Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008645.1 Hibiscus syriacus cultivar Beakdansim tig00111621_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: 4138222
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 22
Found at i:2543029 original size:20 final size:20
Alignment explanation
Indices: 2543000--2543039 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2542990 TGAATTTCGA
2543000 TTTTAAATACCTAATAAGTC
1 TTTTAAATACCTAATAAGTC
*
2543020 TTTTAGATACCTAATAAGTC
1 TTTTAAATACCTAATAAGTC
2543040 AATATTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (20 bp):
TTTTAAATACCTAATAAGTC
Found at i:2543485 original size:21 final size:21
Alignment explanation
Indices: 2543436--2543486 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
2543426 CAAGTGTTCT
**
2543436 TTCATGTAAGAATGTAGTTTG
1 TTCATGTTCGAATGTAGTTTG
2543457 TTCATGTTCGAATGTAGTTTG
1 TTCATGTTCGAATGTAGTTTG
2543478 TTCATGTTC
1 TTCATGTTC
2543487 ATTCGCTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.10, G:0.22, T:0.47
Consensus pattern (21 bp):
TTCATGTTCGAATGTAGTTTG
Found at i:2543530 original size:24 final size:24
Alignment explanation
Indices: 2543495--2543556 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
2543485 TCATTCGCTA
2543495 AAATGAACACAAACGAAAGAACGT
1 AAATGAACACAAACGAAAGAACGT
* * *
2543519 AAATGAATACAAATGAAAGAATGT
1 AAATGAACACAAACGAAAGAACGT
* *
2543543 AAACGGACACAAAC
1 AAATGAACACAAAC
2543557 AAACAAACAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.58, C:0.15, G:0.16, T:0.11
Consensus pattern (24 bp):
AAATGAACACAAACGAAAGAACGT
Found at i:2547085 original size:5 final size:6
Alignment explanation
Indices: 2547070--2547094 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2547060 ATTAGACTGG
2547070 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
2547095 GGTAGGAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:2552855 original size:14 final size:14
Alignment explanation
Indices: 2552836--2552882 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
2552826 TGATATAGAA
2552836 TTTATTATTATTAT
1 TTTATTATTATTAT
**
2552850 TTTATTAAAATTAT
1 TTTATTATTATTAT
*
2552864 TTT-TT-TTATTTT
1 TTTATTATTATTAT
2552876 TTTATTA
1 TTTATTA
2552883 CCCCATCTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
12 7 0.27
13 4 0.15
14 15 0.58
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTATTATTATTAT
Found at i:2553249 original size:41 final size:41
Alignment explanation
Indices: 2553163--2553556 Score: 334
Period size: 41 Copynumber: 9.5 Consensus size: 41
2553153 TACATATAGC
* * * *
2553163 GGCGTTTTTGA-ACAAACGCCGCAAAATACT-ATACTTTAGT
1 GGCGTTTTT-ATACAAACGCCGCTAAAGAATCGTACTTTAGT
* * * *
2553203 GGCGTTTGTATAAAAACGCCGCTAAAGAATCGTAATGTAGT
1 GGCGTTTTTATACAAACGCCGCTAAAGAATCGTACTTTAGT
* * * *
2553244 GGCGTTTTTATACAAACGCCGCTATAA-ACTAGTATTTTAAT
1 GGCGTTTTTATACAAACGCCGCTA-AAGAATCGTACTTTAGT
* * *
2553285 GGCGTTTTTATACAAACGCTGCTATAGACA-CGTACTTTTGT
1 GGCGTTTTTATACAAACGCCGCTAAAGA-ATCGTACTTTAGT
* * *
2553326 GGCGTTTTAATACCAAACGCCGCTATAGACTCGTACTTTAGT
1 GGCGTTTTTATA-CAAACGCCGCTAAAGAATCGTACTTTAGT
* * * *
2553368 GGCATTTTTACACAAACGCCGCTATAGACA-CGTACTTTTGT
1 GGCGTTTTTATACAAACGCCGCTAAAGA-ATCGTACTTTAGT
* * * * *
2553409 AGCGTTTTAATACCAAACACCGCTATAGACA-CGTACTTTTGT
1 GGCGTTTTTATA-CAAACGCCGCTAAAGA-ATCGTACTTTAGT
* * *
2553451 GGCGTTTTAATACCAAACGCCGCTATAGATTCGTACTTTAGT
1 GGCGTTTTTATA-CAAACGCCGCTAAAGAATCGTACTTTAGT
* * * *
2553493 GGTGTTTTTACACAAACGCCGCTATAGACA-CGTACTTTTGT
1 GGCGTTTTTATACAAACGCCGCTAAAGA-ATCGTACTTTAGT
*
2553534 GGCGTTTTAATATCAAACGCCGC
1 GGCGTTTTTATA-CAAACGCCGC
2553557 AATTGTCATA
Statistics
Matches: 294, Mismatches: 48, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.00
40 24 0.08
41 149 0.51
42 120 0.41
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (41 bp):
GGCGTTTTTATACAAACGCCGCTAAAGAATCGTACTTTAGT
Found at i:2553376 original size:83 final size:83
Alignment explanation
Indices: 2553194--2553556 Score: 430
Period size: 83 Copynumber: 4.4 Consensus size: 83
2553184 CAAAATACTA
* * * * * *
2553194 TACTTTAGTGGCGTTTGTATAAAAACGCCGCTAAAGA-ATCGTAATGTAGTGGCGTTTTTATA-C
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACA-CGTACTTTAGTGGCGTTTTAATACC
*
2553257 AAACGCCGCTATAAACTA-G
65 AAACGCCGCTATAGAC-ACG
* * * *
2553276 TATTTTAATGGCGTTTTTATACAAACGCTGCTATAGACACGTACTTTTGTGGCGTTTTAATACCA
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAATACCA
*
2553341 AACGCCGCTATAGACTCG
66 AACGCCGCTATAGACACG
* * * *
2553359 TACTTTAGTGGCATTTTTACACAAACGCCGCTATAGACACGTACTTTTGTAGCGTTTTAATACCA
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAATACCA
*
2553424 AACACCGCTATAGACACG
66 AACGCCGCTATAGACACG
* * ** *
2553442 TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGATTCGTACTTTAGTGGTGTTTT--TACA
1 TACTTTAGTGGCGTTTTTATA-CAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAATAC-
2553505 CAAACGCCGCTATAGACACG
64 CAAACGCCGCTATAGACACG
* *
2553525 TACTTTTGTGGCGTTTTAATATCAAACGCCGC
1 TACTTTAGTGGCGTTTTTATA-CAAACGCCGC
2553557 AATTGTCATA
Statistics
Matches: 245, Mismatches: 31, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
82 53 0.22
83 160 0.65
84 32 0.13
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (83 bp):
TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAATACCA
AACGCCGCTATAGACACG
Found at i:2553474 original size:125 final size:124
Alignment explanation
Indices: 2553194--2553556 Score: 509
Period size: 125 Copynumber: 2.9 Consensus size: 124
2553184 CAAAATACTA
* * * * * *
2553194 TACTTTAGTGGCGTTTGT-ATA-AAAACGCCGCTAAAGAATCGTAATGTAGTGGCGTTTTTATAC
1 TACTTTTGTGGCGTTT-TAATACCAAACGCCGCTATAGAATCGTACTTTAGTGGCGTTTTTACAC
* * * *
2553257 AAACGCCGCTATAAACTA-GTA-TTTTAATGGCGTTTTTATACAAACGCTGCTATAGACACG
65 AAACGCCGCTATAGAC-ACGTACTTTT-GTGGCGTTTTAATACAAACGCCGCTATAGACACG
* *
2553317 TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGACTCGTACTTTAGTGGCATTTTTACACA
1 TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGAATCGTACTTTAGTGGCGTTTTTACACA
* *
2553382 AACGCCGCTATAGACACGTACTTTTGTAGCGTTTTAATACCAAACACCGCTATAGACACG
66 AACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATA-CAAACGCCGCTATAGACACG
* *
2553442 TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGATTCGTACTTTAGTGGTGTTTTTACACA
1 TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGAATCGTACTTTAGTGGCGTTTTTACACA
2553507 AACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATATCAAACGCCGC
