTTATAC
1 TTTTAATTTATAC
16885572 CTAAATAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.32, C:0.16, G:0.04, T:0.49
Consensus pattern (22 bp):
TTTTAATTTATACACCCATGAC
Found at i:16891598 original size:16 final size:17
Alignment explanation
Indices: 16891568--16891601 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16891558 ATTGAACTGA
16891568 TTTTTATAATGTTTATTT
1 TTTTTATAA-GTTTATTT
16891586 TTTTTATAA-TTTATTT
1 TTTTTATAAGTTTATTT
16891602 CTTTGAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTTATAAGTTTATTT
Found at i:16913793 original size:190 final size:190
Alignment explanation
Indices: 16913458--16913887 Score: 641
Period size: 190 Copynumber: 2.3 Consensus size: 190
16913448 TATACGATGT
* * * * * *
16913458 TGCTCACACAAGTTCTCCGGAAACTGTAACATATG-TAGCATCCCAGCCATTGATACGGTCCATG
1 TGCTCACACAAGTTGTCAGGAAACTGCAACATATGCAAG-ATCCCAGCCATCGATACGGTCCACG
*
16913522 TTACCCACTCACGATGCTGCTCACACAAGCTGTCAAGAAACTGCAACGTATGGAAAATCTCAGCC
65 TTACCCACTCACGATGCTGCTCACACAAGCTGTCAAGAAACTGCAACGTATGCAAAATCTCAGCC
* * *
16913587 ATAGTAAGGGTCCTTACAGTCACAATCCAGTATTCAATCAGAAGTCGTCGACTCACAATGC
130 ATAGTAAGGGTCCTTACAGTCACAATCCAATATTCAATCAAAAGTCGGCGACTCACAATGC
16913648 TGCTCACACAAGTTGTCAGGAAACTGCAACATATGCAAGATCCCAGCCATCGATACGGTCCACGT
1 TGCTCACACAAGTTGTCAGGAAACTGCAACATATGCAAGATCCCAGCCATCGATACGGTCCACGT
* * *
16913713 TACCCACTCACGATGTTGCTCACACAAGTTGTCAAGAAACTGCAATGTATGCAAAATCTCAGCCA
66 TACCCACTCACGATGCTGCTCACACAAGCTGTCAAGAAACTGCAACGTATGCAAAATCTCAGCCA
* *
16913778 TCA-T-AGGGATCCTTACAGTCATAATCCAATATTCAATCAAAAGTCGGCGACTCACGATGC
131 T-AGTAAGGG-TCCTTACAGTCACAATCCAATATTCAATCAAAAGTCGGCGACTCACAATGC
* * * *
16913838 TGCTCACACGAGCTGTCAGGAAACTGCAACATATGCAGGATCCCAACCAT
1 TGCTCACACAAGTTGTCAGGAAACTGCAACATATGCAAGATCCCAGCCAT
16913888 AAAAATTACT
Statistics
Matches: 218, Mismatches: 19, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
189 4 0.02
190 211 0.97
191 3 0.01
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (190 bp):
TGCTCACACAAGTTGTCAGGAAACTGCAACATATGCAAGATCCCAGCCATCGATACGGTCCACGT
TACCCACTCACGATGCTGCTCACACAAGCTGTCAAGAAACTGCAACGTATGCAAAATCTCAGCCA
TAGTAAGGGTCCTTACAGTCACAATCCAATATTCAATCAAAAGTCGGCGACTCACAATGC
Found at i:16914244 original size:23 final size:22
Alignment explanation
Indices: 16914182--16914244 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 22
16914172 TACCTAATAC
*
16914182 TTTTAATTAATATAATTTAACTT
1 TTTTACTTAAT-TAATTTAACTT
* **
16914205 TTTCACTTTTTTCAATTTAATCTT
1 TTTTACTTAATT-AATTTAA-CTT
16914229 TTTTACTTAATTAATT
1 TTTTACTTAATTAATT
16914245 GTCTAAACAA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
22 1 0.03
23 18 0.58
24 12 0.39
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTACTTAATTAATTTAACTT
Found at i:16920696 original size:19 final size:20
Alignment explanation
Indices: 16920672--16920712 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
16920662 AAATTCAGAG
16920672 GAGACACA-CTCGTGTGGTT
1 GAGACACACCTCGTGTGGTT
16920691 GAGACACACTCTCGTGTGGTT
1 GAGACACAC-CTCGTGTGGTT
16920712 G
1 G
16920713 GGATACACGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 8 0.40
21 12 0.60
ACGTcount: A:0.20, C:0.22, G:0.32, T:0.27
Consensus pattern (20 bp):
GAGACACACCTCGTGTGGTT
Found at i:16929910 original size:15 final size:13
Alignment explanation
Indices: 16929871--16929904 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
16929861 CACTCCAAGG
*
16929871 AAAAA-AAGCGAA
1 AAAAAGAAGAGAA
16929883 AAAAAGAAGAGAA
1 AAAAAGAAGAGAA
16929896 AAAAAGAAG
1 AAAAAGAAG
16929905 GCAGAAGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAAAGAAGAGAA
Found at i:16930097 original size:31 final size:31
Alignment explanation
Indices: 16930054--16930118 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
16930044 TCATTTTAGT
*
16930054 GTTATTGCATTGGGGATAATGTAGACTTTAA
1 GTTAGTGCATTGGGGATAATGTAGACTTTAA
16930085 GTTAGTGCATTGGGGATAATGTAGACTTTAA
1 GTTAGTGCATTGGGGATAATGTAGACTTTAA
16930116 GTT
1 GTT
16930119 TTGGGAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.28, C:0.06, G:0.28, T:0.38
Consensus pattern (31 bp):
GTTAGTGCATTGGGGATAATGTAGACTTTAA
Found at i:16934048 original size:21 final size:19
Alignment explanation
Indices: 16934009--16934051 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 19
16933999 ATTTCTTTTC
16934009 TTTTCTCTTTTCTTC-TTT
1 TTTTCTCTTTTCTTCATTT
*
16934027 TTTTTTCTTATTCATTCATTT
1 TTTTCTCTT-TTC-TTCATTT
16934048 TTTT
1 TTTT
16934052 ATATGTGACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 8 0.38
19 3 0.14
20 3 0.14
21 7 0.33
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTCTCTTTTCTTCATTT
Found at i:16944376 original size:28 final size:28
Alignment explanation
Indices: 16944307--16944382 Score: 93
Period size: 28 Copynumber: 2.7 Consensus size: 28
16944297 AATGCTATCA
*
16944307 ACCACAAAGGCTTCCTTTAACAGAATCG
1 ACCACAAAGACTTCCTTTAACAGAATCG
*
16944335 ACCACAAA-AGCTTCCTTTAACAGATTC-
1 ACCACAAAGA-CTTCCTTTAACAGAATCG
*
16944362 AGCCATAAAGACTTCCTTTAA
1 A-CCACAAAGACTTCCTTTAA
16944383 TTTTGCCACA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 1 0.02
28 40 0.95
29 1 0.02
ACGTcount: A:0.37, C:0.28, G:0.11, T:0.25
Consensus pattern (28 bp):
ACCACAAAGACTTCCTTTAACAGAATCG
Found at i:16944449 original size:29 final size:27
Alignment explanation
Indices: 16944384--16944452 Score: 79
Period size: 26 Copynumber: 2.5 Consensus size: 27
16944374 TTCCTTTAAT
16944384 TTTGCCACAAAGGCGTCTCCTTACAGA
1 TTTGCCACAAAGGCGTCTCCTTACAGA
* *
16944411 -TTACCACAAAGGC-TTTCCTTATCCGAGA
1 TTTGCCACAAAGGCGTCTCCTTA--C-AGA
16944439 TTTGCCACAAAGGC
1 TTTGCCACAAAGGC
16944453 ACTTCTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
25 7 0.20
26 12 0.34
27 1 0.03
28 3 0.09
29 12 0.34
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (27 bp):
TTTGCCACAAAGGCGTCTCCTTACAGA
Found at i:16944490 original size:29 final size:27
Alignment explanation
Indices: 16944442--16944517 Score: 64
Period size: 28 Copynumber: 2.7 Consensus size: 27
16944432 TCCGAGATTT
* *
16944442 GCCACAAAGGC-ACTTCTTTAACGGAAATA
1 GCCACAAAGGCTAC-T-TTT-ACAGAAACA
*
16944471 GCCACAAAGGCTAACTTTTACAGATACA
1 GCCACAAAGGCT-ACTTTTACAGAAACA
*
16944499 ACCACAAAGGCTCACTTTT
1 GCCACAAAGGCT-ACTTTT
16944518 TTTTGAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 23 0.57
29 14 0.35
30 1 0.03
31 2 0.05
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.22
Consensus pattern (27 bp):
GCCACAAAGGCTACTTTTACAGAAACA
Found at i:16944754 original size:55 final size:55
Alignment explanation
Indices: 16944666--16944771 Score: 158
Period size: 55 Copynumber: 1.9 Consensus size: 55
16944656 CCCTTTTCAC
* *
16944666 TCCCCATATGATGCCATAAGCCTCTTCACTAGGTCTTACACTATATGGTCTGTAT
1 TCCCCATATGATACCATAACCCTCTTCACTAGGTCTTACACTATATGGTCTGTAT
*** *
16944721 TCCCCATATGATACCATAACCCTCTTGGTTAGGTCTTTCACTATATGGTCT
1 TCCCCATATGATACCATAACCCTCTTCACTAGGTCTTACACTATATGGTCT
16944772 TCTATTGCCA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (55 bp):
TCCCCATATGATACCATAACCCTCTTCACTAGGTCTTACACTATATGGTCTGTAT
Found at i:16963999 original size:13 final size:13
Alignment explanation
Indices: 16963981--16964016 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
16963971 GTAGAACACA
16963981 ATGGATTGTAAAC
1 ATGGATTGTAAAC
16963994 ATGGATTGTAAAC
1 ATGGATTGTAAAC
16964007 ATGGATTGTA
1 ATGGATTGTA
16964017 TTCACTCGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.33
Consensus pattern (13 bp):
ATGGATTGTAAAC
Found at i:16964914 original size:16 final size:16
Alignment explanation
Indices: 16964877--16964918 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
16964867 AATTAGATTC
*
16964877 ATTTTTAAATTTATAAT
1 ATTTTTATA-TTATAAT
16964894 A-TTTTATATTATAAT
1 ATTTTTATATTATAAT
16964909 ATTTTTATAT
1 ATTTTTATAT
16964919 ATTATGAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 8 0.35
16 14 0.61
17 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTTATATTATAAT
