Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008933.1 Hibiscus syriacus cultivar Beakdansim tig00112249_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2862162
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 14
Found at i:2438722 original size:29 final size:28
Alignment explanation
Indices: 2438688--2438772 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 28
2438678 AGGTCCCATA
*
2438688 CAGAATCAGGACAGGGAATATATCCCAAG
1 CAGAATCAGGAC-GGGAATAAATCCCAAG
* * *
2438717 TAGAATCATGACGAGGAATAAATCTCC-TG
1 CAGAATCAGGACG-GGAATAAATC-CCAAG
2438746 CAGAATCAGGACGGGGAATAAATCCCA
1 CAGAATCAGGAC-GGGAATAAATCCCA
2438773 TTCATATATC
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
28 3 0.07
29 40 0.87
30 3 0.07
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (28 bp):
CAGAATCAGGACGGGAATAAATCCCAAG
Found at i:2439441 original size:17 final size:17
Alignment explanation
Indices: 2439416--2439448 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2439406 AAGTCAATGG
*
2439416 TCAATGGGTCGGGTCGA
1 TCAACGGGTCGGGTCGA
2439433 TCAACGGGTCGGGTCG
1 TCAACGGGTCGGGTCG
2439449 GTTAAAGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.21, G:0.42, T:0.21
Consensus pattern (17 bp):
TCAACGGGTCGGGTCGA
Found at i:2439458 original size:17 final size:17
Alignment explanation
Indices: 2439416--2439459 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
2439406 AAGTCAATGG
*
2439416 TCAATGGGTCGGGTCGA
1 TCAAAGGGTCGGGTCGA
* *
2439433 TCAACGGGTCGGGTCGG
1 TCAAAGGGTCGGGTCGA
*
2439450 TTAAAGGGTC
1 TCAAAGGGTC
2439460 AACTGGTCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.18, C:0.18, G:0.41, T:0.23
Consensus pattern (17 bp):
TCAAAGGGTCGGGTCGA
Found at i:2447243 original size:138 final size:138
Alignment explanation
Indices: 2446995--2447405 Score: 521
Period size: 138 Copynumber: 3.0 Consensus size: 138
2446985 TTAAGGTCAA
*
2446995 TTGACCTTTCTGGTTGCGACAGACTGAGGAAGATCCCTAATCTATCAGGAGCCATCAACCTTCAA
1 TTGACCTCTCTGGTTGCGACAGACTGAGGAAGATCCCTAATCTATCAGGAGCCATCAACCTTCAA
* *
2447060 AGCCTTTGCTGCAATGGGTGTGGAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCT
66 AGCCTTTGCTGCAATGGGTGTGAAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGCATCTCT
2447125 TGAAAGCC
131 TGAAAGCC
* * *
2447133 TTGACCTCTCTGGTTGCGGCAGACTGAGGAAGATCCCTAATCTATCAGGAGCCATCAAGCTTCAG
1 TTGACCTCTCTGGTTGCGACAGACTGAGGAAGATCCCTAATCTATCAGGAGCCATCAACCTTCAA
2447198 AGCCTTTGCTGCAATGGGTGTGAAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGCATCTCT
66 AGCCTTTGCTGCAATGGGTGTGAAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGCATCTCT
2447263 TGAAAGCC
131 TGAAAGCC
* ** * * * * *
2447271 TTGACCTTTCTTATTGC-A-AGAATTTAAAGAAGATTCCTAATCCATTC-GGAGCCATCAACCTT
1 TTGACCTCTCTGGTTGCGACAG-A-CTGAGGAAGATCCCTAATCTA-TCAGGAGCCATCAACCTT
* * *** * * *
2447333 -AAATCACTTAAG-TGCAATTACTGT-ATAAGTTTGGTCGAACTACCTTGCCTCAACCATTTGGC
63 CAAAGC-CTT-TGCTGCAATGGGTGTGA-AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGC
2447395 ATCTCTT-AAAG
125 ATCTCTTGAAAG
2447406 AGCTTGGACT
Statistics
Matches: 242, Mismatches: 25, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
136 2 0.01
137 9 0.04
138 228 0.94
139 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (138 bp):
TTGACCTCTCTGGTTGCGACAGACTGAGGAAGATCCCTAATCTATCAGGAGCCATCAACCTTCAA
AGCCTTTGCTGCAATGGGTGTGAAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGCATCTCT
TGAAAGCC
Found at i:2453399 original size:15 final size:15
Alignment explanation
Indices: 2453379--2453411 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2453369 TTTCACCAGC
2453379 ATGCCCCAAACGCAT
1 ATGCCCCAAACGCAT
*
2453394 ATGCCCCAAGCGCAT
1 ATGCCCCAAACGCAT
2453409 ATG
1 ATG
2453412 TCATAACCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.36, G:0.18, T:0.15
Consensus pattern (15 bp):
ATGCCCCAAACGCAT
Found at i:2457796 original size:138 final size:137
Alignment explanation
Indices: 2457548--2457970 Score: 546
Period size: 138 Copynumber: 3.1 Consensus size: 137
2457538 TTAAGGTCAA
* * ** * *
2457548 TTGACCTTTCTAATTGCAATAAACTACGGAATATCCCTGATCTATCAGGAGCCATCAACCTTCAA
1 TTGACCTTTCTGATTGCAAGAGTCTAAGGAAAATCCC-GATCTATCAGGAGCCATCAACCTTCAA
* * * *
2457613 AGCTTTTACTGCAATGGGTGTGAAAATTTGGTT-AAGCTGCCTTGCCTTAACCATTTGGCATCTC
65 AGCATTTGCTGCAATGGGTGTGAAAATTTGGTTGAA-CTACCTTGCCTCAACCATTTGGCATCTC
2457677 TTGAAAAAC
129 TTGAAAAAC
* *
2457686 TTGACCTTTCTGGTTGCAAGAGTCTAAGGAAAATCCCGAGTCTATCAAGAGCCATCAACCTTCAA
1 TTGACCTTTCTGATTGCAAGAGTCTAAGGAAAATCCCGA-TCTATCAGGAGCCATCAACCTTCAA
* *
2457751 AGCATTTGCTGCAATGGGTGTGAAAATTTGATTGAACTACCTTGCCTCAACCACTTGGCATCTCT
65 AGCATTTGCTGCAATGGGTGTGAAAATTTGGTTGAACTACCTTGCCTCAACCATTTGGCATCTCT
2457816 TGAAAAAC
130 TGAAAAAC
* * * * *
2457824 TTGGCCTTTCTGACTGCAAGAGTCTAATGG-AGATCCCTAATCTATCAGGAGCCATCAACCTCCA
1 TTGACCTTTCTGATTGCAAGAGTCTAA-GGAAAATCCC-GATCTATCAGGAGCCATCAACCTTCA
* * * *
2457888 AAGCCTTTGCTGCAATGGGTGTGAAAATTTGGTTGAAATACCTTCCCTCAACCAATTT-GTATCT
64 AAGCATTTGCTGCAATGGGTGTGAAAATTTGGTTGAACTACCTTGCCTCAACC-ATTTGGCATCT
**
2457952 CTTGAAATCC
128 CTTGAAAAAC
2457962 TTGACCTTT
1 TTGACCTTT
2457971 ATTGTTGCAG
Statistics
Matches: 250, Mismatches: 30, Indels: 10
0.86 0.10 0.03
Matches are distributed among these distances:
137 2 0.01
138 240 0.96
139 8 0.03
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (137 bp):
TTGACCTTTCTGATTGCAAGAGTCTAAGGAAAATCCCGATCTATCAGGAGCCATCAACCTTCAAA
GCATTTGCTGCAATGGGTGTGAAAATTTGGTTGAACTACCTTGCCTCAACCATTTGGCATCTCTT
GAAAAAC
Found at i:2458001 original size:138 final size:137
Alignment explanation
Indices: 2457580--2458091 Score: 516
Period size: 138 Copynumber: 3.7 Consensus size: 137
2457570 ACTACGGAAT
* * *
2457580 ATCCCTGATCTATCAGGAGCCATCAACCTTCAAAGCTTTTACTGCAATGGGTGTGAAAATTTGGT
1 ATCCCTAATCTATCAGGAGCCATCAACCTTCAAAGCATTTGCTGCAATGGGTGTGAAAATTTGGT
* * *
2457645 T-AAGCTGCCTTGCCTTAACC-ATTTGGCATCTCTTGAAAAACTTGACCTTTCTGGTTGCAAGAG
66 TGAA-CTACCTTGCCTCAACCAATTT-GCATCTCTTGAAAAACTTGACCTTT-TTGTTGCAAGAG
* *
2457708 TCTAAGGAAA
128 TCTAAGTAAG
* * * *
2457718 ATCCCGAGTCTATCAAGAGCCATCAACCTTCAAAGCATTTGCTGCAATGGGTGTGAAAATTTGAT
1 ATCCCTAATCTATCAGGAGCCATCAACCTTCAAAGCATTTGCTGCAATGGGTGTGAAAATTTGGT
* * * * *
2457783 TGAACTACCTTGCCTCAACCACTTGGCATCTCTTGAAAAACTTGGCCTTTCTGACTGCAAGAGTC
66 TGAACTACCTTGCCTCAACCAATTTGCATCTCTTGAAAAACTTGACCTTTTTG-TTGCAAGAGTC
*
2457848 TAA-TGGAG
130 TAAGT-AAG
* *
2457856 ATCCCTAATCTATCAGGAGCCATCAACCTCCAAAGCCTTTGCTGCAATGGGTGTGAAAATTTGGT
1 ATCCCTAATCTATCAGGAGCCATCAACCTTCAAAGCATTTGCTGCAATGGGTGTGAAAATTTGGT
* * * ** * * *
2457921 TGAAATACCTTCCCTCAACCAATTTGTATCTCTTGAAATCCTTGACCTTTATTGTTGCAGGAATT
66 TGAACTACCTTGCCTCAACCAATTTGCATCTCTTGAAAAACTTGACCTTT-TTGTTGCAAGAGTC
2457986 TAAGTAAG
130 TAAGTAAG
* * ** * * * *** *
2457994 ATTCCTAATCCATTTGTAGCCATCAACCTT-AAATCACTTAAG-TGCAATTACTGT-ACAAGTTT
1 ATCCCTAATCTATCAGGAGCCATCAACCTTCAAAGCA-TT-TGCTGCAATGGGTGTGA-AAATTT
* *
2458056 GGTTGAACTACCTAGCCTCAATC-ATTTGGCATCTCT
63 GGTTGAACTACCTTGCCTCAACCAATTT-GCATCTCT
2458092 CAAAGAGCTT
Statistics
Matches: 308, Mismatches: 56, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
137 10 0.03
138 290 0.94
139 8 0.03
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (137 bp):
ATCCCTAATCTATCAGGAGCCATCAACCTTCAAAGCATTTGCTGCAATGGGTGTGAAAATTTGGT
TGAACTACCTTGCCTCAACCAATTTGCATCTCTTGAAAAACTTGACCTTTTTGTTGCAAGAGTCT
AAGTAAG
Found at i:2458064 original size:276 final size:276
Alignment explanation
Indices: 2457580--2458091 Score: 622
Period size: 276 Copynumber: 1.9 Consensus size: 276
2457570 ACTACGGAAT
* * *
2457580 ATCCCTGATCTATCAGGAGCCATCAACCTTCAAAGCTTTTACTGCAATGGGTGTGAAAATTTGGT
1 ATCCCTAATCTATCAGGAGCCATCAACCTCCAAAGCCTTTACTGCAATGGGTGTGAAAATTTGGT
* * * * * *
2457645 TAAGCTGCCTTGCCTTAACCATTTGGCATCTCTTGAAAAACTTGACCTTTCTGGTTGCAAGAGTC
66 TAAGATACCTTCCCTCAACCATTTGGCATCTCTTGAAAAACTTGACCTTTATGGTTGCAAGAATC
* * * **
2457710 TAAGGAAAATCCCGAGTCTATCAAGAGCCATCAACCTTCAAAGCATTTGCTGCAATGGGTGTGAA
131 TAAGGAAAATCCCGAATCCATCAAGAGCCATCAACCTTCAAAGCATTAGCTGCAATGACTGTGAA
*
2457775 AATTTGATTGAACTACCTTGCCTCAACCACTTGGCATCTCTTGAAAAACTTGGCCTTTCTGACTG
196 AATTTGATTGAACTACCTAGCCTCAACCACTTGGCATCTCTTGAAAAACTTGGCCTTTCTGACTG
2457840 CAAGAGTCTAATGGAG
261 CAAGAGTCTAATGGAG
*
2457856 ATCCCTAATCTATCAGGAGCCATCAACCTCCAAAGCCTTTGCTGCAATGGGTGTGAAAATTTGGT
1 ATCCCTAATCTATCAGGAGCCATCAACCTCCAAAGCCTTTACTGCAATGGGTGTGAAAATTTGGT
* ** * *
2457921 TGAA-ATACCTTCCCTCAACCAATTT-GTATCTCTTGAAATCCTTGACCTTTATTGTTGCAGGAA
66 T-AAGATACCTTCCCTCAACC-ATTTGGCATCTCTTGAAAAACTTGACCTTTATGGTTGCAAGAA
* * * * * ** * *
2457984 TTTAAGTAAGATTCCTAATCCAT-TTGTAGCCATCAACCTT-AAATCACTTAAG-TGCAATTACT
129 TCTAAGGAAAATCCCGAATCCATCAAG-AGCCATCAACCTTCAAAGCA-TT-AGCTGCAATGACT
* * * *
2458046 GT-ACAAGTTTGGTTGAACTACCTAGCCTCAATCATTTGGCATCTCT
191 GTGA-AAATTTGATTGAACTACCTAGCCTCAACCACTTGGCATCTCT
2458092 CAAAGAGCTT
Statistics
Matches: 196, Mismatches: 34, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
275 7 0.04
276 182 0.93
277 7 0.04
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (276 bp):
ATCCCTAATCTATCAGGAGCCATCAACCTCCAAAGCCTTTACTGCAATGGGTGTGAAAATTTGGT
TAAGATACCTTCCCTCAACCATTTGGCATCTCTTGAAAAACTTGACCTTTATGGTTGCAAGAATC
TAAGGAAAATCCCGAATCCATCAAGAGCCATCAACCTTCAAAGCATTAGCTGCAATGACTGTGAA
AATTTGATTGAACTACCTAGCCTCAACCACTTGGCATCTCTTGAAAAACTTGGCCTTTCTGACTG
CAAGAGTCTAATGGAG
Found at i:2461074 original size:16 final size:17
Alignment explanation
Indices: 2461050--2461082 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2461040 CGAGGTGTCA
2461050 CATTGACTTTT-CAAAG
1 CATTGACTTTTACAAAG
*
2461066 CATTTACTTTTACAAAG
1 CATTGACTTTTACAAAG
2461083 TGACTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.39
Consensus pattern (17 bp):
CATTGACTTTTACAAAG
Found at i:2462503 original size:21 final size:21
Alignment explanation
Indices: 2462477--2462526 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
2462467 AATAAGTGTA
* *
2462477 CCAAAGTATCGCATATATGTT
1 CCAAAGGATCACATATATGTT
* *
2462498 CCAAAGGATTACATATATGTC
1 CCAAAGGATCACATATATGTT
*
2462519 CCGAAGGA
1 CCAAAGGA
2462527 CCACGTAGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (21 bp):
CCAAAGGATCACATATATGTT
Found at i:2463601 original size:20 final size:20
Alignment explanation
Indices: 2463573--2463610 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2463563 ACTACCAACC
*
2463573 CAAAGTCAACGGTCAACAAT
1 CAAAATCAACGGTCAACAAT
2463593 CAAAATCAACGGTCAACA
1 CAAAATCAACGGTCAACA
2463611 GGTCGGGTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.26, G:0.13, T:0.13
Consensus pattern (20 bp):
CAAAATCAACGGTCAACAAT
Found at i:2464042 original size:4 final size:4
Alignment explanation
Indices: 2464033--2464065 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
2464023 CGTACAGTAG
2464033 GAAA GAAA GAAA GAAA GAAA GAAGA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAA-A GAAA GAAA
2464066 AAGTGGGAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:2467925 original size:138 final size:138
Alignment explanation
Indices: 2467765--2468771 Score: 1289
Period size: 138 Copynumber: 7.3 Consensus size: 138
2467755 ATGGGTGTTT
2467765 AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATT
1 AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATT
2467830 GCAAGAATTTAAGGAAGATTCCTAATCCATTTGGAGCCATCAACCTTAAATCACTTAAGTGCAAA
66 GCAAGAATTTAAGGAAGATTCCTAATCCATTTGGAGCCATCAACCTTAAATCACTTAAGTGCAAA
2467895 TACTGTAC
131 TACTGTAC
2467903 AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATT
1 AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATT
* *
2467968 GCAAGAATTTAAGGAAGATTCCTAATCCATTTGGAGCCATCAACCTTAAATCACTTAATTG-TAA
66 GCAAGAATTTAAGGAAGATTCCTAATCCATTTGGAGCCATCAACCTTAAATCACTTAAGTGCAAA
** **
2468032 TGGGTGTTT
131 T-ACTGTAC
2468041 AAGTTTGGTTGAACTACCTT-CCTCAACCAG-TGG-ATCTC-TGAAAGCCTTGACC-TTC-TATT
1 AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATT
*
2468100 GCATGAATTTAAGGAAGATTCCTAATCCATTTGGAGCCATCAACCTTAAATCACTTAAGTGCAAA
66 GCAAGAATTTAAGGAAGATTCCTAATCCATTTGGAGCCATCAACCTTAAATCACTTAAGTGCAAA
*
2468165 TACTTTAC
131 TACTGTAC
2468173 AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATT
1 AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATT
2468238 GCAAGAATTTAAGGAAGATTCCTAATCCATTTGGAGCCATCAACCTTAAATCACTTAAGTGCAAA
66 GCAAGAATTTAAGGAAGATTCCTAATCCATTTGGAGCCATCAACCTTAAATCACTTAAGTGCAAA
2468303 TACTGTAC
131 TACTGTAC
* * **
2468311 AAGTTTGGTTGAACTACCTTCGCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTACTGGTT
