Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 62 of 196
Found at i:17591232 original size:50 final size:50
Alignment explanation
Indices: 17591108--17591299 Score: 179
Period size: 50 Copynumber: 3.8 Consensus size: 50
17591098 GGTAAAAACA
* * * ** ** **
17591108 TGCCAAAGCCATGTCTCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAACTCAG
* * *
17591159 TGCCCATGCCATGTCCCAAACATGGTCTTAC-GGAGGACCTCTCAACTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGG-GGACCTCTCAACTCAG
* * * *
17591209 TGCCAACGCCATGTTCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAACTCAG
* * * *
17591259 TGCCCATGCCATGTCCCAGACATGGTCTTACAAGAGACCTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTC
17591300 CTTACCCAAA
Statistics
Matches: 116, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
50 85 0.73
51 31 0.27
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAACTCAG
Found at i:17591285 original size:100 final size:101
Alignment explanation
Indices: 17591108--17591289 Score: 287
Period size: 100 Copynumber: 1.8 Consensus size: 101
17591098 GGTAAAAACA
** * *
17591108 TGCCAAAGCCATGTCTCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATGCCATGT
1 TGCCAAAGCCATGTCTCAGACATGGTCTTACATGGGATCCTCTCATCTCGGTGCCCATGCCATGT
17591173 CCCAAACATGGTCTTACGGAGGACCTCTCAACTCAG
66 CCCAAACATGGTCTTACGGAGGACCTCTCAACTCAG
*
17591209 TGCCAACGCCATGT-TCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
1 TGCCAAAGCCATGTCT-CAGACATGGTCTTACATGGGATCCTCTCATCTCGGTGCCCATGCCATG
*
17591272 TCCCAGACATGGTCTTAC
65 TCCCAAACATGGTCTTAC
17591290 AAGAGACCTC
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 40 0.54
101 34 0.46
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.26
Consensus pattern (101 bp):
TGCCAAAGCCATGTCTCAGACATGGTCTTACATGGGATCCTCTCATCTCGGTGCCCATGCCATGT
CCCAAACATGGTCTTACGGAGGACCTCTCAACTCAG
Found at i:17592566 original size:28 final size:28
Alignment explanation
Indices: 17592534--17592587 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
17592524 ACACTGCATA
*
17592534 GGCCTTAGCCCAATATAGTAATAGTGTG
1 GGCCTTAGCCCAATATAGTAACAGTGTG
17592562 GGCCTTAGCCCAATATAGTAACAGTG
1 GGCCTTAGCCCAATATAGTAACAGTG
17592588 CAATGCAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (28 bp):
GGCCTTAGCCCAATATAGTAACAGTGTG
Found at i:17592981 original size:27 final size:27
Alignment explanation
Indices: 17592951--17593314 Score: 331
Period size: 27 Copynumber: 13.6 Consensus size: 27
17592941 GGGATATAAA
* *
17592951 AGTCATTTTACACTATGAGGGTATTTC
1 AGTCATTTTACCCTTTGAGGGTATTTC
*
17592978 AGTCATTTTACCCTTCGAGGGTATTT-
1 AGTCATTTTACCCTTTGAGGGTATTTC
* * * *
17593004 TGATCATTTTACCCTTTAAGCGTATTAC
1 AG-TCATTTTACCCTTTGAGGGTATTTC
17593032 -GATCATTTTA-CCTTTCGAGGGTATTTC
1 AG-TCATTTTACCCTTT-GAGGGTATTTC
* *
17593059 -GATCATTTTACCCTTCGAGGATATTTC
1 AG-TCATTTTACCCTTTGAGGGTATTTC
*
17593086 -GATCATTTTACCC-TTCAGGGGTATTTC
1 AG-TCATTTTACCCTTTGA-GGGTATTTC
* *
17593113 AGTCCTTTTACCCTATG-GAGGTATTTC
1 AGTCATTTTACCCTTTGAG-GGTATTTC
17593140 -GATCATTTTACCCTTTGAGGGTATTTC
1 AG-TCATTTTACCCTTTGAGGGTATTTC
* *
17593167 -GATCATTTTACCCTTTAAGGGTAATTC
1 AG-TCATTTTACCCTTTGAGGGTATTTC
*
17593194 AATCATTTTA-CCTTTCGAGGGTATTTC
1 AGTCATTTTACCCTTT-GAGGGTATTTC
* **
17593221 GGTCATTTTACCCTTCAAGGGTATTTC
1 AGTCATTTTACCCTTTGAGGGTATTTC
* *
17593248 ATTCA-TTTACCCTATGAGGGTATTTC
1 AGTCATTTTACCCTTTGAGGGTATTTC
* * *
17593274 GGTCA-TTTACCCATTAAGGGTGA-TTC
1 AGTCATTTTACCCTTTGAGGGT-ATTTC
17593300 AGTCATTTTACCCTT
1 AGTCATTTTACCCTT
17593315 CGGGGTAAGA
Statistics
Matches: 280, Mismatches: 42, Indels: 30
0.80 0.12 0.09
Matches are distributed among these distances:
26 56 0.20
27 213 0.76
28 11 0.04
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (27 bp):
AGTCATTTTACCCTTTGAGGGTATTTC
Found at i:17593065 original size:81 final size:79
Alignment explanation
Indices: 17592953--17593321 Score: 387
Period size: 81 Copynumber: 4.6 Consensus size: 79
17592943 GATATAAAAG
*
17592953 TCATTTTACACTAT-GAGGGTATTTC-AGTCATTTTACCCTTCGAGGGTATTTTGATCATTTTAC
1 TCATTTTAC-CTATCGAGGGTATTTCGA-TCATTTTACCCTTCGAGGGTATTTCGATCATTTTAC
*
17593016 CCTTTAAGCGTATTACGA
64 CCTTTAAGGGTATT-C-A
* *
17593034 TCATTTTACCTTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGATATTTCGATCATTTTACCC
1 TCATTTTACCTATCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCC
* *
17593099 TTCAGGGGTATTTCA
66 TTTAAGGGTA-TTCA
* * *
17593114 GTCCTTTTACCCTATGGA-GGTATTTCGATCATTTTACCCTTTGAGGGTATTTCGATCATTTTAC
1 -TCATTTTA-CCTATCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATCATTTTAC
17593178 CCTTTAAGGGTAATTCAA
64 CCTTTAAGGGT-ATTC-A
* * *
17593196 TCATTTTACCTTTCGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTC-ATTCA-TTTACC
1 TCATTTTACCTATCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGA-TCATTTTACC
* * *
17593259 CTATGAGGGTATTTCGG
65 CTTTAAGGGTA-TTC-A
* **
17593276 TCA-TTTACCCATTAAGGGTGA-TTC-AGTCATTTTACCCTTCG-GGGTA
1 TCATTTTACCTATCGAGGGT-ATTTCGA-TCATTTTACCCTTCGAGGGTA
17593322 AGACGGTTAT
Statistics
Matches: 247, Mismatches: 29, Indels: 27
0.82 0.10 0.09
Matches are distributed among these distances:
78 5 0.02
79 30 0.12
80 32 0.13
81 169 0.68
82 11 0.04
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.41
Consensus pattern (79 bp):
TCATTTTACCTATCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCC
TTTAAGGGTATTCA
Found at i:17593360 original size:27 final size:27
Alignment explanation
Indices: 17592969--17593361 Score: 307
Period size: 27 Copynumber: 14.7 Consensus size: 27
17592959 TACACTATGA
17592969 GGGTATTTC-AGTCATTTTACCCTTC-G
1 GGGTATTTCGA-TCATTTTACCCTTCAG
* * *
17592995 AGGGTATTTTGATCATTTTACCCTTTAA
1 -GGGTATTTCGATCATTTTACCCTTCAG
* * *
17593023 GCGTATTACGATCATTTTACCTTTC-G
1 GGGTATTTCGATCATTTTACCCTTCAG
17593049 AGGGTATTTCGATCATTTTACCCTTC-G
1 -GGGTATTTCGATCATTTTACCCTTCAG
*
17593076 AGGATATTTCGATCATTTTACCCTTCAG
1 -GGGTATTTCGATCATTTTACCCTTCAG
*
17593104 GGGTATTTC-AGTCCTTTTACCC-T-ATG
1 GGGTATTTCGA-TCATTTTACCCTTCA-G
*
17593130 GAGGTATTTCGATCATTTTACCCTT-TG
1 G-GGTATTTCGATCATTTTACCCTTCAG
* *
17593157 AGGGTATTTCGATCATTTTACCCTTTAA
1 -GGGTATTTCGATCATTTTACCCTTCAG
* * *
17593185 GGGTAATTCAATCATTTTACCTTTC-G
1 GGGTATTTCGATCATTTTACCCTTCAG
* *
17593211 AGGGTATTTCGGTCATTTTACCCTTCAA
1 -GGGTATTTCGATCATTTTACCCTTCAG
*
17593239 GGGTATTTC-ATTCA-TTTACCCTATGA-
1 GGGTATTTCGA-TCATTTTACCCT-TCAG
* *
17593265 GGGTATTTCGGTCA-TTTACCCATT-AA
1 GGGTATTTCGATCATTTTACCC-TTCAG
17593291 GGGTGA-TTC-AGTCATTTTACCCTTC-G
1 GGGT-ATTTCGA-TCATTTTACCCTTCAG
*** * *
17593317 GGGTAAGACGGTTATTTTACCCTTCAG
1 GGGTATTTCGATCATTTTACCCTTCAG
* *
17593344 GGGTAATTCAATCATTTT
1 GGGTATTTCGATCATTTT
17593362 TTGACCTCTC
Statistics
Matches: 298, Mismatches: 43, Indels: 50
0.76 0.11 0.13
Matches are distributed among these distances:
25 3 0.01
26 62 0.21
27 228 0.77
28 5 0.02
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (27 bp):
GGGTATTTCGATCATTTTACCCTTCAG
Found at i:17593361 original size:53 final size:54
Alignment explanation
Indices: 17592968--17593361 Score: 399
Period size: 54 Copynumber: 7.4 Consensus size: 54
17592958 TTACACTATG
* * * * *
17592968 AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTGATCATTTTACCCTTTA
1 AGGGTAATTCAATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCA
* * * * *
17593022 AGCGT-ATTACGATCATTTTACCTTTCGAGGGTATTTCGATCATTTTACCCTTCG
1 AGGGTAATT-CAATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCA
* * * * * **
17593076 AGGATATTTCGATCATTTTACCCTTC-AGGGGTATTTCAGTCCTTTTACCCTATGG
1 AGGGTAATTCAATCATTTTACCCTTCGA-GGGTATTTCGGTCATTTTACCCT-TCA
* * * * *
17593131 A-GGTATTTCGATCATTTTACCCTTTGAGGGTATTTCGATCATTTTACCCTTTA
1 AGGGTAATTCAATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCA
*
17593184 AGGGTAATTCAATCATTTTACCTTTCGAGGGTATTTCGGTCATTTTACCCTTCA
1 AGGGTAATTCAATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCA
* *
17593238 AGGGTATTTCATTCA-TTTACCCTAT-GAGGGTATTTCGGTCA-TTTACCCATT-A
1 AGGGTAATTCAATCATTTTACCCT-TCGAGGGTATTTCGGTCATTTTACCC-TTCA
* * *** *
17593290 AGGGTGATTCAGTCATTTTACCCTTCG-GGGTAAGACGGTTATTTTACCCTTCA
1 AGGGTAATTCAATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCA
*
17593343 GGGGTAATTCAATCATTTT
1 AGGGTAATTCAATCATTTT
17593362 TTGACCTCTC
Statistics
Matches: 286, Mismatches: 42, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
52 33 0.12
53 63 0.22
54 184 0.64
55 6 0.02
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (54 bp):
AGGGTAATTCAATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCA
Found at i:17596804 original size:25 final size:25
Alignment explanation
Indices: 17596771--17596828 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
17596761 GTTCTGACCC
*
17596771 ACAATTCGTGAGAGCATACCAATTT
1 ACAACTCGTGAGAGCATACCAATTT
* *
17596796 ACAACTCGTGTGAGCATACCGATTT
1 ACAACTCGTGAGAGCATACCAATTT
17596821 ACAACTCG
1 ACAACTCG
17596829 AATGAGCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (25 bp):
ACAACTCGTGAGAGCATACCAATTT
Found at i:17596834 original size:25 final size:25
Alignment explanation
Indices: 17596782--17596839 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
17596772 CAATTCGTGA
**
17596782 GAGCATACCAATTTACAACTCGTGT
1 GAGCATACCAATTTACAACTCGAAT
*
17596807 GAGCATACCGATTTACAACTCGAAT
1 GAGCATACCAATTTACAACTCGAAT
17596832 GAGCATAC
1 GAGCATAC
17596840 ATCTATAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (25 bp):
GAGCATACCAATTTACAACTCGAAT
Found at i:17602839 original size:32 final size:32
Alignment explanation
Indices: 17602778--17602842 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
17602768 CAGACGAGTA
* **
17602778 GTCTAAGCCTTTTCTTTATCTGACCTTTCAGG
1 GTCTAAGCCTTTTCTTTATCTAAAATTTCAGG
*
17602810 GTCTGAGCCTTTTCTTTATCTAAAATTTCAGG
1 GTCTAAGCCTTTTCTTTATCTAAAATTTCAGG
17602842 G
1 G
17602843 CAATCTCTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.43
Consensus pattern (32 bp):
GTCTAAGCCTTTTCTTTATCTAAAATTTCAGG
Found at i:17614256 original size:25 final size:26
Alignment explanation
Indices: 17614221--17614275 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 26
17614211 TATTTTCTCG
*
17614221 AAATTTGACTAGGGGTAAAATTGTC-
1 AAATTTGACTAGGGGTAAAATCGTCT