66 AACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATA-CAAACGCCGC
2553557 AATTGTCATA
Statistics
Matches: 215, Mismatches: 20, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
122 1 0.00
123 19 0.09
124 64 0.30
125 131 0.61
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (124 bp):
TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGAATCGTACTTTAGTGGCGTTTTTACACA
AACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACAAACGCCGCTATAGACACG
Found at i:2557124 original size:42 final size:42
Alignment explanation
Indices: 2557047--2557272 Score: 210
Period size: 43 Copynumber: 5.3 Consensus size: 42
2557037 AAGGTAATTA
* * *
2557047 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTGACCTTTT
1 GCGGCGTTT-TTTCTAAAAACGCCGCTATAAGTCTGACCTTTT
* *
2557090 GCGGCGTTTTTTCTAAAAACACCAG-TATAAGTCTG-CTATTTT
1 GCGGCGTTTTTTCTAAAAACGCC-GCTATAAGTCTGAC-CTTTT
* *
2557132 GCGGCGTTTTTTGATACAAACGCCGCTAT-AGATCTGACCTTTT
1 GCGGCGTTTTTT-CTAAAAACGCCGCTATAAG-TCTGACCTTTT
* * * *
2557175 GCGGTGTTTTTTCTAGAAACGCCGCTATATA-TCATAACTTTTT
1 GCGGCGTTTTTTCTAAAAACGCCGCTATA-AGTC-TGACCTTTT
* * *
2557218 GCGGCGTTTATTCCAAAAACGCCGCTATTAA-TATCGACCTTTT
1 GCGGCGTTTTTTCTAAAAACGCCGCTA-TAAGTCT-GACCTTTT
2557261 GCGGCGTTTTTT
1 GCGGCGTTTTTT
2557273 GTTCTCAAAC
Statistics
Matches: 150, Mismatches: 22, Indels: 22
0.77 0.11 0.11
Matches are distributed among these distances:
41 1 0.01
42 56 0.37
43 89 0.59
44 4 0.03
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (42 bp):
GCGGCGTTTTTTCTAAAAACGCCGCTATAAGTCTGACCTTTT
Found at i:2557238 original size:85 final size:83
Alignment explanation
Indices: 2557047--2557272 Score: 253
Period size: 85 Copynumber: 2.6 Consensus size: 83
2557037 AAGGTAATTA
*
2557047 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTTTTCTAAAAACAC
1 GCGGCGTTT-T-TCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTTTTCTAAAAACAC
*
2557112 CAGTATAAGTCTGCTATTTT
64 CAGTATAAGTCTACTATTTT
** * * *
2557132 GCGGCGTTTTTTGATACAAACGCCGCTATAGATCTGACCTTTTGCGGTGTTTTTTCTAGAAACGC
1 GCGGCGTTTTTCCA-A-AAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTTTTCTAAAAACAC
2557197 C-GCTATATA-TCATAACT-TTTT
64 CAG-TATA-AGTC-T-ACTATTTT
*
2557218 GCGGCGTTTATTCCAAAAACGCCGCTATTA-ATATCGACCTTTTGCGGCGTTTTTT
1 GCGGCGTTT-TTCCAAAAACGCCGCTA-TAGATCT-GACCTTTTGCGGCGTTTTTT
2557273 GTTCTCAAAC
Statistics
Matches: 121, Mismatches: 11, Indels: 17
0.81 0.07 0.11
Matches are distributed among these distances:
83 2 0.02
84 3 0.02
85 74 0.61
86 37 0.31
87 5 0.04
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (83 bp):
GCGGCGTTTTTCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTTTTCTAAAAACACCA
GTATAAGTCTACTATTTT
Found at i:2558322 original size:14 final size:15
Alignment explanation
Indices: 2558268--2558325 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
2558258 ATTGATTTTT
2558268 TGGAAAATGAATTAC
1 TGGAAAATGAATTAC
2558283 T--AAAATTTGAATTAC
1 TGGAAAA--TGAATTAC
**
2558298 TGGAATTTGAATT-C
1 TGGAAAATGAATTAC
2558312 TGGAAAATGAATTA
1 TGGAAAATGAATTA
2558326 TATTTTTGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
13 4 0.12
14 12 0.35
15 16 0.47
17 2 0.06
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.34
Consensus pattern (15 bp):
TGGAAAATGAATTAC
Found at i:2558508 original size:19 final size:18
Alignment explanation
Indices: 2558486--2558555 Score: 65
Period size: 19 Copynumber: 3.9 Consensus size: 18
2558476 ATTAAATACA
*
2558486 ATAAATAATATTATTTATC
1 ATAAA-AATATTATTTATT
*
2558505 ATAAAACT-TT-TTTATT
1 ATAAAAATATTATTTATT
2558521 ATAAAAATAATTATTTATT
1 ATAAAAAT-ATTATTTATT
* *
2558540 AT-TAAATAGTATTTAT
1 ATAAAAATATTATTTAT
2558556 AATTTTATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
16 12 0.28
17 10 0.23
18 8 0.19
19 13 0.30
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (18 bp):
ATAAAAATATTATTTATT
Found at i:2558698 original size:23 final size:23
Alignment explanation
Indices: 2558649--2558734 Score: 66
Period size: 23 Copynumber: 3.6 Consensus size: 23
2558639 TTGTTATATT
* **
2558649 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAATATATTAATTAAA
* *
2558672 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAATATATTAATTAAA
*
2558695 ATATTATTTAAATATA-TAAATAATA
1 ATA-T-TTTAAATATATTAATTAA-A
*
2558720 TTATTATTAAATATA
1 ATATT-TTAAATATA
2558735 AAAAAAATTT
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
23 22 0.44
24 16 0.32
25 12 0.24
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (23 bp):
ATATTTTAAATATATTAATTAAA
Found at i:2558734 original size:24 final size:23
Alignment explanation
Indices: 2558696--2558749 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
2558686 TTTATTAAAA
* *
2558696 TATTATTTAAATATATAAATAATAT
1 TATTA-TTAAATATAAAAAAAAT-T
2558721 TATTATTAAATATAAAAAAAATT
1 TATTATTAAATATAAAAAAAATT
2558744 TATTAT
1 TATTAT
2558750 ATGTTATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 7 0.26
24 15 0.56
25 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TATTATTAAATATAAAAAAAATT
Found at i:2558815 original size:28 final size:25
Alignment explanation
Indices: 2558710--2558831 Score: 68
Period size: 28 Copynumber: 4.6 Consensus size: 25
2558700 ATTTAAATAT
*
2558710 ATAAATAATATTATTAT-TAAATATAAA
1 ATAAATTATATT-TTATAT-AAT-TAAA
* * * *
2558737 AAAAATT-TATTATATGTTATTAAA
1 ATAAATTATATTTTATATAATTAAA
* * *
2558761 ATAAAAATATAATATCTTATATTATTATA
1 AT--AAAT-T-ATATTTTATATAATTAAA
2558790 ATATAATTGATTATTTTATATAATTAAA
1 ATA-AATT-A-TATTTTATATAATTAAA
2558818 ATAAATTATATTTT
1 ATAAATTATATTTT
2558832 TAAATATTAA
Statistics
Matches: 74, Mismatches: 13, Indels: 18
0.70 0.12 0.17
Matches are distributed among these distances:
24 5 0.07
25 11 0.15
26 10 0.14
27 13 0.18
28 20 0.27
29 15 0.20
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.47
Consensus pattern (25 bp):
ATAAATTATATTTTATATAATTAAA
Found at i:2559678 original size:14 final size:13
Alignment explanation
Indices: 2559655--2559693 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
2559645 TAAAACATAT
2559655 TAAATAATAAATA
1 TAAATAATAAATA
2559668 TAAATATATAAATA
1 TAAATA-ATAAATA
*
2559682 TAATTAA-AAATA
1 TAAATAATAAATA
2559694 AATTTGAGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 5 0.21
13 7 0.29
14 12 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAATAATAAATA
Found at i:2560707 original size:6 final size:6
Alignment explanation
Indices: 2560693--2560743 Score: 70