1 AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATT
** * * * * * ** * *
2468376 GCTGGAGTCTGAGGAAGATCCCTAATCTATCAGGAGTCATCAACCTTCAAAGT--CTT-TGCTGC
66 GCAAGAATTTAAGGAAGATTCCTAATCCATTTGGAGCCATCAACCTT-AAA-TCACTTAAG-TGC
**
2468438 -AATGGGTGTGA-
128 AAAT-ACTGT-AC
2468449 AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATT
1 AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATT
* * * * ** * ***
2468514 GCAAGAGTCTAGAGG-AGATCCCTAATCTATCAGGAGCCATCAACCTTCAAAGC-CTTTCCTGC-
66 GCAAGAATTTA-AGGAAGATTCCTAATCCATTTGGAGCCATCAACCTT-AAATCACTTAAGTGCA
**
2468576 AATGGGTGTGA-
129 AAT-ACTGT-AC
* * *
2468587 AATTTTGTTTGTACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATT
1 AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATT
* * * * ** *
2468652 GCAAGAGTCTTATGTG--GATCCCTAATCTATCAGGAGCCATCAACCTTAAATCACTTGAGTGCA
66 GCAAGAAT-TTAAG-GAAGATTCCTAATCCATTTGGAGCCATCAACCTTAAATCACTTAAGTGCA
* *
2468715 ATTACTGTAT
129 AATACTGTAC
* * *
2468725 AAGTTT-GTTGGAACTACCTTGCCTCAACCATTTGGCATCTCTT-AAAG
1 AAGTTTGGTT-GAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAG
2468772 AGCTTGGACT
Statistics
Matches: 785, Mismatches: 62, Indels: 45
0.88 0.07 0.05
Matches are distributed among these distances:
132 85 0.11
133 16 0.02
134 17 0.02
135 10 0.01
136 17 0.02
137 31 0.04
138 596 0.76
139 12 0.02
140 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (138 bp):
AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATT
GCAAGAATTTAAGGAAGATTCCTAATCCATTTGGAGCCATCAACCTTAAATCACTTAAGTGCAAA
TACTGTAC
Found at i:2468458 original size:408 final size:413
Alignment explanation
Indices: 2467677--2468771 Score: 1441
Period size: 408 Copynumber: 2.7 Consensus size: 413
2467667 TTAAGGTCAA
* * * *
2467677 TTGACCTTTCTGATTGCAACACTCT-GAGGAAGATCCCTAATCTATCAGGAGCCATCAACCTTCA
1 TTGACCTTTCTTATTGCAAGAATCTAGAGG-AGATCCCTAATCCATCAGGAGCCATCAACCTTCA
** ** **
2467741 AAGCCTTTGCTGCAATGGGTGTTTAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTC
65 AAGCCTTAACTGCAATGACTGTGAAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTC
2467806 TTGAAAGCCTTGACCTTTCTTATTGCAAGAATTTAAGGAAGATTCCTAATCCATTTGGAGCCATC
130 TTGAAAGCCTTGACCTTTCTTATTGCAAGAATTTAAGGAAGATTCCTAATCCATTTGGAGCCATC
*
2467871 AACCTTAAATCACTTAAGTGCAAATACTGTACAAGTTTGGTTGAACTACCTTCCCTCAACCAGTT
195 AACCTTAAATCACTTAAGTGCAAATACTGTACAAGTTTGGTTGAACTACCTTCGCTCAACCAGTT
* * * * **
2467936 GGTATCTCTTGAAAGCCTTGACCTTTCTTATTGCAAGAATTTAAGGAAGATTCCTAATCCATTTG
260 GGTATCTCTTGAAAGCCTTGACCTTACTGATTGCAAGAATCTAAGGAAGATCCCTAATCCATCAG
* * **
2468001 GAGCCATCAACCTTAAATCACTTAATTGTAATGGGTGTTTAAGTTTGGTTGAACTACCTT-CCTC
325 GAGCCATCAACCTTAAAT-ACTTAACTGCAATGGGTGTGAAAGTTTGGTTGAACTACCTTCCCTC
2468065 AACCAG-TGG-ATCTC-TGAAAGCC
389 AACCAGTTGGTATCTCTTGAAAGCC
* * * **
2468087 TTGACC-TTC-TATTGCATGAATTTA-AGGAAGATTCCTAATCCATTTGGAGCCATCAACCTT-A
1 TTGACCTTTCTTATTGCAAGAATCTAGAGG-AGATCCCTAATCCATCAGGAGCCATCAACCTTCA
* * *
2468148 AATCACTTAAGTGCAAAT-ACT-TTACAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTAT
65 AAGC-CTTAACTGC-AATGACTGTGA-AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTAT
2468211 CTCTTGAAAGCCTTGACCTTTCTTATTGCAAGAATTTAAGGAAGATTCCTAATCCATTTGGAGCC
127 CTCTTGAAAGCCTTGACCTTTCTTATTGCAAGAATTTAAGGAAGATTCCTAATCCATTTGGAGCC
2468276 ATCAACCTTAAATCACTTAAGTGCAAATACTGTACAAGTTTGGTTGAACTACCTTCGCTCAACCA
192 ATCAACCTTAAATCACTTAAGTGCAAATACTGTACAAGTTTGGTTGAACTACCTTCGCTCAACCA
* ** * * *
2468341 GTTGGTATCTCTTGAAAGCCTTGACCTTACTGGTTGCTGGAGTCTGAGGAAGATCCCTAATCTAT
257 GTTGGTATCTCTTGAAAGCCTTGACCTTACTGATTGCAAGAATCTAAGGAAGATCCCTAATCCAT
* **
2468406 CAGGAGTCATCAACCTTCAAAGT-CTTTGCTGCAATGGGTGTGAAAGTTTGGTTGAACTACCTTC
322 CAGGAGCCATCAACCTT-AAA-TACTTAACTGCAATGGGTGTGAAAGTTTGGTTGAACTACCTTC
2468470 CCTCAACCAGTTGGTATCTCTTGAAAGCC
385 CCTCAACCAGTTGGTATCTCTTGAAAGCC
* *
2468499 TTGACCTTTCTTATTGCAAGAGTCTAGAGGAGATCCCTAATCTATCAGGAGCCATCAACCTTCAA
1 TTGACCTTTCTTATTGCAAGAATCTAGAGGAGATCCCTAATCCATCAGGAGCCATCAACCTTCAA
** ** * * *
2468564 AGCCTTTCCTGCAATGGGTGTGAAATTTTGTTTGTACTACCTTCCCTCAACCAGTTGGTATCTCT
66 AGCCTTAACTGCAATGACTGTGAAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCT
* * * * **
2468629 TGAAAGCCTTGACCTTTCTTATTGCAAGAGTCTTATGTG--GATCCCTAATCTATCAGGAGCCAT
131 TGAAAGCCTTGACCTTTCTTATTGCAAGAAT-TTAAG-GAAGATTCCTAATCCATTTGGAGCCAT
* * *
2468692 CAACCTTAAATCACTTGAGTGCAATTACTGTATAAGTTT-GTTGGAACTACCTT-GCCTCAACCA
194 CAACCTTAAATCACTTAAGTGCAAATACTGTACAAGTTTGGTT-GAACTACCTTCG-CTCAACCA
* *
2468755 TTTGGCATCTCTT-AAAG
257 GTTGGTATCTCTTGAAAG
2468772 AGCTTGGACT
Statistics
Matches: 601, Mismatches: 64, Indels: 37
0.86 0.09 0.05
Matches are distributed among these distances:
407 6 0.01
408 318 0.53
409 19 0.03
410 10 0.02
411 5 0.01
412 14 0.02
413 14 0.02
414 201 0.33
415 13 0.02
416 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (413 bp):
TTGACCTTTCTTATTGCAAGAATCTAGAGGAGATCCCTAATCCATCAGGAGCCATCAACCTTCAA
AGCCTTAACTGCAATGACTGTGAAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCT
TGAAAGCCTTGACCTTTCTTATTGCAAGAATTTAAGGAAGATTCCTAATCCATTTGGAGCCATCA
ACCTTAAATCACTTAAGTGCAAATACTGTACAAGTTTGGTTGAACTACCTTCGCTCAACCAGTTG
GTATCTCTTGAAAGCCTTGACCTTACTGATTGCAAGAATCTAAGGAAGATCCCTAATCCATCAGG
AGCCATCAACCTTAAATACTTAACTGCAATGGGTGTGAAAGTTTGGTTGAACTACCTTCCCTCAA
CCAGTTGGTATCTCTTGAAAGCC
Found at i:2469599 original size:25 final size:27
Alignment explanation
Indices: 2469555--2469608 Score: 94
Period size: 25 Copynumber: 2.1 Consensus size: 27
2469545 GTTTAATAAG
2469555 GATATGATTATAAGAGACAATGATTAT
1 GATATGATTATAAGAGACAATGATTAT
2469582 GATATGA-T-TAAGAGACAATGATTAT
1 GATATGATTATAAGAGACAATGATTAT
2469607 GA
1 GA
2469609 GGAGGCATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 19 0.70
26 1 0.04
27 7 0.26
ACGTcount: A:0.44, C:0.04, G:0.20, T:0.31
Consensus pattern (27 bp):
GATATGATTATAAGAGACAATGATTAT
Found at i:2472081 original size:21 final size:21
Alignment explanation
Indices: 2472065--2472106 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
2472055 CATATAATTA
2472065 AATGTAGAAATATTATAAAAT
1 AATGTAGAAATATTATAAAAT
2472086 AATGTAGAAATATTATAAAAT
1 AATGTAGAAATATTATAAAAT
2472107 TAAGGATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (21 bp):
AATGTAGAAATATTATAAAAT
Found at i:2472975 original size:24 final size:24
Alignment explanation
Indices: 2472927--2472986 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
2472917 GGGTGTTTTT
*
2472927 GAATTTTTTTTAATTCTTTTTTTA
1 GAATTTTTTTTAATTCTTTTATTA
2472951 GAATTTTTTATGT-ATTC-TTTATTA
1 GAATTTTTT-T-TAATTCTTTTATTA
*
2472975 GTAATTTGTTTT
1 G-AATTTTTTTT
2472987 CAAACCCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
23 1 0.03
24 17 0.55
25 12 0.39
26 1 0.03
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.67
Consensus pattern (24 bp):
GAATTTTTTTTAATTCTTTTATTA
Found at i:2473871 original size:24 final size:24
Alignment explanation
Indices: 2473858--2473976 Score: 168
Period size: 24 Copynumber: 5.0 Consensus size: 24
2473848 AAACATAATT
* *
2473858 CATGTCAAGTATCATATCAAAATC
1 CATGTCAAGTATCAGATCAGAATC
* *
2473882 CAGGTCAAGTATCAGATCATAATC
1 CATGTCAAGTATCAGATCAGAATC
*
2473906 CAAGTCAAGTATCAGATCAGAATC
1 CATGTCAAGTATCAGATCAGAATC
*
2473930 CATGTC-AGATATCATATCAGAATC
1 CATGTCAAG-TATCAGATCAGAATC
2473954 CATGTCAAGTATCAGATCAGAAT
1 CATGTCAAGTATCAGATCAGAAT
2473977 TCAAATCGAA
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 2 0.02
24 81 0.95
25 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.26
Consensus pattern (24 bp):
CATGTCAAGTATCAGATCAGAATC
Found at i:2473994 original size:72 final size:72
Alignment explanation
Indices: 2473858--2473994 Score: 179
Period size: 72 Copynumber: 1.9 Consensus size: 72
2473848 AAACATAATT
* * * *
2473858 CATGTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGATCATAATCCAAGTCAAGTATCAGAT
1 CATGTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAATCAAGAAGCAGAT
2473923 CAGAATC
66 CAGAATC
* * *
2473930 CATGTC-AGATATCATATCAGAATCCATGTCAAGTATCAGATCAGAATTCAAATCGAA-AAGCAG
1 CATGTCAAG-TATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAATC-AAGAAGCAG
2473993 AT
64 AT
2473995 AAAATATTCA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
71 2 0.04
72 52 0.93
73 2 0.04
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.25
Consensus pattern (72 bp):
CATGTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAATCAAGAAGCAGAT
CAGAATC
Found at i:2484579 original size:138 final size:138
Alignment explanation
Indices: 2484326--2484734 Score: 714
Period size: 138 Copynumber: 3.0 Consensus size: 138
2484316 AAGGTCAATT
2484326 GACCTTTCTGGTTGCAAGAGTCTAGTGG-AGATCCCTAATCTATCAGGAGCCATCAAGCTTCAAA
1 GACCTTTCTGGTTGCAAGAGTCTAG-GGAAGATCCCTAATCTATCAGGAGCCATCAAGCTTCAAA
*
2484390 GCCTTTGCTGCAATGGGTGTGAAAGTTTGGTTGAACTACTTTCCCTCAACCAGTTGGAATCTCTT
65 GCCTTTGCTGCAATGGGTGTGAAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGAATCTCTT
2484455 GAAAGCCTC
130 GAAAGCCTC
* * *
2484464 GACCTTTCTGGTTGCAAGAGTCTTGGGAAGATCCCTAATCTATCAGAAGCCATAAAGCTTCAAAG
1 GACCTTTCTGGTTGCAAGAGTCTAGGGAAGATCCCTAATCTATCAGGAGCCATCAAGCTTCAAAG
*
2484529 CCTTTGCTGCAATGGGTGTGAAAGTTTGGTTGAACTACCTTCCCTTAACCAGTTGGAATCTCTTG
66 CCTTTGCTGCAATGGGTGTGAAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGAATCTCTTG
*
2484594 AAAGCCTT
131 AAAGCCTC
* *
2484602 GACCTTTCTGGTTGCAAGAGTCTGGGGAAGATCCCCAATCTATCAGGAGCCATCAAGCTTCAAAG
1 GACCTTTCTGGTTGCAAGAGTCTAGGGAAGATCCCTAATCTATCAGGAGCCATCAAGCTTCAAAG
*
2484667 CCTTTGCTGCAATGGGTGTGAAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGCATCTCTT-
66 CCTTTGCTGCAATGGGTGTGAAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGAATCTCTTG
2484731 AAAG
131 AAAG
2484735 AGCTTGGTCT
Statistics
Matches: 258, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
137 6 0.02
138 252 0.98
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (138 bp):
GACCTTTCTGGTTGCAAGAGTCTAGGGAAGATCCCTAATCTATCAGGAGCCATCAAGCTTCAAAG
CCTTTGCTGCAATGGGTGTGAAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGAATCTCTTG
AAAGCCTC
Found at i:2486382 original size:26 final size:26
Alignment explanation
Indices: 2486349--2486455 Score: 196
Period size: 26 Copynumber: 4.1 Consensus size: 26
2486339 ATATGATTTG
2486349 GACTTCAAATATTAATGTCATCCTTT
1 GACTTCAAATATTAATGTCATCCTTT
2486375 GACTTCAAATATTAATGTCATCCTTT
1 GACTTCAAATATTAATGTCATCCTTT
2486401 GACTTCAAATATTAATGTCATCCTTT
1 GACTTCAAATATTAATGTCATCCTTT
*
2486427 GACTTCAAATATTACAAGTCATCCTTT
1 GACTTCAAATATTA-ATGTCATCCTTT
2486454 GA
1 GA
2486456 AATGTTGTTT
Statistics
Matches: 79, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
26 66 0.84
27 13 0.16
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (26 bp):
GACTTCAAATATTAATGTCATCCTTT
Found at i:2489177 original size:91 final size:91
Alignment explanation
Indices: 2489061--2489255 Score: 284
Period size: 91 Copynumber: 2.1 Consensus size: 91
2489051 AATTAAATTC
2489061 TTATCTTTATAAAAACCTTTCTTCATAGAATTAAATGCAAAAATATTATTAA-AAAATGAAGCGT
1 TTATCTTTAT-AAAACCTTTCTTCATAGAATTAAATGCAAAAATATTA-TAAGAAAATGAAGCGT
* *
2489125 AGTTTACCAAGCAAACTTGACAATGTTA
64 AGTTTACCAAGCAAACTTGACAAAGCTA
** * *
2489153 TTATCTTTATAAAACCTTTCTTCATAGAATTAAATTTAGATATATTATAAGAAAATGAAGCGTAG
1 TTATCTTTATAAAACCTTTCTTCATAGAATTAAATGCAAAAATATTATAAGAAAATGAAGCGTAG
* * *
2489218 TTTAGCAAGTAAACTTGACAAAGCTC
66 TTTACCAAGCAAACTTGACAAAGCTA
2489244 TTATCTTTATAA
1 TTATCTTTATAA
2489256 TAAGAATTAA
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
90 3 0.03
91 80 0.86
92 10 0.11
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (91 bp):
TTATCTTTATAAAACCTTTCTTCATAGAATTAAATGCAAAAATATTATAAGAAAATGAAGCGTAG
TTTACCAAGCAAACTTGACAAAGCTA
Found at i:2489418 original size:59 final size:59
Alignment explanation
Indices: 2489303--2489422 Score: 147
Period size: 59 Copynumber: 2.0 Consensus size: 59
2489293 ACTTATTTCA
* * * *
2489303 AATTGGTCCCTAAACTTTTAAGTGTTTCAATTTCATTCCTAAACTATGATTATCATTCT
1 AATTAGTCCCTAAACTTTTAAGTATTTCAATTTCATTCATAAACTATGAATATCATTCT
*
2489362 AATTAGTCCTTAAACTTTTGAA-TATTTCAATTTCA-TCATCAAACTATGACAT-TCATTCT
1 AATTAGTCCCTAAACTTTT-AAGTATTTCAATTTCATTCAT-AAACTATGA-ATATCATTCT
2489421 AA
1 AA
2489423 ATTGATCCTC
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
58 3 0.06
59 47 0.89
60 3 0.06
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (59 bp):
AATTAGTCCCTAAACTTTTAAGTATTTCAATTTCATTCATAAACTATGAATATCATTCT
Found at i:2493027 original size:138 final size:137
Alignment explanation
Indices: 2492764--2493083 Score: 391