*
17614246 AAATTTTACTAGGGGTAAAATCGTCT
1 AAATTTGACTAGGGGTAAAATCGTCT
17614272 AAAT
1 AAAT
17614276 ATAGAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (26 bp):
AAATTTGACTAGGGGTAAAATCGTCT
Found at i:17615858 original size:29 final size:30
Alignment explanation
Indices: 17615825--17615881 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
17615815 ACATAGAGTG
17615825 AGAAT-AAATTCTTAGTAAGTTCATGTGTA
1 AGAATAAAATTCTTAGTAAGTTCATGTGTA
17615854 AGAATAAAATTCTTAGTAAGTTCATGTG
1 AGAATAAAATTCTTAGTAAGTTCATGTG
17615882 ATGTAAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.37
Consensus pattern (30 bp):
AGAATAAAATTCTTAGTAAGTTCATGTGTA
Found at i:17617446 original size:25 final size:24
Alignment explanation
Indices: 17617391--17617447 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
17617381 TGTGAGAGCT
* ***
17617391 TACCGATTTCAGCTCATATGAGGT
1 TACCGATTTCAGCTCATAAGACCA
*
17617415 TATCGATTTACAGCTCATAAGACCA
1 TACCGATTT-CAGCTCATAAGACCA
17617440 TACCGATT
1 TACCGATT
17617448 CATAGCTCGT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.32
Consensus pattern (24 bp):
TACCGATTTCAGCTCATAAGACCA
Found at i:17621850 original size:24 final size:24
Alignment explanation
Indices: 17621817--17621872 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
17621807 TAAAATTGCC
17621817 AAAGCATGTCATGCACATATGAGA
1 AAAGCATGTCATGCACATATGAGA
* *
17621841 TAAGCATGTCTTGCACATATGAGA
1 AAAGCATGTCATGCACATATGAGA
17621865 AAAGCATG
1 AAAGCATG
17621873 CCATATAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.23
Consensus pattern (24 bp):
AAAGCATGTCATGCACATATGAGA
Found at i:17635427 original size:17 final size:17
Alignment explanation
Indices: 17635401--17635464 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 17
17635391 GGCAACCCAA
17635401 TTTTTA-TTTTTATTAT
1 TTTTTATTTTTTATTAT
*
17635417 TTTTTATTTTTTCTTTACT
1 TTTTTATTTTTT-ATTA-T
*
17635436 TTATTTATTACTTTATT-T
1 TT-TTTATT-TTTTATTAT
17635454 TATTTTATTTT
1 T-TTTTATTTT
17635465 ACTTATTTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
16 6 0.16
17 6 0.16
18 11 0.29
19 4 0.11
20 8 0.21
21 3 0.08
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTATTTTTTATTAT
Found at i:17635443 original size:27 final size:25
Alignment explanation
Indices: 17635409--17635472 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 25
17635399 AATTTTTATT
*
17635409 TTTATTATTTTTTATTTTTTCTTTAC
1 TTTATTATTTTTTATTTTAT-TTTAC
* *
17635435 TTTATTTATTACTTTATTTTATTTTAT
1 TTTA-TTATT-TTTTATTTTATTTTAC
17635462 TTTACTTATTT
1 TTTA-TTATTT
17635473 GGATATTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
26 4 0.13
27 18 0.58
28 9 0.29
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTATTATTTTTTATTTTATTTTAC
Found at i:17635762 original size:21 final size:22
Alignment explanation
Indices: 17635724--17635781 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
17635714 ACTCTTCGTT
*
17635724 ATTTT-ATCATTTTCTGCTG-TG
1 ATTTTGATTATTTT-TGCTGTTG
17635745 ATTTTGATTATTTTTGCTGTTG
1 ATTTTGATTATTTTTGCTGTTG
*
17635767 -TTGTGATTATTTTTG
1 ATTTTGATTATTTTTG
17635782 GCTGGTGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 24 0.73
22 9 0.27
ACGTcount: A:0.14, C:0.07, G:0.17, T:0.62
Consensus pattern (22 bp):
ATTTTGATTATTTTTGCTGTTG
Found at i:17635785 original size:22 final size:21
Alignment explanation
Indices: 17635732--17635791 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
17635722 TTATTTTATC
*
17635732 ATTTTCTGCT-GTGATTTTGATT
1 ATTTT-TGCTGGTG-TTGTGATT
*
17635754 ATTTTTGCTGTTGTTGTGATT
1 ATTTTTGCTGGTGTTGTGATT
17635775 ATTTTTGGCTGGTGTTG
1 ATTTTT-GCTGGTGTTG
17635792 CTTCTTGAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 17 0.52
22 16 0.48
ACGTcount: A:0.10, C:0.07, G:0.25, T:0.58
Consensus pattern (21 bp):
ATTTTTGCTGGTGTTGTGATT
Found at i:17638691 original size:13 final size:13
Alignment explanation
Indices: 17638673--17638705 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
17638663 GTCGTATAAT
*
17638673 AATTTTGTTGAGA
1 AATTTTGTTAAGA
17638686 AATTTTGTTAAGA
1 AATTTTGTTAAGA
17638699 AATTTTG
1 AATTTTG
17638706 ACGTTTGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (13 bp):
AATTTTGTTAAGA
Found at i:17647364 original size:38 final size:38
Alignment explanation
Indices: 17647300--17647387 Score: 140
Period size: 38 Copynumber: 2.3 Consensus size: 38
17647290 AAAACCATCA
*
17647300 AAAATTAAAAATGTCCAATGTCCAAGTCCAATTACAACC
1 AAAATT-AAATTGTCCAATGTCCAAGTCCAATTACAACC
* *
17647339 AAAATTAAATTGTCCGATGTTCAAGTCCAATTACAACC
1 AAAATTAAATTGTCCAATGTCCAAGTCCAATTACAACC
17647377 AAAATTAAATT
1 AAAATTAAATT
17647388 AAGTCTCGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 40 0.87
39 6 0.13
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.27
Consensus pattern (38 bp):
AAAATTAAATTGTCCAATGTCCAAGTCCAATTACAACC
Found at i:17649354 original size:15 final size:15
Alignment explanation
Indices: 17649331--17649360 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17649321 TTATCATTAT
*
17649331 TCATTAAAATTAAGA
1 TCATAAAAATTAAGA
17649346 TCATAAAAATTAAGA
1 TCATAAAAATTAAGA
17649361 GTTTATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (15 bp):
TCATAAAAATTAAGA
Found at i:17662121 original size:17 final size:17
Alignment explanation
Indices: 17662099--17662148 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
17662089 TCTCAGATTT
17662099 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
*
17662116 TGATACCTATATCTTTC
1 TGATACCCATATCTTTC
17662133 TGATACCCATATCTTT
1 TGATACCCATATCTTT
17662149 GACTTTCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.24, C:0.26, G:0.06, T:0.44
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:17663237 original size:11 final size:11
Alignment explanation
Indices: 17663221--17663252 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
17663211 CTTAGATGCT
17663221 ATCAACATATC
1 ATCAACATATC
17663232 ATCAACATATC
1 ATCAACATATC
17663243 ATCAACATAT
1 ATCAACATAT
17663253 AGGAGCAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (11 bp):
ATCAACATATC
Found at i:17666754 original size:17 final size:17
Alignment explanation
Indices: 17666732--17666781 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
17666722 TCTCAAATTT
17666732 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
**
17666749 TGATACTTATATCTTTC
1 TGATACCCATATCTTTC
17666766 TGATACCCATATCTTT
1 TGATACCCATATCTTT
17666782 GACTTTCTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.46
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:17668281 original size:19 final size:21
Alignment explanation
Indices: 17668237--17668281 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 21
17668227 TTACCCAAAA
* *
17668237 CTCCCAAACTTCTTTACTTTC
1 CTCCCAAAATTCTTTACTTCC
17668258 C-CCCAAAATT-TTTAC-TCC
1 CTCCCAAAATTCTTTACTTCC
17668276 CTCCCA
1 CTCCCA
17668282 CTTTTCCCGC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
18 3 0.14
19 9 0.43
20 8 0.38
21 1 0.05
ACGTcount: A:0.22, C:0.42, G:0.00, T:0.36
Consensus pattern (21 bp):
CTCCCAAAATTCTTTACTTCC
Found at i:17668295 original size:30 final size:31
Alignment explanation
Indices: 17668254--17668312 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
17668244 ACTTCTTTAC
*
17668254 TTTCCCCCAAAATTTTTACTCC-CTCCCACT
1 TTTCCCCCAAAACTTTTACTCCACTCCCACT
* *
17668284 TTTCCCGCAAAACTTTTATTCCACTCCCA
1 TTTCCCCCAAAACTTTTACTCCACTCCCA
17668313 TCCCACCCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.22, C:0.41, G:0.02, T:0.36
Consensus pattern (31 bp):
TTTCCCCCAAAACTTTTACTCCACTCCCACT
Found at i:17681541 original size:27 final size:28
Alignment explanation
Indices: 17681499--17681553 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
17681489 AGATGTAGGA
*
17681499 AAAAGTGATTTGACCATGGACATTGAGG
1 AAAAGTGAGTTGACCATGGACATTGAGG
17681527 AAAAG-GAGTTGACCATGGACATTGAGG
1 AAAAGTGAGTTGACCATGGACATTGAGG
17681554 GGAATATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.36, C:0.11, G:0.31, T:0.22
Consensus pattern (28 bp):
AAAAGTGAGTTGACCATGGACATTGAGG
Found at i:17690946 original size:10 final size:10
Alignment explanation
Indices: 17690931--17691003 Score: 58
Period size: 10 Copynumber: 7.0 Consensus size: 10
17690921 ATGACCATGT
17690931 TTAATTTTAA
1 TTAATTTTAA
17690941 TTAATTTTATA
1 TTAATTTTA-A
* *
17690952 TAAAATTTTGA
1 T-TAATTTTAA
17690963 TTAATTTTATA
1 TTAATTTTA-A
* *
17690974 TAAAATTTTGA
1 T-TAATTTTAA
*
17690985 TTAATTTTGA
1 TTAATTTTAA
17690995 TT-ATTTTAA
1 TTAATTTTAA
17691004 ACAAATTTGT
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
9 6 0.12
10 25 0.49
11 8 0.16
12 12 0.24
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:17690958 original size:22 final size:22
Alignment explanation
Indices: 17690933--17690992 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
17690923 GACCATGTTT
*
17690933 AATTTTAATTAATTTTATATAA
1 AATTTTGATTAATTTTATATAA
17690955 AATTTTGATTAATTTTATATAA
1 AATTTTGATTAATTTTATATAA
17690977 AATTTTGATTAATTTT
1 AATTTTGATTAATTTT
17690993 GATTATTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (22 bp):
AATTTTGATTAATTTTATATAA
Found at i:17690960 original size:12 final size:12
Alignment explanation
Indices: 17690943--17690982 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
17690933 AATTTTAATT
17690943 AATTTTATATAA
1 AATTTTATATAA
17690955 AATTTTGAT-T--
1 AATTTT-ATATAA
17690965 AATTTTATATAA
1 AATTTTATATAA
17690977 AATTTT
1 AATTTT
17690983 GATTAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
9 2 0.08
10 7 0.29
12 13 0.54
13 2 0.08
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (12 bp):
AATTTTATATAA
Found at i:17693656 original size:27 final size:27
Alignment explanation
Indices: 17693636--17693941 Score: 375
Period size: 27 Copynumber: 11.3 Consensus size: 27
17693626 GGTATAACAA
* **
17693636 TCATTTTACCCTTCGAAGGTATTTTGG
1 TCATTTTACCCTTCGAGGGTATTTCAG
*
17693663 TCATTTTACCCTTCGAAGGTATTTCAG
1 TCATTTTACCCTTCGAGGGTATTTCAG
* *
17693690 TCATTTTAACCTTCGAGGGTATTTCAA
1 TCATTTTACCCTTCGAGGGTATTTCAG
*
17693717 TCATTTTACCCTTC-AGGGATATTTCAA
1 TCATTTTACCCTTCGAGGG-TATTTCAG
* **