Period size: 6 Copynumber: 8.8 Consensus size: 6
2560683 TTGATAAATG
* *
2560693 CTCG-A CTCGGA CTCGGA CTCGAA CT-GAA CTCGAA CTCGAA CTCGAA
1 CTCGAA CTCGAA CTCGAA CTCGAA CTCGAA CTCGAA CTCGAA CTCGAA
2560739 CTCGA
1 CTCGA
2560744 GACCTTAACG
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
5 9 0.21
6 34 0.79
ACGTcount: A:0.27, C:0.33, G:0.22, T:0.18
Consensus pattern (6 bp):
CTCGAA
Found at i:2560729 original size:23 final size:23
Alignment explanation
Indices: 2560697--2560740 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
2560687 TAAATGCTCG
* *
2560697 ACTCGGACTCGGACTCGAACTGA
1 ACTCGAACTCGAACTCGAACTGA
2560720 ACTCGAACTCGAACTCGAACT
1 ACTCGAACTCGAACTCGAACT
2560741 CGAGACCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.32, G:0.20, T:0.18
Consensus pattern (23 bp):
ACTCGAACTCGAACTCGAACTGA
Found at i:2561281 original size:13 final size:13
Alignment explanation
Indices: 2561263--2561290 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2561253 ATAGTTTTGA
2561263 AAGTTTGAGGGTT
1 AAGTTTGAGGGTT
2561276 AAGTTTGAGGGTT
1 AAGTTTGAGGGTT
2561289 AA
1 AA
2561291 AGTATAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.36, T:0.36
Consensus pattern (13 bp):
AAGTTTGAGGGTT
Found at i:2566777 original size:21 final size:21
Alignment explanation
Indices: 2566751--2566813 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
2566741 GTCGAGGGTT
2566751 TCATAGGTCCTTCGGGACAAC
1 TCATAGGTCCTTCGGGACAAC
* *
2566772 TCATAGGTCTTTCGGGACATAT
1 TCATAGGTCCTTCGGGACA-AC
* *
2566794 TCACATGTCCTTCGGGACAA
1 TCATAGGTCCTTCGGGACAA
2566814 AATTTCATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
21 19 0.53
22 17 0.47
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (21 bp):
TCATAGGTCCTTCGGGACAAC
Found at i:2566810 original size:22 final size:21
Alignment explanation
Indices: 2566755--2566813 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 21
2566745 AGGGTTTCAT
*
2566755 AGGTCCTTCGGGACAACTCAT
1 AGGTCCTTCGGGACAACTCAC
* *
2566776 AGGTCTTTCGGGACATATTCAC
1 AGGTCCTTCGGGACA-ACTCAC
*
2566798 ATGTCCTTCGGGACAA
1 AGGTCCTTCGGGACAA
2566814 AATTTCATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 15 0.47
22 17 0.53
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (21 bp):
AGGTCCTTCGGGACAACTCAC
Found at i:2567407 original size:21 final size:21
Alignment explanation
Indices: 2567381--2567438 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
2567371 TTGTAGCAGT
*
2567381 ACTGTAGTAGTACATCGATGC
1 ACTGTAGTAGTGCATCGATGC
*
2567402 ACTGTAGTAGTGCATCGATGT
1 ACTGTAGTAGTGCATCGATGC
*
2567423 ACTGTAGCAGTGCATC
1 ACTGTAGTAGTGCATC
2567439 AATACACAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (21 bp):
ACTGTAGTAGTGCATCGATGC
Found at i:2567526 original size:12 final size:12
Alignment explanation
Indices: 2567509--2567538 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2567499 ACTGTAGCAA
2567509 TGTTCATGGTAC
1 TGTTCATGGTAC
*
2567521 TGTTCATGGTAT
1 TGTTCATGGTAC
2567533 TGTTCA
1 TGTTCA
2567539 CGGAAATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.13, G:0.23, T:0.47
Consensus pattern (12 bp):
TGTTCATGGTAC
Found at i:2584560 original size:156 final size:156
Alignment explanation
Indices: 2584300--2584668 Score: 503
Period size: 156 Copynumber: 2.4 Consensus size: 156
2584290 CCTGATTTTA
* * * * * * *
2584300 TTATTTCTTCAATTCTTCCTTCATTTTAAGTCCATTTTTTTTACCAAATTTGAACCAAATGCTCT
1 TTATTTCTTCAATTCGTCATTTATTTTAAGT-CATTTTTTAT-CCAAATTTGAACCACATGATCC
*
2584365 TAAACCATAATACAATACATGTGTACTTTTAATTTCTCTTTTTGATAACAATTTTTTATTTTTCA
64 TAAACCATAATACAATACATGTGTACTTTTAATTCCTCTTTTTGATAACAATTTTTTATTTTTCA
*
2584430 ATTTAGTCCTTTAACTTTTCATAATATCC
129 ATTTAGTCCTTCAA-TTTTCATAATATCC
*
2584459 TTATTTCTTCAATTCGTCATTTATTTTAAGTC-TGTTTTTATCC-AATTTGAGCCACATGATCCT
1 TTATTTCTTCAATTCGTCATTTATTTTAAGTCAT-TTTTTATCCAAATTTGAACCACATGATCCT
* * *
2584522 AAACCATAGTAGAATACATGTGTA-TTTTCAATTCCTCTTTTTGATAACATTTTTTTATTTTTCA
65 AAACCATAATACAATACATGTGTACTTTT-AATTCCTCTTTTTGATAACAATTTTTTATTTTTCA
*
2584586 ATTTAGTCCTTCAATTTTCATAATGTCC
129 ATTTAGTCCTTCAATTTTCATAATATCC
* * * *
2584614 TTATTCCTTCAATTTGTGATTTATTTTAAGTCATTTTTTA-CCAAATTTGACCCAC
1 TTATTTCTTCAATTCGTCATTTATTTTAAGTCATTTTTTATCCAAATTTGAACCAC
2584669 TTCCTCATAT
Statistics
Matches: 188, Mismatches: 18, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
154 2 0.01
155 63 0.34
156 85 0.45
157 3 0.02
158 7 0.04
159 28 0.15
ACGTcount: A:0.27, C:0.18, G:0.07, T:0.49
Consensus pattern (156 bp):
TTATTTCTTCAATTCGTCATTTATTTTAAGTCATTTTTTATCCAAATTTGAACCACATGATCCTA
AACCATAATACAATACATGTGTACTTTTAATTCCTCTTTTTGATAACAATTTTTTATTTTTCAAT
TTAGTCCTTCAATTTTCATAATATCC
Found at i:2584707 original size:155 final size:156
Alignment explanation
Indices: 2584365--2584709 Score: 430
Period size: 155 Copynumber: 2.2 Consensus size: 156
2584355 CAAATGCTCT
* * * *
2584365 TAAACCATAATACAATACATGTGT-ACTTTTAATTTCTCTTTTTGATAACAATTTTTTATTTTTC
1 TAAACCACAATAGAATACATGTGTAAC-TTCAATTCCTCTTTTTGATAACAATTTTTTATTTTTC
* *
2584429 AATTTAGTCCTTTAACTTTTCATAATATCCTTATTTCTTCAATTCGTCATTTATTTTAAGTCTGT
65 AATTTAGTCCTTCAACTTTTCATAATATCCTTATTCCTTCAATTCGTCATTTATTTTAAGTCTGT
* * *
2584494 TTTTATCCAATTTGAGCCACATGATCC
130 TTTTATCCAATTTGACCCACATCATCA
* * ** *
2584521 TAAACCATAGTAGAATACATGTGTATTTTCAATTCCTCTTTTTGATAACATTTTTTTATTTTTCA
1 TAAACCACAATAGAATACATGTGTAACTTCAATTCCTCTTTTTGATAACAATTTTTTATTTTTCA
* * *
2584586 ATTTAGTCCTTCAA-TTTTCATAATGTCCTTATTCCTTCAATTTGTGATTTATTTTAAGTCAT-T
66 ATTTAGTCCTTCAACTTTTCATAATATCCTTATTCCTTCAATTCGTCATTTATTTTAAGTC-TGT
* *
2584649 TTTTA-CCAAATTTGACCCACTTCCTCA
130 TTTTATCC-AATTTGACCCACATCATCA
* *
2584676 TATACCACAATAGAATTTC-TGTGTAACTTCAATT
1 TAAACCACAATAGAA-TACATGTGTAACTTCAATT
2584710 TTTATTTCTT
Statistics
Matches: 162, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
154 2 0.01
155 87 0.54
156 73 0.45
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.48
Consensus pattern (156 bp):
TAAACCACAATAGAATACATGTGTAACTTCAATTCCTCTTTTTGATAACAATTTTTTATTTTTCA
ATTTAGTCCTTCAACTTTTCATAATATCCTTATTCCTTCAATTCGTCATTTATTTTAAGTCTGTT
TTTATCCAATTTGACCCACATCATCA
Found at i:2587609 original size:22 final size:19
Alignment explanation
Indices: 2587595--2587632 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
2587585 TAACTGTAGA
2587595 CAAAAAAAATAATAATTAG
1 CAAAAAAAATAATAATTAG
*
2587614 CACAAAAAATAATTAATTA
1 CAAAAAAAATAA-TAATTA
2587633 ATAAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.66, C:0.08, G:0.03, T:0.24