Period size: 138 Copynumber: 2.3 Consensus size: 137
2492754 ACTGTGCAAA
*
2492764 TTTGGTTGAACTACCTTGCCTCAACCATTTGGCT-TCTCTTGAAAAGCTTGGCCTTTCTGACTGC
1 TTTGGTTGAACTACCTTGCCTCAACCATTTGG-TATCTCTTG-AAAGCTTGACCTTTCTGACTGC
* * * * *
2492828 AAGAGTCTAGTGGAGATTCCTAATCTATCAGGAGCCATCAACCTTCAAATCCTTTGCTGCAATGG
64 AAGAATCTAGTGAAGATTCCTAATCCATCAGGAGCCATCAACCTTCAAATCCTTAGCTGCAATGA
* *
2492893 GTGTGGAAG
129 CTGTAGAAG
* * * *
2492902 TTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATTGCA
1 TTTGGTTGAACTACCTTGCCTCAACCATTTGGTATCTCTTGAAAG-CTTGACCTTTCTGACTGCA
*
2492967 AGAATTTACG-GAAGATTCCTAATCCATTC-GGAGCCATCAACCTT-AAATCACTTAAG-TGCAA
65 AGAATCTA-GTGAAGATTCCTAATCCA-TCAGGAGCCATCAACCTTCAAATC-CTT-AGCTGCAA
* *
2493028 TTACTGTATAAG
126 TGACTGTAGAAG
*
2493040 TTTGGTTGAACTACCTTGCCTCAACCATTTGGCATCTCTT-AAAG
1 TTTGGTTGAACTACCTTGCCTCAACCATTTGGTATCTCTTGAAAG
2493084 GGCTTGGGCT
Statistics
Matches: 158, Mismatches: 18, Indels: 13
0.84 0.10 0.07
Matches are distributed among these distances:
137 14 0.09
138 140 0.89
139 4 0.03
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (137 bp):
TTTGGTTGAACTACCTTGCCTCAACCATTTGGTATCTCTTGAAAGCTTGACCTTTCTGACTGCAA
GAATCTAGTGAAGATTCCTAATCCATCAGGAGCCATCAACCTTCAAATCCTTAGCTGCAATGACT
GTAGAAG
Found at i:2494912 original size:91 final size:91
Alignment explanation
Indices: 2494805--2495020 Score: 249
Period size: 91 Copynumber: 2.4 Consensus size: 91
2494795 TTTTTTATAC
* * **
2494805 TTCTTCAT-GTAATTAAATGTAGAAATATTATAAAATAATGAAGTGTAATTTA-TTAGTAAACAT
1 TTCTTCATAG-AATTAAATGTAGAAATATTATAAAAAAAT-AAGCGTAATTTACCAAGTAAACAT
2494868 GACAATAATATTATCTTTATAAAAACCT
64 GACAATAATATTATCTTTATAAAAACCT
* * *
2494896 TTCTTCATAGAATTAAATGCA-AAATATTATTAAAAAAATAAGCGTAGTTTACCAAGTAAACTTG
1 TTCTTCATAGAATTAAATGTAGAAATATTA-TAAAAAAATAAGCGTAATTTACCAAGTAAACATG
** *
2494960 ACAATGCTCTTATCTTTATAAAAACCT
65 ACAATAATATTATCTTTATAAAAACCT
* * * * *
2494987 TTCTCCATAGAATTAGATCTAGAGATTTTATAAA
1 TTCTTCATAGAATTAAATGTAGAAATATTATAAA
2495021 GAAAGGGTAA
Statistics
Matches: 105, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
90 18 0.17
91 80 0.76
92 7 0.07
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (91 bp):
TTCTTCATAGAATTAAATGTAGAAATATTATAAAAAAATAAGCGTAATTTACCAAGTAAACATGA
CAATAATATTATCTTTATAAAAACCT
Found at i:2497060 original size:24 final size:23
Alignment explanation
Indices: 2497041--2497145 Score: 102
Period size: 24 Copynumber: 4.3 Consensus size: 23
2497031 ATAATCCAGA
2497041 TCAAGTATCAGATCAAAATCTAGG
1 TCAAGTATC-GATCAAAATCTAGG
* * *
2497065 TCAAGTATCGGATAAAAAATCGAGC
1 TCAAGTATC-GAT-CAAAATCTAGG
*
2497090 TCAAGTATTCGATCAGAATCTAGG
1 TCAAGTA-TCGATCAAAATCTAGG
* *
2497114 TCAAGTATCCGATCAGAATCTAAG
1 TCAAGTAT-CGATCAAAATCTAGG
*
2497138 TCAGGTAT
1 TCAAGTAT
2497146 TATAATAGAA
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
23 1 0.01
24 47 0.69
25 18 0.26
26 2 0.03
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (23 bp):
TCAAGTATCGATCAAAATCTAGG
Found at i:2497093 original size:25 final size:24
Alignment explanation
Indices: 2497041--2497097 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
2497031 ATAATCCAGA
* * *
2497041 TCAAGTATCAGATCAAAATCTAGG
1 TCAAGTATCAGATAAAAATCGAGC
*
2497065 TCAAGTATCGGATAAAAAATCGAGC
1 TCAAGTATCAGAT-AAAAATCGAGC
2497090 TCAAGTAT
1 TCAAGTAT
2497098 TCGATCAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.25
Consensus pattern (24 bp):
TCAAGTATCAGATAAAAATCGAGC
Found at i:2501709 original size:24 final size:24
Alignment explanation
Indices: 2501682--2501756 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
2501672 TATATCAAAA
*
2501682 ATCAAAACATAATCCAGATCAAGT
1 ATCAAAACAAAATCCAGATCAAGT
* * *
2501706 ATCAGATCAAAATCCAGGTCAAGT
1 ATCAAAACAAAATCCAGATCAAGT
* *
2501730 ATCAGATAA-AAAATCTAGGTCAAGT
1 ATCA-A-AACAAAATCCAGATCAAGT
2501755 AT
1 AT
2501757 TCGATCAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
24 24 0.57
25 17 0.40
26 1 0.02
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (24 bp):
ATCAAAACAAAATCCAGATCAAGT
Found at i:2501771 original size:24 final size:24
Alignment explanation
Indices: 2501692--2501799 Score: 137
Period size: 24 Copynumber: 4.5 Consensus size: 24
2501682 ATCAAAACAT
*
2501692 AATCCAGATCAAGTATCAGATCAA
1 AATCCAGGTCAAGTATCAGATCAA
*
2501716 AATCCAGGTCAAGTATCAGATAAAA
1 AATCCAGGTCAAGTATCAGAT-CAA
*
2501741 AATCTAGGTCAAGTATTC-GATCAA
1 AATCCAGGTCAAGTA-TCAGATCAA
* * *
2501765 AATCTAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCAGATCAA
2501789 AATCCAGGTCA
1 AATCCAGGTCA
2501800 GATATTATAA
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
23 2 0.03
24 52 0.69
25 19 0.25
26 2 0.03
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCAGATCAA
Found at i:2502918 original size:29 final size:27
Alignment explanation
Indices: 2502844--2502923 Score: 69
Period size: 29 Copynumber: 2.9 Consensus size: 27
2502834 CTAAAATCCA
*
2502844 ATATATTATTTATAATTAATTGAAGATTTT
1 ATATATTATTTATAA-T-ATTAAAG-TTTT
2502874 A-ATATT-TTT-TAA-ATTAAAGTTTT
1 ATATATTATTTATAATATTAAAGTTTT
2502897 ATTTATATTATTTATAATATTATAAGT
1 A--TATATTATTTATAATATTA-AAGT
2502924 GAATTTTAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 14
0.74 0.02 0.25
Matches are distributed among these distances:
23 5 0.12
24 6 0.14
26 5 0.12
27 6 0.14
28 6 0.14
29 9 0.21
30 5 0.12
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (27 bp):
ATATATTATTTATAATATTAAAGTTTT
Found at i:2503707 original size:24 final size:25
Alignment explanation
Indices: 2503678--2503727 Score: 93
Period size: 24 Copynumber: 2.0 Consensus size: 25
2503668 ATAATGCATG
2503678 ATATGTTGAAACTC-AAATAAACAA
1 ATATGTTGAAACTCAAAATAAACAA
2503702 ATATGTTGAAACTCAAAATAAACAA
1 ATATGTTGAAACTCAAAATAAACAA
2503727 A
1 A
2503728 ATGATCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.56, C:0.12, G:0.08, T:0.24
Consensus pattern (25 bp):
ATATGTTGAAACTCAAAATAAACAA
Found at i:2505412 original size:32 final size:31
Alignment explanation
Indices: 2505324--2505448 Score: 119
Period size: 32 Copynumber: 3.9 Consensus size: 31
2505314 TTAGTTTGTG
* *
2505324 CAATAAAATAAAATGTTAGTAAGTTAGTAATAA
1 CAAT-AAATAAAA-GTTAGTATGTTAGTAAGAA
* * *
2505357 CAATAAA-AAAAATTAATATGTTAGTAAGAT
1 CAATAAATAAAAGTTAGTATGTTAGTAAGAA
*
2505387 CAAATAAATAAAAGTTAGTATGTTAGCT-CGAA
1 C-AATAAATAAAAGTTAGTATGTTAG-TAAGAA
* *
2505419 CAATAAAATAAAGGTTAGAATGTTAGTAAG
1 CAAT-AAATAAAAGTTAGTATGTTAGTAAG
2505449 TTAGTGACTA
Statistics
Matches: 75, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
30 15 0.20
31 14 0.19
32 41 0.55
33 5 0.07
ACGTcount: A:0.52, C:0.05, G:0.14, T:0.29
Consensus pattern (31 bp):
CAATAAATAAAAGTTAGTATGTTAGTAAGAA
Found at i:2505421 original size:62 final size:65
Alignment explanation
Indices: 2505329--2505448 Score: 151
Period size: 62 Copynumber: 1.9 Consensus size: 65
2505319 TTGTGCAATA
*
2505329 AAATAAAATGTTAGTAAGTTAGTAATAACAATAAAA-AAA-ATTA-ATATGTTAGTAAGATCAAA
1 AAATAAAATGTTAGTAAGTTAGTAAGAACAATAAAATAAAGATTAGA-ATGTTAGTAAGATCAAA
2505391 T
65 T
* * *
2505392 AAATAAAA-GTTAGTATGTTAGCT-CGAACAATAAAATAAAGGTTAGAATGTTAGTAAG
1 AAATAAAATGTTAGTAAGTTAG-TAAGAACAATAAAATAAAGATTAGAATGTTAGTAAG
2505449 TTAGTGACTA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
62 22 0.45
63 12 0.24
64 14 0.29
65 1 0.02
ACGTcount: A:0.52, C:0.04, G:0.15, T:0.29
Consensus pattern (65 bp):
AAATAAAATGTTAGTAAGTTAGTAAGAACAATAAAATAAAGATTAGAATGTTAGTAAGATCAAAT
Found at i:2516504 original size:138 final size:138
Alignment explanation
Indices: 2516253--2516521 Score: 375
Period size: 138 Copynumber: 1.9 Consensus size: 138
2516243 TTAAGGTCAA
* * *
2516253 TTGACCTTTCTGGTTGCAAGAGTCTTGTGGAGATCCCTAATCTATCAGGAGCCATCAATCTTCAA
1 TTGACCTTTCTGATTGCAAGAGTCTAGTGGAGATCCCTAATCTATCAGGAGCCATCAACCTTCAA
* **
2516318 AGCCTTTGCTGCAATGGGTGTGAAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGG-TATCTC
66 AGCCTTAGCTGCAATGACTGTGAAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGCT-TCTC
2516382 TTGAAAGCC
130 TTGAAAGCC
*
2516391 TTGACCTTTCTTATTGCAAGAGTCTAGTGGAGATCCCTAATCTATCAGGAGCCATCAACCTT-AA
1 TTGACCTTTCTGATTGCAAGAGTCTAGTGGAGATCCCTAATCTATCAGGAGCCATCAACCTTCAA
* * * *
2516455 ATCACTTAAG-TGCAATTACTGT-ATAAGTTTGGTTGAACTACCTTGCCTCAACCATTTGGCTTC
66 AGC-CTT-AGCTGCAATGACTGTGA-AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGCTTC
2516518 TCTT
128 TCTT
2516522 ACAGAGCTTG
Statistics
Matches: 116, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
137 5 0.04
138 109 0.94
139 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (138 bp):
TTGACCTTTCTGATTGCAAGAGTCTAGTGGAGATCCCTAATCTATCAGGAGCCATCAACCTTCAA
AGCCTTAGCTGCAATGACTGTGAAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGCTTCTCT
TGAAAGCC
Found at i:2517919 original size:3 final size:3
Alignment explanation
Indices: 2517911--2517951 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
2517901 TTGTTCGGAT
2517911 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2517952 TAAGGCCAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2518825 original size:49 final size:49
Alignment explanation
Indices: 2518771--2518929 Score: 201
Period size: 49 Copynumber: 3.0 Consensus size: 49
2518761 TGATTAGATA
*
2518771 AAACCAATTAATAACTTCGTTTTTAAACAATATAGAGTGATTATAATGT
1 AAACCAATTAATAACTTCGTTTTTAAATAATATAGAGTGATTATAATGT
2518820 AAACCAATTAATAACTTCGTTTTTAAATAATATAGAGTGATTATAATGT
1 AAACCAATTAATAACTTCGTTTTTAAATAATATAGAGTGATTATAATGT
*
2518869 AGCATGCTTTCAGAATTCTTAATAACTTCGTTTTTAAATAATATAGAGTGATTATAATGT
1 A--A-AC---C--AA---TTAATAACTTCGTTTTTAAATAATATAGAGTGATTATAATGT
2518929 A
1 A
2518930 GCATGCTTTC
Statistics
Matches: 97, Mismatches: 2, Indels: 11
0.88 0.02 0.10
Matches are distributed among these distances:
49 49 0.51
51 1 0.01
52 1 0.01
55 1 0.01
57 2 0.02
60 43 0.44
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.39
Consensus pattern (49 bp):
AAACCAATTAATAACTTCGTTTTTAAATAATATAGAGTGATTATAATGT
Found at i:2518900 original size:60 final size:60
Alignment explanation
Indices: 2518827--2518948 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
2518817 TGTAAACCAA
2518827 TTAATAACTTCGTTTTTAAATAATATAGAGTGATTATAATGTAGCATGCTTTCAGAATTC
1 TTAATAACTTCGTTTTTAAATAATATAGAGTGATTATAATGTAGCATGCTTTCAGAATTC
2518887 TTAATAACTTCGTTTTTAAATAATATAGAGTGATTATAATGTAGCATGCTTTCAGAATTC
1 TTAATAACTTCGTTTTTAAATAATATAGAGTGATTATAATGTAGCATGCTTTCAGAATTC
2518947 TT
1 TT
2518949 CTTAGCGATT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (60 bp):
TTAATAACTTCGTTTTTAAATAATATAGAGTGATTATAATGTAGCATGCTTTCAGAATTC
Found at i:2520091 original size:29 final size:30
Alignment explanation
Indices: 2520058--2520115 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
2520048 ATGCCAGACG
*
2520058 TTCTAGTTTAGTGCCCAACGTTT-ATTTCC
1 TTCTAATTTAGTGCCCAACGTTTCATTTCC
* * *
2520087 TTCTAATTTGGTGTCTAACGTTTCATTTC
1 TTCTAATTTAGTGCCCAACGTTTCATTTC
2520116 GGTACTCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.17, C:0.21, G:0.14, T:0.48
Consensus pattern (30 bp):
TTCTAATTTAGTGCCCAACGTTTCATTTCC
Found at i:2520517 original size:35 final size:35
Alignment explanation
Indices: 2520473--2520543 Score: 83
Period size: 35 Copynumber: 2.0 Consensus size: 35
2520463 ATCATCGATC
2520473 GACCGTCGATCAGTCAG-GATTTCATTGGGGG-TTTG
1 GACCGTCGATCAGTC-GCGATTTCA-TGGGGGATTTG
* **
2520508 GACCTTCGATTGGTCGCGATTTCATGGGGGATTTG
1 GACCGTCGATCAGTCGCGATTTCATGGGGGATTTG
2520543 G
1 G
2520544 TTGGCAAGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
34 7 0.23
35 24 0.77
ACGTcount: A:0.15, C:0.17, G:0.35, T:0.32
Consensus pattern (35 bp):
GACCGTCGATCAGTCGCGATTTCATGGGGGATTTG
Found at i:2520831 original size:29 final size:30
Alignment explanation
Indices: 2520785--2520848 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
2520775 CTAAATAAGT
* *
2520785 AACAAAATGAAACTTTAGACACCAAATTGA
1 AACAAAATGAAACATTAGACACCAAACTGA
*
2520815 AACAAAAT-AAACATTAGACACTAAACTGA
1 AACAAAATGAAACATTAGACACCAAACTGA
2520844 AACAA
1 AACAA
2520849 CTGACATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 23 0.74
30 8 0.26
ACGTcount: A:0.58, C:0.17, G:0.08, T:0.17
Consensus pattern (30 bp):
AACAAAATGAAACATTAGACACCAAACTGA
Found at i:2524286 original size:4 final size:4
Alignment explanation
Indices: 2524277--2524321 Score: 63
Period size: 4 Copynumber: 11.2 Consensus size: 4
2524267 AAAAATTGCA
* * *
2524277 ATAT ATAT ATAT ATAT ATAT ATAT ATAT GTAT ATTT ATGT ATAT A