Found at i:16964921 original size:18 final size:18
Alignment explanation
Indices: 16964877--16964923 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 18
16964867 AATTAGATTC
*
16964877 ATTTTTAAAT-TTATAAT
1 ATTTTTATATATTATAAT
16964894 A--TTT-TATATTATAAT
1 ATTTTTATATATTATAAT
16964909 ATTTTTATATATTAT
1 ATTTTTATATATTAT
16964924 GAGTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
17 4 0.16
18 8 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTTATATATTATAAT
Found at i:16977369 original size:5 final size:5
Alignment explanation
Indices: 16977359--16977389 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
16977349 CAATAATATA
16977359 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
16977390 CTTTTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:16984808 original size:12 final size:12
Alignment explanation
Indices: 16984791--16984819 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
16984781 GCTGTTGTAG
16984791 GAATTACCATAA
1 GAATTACCATAA
16984803 GAATTACCATAA
1 GAATTACCATAA
16984815 GAATT
1 GAATT
16984820 TCGAGCAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.28
Consensus pattern (12 bp):
GAATTACCATAA
Found at i:16985831 original size:57 final size:57
Alignment explanation
Indices: 16985770--16985882 Score: 217
Period size: 57 Copynumber: 2.0 Consensus size: 57
16985760 AGAGCCACAC
*
16985770 TCCTTTGTTCTTGTCTTCTCCTTCTAATGGTTCTCTCAATTTCAGGATCTAAGCCAT
1 TCCTTTGTTCTTATCTTCTCCTTCTAATGGTTCTCTCAATTTCAGGATCTAAGCCAT
16985827 TCCTTTGTTCTTATCTTCTCCTTCTAATGGTTCTCTCAATTTCAGGATCTAAGCCA
1 TCCTTTGTTCTTATCTTCTCCTTCTAATGGTTCTCTCAATTTCAGGATCTAAGCCA
16985883 ACAACAAATT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.17, C:0.27, G:0.12, T:0.45
Consensus pattern (57 bp):
TCCTTTGTTCTTATCTTCTCCTTCTAATGGTTCTCTCAATTTCAGGATCTAAGCCAT
Found at i:16993481 original size:21 final size:21
Alignment explanation
Indices: 16993452--16993492 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16993442 CAGCTAATCA
16993452 CATCCTTTTCTATGT-TTTAAT
1 CATCCTTTTC-ATGTCTTTAAT
*
16993473 CATCGTTTTCATGTCTTTAA
1 CATCCTTTTCATGTCTTTAA
16993493 AGGTAAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.54
Consensus pattern (21 bp):
CATCCTTTTCATGTCTTTAAT
Found at i:16997163 original size:4 final size:4
Alignment explanation
Indices: 16997154--16997286 Score: 117
Period size: 4 Copynumber: 32.5 Consensus size: 4
16997144 TTTACGATTT
* * * *
16997154 AATA AATA AATA AGTA AATA AGTA AATA AATA ACTA ACTA AATA AATAA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT-A
* * * *
16997203 AATA ACA-A CATA AAT- AATCA AACA AATAA AATA AATA ATTA AATA ATTA
1 AATA A-ATA AATA AATA AAT-A AATA AAT-A AATA AATA AATA AATA AATA
* *
16997252 AATA ATTA AATAA AATA AATA AATA ATTA AATA AA
1 AATA AATA AAT-A AATA AATA AATA AATA AATA AA
16997287 ATATTTTTAA
Statistics
Matches: 104, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
3 4 0.04
4 85 0.82
5 15 0.14
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:16997216 original size:33 final size:31
Alignment explanation
Indices: 16997153--16997273 Score: 99
Period size: 33 Copynumber: 3.9 Consensus size: 31
16997143 TTTTACGATT
* * *
16997153 TAATAAATAAATAAGT-AAATAAGTAAATAAA
1 TAATAACTAAATAAATAAAATAAAT-AATAAA
16997184 TAACTAACTAAATAAATAAAATAACA-ACATAAA
1 TAA-TAACTAAATAAATAAAATAA-ATA-ATAAA
*
16997217 TAAT--C-AAACAAATAAAATAAATAATTAAA
1 TAATAACTAAATAAATAAAATAAATAA-TAAA
* *
16997246 TAATTAAATAATTAAATAAAATAAATAA
1 TAA-TAACTAAATAAATAAAATAAATAA
16997274 ATAATTAAAT
Statistics
Matches: 73, Mismatches: 7, Indels: 18
0.74 0.07 0.18
Matches are distributed among these distances:
28 2 0.03
29 22 0.30
30 2 0.03
31 3 0.04
32 13 0.18
33 31 0.42
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.26
Consensus pattern (31 bp):
TAATAACTAAATAAATAAAATAAATAATAAA
Found at i:16997245 original size:29 final size:27
Alignment explanation
Indices: 16997197--16997278 Score: 76
Period size: 29 Copynumber: 2.9 Consensus size: 27
16997187 CTAACTAAAT
16997197 AAATAAAATAACA-ACATAAATAATCAAA
1 AAATAAAATAA-ATA-ATAAATAATCAAA
*
16997225 CAAATAAAATAAATAATTAAATAATTAAA
1 -AAATAAAATAAATAA-TAAATAATCAAA
* *
16997254 TAATTAAATAAAATAAATAAATAAT
1 AAATAAAAT-AAAT-AATAAATAAT
16997279 TAAATAAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
28 9 0.20
29 35 0.76
30 2 0.04
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (27 bp):
AAATAAAATAAATAATAAATAATCAAA
Found at i:16998509 original size:20 final size:20
Alignment explanation
Indices: 16998471--16998508 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
16998461 TTTGAAATTA
16998471 AAAATTATTTTGAATTTTTG
1 AAAATTATTTTGAATTTTTG
16998491 AAAATTATTTTG-ATTTTT
1 AAAATTATTTTGAATTTTT
16998509 TTTGTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
AAAATTATTTTGAATTTTTG
Found at i:16999266 original size:66 final size:61
Alignment explanation
Indices: 16999181--16999349 Score: 250
Period size: 66 Copynumber: 2.7 Consensus size: 61
16999171 TACGTATACA
* *
16999181 TAAATAG-TTTTTATCAATTGAATTGAAATTATATTAAATATTGAAAATAAAAATAAAATCAAAT
1 TAAATAGTTTTTTTTCAATTGAATTGAAATTAAATTAAATATTGAAAATAAAAAT----TCAAAT
*
16999245 TAAATAGTTTTTTTTTCAATTGAATTGAAATTAAATTAAATATTGAAAATAGAAATTCAAAT
1 TAAATAG-TTTTTTTTCAATTGAATTGAAATTAAATTAAATATTGAAAATAAAAATTCAAAT
*
16999307 TAAATAATTTTTTTTCAATTGAATTGAAATTAAATTAAATATT
1 TAAATAGTTTTTTTTCAATTGAATTGAAATTAAATTAAATATT
16999350 TTACTATTCA
Statistics
Matches: 99, Mismatches: 4, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
61 36 0.36
62 12 0.12
64 7 0.07
66 44 0.44
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.42
Consensus pattern (61 bp):
TAAATAGTTTTTTTTCAATTGAATTGAAATTAAATTAAATATTGAAAATAAAAATTCAAAT
Found at i:16999279 original size:31 final size:30
Alignment explanation
Indices: 16999241--16999341 Score: 87
Period size: 31 Copynumber: 3.3 Consensus size: 30
16999231 AAATAAAATC
16999241 AAATTAAATAGTTTTTTTTTCAATTGAATTG
1 AAATTAAATA-TTTTTTTTTCAATTGAATTG
** * *** * *
16999272 AAATTAAAT-TAAATATTGAAAATAGAAATTC
1 AAATTAAATAT-TTTTTTTTCAATTG-AATTG
*
16999303 AAATTAAATAATTTTTTTTCAATTGAATTG
1 AAATTAAATATTTTTTTTTCAATTGAATTG
16999333 AAATTAAAT
1 AAATTAAAT
16999342 TAAATATTTT
Statistics
Matches: 50, Mismatches: 17, Indels: 7
0.68 0.23 0.09
Matches are distributed among these distances:
29 1 0.02
30 20 0.40
31 29 0.58
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.44
Consensus pattern (30 bp):
AAATTAAATATTTTTTTTTCAATTGAATTG
Found at i:17002721 original size:30 final size:29
Alignment explanation
Indices: 17002651--17002878 Score: 198
Period size: 30 Copynumber: 7.7 Consensus size: 29
17002641 TTTGGGAAGC
* *
17002651 TTAAGGGTCAAAATGCAACTTTCA-AAATGT
1 TTAAGGGTCAAAATGTAA-TTTTAGAAA-GT
*
17002681 TTTA-GGTCAAAATGTAATATTTAGAAAGT
1 TTAAGGGTCAAAATGTAAT-TTTAGAAAGT
17002710 TTAAGGGTCAAAATG-ACATTTTTAGAAAGT
1 TTAAGGGTCAAAATGTA-A-TTTTAGAAAGT
*
17002740 TTAAGGGTTAAAATGTAATTTTTAGAAAGT
1 TTAAGGGTCAAAATGTAA-TTTTAGAAAGT
* **
17002770 TTAGGGGTCAAAATCAAACTTTTAGAAAG-
1 TTAAGGGTCAAAATGTAA-TTTTAGAAAGT
*
17002799 TTAAGGG-CTAAAATATAATTTTTAGAAAGT
1 TTAAGGGTC-AAAATGTAA-TTTTAGAAAGT
* * * *
17002829 TTAGGGGGTTAAAATATAATTTTTGTAAAGT
1 TTA-AGGGTCAAAATGTAATTTTAG-AAAGT
*
17002860 TT-AGGGTCAAAATATAATT
1 TTAAGGGTCAAAATGTAATT
17002879 GGGATAATGC
Statistics
Matches: 168, Mismatches: 19, Indels: 23
0.80 0.09 0.11
Matches are distributed among these distances:
28 2 0.01
29 59 0.35
30 86 0.51
31 21 0.12
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.36
Consensus pattern (29 bp):
TTAAGGGTCAAAATGTAATTTTAGAAAGT
Found at i:17002764 original size:60 final size:60
Alignment explanation
Indices: 17002651--17002878 Score: 236
Period size: 60 Copynumber: 3.8 Consensus size: 60
17002641 TTTGGGAAGC
* * * * *
17002651 TTAAGGGTCAAAATGCAACTTTCA-AAATGTTTTA-GGTCAAAATGTAATATTTAGAAAGT
1 TTAAGGGTCAAAATGAAACTTTTAGAAA-GTTTAAGGGTCAAAATATAATTTTTAGAAAGT