17693744 TCATTTTACCCTTCGGGGGTATTTTGG
1 TCATTTTACCCTTCGAGGGTATTTCAG
* *
17693771 TTATTTTACCCTTCGGGGGTATTTC-G
1 TCATTTTACCCTTCGAGGGTATTTCAG
*
17693797 ATCATTTTACCCTTCGAGGGTATTTTAG
1 -TCATTTTACCCTTCGAGGGTATTTCAG
* * *
17693825 TTATTTTACCCTTCAAGGGTATTT-TG
1 TCATTTTACCCTTCGAGGGTATTTCAG
17693851 ATCATTTTACCCTTCGAGGGTATTTCAG
1 -TCATTTTACCCTTCGAGGGTATTTCAG
*
17693879 TCATTTTACCCTTTGAGGGTATTTCAG
1 TCATTTTACCCTTCGAGGGTATTTCAG
**
17693906 TCATTTTACCCTTTAAGGGGTATTTCAG
1 TCATTTTACCCTTCGA-GGGTATTTCAG
*
17693934 TTATTTTA
1 TCATTTTA
17693942 GGCCCAGTAC
Statistics
Matches: 248, Mismatches: 24, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
26 6 0.02
27 219 0.88
28 23 0.09
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTCAG
Found at i:17696559 original size:39 final size:39
Alignment explanation
Indices: 17696516--17696614 Score: 144
Period size: 39 Copynumber: 2.5 Consensus size: 39
17696506 CACGTTCACT
*
17696516 TTTAAGCATATATCACATTACACATATAATCACATAAAA
1 TTTAAGCATATATCACAATACACATATAATCACATAAAA
* * * *
17696555 TTTAAGCATATATAACAATACTCATATATTCACATAACA
1 TTTAAGCATATATCACAATACACATATAATCACATAAAA
*
17696594 TTCAAGCATATATCACAATAC
1 TTTAAGCATATATCACAATAC
17696615 TTAAAAACAT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.31
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACACATATAATCACATAAAA
Found at i:17700532 original size:24 final size:24
Alignment explanation
Indices: 17700505--17700552 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
17700495 CATTTAGAGA
17700505 ATTATGTGTTTACGTTTAAAGGGT
1 ATTATGTGTTTACGTTTAAAGGGT
17700529 ATTATGTGTTTACGTTTAAAGGGT
1 ATTATGTGTTTACGTTTAAAGGGT
17700553 TCTTTGTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.04, G:0.25, T:0.46
Consensus pattern (24 bp):
ATTATGTGTTTACGTTTAAAGGGT
Found at i:17703056 original size:42 final size:42
Alignment explanation
Indices: 17702963--17703056 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 42
17702953 CCATCGAACA
*
17702963 AATCAAATCAAATATAATGACACATAAGTGCATCATCGGAAG
1 AATCAAAGCAAATATAATGACACATAAGTGCATCATCGGAAG
* * * *
17703005 AACCTAAGCAAATATATTAGA-ACATAAGTGCATCATCGGATG
1 AATCAAAGCAAATATAAT-GACACATAAGTGCATCATCGGAAG
17703047 AATCAAAGCA
1 AATCAAAGCA
17703057 TAAACCCACG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 42 0.95
43 2 0.05
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.21
Consensus pattern (42 bp):
AATCAAAGCAAATATAATGACACATAAGTGCATCATCGGAAG
Found at i:17719251 original size:15 final size:15
Alignment explanation
Indices: 17719233--17719261 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17719223 TATAAAAAAT
17719233 ATTTTTATAATTTTA
1 ATTTTTATAATTTTA
17719248 ATTTTTATAATTTT
1 ATTTTTATAATTTT
17719262 CTTAAATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTATAATTTTA
Found at i:17728414 original size:22 final size:23
Alignment explanation
Indices: 17728386--17728428 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
17728376 GGCCCATTTT
17728386 TATTTTAAAAAT-TTTAAAAAAG
1 TATTTTAAAAATATTTAAAAAAG
*
17728408 TATTTTAAAAATATTTTAAAA
1 TATTTTAAAAATATTTAAAAA
17728429 TTAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
TATTTTAAAAATATTTAAAAAAG
Found at i:17728476 original size:41 final size:39
Alignment explanation
Indices: 17728390--17728519 Score: 188
Period size: 40 Copynumber: 3.3 Consensus size: 39
17728380 CATTTTTATT
**
17728390 TTAAAAATTTTAAAAAAGTATTTTAAAAATATTTTAAAA
1 TTAAAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAA
17728429 TTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA
1 TTAAAAAAATT-AAAAAAGTATTTTAAAAATATTTTAAAA
* *
17728469 TTAAAAAAAATTAAAAAAGTATGTAAAAAATATTTTAAAA
1 TT-AAAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAA
*
17728509 TTTTAAAAAAT
1 -TTAAAAAAAT
17728520 AAATATATTT
Statistics
Matches: 83, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
39 9 0.11
40 63 0.76
41 11 0.13
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (39 bp):
TTAAAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAA
Found at i:17740120 original size:68 final size:67
Alignment explanation
Indices: 17739985--17740123 Score: 170
Period size: 68 Copynumber: 2.1 Consensus size: 67
17739975 GGAGTTCAGT
* ** * * *
17739985 AGGACATTAAGCACGGGTTCATATGTGTAAGACCATAGCTAGGCTATGGCAACATATAGAGTTTG
1 AGGACATTAAACACGGGTTCATATAAGTAAGACCATAGCTAGGCTATGGCAACAGATAAAGTCTG
17740050 CC
66 CC
* * * * *
17740052 AGGACATTAAACATGGGTTCATACTAAGTAAGACCATATCTGGGCTATGGTATCAGATAAAGTCT
1 AGGACATTAAACACGGGTTCATA-TAAGTAAGACCATAGCTAGGCTATGGCAACAGATAAAGTCT
17740117 GCC
65 GCC
17740120 AGGA
1 AGGA
17740124 TGATGAACTA
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
67 21 0.35
68 39 0.65
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (67 bp):
AGGACATTAAACACGGGTTCATATAAGTAAGACCATAGCTAGGCTATGGCAACAGATAAAGTCTG
CC
Found at i:17742591 original size:77 final size:81
Alignment explanation
Indices: 17742440--17742601 Score: 208
Period size: 77 Copynumber: 2.0 Consensus size: 81
17742430 TCTTCACGTG
*
17742440 AGTTTTGAGAAGAAATTGGCAAATTGTCCATTTGAGTCCTTGGTCTGTAGTGCCTTACTTTCATT
1 AGTTTTGAGAAGAAATTGGC--ATTGTCCATTTGAGTCCTTGGTCTGCAGTGCCTTACTTTCATT
*
17742505 AATTCTTGATATTCAATT
64 AATTATTGATATTCAATT
** * *
17742523 AGTTTTGAGAAGAAATT-GC-TT-T-CATTTGAGTTTTTGGTCTGCAGTGCCTTGCTTTTATT-A
1 AGTTTTGAGAAGAAATTGGCATTGTCCATTTGAGTCCTTGGTCTGCAGTGCCTTACTTTCATTAA
17742583 TATATTGATATTCAATT
66 T-TATTGATATTCAATT
17742600 AG
1 AG
17742602 GTAGGGGGTG
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
76 2 0.03
77 48 0.67
78 1 0.01
79 2 0.03
82 2 0.03
83 17 0.24
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (81 bp):
AGTTTTGAGAAGAAATTGGCATTGTCCATTTGAGTCCTTGGTCTGCAGTGCCTTACTTTCATTAA
TTATTGATATTCAATT
Found at i:17743079 original size:12 final size:12
Alignment explanation
Indices: 17743062--17743094 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
17743052 GCGAGTGCTT
17743062 GGCCGTGTG-GTA
1 GGCCGTGTGCG-A
17743074 GGCCGTGTGCGA
1 GGCCGTGTGCGA
17743086 GGCCGTGTG
1 GGCCGTGTG
17743095 TCACACATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 19 0.95
13 1 0.05
ACGTcount: A:0.06, C:0.21, G:0.52, T:0.21
Consensus pattern (12 bp):
GGCCGTGTGCGA
Found at i:17749137 original size:120 final size:120
Alignment explanation
Indices: 17748953--17749250 Score: 560
Period size: 120 Copynumber: 2.5 Consensus size: 120
17748943 TTCTTTTTAC
** *
17748953 ATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTGTATTAAATTATATATTTTTA
1 ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTA
17749018 TTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATT
66 TTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATT
17749073 ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTA
1 ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTA
17749138 TTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATT
66 TTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATT
*
17749193 ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAACTTTATTAAATTATAT
1 ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATAT
17749251 TTAATAATAA
Statistics
Matches: 174, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 174 1.00
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (120 bp):
ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTA
TTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATT
Found at i:17749187 original size:59 final size:59
Alignment explanation
Indices: 17749004--17749192 Score: 213
Period size: 59 Copynumber: 3.2 Consensus size: 59
17748994 ATTGTATTAA
17749004 ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGT
1 ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGT
* * ** ** * * * * *
17749063 ATTATATATTATGATTTTAGAAAATTCATATAAGAA-TAT-TTAATATTAAGAATTTTATTA-A
1 ATTATATATTTTTATTAAATTATATTTA-ATAATAATTATGTTAA-ATT-A-TATTTTA-TAGT
17749124 ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGT
1 ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGT
17749183 ATTATATATT
1 ATTATATATT
17749193 ATGATTTTAG
Statistics
Matches: 100, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
58 6 0.06
59 42 0.42
60 14 0.14
61 32 0.32
62 6 0.06
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (59 bp):
ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGT
Found at i:17749508 original size:16 final size:16
Alignment explanation
Indices: 17749483--17749547 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
17749473 TTGATTTGCT
17749483 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
17749499 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
* *
17749515 ATTACGCCTTTATTTC
1 ATTACGCCTCTATTCC
17749531 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
17749547 A
1 A
17749548 ATACAGCGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.22, C:0.34, G:0.05, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:17751541 original size:22 final size:21
Alignment explanation
Indices: 17751491--17751533 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
17751481 ATAACGGGGG
*
17751491 TTAGTGAAAGGAACACCAAAA
1 TTAGTGAAAAGAACACCAAAA
17751512 TTAGTGAAAAGAACACCAAAA
1 TTAGTGAAAAGAACACCAAAA
17751533 T
1 T
17751534 AATATGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.53, C:0.14, G:0.16, T:0.16
Consensus pattern (21 bp):
TTAGTGAAAAGAACACCAAAA
Found at i:17758908 original size:50 final size:50
Alignment explanation
Indices: 17758828--17758998 Score: 136
Period size: 50 Copynumber: 3.4 Consensus size: 50
17758818 AGGTCCCACG
* * * **
17758828 TAAGACCATGCCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCCA-A
1 TAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAACT-CCCATA
* * *
17758878 TAAGACCATGTCTGGGACATAGG-ATGGGCACCGATATGAGAACTCCCATG
1 TAAGACCATGTCTGGGACAT-GGCATGGGCACCAAGATGAGAACTCCCATA
* * * ** *
17758928 TAAGACCATATCTGGGATATGGCATTGGCAGTACAG--GA-AACATCCCATG
1 TAAGACCATGTCTGGGACATGGCATGGGCACCA-AGATGAGAAC-TCCCATA
*
17758977 TAAGACTATGTCTGGGACATGG
1 TAAGACCATGTCTGGGACATGG
17758999 ATTTGGCATG
Statistics
Matches: 98, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