Consensus pattern (19 bp):
CAAAAAAAATAATAATTAG
Found at i:2587661 original size:16 final size:16
Alignment explanation
Indices: 2587640--2587691 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 16
2587630 TTAATAAATT
2587640 TAAAAAAATTATTTTA
1 TAAAAAAATTATTTTA
2587656 T--AAAAATTATTTTAA
1 TAAAAAAATTATTTT-A
*
2587671 TAAAAAATAATATTTATA
1 TAAAAAA-ATTATTT-TA
2587689 TAA
1 TAA
2587692 TTATATTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 12 0.40
15 2 0.07
16 1 0.03
17 4 0.13
18 10 0.33
19 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAAAAAATTATTTTA
Found at i:2587673 original size:15 final size:15
Alignment explanation
Indices: 2587638--2587676 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
2587628 AATTAATAAA
2587638 TTTAA-AAAAATTAT
1 TTTAATAAAAATTAT
2587652 TTT-ATAAAAATTAT
1 TTTAATAAAAATTAT
2587666 TTTAATAAAAA
1 TTTAATAAAAA
2587677 ATAATATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.04
14 15 0.65
15 7 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TTTAATAAAAATTAT
Found at i:2587678 original size:30 final size:30
Alignment explanation
Indices: 2587642--2587714 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
2587632 AATAAATTTA
* *
2587642 AAAAAATTAT-TTTATAAAAATTATTTTAAT
1 AAAAAATAATATTTAT-AAAATTATATTAAT
*
2587672 AAAAAATAATATTTATATAATTATATTAAT
1 AAAAAATAATATTTATAAAATTATATTAAT
2587702 ATAAAATATAATA
1 A-AAAA-ATAATA
2587715 AATATTTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 22 0.59
31 9 0.24
32 6 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (30 bp):
AAAAAATAATATTTATAAAATTATATTAAT
Found at i:2588011 original size:60 final size:61
Alignment explanation
Indices: 2587918--2588060 Score: 200
Period size: 60 Copynumber: 2.4 Consensus size: 61
2587908 CATTTAATGA
* * * *
2587918 AAGGCGCGTCCCCGGGGATGCGTCTTTCACACGTGGCAACCGAA-TCAGCAATATCCCGTG-
1 AAGGCGCGTCCCCGGGGATGCGCCTTCCACACGTGGCAACC-AACTCAGCAATAACCCGGGT
* *
2587978 AAGGCGCGTCCCCGGGGATGCGCCTTCCACACGTGGCAGCCAACTCAGCATTAACCCGGGT
1 AAGGCGCGTCCCCGGGGATGCGCCTTCCACACGTGGCAACCAACTCAGCAATAACCCGGGT
*
2588039 AAAGCGCGTCCCCGGGGATGCG
1 AAGGCGCGTCCCCGGGGATGCG
2588061 TCTTTCGCCA
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
59 2 0.03
60 51 0.69
61 21 0.28
ACGTcount: A:0.20, C:0.34, G:0.31, T:0.15
Consensus pattern (61 bp):
AAGGCGCGTCCCCGGGGATGCGCCTTCCACACGTGGCAACCAACTCAGCAATAACCCGGGT
Found at i:2591692 original size:17 final size:17
Alignment explanation
Indices: 2591645--2591684 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
2591635 ATTCGTAATT
2591645 AACACTTATTACATGCC
1 AACACTTATTACATGCC
2591662 AACACTTATTACATGCC
1 AACACTTATTACATGCC
2591679 AACACT
1 AACACT
2591685 CTATACATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.38, C:0.30, G:0.05, T:0.28
Consensus pattern (17 bp):
AACACTTATTACATGCC
Found at i:2592284 original size:29 final size:29
Alignment explanation
Indices: 2592242--2592315 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
2592232 TTTCATATGT
2592242 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
2592270 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
2592299 TCATGTAGCTCATGTCA
1 TCATGTAGCTCATGTCA
2592316 CTTCATATCA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 7 0.16
29 38 0.84
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:2592741 original size:64 final size:63
Alignment explanation
Indices: 2592662--2592821 Score: 178
Period size: 64 Copynumber: 2.5 Consensus size: 63
2592652 TAATGAAGGT
* * ***
2592662 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTA-GTATTATTACTGGG
1 ATGCATCGATGCACTACTAATGCATCGGTGCATAAAAGGAATTCGATGTATGTATT-TTA-AAAG
* * * ** *
2592726 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGAATTCGATGTATTTATTTTAAAAG
1 ATGCATCGATGCACTACTAATGCATCGGTGCATAAAAGGAATTCGATGTATGTATTTTAAAAG
*
2592789 AGTGCATCGATGCACTACCAATGCATCGGTGCA
1 A-TGCATCGATGCACTACTAATGCATCGGTGCA
2592822 CATTCAAACA
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
63 2 0.02
64 75 0.93
65 4 0.05
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (63 bp):
ATGCATCGATGCACTACTAATGCATCGGTGCATAAAAGGAATTCGATGTATGTATTTTAAAAG
Found at i:2599153 original size:29 final size:29
Alignment explanation
Indices: 2599102--2599180 Score: 124
Period size: 29 Copynumber: 2.8 Consensus size: 29
2599092 TTATATTTCA
* *
2599102 TATGTTCATGTA-CTCATGCCATTTCTCT
1 TATGATCATGTAGCTCATGTCATTTCTCT
*
2599130 TGTGATCATGTAGCTCATGTCATTTCTCT
1 TATGATCATGTAGCTCATGTCATTTCTCT
2599159 TATGATCATGTAGCTCATGTCA
1 TATGATCATGTAGCTCATGTCA
2599181 CTTCATATCA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 10 0.22
29 36 0.78
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (29 bp):
TATGATCATGTAGCTCATGTCATTTCTCT
Found at i:2599213 original size:12 final size:12
Alignment explanation
Indices: 2599196--2599230 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
2599186 TATCATGTTC
2599196 TCATATCACATA
1 TCATATCACATA
2599208 TCATATCACATA
1 TCATATCACATA
2599220 TCATATCACAT
1 TCATATCACAT
2599231 GAACATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.34
Consensus pattern (12 bp):
TCATATCACATA
Found at i:2600666 original size:64 final size:63
Alignment explanation
Indices: 2600598--2600754 Score: 167
Period size: 64 Copynumber: 2.4 Consensus size: 63
2600588 TTGAAGGTGT
* ** *
2600598 ATCGATGCACAGGAAGTGCATCGATGCA-CTCTTTTAA-AATA-AAGACATCGAATGCAATTCGT
1 ATCGATGCACA-GTAGTGCATCGATGCATCTC-AGTAATAA-ACAA-ACATCGAATGCAATTCAT
2600660 GC
62 GC
* * *
2600662 ATCGATGCATAAGTAGTGCATCGATGCATCTCAGTAATAAACAAACATCGAATGCATTTTATGC
1 ATCGATGCA-CAGTAGTGCATCGATGCATCTCAGTAATAAACAAACATCGAATGCAATTCATGC
*
2600726 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCA-CAGTAGTGCATCGATGCAT
2600755 ACCTTCATTA
Statistics
Matches: 80, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
64 72 0.90
65 8 0.10
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (63 bp):
ATCGATGCACAGTAGTGCATCGATGCATCTCAGTAATAAACAAACATCGAATGCAATTCATGC
Found at i:2601674 original size:103 final size:103
Alignment explanation
Indices: 2601490--2601704 Score: 376
Period size: 103 Copynumber: 2.1 Consensus size: 103
2601480 GTCGAGGGTC
*
2601490 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
** *
2601555 TTGATCTTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
2601593 TATGTGGTCATTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