* * * *
17002710 TTAAGGGTCAAAATGACATTTTTAGAAAGTTTAAGGGTTAAAATGTAATTTTTAGAAAGT
1 TTAAGGGTCAAAATGAAACTTTTAGAAAGTTTAAGGGTCAAAATATAATTTTTAGAAAGT
* *
17002770 TTAGGGGTCAAAATCAAACTTTTAGAAAG-TTAAGGG-CTAAAATATAATTTTTAGAAAGT
1 TTAAGGGTCAAAATGAAACTTTTAGAAAGTTTAAGGGTC-AAAATATAATTTTTAGAAAGT
* * *
17002829 TTAGGGGGTTAAAAT-ATAA-TTTTTGTAAAGTTT-AGGGTCAAAATATAATT
1 TTA-AGGGTCAAAATGA-AACTTTTAG-AAAGTTTAAGGGTCAAAATATAATT
17002879 GGGATAATGC
Statistics
Matches: 146, Mismatches: 15, Indels: 15
0.83 0.09 0.09
Matches are distributed among these distances:
59 61 0.42
60 82 0.56
61 3 0.02
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.36
Consensus pattern (60 bp):
TTAAGGGTCAAAATGAAACTTTTAGAAAGTTTAAGGGTCAAAATATAATTTTTAGAAAGT
Found at i:17005936 original size:78 final size:80
Alignment explanation
Indices: 17005788--17006168 Score: 294
Period size: 78 Copynumber: 4.7 Consensus size: 80
17005778 GAGATGGTAG
*
17005788 CTTCAATCTGCCCCTCTTGATTAGGGTAAAAGATTGGATAGTGGCTTCAATTTGCCCAATGATCG
1 CTTCAATCTG-CCCTC-TGATTAGGGTAAAAGATTGGATAGT-G-TTCAATCTGCCCAATGATCG
17005853 AGGTAAGAGATTGGTGTGT
62 AGGTAAGAGATTGGTGTGT
* * * *
17005872 CTTCAATTTGCCCTCCGATTAGGGTAAAAGATTGGATA-T-TTCAATCTGCCCCATGATCGGGGT
1 CTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATAGTGTTCAATCTGCCCAATGATCGAGGT
17005935 AAGAGATTGGTGTGT
66 AAGAGATTGGTGTGT
* * * * * * **
17005950 CTTCAATCTGCTCTTTGAGTAGGGTAAAAGATTGGATGGTAACTTCAATTTGCGCCCCTTGACTT
1 CTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATAGT--GTTCAATCT--GCCCAATGA--T
* * *
17006015 CGGGGTAAAAGATTGGATGGTGG
60 CGAGGTAAGAGATTGG-T-GTGT
* * * ** *
17006038 CTTCAATCTGCCC-CATGATCAGGGTAAGAGATTGG-TATGTCTTCAATCTGCCCTTTGAT-TAG
1 CTTCAATCTGCCCTC-TGATTAGGGTAAAAGATTGGATA-GTGTTCAATCTGCCCAATGATCGA-
* *
17006100 GGTAAAAGATTGG-ATG-
63 GGTAAGAGATTGGTGTGT
* * * *
17006116 CTTCAATCTGCCTTATGATCAGGGTAAGAGATTGG-T-GTGTTTTCAATCTGCCC
1 CTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATAGTG--TTCAATCTGCCC
17006169 CTCTTGATTT
Statistics
Matches: 252, Mismatches: 29, Indels: 38
0.79 0.09 0.12
Matches are distributed among these distances:
76 2 0.01
78 113 0.45
79 3 0.01
81 1 0.00
82 43 0.17
83 5 0.02
84 25 0.10
86 24 0.10
87 2 0.01
88 34 0.13
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.33
Consensus pattern (80 bp):
CTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATAGTGTTCAATCTGCCCAATGATCGAGGT
AAGAGATTGGTGTGT
Found at i:17006165 original size:206 final size:208
Alignment explanation
Indices: 17005780--17006243 Score: 647
Period size: 206 Copynumber: 2.2 Consensus size: 208
17005770 GCTTCTGTGA
* * *
17005780 GATGGTAGCTTCAATCTGCCCCTCTTGA-TTAGGGTAAAAGATTGGATAGTGGCTTCAATTTGCC
1 GATGGTA-CTTCAATCTGCCCCTCTTGACTTGGGGTAAAAGATTGGATGGTGGCTTCAATCTGCC
* *
17005844 CAATGATCGAGGTAAGAGATTGGTGTGTCTTCAATTTGCCCTCCGATTAGGGTAAAAGATTGGAT
65 CAATGATCGAGGTAAGAGATTGGTATGTCTTCAATCTGCCCTCCGATTAGGGTAAAAGATTGGAT
* * *
17005909 ATTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTG-CTCT-TTGA-GTA
130 ACTTCAATCTGCCCCATGATCAGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCCTCTTGATGTA
17005971 -GGGTAAAAGATTG
195 GGGGTAAAAGATTG
*
17005984 GATGGTAACTTCAATTTGCGCCC-CTTGACTTCGGGGTAAAAGATTGGATGGTGGCTTCAATCTG
1 GATGGT-ACTTCAATCTGC-CCCTCTTGACTT-GGGGTAAAAGATTGGATGGTGGCTTCAATCTG
* **
17006048 CCCCATGATC-AGGGTAAGAGATTGGTATGTCTTCAATCTGCCCTTTGATTAGGGTAAAAGATTG
63 CCCAATGATCGA-GGTAAGAGATTGGTATGTCTTCAATCTGCCCTCCGATTAGGGTAAAAGATTG
* ** *
17006112 GATGCTTCAATCTGCCTTATGATCAGGGTAAGAGATTGGTGTGTTTTCAATCTGCCCCTCTTGAT
127 GATACTTCAATCTGCCCCATGATCAGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCCTCTTGAT
* *
17006177 TTAGGGGTAAAAGTTTG
192 GTAGGGGTAAAAGATTG
*
17006194 AATGGT-CTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATGGT
1 GATGGTACTTCAATCTGCCCCTCTTGACTT-GGGGTAAAAGATTGGATGGT
17006244 CTTTGATCGG
Statistics
Matches: 229, Mismatches: 21, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
204 21 0.09
205 7 0.03
206 134 0.59
207 6 0.03
208 42 0.18
209 2 0.01
210 17 0.07
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (208 bp):
GATGGTACTTCAATCTGCCCCTCTTGACTTGGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCC
AATGATCGAGGTAAGAGATTGGTATGTCTTCAATCTGCCCTCCGATTAGGGTAAAAGATTGGATA
CTTCAATCTGCCCCATGATCAGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCCTCTTGATGTAG
GGGTAAAAGATTG
Found at i:17006206 original size:44 final size:41
Alignment explanation
Indices: 17005788--17006246 Score: 367
Period size: 40 Copynumber: 11.1 Consensus size: 41
17005778 GAGATGGTAG
*
17005788 CTTCAATCTGCCCCTCTTGATTAGGGTAAAAGATTGGATAGTGG
1 CTTCAATCTG-CCCTCTTGATTAGGGTAAAAGATTGGAT-G-GT
* ** * *
17005832 CTTCAATTTGCCC-AATGA-TCGAGGTAAGAGATTGG-TGTGT
1 CTTCAATCTGCCCTCTTGATTAG-GGTAAAAGATTGGATG-GT
* * *
17005872 CTTCAATTTGCCCTC-CGATTAGGGTAAAAGATTGGAT-AT
1 CTTCAATCTGCCCTCTTGATTAGGGTAAAAGATTGGATGGT
* ** *
17005911 -TTCAATCTGCCC-CATGATCGGGGTAAGAGATTGG-TGTGT
1 CTTCAATCTGCCCTCTTGATTAGGGTAAAAGATTGGATG-GT
* *
17005950 CTTCAATCTGCTCT-TTGAGTAGGGTAAAAGATTGGATGGT
1 CTTCAATCTGCCCTCTTGATTAGGGTAAAAGATTGGATGGT
* * *
17005990 AACTTCAATTTGCGCCCCTTGACTTCGGGGTAAAAGATTGGATGGT
1 --CTTCAATCTGC-CCTCTTGA-TT-AGGGTAAAAGATTGGATGGT
* * *
17006036 GGCTTCAATCTGCCC-CATGATCAGGGTAAGAGATTGGTAT-GT
1 --CTTCAATCTGCCCTCTTGATTAGGGTAAAAGATTGG-ATGGT
17006078 CTTCAATCTGCCCT-TTGATTAGGGTAAAAGATTGGAT-G-
1 CTTCAATCTGCCCTCTTGATTAGGGTAAAAGATTGGATGGT
* *
17006116 CTTCAATCTG-CCT-TATGATCAGGGTAAGAGATTGG-TGTGT
1 CTTCAATCTGCCCTCT-TGATTAGGGTAAAAGATTGGATG-GT
* * *
17006156 TTTCAATCTGCCCCTCTTGATTTAGGGGTAAAAGTTTGAATGGT
1 CTTCAATCTG-CCCTCTTGA-TTA-GGGTAAAAGATTGGATGGT
17006200 CTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATGGT
1 CTTCAATCTG-CCCTCTTGA-TTA-GGGTAAAAGATTGGATGGT
17006244 CTT
1 CTT
17006247 TGATCGGTGT
Statistics
Matches: 338, Mismatches: 49, Indels: 56
0.76 0.11 0.13
Matches are distributed among these distances:
37 7 0.02
38 55 0.16
39 6 0.02
40 99 0.29
41 8 0.02
42 46 0.14
43 10 0.03
44 73 0.22
45 5 0.01
46 29 0.09
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (41 bp):
CTTCAATCTGCCCTCTTGATTAGGGTAAAAGATTGGATGGT
Found at i:17018375 original size:23 final size:24
Alignment explanation
Indices: 17018345--17018395 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
17018335 AAATGAGTCA
17018345 AATGCTCC-AACTAGATGGGCATG
1 AATGCTCCTAACTAGATGGGCATG
*
17018368 AATGCTCCTAACTAGATGGGTATG
1 AATGCTCCTAACTAGATGGGCATG
17018392 AATG
1 AATG
17018396 ATGAATGCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (24 bp):
AATGCTCCTAACTAGATGGGCATG
Found at i:17019116 original size:25 final size:24
Alignment explanation
Indices: 17019087--17019133 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
17019077 TCATCTCGAC
* *
17019087 CTCTTCGTTTTCTTATTTTTTTTCT
1 CTCTTCATTTTCTT-TCTTTTTTCT
17019112 CTCTTCATTTTCTTTCTTTTTT
1 CTCTTCATTTTCTTTCTTTTTT
17019134 GGGTGAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.04, C:0.21, G:0.02, T:0.72
Consensus pattern (24 bp):
CTCTTCATTTTCTTTCTTTTTTCT
Found at i:17020035 original size:21 final size:20
Alignment explanation
Indices: 17020017--17020061 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
17020007 TTCATCTTGA
17020017 CTTTTT-TCTTTCTTTTCTT
1 CTTTTTCTCTTTCTTTTCTT
*
17020036 CTTTTTCCTTTTTCTTTTCTT
1 CTTTTT-CTCTTTCTTTTCTT
17020057 -TTTTT
1 CTTTTT
17020062 GGGGTTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 5 0.22
21 12 0.52
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (20 bp):
CTTTTTCTCTTTCTTTTCTT
Found at i:17023082 original size:15 final size:16
Alignment explanation
Indices: 17023049--17023086 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
17023039 GCAATGCGAG
*
17023049 AAAAAAAAACAAAGAC
1 AAAATAAAACAAAGAC
*
17023065 AAAATAAAACAATG-C
1 AAAATAAAACAAAGAC
17023080 AAAATAA
1 AAAATAA
17023087 TAAACACAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.76, C:0.11, G:0.05, T:0.08