48 3 0.03
49 34 0.35
50 58 0.59
51 3 0.03
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.20
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAACTCCCATA
Found at i:17759205 original size:13 final size:13
Alignment explanation
Indices: 17759187--17759218 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
17759177 AGGGAGAAGA
17759187 AGTTATAATCATG
1 AGTTATAATCATG
17759200 AGTTATAATCATG
1 AGTTATAATCATG
17759213 AGTTAT
1 AGTTAT
17759219 TTAAGTAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.41
Consensus pattern (13 bp):
AGTTATAATCATG
Found at i:17759246 original size:20 final size:20
Alignment explanation
Indices: 17759221--17759269 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
17759211 TGAGTTATTT
17759221 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
17759241 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
17759261 AAG-AAGCAA
1 AAGTAAGCAA
17759270 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:17769773 original size:23 final size:23
Alignment explanation
Indices: 17769743--17769799 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
17769733 GCGATTTATC
17769743 GCATTTTTACTGCCAGCTTGTCT
1 GCATTTTTACTGCCAGCTTGTCT
* *
17769766 GCATTTTTACTGGCAGTTTGTCT
1 GCATTTTTACTGCCAGCTTGTCT
*
17769789 GAATTTTTACT
1 GCATTTTTACT
17769800 AGCATAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.16, C:0.19, G:0.18, T:0.47
Consensus pattern (23 bp):
GCATTTTTACTGCCAGCTTGTCT
Found at i:17777965 original size:8 final size:8
Alignment explanation
Indices: 17777919--17777946 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
17777909 ATTATATGGT
17777919 TTGCGAGA
1 TTGCGAGA
17777927 TTGCGAGA
1 TTGCGAGA
17777935 TTGCGAGA
1 TTGCGAGA
17777943 TTGC
1 TTGC
17777947 TTGTCGTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.21, C:0.14, G:0.36, T:0.29
Consensus pattern (8 bp):
TTGCGAGA
Found at i:17783535 original size:48 final size:49
Alignment explanation
Indices: 17783440--17783542 Score: 154
Period size: 48 Copynumber: 2.1 Consensus size: 49
17783430 AGATAAAAAC
* * * *
17783440 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACATTTTATA
1 AAATTAAAATTAAGTTTAACATCATGAATCAAAAGCTCAACACTTTATA
*
17783489 AAATTAAAATTAAG-TTAACATCATGAATCAAAAGCTCAACGCTTTATA
1 AAATTAAAATTAAGTTTAACATCATGAATCAAAAGCTCAACACTTTATA
17783537 AAATTA
1 AAATTA
17783543 TAACACATGA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 35 0.71
49 14 0.29
ACGTcount: A:0.50, C:0.10, G:0.09, T:0.32
Consensus pattern (49 bp):
AAATTAAAATTAAGTTTAACATCATGAATCAAAAGCTCAACACTTTATA
Found at i:17786848 original size:44 final size:45
Alignment explanation
Indices: 17786800--17786916 Score: 127
Period size: 44 Copynumber: 2.6 Consensus size: 45
17786790 TCATGGTGAA
17786800 TAAATAAAAACAGGGAAAGTTTAACATAA-GTAGTCATTGACAAC
1 TAAATAAAAACAGGGAAAGTTTAACATAATGTAGTCATTGACAAC
** * * *
17786844 TAAAT-TTAACA---TAAGTTTAACATATGTATTTAGTCATTGATAAC
1 TAAATAAAAACAGGGAAAGTTTAACATA---ATGTAGTCATTGACAAC
17786888 TAAATAAAAACAGGGAAAGTTTAACATAA
1 TAAATAAAAACAGGGAAAGTTTAACATAA
17786917 ATTTAACATA
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
40 12 0.21
43 5 0.09
44 23 0.40
45 5 0.09
48 12 0.21
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.29
Consensus pattern (45 bp):
TAAATAAAAACAGGGAAAGTTTAACATAATGTAGTCATTGACAAC
Found at i:17804919 original size:7 final size:7
Alignment explanation
Indices: 17804907--17804945 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
17804897 ACTTTTTCAA
17804907 TCATCCC
1 TCATCCC
17804914 TCATCCC
1 TCATCCC
17804921 TCATCCC
1 TCATCCC
17804928 TCATCCC
1 TCATCCC
*
17804935 ATCATCTC
1 -TCATCCC
17804943 TCA
1 TCA
17804946 CTTATTCATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 24 0.80
8 6 0.20
ACGTcount: A:0.18, C:0.51, G:0.00, T:0.31
Consensus pattern (7 bp):
TCATCCC
Found at i:17812002 original size:13 final size:14
Alignment explanation
Indices: 17811983--17812020 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
17811973 CAATGGCATA
17811983 GAAATAATATAAAT
1 GAAATAATATAAAT
17811997 -AAATAA-ATAAAT
1 GAAATAATATAAAT
17812009 GAAATTAATATA
1 GAAA-TAATATA
17812021 CAAAAAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (14 bp):
GAAATAATATAAAT
Found at i:17812633 original size:17 final size:17
Alignment explanation
Indices: 17812611--17812654 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
17812601 TAGGAAATAA
17812611 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
17812628 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
17812645 -ATATGTATAT
1 AAAATGTATAT
17812655 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:17812680 original size:33 final size:33
Alignment explanation
Indices: 17812583--17812686 Score: 80
Period size: 33 Copynumber: 3.3 Consensus size: 33
17812573 AAAAGTGTAT
* * *
17812583 ATATATGCATATAAAAGTTA-GGAAATA-AAAA
1 ATATATGTATATAAAAGTTATGCAAATAGAATA
* *
17812614 ATGTATATGTATAT-AAA---ATGTAAAT-GTAT-
1 A--TATATGTATATAAAAGTTATGCAAATAGAATA
17812643 ATATATGTATATAAAAGTTATGCAAATAGAATA
1 ATATATGTATATAAAAGTTATGCAAATAGAATA
*
17812676 ATATATATATA
1 ATATATGTATA
17812687 ATATGCATGT
Statistics
Matches: 56, Mismatches: 7, Indels: 18
0.69 0.09 0.22
Matches are distributed among these distances:
27 11 0.20
28 3 0.05
29 2 0.04
30 6 0.11
31 8 0.14
32 6 0.11
33 20 0.36
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.35
Consensus pattern (33 bp):
ATATATGTATATAAAAGTTATGCAAATAGAATA
Found at i:17812841 original size:7 final size:7
Alignment explanation
Indices: 17812825--17812854 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
17812815 AAATCAAATT
17812825 TAAT-AA
1 TAATAAA
17812831 TAATAAA
1 TAATAAA
17812838 TAATAAA
1 TAATAAA
17812845 TAATAAA
1 TAATAAA
17812852 TAA
1 TAA
17812855 AAAAACTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
TAATAAA
Found at i:17813201 original size:19 final size:19
Alignment explanation
Indices: 17813146--17813214 Score: 93
Period size: 19 Copynumber: 3.5 Consensus size: 19
17813136 AATCATATCT
*
17813146 TCTAAGGTTGTATATCATA
1 TCTAAGATTGTATATCATA
* *
17813165 TCCAATATTGCATATATCATA
1 TCTAAGATTG--TATATCATA
17813186 TCTAAGATTGTATATCATA
1 TCTAAGATTGTATATCATA
17813205 TCTAAGATTG
1 TCTAAGATTG
17813215 CACATCCTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
19 26 0.60
21 17 0.40
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGTATATCATA
Found at i:17813717 original size:44 final size:44
Alignment explanation
Indices: 17813656--17813772 Score: 137
Period size: 44 Copynumber: 2.7 Consensus size: 44
17813646 ATTCTAATCC
* * *
17813656 ACTCCACTACAACTTTAGGGAGATAAGA-TTTGTTCATTCAGTCT
1 ACTCCACTGCAACTTTAGGGAGATAAGACTTTCTT-ACTCAGTCT
* * *
17813700 ACTTCACTGCAATTTTAGGGGGATAAGACTTTCTTACTCAGTCT
1 ACTCCACTGCAACTTTAGGGAGATAAGACTTTCTTACTCAGTCT
* * *
17813744 GCTCCATTGCAACTTCAGGGAGATAAGAC
1 ACTCCACTGCAACTTTAGGGAGATAAGAC
17813773 CCGATGTGAT
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 55 0.92
45 5 0.08
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
ACTCCACTGCAACTTTAGGGAGATAAGACTTTCTTACTCAGTCT
Found at i:17813799 original size:41 final size:43
Alignment explanation
Indices: 17813751--17813853 Score: 120
Period size: 44 Copynumber: 2.4 Consensus size: 43
17813741 TCTGCTCCAT
*
17813751 TGCAACTTCAGGGAGATAAGACCCG-A-TGTGATCTACTCTAC
1 TGCAACTTCAGGGAGATAAGACCCGTAGTGTAATCTACTCTAC
* * * * *
17813792 TGCAACTTCAGAGAGATAAGATCTGTAGTTTTAATCTGCTCTAC
1 TGCAACTTCAGGGAGATAAGACCCGTAG-TGTAATCTACTCTAC
*
17813836 AGCAACTTCAGGGAGATA
1 TGCAACTTCAGGGAGATA
17813854 GGACTATTGG
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
41 22 0.43
42 1 0.02
44 28 0.55
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (43 bp):
TGCAACTTCAGGGAGATAAGACCCGTAGTGTAATCTACTCTAC
Found at i:17813876 original size:44 final size:44
Alignment explanation
Indices: 17813786--17813876 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 44
17813776 ATGTGATCTA
* * *
17813786 CTCTACTGCAACTTCAGAGAGATAAGATCTGTAGTTTTAATCTG
1 CTCTACAGCAACTTCAGAGAGATAAGATCTGTAGCTTTAATATG
* * * *
17813830 CTCTACAGCAACTTCAGGGAGATAGGA-CTATTGGCTTTAATATG
1 CTCTACAGCAACTTCAGAGAGATAAGATCT-GTAGCTTTAATATG
17813874 CTC
1 CTC
17813877 CACTGCAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 2 0.05
44 37 0.95
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (44 bp):
CTCTACAGCAACTTCAGAGAGATAAGATCTGTAGCTTTAATATG
Found at i:17814273 original size:88 final size:89
Alignment explanation
Indices: 17814064--17814388 Score: 279
Period size: 88 Copynumber: 3.7 Consensus size: 89
17814054 TCAAGGCAAT
* * * * * * * *
17814064 AAGACTAGTATCTTCGATCTGCTTCACTGCCAGAATAGGAAGGCAAGATCTGCTGT--TTTAACC
1 AAGACTGGTGTCTTCAATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCCTTCAACC
* * **
17814127 TACTCCACTGC-CTCTCAGGGAGAT
66 TGCTCCACTGCAATC-CAGGGAGGC
* ** * * * * **
17814151 AAGGCCAGAGTTTTCGATCTGCTTCGCTGCCAGTATAGGAAGGCAAGATCTGCTATCCTT-AGTC
1 AAGACTGGTGTCTTCAATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCCTTCAACC
17814215 TGCTCCACTGCAA-CCTAGGGAGGC
66 TGCTCCACTGCAATCC-AGGGAGGC
** * *
17814239 AAGACTGGT-TCCTTCAATCTGCTTTACTGTCAGTACAGGAAGGCAAGATCTGCTAT-TTTCAAC
1 AAGACTGGTGT-CTTCAATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCCTTCAAC
* *
17814302 CTGCTCCGCTGTAATCCAGGGAGGC
65 CTGCTCCACTGCAATCCAGGGAGGC
* ** * *
17814327 AAGGCTGGTGTCTTTGATCTGCTTCGCTACCGGTACAGGAAGGCAAGATCTGCTAT-CTTCAA
1 AAGACTGGTGTCTTCAATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCCTTCAA
17814389 TGATCTGTTC
Statistics
Matches: 192, Mismatches: 38, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
87 52 0.27
88 135 0.70
89 5 0.03
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (89 bp):
AAGACTGGTGTCTTCAATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCCTTCAACC
TGCTCCACTGCAATCCAGGGAGGC
Found at i:17820654 original size:31 final size:33
Alignment explanation
Indices: 17820601--17820688 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 33
17820591 CATGTACATA
*
17820601 TATAAAAAAATAATTATCTACATATATATAGAT
1 TATAAAAAAATAATAATCTACATATATATAGAT
*
17820634 TATAAAAAAA-GATAAT-TACATATATATA-A-