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT A
2524322 ACTTAGATGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (4 bp):
ATAT
Found at i:2524288 original size:6 final size:6
Alignment explanation
Indices: 2524277--2524321 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
2524267 AAAAATTGCA
* * *
2524277 ATATAT ATATAT ATATAT ATATAT ATATGT ATATTT ATGTAT ATA
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATA
2524322 ACTTAGATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (6 bp):
ATATAT
Found at i:2524292 original size:10 final size:10
Alignment explanation
Indices: 2524277--2524321 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
2524267 AAAAATTGCA
2524277 ATATATATAT
1 ATATATATAT
2524287 ATATATATAT
1 ATATATATAT
*
2524297 ATATATATGT
1 ATATATATAT
* *
2524307 ATATTTATGT
1 ATATATATAT
2524317 ATATA
1 ATATA
2524322 ACTTAGATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (10 bp):
ATATATATAT
Found at i:2526387 original size:83 final size:84
Alignment explanation
Indices: 2526279--2526461 Score: 223
Period size: 83 Copynumber: 2.2 Consensus size: 84
2526269 TGTGCCAACA
*
2526279 GTATCGATACTGACCCCTTGGGTATCGATACTCATC-TGAGTATTGATACCAAAAATTGGCTTCG
1 GTATCGATACTGACCCCTTGGGTATCGATACTC-TCGTGAGTATTGATACC-AAAATTGACTTCG
2526343 ATGTTTT-GAAAAATACCT-T
64 ATGTTTTCGAAAAATACCTCT
* ** *
2526362 GGTATCGATACTCTA-CCC-TGGGTATCGATACTCTCGTGAGTATTGATACCGGATTTGACTTCG
1 -GTATCGATACT-GACCCCTTGGGTATCGATACTCTCGTGAGTATTGATACCAAAATTGACTTCG
* *
2526425 ATGTTTTCTAAAAATGCCTCT
64 ATGTTTTCGAAAAATACCTCT
*
2526446 GTATCGATACCGACCC
1 GTATCGATACTGACCC
2526462 TCTGAGTATT
Statistics
Matches: 85, Mismatches: 9, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
82 19 0.22
83 50 0.59
84 15 0.18
85 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (84 bp):
GTATCGATACTGACCCCTTGGGTATCGATACTCTCGTGAGTATTGATACCAAAATTGACTTCGAT
GTTTTCGAAAAATACCTCT
Found at i:2526475 original size:21 final size:19
Alignment explanation
Indices: 2526446--2526497 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
2526436 AAATGCCTCT
*
2526446 GTATCGATACCGACCCTCTGA
1 GTATTGATACCGACCC-C-GA
* *
2526467 GTATTGATACTGGGCCCCGA
1 GTATTGATAC-CGACCCCGA
2526487 GTATTGATACC
1 GTATTGATACC
2526498 CCTGCATAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 12 0.46
21 10 0.38
22 4 0.15
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (19 bp):
GTATTGATACCGACCCCGA
Found at i:2535801 original size:2 final size:2
Alignment explanation
Indices: 2535794--2535819 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2535784 ATCCTAATCC
2535794 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2535820 CATGTTGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2541136 original size:50 final size:50
Alignment explanation
Indices: 2541071--2541169 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 50
2541061 TCCAAAGTTA
2541071 TATCAAAGTGATTTAGGGTGTCATAAATTATAGATATAGGGTTGAATTTG
1 TATCAAAGTGATTTAGGGTGTCATAAATTATAGATATAGGGTTGAATTTG
*
2541121 TATCAAAGTGATTTAGGGTTTCATAAATTATAGATATAGGGTTGAATTT
1 TATCAAAGTGATTTAGGGTGTCATAAATTATAGATATAGGGTTGAATTT
2541170 TATGAGTTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.39
Consensus pattern (50 bp):
TATCAAAGTGATTTAGGGTGTCATAAATTATAGATATAGGGTTGAATTTG
Found at i:2543733 original size:61 final size:60
Alignment explanation
Indices: 2543583--2543770 Score: 207
Period size: 60 Copynumber: 3.1 Consensus size: 60
2543573 TTGGATGAAA
* ** * * *
2543583 TTAGTGATGAAATTAGAATATTCAAAAGTTTGGGGATTAATTTAGAAAGAGGGTCATAGT
1 TTAGGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGT
* * * *
2543643 TTAGGGATGAGATTAGAATGTTCAAAAGTTTAAGGACTAACTTAGAATGAGAGTCATGGTT
1 TTAGGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAG-T
* * * * * *
2543704 TTAGGGATGAAATT-GAAATATTTAAAAGTTTAAAGACCAATTTAAAATGAGAGTTATAAT
1 TTAGGGATGAAATTAG-AATATTCAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGT
2543764 TTAGGGA
1 TTAGGGA
2543771 CATATTATGC
Statistics
Matches: 106, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
60 58 0.55
61 48 0.45
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.32
Consensus pattern (60 bp):
TTAGGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGT
Found at i:2544083 original size:89 final size:89
Alignment explanation
Indices: 2543932--2544110 Score: 331
Period size: 89 Copynumber: 2.0 Consensus size: 89
2543922 ATTGAGCATT
* * *
2543932 CATTATCAAATGGTTGATAGTATTTAGAATAAAATCAATAACAATAAATTTGACATTAAAATAAA
1 CATTATCAAATGGTTAAGAGTATTTAGAACAAAATCAATAACAATAAATTTGACATTAAAATAAA
2543997 GATTAGTAGATTAAAAGTAAAATA
66 GATTAGTAGATTAAAAGTAAAATA
2544021 CATTATCAAATGGTTAAGAGTATTTAGAACAAAATCAATAACAATAAATTTGACATTAAAATAAA
1 CATTATCAAATGGTTAAGAGTATTTAGAACAAAATCAATAACAATAAATTTGACATTAAAATAAA
2544086 GATTAGTAGATTAAAAGTAAAATA
66 GATTAGTAGATTAAAAGTAAAATA
2544110 C
1 C
2544111 GGCAAGTTTA
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 87 1.00
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (89 bp):
CATTATCAAATGGTTAAGAGTATTTAGAACAAAATCAATAACAATAAATTTGACATTAAAATAAA
GATTAGTAGATTAAAAGTAAAATA
Found at i:2544727 original size:5 final size:5
Alignment explanation
Indices: 2544719--2544745 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
2544709 ATATTTAATT
2544719 TCTCA TCTCA TCTCA TCTCA TCTCA TC
1 TCTCA TCTCA TCTCA TCTCA TCTCA TC
2544746 AGACACTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.41, G:0.00, T:0.41
Consensus pattern (5 bp):
TCTCA
Found at i:2552367 original size:59 final size:59
Alignment explanation
Indices: 2552255--2552420 Score: 192
Period size: 59 Copynumber: 2.8 Consensus size: 59
2552245 TTTATGACCC
* * * * *
2552255 TCATTTTAAATTGGTCC-CAAAACTTTTAGACATTTCAATTTAATCCCTAAACTATGAT-T
1 TCATTATAAATTAGTCCTC-AAACTTTTA-ACATTTCATTTTAATCCCCAAACTATAATCT
* * *
2552314 GTCATTCTTAATTAGTCCTCAAACTTTTAACATTTCATTTTCATCCCCAAACTATAATCT
1 -TCATTATAAATTAGTCCTCAAACTTTTAACATTTCATTTTAATCCCCAAACTATAATCT
*
2552374 TCATTATAAATTGGTCCTCAAACTTTTTGAACATTTCATTTTAATCC
1 TCATTATAAATTAGTCCTCAAAC-TTTT-AACATTTCATTTTAATCC
2552421 TAAATTATAC
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
59 45 0.49
60 28 0.31
61 18 0.20
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.42
Consensus pattern (59 bp):
TCATTATAAATTAGTCCTCAAACTTTTAACATTTCATTTTAATCCCCAAACTATAATCT
Found at i:2552733 original size:59 final size:59
Alignment explanation
Indices: 2552589--2552733 Score: 148
Period size: 59 Copynumber: 2.4 Consensus size: 59
2552579 TTTAGGGACC
* * * *** *
2552589 AATTTAAAATGATATTCATAGTTTGGGGATGAAATTAGAATGTTCAAAATTTTAAGGACT
1 AATTTAAAATGAGAGTCATAGTTT-GGGATGAAATTAGAATATTCAAAAGCCTAAAGACT
* * * * *
2552649 AA-TTAGAATGAGAGTGATAATTTTGGGATGAAATTGGAATATTTAAAAGCCTAAAGACT
1 AATTTAAAATGAGAGTCAT-AGTTTGGGATGAAATTAGAATATTCAAAAGCCTAAAGACT
*
2552708 AATTTAAAATGAGGGTCATAGTTTGG
1 AATTTAAAATGAGAGTCATAGTTTGG
2552734 AGACATATGA
Statistics
Matches: 67, Mismatches: 16, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
59 48 0.72
60 19 0.28
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (59 bp):
AATTTAAAATGAGAGTCATAGTTTGGGATGAAATTAGAATATTCAAAAGCCTAAAGACT
Found at i:2554604 original size:2 final size:2
Alignment explanation
Indices: 2554597--2554643 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
2554587 GTTCAATGTC
2554597 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2554639 AT AT A
1 AT AT A
2554644 ATTTAAATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2557694 original size:20 final size:20
Alignment explanation
Indices: 2557669--2557716 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
2557659 AGGGTTTAGA
2557669 AAACCCTAGCTGAATGTTAC
1 AAACCCTAGCTGAATGTTAC
2557689 AAACCCTAGCTGAATGTTAC
1 AAACCCTAGCTGAATGTTAC
2557709 AAACCCTA
1 AAACCCTA
2557717 AAGGGTTTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.27, G:0.12, T:0.23
Consensus pattern (20 bp):
AAACCCTAGCTGAATGTTAC
Found at i:2557807 original size:3 final size:3
Alignment explanation
Indices: 2557799--2557837 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
2557789 TTTATTTATT
* *
2557799 TAA TAA TAA TAA TAA TAC TAA TAT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2557838 AAAAACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2558127 original size:76 final size:76
Alignment explanation
Indices: 2558001--2559676 Score: 3084
Period size: 76 Copynumber: 22.1 Consensus size: 76
2557991 GGTCTTATGA
* * * * *
2558001 ATGACCCCG-AGGGTTTAAAAACATCAAAAAGATCCCAAAGGATTTTTGGAAACATCATGCACTG
1 ATGA-CCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
2558065 AAGGACTTACAG
65 AAGGACTTACAG
** *
2558077 ATGACCTTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2558142 AGGACTTACAG
66 AGGACTTACAG
* *
2558153 ATGATCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGACTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2558218 AGGACTTACAG
66 AGGACTTACAG
2558229 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2558294 AGGACTTACAG
66 AGGACTTACAG
* *
2558305 ATGACACGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTAA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2558370 AGGACTTACAG
66 AGGACTTACAG
*
2558381 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGTCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2558446 AGGACTTACAG
66 AGGACTTACAG
* *
2558457 ATGACCCGAAGGCTTTGAAAACGTCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2558522 AGGACTTACAG
66 AGGACTTACAG
**
2558533 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGTATTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2558598 AGGACTTACAG
66 AGGACTTACAG
*
2558609 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGTCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
*
2558674 AGGGCTTACAG
66 AGGACTTACAG
*
2558685 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTACCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2558750 AGGACTTACAG
66 AGGACTTACAG
2558761 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2558826 AGGACTTACAG
66 AGGACTTACAG
2558837 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2558902 AGGACTTACAG
66 AGGACTTACAG
*
2558913 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGTCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2558978 AGGACTTACAG
66 AGGACTTACAG
2558989 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2559054 AGGACTTACAG
66 AGGACTTACAG
2559065 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2559130 AGGACTTACAG
66 AGGACTTACAG
*
2559141 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGTCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2559206 AGGACTTACAG
66 AGGACTTACAG
* *
2559217 ATGACCCGAATGCTTTGAAAACATCAAAAAGCTCCCGAAGTCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2559282 AGGACTTACAG
66 AGGACTTACAG
2559293 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2559358 AGGACTTACAG
66 AGGACTTACAG
*
2559369 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGTCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2559434 AGGACTTACAG
66 AGGACTTACAG
*
2559445 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGTCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
*
2559510 AGGGCTTACAG
66 AGGACTTACAG
2559521 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2559586 AGGACTTACAG
66 AGGACTTACAG
*
2559597 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAATGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2559662 AGGACTTACAG
66 AGGACTTACAG
2559673 ATGA
1 ATGA
2559677 GGGAAATAGT
Statistics
Matches: 1557, Mismatches: 42, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
75 2 0.00
76 1555 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (76 bp):
ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
AGGACTTACAG
Found at i:2561825 original size:74 final size:75
Alignment explanation
Indices: 2561684--2561844 Score: 209
Period size: 74 Copynumber: 2.2 Consensus size: 75
2561674 ATTGTGGGCC
* *
2561684 TTCAGCATGCCCCAACATTGGCTAATACAAGTGTTCAAAATGCATCAACAGTTCTGATTCTGATT
1 TTCAGCATGCCCCAACATTGGCTAATACAAGTATTCAAAATACATCAACAGTTCTGATTCTGATT
*
2561749 GAAATGGGTT
66 GAAAAGGGTT
* * * ** * *
2561759 TTCAGCATGCCCCAACATTTTGCTGATA-AA-TATTCAGAATATTTCAACATTTCTGATTCTGTT
1 TTCAGCATGCCCCAACA-TTGGCTAATACAAGTATTCAAAATACATCAACAGTTCTGATTCTGAT
2561822 TGAAAAGGGTT
65 TGAAAAGGGTT
2561833 TTCAGCATGCCC
1 TTCAGCATGCCC
2561845 TAATATTTGC