2601658 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
2601696 TATGTGGTC
1 TATGTGGTC
2601705 CTTATGGACA
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:2601757 original size:23 final size:23
Alignment explanation
Indices: 2601724--2601786 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2601714 ATTATTATAT
*
2601724 GGCACTACGGTGCAATTTTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
2601747 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
*
2601770 GGCACTTCGGTGCAATT
1 GGCACTACGGTGCAATT
2601787 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:2608328 original size:15 final size:16
Alignment explanation
Indices: 2608316--2608387 Score: 53
Period size: 16 Copynumber: 4.4 Consensus size: 16
2608306 TTAATTTATG
2608316 TTTAATTATTTTAATA
1 TTTAATTATTTTAATA
2608332 TTTAA-TA-TTTAATA
1 TTTAATTATTTTAATA
*
2608346 -TTATTTAATTTTAAATTA
1 TTTAATT-ATTTT-AA-TA
*
2608364 TTTAAATTAATTTTATTA
1 TTT-AATT-ATTTTAATA
2608382 -TTAATT
1 TTTAATT
2608388 TAAAATTTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
13 3 0.07
14 8 0.17
15 3 0.07
16 12 0.26
17 4 0.09
18 4 0.09
19 3 0.07
20 9 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAATTATTTTAATA
Found at i:2608365 original size:25 final size:24
Alignment explanation
Indices: 2608319--2608383 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 24
2608309 ATTTATGTTT
2608319 AATTATTTTAATATTTAATATTTA
1 AATTATTTTAATATTTAATATTTA
2608343 ATATTA-TTTAAT-TTTAAATTATTTA
1 A-ATTATTTTAATATTT-AA-TATTTA
*
2608368 AATTAATTTTATTATT
1 AATT-ATTTTAATATT
2608384 AATTTAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
23 3 0.09
24 12 0.35
25 12 0.35
26 5 0.15
27 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
AATTATTTTAATATTTAATATTTA
Found at i:2608368 original size:32 final size:32
Alignment explanation
Indices: 2608323--2608394 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
2608313 ATGTTTAATT
2608323 ATTTT-AA-TATTTAATATTTAATATTA-T-TTA
1 ATTTTAAATTATTTAA-A-TTAATATTATTATTA
*
2608353 ATTTTAAATTATTTAAATTAATTTTATTATTA
1 ATTTTAAATTATTTAAATTAATATTATTATTA
*
2608385 ATTTAAAATT
1 ATTTTAAATT
2608395 TATATAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
30 13 0.36
31 4 0.11
32 19 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (32 bp):
ATTTTAAATTATTTAAATTAATATTATTATTA
Found at i:2608684 original size:18 final size:20
Alignment explanation
Indices: 2608641--2608680 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2608631 TTTGGTTCAC
*
2608641 GAAATATAAGATTACCAGTG
1 GAAATAAAAGATTACCAGTG
*
2608661 GAAATAAAAGATTATCAGTG
1 GAAATAAAAGATTACCAGTG
2608681 AATAGGATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.25
Consensus pattern (20 bp):
GAAATAAAAGATTACCAGTG
Found at i:2608892 original size:34 final size:34
Alignment explanation
Indices: 2608830--2608894 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
2608820 AAATTGTAAA
2608830 ATATTTATATATATTTCTTTAAAAAATTAAATTC
1 ATATTTATATATATTTCTTTAAAAAATTAAATTC
* *
2608864 ATATATTATATA-ATTTTTTTACAAAATTAAA
1 ATAT-TTATATATATTTCTTTAAAAAATTAAA
2608895 ATATAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 21 0.75
35 7 0.25
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (34 bp):
ATATTTATATATATTTCTTTAAAAAATTAAATTC
Found at i:2618765 original size:14 final size:15
Alignment explanation
Indices: 2618746--2618779 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2618736 ATGTTAAATA
2618746 AATAAAAAAATA-AT
1 AATAAAAAAATATAT
*
2618760 AATAAAAACATATAT
1 AATAAAAAAATATAT
2618775 AATAA
1 AATAA
2618780 TAATAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAAAAAAATATAT
Found at i:2618853 original size:19 final size:19
Alignment explanation
Indices: 2618809--2618859 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
2618799 AAATCACAGG
*
2618809 AAAAAAATATAAATAAGTAT
1 AAAAAAATA-AATTAAGTAT
*
2618829 ATAAAAATAAATTAAAG-AT
1 AAAAAAATAAATT-AAGTAT
*
2618848 AAAAAAAGAAAT
1 AAAAAAATAAAT
2618860 AAAATACAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.22
Consensus pattern (19 bp):
AAAAAAATAAATTAAGTAT
Found at i:2621104 original size:106 final size:106
Alignment explanation
Indices: 2620915--2621796 Score: 1390
Period size: 106 Copynumber: 8.3 Consensus size: 106
2620905 GGCCCCTTCC
* ** * * *
2620915 GAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
2620980 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
2621021 CAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* *
2621086 TCAGCGGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
2621127 GAGTCCAATATCCTTCGTTATGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
2621192 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
2621233 GAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTAAAATTG-GGAGATT-TTTATTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAG-TTGTTTGTTGACA
2621296 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
2621338 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* * * * * *
2621403 CCAGTGGTCCCTTCGACGTAAAGTTGAACTTGTGCTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
2621444 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGCTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
2621509 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
2621550 GAGTCTAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
2621615 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
2621656 GAGTCCAATTTCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
2621721 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
2621762 TAGTGGCACGATATCCTCCGTCGTGAAGTTGAAAT
1 GAGT--C-CAATATCCTTCGTTGTGAAGTTGAAAT
2621797 CGCGGATGGC
Statistics
Matches: 712, Mismatches: 58, Indels: 9
0.91 0.07 0.01
Matches are distributed among these distances:
105 100 0.14
106 589 0.83
108 1 0.00
109 22 0.03
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:2623361 original size:22 final size:22
Alignment explanation
Indices: 2623325--2623419 Score: 86
Period size: 22 Copynumber: 4.2 Consensus size: 22
2623315 TTTGCATGTG
*
2623325 CTTTTTTGTCCCTTTTTCTTTTT
1 CTTTTTTGT-TCTTTTTCTTTTT
**
2623348 GATTTTTGTTCTTTCTT-TTTTT
1 CTTTTTTGTTCTTT-TTCTTTTT
*
2623370 CTTTTTTGTTCTTCTTTTTTTTT
1 CTTTTTTGTTCTT-TTTCTTTTT
*
2623393 CTTCTTTTCTTC-TTTTCTTTTT
1 CTT-TTTTGTTCTTTTTCTTTTT
*
2623415 GTTTT
1 CTTTT
2623420 GATTGAATCT
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