1 TATAAAAAAATAATAATCTACATATATATAGAT
17820663 -A-AACAAATAATAATAAT-TACATATAT
1 TATAA-AAA-AATAATAATCTACATATAT
17820689 TGAAATTAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
27 2 0.04
28 4 0.08
29 2 0.04
30 15 0.31
31 12 0.24
32 4 0.08
33 10 0.20
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (33 bp):
TATAAAAAAATAATAATCTACATATATATAGAT
Found at i:17820726 original size:22 final size:24
Alignment explanation
Indices: 17820700--17820747 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
17820690 GAAATTAATT
17820700 AATTTA-GAA-AATATATATAA-AA
1 AATTTATGAAGAATA-ATATAAGAA
17820722 AATTTATGAAGAATAATATAAGAA
1 AATTTATGAAGAATAATATAAGAA
17820746 AA
1 AA
17820748 CATACGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.26
23 9 0.39
24 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.29
Consensus pattern (24 bp):
AATTTATGAAGAATAATATAAGAA
Found at i:17820848 original size:17 final size:17
Alignment explanation
Indices: 17820799--17820869 Score: 58
Period size: 17 Copynumber: 4.3 Consensus size: 17
17820789 AAAGTGTATA
17820799 TATATGCATATAAAA-G
1 TATATGCATATAAAATG
* * *
17820815 T-TAGGAAATAAAAAATG
1 TATATG-CATATAAAATG
17820832 TATATGCATATAAAATG
1 TATATGCATATAAAATG
* * *
17820849 TAAATGTATAT-ATATG
1 TATATGCATATAAAATG
17820865 TATAT
1 TATAT
17820870 AAAAGTTATG
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
15 3 0.07
16 16 0.38
17 20 0.48
18 3 0.07
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.35
Consensus pattern (17 bp):
TATATGCATATAAAATG
Found at i:17821003 original size:3 final size:3
Alignment explanation
Indices: 17820995--17821024 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
17820985 ATATATATAG
*
17820995 TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17821025 CTTAATAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:17821390 original size:21 final size:20
Alignment explanation
Indices: 17821354--17821423 Score: 117
Period size: 19 Copynumber: 3.5 Consensus size: 20
17821344 AATCATATCT
17821354 TCTAAGATTG-TATATCATA
1 TCTAAGATTGCTATATCATA
17821373 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC-TATATCATA
17821394 TCTAAGATTGC-ATATCATA
1 TCTAAGATTGCTATATCATA
17821413 TCTAAGATTGC
1 TCTAAGATTGC
17821424 ACATCCTTGA
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
19 29 0.59
21 20 0.41
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (20 bp):
TCTAAGATTGCTATATCATA
Found at i:17834333 original size:32 final size:33
Alignment explanation
Indices: 17834292--17834367 Score: 111
Period size: 33 Copynumber: 2.3 Consensus size: 33
17834282 GCCCACACGA
* *
17834292 CCCAAAATGGC-TTGCTTGTGTGGGT-CACATGG
1 CCCAAAATGGCATTGCCTATGT-GGTCCACATGG
17834324 CCCAAAATGGCATTGCCTATGTGGTCCACATGG
1 CCCAAAATGGCATTGCCTATGTGGTCCACATGG
17834357 CCCAAAATGGC
1 CCCAAAATGGC
17834368 CTAAACCGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
32 14 0.35
33 26 0.65
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (33 bp):
CCCAAAATGGCATTGCCTATGTGGTCCACATGG
Found at i:17840719 original size:27 final size:27
Alignment explanation
Indices: 17840679--17840730 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
17840669 ATGAGCGTGC
17840679 TCGAAATACCCTCGAAGGGTAAAATTA
1 TCGAAATACCCTCGAAGGGTAAAATTA
*
17840706 TCGAAATACTCTCGAAGGGTAAAAT
1 TCGAAATACCCTCGAAGGGTAAAAT
17840731 AACCAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.23
Consensus pattern (27 bp):
TCGAAATACCCTCGAAGGGTAAAATTA
Found at i:17840749 original size:27 final size:27
Alignment explanation
Indices: 17840682--17840743 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
17840672 AGCGTGCTCG
* * *
17840682 AAATACCCTCGAAGGGTAAAATTATCG
1 AAATACCCTCGAAGGGTAAAATAACCA
*
17840709 AAATACTCTCGAAGGGTAAAATAACCA
1 AAATACCCTCGAAGGGTAAAATAACCA
17840736 AAATACCC
1 AAATACCC
17840744 ATGAAGAGGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.19
Consensus pattern (27 bp):
AAATACCCTCGAAGGGTAAAATAACCA
Found at i:17841232 original size:28 final size:28
Alignment explanation
Indices: 17841192--17841247 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
17841182 ATTTGTACTG
* *
17841192 GTTACTGTTTTGGGCTAAGGCCGACACT
1 GTTACTGTATTGGGCTAAGGCCCACACT
17841220 GTTACTGTATTGGGCTAAGGCCCACACT
1 GTTACTGTATTGGGCTAAGGCCCACACT
17841248 ATTCTTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (28 bp):
GTTACTGTATTGGGCTAAGGCCCACACT
Found at i:17846404 original size:36 final size:36
Alignment explanation
Indices: 17846357--17846427 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
17846347 AGTTTGGGGG
17846357 TGTGATAATACTAGAAAGAACATATGTTTTATCCCC
1 TGTGATAATACTAGAAAGAACATATGTTTTATCCCC
*
17846393 TGTGATAATACTAGAAAGAACATATGTTTTCTCCC
1 TGTGATAATACTAGAAAGAACATATGTTTTATCCC
17846428 TACTTATTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (36 bp):
TGTGATAATACTAGAAAGAACATATGTTTTATCCCC
Found at i:17851144 original size:24 final size:23
Alignment explanation
Indices: 17851104--17851148 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
17851094 ATTTAATTAA
17851104 ATATATATATAAAAAAACATATGT
1 ATATATATATAAAAAAA-ATATGT
* *
17851128 ATATATATATGAGAAAAATAT
1 ATATATATATAAAAAAAATAT
17851149 TAGTTGCGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (23 bp):
ATATATATATAAAAAAAATATGT
Found at i:17852964 original size:44 final size:43
Alignment explanation
Indices: 17852887--17852997 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 43
17852877 ATCTGCTCTT
* * * *
17852887 TGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCTAC
1 TGCAACTTCAGGGAGATAAGAT-TGTGGCTTTAATACGCTCCAC
* * * *
17852931 TGGAACTTCAGGGAGATAGGATTATTGGCTTTAATATGCTCCAC
1 TGCAACTTCAGGGAGATAAGATT-GTGGCTTTAATACGCTCCAC
*
17852975 TGCAACTTCAGGGAAATAAGATT
1 TGCAACTTCAGGGAGATAAGATT
17852998 TTCCATATTC
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 1 0.02
44 54 0.98
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (43 bp):
TGCAACTTCAGGGAGATAAGATTGTGGCTTTAATACGCTCCAC
Found at i:17853260 original size:51 final size:51
Alignment explanation
Indices: 17853191--17853341 Score: 158
Period size: 51 Copynumber: 3.0 Consensus size: 51
17853181 TTCAAGTCCT
*
17853191 AACGCTAGTGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCACTAC
1 AACGCTAGAGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCACTAC
* * * * * * * *
17853242 AACGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTAT
1 AACGCTAGAGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCACTAC
* * * * * * *
17853293 AATGCGAAAGAGATAGGATTCGCTGCCCACAGCTTCAATCCGCTCCACT
1 AACGCTAGAGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCACT
17853342 TCAGCTAATC
Statistics
Matches: 78, Mismatches: 22, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 78 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (51 bp):
AACGCTAGAGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCACTAC
Found at i:17853504 original size:44 final size:44
Alignment explanation
Indices: 17853457--17853598 Score: 169
Period size: 44 Copynumber: 3.2 Consensus size: 44
17853447 TCACTACCAG
* *
17853457 CTCAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCACTGCTG
1 CTCAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTA
* * * * * * * *
17853501 CTCAGGGAGACAAG-GCTGGTATCTTCGATCTACTTCACTACTA
1 CTCAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTA
*
17853544 ATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTA
1 CT-CAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTA
17853589 CTCAGGAAGA
1 CTCAGGAAGA
17853599 TAAGGCTGAA
Statistics
Matches: 76, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
43 22 0.29
44 31 0.41
45 23 0.30
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (44 bp):
CTCAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTA
Found at i:17853583 original size:88 final size:88
Alignment explanation
Indices: 17853434--17853606 Score: 276
Period size: 88 Copynumber: 2.0 Consensus size: 88
17853424 AAGACTAATT
* *
17853434 TCTTCGATCTACTTCACTACCAGCTCAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCACTACCAGATCAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
* *
17853499 TGCTCAGGGAGACAAGGCTGGTA
66 TACTCAGGAAGACAAGGCTGGTA
*
17853522 TCTTCGATCTACTTCACTACTA-ATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTG
1 TCTTCGATCTACTTCACTACCAGAT-CAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTG
*
17853586 CTACTCAGGAAGATAAGGCTG
65 CTACTCAGGAAGACAAGGCTG
17853607 AAATATCACC
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
87 1 0.01
88 77 0.99
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (88 bp):
TCTTCGATCTACTTCACTACCAGATCAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
TACTCAGGAAGACAAGGCTGGTA
Found at i:17873314 original size:58 final size:58
Alignment explanation
Indices: 17873249--17873366 Score: 209
Period size: 58 Copynumber: 2.0 Consensus size: 58
17873239 CTAGAATTTC
*
17873249 AAGAGAAACACTAAAAACACCATCAATTTTACCATCTCTCTAATTTGTGGGATTTCCA
1 AAGAGAAACACTAAAAACACCATCAATTTTACCATCTCTCTAATTTGTGAGATTTCCA
* *
17873307 AAGAGAAACACTAAAAACACCATCAATTTTATCATCTCTCTAATTTGTGAGTTTTCCA
1 AAGAGAAACACTAAAAACACCATCAATTTTACCATCTCTCTAATTTGTGAGATTTCCA
17873365 AA
1 AA
17873367 TTTTCTACCA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (58 bp):
AAGAGAAACACTAAAAACACCATCAATTTTACCATCTCTCTAATTTGTGAGATTTCCA
Found at i:17889096 original size:40 final size:40
Alignment explanation
Indices: 17889051--17889271 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
17889041 GGGTATAAAT
* * * *
17889051 AGGGGCACATAAGTGCATTCAGGTGTACCGAAGTACAAAC
1 AGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAAC
* * *
17889091 TGGGGCACGTATGTGCAATCAGGAGTACCGAAGTACAAAT
1 AGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAAC
* * *
17889131 AGGTGAACGTATGTGCAATCAGGGGTACCGAAGTATAAAC
1 AGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAAC
*
17889171 AAGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAAC
1 AGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAAC
* * * *
17889211 AGGGGCACATATGTGCAACCAGGGGTACCGAAATATAAAC