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
74 48 0.64
75 19 0.25
76 8 0.11
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (75 bp):
TTCAGCATGCCCCAACATTGGCTAATACAAGTATTCAAAATACATCAACAGTTCTGATTCTGATT
GAAAAGGGTT
Found at i:2563162 original size:114 final size:114
Alignment explanation
Indices: 2562956--2563164 Score: 339
Period size: 114 Copynumber: 1.8 Consensus size: 114
2562946 AATCATGTAG
*
2562956 TTCACCTTTCAATTCCAATGATTGGTTATGGGATTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCACCTTTCAAATCCAATGATTGGTTATGGGATTCATACCAAACCAGATCAGATAACTCAAAGA
* *
2563021 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTTTACTATGAGCAAA
66 ACACTTCAAGAAGATGCTATTGAGTCTCCTTATTTTTACTATGAGCAAA
* * * *
2563070 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTTATACCAAACCAGATCAGATAACTCAAAGA
1 TTCACCTTTCAAATCCAATGATTGGTTATGGGATTCATACCAAACCAGATCAGATAACTCAAAGA
2563135 ACACTTTCAAG-AGATGCTATTGAGTCTCCT
66 ACAC-TTCAAGAAGATGCTATTGAGTCTCCT
2563165 CTTCCAATTC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
114 82 0.94
115 5 0.06
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (114 bp):
TTCACCTTTCAAATCCAATGATTGGTTATGGGATTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCAAGAAGATGCTATTGAGTCTCCTTATTTTTACTATGAGCAAA
Found at i:2565339 original size:11 final size:11
Alignment explanation
Indices: 2565323--2565377 Score: 60
Period size: 11 Copynumber: 5.1 Consensus size: 11
2565313 CTTGATTCAA
2565323 TTTTTTTTCTT
1 TTTTTTTTCTT
2565334 TTTTTTTTC-T
1 TTTTTTTTCTT
*
2565344 TTTTTTTCCTT
1 TTTTTTTTCTT
*
2565355 TTTTCCTTT-TT
1 TTTT-TTTTCTT
*
2565366 TTTTTCTTCTT
1 TTTTTTTTCTT
2565377 T
1 T
2565378 CTTTGCTGGA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
10 11 0.31
11 23 0.64
12 2 0.06
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:2570061 original size:20 final size:21
Alignment explanation
Indices: 2570011--2570061 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
2570001 ATATAAAAAT
2570011 AATAAATAA-TAAAAATTTGA
1 AATAAATAATTAAAAATTTGA
*
2570031 AAGAAATAATTAAAAA-TT-A
1 AATAAATAATTAAAAATTTGA
2570050 AATAAATGAATT
1 AATAAAT-AATT
2570062 TTTCATTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 7 0.26
20 14 0.52
21 6 0.22
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (21 bp):
AATAAATAATTAAAAATTTGA
Found at i:2572158 original size:3 final size:3
Alignment explanation
Indices: 2572150--2572211 Score: 81
Period size: 3 Copynumber: 21.0 Consensus size: 3
2572140 TTTATTTATT
* *
2572150 TAA TAA TAA TAA TAA TAA TAC TAA TAT TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
2572198 -AA CAA AAA TAA TAA
1 TAA TAA TAA TAA TAA
2572212 AAAAAATTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
2 2 0.04
3 50 0.96
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:2572637 original size:36 final size:36
Alignment explanation
Indices: 2572590--2572671 Score: 164
Period size: 36 Copynumber: 2.3 Consensus size: 36
2572580 CGTCTCTTAA
2572590 AAAATCTCAAATACTCAAATCCCTTATTCTAAACCC
1 AAAATCTCAAATACTCAAATCCCTTATTCTAAACCC
2572626 AAAATCTCAAATACTCAAATCCCTTATTCTAAACCC
1 AAAATCTCAAATACTCAAATCCCTTATTCTAAACCC
2572662 AAAATCTCAA
1 AAAATCTCAA
2572672 TTTATAAAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.27
Consensus pattern (36 bp):
AAAATCTCAAATACTCAAATCCCTTATTCTAAACCC
Found at i:2573379 original size:19 final size:19
Alignment explanation
Indices: 2573357--2573393 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2573347 AGGAATTTGT
* *
2573357 GCAAGGGGGATTTACGCAA
1 GCAAGGGGAAATTACGCAA
2573376 GCAAGGGGAAATTACGCA
1 GCAAGGGGAAATTACGCA
2573394 GGAGGGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.16, G:0.35, T:0.14
Consensus pattern (19 bp):
GCAAGGGGAAATTACGCAA
Found at i:2573423 original size:17 final size:17
Alignment explanation
Indices: 2573401--2573435 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2573391 GCAGGAGGGA
* *
2573401 AAAAATAGTTTTTTAAT
1 AAAAATAATGTTTTAAT
2573418 AAAAATAATGTTTTAAT
1 AAAAATAATGTTTTAAT
2573435 A
1 A
2573436 TATATATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (17 bp):
AAAAATAATGTTTTAAT
Found at i:2573472 original size:10 final size:10
Alignment explanation
Indices: 2573459--2573493 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
2573449 ATATATTTTT
2573459 AAAATTAAAA
1 AAAATTAAAA
2573469 AAAATTAAAA
1 AAAATTAAAA
2573479 AAAA-TAAACA
1 AAAATTAAA-A
2573489 AAAAT
1 AAAAT
2573494 ATGTTAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 4 0.17
10 19 0.83
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (10 bp):
AAAATTAAAA
Found at i:2573886 original size:64 final size:65
Alignment explanation
Indices: 2573752--2573897 Score: 208
Period size: 65 Copynumber: 2.3 Consensus size: 65
2573742 ATAAGTATTG
*
2573752 AAAATTAAATGTTGAATTTAATAAGTATTAAACTTGAAATATAATAATTGTTTGCAATTTTATTA
1 AAAATTAAATGTTGAATTTAATAAGTATTAAACTTGAAATATAATAATTGTTTGCAATTTTAATA
* * *
2573817 AAAATTAAATGTTGAATTTAATAAGTATTTAA-TTGAATTATAATTATTGTTTG-ATATTTTTAA
1 AAAATTAAATGTTGAATTTAATAAGTATTAAACTTGAAATATAATAATTGTTTGCA-A-TTTTAA
2573880 T-
64 TA
*
2573881 AAAATTAAATGGTGAAT
1 AAAATTAAATGTTGAAT
2573898 ATAAATTGAT
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
63 1 0.01
64 36 0.49
65 37 0.50
ACGTcount: A:0.44, C:0.01, G:0.10, T:0.45
Consensus pattern (65 bp):
AAAATTAAATGTTGAATTTAATAAGTATTAAACTTGAAATATAATAATTGTTTGCAATTTTAATA
Found at i:2574281 original size:106 final size:109
Alignment explanation
Indices: 2574166--2574384 Score: 399
Period size: 108 Copynumber: 2.0 Consensus size: 109
2574156 TAAAACTCAC
2574166 ATTAAATGCATAATGTAATGTATGAACTTTGATTTTATGTAA-T-TATATATAACTTTTATTTGA
1 ATTAAATGCATAATGTAATGTATGAACTTTGATTTTATGTAATTATATATATAACTTTTATTTGA
*
2574229 TTCAATTTTCACAAATTAATTTGCCATTG-ATATATTATTTTAT
66 TTCAATTTTCACAAATTAATTTGCAATTGAATATATTATTTTAT
2574272 ATTAAATGCATAATGTAATGTATGAACTTTGATTTTATGTAATTATATATATAACTTTTATTTGA
1 ATTAAATGCATAATGTAATGTATGAACTTTGATTTTATGTAATTATATATATAACTTTTATTTGA
2574337 TTCAATTTTCACAAATTAATTTGCAATTGATATATATTATTTTAT
66 TTCAATTTTCACAAATTAATTTGCAATTGA-ATATATTATTTTAT
2574382 ATT
1 ATT
2574385 TACATAGTGT
Statistics
Matches: 108, Mismatches: 1, Indels: 4
0.96 0.01 0.04
Matches are distributed among these distances:
106 42 0.39
107 1 0.01
108 48 0.44
110 17 0.16
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.49
Consensus pattern (109 bp):
ATTAAATGCATAATGTAATGTATGAACTTTGATTTTATGTAATTATATATATAACTTTTATTTGA
TTCAATTTTCACAAATTAATTTGCAATTGAATATATTATTTTAT
Found at i:2574972 original size:40 final size:40
Alignment explanation
Indices: 2574928--2575010 Score: 123
Period size: 40 Copynumber: 2.1 Consensus size: 40
2574918 TGGTTCCCTT
* *
2574928 AGTCTTCGCTAAGGG-CCTCGCCGTGAGTATACAAATACTA
1 AGTCTTCACTAAGGGCCCT-GCCATGAGTATACAAATACTA
*
2574968 AGTCTTCACTAAGGGCCCTTCCATGAGTATACAAATACTA
1 AGTCTTCACTAAGGGCCCTGCCATGAGTATACAAATACTA
2575008 AGT
1 AGT
2575011 TTCTAACCTC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
40 36 0.92
41 3 0.08
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (40 bp):
AGTCTTCACTAAGGGCCCTGCCATGAGTATACAAATACTA
Found at i:2576295 original size:21 final size:20
Alignment explanation
Indices: 2576269--2576325 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
2576259 GCAAAACATA
*
2576269 TAAGGGATCGATCCTTTTCT
1 TAAGGGATCGATCCTTATCT
2576289 CTAAGGGATCGATCCCTTATCT
1 -TAAGGGATCGAT-CCTTATCT
* *
2576311 TGAGAGATCGATCCT
1 TAAGGGATCGATCCT
2576326 CTCAAAAGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.09
21 22 0.69
22 7 0.22
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (20 bp):
TAAGGGATCGATCCTTATCT
Found at i:2586480 original size:2 final size:2
Alignment explanation
Indices: 2586473--2586497 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2586463 ATCTTGCCCC
2586473 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2586498 GATACCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2587033 original size:112 final size:112
Alignment explanation
Indices: 2586835--2587851 Score: 1629
Period size: 112 Copynumber: 9.1 Consensus size: 112
2586825 TGTCAGTTTA
* * * *
2586835 TGTCGATACTTTATAAAAATATATTGATTCAT-A-ATTATAACA-AGTAAAAAAATGACAAAACC
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGA-TAAAAAAATGACAAAACC
2586897 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
65 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
* ** *
2586945 TGCCGATACTTTATAAAAATGTATTTATCCATAACAATATAACAGATAAAAAAATGACAAAACCA
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGATAAAAAAATGACAAAACCG
*
2587010 ATCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
66 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
* * *
2587057 TGTTGATACTCTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGAC-AAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGATAAAAAAATGACAAAACCG
2587121 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
66 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
* ** *
2587168 TGCCGATACTTTATAAAAATGTATTTATCCATAACAATATAACAGATAAAAAAATGACAAAACCA
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGATAAAAAAATGACAAAACCG
*
2587233 ATCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
66 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
*
2587280 TGTCGATA-TTCTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGAC-AAACC
1 TGTCGATACTT-TATAAAAATGTATCGATCCATAACAATATAACAGATAAAAAAATGACAAAACC
* *
2587343 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGATAG
65 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
*
2587391 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACA-AGTAAAAAAATGACAAAACC
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGA-TAAAAAAATGACAAAACC
2587455 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
65 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
* ** *
2587503 TGCCGATACTTTATAAAAATGTATTTATCCATAACAATATAACAGATAAAAAAATGACAAAACCA
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGATAAAAAAATGACAAAACCG
*
2587568 ATCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
66 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
* * *
2587615 TGTTGATACTCTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGAC-AAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGATAAAAAAATGACAAAACCG
* *
2587679 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGATAG
66 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
*
2587726 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACA-AGTAAAAAAATGACAAAACC
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGA-TAAAAAAATGACAAAACC
* *
2587790 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGATAG
65 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
2587838 TGTCGATACTTTAT
1 TGTCGATACTTTAT
2587852 TATAAGTATC
Statistics
Matches: 841, Mismatches: 55, Indels: 20
0.92 0.06 0.02
Matches are distributed among these distances:
110 28 0.03
111 309 0.37
112 502 0.60
113 2 0.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.24
Consensus pattern (112 bp):
TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGATAAAAAAATGACAAAACCG
GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
Found at i:2587139 original size:223 final size:224
Alignment explanation
Indices: 2586835--2587851 Score: 1652
Period size: 223 Copynumber: 4.6 Consensus size: 224
2586825 TGTCAGTTTA
* * * * *
2586835 TGTCGATACTTTATAAAAATATATTGATTCAT-A-ATTATAACAAGTAAAAAAATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCG
*
2586898 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGCCGATACTTTATAAAA
66 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAA
**
2586963 ATGTATTTATCCATAACAATATAACAGATAAAAAAATGACAAAACCAATCTATAAATGACAAAAC
131 ATGTATCGATCCATAACAATATAACAGATAAAAAAATGACAAAACCAATCTATAAATGACAAAAC
2587028 AGGTAAAGCGCTACCGGATATATTGAAAG
196 AGGTAAAGCGCTACCGGATATATTGAAAG
* *
2587057 TGTTGATACTCTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGAC-AAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCG
*
2587121 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGCCGATACTTTATAAAA
66 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAA
**
2587186 ATGTATTTATCCATAACAATATAACAGATAAAAAAATGACAAAACCAATCTATAAATGACAAAAC
131 ATGTATCGATCCATAACAATATAACAGATAAAAAAATGACAAAACCAATCTATAAATGACAAAAC
2587251 AGGTAAAGCGCTACCGGATATATTGAAAG
196 AGGTAAAGCGCTACCGGATATATTGAAAG