Consensus pattern (16 bp):
AAAATAAAACAAAGAC
Found at i:17024434 original size:30 final size:30
Alignment explanation
Indices: 17024400--17024467 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
17024390 AGGGCTAAAT
17024400 TATAATTTTTGAAAAGTTTGAGGGTCAAAA
1 TATAATTTTTGAAAAGTTTGAGGGTCAAAA
* * *
17024430 TATAATTTTTGGAAAGTTTTAGGGTTAAAA
1 TATAATTTTTGAAAAGTTTGAGGGTCAAAA
*
17024460 TAAAATTT
1 TATAATTT
17024468 CTAAATAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.40, C:0.01, G:0.18, T:0.41
Consensus pattern (30 bp):
TATAATTTTTGAAAAGTTTGAGGGTCAAAA
Found at i:17028857 original size:18 final size:17
Alignment explanation
Indices: 17028802--17028857 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 17
17028792 ACAAAATTAG
* *
17028802 AATTGAATTAAAAAAAT
1 AATTAAATTAAATAAAT
* *
17028819 AATTTAATTGAATAAATT
1 AATTAAATTAAATAAA-T
17028837 AATTAAATTAAATTAAAT
1 AATTAAATTAAA-TAAAT
17028855 AAT
1 AAT
17028858 ATTTGAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
17 13 0.41
18 15 0.47
19 4 0.12
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (17 bp):
AATTAAATTAAATAAAT
Found at i:17030605 original size:11 final size:11
Alignment explanation
Indices: 17030589--17030626 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
17030579 TTCCTTCGCT
17030589 TGCCTCGCTGC
1 TGCCTCGCTGC
17030600 TGCCTC-C-GC
1 TGCCTCGCTGC
17030609 TTGCCTCGCTGC
1 -TGCCTCGCTGC
17030621 TGCCTC
1 TGCCTC
17030627 CACTTTAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 2 0.08
10 7 0.29
11 13 0.54
12 2 0.08
ACGTcount: A:0.00, C:0.47, G:0.24, T:0.29
Consensus pattern (11 bp):
TGCCTCGCTGC
Found at i:17030622 original size:24 final size:21
Alignment explanation
Indices: 17030575--17030627 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
17030565 CTTGTAGCCT
* *
17030575 CTGCTTCCTTCGCTTGCCTCG
1 CTGCTGCCTCCGCTTGCCTCG
17030596 CTGCTGCCTCCGCTTGCCTCG
1 CTGCTGCCTCCGCTTGCCTCG
17030617 CTGCTGCCTCC
1 CTGCTGCCTCC
17030628 ACTTTAAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.00, C:0.47, G:0.21, T:0.32
Consensus pattern (21 bp):
CTGCTGCCTCCGCTTGCCTCG
Found at i:17030729 original size:66 final size:66
Alignment explanation
Indices: 17030623--17030770 Score: 217
Period size: 66 Copynumber: 2.2 Consensus size: 66
17030613 CTCGCTGCTG
* *
17030623 CCTCCACTTTAAGTTGTATGTGGAGTTCTTCATATTTTTTTTGAGACTCTGCTTCTCTCACTGCA
1 CCTCCTCTTTAAGTTGTATGTGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACTGCA
17030688 A
66 A
* * **
17030689 CCTCCTCTTTAAGTTTTA-GATGGAGTTCATCATATTTTTTTTGAGCCTCTGCTTCTCTCGTTGC
1 CCTCCTCTTTAAGTTGTATG-TGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACTGC
*
17030753 AG
65 AA
17030755 CCTCCTCTTTAAGTTG
1 CCTCCTCTTTAAGTTG
17030771 AGCAATTTGC
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
65 1 0.01
66 72 0.99
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.45
Consensus pattern (66 bp):
CCTCCTCTTTAAGTTGTATGTGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACTGCA
A
Found at i:17036303 original size:18 final size:18
Alignment explanation
Indices: 17036280--17037239 Score: 266
Period size: 18 Copynumber: 56.3 Consensus size: 18
17036270 CTGTTTTTAT
*
17036280 TAATTAAATAATTAAATA
1 TAATTAAATAATTTAATA
17036298 TAATTAAA-AATTTTAATA
1 TAATTAAATAA-TTTAATA
** **
17036316 TAATTATTTACCTTAATA
1 TAATTAAATAATTTAATA
17036334 TAATTAAATAA-TTAA-A
1 TAATTAAATAATTTAATA
*
17036350 T-CTT---TAATTTAATA
1 TAATTAAATAATTTAATA
** *
17036364 TAATTATTTACTTTAATA
1 TAATTAAATAATTTAATA
17036382 TAATTAAATAA-TTAA-A
1 TAATTAAATAATTTAATA
* * *
17036398 T-CTT--TTAACTTAATA
1 TAATTAAATAATTTAATA
** *
17036413 TAATTATTTACTTTAATA
1 TAATTAAATAATTTAATA
* *
17036431 TAATTAAATAATTAAATCTTT
1 TAATTAAATAATTTAA---TA
17036452 TAACTTAAAT-ATTTAAT-
1 TAA-TTAAATAATTTAATA
** *
17036469 TAA-TCGATAGTGTT--TA
1 TAATTAAATAAT-TTAATA
*
17036485 TAATTAAATACATAATTAAACA
1 TAATTAAATA-AT--TT-AATA
*
17036507 TGATTAAATAATTTAATA
1 TAATTAAATAATTTAATA
** *
17036525 TAATTATTTAGTTTAATA
1 TAATTAAATAATTTAATA
17036543 TAATTAAATAA-TT-ATA
1 TAATTAAATAATTTAATA
* * *
17036559 T-CTT--TTAAATTAATA
1 TAATTAAATAATTTAATA
* ** *
17036574 TACTTATTTACTTTAATA
1 TAATTAAATAATTTAATA
17036592 TAATTAAATAA-TTAA-A
1 TAATTAAATAATTTAATA
17036608 T-ATT---TAATTTAATA
1 TAATTAAATAATTTAATA
** *
17036622 TAATTATTTACTTTAATA
1 TAATTAAATAATTTAATA
17036640 TAATTAAATAA-TTAA-A
1 TAATTAAATAATTTAATA
*
17036656 T-CTT---TAATTTAATA
1 TAATTAAATAATTTAATA
** *
17036670 TAATTATTTACTTTAATA
1 TAATTAAATAATTTAATA
17036688 TAATTAAATAA-TTAA-A
1 TAATTAAATAATTTAATA
* * *
17036704 T-CTT--TTAACTTAATA
1 TAATTAAATAATTTAATA
** *
17036719 TAATTATTTACTTTAATA
1 TAATTAAATAATTTAATA
* *
17036737 TAATTAAATAATTAAATCTTT
1 TAATTAAATAATTTAA---TA
17036758 TAACTTAAAT-ATTTAAT-
1 TAA-TTAAATAATTTAATA
** *
17036775 TAA-TCGATAGTGTT--TA
1 TAATTAAATAAT-TTAATA
*
17036791 TAATTAAATACATAATTAAACA
1 TAATTAAATA-AT--TT-AATA
*
17036813 TGATTAAATAATTTAATA
1 TAATTAAATAATTTAATA
** *
17036831 TAATTATTTAGTTTAATA
1 TAATTAAATAATTTAATA
17036849 TAATTAAATAA-TT-ATA
1 TAATTAAATAATTTAATA
* * *
17036865 T-CTT--TTAAATTAATA
1 TAATTAAATAATTTAATA
* ** *
17036880 TACTTATTTATTTTAATA
1 TAATTAAATAATTTAATA
17036898 TAATTAAATAA-TTAA-A
1 TAATTAAATAATTTAATA
17036914 T-ATT---TAATTTAATA
1 TAATTAAATAATTTAATA
** *
17036928 TAATTATTTACTTTAATA
1 TAATTAAATAATTTAATA
17036946 TAATTAAATAA-TTAA-A
1 TAATTAAATAATTTAATA
*
17036962 T-CTT---TAATTTAATA
1 TAATTAAATAATTTAATA
** *
17036976 TAATTATTTACTTTAATA
1 TAATTAAATAATTTAATA
17036994 TAATTAAATAA-TTAA-A
1 TAATTAAATAATTTAATA
* * *
17037010 T-CTT--TTAACTTAATA
1 TAATTAAATAATTTAATA
** *
17037025 TAATTATTTACTTTAATA
1 TAATTAAATAATTTAATA
* *
17037043 TAATTAAATAATTAAATCTTT
1 TAATTAAATAATTTAA---TA
17037064 TAACTTAAAT-ATTTAAT-
1 TAA-TTAAATAATTTAATA
** *
17037081 TAA-TCGATAGTGTT--TA
1 TAATTAAATAAT-TTAATA
*
17037097 TAATTAAATACATAATTAAACA
1 TAATTAAATA-AT--TT-AATA
*
17037119 TGATTAAATAATTTAATA
1 TAATTAAATAATTTAATA
** *
17037137 TAATTATTTAGTTTAATA
1 TAATTAAATAATTTAATA
17037155 TAATTAAATAA-TT-ATA
1 TAATTAAATAATTTAATA
* * *
17037171 T-CTT--TTAAATTAATA
1 TAATTAAATAATTTAATA
* ** *
17037186 TACTTATTTACTTTAATA
1 TAATTAAATAATTTAATA
17037204 TAATTAAATAA-TTAA-A
1 TAATTAAATAATTTAATA
17037220 T-ATT---TAATTTAATA
1 TAATTAAATAATTTAATA
17037234 TAATTA
1 TAATTA
17037240 TTTAATATAA
Statistics
Matches: 695, Mismatches: 142, Indels: 212
0.66 0.14 0.20
Matches are distributed among these distances:
12 18 0.03
13 42 0.06
14 30 0.04
15 72 0.10
16 57 0.08
17 71 0.10
18 311 0.45
19 13 0.02
21 33 0.05
22 48 0.07
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (18 bp):
TAATTAAATAATTTAATA
Found at i:17036613 original size:30 final size:30
Alignment explanation
Indices: 17036578--17036724 Score: 100
Period size: 31 Copynumber: 4.7 Consensus size: 30
17036568 TTAATATACT
17036578 TATTTACTTTAATATAATTAAATAATTAAA
1 TATTTACTTTAATATAATTAAATAATTAAA
* ** *
17036608 TATTTAATTTAATATAATTATTTACTTTAATA
1 TATTTACTTTAATATAATTAAATA-ATTAA-A
* * ** * *
17036640 TAATTAAATAATTAA-ATCTTTAATTTAATATAAT
1 T-ATTTACT--TTAATATAATTAA-ATAAT-TAAA
17036674 TATTTACTTTAATATAATTAAATAATTAAA
1 TATTTACTTTAATATAATTAAATAATTAAA
*
17036704 TCTTTTAAC-TTAATATAATTA
1 T-ATTT-ACTTTAATATAATTA
17036725 TTTACTTTAA
Statistics
Matches: 90, Mismatches: 17, Indels: 19
0.71 0.13 0.15
Matches are distributed among these distances:
30 25 0.28
31 27 0.30
32 10 0.11
33 11 0.12
34 7 0.08
35 10 0.11
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (30 bp):
TATTTACTTTAATATAATTAAATAATTAAA
Found at i:17036862 original size:306 final size:306
Alignment explanation
Indices: 17036280--17037243 Score: 1856
Period size: 306 Copynumber: 3.1 Consensus size: 306
17036270 CTGTTTTTAT
*
17036280 TAATTAAATAATTAAATATAATTAAAAATTTTAATATAATTATTTACCTTAATATAATTAAATAA
1 TAATTAAATAATTAAATAT--TT---AA-TTTAATATAATTATTTACTTTAATATAATTAAATAA