1 AGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAAC
*
17889251 AAGGGCACGTATGTGCAATCA
1 AGGGGCACGTATGTGCAATCA
17889272 CCAATAATTA
Statistics
Matches: 157, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 157 1.00
ACGTcount: A:0.35, C:0.19, G:0.29, T:0.18
Consensus pattern (40 bp):
AGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAAC
Found at i:17889215 original size:20 final size:20
Alignment explanation
Indices: 17889070--17889215 Score: 73
Period size: 20 Copynumber: 7.3 Consensus size: 20
17889060 TAAGTGCATT
*
17889070 CAGGTGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * * *
17889090 CTGGGGCA-CGTATGTGCAAT
1 CAGGGGTACCG-AAGTACAAA
*
17889110 CAGGAGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * * * *
17889130 TAGGTG-AACGTATGTGCAAT
1 CAGGGGTACCG-AAGTACAAA
*
17889150 CAGGGGTACCGAAGTATAAA
1 CAGGGGTACCGAAGTACAAA
* * * * *
17889170 CAAGGGCA-CGTATGTGCAAT
1 CAGGGGTACCG-AAGTACAAA
17889190 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
17889210 CAGGGG
1 CAGGGG
17889216 CACATATGTG
Statistics
Matches: 84, Mismatches: 36, Indels: 12
0.64 0.27 0.09
Matches are distributed among these distances:
19 7 0.08
20 70 0.83
21 7 0.08
ACGTcount: A:0.34, C:0.18, G:0.31, T:0.17
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:17889233 original size:20 final size:20
Alignment explanation
Indices: 17889167--17889235 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 20
17889157 ACCGAAGTAT
* *
17889167 AAACAAGGGCACGTATGTGC
1 AAACAGGGGCACATATGTGC
* * ** * *
17889187 AATCAGGGGTACCGAAGTAC
1 AAACAGGGGCACATATGTGC
17889207 AAACAGGGGCACATATGTGC
1 AAACAGGGGCACATATGTGC
*
17889227 AACCAGGGG
1 AAACAGGGG
17889236 TACCGAAATA
Statistics
Matches: 35, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.35, C:0.20, G:0.32, T:0.13
Consensus pattern (20 bp):
AAACAGGGGCACATATGTGC
Found at i:17897197 original size:62 final size:62
Alignment explanation
Indices: 17897115--17897234 Score: 224
Period size: 62 Copynumber: 1.9 Consensus size: 62
17897105 GTTATAACTC
17897115 AATCAAATTTAAAATCTTGCCATTGTC-TAATACAAAGTTAATCATTTTTACAATCCAATGTT
1 AATCAAATTTAAAATCTTGCCATTGTCTTAA-ACAAAGTTAATCATTTTTACAATCCAATGTT
17897177 AATCAAATTTAAAATCTTGCCATTGTCTTAAACAAAGTTAATCATTTTTACAATCCAA
1 AATCAAATTTAAAATCTTGCCATTGTCTTAAACAAAGTTAATCATTTTTACAATCCAA
17897235 CCTTAACTAA
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
62 54 0.95
63 3 0.05
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.38
Consensus pattern (62 bp):
AATCAAATTTAAAATCTTGCCATTGTCTTAAACAAAGTTAATCATTTTTACAATCCAATGTT
Found at i:17899846 original size:59 final size:59
Alignment explanation
Indices: 17899753--17899956 Score: 345
Period size: 59 Copynumber: 3.4 Consensus size: 59
17899743 CACAGTCAAT
*
17899753 AATATATTTGTACAAAAATATTCAAAAGAGCTTCTATTTTATTAAATGAAACAATATAAA
1 AATA-ATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA
* * * *
17899813 AATAATTTGTACAAAAAAATTCAAAAGAACTTCTATTTTATTAAATAAAATAATATTAA
1 AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA
17899872 AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA
1 AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA
*
17899931 AACAATTTGTACAAAAATATTCAAAA
1 AATAATTTGTACAAAAATATTCAAAA
17899957 ATAAATCAAT
Statistics
Matches: 134, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
59 130 0.97
60 4 0.03
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (59 bp):
AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA
Found at i:17901910 original size:11 final size:11
Alignment explanation
Indices: 17901896--17901921 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17901886 TAATTAAATT
17901896 ATAAAAATGAA
1 ATAAAAATGAA
17901907 ATAAAAATGAA
1 ATAAAAATGAA
17901918 ATAA
1 ATAA
17901922 TATTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (11 bp):
ATAAAAATGAA
Found at i:17901914 original size:20 final size:20
Alignment explanation
Indices: 17901869--17901914 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
17901859 AGCTATTATA
17901869 AAAAATTATAAAAATATTAAT
1 AAAAATTATAAAAATA-TAAT
*
17901890 -TAAATTATAAAAATGA-AAT
1 AAAAATTATAAAAAT-ATAAT
17901909 AAAAAT
1 AAAAAT
17901915 GAAATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
19 3 0.14
20 17 0.81
21 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAAATTATAAAAATATAAT
Found at i:17905973 original size:22 final size:22
Alignment explanation
Indices: 17905948--17905992 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
17905938 CCATTTCTTG
17905948 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
17905970 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
17905992 T
1 T
17905993 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:17909720 original size:22 final size:22
Alignment explanation
Indices: 17909692--17909736 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
17909682 AGGGGGAGTG
17909692 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
17909714 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
17909736 T
1 T
17909737 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:17912411 original size:14 final size:15
Alignment explanation
Indices: 17912392--17912424 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
17912382 GAATTTTCCC
*
17912392 TTTTTTCTTTCT-CT
1 TTTTTTATTTCTCCT
17912406 TTTTTTATTTCTCCT
1 TTTTTTATTTCTCCT
17912421 TTTT
1 TTTT
17912425 CACTCAGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTTATTTCTCCT
Found at i:17912982 original size:6 final size:6
Alignment explanation
Indices: 17912971--17912997 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
17912961 GAAAAATATT
17912971 TGTGGA TGTGGA TGTGGA TGTGGA TGT
1 TGTGGA TGTGGA TGTGGA TGTGGA TGT
17912998 AATTATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.48, T:0.37
Consensus pattern (6 bp):
TGTGGA
Found at i:17914657 original size:127 final size:126
Alignment explanation
Indices: 17914408--17914791 Score: 567
Period size: 127 Copynumber: 3.1 Consensus size: 126
17914398 AAATAATGGG
** * * * * * *
17914408 AAATCGCTTCTACTAGGATGCTAT-TTGAGAAGAAATTGTGAAATCGTGGCCTCGTGGACGCGAT
1 AAATCGCTGATACAAGGATGCTATATTGGGCAGAAATTGTTAAATCGCGCCCTCGTGGACGCGAT
* ** **
17914472 TTCGCTAC-AGTGGTCATGTAAGAAATAATTTTTTTTTGATGTTTTCTGAGCAAATAGTATA
66 TTCGCTACAATTGGTCATGTTGGAAATAA-TTTTTTTTGACATTTTCTGAGCAAATAGTATA
17914533 AAATCGCTGATACAAGGATGCTATATTGGGCAGAAATTGTTAAATCGCGCCCTCGTGGACGCGAT
1 AAATCGCTGATACAAGGATGCTATATTGGGCAGAAATTGTTAAATCGCGCCCTCGTGGACGCGAT
17914598 TTCGCTACAATTGGTCATGTTGGAAATAATTATTTTTTGACATTTTCTGAGCAAATAGTATA
66 TTCGCTACAATTGGTCATGTTGGAAATAATT-TTTTTTGACATTTTCTGAGCAAATAGTATA
*
17914660 AAATCGCTGATACAAGGATGCTATATTGGGCAGAAATTGTTAAATCGCGCCCTCGTGGACGCGAC
1 AAATCGCTGATACAAGGATGCTATATTGGGCAGAAATTGTTAAATCGCGCCCTCGTGGACGCGAT
* * * *
17914725 TTCGCTACAGTTGGTCATGTTGGAAATAATTTTTTTTTACA-TTTCTGAGCAAATAGTGTC
66 TTCGCTACAATTGGTCATGTTGGAAATAATTTTTTTTGACATTTTCTGAGCAAATAGTATA
17914785 AAATCGC
1 AAATCGC
17914792 GCCCTCGTGG
Statistics
Matches: 238, Mismatches: 18, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
125 45 0.19
126 54 0.23
127 139 0.58
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (126 bp):
AAATCGCTGATACAAGGATGCTATATTGGGCAGAAATTGTTAAATCGCGCCCTCGTGGACGCGAT
TTCGCTACAATTGGTCATGTTGGAAATAATTTTTTTTGACATTTTCTGAGCAAATAGTATA
Found at i:17917990 original size:7 final size:7
Alignment explanation
Indices: 17917974--17918017 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
17917964 CTGTTGTATG
17917974 TTAGGG-
1 TTAGGGT
17917980 TTAGGGT
1 TTAGGGT
17917987 TTAGGGT
1 TTAGGGT
*
17917994 TTAAGGT
1 TTAGGGT
*
17918001 TAAGGGT
1 TTAGGGT
*
17918008 TAAGGGT
1 TTAGGGT
17918015 TTA
1 TTA
17918018 TAATTAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
6 6 0.18
7 27 0.82
ACGTcount: A:0.23, C:0.00, G:0.39, T:0.39
Consensus pattern (7 bp):
TTAGGGT
Found at i:17918007 original size:21 final size:20
Alignment explanation
Indices: 17917978--17918017 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
17917968 TGTATGTTAG
*
17917978 GGTTAGGGTTTAGGGTTTAA
1 GGTTAGGGTTAAGGGTTTAA
17917998 GGTTAAGGGTTAAGGGTTTA
1 GGTT-AGGGTTAAGGGTTTA
17918018 TAATTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.38
Consensus pattern (20 bp):
GGTTAGGGTTAAGGGTTTAA
Found at i:17918045 original size:29 final size:29
Alignment explanation
Indices: 17917994--17918613 Score: 719
Period size: 29 Copynumber: 21.4 Consensus size: 29
17917984 GGTTTAGGGT
17917994 TTAAGGTTAAGGGTTAAGGGTTTATAATTAAA
1 TTAA-GTT-AGGGTT-AGGGTTTATAATTAAA
17918026 TTAAGTTAGGGTTAGGGTTTATAATTAAA
1 TTAAGTTAGGGTTAGGGTTTATAATTAAA
* * **
17918055 TTAGGTTAGGGTTTAGGGTTTATAGTTGTA
1 TTAAGTTAGGG-TTAGGGTTTATAATTAAA
* * **
17918085 TTAGGTTAGGGTTTAGGGTTTATAGTTGTA
1 TTAAGTTAGGG-TTAGGGTTTATAATTAAA
* *
17918115 TTAGGTTAGGGTTAGGGTTTTTAATTAAA
1 TTAAGTTAGGGTTAGGGTTTATAATTAAA
* * *
17918144 TTAGGTTAGGGTTTAAGGTTTTTAATTAAA
1 TTAAGTTAGGG-TTAGGGTTTATAATTAAA
*
17918174 TTAAGTTGGGGTTTAGGGTTTATAATTAAA
1 TTAAGTTAGGG-TTAGGGTTTATAATTAAA
*
17918204 TTAAGTTAGGGTTAGGGTTTTTAATTAAA
1 TTAAGTTAGGGTTAGGGTTTATAATTAAA
*
17918233 TTAAGTTAGGGTTAGGGTTTATTATTAAA
1 TTAAGTTAGGGTTAGGGTTTATAATTAAA
17918262 TTAAGTTAGGGTTAGGGTTTATAATTAAA
1 TTAAGTTAGGGTTAGGGTTTATAATTAAA
* * *
17918291 TTAGGTTAGGGTTAAGGTTTTTAATTAAA
1 TTAAGTTAGGGTTAGGGTTTATAATTAAA
17918320 TTAAGTTAGGGTTTAGGGTTTATAATTAAA
1 TTAAGTTAGGG-TTAGGGTTTATAATTAAA
*
17918350 TTAAGTTAGGGTTAGTGTTTATAATTAAA
1 TTAAGTTAGGGTTAGGGTTTATAATTAAA
* *
17918379 TTAGGTTAGGGTTAGGGTTTTTAATTAAA
1 TTAAGTTAGGGTTAGGGTTTATAATTAAA
*
17918408 TTAAGTTA-GGTTAGGGGTTT-TAATTCAA
1 TTAAGTTAGGGTTA-GGGTTTATAATTAAA
* * *
17918436 TTAGGTTAGGTTTTAGGGTTTATAATTACA
1 TTAAGTTAGG-GTTAGGGTTTATAATTAAA
* * *
17918466 TTAAGATA-GGTTAGGGTTTTTAATTCAA
1 TTAAGTTAGGGTTAGGGTTTATAATTAAA
* *
17918494 TTAGGTTA-GGTTAGGGTTT-TCAATTCAA
1 TTAAGTTAGGGTTAGGGTTTAT-AATTAAA
17918522 TTAAGTTAGGG-T----TTT-TAATTAAA
1 TTAAGTTAGGGTTAGGGTTTATAATTAAA
*
17918545 TTAAGTTA-GGTTAGGGGTTT-TAATTCAA
1 TTAAGTTAGGGTTA-GGGTTTATAATTAAA
* * *
17918573 TTAGGTTA-GGTTAGGGTTTTTAATTCAA
1 TTAAGTTAGGGTTAGGGTTTATAATTAAA
17918601 TTAAGTTAGGGTT