2587280 TGTCGATA-TTCTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGAC-AAACC
1 TGTCGATACTT-TATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* *
2587343 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGATAGTGTCGATACTTTATAAA
65 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAA
* **
2587408 AATGTATCGATCCATAACAATAAAACA-AGTAAAAAAATGACAAAACCGGTCTATAAATGACAAA
130 AATGTATCGATCCATAACAATATAACAGA-TAAAAAAATGACAAAACCAATCTATAAATGACAAA
2587472 ACAGGTAAAGCGCTACCGGATATATTGAAAG
194 ACAGGTAAAGCGCTACCGGATATATTGAAAG
* ** * *
2587503 TGCCGATACTTTATAAAAATGTATTTATCCATAACAATATAACAGATAAAAAAATGACAAAACCA
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCG
* * *
2587568 ATCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTTGATACTCTATAAAA
66 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAA
* **
2587633 ATGTATCGATCCATAACAATATAACAGGTAAAAAAATGAC-AAACCGGTCTATAAATGACAAAAC
131 ATGTATCGATCCATAACAATATAACAGATAAAAAAATGACAAAACCAATCTATAAATGACAAAAC
* *
2587697 AGGTAAAGCGCTACCGGATATGTTGATAG
196 AGGTAAAGCGCTACCGGATATATTGAAAG
* *
2587726 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAAGTAAAAAAATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCG
* *
2587791 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGATAGTGTCGATACTTTAT
66 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAT
2587852 TATAAGTATC
Statistics
Matches: 745, Mismatches: 43, Indels: 13
0.93 0.05 0.02
Matches are distributed among these distances:
222 29 0.04
223 591 0.79
224 125 0.17
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.24
Consensus pattern (224 bp):
TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCG
GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAA
ATGTATCGATCCATAACAATATAACAGATAAAAAAATGACAAAACCAATCTATAAATGACAAAAC
AGGTAAAGCGCTACCGGATATATTGAAAG
Found at i:2587480 original size:335 final size:335
Alignment explanation
Indices: 2586838--2587851 Score: 1759
Period size: 335 Copynumber: 3.0 Consensus size: 335
2586828 CAGTTTATGT
* * * * **
2586838 CGATACTTTATAAAAATATATTGATTCAT-A-ATTATAACA-AGTAAAAAAATGACAAAACCGGT
1 CGATACTTTATAAAAATGTATTTATCCATAACAATATAACAGA-TAAAAAAATGACAAAACCAAT
*
2586900 CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGCCGATACTT-TATAAAAA
65 CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATA-TTCTATAAAAA
** * **
2586964 TGTATTTATCCATAACAATATAACAGATAAAAAAATGACAAAACCAATCTATAAATGACAAAACA
129 TGTATCGATCCATAACAATATAACAGGTAAAAAAATGAC-AAACCGGTCTATAAATGACAAAACA
* * * *
2587029 GGTAAAGCGCTACCGGATATATTGAAAGTGTTGATACTCTATAAAAATGTATCGATCCATAACAA
193 GGTAAAGCGCTACCGGATATGTTGATAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAA
* *
2587094 TATAACAGGTAAAAAAATGAC-AAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGAT
258 TAAAACAAGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGAT
2587158 ATATTGAAAGTGC
323 ATATTGAAAGTGC
2587171 CGATACTTTATAAAAATGTATTTATCCATAACAATATAACAGATAAAAAAATGACAAAACCAATC
1 CGATACTTTATAAAAATGTATTTATCCATAACAATATAACAGATAAAAAAATGACAAAACCAATC
2587236 TATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATATTCTATAAAAATG
66 TATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATATTCTATAAAAATG
2587301 TATCGATCCATAACAATATAACAGGTAAAAAAATGACAAACCGGTCTATAAATGACAAAACAGGT
131 TATCGATCCATAACAATATAACAGGTAAAAAAATGACAAACCGGTCTATAAATGACAAAACAGGT
2587366 AAAGCGCTACCGGATATGTTGATAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAA
196 AAAGCGCTACCGGATATGTTGATAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAA
2587431 AACAAGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATA
261 AACAAGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATA
2587496 TTGAAAGTGC
326 TTGAAAGTGC
2587506 CGATACTTTATAAAAATGTATTTATCCATAACAATATAACAGATAAAAAAATGACAAAACCAATC
1 CGATACTTTATAAAAATGTATTTATCCATAACAATATAACAGATAAAAAAATGACAAAACCAATC
* *
2587571 TATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTTGATACTCTATAAAAATG
66 TATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATATTCTATAAAAATG
2587636 TATCGATCCATAACAATATAACAGGTAAAAAAATGACAAACCGGTCTATAAATGACAAAACAGGT
131 TATCGATCCATAACAATATAACAGGTAAAAAAATGACAAACCGGTCTATAAATGACAAAACAGGT
2587701 AAAGCGCTACCGGATATGTTGATAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAA
196 AAAGCGCTACCGGATATGTTGATAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAA
*
2587766 AACAAGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATG
261 AACAAGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATA
* *
2587831 TTGATAGTGT
326 TTGAAAGTGC
2587841 CGATACTTTAT
1 CGATACTTTAT
2587852 TATAAGTATC
Statistics
Matches: 653, Mismatches: 23, Indels: 8
0.95 0.03 0.01
Matches are distributed among these distances:
333 26 0.04
334 106 0.16
335 520 0.80
336 1 0.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.24
Consensus pattern (335 bp):
CGATACTTTATAAAAATGTATTTATCCATAACAATATAACAGATAAAAAAATGACAAAACCAATC
TATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATATTCTATAAAAATG
TATCGATCCATAACAATATAACAGGTAAAAAAATGACAAACCGGTCTATAAATGACAAAACAGGT
AAAGCGCTACCGGATATGTTGATAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAA
AACAAGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATA
TTGAAAGTGC
Found at i:2588348 original size:23 final size:23
Alignment explanation
Indices: 2588298--2588342 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2588288 TGTCTATTTA
*
2588298 ATTATATAAGCACTACCTATTAC
1 ATTATATAAGCACTACCTAATAC
*
2588321 ATTATATAAGTACTACCTAATA
1 ATTATATAAGCACTACCTAATA
2588343 TGTTATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.42, C:0.18, G:0.04, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCACTACCTAATAC
Found at i:2592155 original size:2 final size:2
Alignment explanation
Indices: 2592148--2592172 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2592138 CATGAAATGG
2592148 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2592173 TGAGGAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2592260 original size:63 final size:63
Alignment explanation
Indices: 2592161--2592283 Score: 228
Period size: 63 Copynumber: 2.0 Consensus size: 63
2592151 ATATATATAT
* *
2592161 ATATATATATATTGAGGAATGTTTTGAAACATCGATAGACGTGGAGGCTACTGTGTTCCAAAC
1 ATATATATATATTGACGAATGTTTTGAAACATCGATAGACGTGGAGGCTACTATGTTCCAAAC
2592224 ATATATATATATTGACGAATGTTTTGAAACATCGATAGACGTGGAGGCTACTATGTTCCA
1 ATATATATATATTGACGAATGTTTTGAAACATCGATAGACGTGGAGGCTACTATGTTCCA
2592284 TCCATGCTCA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (63 bp):
ATATATATATATTGACGAATGTTTTGAAACATCGATAGACGTGGAGGCTACTATGTTCCAAAC
Found at i:2592714 original size:126 final size:127
Alignment explanation
Indices: 2592577--2592885 Score: 288
Period size: 126 Copynumber: 2.4 Consensus size: 127
2592567 TAAAAAGTAT
* ** *
2592577 GATTGAAAAAATTAAGAACCTCAATTAT-AAAGGTAAAAAGTGAGGTTAAAAAAATTA-GGGCCG
1 GATTG-AAAAATTAAGAACATCAATTATAAAAGAAAAAAAGTGAGATT-AAAAAATTAGGGGCC-
* ** ** * * *
2592640 TTAATTTTAAAGGTAAAAAGTGAGATT-TAAAAATTAGGGGGCTAAATTATATAAGTCA-AAA-T
63 TCAATTTTAAAAATAAAAAACGAGATTGAAAAAATTA-GGAGCTAAATTATA-AAGACACAAAGT
2592702 GG
126 GG
* ** *
2592704 GATTGAAAAATTAGGTGCATCAATTATAAAAGAAAAAAAGTGAGATTAAAACATTAGGGGCCTCA
1 GATTGAAAAATTAAGAACATCAATTATAAAAGAAAAAAAGTGAGATTAAAAAATTAGGGGCCTCA
* *
2592769 ATTTTAAAAATAAAAAACGAGATTGAAAAAATTAGGAGTTCAATTATAAAGACACAAAGTGG
66 ATTTTAAAAATAAAAAACGAGATTGAAAAAATTAGGAGCTAAATTATAAAGACACAAAGTGG
*** * * *
2592831 GATTGAAAAACTT-AGTGTTATCAATTATAAATGTAAAAAAGTGGGATTGAAAAAA
1 GATTGAAAAA-TTAAG-AACATCAATTATAAAAGAAAAAAAGTGAGATT-AAAAAA
2592886 AAGGTGCATC
Statistics
Matches: 148, Mismatches: 26, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
125 5 0.03
126 62 0.42
127 48 0.32
128 28 0.19
129 5 0.03
ACGTcount: A:0.49, C:0.06, G:0.19, T:0.26
Consensus pattern (127 bp):
GATTGAAAAATTAAGAACATCAATTATAAAAGAAAAAAAGTGAGATTAAAAAATTAGGGGCCTCA
ATTTTAAAAATAAAAAACGAGATTGAAAAAATTAGGAGCTAAATTATAAAGACACAAAGTGG
Found at i:2592770 original size:43 final size:43
Alignment explanation
Indices: 2592559--2592956 Score: 223
Period size: 43 Copynumber: 9.3 Consensus size: 43
2592549 GTGCTTAAAC
* **
2592559 TATAAAAG-TAAAAAGT-ATGATTGAAAAAATTAAGAACCTCAAT
1 TATAAAAGATAAAAAGTGA-GATTG-AAAAATTAGGGGCCTCAAT
* * * *
2592602 TAT-AAAGGTAAAAAGTGAGGTTAAAAAAATTA-GGGCCGTTAAT
1 TATAAAAGATAAAAAGTGAGATT-GAAAAATTAGGGGCC-TCAAT
* * * * *
2592645 T-TTAAAGGTAAAAAGTGAGATTTAAAAATTAGGGGGCTAAAT
1 TATAAAAGATAAAAAGTGAGATTGAAAAATTAGGGGCCTCAAT
* * * * *
2592687 TATATAAG-TCAAAA-TGGGATTGAAAAATTAGGTGCATCAAT
1 TATAAAAGATAAAAAGTGAGATTGAAAAATTAGGGGCCTCAAT
*
2592728 TATAAAAGAAAAAAAGTGAGATT-AAAACATTAGGGGCCTCAAT
1 TATAAAAGATAAAAAGTGAGATTGAAAA-ATTAGGGGCCTCAAT
* ** * *
2592771 TTTAAAA-ATAAAAAACGAGATTGAAAAAATTAGGAG-TTCAAT
1 TATAAAAGATAAAAAGTGAGATTG-AAAAATTAGGGGCCTCAAT
* * * * ***
2592813 TAT-AAAGACACAAAGTGGGATTGAAAAACTTAGTGTTATCAAT
1 TATAAAAGATAAAAAGTGAGATTGAAAAA-TTAGGGGCCTCAAT
* * ** * * *
2592856 TATAAATG-TAAAAAAGTGGGATTGAAAAAAAAGGTGCATCAGT
1 TATAAAAGAT-AAAAAGTGAGATTGAAAAATTAGGGGCCTCAAT
* * * *
2592899 TAT-AAATATAAAAA-TTAGAATTACAAAAAGTTAGGGGTCTCAAT
1 TATAAAAGATAAAAAGTGAG-ATT-GAAAAA-TTAGGGGCCTCAAT
2592943 TAT-AAAGATAAAAA
1 TATAAAAGATAAAAA
2592957 TAAAATGGCT
Statistics
Matches: 272, Mismatches: 62, Indels: 41
0.73 0.17 0.11
Matches are distributed among these distances:
41 38 0.14
42 78 0.29
43 109 0.40
44 47 0.17
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (43 bp):
TATAAAAGATAAAAAGTGAGATTGAAAAATTAGGGGCCTCAAT
Found at i:2592820 original size:84 final size:83
Alignment explanation
Indices: 2592654--2592845 Score: 199
Period size: 84 Copynumber: 2.3 Consensus size: 83
2592644 TTTTAAAGGT
* * * * * *
2592654 AAAAAGTGAGATTTAAAAATTAGGGGGCTAAATTATATAAGTCAAAATGGGATTGAAAAATTAGG
1 AAAAAGTGAGA-TTAAAAATTAGGGGCCTAAATTATAAAAATAAAAACGAGATTGAAAAATTAGG
*
2592719 TGCATCAATTATAAAAGAA
65 AGCATCAATTATAAAAGAA
* *
2592738 AAAAAGTGAGATTAAAACATTAGGGGCCTCAATTTTAAAAATAAAAAACGAGATTGAAAAAATTA
1 AAAAAGTGAGATTAAAA-ATTAGGGGCCTAAATTATAAAAAT-AAAAACGAGATTG-AAAAATTA
* *
2592803 GGAG-TTCAATTAT-AAAGAC
63 GGAGCATCAATTATAAAAGAA
* *
2592822 ACAAAGTGGGATTGAAAAACTTAG
1 AAAAAGTGAGATT-AAAAA-TTAG
2592846 TGTTATCAAT
Statistics
Matches: 90, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
83 6 0.07
84 47 0.52
85 26 0.29
86 11 0.12
ACGTcount: A:0.49, C:0.07, G:0.19, T:0.24
Consensus pattern (83 bp):
AAAAAGTGAGATTAAAAATTAGGGGCCTAAATTATAAAAATAAAAACGAGATTGAAAAATTAGGA
GCATCAATTATAAAAGAA
Found at i:2592927 original size:128 final size:127
Alignment explanation
Indices: 2592684--2592955 Score: 288
Period size: 128 Copynumber: 2.1 Consensus size: 127
2592674 TAGGGGGCTA
*
2592684 AATTATATAAGTCAAAATGGGATTGAAAAATTAGGTGCATCAATTATAAAAGAAAAAAAGTGAGA
1 AATTATA-AAGACAAAATGGGATTGAAAAATTAGGTGCATCAATTATAAAAGAAAAAAAGTGAGA
** * *
2592749 TTAAAACATTAGGGGCCTCAATTTTAAAAATAAAAAACGAGATTGAAAAAA-TTAGGAGT-TC
65 TTAAAACAAAAGGGGCATCAATTATAAAAATAAAAAACGAGATTGAAAAAAGTTAGGAGTCTC
* * *
2592810 AATTATAAAGACACAAAGTGGGATTGAAAAACTTA-GTGTTATCAATTATAAATGTAAAAAAGTG
1 AATTATAAAGACA-AAA-TGGGATTGAAAAA-TTAGGTG-CATCAATTATAAAAGAAAAAAAGTG
* * * * *
2592874 GGATTGAAAA-AAAAGGTGCATCAGTTATAAATATAAAAATTA-GA-ATT-ACAAAAAGTTAGGG
62 AGATT-AAAACAAAAGGGGCATCAATTATAAAAATAAAAA--ACGAGATTGA-AAAAAGTTAGGA
2592935 GTCTC
123 GTCTC
*
2592940 AATTATAAAGATAAAA
1 AATTATAAAGACAAAA
2592956 ATAAAATGGC
Statistics
Matches: 122, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
125 5 0.04
126 10 0.08
127 17 0.14
128 59 0.48
129 16 0.13
130 15 0.12
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.26
Consensus pattern (127 bp):
AATTATAAAGACAAAATGGGATTGAAAAATTAGGTGCATCAATTATAAAAGAAAAAAAGTGAGAT
TAAAACAAAAGGGGCATCAATTATAAAAATAAAAAACGAGATTGAAAAAAGTTAGGAGTCTC
Found at i:2598961 original size:54 final size:54
Alignment explanation
Indices: 2598879--2598986 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
2598869 CATGCATACT
2598879 TGAGAGGTTCATGTTCAAGTCAATTAATAAAATAAAGGGTAAACTAAGCATTTA
1 TGAGAGGTTCATGTTCAAGTCAATTAATAAAATAAAGGGTAAACTAAGCATTTA
2598933 TGAGAGGTTCATGTTCAAGTCAATTAATAAAATAAAGGGTAAACTAAGCATTTA
1 TGAGAGGTTCATGTTCAAGTCAATTAATAAAATAAAGGGTAAACTAAGCATTTA
2598987 GTACATAAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.30
Consensus pattern (54 bp):
TGAGAGGTTCATGTTCAAGTCAATTAATAAAATAAAGGGTAAACTAAGCATTTA
Found at i:2612249 original size:2 final size:2
Alignment explanation
Indices: 2612242--2612280 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2612232 TAATTTCAAG