17036345 TTAAATCTTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTA
60 TTAAATCTTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTA
17036410 ATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCG
125 ATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCG
17036475 ATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTA
190 ATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTA
17036540 ATATAATTAAATAATTATATCTTTTAAATTAATATACTTATTTACTTTAATA
255 ATATAATTAAATAATTATATCTTTTAAATTAATATACTTATTTACTTTAATA
17036592 TAATTAAATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAAT
1 TAATTAAATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAAT
17036657 CTTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAA
66 CTTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAA
17036722 TTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTG
131 TTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTG
17036787 TTTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAA
196 TTTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAA
*
17036852 TTAAATAATTATATCTTTTAAATTAATATACTTATTTATTTTAATA
261 TTAAATAATTATATCTTTTAAATTAATATACTTATTTACTTTAATA
17036898 TAATTAAATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAAT
1 TAATTAAATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAAT
17036963 CTTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAA
66 CTTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAA
17037028 TTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTG
131 TTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTG
17037093 TTTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAA
196 TTTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAA
17037158 TTAAATAATTATATCTTTTAAATTAATATACTTATTTACTTTAATA
261 TTAAATAATTATATCTTTTAAATTAATATACTTATTTACTTTAATA
17037204 TAATTAAATAATTAAATATTTAATTTAATATAATTATTTA
1 TAATTAAATAATTAAATATTTAATTTAATATAATTATTTA
17037244 ATATAATACC
Statistics
Matches: 649, Mismatches: 3, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
306 626 0.96
307 2 0.00
310 2 0.00
312 19 0.03
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (306 bp):
TAATTAAATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAAT
CTTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAA
TTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTG
TTTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAA
TTAAATAATTATATCTTTTAAATTAATATACTTATTTACTTTAATA
Found at i:17036946 original size:30 final size:30
Alignment explanation
Indices: 17036884--17036994 Score: 84
Period size: 30 Copynumber: 4.1 Consensus size: 30
17036874 TTAATATACT
* ** * *
17036884 TATTTATTTTAATATAATTAAATAATTAAA
1 TATTTAATTTAATATAATTATTTACTTTAA
17036914 TATTTAATTTAATATAATTATTTACTTTAA
1 TATTTAATTTAATATAATTATTTACTTTAA
17036944 TA--TAA-TTAA-ATAATTA---A-----A
1 TATTTAATTTAATATAATTATTTACTTTAA
*
17036962 TCTTTAATTTAATATAATTATTTACTTTAA
1 TATTTAATTTAATATAATTATTTACTTTAA
17036992 TAT
1 TAT
17036995 AATTAAATAA
Statistics
Matches: 62, Mismatches: 7, Indels: 24
0.67 0.08 0.26
Matches are distributed among these distances:
18 2 0.03
20 3 0.05
21 4 0.06
22 7 0.11
23 1 0.02
25 1 0.02
26 7 0.11
27 4 0.06
28 3 0.05
30 30 0.48
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (30 bp):
TATTTAATTTAATATAATTATTTACTTTAA
Found at i:17037083 original size:26 final size:24
Alignment explanation
Indices: 17037001--17037075 Score: 66
Period size: 26 Copynumber: 3.1 Consensus size: 24
17036991 ATATAATTAA
17037001 ATAATTAAATCTTTTAACTT-AAT
1 ATAATTAAATCTTTTAACTTAAAT
** *
17037024 ATAATTATTTAC-TTTAA-TATAATTAA
1 ATAATTAAAT-CTTTTAACT-TAA--AT
17037050 ATAATTAAATCTTTTAACTTAAAT
1 ATAATTAAATCTTTTAACTTAAAT
17037074 AT
1 AT
17037076 TTAATTAATC
Statistics
Matches: 39, Mismatches: 6, Indels: 13
0.67 0.10 0.22
Matches are distributed among these distances:
22 1 0.03
23 14 0.36
24 5 0.13
25 1 0.03
26 17 0.44
27 1 0.03
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (24 bp):
ATAATTAAATCTTTTAACTTAAAT
Found at i:17037231 original size:13 final size:13
Alignment explanation
Indices: 17037226--17037250 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17037216 TAAATATTTA
17037226 ATTTAATATAATT
1 ATTTAATATAATT
17037239 ATTTAATATAAT
1 ATTTAATATAAT
17037251 ACCTATTGTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTAATATAATT
Found at i:17040124 original size:6 final size:6
Alignment explanation
Indices: 17040113--17040138 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
17040103 TGAATGAGTC
17040113 GCCGGT GCCGGT GCCGGT GCCGGT GC
1 GCCGGT GCCGGT GCCGGT GCCGGT GC
17040139 TAGTGCCACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.35, G:0.50, T:0.15
Consensus pattern (6 bp):
GCCGGT
Found at i:17041811 original size:42 final size:41
Alignment explanation
Indices: 17041702--17042228 Score: 414
Period size: 41 Copynumber: 12.8 Consensus size: 41
17041692 TTTAAATAAA
*
17041702 TTAGCGGCGC-TTATGGGAAAGCGCCGCTAAT-TCAC--ACCT
1 TTAGCGGCGCTTTA-GGGAAAGCGCCGCTAATGAC-CTGACCT
* * *
17041741 TTAGCGACACTTATTA-GAAAAGCGCCGCTAATGACCTGACCT
1 TTAGCGGCGC-T-TTAGGGAAAGCGCCGCTAATGACCTGACCT
*** * *
17041783 TTAGCGGCGCTTTATATATAAGCACCGCTAATGACCCT-AACT
1 TTAGCGGCGCTTTAGGGA-AAGCGCCGCTAATGA-CCTGACCT
* * * * *
17041825 TTAGCGGGGCTTGA-GAAAGAGTGCCGCTAATGACCCGACCTT
1 TTAGCGGCGCTTTAGGGAA-AGCGCCGCTAATGACCTGACC-T
* * *
17041867 TTAGCGGCGCTTGAGTGAAAGCACCGCTAAATGATCCT-ACCT
1 TTAGCGGCGCTTTAGGGAAAGCGCCGCT-AATGA-CCTGACCT
* *
17041909 TTAGCGGCGCTTGAGGGAAAGCGCCGCTAATGACCGGACCTT
1 TTAGCGGCGCTTTAGGGAAAGCGCCGCTAATGACCTGACC-T
* *
17041951 TTAGTGGCGCTTTAGGGAAAGCGCCGCTAATGATCAT-ACCT
1 TTAGCGGCGCTTTAGGGAAAGCGCCGCTAATGA-CCTGACCT
* ** * * *
17041992 TTAGCGGCGCTTGAGTTAAATCGCCGCTAATTAACTGACCT
1 TTAGCGGCGCTTTAGGGAAAGCGCCGCTAATGACCTGACCT
* * * *
17042033 TTAGTGGCGCTTGAGGGAAAGCACCGCTAATTACCCT-ACCT
1 TTAGCGGCGCTTTAGGGAAAGCGCCGCTAATGA-CCTGACCT
* * * * *
17042074 TTAGCGACGCATTAGAGAAAGCGCCGCTAATGACTTGAACT
1 TTAGCGGCGCTTTAGGGAAAGCGCCGCTAATGACCTGACCT
** *
17042115 TTAGCGGCGCTTGT-GATAAAGTGCCGCTAATGACCTGACCT
1 TTAGCGGCGCTT-TAGGGAAAGCGCCGCTAATGACCTGACCT
* *
17042156 TTAGCGGCGCTTGT-GGGTAAAGCGTCGCTAATGACCCGACCT
1 TTAGCGGCGCTT-TAGGG-AAAGCGCCGCTAATGACCTGACCT
* * **
17042198 TTAGCAGCGCTTT-TGTTAAGCGCCGCTAATG
1 TTAGCGGCGCTTTAGGGAAAGCGCCGCTAATG
17042229 CTTTACCTTT
Statistics
Matches: 395, Mismatches: 70, Indels: 45
0.77 0.14 0.09
Matches are distributed among these distances:
39 8 0.02
40 40 0.10
41 169 0.43
42 162 0.41
43 14 0.04
44 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (41 bp):
TTAGCGGCGCTTTAGGGAAAGCGCCGCTAATGACCTGACCT
Found at i:17041859 original size:83 final size:81
Alignment explanation
Indices: 17041702--17042210 Score: 463
Period size: 82 Copynumber: 6.2 Consensus size: 81
17041692 TTTAAATAAA
* * * * * *
17041702 TTAGCGGCGC-TTATGGGAAAGCGCCGCTAAT-TCAC-ACCTTTAGCGACACTTATTAGAAAAGC
1 TTAGCGGCGCTTTA-GGGAAAGCACCGCTAATGACCCTACCTTTAGCGGCGC-T-TGAGAAAAGC
17041764 GCCGCTAATGACCTGACCT
63 GCCGCTAATGACCTGACCT
*** * * *
17041783 TTAGCGGCGCTTTATATATAAGCACCGCTAATGACCCTAACTTTAGCGGGGCTTGAGAAAGAGTG
1 TTAGCGGCGCTTTAGGGA-AAGCACCGCTAATGACCCTACCTTTAGCGGCGCTTGAGAAA-AGCG
*
17041848 CCGCTAATGACCCGACCTT
64 CCGCTAATGACCTGACC-T
* * * *
17041867 TTAGCGGCGCTTGAGTGAAAGCACCGCTAAATGATCCTACCTTTAGCGGCGCTTGAGGGAAAGCG
1 TTAGCGGCGCTTTAGGGAAAGCACCGCT-AATGACCCTACCTTTAGCGGCGCTTGA-GAAAAGCG
*
17041932 CCGCTAATGACCGGACCTT
64 CCGCTAATGACCTGACC-T
* * * * * *
17041951 TTAGTGGCGCTTTAGGGAAAGCGCCGCTAATGATCATACCTTTAGCGGCGCTTGAGTTAAATCGC
1 TTAGCGGCGCTTTAGGGAAAGCACCGCTAATGACCCTACCTTTAGCGGCGCTTGAG-AAAAGCGC
* *
17042016 CGCTAATTAACTGACCT
65 CGCTAATGACCTGACCT
* * * *
17042033 TTAGTGGCGCTTGAGGGAAAGCACCGCTAATTACCCTACCTTTAGCGACGCATT-AGAGAAAGCG
1 TTAGCGGCGCTTTAGGGAAAGCACCGCTAATGACCCTACCTTTAGCGGCGC-TTGAGA-AAAGCG
* *
17042097 CCGCTAATGACTTGAACT
64 CCGCTAATGACCTGACCT
** ** * *
17042115 TTAGCGGCGCTTGT-GATAAAGTGCCGCTAATGA-CCTGACCTTTAGCGGCGCTTGTGGGTAAAG