1 TTAAGTTAGGGTT
17918614 TTTAATTAAA
Statistics
Matches: 524, Mismatches: 47, Indels: 37
0.86 0.08 0.06
Matches are distributed among these distances:
22 2 0.00
23 15 0.03
24 4 0.01
27 7 0.01
28 103 0.20
29 229 0.44
30 157 0.30
31 3 0.01
32 4 0.01
ACGTcount: A:0.30, C:0.01, G:0.25, T:0.44
Consensus pattern (29 bp):
TTAAGTTAGGGTTAGGGTTTATAATTAAA
Found at i:17918051 original size:24 final size:23
Alignment explanation
Indices: 17918024--17918069 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
17918014 TTTATAATTA
*
17918024 AATTAAGTTAGGGTTAGGGTTTAT
1 AATTAAATTA-GGTTAGGGTTTAT
17918048 AATTAAATTAGGTTAGGGTTTA
1 AATTAAATTAGGTTAGGGTTTA
17918070 GGGTTTATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.41
Consensus pattern (23 bp):
AATTAAATTAGGTTAGGGTTTAT
Found at i:17918498 original size:23 final size:24
Alignment explanation
Indices: 17918406--17918629 Score: 139
Period size: 28 Copynumber: 8.5 Consensus size: 24
17918396 TTTTTAATTA
*
17918406 AATT-AAGTTAGGTTAGGGGTTTT
1 AATTCAAGTTAGGTTAGGGTTTTT
*
17918429 AATTCAATTAGGTTAGGTTTTAGGGTTTAT
1 AATTC-A--A-GTTAGG--TTAGGGTTTTT
*
17918459 AATTACATTAAGATAGGTTAGGGTTTTT
1 AATT-C---AAGTTAGGTTAGGGTTTTT
*
17918487 AATTCAATTAGGTTAGGTTAGGGTTTTC
1 AATTC-A--A-GTTAGGTTAGGGTTTTT
*
17918515 AATTCAA-TTAAGTTAGGGTTTTT
1 AATTCAAGTTAGGTTAGGGTTTTT
* *
17918538 AATTAAATTAAGTTAGGTTAGGGGTTTT
1 AA-T---TCAAGTTAGGTTAGGGTTTTT
17918566 AATTCAATTAGGTTAGGTTAGGGTTTTT
1 AATTC-A--A-GTTAGGTTAGGGTTTTT
*
17918594 AATTCAA-TTAAGTTAGGGTTTTT
1 AATTCAAGTTAGGTTAGGGTTTTT
* *
17918617 AATTAAATTTAGG
1 AATTCAAGTTAGG
17918630 GGTTTTAATC
Statistics
Matches: 160, Mismatches: 18, Indels: 45
0.72 0.08 0.20
Matches are distributed among these distances:
23 41 0.26
24 6 0.04
25 5 0.03
27 10 0.06
28 77 0.48
30 18 0.11
31 2 0.01
33 1 0.01
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.45
Consensus pattern (24 bp):
AATTCAAGTTAGGTTAGGGTTTTT
Found at i:17918630 original size:19 final size:19
Alignment explanation
Indices: 17918583--17918643 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 19
17918573 TTAGGTTAGG
*
17918583 TTAGGGTTTTTAATTCAATTAAG
1 TTAGGGTTTTTAATT--A--AAT
17918606 TTAGGGTTTTTAATTAAAT
1 TTAGGGTTTTTAATTAAAT
* *
17918625 TTAGGGGTTTTAATCAAAT
1 TTAGGGTTTTTAATTAAAT
17918644 AATGTCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 19 0.54
21 1 0.03
23 15 0.43
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.48
Consensus pattern (19 bp):
TTAGGGTTTTTAATTAAAT
Found at i:17920794 original size:14 final size:15
Alignment explanation
Indices: 17920777--17920810 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
17920767 AATAAATATC
17920777 TAAAAATA-CATAAA
1 TAAAAATAGCATAAA
*
17920791 TAAAAATAGCTTAAA
1 TAAAAATAGCATAAA
17920806 TAAAA
1 TAAAA
17920811 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.24
Consensus pattern (15 bp):
TAAAAATAGCATAAA
Found at i:17920941 original size:28 final size:29
Alignment explanation
Indices: 17920909--17920964 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
17920899 TGAAAATTTT
*
17920909 AAAAATTTTA-AAATTACTTAAAAAAATA
1 AAAAATTGTATAAATTACTTAAAAAAATA
* *
17920937 AAAAATTGTATAATTTTCTTAAAAAAAT
1 AAAAATTGTATAAATTACTTAAAAAAAT
17920965 GAAATTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.36
Consensus pattern (29 bp):
AAAAATTGTATAAATTACTTAAAAAAATA
Found at i:17921036 original size:22 final size:22
Alignment explanation
Indices: 17921006--17921047 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
17920996 ATTTGGAGAT
*
17921006 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
17921028 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
17921048 TTTGAGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:17921115 original size:21 final size:22
Alignment explanation
Indices: 17921049--17921125 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
17921039 ATTTGAGAGT
* *
17921049 TTGAGATAATTTTGGAAGGAAA
1 TTGAGAGAATTTTTGAAGGAAA
* *
17921071 TTGAGAGAACTTTTGAAGGGAA
1 TTGAGAGAATTTTTGAAGGAAA
17921093 TTGAGAGAATTTTTGAA-GAAA
1 TTGAGAGAATTTTTGAAGGAAA
17921114 TTGAGAGAATTT
1 TTGAGAGAATTT
17921126 GTTTGTGAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
21 15 0.31
22 34 0.69
ACGTcount: A:0.39, C:0.01, G:0.27, T:0.32
Consensus pattern (22 bp):
TTGAGAGAATTTTTGAAGGAAA
Found at i:17931262 original size:41 final size:41
Alignment explanation
Indices: 17931217--17931314 Score: 151
Period size: 41 Copynumber: 2.4 Consensus size: 41
17931207 CAACGACACA
* *
17931217 TAGCCTGCTAGACTTATAGCCTAATTCAGATCATCGGCACG
1 TAGCCTGCTAGACTTATAACCTAATTCAGATCACCGGCACG
** *
17931258 TAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCACG
1 TAGCCTGCTAGACTTATAACCTAATTCAGATCACCGGCACG
17931299 TAGCCTGCTAGACTTA
1 TAGCCTGCTAGACTTA
17931315 AAGTCTGAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (41 bp):
TAGCCTGCTAGACTTATAACCTAATTCAGATCACCGGCACG
Found at i:17932020 original size:12 final size:12
Alignment explanation
Indices: 17931975--17932027 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
17931965 AATAACTTTT
**
17931975 ATATATATATGT
1 ATATATATATAC
*
17931987 ATATATATTCTAGC
1 ATATATA-TATA-C
17932001 ATTATATATATAC
1 A-TATATATATAC
17932014 ATATATATATAC
1 ATATATATATAC
17932026 AT
1 AT
17932028 GCTTATTCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 20 0.59
13 4 0.12
14 4 0.12
15 6 0.18
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (12 bp):
ATATATATATAC
Found at i:17938937 original size:84 final size:84
Alignment explanation
Indices: 17938830--17939069 Score: 444
Period size: 84 Copynumber: 2.9 Consensus size: 84
17938820 CAAAGGATCC
17938830 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
17938895 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
* * *
17938914 CGGTGAAATCAGTACTTAGCAACCACTTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
17938979 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
*
17938998 CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
17939063 CCTTTCA
66 CCTTTCA
17939070 TTCAAAGAAT
Statistics
Matches: 149, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 149 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (84 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
CCTTTCACAATCAAGGATA
Found at i:17942056 original size:17 final size:17
Alignment explanation
Indices: 17942036--17942082 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
17942026 CACATTTTAT
17942036 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
17942053 ATTATTTAGTCA-TATTGA
1 ATTATTTA-T-ATTATTGA
17942071 A-TATTTATATTA
1 ATTATTTATATTA
17942083 AAATTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 3 0.11
17 14 0.52
18 8 0.30
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:17946303 original size:16 final size:16
Alignment explanation
Indices: 17946282--17946322 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
17946272 TTTTATATAA
17946282 ATATAAATATTTGT-TT
1 ATATAAATATTT-TCTT
17946298 ATATAAATATTTTCTT
1 ATATAAATATTTTCTT
17946314 ATATTAAAT
1 ATA-TAAAT
17946323 TGTATTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.04
16 17 0.74
17 5 0.22
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
ATATAAATATTTTCTT
Found at i:17946931 original size:16 final size:16
Alignment explanation
Indices: 17946910--17946950 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
17946900 TTTTATATAA
*
17946910 ATATAAATATTTTTTT
1 ATATAAATATTTTCTT
17946926 ATATAAATATTTTCTT
1 ATATAAATATTTTCTT
17946942 ATATTAAAT
1 ATA-TAAAT
17946951 TGTATTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
ATATAAATATTTTCTT
Found at i:17947083 original size:628 final size:627
Alignment explanation
Indices: 17945962--17947141 Score: 2254
Period size: 628 Copynumber: 1.9 Consensus size: 627
17945952 CTCAAAAATT
*
17945962 TTTTTCCTCTCCAAATTTTCAAACGTTTCAGTGATAGAAGAAGCCAAGGTTTGTTCATTAATCAT
1 TTTTTCCTCTCCAAATTTTCAAACGTTTCAGTGATAGAAGAAGCCAAGGTTTGTTCATTAATCAC
*
17946027 TGCAGAAGTGCTACTACTTCGATCAATTTATTATTGTATCCTGGGAGACAGTCGACCAATGTTTC
66 TGCAGAAGCGCTACTACTTCGATCAATTTATTATTGTATCCTGGGAGACAGTCGACCAATGTTTC
*
17946092 TTCAAGCACCATAAGAGCGGTCGAATTTGTCTTAAGGAAACAGTGAAAACAAGCCTCAACATCTA
131 TTCAAGCACCATAAGAGCGGTCGAATCTGTCTTAAGGAAACAGTGAAAACAAGCCTCAACATCTA
17946157 GTAAAACTGGATTCCCTTTATTCAATTTTTAGTTTTCCAAAATCTTATTTACTTTAATTGTTCTG
196 GTAAAACTGGATTCCCTTTATTCAATTTTTAGTTTTCCAAAATCTTATTTACTTTAATTGTTCTG
17946222 ATGTTTTAAATAAATATAAATATTTAATTTGTTTTATTTAAATATGGTGTTTTTATATAAATATA
261 ATGTTTTAAATAAATATAAATATTTAATTTGTTTTATTTAAATATGGTGTTTTTATATAAATATA
17946287 AATATTTGTTTATATAAATATTTTCTTATATTAAATTGTATTATTTGTATATATAATTATTTATA
326 AATATTTGTTTATATAAATATTTTCTTATATTAAATTGTATTATTTGTATATATAATTATTTATA
17946352 TTTATATATATTCGTTTGCTAACGTGTTTTGTCCAACAATTAAATTGATACTTTATTTATTAGTG
391 TTTATATATATTCGTTTGCTAACGTGTTTTGTCCAACAATTAAATTGATACTTTATTTATTAGTG
*
17946417 TGAAGTATCAAACTCAACAAAAAAATTTAATCACTTTGGTTCTCCTTAAGGTACGTTCCTTGGAG
456 TGAAGTATCAAACTCAACAAAAAAATTTAATCACTTTGGTTCTCCTTAAGGTAAGTTCCTTGGAG
17946482 TACCCATCAAAGTATTTCATTGTAAACAAAATACCTCCATATTGAATGCCTATAAAAGCTTAAAG
521 TACCCATCAAAGTATTTCATTGTAAACAAAATACCTCCATATTGAATGCCTATAAAAGCTTAAAG
17946547 AATACTGAAGAATTCTTTAGAGAAACAGAGACACACAACGAA
586 AATACTGAAGAATTCTTTAGAGAAACAGAGACACACAACGAA
17946589 TTTTTCACTCTCCAAATTTTCAAACG-TTCTAGTGATAGAAGAAGCCAAGGTTTGTTCATTAATC
1 TTTTTC-CTCTCCAAATTTTCAAACGTTTC-AGTGATAGAAGAAGCCAAGGTTTGTTCATTAATC
* *
17946653 ACTGCAGAAGCGCTACTACTTCGATCAATTTATTGTTGTATCCTGGGAGATAGTCGACCAATGTT
64 ACTGCAGAAGCGCTACTACTTCGATCAATTTATTATTGTATCCTGGGAGACAGTCGACCAATGTT
17946718 TCTTCAAGCACCATAAGAGCGGTCGAATCTGTCTTAAGGAAACAGTGAAAACAAGCCTCAACATC
129 TCTTCAAGCACCATAAGAGCGGTCGAATCTGTCTTAAGGAAACAGTGAAAACAAGCCTCAACATC
*
17946783 TAGTAAAACTGGATTCCCTTTATTCAATTTTTAGTTTTCCAAAATCTTATTTATTTTAATTGTTC
194 TAGTAAAACTGGATTCCCTTTATTCAATTTTTAGTTTTCCAAAATCTTATTTACTTTAATTGTTC
17946848 TGATGTTTTAAATAAATATAAATATTTAATTTGTTTTATTTAAATATGGTGTTTTTATATAAATA
259 TGATGTTTTAAATAAATATAAATATTTAATTTGTTTTATTTAAATATGGTGTTTTTATATAAATA
*
17946913 TAAATATTTTTTTATATAAATATTTTCTTATATTAAATTGTATTATTTGTATATATAATTATTTA