21 2 0.03
22 32 0.53
23 19 0.32
24 7 0.12
ACGTcount: A:0.01, C:0.16, G:0.05, T:0.78
Consensus pattern (22 bp):
CTTTTTTGTTCTTTTTCTTTTT
Found at i:2623366 original size:13 final size:12
Alignment explanation
Indices: 2623350--2623414 Score: 57
Period size: 13 Copynumber: 5.4 Consensus size: 12
2623340 TTCTTTTTGA
2623350 TTTTTGTTCTTTC
1 TTTTT-TTCTTTC
2623363 TTTTTTTCTTT-
1 TTTTTTTCTTTC
2623374 TTTGTTCTTC-TT-
1 TTT-TT-TTCTTTC
2623386 TTTTTTTC-TTC
1 TTTTTTTCTTTC
*
2623397 TTTTCTTCTTTTC
1 TTTTTTTC-TTTC
2623410 TTTTT
1 TTTTT
2623415 GTTTTGATTG
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
10 5 0.11
11 12 0.27
12 13 0.29
13 15 0.33
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (12 bp):
TTTTTTTCTTTC
Found at i:2623370 original size:8 final size:8
Alignment explanation
Indices: 2623359--2623414 Score: 53
Period size: 8 Copynumber: 7.1 Consensus size: 8
2623349 ATTTTTGTTC
2623359 TTTCTTTT
1 TTTCTTTT
2623367 TTTCTTTT
1 TTTCTTTT
*
2623375 TTGT-TCTT
1 TT-TCTTTT
*
2623383 CTT-TTTT
1 TTTCTTTT
*
2623390 TTTCTTCT
1 TTTCTTTT
*
2623398 TTTCTTCT
1 TTTCTTTT
2623406 TTTCTTTT
1 TTTCTTTT
2623414 T
1 T
2623415 GTTTTGATTG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
7 6 0.15
8 33 0.82
9 1 0.03
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (8 bp):
TTTCTTTT
Found at i:2623374 original size:21 final size:21
Alignment explanation
Indices: 2623350--2623417 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 21
2623340 TTCTTTTTGA
2623350 TTTTTGTTCTTTCTTTTTTTC
1 TTTTTGTTCTTTCTTTTTTTC
2623371 TTTTTTGTTC-TTCTTTTTTT-
1 -TTTTTGTTCTTTCTTTTTTTC
* * *
2623391 TTCTT-CT-TTTCTTCTTTTC
1 TTTTTGTTCTTTCTTTTTTTC
2623410 TTTTTGTT
1 TTTTTGTT
2623418 TTGATTGAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
18 10 0.26
19 8 0.21
20 1 0.03
21 10 0.26
22 9 0.24
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (21 bp):
TTTTTGTTCTTTCTTTTTTTC
Found at i:2624636 original size:27 final size:26
Alignment explanation
Indices: 2624601--2624651 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
2624591 AAGAAATTTC
*
2624601 ATGTTTATG-AAAATGCTTAAAAATGAA
1 ATGTATATGCAAAATGC--AAAAATGAA
2624628 ATGTATATGCAAAATGCAAAAATG
1 ATGTATATGCAAAATGCAAAAATG
2624652 CATGAAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 7 0.32
27 8 0.36
28 7 0.32
ACGTcount: A:0.49, C:0.06, G:0.16, T:0.29
Consensus pattern (26 bp):
ATGTATATGCAAAATGCAAAAATGAA
Found at i:2626406 original size:3 final size:3
Alignment explanation
Indices: 2626393--2626430 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
2626383 TAAAAATATA
*
2626393 AAT AA- AAT AAT AAT AAT AAA AAT AAAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AA
2626431 ATAAAAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:2626421 original size:19 final size:20
Alignment explanation
Indices: 2626387--2626431 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
2626377 TAATGTTAAA
*
2626387 AATATAAATAAAATAATAAT
1 AATAAAAATAAAATAATAAT
2626407 AATAAAAAT-AAATAATAAT
1 AATAAAAATAAAATAATAAT
2626426 AATAAA
1 AATAAA
2626432 TAAAAAATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
AATAAAAATAAAATAATAAT
Found at i:2628061 original size:19 final size:20
Alignment explanation
Indices: 2628028--2628067 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2628018 ATGGACCTAC
*
2628028 ATATGTAAC-ATAAAATAAT
1 ATATGTAACAAAAAAATAAT
*
2628047 ATATGTAATAAAAAAATAAT
1 ATATGTAACAAAAAAATAAT
2628067 A
1 A
2628068 ATATTATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (20 bp):
ATATGTAACAAAAAAATAAT
Found at i:2628086 original size:16 final size:18
Alignment explanation
Indices: 2628062--2628101 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2628052 TAATAAAAAA
* *
2628062 ATAATAATATTATATATAT
1 ATAAT-ATATAATACATAT
2628081 ATAATATATAATACATAT
1 ATAATATATAATACATAT
2628099 ATA
1 ATA
2628102 TGTATGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAATATATAATACATAT
Found at i:2629317 original size:37 final size:37
Alignment explanation
Indices: 2629254--2629330 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
2629244 TTTATTTGTA
* * * * *
2629254 TTTTTATAATTGAGGCCTCTATTTTTTTTAATCTTAC
1 TTTTTATAATTAAGCCCTCTAATTTTTTCAATCTCAC
2629291 TTTTTATAATTAAGACCCT-TAATTTTTTCAATCTCAC
1 TTTTTATAATTAAG-CCCTCTAATTTTTTCAATCTCAC
2629328 TTT
1 TTT
2629331 GTAACTTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 31 0.91
38 3 0.09
ACGTcount: A:0.25, C:0.16, G:0.05, T:0.55
Consensus pattern (37 bp):
TTTTTATAATTAAGCCCTCTAATTTTTTCAATCTCAC
Found at i:2629358 original size:42 final size:41
Alignment explanation
Indices: 2629293--2629576 Score: 161
Period size: 42 Copynumber: 6.7 Consensus size: 41
2629283 AATCTTACTT
*
2629293 TTTATAATTAAGACCCTTAATTTTTTCAATCTCACTTTGTAAC
1 TTTATAATTGAG-CCCTTAATTTTTTCAATCTCACTTT-TAAC
* * * * *
2629336 TTTATAATTTAGCTCTTAATTTTTTTAATCTGACTTTCTACC
1 TTTATAATTGAGCCCTTAATTTTTTCAATCTCACTTT-TAAC
* * * *
2629378 TTTTTAATCGAGGCCCCTAATTTTTT-AATCTCACTCTTTACC
1 TTTATAATTGA-GCCCTTAATTTTTTCAATCTCACT-TTTAAC
* * *
2629420 TCTATAATTGAGGCCC-T-ATTGTTTTCAATCCCATTTTTTAA-
1 TTTATAATTGA-GCCCTTAATT-TTTTCAATCTCA-CTTTTAAC
* * * * * *
2629461 TTATATAATTTAGACACTTAATTTTTTAAACCTCGCTTTTTACC
1 TT-TATAATTGAG-CCCTTAATTTTTTCAATCTCAC-TTTTAAC
* * *
2629505 TTTGAT-ATTGAGGCCCCT-A-TTTTTCAAACTCACCTTTTACC
1 TTT-ATAATTGA-GCCCTTAATTTTTTCAATCTCA-CTTTTAAC
2629546 TTTATAATTGATGCTCC-TAATTTTTTTCAAT
1 TTTATAATTGA-GC-CCTTAA-TTTTTTCAAT
2629577 AATACTTTTT
Statistics
Matches: 187, Mismatches: 35, Indels: 37
0.72 0.14 0.14
Matches are distributed among these distances:
40 5 0.03
41 35 0.19
42 83 0.44
43 48 0.26
44 16 0.09
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.48
Consensus pattern (41 bp):
TTTATAATTGAGCCCTTAATTTTTTCAATCTCACTTTTAAC
Found at i:2629486 original size:126 final size:128
Alignment explanation
Indices: 2629310--2629576 Score: 300
Period size: 126 Copynumber: 2.1 Consensus size: 128
2629300 TTAAGACCCT
* * *
2629310 TAATT-TTTTCAATCTCACTTTGTAACTTTATAATTTAGCTCTTAATTTTTTT-AATCT-GACTT
1 TAATTGTTTTCAATCCCACTTTGTAACTTTATAATTTAGCACTTAATTTTTTTAAACCTCG-CTT
* * *
2629372 TCTACCTTT-TTAATCGAGGCCCCTAATTTTTTAATCTCA-CTCTTTACCTCTATAATTGAGGC-
65 TCTACCTTTGAT-ATCGAGGCCCCT-ATTTTTCAAACTCACCT-TTTACCTCTATAATTGAGGCT
2629434 CC
127 CC
* *
2629436 T-ATTGTTTTCAATCCCATTTTTTAA-TTATATAATTTAGACACTTAA-TTTTTTAAACCTCGCT
1 TAATTGTTTTCAATCCCACTTTGTAACTT-TATAATTTAG-CACTTAATTTTTTTAAACCTCGCT