2612242 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2612281 AAAGAATTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2614812 original size:53 final size:53
Alignment explanation
Indices: 2614749--2614929 Score: 337
Period size: 53 Copynumber: 3.4 Consensus size: 53
2614739 GGTGCCACTT
2614749 TGGCTTACCTATGAATGTAAGCAGCTGTATCCTTATAATAAACTATAAATAAA
1 TGGCTTACCTATGAATGTAAGCAGCTGTATCCTTATAATAAACTATAAATAAA
2614802 TGGCTTACCTATGAATGTAAGCAGCTGTATCCTTATAATAAACTA-AGAATAAA
1 TGGCTTACCTATGAATGTAAGCAGCTGTATCCTTATAATAAACTATA-AATAAA
*
2614855 TGGCTTACCTATGAATGTAAGCAGTTGTATCCTTATAATAAACTATAAATAAA
1 TGGCTTACCTATGAATGTAAGCAGCTGTATCCTTATAATAAACTATAAATAAA
2614908 TGGCTTACCTATGAATGTAAGC
1 TGGCTTACCTATGAATGTAAGC
2614930 CATTGGATCA
Statistics
Matches: 125, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
52 1 0.01
53 123 0.98
54 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (53 bp):
TGGCTTACCTATGAATGTAAGCAGCTGTATCCTTATAATAAACTATAAATAAA
Found at i:2617717 original size:24 final size:24
Alignment explanation
Indices: 2617686--2617740 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
2617676 TCATAACCGA
2617686 ATCGGTTAACGAACCGATCATGCT
1 ATCGGTTAACGAACCGATCATGCT
* * *
2617710 ATCGGTTAACGAACCGGTTATGTT
1 ATCGGTTAACGAACCGATCATGCT
2617734 ATCGGTT
1 ATCGGTT
2617741 TACTGGTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (24 bp):
ATCGGTTAACGAACCGATCATGCT
Found at i:2619366 original size:23 final size:23
Alignment explanation
Indices: 2619340--2619422 Score: 121
Period size: 23 Copynumber: 3.6 Consensus size: 23
2619330 AAGGCTCGAA
* *
2619340 CTCGATTCATGCTCGAATTTGAG
1 CTCGATTCAAGCTCGAGTTTGAG
2619363 CTCGATTCAAGCTCGAGTTTGAG
1 CTCGATTCAAGCTCGAGTTTGAG
** *
2619386 CTTAATTCAAGTTCGAGTTTGAG
1 CTCGATTCAAGCTCGAGTTTGAG
2619409 CTCGATTCAAGCTC
1 CTCGATTCAAGCTC
2619423 AAGCTATTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (23 bp):
CTCGATTCAAGCTCGAGTTTGAG
Found at i:2620743 original size:20 final size:21
Alignment explanation
Indices: 2620701--2620746 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
2620691 AATCAGATTA
*
2620701 AGGGTTTAGGGCTTAGGGCTT
1 AGGGTTTAGGGATTAGGGCTT
* *
2620722 AGGGTTT-GGGATTAGTGTTT
1 AGGGTTTAGGGATTAGGGCTT
2620742 AGGGT
1 AGGGT
2620747 GTAATCTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.15, C:0.04, G:0.43, T:0.37
Consensus pattern (21 bp):
AGGGTTTAGGGATTAGGGCTT
Found at i:2621038 original size:14 final size:14
Alignment explanation
Indices: 2621019--2621059 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
2621009 TATAATTATC
2621019 AATAATGTATTTTT
1 AATAATGTATTTTT
2621033 AATAAT-T-TTTTT
1 AATAATGTATTTTT
*
2621045 -ATAATGTAATTTT
1 AATAATGTATTTTT
2621058 AA
1 AA
2621060 AAAATATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 5 0.22
12 6 0.26
13 5 0.22
14 7 0.30
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (14 bp):
AATAATGTATTTTT
Found at i:2628580 original size:13 final size:13
Alignment explanation
Indices: 2628562--2628587 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2628552 TTCAACATAC
2628562 GTAATGTGTTTCA
1 GTAATGTGTTTCA
2628575 GTAATGTGTTTCA
1 GTAATGTGTTTCA
2628588 ACATTGAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
GTAATGTGTTTCA
Found at i:2628676 original size:14 final size:14
Alignment explanation
Indices: 2628657--2628687 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2628647 TTTGTTTCTC
2628657 AAATATTTTTCGGA
1 AAATATTTTTCGGA
*
2628671 AAATATTTTTCGTA
1 AAATATTTTTCGGA
2628685 AAA
1 AAA
2628688 CGAATTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (14 bp):
AAATATTTTTCGGA
Found at i:2629235 original size:26 final size:25
Alignment explanation
Indices: 2629182--2629257 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 25
2629172 ATATAATATC
**
2629182 TTATATTATTATAATAT-AATTA-A
1 TTATATTATTATAATATAAAAAATA
*
2629205 GTATATTATTATAATATCAAAAAATA
1 TTATATTATTATAATAT-AAAAAATA
* *
2629231 TTATATTATTAGAAATATTAAAAATA
1 TTATATTATTA-TAATATAAAAAATA
2629257 T
1 T
2629258 ATTTTAAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
23 16 0.37
25 3 0.07
26 19 0.44
27 5 0.12
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (25 bp):
TTATATTATTATAATATAAAAAATA
Found at i:2630045 original size:290 final size:291
Alignment explanation
Indices: 2629525--2630104 Score: 1153
Period size: 290 Copynumber: 2.0 Consensus size: 291
2629515 GAAAATATTT
2629525 TATGTAAATGTGAAGATCTTAGAAGTACAAAGGTAGAAGATAAATGAGAAGAGGAAAAAACAAGA
1 TATGTAAATGTGAAGATCTTAGAAGTACAAAGGTAGAAGATAAATGAGAAGAGGAAAAAACAAGA
2629590 GGAGAGGCAAAACTTTCTCTTTCATTTATTAAAACTTGTGTAACATCTCCAAAGGGAACCAACCC
66 GGAGAGGCAAAACTTTCTCTTTCATTTATTAAAACTTGTGTAACATCTCCAAAGGGAACCAACCC
2629655 TTACACACAATGAATCTCTTGAGTTAGTTAGAAAACGGTCTAACAACTATAACCGTTTCTTACTT
131 TTACACACAATGAATCTCTTGAGTTAGTTAGAAAACGGTCTAACAACTATAACCGTTTCTTACTT
2629720 CATTTGAGGGTACATACTCTAACATTCGCCTTGCAACATCAATTTCTTCTTGAAAACAAAAACAA
196 CATTTGAGGGTACATACTCTAACATTCGCCTTGCAACATCAATTTCTTCTTGAAAACAAAAACAA
2629785 CACTAAAACAATCAAGAAAT-ACAATAAAAC
261 CACTAAAACAATCAAGAAATAACAATAAAAC
2629815 TATGTAAATGTGAAGATCTTAGAAGTACAAAGGTAGAAGATAAATGAGAAGAGGAAAAAACAAGA
1 TATGTAAATGTGAAGATCTTAGAAGTACAAAGGTAGAAGATAAATGAGAAGAGGAAAAAACAAGA
2629880 GGAGAGGCAAAACTTTCTCTTTCATTTATTAAAACTTGTGTAACATCTCCAAAGGGAACCAACCC
66 GGAGAGGCAAAACTTTCTCTTTCATTTATTAAAACTTGTGTAACATCTCCAAAGGGAACCAACCC
2629945 TTACACACAATGAATCTCTTGAGTTAGTTAGAAAACGGTCTAACAACTATAACCGTTTCTTACTT
131 TTACACACAATGAATCTCTTGAGTTAGTTAGAAAACGGTCTAACAACTATAACCGTTTCTTACTT
2630010 CATTTGAGGGTACATACTCTAACATTCGCCTTGCAACATCAATTTCTTCTTGAAAACAAAAACAA
196 CATTTGAGGGTACATACTCTAACATTCGCCTTGCAACATCAATTTCTTCTTGAAAACAAAAACAA
2630075 CACTAAAACAATCAAGAAATAACAATAAAA
261 CACTAAAACAATCAAGAAATAACAATAAAA
2630105 AACAGTGGTA
Statistics
Matches: 289, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
290 280 0.97
291 9 0.03
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (291 bp):
TATGTAAATGTGAAGATCTTAGAAGTACAAAGGTAGAAGATAAATGAGAAGAGGAAAAAACAAGA
GGAGAGGCAAAACTTTCTCTTTCATTTATTAAAACTTGTGTAACATCTCCAAAGGGAACCAACCC
TTACACACAATGAATCTCTTGAGTTAGTTAGAAAACGGTCTAACAACTATAACCGTTTCTTACTT
CATTTGAGGGTACATACTCTAACATTCGCCTTGCAACATCAATTTCTTCTTGAAAACAAAAACAA
CACTAAAACAATCAAGAAATAACAATAAAAC
Found at i:2632380 original size:38 final size:38
Alignment explanation
Indices: 2632296--2632387 Score: 103
Period size: 38 Copynumber: 2.4 Consensus size: 38
2632286 AAATCATGTG
* *
2632296 TAGTCATAGACAAGTTGTAGAATCACATATTATGTATA
1 TAGTAATAGACAAGTTGTAGAATCACATATTAAGTATA
* ** * * * *
2632334 CAACAATAGATAAGTTGTATAATCCCATATTAAGTATT
1 TAGTAATAGACAAGTTGTAGAATCACATATTAAGTATA
2632372 TAGTAATAGACAAGTT
1 TAGTAATAGACAAGTT
2632388 TAACTCTAGC
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (38 bp):
TAGTAATAGACAAGTTGTAGAATCACATATTAAGTATA
Found at i:2632549 original size:20 final size:20
Alignment explanation
Indices: 2632524--2632566 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2632514 TCTAAAAACT
* *
2632524 CATTTATGATCATATAGATG
1 CATTTAGGAGCATATAGATG
*
2632544 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
2632564 CAT
1 CAT
2632567 GTGGTGAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:2639933 original size:54 final size:54
Alignment explanation
Indices: 2639763--2639955 Score: 238
Period size: 54 Copynumber: 3.7 Consensus size: 54
2639753 AATTTCGTAT
* * * *
2639763 CCCCTTCGACATTAAATTTCCAAATTG--AT-ATCTTTAACCTATTTTTCACAG
1 CCCCGTCGACATTAAATTTCAAAATTGATATGATCTTTAACCTACTTTTCATAG
* * *
2639814 -CCCGTCCAGATTAAATTTCTAAATTGATATG-TC--TAACCTACTTTTCATAG
1 CCCCGTCGACATTAAATTTCAAAATTGATATGATCTTTAACCTACTTTTCATAG
* * * *
2639864 CCCCATCGAGATTAAATTTCAAAATTGATATGATCTTTAATCTACTTTTCATTG
1 CCCCGTCGACATTAAATTTCAAAATTGATATGATCTTTAACCTACTTTTCATAG
2639918 CCCCGTCGACATTAAATTTCAAAATTGATATGATCTTT
1 CCCCGTCGACATTAAATTTCAAAATTGATATGATCTTT
2639956 TAGTCATTGT
Statistics
Matches: 122, Mismatches: 13, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
50 37 0.30
51 28 0.23
52 6 0.05
54 51 0.42
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.39
Consensus pattern (54 bp):
CCCCGTCGACATTAAATTTCAAAATTGATATGATCTTTAACCTACTTTTCATAG
Found at i:2642483 original size:28 final size:28
Alignment explanation
Indices: 2642443--2642511 Score: 129
Period size: 28 Copynumber: 2.5 Consensus size: 28
2642433 TTTCAATGAG
*
2642443 CTTAACGAGCAACAAGCAAAGCAACAAA
1 CTTAACGAGCAACAAGCAAAACAACAAA
2642471 CTTAACGAGCAACAAGCAAAACAACAAA
1 CTTAACGAGCAACAAGCAAAACAACAAA
2642499 CTTAACGAGCAAC
1 CTTAACGAGCAAC
2642512 GAGCTTAACA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.52, C:0.26, G:0.13, T:0.09
Consensus pattern (28 bp):
CTTAACGAGCAACAAGCAAAACAACAAA
Found at i:2642741 original size:105 final size:104
Alignment explanation
Indices: 2642516--2642745 Score: 271
Period size: 105 Copynumber: 2.2 Consensus size: 104
2642506 AGCAACGAGC
* * * * * *
2642516 TTAACAAGAACGAGTCGAGCAATAAATTTTTTCAACGAGCACGAGTAGAGCAAAATTTTAACGAC
1 TTAACGAGAATGAGTCGAGCAACAAATTTTTTCAACGAGCACGAGTAAAACAAAATTTTAACAAC
* ** **
2642581 CTCAGCGAGTAACGAGTGGAGTTGAGCAACAAAATTATT
66 CTCAACGAGTAACGAGTCAAGACGAGCAACAAAATTATT
* * * *
2642620 TTAACGAGCATAAGTCGAGCAACAAGTTTTTTTTAACGAGCACGAGTAAAACAAAATTTTAACAA
1 TTAACGAGAATGAGTCGAGCAACAA-ATTTTTTCAACGAGCACGAGTAAAACAAAATTTTAACAA
* * *
2642685 GCTCAATGAGTAACGAGTCAAGACGAGCAACAAAATTTTT
65 CCTCAACGAGTAACGAGTCAAGACGAGCAACAAAATTATT
* *
2642725 TTAATGATAATGAGTCGAGCA
1 TTAACGAGAATGAGTCGAGCA
2642746 CTACCCAACT
Statistics
Matches: 103, Mismatches: 22, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
104 20 0.19
105 83 0.81
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (104 bp):
TTAACGAGAATGAGTCGAGCAACAAATTTTTTCAACGAGCACGAGTAAAACAAAATTTTAACAAC
CTCAACGAGTAACGAGTCAAGACGAGCAACAAAATTATT
Found at i:2643230 original size:2 final size:2
Alignment explanation
Indices: 2643223--2643252 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2643213 AATTTCAAGG
2643223 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2643253 AAAGAATTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2645844 original size:57 final size:57
Alignment explanation
Indices: 2645767--2645897 Score: 189
Period size: 54 Copynumber: 2.4 Consensus size: 57
2645757 AATCATAATA
* *
2645767 GCTTACATATGAATATAAGCATGCAGCTGAATCC-TTATAATAAACTACAAATAAATG
1 GCTTACCTATGAATGTAAGCA-GCAGCTGAATCCTTTATAATAAACTACAAATAAATG
* *
2645824 GCTTACCTATGAATGT-A--AGCAGCTGTATCCTTTATAATAAACTATAAATAAATG
1 GCTTACCTATGAATGTAAGCAGCAGCTGAATCCTTTATAATAAACTACAAATAAATG
2645878 GCTTACCTATGAATGTAAGC
1 GCTTACCTATGAATGTAAGC
2645898 CATTGGATCA
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
53 11 0.17
54 39 0.59
55 1 0.02
56 1 0.02
57 14 0.21
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.31
Consensus pattern (57 bp):
GCTTACCTATGAATGTAAGCAGCAGCTGAATCCTTTATAATAAACTACAAATAAATG
Found at i:2645874 original size:54 final size:53
Alignment explanation
Indices: 2645789--2645897 Score: 191
Period size: 54 Copynumber: 2.0 Consensus size: 53
2645779 ATATAAGCAT
2645789 GCAGCTGAATCCTTATAATAAACTACAAATAAATGGCTTACCTATGAATGTAA
1 GCAGCTGAATCCTTATAATAAACTACAAATAAATGGCTTACCTATGAATGTAA
* *
2645842 GCAGCTGTATCCTTTATAATAAACTATAAATAAATGGCTTACCTATGAATGTAA
1 GCAGCTGAATCC-TTATAATAAACTACAAATAAATGGCTTACCTATGAATGTAA
2645896 GC
1 GC
2645898 CATTGGATCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
53 11 0.21
54 42 0.79
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (53 bp):
GCAGCTGAATCCTTATAATAAACTACAAATAAATGGCTTACCTATGAATGTAA
Found at i:2647272 original size:20 final size:19
Alignment explanation
Indices: 2647230--2647282 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
2647220 TTAAATTACG
*
2647230 ATTAATTTATTGAAATATA
1 ATTAATTTATTAAAATATA
2647249 ATTAATTTACTTCAAAAT-TA
1 ATTAATTTA-TT-AAAATATA
*
2647269 ATTAATTAATTAAA
1 ATTAATTTATTAAA
2647283 GAAAATCCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 3 0.10
19 11 0.37
20 12 0.40
21 4 0.13
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (19 bp):
ATTAATTTATTAAAATATA
Found at i:2649722 original size:135 final size:135
Alignment explanation
Indices: 2649505--2649768 Score: 395
Period size: 135 Copynumber: 2.0 Consensus size: 135
2649495 GATCGGGTCG
* * *
2649505 TCTTTAGGAAGTATGATAACACGGTTCCACTCTGCTGGAGACGACTGGTTATCTGAGGTTGACAC
1 TCTTTAGGAAGTATGATAACACGATTCCACTCTGCTGGAGACGACTGGTTATCTAAGATTGACAC