1 TTAGCGGCGCTT-TAGGGAAAGCACCGCTAATGACCCT-ACCTTTAGCGGCGC-T-TGAGAAAAG
* *
17042178 CGTCGCTAATGACCCGACCT
62 CGCCGCTAATGACCTGACCT
*
17042198 TTAGCAGCGCTTT
1 TTAGCGGCGCTTT
17042211 TGTTAAGCGC
Statistics
Matches: 352, Mismatches: 61, Indels: 29
0.80 0.14 0.07
Matches are distributed among these distances:
81 14 0.04
82 129 0.37
83 111 0.32
84 95 0.27
85 3 0.01
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (81 bp):
TTAGCGGCGCTTTAGGGAAAGCACCGCTAATGACCCTACCTTTAGCGGCGCTTGAGAAAAGCGCC
GCTAATGACCTGACCT
Found at i:17047592 original size:13 final size:13
Alignment explanation
Indices: 17047574--17047598 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17047564 AAATTATTTC
17047574 AATTTAAATAAAA
1 AATTTAAATAAAA
17047587 AATTTAAATAAA
1 AATTTAAATAAA
17047599 GAAACTTTTA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AATTTAAATAAAA
Found at i:17051207 original size:24 final size:24
Alignment explanation
Indices: 17051156--17051207 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
17051146 TTCGTAAGTC
* *
17051156 AAATAAATTATGCTAAAAAATGCA
1 AAATAAATTATACTAAAAAATACA
* * *
17051180 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAAAAAATACA
17051204 AAAT
1 AAAT
17051208 TTTTTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.31
Consensus pattern (24 bp):
AAATAAATTATACTAAAAAATACA
Found at i:17062730 original size:12 final size:13
Alignment explanation
Indices: 17062711--17062748 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
17062701 ACATGTGGAG
17062711 ACAGAGGAAGGAA
1 ACAGAGGAAGGAA
17062724 A-AGAGGAA-GAA
1 ACAGAGGAAGGAA
*
17062735 ACAAAGGAAGGAA
1 ACAGAGGAAGGAA
17062748 A
1 A
17062749 TGATGTCGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
11 4 0.18
12 13 0.59
13 5 0.23
ACGTcount: A:0.61, C:0.05, G:0.34, T:0.00
Consensus pattern (13 bp):
ACAGAGGAAGGAA
Found at i:17066223 original size:26 final size:26
Alignment explanation
Indices: 17066135--17066216 Score: 119
Period size: 26 Copynumber: 3.2 Consensus size: 26
17066125 GCCCAAAATT
* *
17066135 GAGTTTAGCTCATACGAGCTCAAACA
1 GAGTTTAGCTCATTCGAGCCCAAACA
***
17066161 GAGTTTAGCTCATTCGAGCCTGGACA
1 GAGTTTAGCTCATTCGAGCCCAAACA
17066187 GAGTTTAGCTCATTCGAGCCCAAACA
1 GAGTTTAGCTCATTCGAGCCCAAACA
17066213 GAGT
1 GAGT
17066217 AACGCTCTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.24
Consensus pattern (26 bp):
GAGTTTAGCTCATTCGAGCCCAAACA
Found at i:17067525 original size:40 final size:40
Alignment explanation
Indices: 17067454--17067602 Score: 160
Period size: 40 Copynumber: 3.8 Consensus size: 40
17067444 CAACAACACT
* * *
17067454 GGCT-AAAGCCTGCT-AGGTCATAACCTAAATCATCTCACC
1 GGCTCAAAGCCTGCTAAGCT-ATAGCCTGAATCATCTCACC
* *
17067493 GGTTCAGAGCCTGCTAAGCTATAGCCTGAATCATCTCACC
1 GGCTCAAAGCCTGCTAAGCTATAGCCTGAATCATCTCACC
* * *
17067533 GGCTCAAAGCCTACT-AGGTCATAGCTTGAATCATCTCACC
1 GGCTCAAAGCCTGCTAAGCT-ATAGCCTGAATCATCTCACC
* **
17067573 GGCTCAAAGCCTGCTAGGCCGTAGCCTGAA
1 GGCTCAAAGCCTGCTAAGCTATAGCCTGAA
17067603 CTATATGCGT
Statistics
Matches: 90, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 6 0.07
40 80 0.89
41 4 0.04
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (40 bp):
GGCTCAAAGCCTGCTAAGCTATAGCCTGAATCATCTCACC
Found at i:17067598 original size:80 final size:79
Alignment explanation
Indices: 17067454--17067602 Score: 208
Period size: 80 Copynumber: 1.9 Consensus size: 79
17067444 CAACAACACT
* * * *
17067454 GGCTAAAGCCTGCTAGGTCATAACCTAAATCATCTCACCGGTTCAGAGCCTGCTAAGCTATAGCC
1 GGCTAAAGCCTACTAGGTCATAACCTAAATCATCTCACCGGCTCAAAGCCTGCTAAGCCATAGCC
17067519 TGAATCATCTCACC
66 TGAATCATCTCACC
* * * * *
17067533 GGCTCAAAGCCTACTAGGTCATAGCTTGAATCATCTCACCGGCTCAAAGCCTGCTAGGCCGTAGC
1 GGCT-AAAGCCTACTAGGTCATAACCTAAATCATCTCACCGGCTCAAAGCCTGCTAAGCCATAGC
17067598 CTGAA
65 CTGAA
17067603 CTATATGCGT
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
79 4 0.07
80 56 0.93
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (79 bp):
GGCTAAAGCCTACTAGGTCATAACCTAAATCATCTCACCGGCTCAAAGCCTGCTAAGCCATAGCC
TGAATCATCTCACC
Found at i:17069944 original size:41 final size:41
Alignment explanation
Indices: 17069887--17070372 Score: 593
Period size: 41 Copynumber: 11.9 Consensus size: 41
17069877 ATGTAAAAAT
* *
17069887 TTTAGCGGCGCTTTCCCATAAGCGTCGCTATTGCTCCGAAC
1 TTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCTCCGACC
* *
17069928 TTTAGCGGTGCTTTCCCATAAGCGCCGCTATTTCTCCGACC
1 TTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCTCCGACC
* * *
17069969 TTTAGCGGCGATTTCTCATAAGCGCCGCTATTGCTCAGACC
1 TTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCTCCGACC
** *
17070010 TTTAGCGGCGCTTTCTTATAAGCGCCGCTATTGCTCAGACC
1 TTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCTCCGACC
17070051 TTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCTCCGACC
1 TTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCTCCGACC
* * ** *
17070092 TTTAGCGGTGATTTCTTATAAGCGTCGCTATTGCTCCGACC
1 TTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCTCCGACC
* * * *
17070133 TTTAGTGACGCTTTCTCATAAGCGCCGTTATTGCTCCGACC
1 TTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCTCCGACC
** * *
17070174 TTTAGCGGCG-TATTCTTATAAGCGTCGCTATTGCTCCGATC
1 TTTAGCGGCGCT-TTCCCATAAGCGCCGCTATTGCTCCGACC
17070215 TTTAGCGGCGC-TTCTCCATAAGCGCCGCTATTGCTCCGACC
1 TTTAGCGGCGCTTTC-CCATAAGCGCCGCTATTGCTCCGACC
* ** * * *
17070256 TTCAGCGGCGCTTTCATATAAGCGCCGCTATTACTCTGATC
1 TTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCTCCGACC
* *
17070297 TTTAGCGGCGC-TTCTCCATAAACGCCGCTATTGCTCC-ATC
1 TTTAGCGGCGCTTTC-CCATAAGCGCCGCTATTGCTCCGACC
* * * * *
17070337 TGTAGCGACGCTTTTCCATAAGCACCGCTGTTGCTC
1 TTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCTC
17070373 TATCTTTTGC
Statistics
Matches: 385, Mismatches: 54, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
40 37 0.10
41 345 0.90
42 3 0.01
ACGTcount: A:0.17, C:0.31, G:0.21, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCTCCGACC
Found at i:17070021 original size:24 final size:24
Alignment explanation
Indices: 17069989--17070062 Score: 63
Period size: 24 Copynumber: 3.4 Consensus size: 24
17069979 ATTTCTCATA
17069989 AGCGCCGCTATTGCTCAGACCTTT
1 AGCGCCGCTATTGCTCAGACCTTT
* * *
17070013 AGCGGCGCT-TT-CT--TA---TA
1 AGCGCCGCTATTGCTCAGACCTTT
17070030 AGCGCCGCTATTGCTCAGACCTTT
1 AGCGCCGCTATTGCTCAGACCTTT
*
17070054 AGCGGCGCT
1 AGCGCCGCT
17070063 TTCCCATAAG
Statistics
Matches: 36, Mismatches: 7, Indels: 14
0.63 0.12 0.25
Matches are distributed among these distances:
17 9 0.25
18 2 0.06
19 2 0.06
20 1 0.03
21 1 0.03
22 2 0.06
23 2 0.06
24 17 0.47
ACGTcount: A:0.16, C:0.31, G:0.24, T:0.28
Consensus pattern (24 bp):
AGCGCCGCTATTGCTCAGACCTTT
Found at i:17076916 original size:97 final size:97
Alignment explanation
Indices: 17076738--17076920 Score: 246
Period size: 97 Copynumber: 1.9 Consensus size: 97
17076728 GAAAAGGATG
** * *
17076738 TTCGATTATCTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAAGGCACAAATTTTTAGAATCAG
1 TTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAATTTTCAAAATCAG
** *
17076803 AGGTAAAGAAACATTGCCTCGGTTTAAGGGTA
66 AAATAAAAAAACATTGCCTCGGTTTAAGGGTA
17076835 TTCGATTAT-TCCGATTT-AAGGAAAAATTGCACCTAGTAAGTTAAGGCACAAATTTTCAAAACT
1 TTCGATTATCT-CGATTTGAA-GAAAAATTGCACCTAGTAAGTTAAGGCACAAATTTTCAAAA-T
*
17076898 C-GAAATAAAAAAATATTGCCTCG
63 CAGAAATAAAAAAACATTGCCTCG
17076921 ATTTTAAATT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
96 3 0.04
97 70 0.93
98 2 0.03
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (97 bp):
TTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAATTTTCAAAATCAG
AAATAAAAAAACATTGCCTCGGTTTAAGGGTA
Found at i:17077167 original size:28 final size:28
Alignment explanation
Indices: 17077135--17077263 Score: 66
Period size: 28 Copynumber: 4.5 Consensus size: 28
17077125 ATCGGAGTTG
*
17077135 AAAATGTGATTTTTGGATATTCGGGGGC