324 TAAATATTTGTTTATATAAATATTTTCTTATATTAAATTGTATTATTTGTATATATAATTATTTA
17946978 TATTTATATATATTCGTTTGCTAACGTGTTTTGTCCAACAATTAAATTGATACTTTATTTATTAG
389 TATTTATATATATTCGTTTGCTAACGTGTTTTGTCCAACAATTAAATTGATACTTTATTTATTAG
17947043 TGTGAAGTATCAAACTCAACAAAAAAATTTAATCACTTTGGTTCTCCTTAAGGTAAGTTCCTTGG
454 TGTGAAGTATCAAACTCAACAAAAAAATTTAATCACTTTGGTTCTCCTTAAGGTAAGTTCCTTGG
*
17947108 AGTACTCATCAAAGTATTTCATTGTAAACAAAAT
519 AGTACCCATCAAAGTATTTCATTGTAAACAAAAT
17947142 CTACACTATA
Statistics
Matches: 542, Mismatches: 9, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
627 9 0.02
628 533 0.98
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (627 bp):
TTTTTCCTCTCCAAATTTTCAAACGTTTCAGTGATAGAAGAAGCCAAGGTTTGTTCATTAATCAC
TGCAGAAGCGCTACTACTTCGATCAATTTATTATTGTATCCTGGGAGACAGTCGACCAATGTTTC
TTCAAGCACCATAAGAGCGGTCGAATCTGTCTTAAGGAAACAGTGAAAACAAGCCTCAACATCTA
GTAAAACTGGATTCCCTTTATTCAATTTTTAGTTTTCCAAAATCTTATTTACTTTAATTGTTCTG
ATGTTTTAAATAAATATAAATATTTAATTTGTTTTATTTAAATATGGTGTTTTTATATAAATATA
AATATTTGTTTATATAAATATTTTCTTATATTAAATTGTATTATTTGTATATATAATTATTTATA
TTTATATATATTCGTTTGCTAACGTGTTTTGTCCAACAATTAAATTGATACTTTATTTATTAGTG
TGAAGTATCAAACTCAACAAAAAAATTTAATCACTTTGGTTCTCCTTAAGGTAAGTTCCTTGGAG
TACCCATCAAAGTATTTCATTGTAAACAAAATACCTCCATATTGAATGCCTATAAAAGCTTAAAG
AATACTGAAGAATTCTTTAGAGAAACAGAGACACACAACGAA
Found at i:17952775 original size:21 final size:19
Alignment explanation
Indices: 17952751--17952792 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
17952741 CCTTTTATTG
*
17952751 TTATTTGCTATTATTTTGTTA
1 TTATTTGCT-GTATTTT-TTA
17952772 TTATTTGCTGTATTTTTTA
1 TTATTTGCTGTATTTTTTA
17952791 TT
1 TT
17952793 CATTCATCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 6 0.30
21 9 0.45
ACGTcount: A:0.17, C:0.05, G:0.10, T:0.69
Consensus pattern (19 bp):
TTATTTGCTGTATTTTTTA
Found at i:17953504 original size:41 final size:41
Alignment explanation
Indices: 17953454--17953546 Score: 107
Period size: 41 Copynumber: 2.3 Consensus size: 41
17953444 ATAGTTTTCA
* * * * * *
17953454 TTTAATATTTTTATGGTTTACTTGATTATTAGTTATATTTG
1 TTTATTATTTTAATGGGTTACTTAATGATTACTTATATTTG
*
17953495 -TTAGTTATTTTAATGGGTTATTTAATGATTACTTATATTTG
1 TTTA-TTATTTTAATGGGTTACTTAATGATTACTTATATTTG
17953536 TTTATTATTTT
1 TTTATTATTTT
17953547 GGTTTGGTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
40 3 0.07
41 37 0.86
42 3 0.07
ACGTcount: A:0.25, C:0.02, G:0.12, T:0.61
Consensus pattern (41 bp):
TTTATTATTTTAATGGGTTACTTAATGATTACTTATATTTG
Found at i:17956938 original size:15 final size:16
Alignment explanation
Indices: 17956907--17956944 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
17956897 TAAATTATGA
17956907 ATATGTGTGTAATGTG
1 ATATGTGTGTAATGTG
*
17956923 ATATGTGT-TTATGTG
1 ATATGTGTGTAATGTG
*
17956938 ACATGTG
1 ATATGTG
17956945 ACCATTATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.24, C:0.03, G:0.29, T:0.45
Consensus pattern (16 bp):
ATATGTGTGTAATGTG
Found at i:17957043 original size:39 final size:39
Alignment explanation
Indices: 17956977--17957075 Score: 101
Period size: 39 Copynumber: 2.5 Consensus size: 39
17956967 AGGATGTTTT
* * *
17956977 TGAGTATTGTGACATAAGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTAGGTGATTATA
* ** *
17957016 TGAGTATTGTGATATATGTTTGTATGTTAGGTTATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTAGGTGATTATA
* *
17957055 T-ATGTAATATGATATATGCTT
1 TGA-GTATTGTGATATATGCTT
17957076 GAAAGTGAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
38 1 0.02
39 48 0.98
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.46
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTAGGTGATTATA
Found at i:17961481 original size:12 final size:12
Alignment explanation
Indices: 17961464--17961496 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
17961454 AGACAAATTT
17961464 TCTTTTCTTTTA
1 TCTTTTCTTTTA
17961476 TCTTTTC-TTTA
1 TCTTTTCTTTTA
17961487 -CTTTTCTTTT
1 TCTTTTCTTTT
17961497 TACTTTTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 6 0.30
11 7 0.35
12 7 0.35
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTTTTCTTTTA
Found at i:17961498 original size:12 final size:11
Alignment explanation
Indices: 17961461--17961503 Score: 54
Period size: 12 Copynumber: 3.9 Consensus size: 11
17961451 ATAAGACAAA
17961461 TTTT-CTTTTC
1 TTTTACTTTTC
17961471 TTTTATCTTTTC
1 TTTTA-CTTTTC
17961483 -TTTACTTTTC
1 TTTTACTTTTC
17961493 TTTTTACTTTT
1 -TTTTACTTTT
17961504 AGAATATGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 10 0.34
11 4 0.14
12 15 0.52
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTACTTTTC
Found at i:17961544 original size:28 final size:29
Alignment explanation
Indices: 17961500--17961555 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
17961490 TTCTTTTTAC
* *
17961500 TTTTAGAATATGGTTTTCTTTTATTTTCT
1 TTTTAGAATATGATTTTATTTTATTTTCT
17961529 TTTTAGAATA-GATTTTATTTTATTTTC
1 TTTTAGAATATGATTTTATTTTATTTTC
17961556 CTTCTTATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.21, C:0.05, G:0.09, T:0.64
Consensus pattern (29 bp):
TTTTAGAATATGATTTTATTTTATTTTCT
Found at i:17967157 original size:32 final size:32
Alignment explanation
Indices: 17967115--17967205 Score: 119
Period size: 32 Copynumber: 2.8 Consensus size: 32
17967105 CCATAAATAC
* ** *
17967115 AGTAATATGATTGGCACAAAGCCATCATTAGT
1 AGTAATATGATCGGCACAAAGCCATCAGAAAT
* *
17967147 AGTAACATGATCGGCACACAGCCATCAGAAAT
1 AGTAATATGATCGGCACAAAGCCATCAGAAAT
*
17967179 GGTAATATGATCGGCACAAAGCCATCA
1 AGTAATATGATCGGCACAAAGCCATCA
17967206 ATAGCATCGT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (32 bp):
AGTAATATGATCGGCACAAAGCCATCAGAAAT
Found at i:17967282 original size:27 final size:27
Alignment explanation
Indices: 17967252--17967306 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
17967242 AGTAAAGCTG
*
17967252 CTAGTAATAG-TATATGTGGCCA-AGCCA
1 CTAGTAACAGTTAT-TGTGG-CAGAGCCA
17967279 CTAGTAACAGTTATTGTGGCAGAGCCA
1 CTAGTAACAGTTATTGTGGCAGAGCCA
17967306 C
1 C
17967307 CATTATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 2 0.08
27 20 0.80
28 3 0.12
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (27 bp):
CTAGTAACAGTTATTGTGGCAGAGCCA
Found at i:17967407 original size:24 final size:24
Alignment explanation
Indices: 17967380--17967461 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 24
17967370 CCATGTTCAG
*
17967380 AATCAGTTATACAAATAACAGACA
1 AATCAGTCATACAAATAACAGACA
* * *
17967404 AATCAGTCATACCAATTATAGACA
1 AATCAGTCATACAAATAACAGACA
* ** *
17967428 AATCAATCATTTAAA-ACACACACA
1 AATCAGTCATACAAATA-ACAGACA
17967452 AATCAGTCAT
1 AATCAGTCAT
17967462 TTACGTCACG
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.50, C:0.21, G:0.06, T:0.23
Consensus pattern (24 bp):
AATCAGTCATACAAATAACAGACA
Found at i:17967586 original size:54 final size:53
Alignment explanation
Indices: 17967527--17967709 Score: 210
Period size: 54 Copynumber: 3.4 Consensus size: 53
17967517 CTCCAGAGGC
*
17967527 ATTACGGTCATTTTACCTTACAAGGGTATTTCGATC-TTTTAGTCCTATGGGGGT
1 ATTACGGTCATTTTACCTTATAAGGGTATTTCGATCATTTTA--CCTATGGGGGT
* * * **
17967581 ATTACGGTCATTTTACCTTATAGGGGCATTACGATCATTTTACCATATGGGGAC
1 ATTACGGTCATTTTACCTTATAAGGGTATTTCGATCATTTTACC-TATGGGGGT
* ** *
17967635 ATTACGGTCATTTTACCCTATAAGGGT-TTTC-AGTCATTTTACCCTACAGAGGT
1 ATTACGGTCATTTTACCTTATAAGGGTATTTCGA-TCATTTTA-CCTATGGGGGT
17967688 ATTACGGTCATTTTACCTTATA
1 ATTACGGTCATTTTACCTTATA
17967710 GGGGCATTAC
Statistics
Matches: 109, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
52 1 0.01
53 38 0.35
54 65 0.60
55 5 0.05
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.39
Consensus pattern (53 bp):
ATTACGGTCATTTTACCTTATAAGGGTATTTCGATCATTTTACCTATGGGGGT
Found at i:17967606 original size:27 final size:27
Alignment explanation
Indices: 17967527--17967730 Score: 182
Period size: 27 Copynumber: 7.6 Consensus size: 27
17967517 CTCCAGAGGC
* *
17967527 ATTACGGTCATTTTACCTTACAAGGGT
1 ATTACGGTCATTTTACCTTATAGGGGT
* * *
17967554 ATTTCGATC-TTTTAGTCC-TATGGGGGT
1 ATTACGGTCATTTTA--CCTTATAGGGGT
*
17967581 ATTACGGTCATTTTACCTTATAGGGGC
1 ATTACGGTCATTTTACCTTATAGGGGT
* * *
17967608 ATTACGATCATTTTACCATAT-GGGGAC
1 ATTACGGTCATTTTACCTTATAGGGG-T
* *
17967635 ATTACGGTCATTTTACCCTATAAGGGT
1 ATTACGGTCATTTTACCTTATAGGGGT
* * * * *
17967662 -TTTCAGTCATTTTACCCTACAGAGGT
1 ATTACGGTCATTTTACCTTATAGGGGT
*
17967688 ATTACGGTCATTTTACCTTATAGGGGC
1 ATTACGGTCATTTTACCTTATAGGGGT
* *
17967715 ATTACAGTTATTTTAC
1 ATTACGGTCATTTTAC
17967731 AAATATTAAG
Statistics
Matches: 142, Mismatches: 28, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
26 32 0.23
27 100 0.70
28 10 0.07
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (27 bp):
ATTACGGTCATTTTACCTTATAGGGGT
Found at i:17967730 original size:107 final size:108
Alignment explanation
Indices: 17967526--17967719 Score: 295
Period size: 107 Copynumber: 1.8 Consensus size: 108
17967516 CCTCCAGAGG
* * ** *
17967526 CATTACGGTCATTTTACCTTACAAGGGTATTTCGATCTTTTAGTCCTATGGGGGTATTACGGTCA
1 CATTACGGTCATTTTACCCTACAAGGGTATTTCGATCTTTTAGCCCTACAGAGGTATTACGGTCA
17967591 TTTTACCTTATAGGGGCATTACGATCATTTTACCATATGGGGA
66 TTTTACCTTATAGGGGCATTACGATCATTTTACCATATGGGGA
*
17967634 CATTACGGTCATTTTACCCTATAAGGGT-TTTC-AGTCATTTTA-CCCTACAGAGGTATTACGGT
1 CATTACGGTCATTTTACCCTACAAGGGTATTTCGA-TC-TTTTAGCCCTACAGAGGTATTACGGT
17967696 CATTTTACCTTATAGGGGCATTAC
64 CATTTTACCTTATAGGGGCATTAC
17967720 AGTTATTTTA
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
106 1 0.01
107 46 0.59
108 31 0.40
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.38
Consensus pattern (108 bp):
CATTACGGTCATTTTACCCTACAAGGGTATTTCGATCTTTTAGCCCTACAGAGGTATTACGGTCA
TTTTACCTTATAGGGGCATTACGATCATTTTACCATATGGGGA
Found at i:17968811 original size:17 final size:17
Alignment explanation
Indices: 17968789--17968822 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
17968779 TGATATTTGC
17968789 ATTTTTT-TCTATTTGTT
1 ATTTTTTAT-TATTTGTT
17968806 ATTTTTTATTATTTGTT
1 ATTTTTTATTATTTGTT
17968823 CTACATACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.94
18 1 0.06
ACGTcount: A:0.15, C:0.03, G:0.06, T:0.76
Consensus pattern (17 bp):
ATTTTTTATTATTTGTT
Done.