*
2649570 GGTTCCACTCTGCTGGGGAAATCTGGTCAGGGGATGACACTGCTCATACATGATGAAGAGTTCTT
66 GGTTACACTCTGCTGGGGAAATCTGGTCAGGGGATGACACTGCTCATACATGATGAAGAGTTCTT
2649635 GGACA
131 GGACA
* * **
2649640 TCTTTAGGAA-TGATGATAACACGATTCCACTTTGCTGGGGACGGTTGGTTATCTAAGATTGACA
1 TCTTTAGGAAGT-ATGATAACACGATTCCACTCTGCTGGAGACGACTGGTTATCTAAGATTGACA
* * * * *
2649704 CGGTTATACTTTGTTGGGGAAATCTGGTCGGGGGATGACACTGCTCATACGTGATGAAGAGTTCT
65 CGGTTACACTCTGCTGGGGAAATCTGGTCAGGGGATGACACTGCTCATACATGATGAAGAGTTCT
2649769 GATCGTCTAA
Statistics
Matches: 115, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
134 1 0.01
135 114 0.99
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (135 bp):
TCTTTAGGAAGTATGATAACACGATTCCACTCTGCTGGAGACGACTGGTTATCTAAGATTGACAC
GGTTACACTCTGCTGGGGAAATCTGGTCAGGGGATGACACTGCTCATACATGATGAAGAGTTCTT
GGACA
Found at i:2649950 original size:218 final size:218
Alignment explanation
Indices: 2649591--2649984 Score: 517
Period size: 218 Copynumber: 1.8 Consensus size: 218
2649581 GCTGGGGAAA
*
2649591 TCTGGTCAGGGGATGACACTGCTCATACATGATGAAGAGTTCTTGGACATCTTTAGGAATGATGA
1 TCTGGTCAGGGGATGACACTGCTCATACACGATGAAGAGTTCTTGGACATCTTTAGGAATGATGA
** * * ** * * * * *
2649656 TAACACGATTCCACTTTGCTGGGGACGGTTGGTTATCTAAGATTGACACGGTTATACTTTGTTGG
66 TAACACGATTCCACTGCGATGAGGACGACTGGTTATCTAAGAGTGACACGGTCATACTGTGATGA
* * *
2649721 GGAAATCTGGTCGGGGGATGACACTGCTCATACGTGATGAAGAGTTCTGATCGTCTAAGGGTGAC
131 GGAAATCTGGTCGGGGAATGACACGGCTCATACATGATGAAGAGTTCTGATCGTCTAAGGGTGAC
2649786 ACGACTCCTACGTGAAGAGGAGG
196 ACGACTCCTACGTGAAGAGGAGG
*
2649809 TCTGGTC-GAGGGATGACACTGCTCATACACGATGAAGAGTTCTTGGCCATCTTTAGGAATGATG
1 TCTGGTCAG-GGGATGACACTGCTCATACACGATGAAGAGTTCTTGGACATCTTTAGGAATGATG
* * * *
2649873 ATAACTCGGTTCCTAC-GCGATGAGGATGACTGGTTATCTATAG-GTGACACGGCTCCTAC-GTG
65 ATAACACGATTCC-ACTGCGATGAGGACGACTGGTTATCTA-AGAGTGACACGG-TCATACTGTG
** *
2649935 ATGAGGAGGTCTGGTCGGGGAATGGCACGGCTCATACATGATGAAGAGTT
127 ATGAGGAAATCTGGTCGGGGAATGACACGGCTCATACATGATGAAGAGTT
2649985 TTGACCATGT
Statistics
Matches: 149, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
217 1 0.01
218 140 0.94
219 8 0.05
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (218 bp):
TCTGGTCAGGGGATGACACTGCTCATACACGATGAAGAGTTCTTGGACATCTTTAGGAATGATGA
TAACACGATTCCACTGCGATGAGGACGACTGGTTATCTAAGAGTGACACGGTCATACTGTGATGA
GGAAATCTGGTCGGGGAATGACACGGCTCATACATGATGAAGAGTTCTGATCGTCTAAGGGTGAC
ACGACTCCTACGTGAAGAGGAGG
Found at i:2650252 original size:66 final size:63
Alignment explanation
Indices: 2650135--2650298 Score: 152
Period size: 63 Copynumber: 2.5 Consensus size: 63
2650125 TTATGTTTAT
* * ** *
2650135 AAAGAAACTGCCTCAAGGGAGACAAAA-TTTGTTTAAATAGAAATGATCTCAAAGATAGGTGTTT
1 AAAGAAATTGTCTCAA--GAGACAAAATTTTGTTTAAATAGAAACAAACTCAAAGAT---TGTTT
2650199 TCA
61 TCA
* ** * *
2650202 AAAGAAATTTTCTTGAGAGACAAAATTTTGTTTCAAA-AGAAACAAACTCAAAGATTTTTTTCC
1 AAAGAAATTGTCTCAAGAGACAAAATTTTGTTT-AAATAGAAACAAACTCAAAGATTGTTTTCA
*
2650265 ACAGAAATTGTCTCAAGAGACAAAAATTTTGTTT
1 AAAGAAATTGTCTCAAGAGAC-AAAATTTTGTTT
2650299 TCAGAGAAAC
Statistics
Matches: 80, Mismatches: 14, Indels: 9
0.78 0.14 0.09
Matches are distributed among these distances:
63 23 0.29
64 12 0.15
65 9 0.11
66 22 0.28
67 14 0.17
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (63 bp):
AAAGAAATTGTCTCAAGAGACAAAATTTTGTTTAAATAGAAACAAACTCAAAGATTGTTTTCA
Found at i:2650327 original size:30 final size:29
Alignment explanation
Indices: 2650291--2650353 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
2650281 GAGACAAAAA
*
2650291 TTTTGTT-TTCAGAGAAACGGACTCAAATAT
1 TTTTGTTCTT-AGAGAAA-GGACTCAAAGAT
* *
2650321 TTTTGTTCTTATAGAAATGACTCAAAGAT
1 TTTTGTTCTTAGAGAAAGGACTCAAAGAT
2650350 TTTT
1 TTTT
2650354 TTACAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 14 0.48
30 13 0.45
31 2 0.07
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (29 bp):
TTTTGTTCTTAGAGAAAGGACTCAAAGAT
Found at i:2650968 original size:36 final size:35
Alignment explanation
Indices: 2650897--2651024 Score: 123
Period size: 36 Copynumber: 3.5 Consensus size: 35
2650887 CAACAAAATT
* * *
2650897 AAATTTGTATCTTAGAGAAAAATGTCTCAAACGAGACG
1 AAATTTGT-T-TTAGAG-AAATTGTCTCAAGCGAGACA
*
2650935 AAATTTGTTTTGAGAGAAATTGTCTCCAGCGAGACA
1 AAATTTGTTTT-AGAGAAATTGTCTCAAGCGAGACA
*
2650971 AAATTTGTTTTTAGA-AAAGTTGTCTCAAGCGAGATA
1 AAATTTG-TTTTAGAGAAA-TTGTCTCAAGCGAGACA
** *
2651007 AAGGTTGTTTTTGAGAAA
1 AAATTTGTTTTAGAGAAA
2651025 GCGATCTCAA
Statistics
Matches: 77, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
35 9 0.12
36 51 0.66
37 9 0.12
38 8 0.10
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (35 bp):
AAATTTGTTTTAGAGAAATTGTCTCAAGCGAGACA
Found at i:2651493 original size:4 final size:4
Alignment explanation
Indices: 2651484--2651541 Score: 57
Period size: 4 Copynumber: 15.0 Consensus size: 4
2651474 TTTATGTATC
* * *
2651484 ATGT ATGT ATAT ATG- -TGT ATGT ATGT ATAT ATGT TTGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
2651530 ATAT ATAT ATGT
1 ATGT ATGT ATGT
2651542 TTTCTTGATC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
2 2 0.05
4 42 0.95
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (4 bp):
ATGT
Found at i:2651522 original size:20 final size:18
Alignment explanation
Indices: 2651484--2651535 Score: 86
Period size: 20 Copynumber: 2.8 Consensus size: 18
2651474 TTTATGTATC
2651484 ATGTATGTATATATGTGT
1 ATGTATGTATATATGTGT
2651502 ATGTATGTATATATGTTTGT
1 ATGTATGTATATATG--TGT
2651522 ATGTATGTATATAT
1 ATGTATGTATATAT
2651536 ATATGTTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 15 0.47
20 17 0.53
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (18 bp):
ATGTATGTATATATGTGT
Found at i:2651777 original size:33 final size:32
Alignment explanation
Indices: 2651740--2651802 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
2651730 GAGAGATATT
* *
2651740 TGTTGAAT-TCCAAGATATGCCTCCAATATTCGA
1 TGTTGAATCTCCAA-AGATGCC-CCAACATTCGA
2651773 TGTTGAATCTCCAAAGATGCCCCAACATTC
1 TGTTGAATCTCCAAAGATGCCCCAACATTC
2651803 ATCATTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 8 0.30
33 14 0.52
34 5 0.19
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (32 bp):
TGTTGAATCTCCAAAGATGCCCCAACATTCGA
Found at i:2652875 original size:20 final size:17
Alignment explanation
Indices: 2652847--2652912 Score: 60
Period size: 18 Copynumber: 3.7 Consensus size: 17
2652837 CTTTTTGTTC
* * *
2652847 TTTGCTCTTTCTTTGTT
1 TTTGCTTTTTTTTTTTT
2652864 TTTGCTTTTCTTTTTTTT
1 TTTGCTTTT-TTTTTTTT
*
2652882 TTTGCTCTTTTGTTTTTTC
1 TTTGCT-TTTT-TTTTTTT
*
2652901 TTTGCTTCTTTT
1 TTTGCTTTTTTT
2652913 CTCTTTGTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
17 10 0.24
18 16 0.39
19 15 0.37
ACGTcount: A:0.00, C:0.15, G:0.09, T:0.76
Consensus pattern (17 bp):
TTTGCTTTTTTTTTTTT
Found at i:2652882 original size:16 final size:17
Alignment explanation
Indices: 2652840--2652881 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
2652830 TTGTCATCTT
2652840 TTTGTTCTTTGCTCTTTC
1 TTTGTT-TTTGCTCTTTC
2652858 TTTGTTTTTGCT-TTTC
1 TTTGTTTTTGCTCTTTC
2652874 TTT-TTTTT
1 TTTGTTTTT
2652882 TTTGCTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.21
16 7 0.29
17 6 0.25
18 6 0.25
ACGTcount: A:0.00, C:0.14, G:0.10, T:0.76
Consensus pattern (17 bp):
TTTGTTTTTGCTCTTTC
Found at i:2652897 original size:19 final size:18
Alignment explanation
Indices: 2652847--2652912 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 18
2652837 CTTTTTGTTC
* *
2652847 TTTGCTC-TTTCTTTGTT
1 TTTGCTCTTTTTTTTTTT
2652864 TTTGCT-TTTCTTTTTTTT
1 TTTGCTCTTT-TTTTTTTT
*
2652882 TTTGCTCTTTTGTTTTTTC
1 TTTGCTCTTTT-TTTTTTT
2652901 TTTGCTTCTTTT
1 TTTGC-TCTTTT
2652913 CTCTTTGTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 8 0.20
18 13 0.32
19 14 0.34
20 6 0.15
ACGTcount: A:0.00, C:0.15, G:0.09, T:0.76
Consensus pattern (18 bp):
TTTGCTCTTTTTTTTTTT
Found at i:2652910 original size:35 final size:35
Alignment explanation
Indices: 2652827--2652912 Score: 86
Period size: 35 Copynumber: 2.4 Consensus size: 35
2652817 TTGCCTGTGC
*
2652827 TCTTTGTCATCTTTTTGTTCTTTGCTCTTTCTTTGT
1 TCTTTG-CTTCTTTTTGTTCTTTGCTCTTTCTTTGT
* * *
2652863 T-TTTGCTTTTCTTTTT-TTTTTTGCTCTTTTGTTTTT
1 TCTTTGC--TTCTTTTTGTTCTTTGCTC-TTTCTTTGT
2652899 TCTTTGCTTCTTTT
1 TCTTTGCTTCTTTT
2652913 CTCTTTGTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
34 1 0.02
35 20 0.48
36 16 0.38
37 5 0.12
ACGTcount: A:0.01, C:0.16, G:0.09, T:0.73
Consensus pattern (35 bp):
TCTTTGCTTCTTTTTGTTCTTTGCTCTTTCTTTGT
Found at i:2653140 original size:20 final size:20
Alignment explanation
Indices: 2653115--2653167 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
2653105 AATGCAATTA
2653115 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
**
2653135 GTGCATCGATGCATTTTGCT
1 GTGCATCGATGCATCCTGCT
*
2653155 GTGCATCCATGCA
1 GTGCATCGATGCA
2653168 CCAAGGCTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.17, C:0.26, G:0.25, T:0.32
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGCT
Found at i:2660274 original size:43 final size:43
Alignment explanation
Indices: 2660210--2660300 Score: 139
Period size: 43 Copynumber: 2.1 Consensus size: 43
2660200 AAAACTTTTA
*
2660210 GAATTTAGTGACAAAAATAGAATAGAGAAT-ATAGTTGAGTGAT
1 GAATTTAGTGACAAAAATAGAAAAGA-AATGATAGTTGAGTGAT
* *
2660253 GAATTTAGTGACAAAAGTAGAAAAGAAATGATGGTTGAGTGAT
1 GAATTTAGTGACAAAAATAGAAAAGAAATGATAGTTGAGTGAT
2660296 GAATT
1 GAATT
2660301 GTATAATTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 3 0.07
43 41 0.93
ACGTcount: A:0.45, C:0.02, G:0.25, T:0.27
Consensus pattern (43 bp):
GAATTTAGTGACAAAAATAGAAAAGAAATGATAGTTGAGTGAT
Found at i:2663459 original size:20 final size:20
Alignment explanation
Indices: 2663429--2663474 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
2663419 GGATGAGCAC
*
2663429 AAAACCGGCTGAAAACCGGT
1 AAAATCGGCTGAAAACCGGT
*
2663449 AGAATCGGCTGAAAACCGGT
1 AAAATCGGCTGAAAACCGGT
2663469 AAAATC
1 AAAATC
2663475 TGGGTGAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.41, C:0.22, G:0.24, T:0.13
Consensus pattern (20 bp):
AAAATCGGCTGAAAACCGGT
Found at i:2663513 original size:30 final size:30
Alignment explanation
Indices: 2663429--2663515 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
2663419 GGATGAGCAC
* * *
2663429 AAAACCGGCTGAAAACCGGTAGAATCGGCTG
1 AAAACCGG-TAAAAACCGGTTGAACCGGCTG
* * *
2663460 AAAACCGGTAAAATCTGGGTGAACCGGCTG
1 AAAACCGGTAAAAACCGGTTGAACCGGCTG
*
2663490 AAAACTGG-AAAAACCGGTTTGAACCG
1 AAAACCGGTAAAAACCGG-TTGAACCG
2663516 CCGGTTCACT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
29 7 0.16
30 30 0.67
31 8 0.18
ACGTcount: A:0.37, C:0.21, G:0.28, T:0.15
Consensus pattern (30 bp):
AAAACCGGTAAAAACCGGTTGAACCGGCTG
Found at i:2664392 original size:16 final size:18
Alignment explanation
Indices: 2664371--2664416 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
2664361 ATCACTTAAA
2664371 TTATAATTAAAT-AAT-T
1 TTATAATTAAATAAATAT
*
2664387 TTATAA-TATTATAAATAT
1 TTATAATTA-AATAAATAT
2664405 TTATAATTAAAT
1 TTATAATTAAAT
2664417 TTAAACATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
15 2 0.08
16 8 0.33
17 3 0.12
18 9 0.38
19 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTATAATTAAATAAATAT
Found at i:2675075 original size:3 final size:3
Alignment explanation
Indices: 2675060--2675101 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
2675050 TTGGTCTTTG
*
2675060 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2675102 TTCAGAAGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 1 0.03
3 35 0.97
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2675646 original size:32 final size:32
Alignment explanation
Indices: 2675586--2675646 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
2675576 AAGGTTTTGG
**
2675586 TAAGTAAGATGAGGGAATTGAACCTAATTTAT
1 TAAGTAAGATGAGGGAATTGAAAATAATTTAT
2675618 TAAGTATAG-TGAGGGAATTGAAAATAATT
1 TAAGTA-AGATGAGGGAATTGAAAATAATT
2675647 AAAGTTCAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 24 0.92
33 2 0.08
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.31
Consensus pattern (32 bp):
TAAGTAAGATGAGGGAATTGAAAATAATTTAT
Found at i:2681400 original size:2 final size:2
Alignment explanation
Indices: 2681393--2681421 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2681383 TTGTCTTTAA
2681393 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2681422 ATAGAGATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.