1 AAAATGTGATTTTTGGATATTCGAGGGC
* *
17077163 AAAATAGT-AATTTTGG-TCACTCGAGGGC
1 AAAAT-GTGATTTTTGGAT-ATTCGAGGGC
* * * * **
17077191 AAAATGGTAATTTTGGGAAAGTCGAGTTC
1 AAAAT-GTGATTTTTGGATATTCGAGGGC
* * * * *
17077220 AAAAATG-GAATTTTGGACATCCGGGGGT
1 -AAAATGTGATTTTTGGATATTCGAGGGC
17077248 AAAATGATGATTTTTG
1 AAAATG-TGATTTTTG
17077264 AAAGTTTCGG
Statistics
Matches: 73, Mismatches: 21, Indels: 13
0.68 0.20 0.12
Matches are distributed among these distances:
27 7 0.10
28 38 0.52
29 23 0.32
30 5 0.07
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.32
Consensus pattern (28 bp):
AAAATGTGATTTTTGGATATTCGAGGGC
Found at i:17077175 original size:29 final size:28
Alignment explanation
Indices: 17077135--17077204 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
17077125 ATCGGAGTTG
* * *
17077135 AAAATGTGATTTTTGGAT-ATTCGGGGGC
1 AAAATGTAATTTTTGG-TCACTCGAGGGC
17077163 AAAATAGTAA-TTTTGGTCACTCGAGGGC
1 AAAAT-GTAATTTTTGGTCACTCGAGGGC
17077191 AAAATGGTAATTTT
1 AAAAT-GTAATTTT
17077205 GGGAAAGTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 1 0.03
28 28 0.80
29 6 0.17
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (28 bp):
AAAATGTAATTTTTGGTCACTCGAGGGC
Found at i:17077281 original size:30 final size:29
Alignment explanation
Indices: 17077243--17077321 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 29
17077233 TGGACATCCG
17077243 GGGGTAAAATGATGATTTTTGAAAGTTTC
1 GGGGTAAAATGATGATTTTTGAAAGTTTC
17077272 GGGGTTAAAA--ATAGAATTTTTGAAAGTTT-
1 GGGG-TAAAATGAT-G-ATTTTTGAAAGTTTC
* * *
17077301 AGGGTAAAATGGTAATTTTTG
1 GGGGTAAAATGATGATTTTTG
17077322 GAAAAATTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
28 14 0.33
29 8 0.19
30 20 0.48
ACGTcount: A:0.34, C:0.01, G:0.27, T:0.38
Consensus pattern (29 bp):
GGGGTAAAATGATGATTTTTGAAAGTTTC
Found at i:17077306 original size:58 final size:58
Alignment explanation
Indices: 17077244--17077443 Score: 219
Period size: 58 Copynumber: 3.4 Consensus size: 58
17077234 GGACATCCGG
* * * *
17077244 GGGTAAAATGATGATTTTT-GAAAGTTTCGGGGTTAAAAATAGAATTTTTGAAAGTTTA
1 GGGTAAAATGGTAATTTTTGGAAA-ATTCAGGGTTAAAAATAGAATTTTTGAAAGTTTA
* * *
17077302 GGGTAAAATGGTAATTTTTGGAAAAATT-AGGGTT-AAAATGGAATTTTTGGAATTTTA
1 GGGTAAAATGGTAATTTTTGG-AAAATTCAGGGTTAAAAATAGAATTTTTGAAAGTTTA
* * * * *
17077359 GGGGTAAGATGGTAATTTTTGGAAAAATCAGGGTCAAGAATAGAATTTTAGAAAGTTTGA
1 -GGGTAAAATGGTAATTTTTGGAAAATTCAGGGTTAAAAATAGAATTTTTGAAAGTTT-A
17077419 GGGTAAAAAT-GTAATTTTTGGAAAA
1 GGGT-AAAATGGTAATTTTTGGAAAA
17077444 ATTGAGGTAA
Statistics
Matches: 119, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
57 25 0.21
58 47 0.39
59 39 0.33
60 8 0.07
ACGTcount: A:0.38, C:0.01, G:0.26, T:0.35
Consensus pattern (58 bp):
GGGTAAAATGGTAATTTTTGGAAAATTCAGGGTTAAAAATAGAATTTTTGAAAGTTTA
Found at i:17077325 original size:29 final size:29
Alignment explanation
Indices: 17077244--17077442 Score: 144
Period size: 29 Copynumber: 6.8 Consensus size: 29
17077234 GGACATCCGG
* * *
17077244 GGGTAAAATGATGATTTTT-GAAAGTTTCG
1 GGGTAAAATGGTAATTTTTGGAAAGTTT-A
*
17077273 GGGTTAAAAATAG-AATTTTT-GAAAGTTTA
1 GGG-T-AAAATGGTAATTTTTGGAAAGTTTA
**
17077302 GGGTAAAATGGTAATTTTTGGAAAAATTA
1 GGGTAAAATGGTAATTTTTGGAAAGTTTA
*
17077331 GGGTTAAAATGG-AATTTTTGG-AATTTTA
1 GGG-TAAAATGGTAATTTTTGGAAAGTTTA
* ** *
17077359 GGGGTAAGATGGTAATTTTTGGAAAAATCA
1 -GGGTAAAATGGTAATTTTTGGAAAGTTTA
* *
17077389 GGGTCAAGAATAG-AA-TTTTAGAAAGTTTGA
1 GGGT-AA-AATGGTAATTTTTGGAAAGTTT-A
17077419 GGGTAAAAAT-GTAATTTTTGGAAA
1 GGGT-AAAATGGTAATTTTTGGAAA
17077443 AATTGAGGTA
Statistics
Matches: 136, Mismatches: 21, Indels: 25
0.75 0.12 0.14
Matches are distributed among these distances:
27 6 0.04
28 21 0.15
29 55 0.40
30 46 0.34
31 8 0.06
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.35
Consensus pattern (29 bp):
GGGTAAAATGGTAATTTTTGGAAAGTTTA
Found at i:17077341 original size:30 final size:30
Alignment explanation
Indices: 17077273--17077465 Score: 145
Period size: 29 Copynumber: 6.6 Consensus size: 30
17077263 GAAAGTTTCG
* **
17077273 GGGTTAAAAATAG-AATTTTT-GAAAGTTTA
1 GGGTT-AAAATGGTAATTTTTGGAAAAATTA
17077302 GGG-TAAAATGGTAATTTTTGGAAAAATTA
1 GGGTTAAAATGGTAATTTTTGGAAAAATTA
**
17077331 GGGTTAAAATGG-AATTTTTGG-AATTTTA
1 GGGTTAAAATGGTAATTTTTGGAAAAATTA
* * *
17077359 GGGGTAAGATGGTAATTTTTGGAAAAATCA
1 GGGTTAAAATGGTAATTTTTGGAAAAATTA
* * * **
17077389 GGGTCAAGAATAG-AA-TTTTAGAAAGTTTGA
1 GGGTTAA-AATGGTAATTTTTGGAAAAATT-A
*
17077419 GGGTAAAAAT-GTAATTTTTGGAAAAATT-
1 GGGTTAAAATGGTAATTTTTGGAAAAATTA
*
17077447 GAGGTAAAAAT-GTAATTTT
1 G-GGTTAAAATGGTAATTTT
17077466 GAAAAGTTTG
Statistics
Matches: 132, Mismatches: 22, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
27 6 0.05
28 25 0.19
29 62 0.47
30 36 0.27
31 3 0.02
ACGTcount: A:0.39, C:0.01, G:0.24, T:0.35
Consensus pattern (30 bp):
GGGTTAAAATGGTAATTTTTGGAAAAATTA
Found at i:17077434 original size:59 final size:57
Alignment explanation
Indices: 17077279--17077445 Score: 228
Period size: 59 Copynumber: 2.9 Consensus size: 57
17077269 TTCGGGGTTA
* *
17077279 AAAATAGAATTTTTGAAAGTTTAGGGTAAAATGGTAATTTTTGGAAAAATTAGGGTT
1 AAAATAGAATTTTTGAAAGTTTAGGGTAAAATGGTAATTTTTGGAAAAATCAGGGTC
* * * *
17077336 AAAATGGAATTTTTGGAATTTTAGGGGTAAGATGGTAATTTTTGGAAAAATCAGGGTC
1 AAAATAGAATTTTTGAAAGTTTA-GGGTAAAATGGTAATTTTTGGAAAAATCAGGGTC
*
17077394 AAGAATAGAATTTTAGAAAGTTTGAGGGTAAAAAT-GTAATTTTTGGAAAAAT
1 AA-AATAGAATTTTTGAAAGTTT-AGGGT-AAAATGGTAATTTTTGGAAAAAT
17077446 TGAGGTAAAA
Statistics
Matches: 95, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
57 20 0.21
58 33 0.35
59 37 0.39
60 5 0.05
ACGTcount: A:0.40, C:0.01, G:0.24, T:0.35
Consensus pattern (57 bp):
AAAATAGAATTTTTGAAAGTTTAGGGTAAAATGGTAATTTTTGGAAAAATCAGGGTC
Found at i:17077485 original size:29 final size:29
Alignment explanation
Indices: 17077402--17077493 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 29
17077392 TCAAGAATAG
*
17077402 AATTTT-AGAAAGTTTGAGGGTAAAAATGT
1 AATTTTGA-AAAGTTTGGGGGTAAAAATGT
* *
17077431 AATTTTTGGAAAA-ATT-GAGGTAAAAATGT
1 AA-TTTT-GAAAAGTTTGGGGGTAAAAATGT
* *
17077460 AATTTTGAAAAGTTTGGGGGTCAAAATAT
1 AATTTTGAAAAGTTTGGGGGTAAAAATGT
17077489 AATTT
1 AATTT
17077494 CTAGACAGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
27 5 0.10
28 6 0.12
29 30 0.59
30 6 0.12
31 3 0.06
32 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.22, T:0.36
Consensus pattern (29 bp):
AATTTTGAAAAGTTTGGGGGTAAAAATGT
Found at i:17077492 original size:117 final size:116
Alignment explanation
Indices: 17077243--17077493 Score: 287
Period size: 117 Copynumber: 2.2 Consensus size: 116
17077233 TGGACATCCG
* ** * * * *
17077243 GGGGTAAAATGATGATTTTT-GAAAGTTTCGGGGTTAAAAATAGAATTTTTGAAAGTTTAGGGTA
1 GGGGTAAAATGATAATTTTTGGAAA-AATCAGGGTCAAGAATAGAATTTTAGAAAGTTTAGGGTA
* * *
17077307 AAATGGTAATTTTTGGAAAAATTAGGGTTAAAATGGAATTTTTGGAATTTTA
65 AAATGGTAATTTTTGGAAAAATTAGGGTAAAAATGGAATTTTTGAAAGTTTA
* *
17077359 GGGGTAAGATGGTAATTTTTGGAAAAATCAGGGTCAAGAATAGAATTTTAGAAAGTTTGAGGGTA
1 GGGGTAAAATGATAATTTTTGGAAAAATCAGGGTCAAGAATAGAATTTTAGAAAGTTT-AGGGT-
* *
17077424 AAAAT-GTAATTTTTGGAAAAATT-GAGGTAAAAATGTAA-TTTTGAAAAGTTTG
64 AAAATGGTAATTTTTGGAAAAATTAG-GGTAAAAATGGAATTTTTG-AAAGTTTA
17077476 GGGGTCAAAAT-ATAATTT
1 GGGGT-AAAATGATAATTT
17077494 CTAGACAGTT
Statistics
Matches: 113, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
116 50 0.44
117 54 0.48
118 9 0.08
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.35
Consensus pattern (116 bp):
GGGGTAAAATGATAATTTTTGGAAAAATCAGGGTCAAGAATAGAATTTTAGAAAGTTTAGGGTAA
AATGGTAATTTTTGGAAAAATTAGGGTAAAAATGGAATTTTTGAAAGTTTA
Found at i:17077493 original size:58 final size:56
Alignment explanation
Indices: 17077277--17077486 Score: 212
Period size: 58 Copynumber: 3.6 Consensus size: 56
17077267 GTTTCGGGGT
17077277 TAAAAATAGAATTTTTGAAAGTTT-AGGGTAAAATGGTAATTTTTGGAAAAATTAGGG
1 TAAAAAT-GAA-TTTTGAAAGTTTGAGGGTAAAATGGTAATTTTTGGAAAAATTAGGG
* * * * *
17077334 TTAAAATGGAATTTTTGGAA-TTTTAGGGGTAAGATGGTAATTTTTGGAAAAATCAGGG