* * * *
2629498 TTTTACCTTTGATATTGAGGCCCCTATTTTTCAAACTCACCTTTTACCTTTATAATTGATGCTCC
64 TTCTACCTTTGATATCGAGGCCCCTATTTTTCAAACTCACCTTTTACCTCTATAATTGAGGCTCC
*
2629563 TAATTTTTTTCAAT
1 TAATTGTTTTCAAT
2629577 AATACTTTTT
Statistics
Matches: 119, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
125 5 0.04
126 64 0.54
127 37 0.31
128 13 0.11
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.48
Consensus pattern (128 bp):
TAATTGTTTTCAATCCCACTTTGTAACTTTATAATTTAGCACTTAATTTTTTTAAACCTCGCTTT
CTACCTTTGATATCGAGGCCCCTATTTTTCAAACTCACCTTTTACCTCTATAATTGAGGCTCC
Found at i:2632436 original size:20 final size:20
Alignment explanation
Indices: 2632404--2632442 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
2632394 TAAAAATATG
2632404 AATAATATTTTATTTATTTTA
1 AATAATATTTTATTT-TTTTA
2632425 AATAAT-TTTTATTTTTTT
1 AATAATATTTTATTTTTTT
2632443 CAATCAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 8 0.44
21 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
AATAATATTTTATTTTTTTA
Found at i:2633499 original size:151 final size:154
Alignment explanation
Indices: 2633317--2633622 Score: 591
Period size: 154 Copynumber: 2.0 Consensus size: 154
2633307 GAACCCAACC
2633317 CGTTTAATTCGTTTTCGGTTTTTTTCCAACGGGTTCA-TTTTTTTTGCCATCCCTACCGCTACCG
1 CGTTTAATTCGTTTTCGGTTTTTTTCCAACGGGTTCAGTTTTTTTTGCCATCCCTACCGCTACCG
2633381 -TATATCGAGGGTGCTAGCTATTGT-GTCGTGAACCGCTATTTAAATCCTTGGTCTGGAGTGATT
66 TTATATCGAGGGTGCTAGCTATTGTGGTCGTGAACCGCTATTTAAATCCTTGGTCTGGAGTGATT
2633444 ATAAGATATTTATTCAGAATCTTT
131 ATAAGATATTTATTCAGAATCTTT
2633468 CGTTTAATTCGTTTTCGGTTTTTTTCCAACGGGTTCAGTTTTTTTTGCCATCCCTACCGCTACCG
1 CGTTTAATTCGTTTTCGGTTTTTTTCCAACGGGTTCAGTTTTTTTTGCCATCCCTACCGCTACCG
2633533 TTATATCGAGGGTGCTAGCTATTGTGGTCGTGAACCGCTATTTAAATCCTTGGTCTGGAGTGATT
66 TTATATCGAGGGTGCTAGCTATTGTGGTCGTGAACCGCTATTTAAATCCTTGGTCTGGAGTGATT
2633598 ATAAGATATTTATTCAGAATCTTT
131 ATAAGATATTTATTCAGAATCTTT
2633622 C
1 C
2633623 TAATCATTGA
Statistics
Matches: 152, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
151 37 0.24
152 27 0.18
153 24 0.16
154 64 0.42
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.42
Consensus pattern (154 bp):
CGTTTAATTCGTTTTCGGTTTTTTTCCAACGGGTTCAGTTTTTTTTGCCATCCCTACCGCTACCG
TTATATCGAGGGTGCTAGCTATTGTGGTCGTGAACCGCTATTTAAATCCTTGGTCTGGAGTGATT
ATAAGATATTTATTCAGAATCTTT
Found at i:2638313 original size:19 final size:18
Alignment explanation
Indices: 2638290--2638339 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
2638280 CGTTATTTTT
2638290 ATTATTATATTATATTATC
1 ATTATT-TATTATATTATC
* * *
2638309 GTTATCTTATTATTTTATT
1 ATTAT-TTATTATATTATC
2638328 ATTATTTATTAT
1 ATTATTTATTAT
2638340 TACAATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 7 0.27
19 18 0.69
20 1 0.04
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (18 bp):
ATTATTTATTATATTATC
Found at i:2643522 original size:26 final size:25
Alignment explanation
Indices: 2643491--2643570 Score: 89
Period size: 26 Copynumber: 3.3 Consensus size: 25
2643481 CCAATTTTTG
2643491 ACATTCTATCTCTTTGAGACCTTG-A
1 ACATTCT-TCTCTTTGAGACCTTGAA
*
2643516 A-A-TATTCT-TTT-AGACCTTGAA
1 ACATTCTTCTCTTTGAGACCTTGAA
*
2643537 ACATTCCCTCTCTTTGAGACCTTGAA
1 ACATT-CTTCTCTTTGAGACCTTGAA
2643563 ACATTCTT
1 ACATTCTT
2643571 TCCACCTTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
20 8 0.18
21 5 0.11
22 4 0.09
23 3 0.07
24 4 0.09
25 6 0.13
26 15 0.33
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (25 bp):
ACATTCTTCTCTTTGAGACCTTGAA
Found at i:2643530 original size:20 final size:20
Alignment explanation
Indices: 2643501--2643584 Score: 71
Period size: 20 Copynumber: 4.0 Consensus size: 20
2643491 ACATTCTATC
*
2643501 TCTTTGAGACCTTGAAATAT
1 TCTTTGAGACCTTGAAACAT
*
2643521 TCTTTTAGACCTTGAAACATTCCCT
1 TCTTTGAGACCTTGAAACA-----T
2643546 CTCTTTGAGACCTTGAAACAT
1 -TCTTTGAGACCTTGAAACAT
**
2643567 TCTTT-CCACCTTGAAACA
1 TCTTTGAGACCTTGAAACA
2643585 CTGCATTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
19 11 0.21
20 22 0.42
21 1 0.02
25 1 0.02
26 18 0.34
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (20 bp):
TCTTTGAGACCTTGAAACAT
Found at i:2643602 original size:46 final size:46
Alignment explanation
Indices: 2643499--2643589 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
2643489 TGACATTCTA
* * * *
2643499 TCTCTTTGAGACCTTGAAATATTCTTTTAGACCTTGAAACATTCCC
1 TCTCTTTGAGACCTTGAAACATTCTTTTACACCTTGAAACATGCAC
*
2643545 TCTCTTTGAGACCTTGAAACATTC-TTTCCACCTTGAAACACTGCA
1 TCTCTTTGAGACCTTGAAACATTCTTTTACACCTTGAAACA-TGCA
2643590 TTTTTTTTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 14 0.36
46 25 0.64
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.36
Consensus pattern (46 bp):
TCTCTTTGAGACCTTGAAACATTCTTTTACACCTTGAAACATGCAC
Found at i:2644181 original size:12 final size:12
Alignment explanation
Indices: 2644179--2644232 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
2644169 AGAAAAAAAC
2644179 AAAAAGCAAAGA
1 AAAAAGCAAAGA
* * *
2644191 GAAAATCAAAGC
1 AAAAAGCAAAGA
*
2644203 AAAAATCAAAG-
1 AAAAAGCAAAGA
2644214 AAAAAGCAAAGA
1 AAAAAGCAAAGA
2644226 ACAAAAG
1 A-AAAAG
2644233 AAGACAAAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
11 10 0.29
12 20 0.57
13 5 0.14
ACGTcount: A:0.70, C:0.11, G:0.15, T:0.04
Consensus pattern (12 bp):
AAAAAGCAAAGA
Found at i:2644205 original size:24 final size:23
Alignment explanation
Indices: 2644178--2644224 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
2644168 AAGAAAAAAA
*
2644178 CAAAAAGCAAAGAGAAAATCAAAG
1 CAAAAAGCAAAGA-AAAAGCAAAG
*
2644202 CAAAAATCAAAGAAAAAGCAAAG
1 CAAAAAGCAAAGAAAAAGCAAAG
2644225 AACAAAAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.68, C:0.13, G:0.15, T:0.04
Consensus pattern (23 bp):
CAAAAAGCAAAGAAAAAGCAAAG
Found at i:2644217 original size:11 final size:11
Alignment explanation
Indices: 2644179--2644226 Score: 60
Period size: 12 Copynumber: 4.2 Consensus size: 11
2644169 AGAAAAAAAC
2644179 AAAAAGCAAAG
1 AAAAAGCAAAG
*
2644190 AGAAAATCAAAG
1 A-AAAAGCAAAG
*
2644202 CAAAAATCAAAG
1 -AAAAAGCAAAG
2644214 AAAAAGCAAAG
1 AAAAAGCAAAG
2644225 AA
1 AA
2644227 CAAAAGAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 13 0.39
12 19 0.58
13 1 0.03
ACGTcount: A:0.71, C:0.10, G:0.15, T:0.04
Consensus pattern (11 bp):
AAAAAGCAAAG
Found at i:2644234 original size:19 final size:19
Alignment explanation
Indices: 2644166--2644234 Score: 56