1 TAAAAAT-GAA-TTTTGAAAGTTTGA-GGGTAAAATGGTAATTTTTGGAAAAATTAGGG
*
17077392 TCAAGAATAGAATTTTAGAAAGTTTGAGGGTAAAAAT-GTAATTTTTGGAAAAATT-GAGG
1 T-AAAAAT-GAATTTT-GAAAGTTTGAGGGT-AAAATGGTAATTTTTGGAAAAATTAG-GG
*
17077451 TAAAAATGTAATTTTGAAAAGTTTGGGGGTCAAAAT
1 TAAAAATG-AATTTTG-AAAGTTTGAGGGT-AAAAT
17077487 ATAATTTCTA
Statistics
Matches: 129, Mismatches: 15, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
56 3 0.02
57 20 0.16
58 64 0.50
59 34 0.26
60 8 0.06
ACGTcount: A:0.40, C:0.01, G:0.24, T:0.34
Consensus pattern (56 bp):
TAAAAATGAATTTTGAAAGTTTGAGGGTAAAATGGTAATTTTTGGAAAAATTAGGG
Found at i:17078607 original size:3 final size:3
Alignment explanation
Indices: 17078601--17078682 Score: 67
Period size: 3 Copynumber: 27.0 Consensus size: 3
17078591 TCCTTTTTTT
* * *
17078601 TTA TTA TTA ATA TTA TTA TTAA TTA TTA -TA TTA TTA TTTA ATG TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA -TTA TTA TTA
* * * * *
17078647 TTA TTA CTA TTA ATG TTA TTA TGA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17078683 CTAATGATAT
Statistics
Matches: 60, Mismatches: 16, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
2 2 0.03
3 52 0.87
4 6 0.10
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:17078627 original size:19 final size:19
Alignment explanation
Indices: 17078603--17078660 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
17078593 CTTTTTTTTT
17078603 ATTATTAATATTATTATTA
1 ATTATTAATATTATTATTA
17078622 ATTATT-ATATTATTATTTA
1 ATTATTAATATTATTA-TTA
* * *
17078641 A-TGTTATTATTACTATTA
1 ATTATTAATATTATTATTA
17078659 AT
1 AT
17078661 GTTATTATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 16 0.48
19 17 0.52
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
ATTATTAATATTATTATTA
Found at i:17079371 original size:17 final size:17
Alignment explanation
Indices: 17079348--17079388 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
17079338 ATATTTTATT
*
17079348 ATTTAAATTTATAATAA
1 ATTTAAATTTAAAATAA
*
17079365 TTTTAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
17079382 ATTTAAA
1 ATTTAAA
17079389 ATGAGTTGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:17080916 original size:17 final size:17
Alignment explanation
Indices: 17080880--17080948 Score: 66
Period size: 19 Copynumber: 3.8 Consensus size: 17
17080870 ATACATATTG
*
17080880 TAAAAAACATTTAAATAAT
1 TAAAAAA-AATTAAA-AAT
17080899 TAAAAAAAATTAAAAAT
1 TAAAAAAAATTAAAAAT
*
17080916 TGCAAAAAAAATTAAAACT
1 T--AAAAAAAATTAAAAAT
**
17080935 TGTAAAAAATTAAA
1 TAAAAAAAATTAAA
17080949 TACATTAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
17 15 0.34
18 6 0.14
19 23 0.52
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.26
Consensus pattern (17 bp):
TAAAAAAAATTAAAAAT
Found at i:17080922 original size:19 final size:19
Alignment explanation
Indices: 17080900--17080943 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
17080890 TTAAATAATT
17080900 AAAAAAAATTAAAAATTGC
1 AAAAAAAATTAAAAATTGC
* *
17080919 AAAAAAAATTAAAACTTGT
1 AAAAAAAATTAAAAATTGC
17080938 AAAAAA
1 AAAAAA
17080944 TTAAATACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (19 bp):
AAAAAAAATTAAAAATTGC
Found at i:17080957 original size:17 final size:17
Alignment explanation
Indices: 17080921--17080964 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
17080911 AAAATTGCAA
*
17080921 AAAAAATTAAAACTTGT
1 AAAAAATTAAAACATGT
17080938 AAAAAATTAAATACAT-T
1 AAAAAATTAAA-ACATGT
*
17080955 AAATAATTAA
1 AAAAAATTAA
17080965 TAAATATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 21 0.88
18 3 0.12
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAAAATTAAAACATGT
Found at i:17081010 original size:10 final size:9
Alignment explanation
Indices: 17080997--17081069 Score: 56
Period size: 10 Copynumber: 7.4 Consensus size: 9
17080987 AAAATTGTAA
17080997 AAAAGTTATT
1 AAAA-TTATT
*
17081007 AAAATTTATA
1 AAAA-TTATT
17081017 AAACATTATTT
1 AAA-ATTA-TT
*
17081028 AAAATTTATA
1 AAAA-TTATT
17081038 AAAATTATT
1 AAAATTATT
* *
17081047 AACATTTTT
1 AAAATTATT
17081056 GAAAATTATT
1 -AAAATTATT
17081066 AAAA
1 AAAA
17081070 AATGGAAATG
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
9 15 0.30
10 27 0.54
11 8 0.16
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (9 bp):
AAAATTATT
Found at i:17081053 original size:19 final size:19
Alignment explanation
Indices: 17080976--17081069 Score: 102
Period size: 19 Copynumber: 4.8 Consensus size: 19
17080966 AAATATTGTT
17080976 TAAAATATT-TTAAAATTGTA
1 TAAAA-ATTATTAAAATT-TA
17080996 -AAAAAGTTATTAAAATTTA
1 TAAAAA-TTATTAAAATTTA
17081015 TAAAACATTATTTAAAATTTA
1 TAAAA-ATTA-TTAAAATTTA
* *
17081036 TAAAAATTATTAACATTTT
1 TAAAAATTATTAAAATTTA
*
17081055 TGAAAATTATTAAAA
1 TAAAAATTATTAAAA
17081070 AATGGAAATG
Statistics
Matches: 65, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
18 1 0.02
19 29 0.45
20 19 0.29
21 16 0.25
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (19 bp):
TAAAAATTATTAAAATTTA
Found at i:17081085 original size:20 final size:20
Alignment explanation
Indices: 17081059--17081111 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
17081049 CATTTTTGAA
17081059 AATTATTAAAAAATGGAAAT
1 AATTATTAAAAAATGGAAAT
* * *
17081079 GATTATTAAAAAGTGTAAAT
1 AATTATTAAAAAATGGAAAT
*
17081099 AATCATTAAAAAA
1 AATTATTAAAAAA
17081112 AGTATTAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.30
Consensus pattern (20 bp):
AATTATTAAAAAATGGAAAT
Found at i:17081120 original size:23 final size:22
Alignment explanation
Indices: 17081086--17081133 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
17081076 AATGATTATT
17081086 AAAAAGTGTAAATAA-TCATTAA
1 AAAAAGTGTAAA-AATTCATTAA
* *
17081108 AAAAAGTATTAAAAATTCTTTAA
1 AAAAAGT-GTAAAAATTCATTAA
17081131 AAA
1 AAA
17081134 TTGTGATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.29
Consensus pattern (22 bp):
AAAAAGTGTAAAAATTCATTAA
Found at i:17081376 original size:10 final size:10
Alignment explanation
Indices: 17081363--17081486 Score: 60
Period size: 10 Copynumber: 12.3 Consensus size: 10
17081353 AATTGTATAC
17081363 AATTTTTAAT
1 AATTTTTAAT
*
17081373 AATTTTTTA-
1 AATTTTTAAT
17081382 AATATTTTAA-
1 AAT-TTTTAAT
*
17081392 ATATTTTAAAT
1 A-ATTTTTAAT
*
17081403 ATTTTTTAA-
1 AATTTTTAAT
*
17081412 ATATTTTAAAT
1 A-ATTTTTAAT
* *
17081423 ATTTTTTTAT
1 AATTTTTAAT
*
17081433 AATTTTTTAT
1 AATTTTTAAT
*
17081443 AACTTCTTT-AC
1 AA-TT-TTTAAT
*
17081454 AA-TTTTAAA
1 AATTTTTAAT
*
17081463 ATATTTTTAAC
1 A-ATTTTTAAT
*
17081474 AATATTTAAT
1 AATTTTTAAT
17081484 AAT
1 AAT
17081487 CATTTACAAT
Statistics
Matches: 88, Mismatches: 16, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
8 3 0.03
9 7 0.08
10 59 0.67
11 16 0.18
12 3 0.03
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:17081389 original size:9 final size:9
Alignment explanation
Indices: 17081377--17081427 Score: 84
Period size: 9 Copynumber: 5.4 Consensus size: 9
17081367 TTTAATAATT
17081377 TTTTAAATA
1 TTTTAAATA
17081386 TTTTAAATA
1 TTTTAAATA
17081395 TTTTAAATA
1 TTTTAAATA
17081404 TTTTTTAAATA
1 --TTTTAAATA
17081415 TTTTAAATA
1 TTTTAAATA
17081424 TTTT
1 TTTT
17081428 TTTATAATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
9 31 0.77
11 9 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTAAATA
Found at i:17081399 original size:29 final size:30
Alignment explanation
Indices: 17081364--17081441 Score: 122
Period size: 29 Copynumber: 2.6 Consensus size: 30
17081354 ATTGTATACA
17081364 ATTTTTAATAATTTTTTAAATATTTTAAAT
1 ATTTTTAATAATTTTTTAAATATTTTAAAT
*
17081394 ATTTTAAAT-ATTTTTTAAATATTTTAAAT
1 ATTTTTAATAATTTTTTAAATATTTTAAAT
*
17081423 ATTTTTTTATAATTTTTTA
1 A-TTTTTAATAATTTTTTA
17081442 TAACTTCTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 21 0.49
30 14 0.33
31 8 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (30 bp):
ATTTTTAATAATTTTTTAAATATTTTAAAT
Done.