Period size: 18 Copynumber: 3.8 Consensus size: 19
2644156 AAGATCAAAC
* *
2644166 CAAAGAAAAAAACAAAAAG
1 CAAAGAACAAAAGAAAAAG
* **
2644185 CAAAG-AGAAAA-TCAAAG
1 CAAAGAACAAAAGAAAAAG
2644202 CAAA-AATC-AAAGAAAAAG
1 CAAAGAA-CAAAAGAAAAAG
2644220 CAAAGAACAAAAGAA
1 CAAAGAACAAAAGAA
2644235 GACAAAGAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
17 12 0.31
18 14 0.36
19 13 0.33
ACGTcount: A:0.72, C:0.12, G:0.13, T:0.03
Consensus pattern (19 bp):
CAAAGAACAAAAGAAAAAG
Found at i:2645410 original size:14 final size:14
Alignment explanation
Indices: 2645391--2645418 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2645381 AGAAAAGTAT
2645391 ATACATACATACAC
1 ATACATACATACAC
2645405 ATACATACATACAC
1 ATACATACATACAC
2645419 CTGATACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (14 bp):
ATACATACATACAC
Found at i:2646102 original size:36 final size:36
Alignment explanation
Indices: 2646057--2646174 Score: 111
Period size: 36 Copynumber: 3.4 Consensus size: 36
2646047 ACAAAGTTGA
**
2646057 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
2646093 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
* * * *
2646129 TCTCA-TTGAGACTATATCT-T-AAAGCAAA-TTCG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
*
2646161 TCTCGCTTGAGACA
1 TCTCACTTGAGACA
2646175 TCATTTTCTC
Statistics
Matches: 69, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
32 7 0.10
33 14 0.20
34 1 0.01
35 19 0.28
36 28 0.41
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:2646171 original size:33 final size:36
Alignment explanation
Indices: 2646075--2646174 Score: 104
Period size: 35 Copynumber: 2.9 Consensus size: 36
2646065 GAGATCGTTT
*
2646075 TCTC-AAAAACAAACTTT-GTCTCGCTTGAGACAATT
1 TCTCTAAAAACAAA-TTTCGTCTCGCTTGAGACAATA
* * *
2646110 TCTCTAAAAACAAATTTTGTCTC-ATTGAGACTATA
1 TCTCTAAAAACAAATTTCGTCTCGCTTGAGACAATA
*
2646145 TCT-T-AAAGCAAA-TTCGTCTCGCTTGAGACA
1 TCTCTAAAAACAAATTTCGTCTCGCTTGAGACA
2646175 TCATTTTCTC
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
32 7 0.13
33 14 0.25
34 1 0.02
35 19 0.35
36 14 0.25
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (36 bp):
TCTCTAAAAACAAATTTCGTCTCGCTTGAGACAATA
Found at i:2646460 original size:28 final size:27
Alignment explanation
Indices: 2646422--2646518 Score: 124
Period size: 28 Copynumber: 3.5 Consensus size: 27
2646412 AATTTCTTTT
*
2646422 AAAAATATTTGAGTTTGTTTCTCTTGGA
1 AAAAATCTTTGAGTTTGTTTCT-TTGGA
* *
2646450 AAAAATCTTTGAGTTTGTTCCTTTTGAA
1 AAAAATCTTTGAGTTTGTTTC-TTTGGA
*
2646478 AAAAATCTTTGAG-TTGTTTCTTTTGA
1 AAAAATCTTTGAGTTTGTTTCTTTGGA
2646504 AAAATATCTTTGAGT
1 AAAA-ATCTTTGAGT
2646519 CTACTTATTT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
26 8 0.13
27 15 0.25
28 36 0.60
29 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.46
Consensus pattern (27 bp):
AAAAATCTTTGAGTTTGTTTCTTTGGA
Found at i:2646512 original size:27 final size:28
Alignment explanation
Indices: 2646414--2646518 Score: 139
Period size: 27 Copynumber: 3.9 Consensus size: 28
2646404 TTAAAGACAA
2646414 TTTCTTTT-AAAAATA--TTTGAGTTTG
1 TTTCTTTTGAAAAATATCTTTGAGTTTG
*
2646439 TTTCTCTTGGAAAAA-ATCTTTGAGTTTG
1 TTTCT-TTTGAAAAATATCTTTGAGTTTG
* *
2646467 TTCCTTTTGAAAAAAATCTTTGAG-TTG
1 TTTCTTTTGAAAAATATCTTTGAGTTTG
2646494 TTTCTTTTGAAAAATATCTTTGAGT
1 TTTCTTTTGAAAAATATCTTTGAGT
2646519 CTACTTATTT
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
25 5 0.07
26 3 0.04
27 38 0.55
28 23 0.33
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.50
Consensus pattern (28 bp):
TTTCTTTTGAAAAATATCTTTGAGTTTG
Found at i:2646530 original size:28 final size:27
Alignment explanation
Indices: 2646449--2646533 Score: 89
Period size: 28 Copynumber: 3.1 Consensus size: 27
2646439 TTTCTCTTGG
** *
2646449 AAAAAATCTTTGAGTTTGTTCCTTTTGA
1 AAAAAATCTTTGAGTTACTT-ATTTTGA
** *
2646477 AAAAAATCTTTGAGTTGTTTCTTTTGA
1 AAAAAATCTTTGAGTTACTTATTTTGA
*
2646504 AAAATATCTTTGAGTCTACTTATTTTGA
1 AAAAAATCTTTGAGT-TACTTATTTTGA
2646532 AA
1 AA
2646534 CAAAGTTTTG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
27 21 0.42
28 29 0.58
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.46
Consensus pattern (27 bp):
AAAAAATCTTTGAGTTACTTATTTTGA
Found at i:2646530 original size:55 final size:56
Alignment explanation
Indices: 2646422--2646533 Score: 140
Period size: 55 Copynumber: 2.0 Consensus size: 56
2646412 AATTTCTTTT
** *
2646422 AAAAATATTTGAGTTTGTTTCTCTTGGAAAAAATCTTTGAGTTTGTTCCTTTTGAA
1 AAAAATATTTGAGTTTGTTTCTCTTGGAAAAAATCTTTGAGTTACTTCATTTTGAA
* *
2646478 AAAAATCTTTGAG-TTGTTTCT-TTTGAAAAATATCTTTGAGTCTACTT-ATTTTGAA
1 AAAAATATTTGAGTTTGTTTCTCTTGGAAAAA-ATCTTTGAGT-TACTTCATTTTGAA
2646533 A
1 A
2646534 CAAAGTTTTG
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
54 8 0.16
55 26 0.53
56 15 0.31
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.46
Consensus pattern (56 bp):
AAAAATATTTGAGTTTGTTTCTCTTGGAAAAAATCTTTGAGTTACTTCATTTTGAA
Found at i:2646595 original size:52 final size:53
Alignment explanation
Indices: 2646529--2646632 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 53
2646519 CTACTTATTT
*
2646529 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTG-AAAAGTCTTTGAGTC
1 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGTC
*
2646581 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTTGTGAAAAAATCTTTGAGT
1 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGT
2646633 TTGTTCCTCT
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 36 0.73
53 13 0.27
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (53 bp):
TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGTC
Found at i:2646647 original size:27 final size:27
Alignment explanation
Indices: 2646616--2646689 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
2646606 GACAATTTTG
*
2646616 TGAAAAAATCTTTGAGTTTGTTCCTCT
1 TGAAAAAATCTTTGAGTTTGTTCATCT
* *
2646643 TGAAAAAATATTTGAGTTTGTTCATTT
1 TGAAAAAATCTTTGAGTTTGTTCATCT
2646670 TGAATAAAAATCTTTGAGTT
1 TG-A-AAAAATCTTTGAGTT
2646690 GTTTTTTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 26 0.63
28 1 0.02
29 14 0.34
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (27 bp):
TGAAAAAATCTTTGAGTTTGTTCATCT
Found at i:2646697 original size:27 final size:28
Alignment explanation
Indices: 2646618--2646771 Score: 116
Period size: 32 Copynumber: 5.2 Consensus size: 28
2646608 CAATTTTGTG
* *
2646618 AAAAAATCTTTGAGTTTGTTCCTCTTG--
1 AAAAAATCTTTGAGTTTGTT-TTTTTGAA
* *
2646645 AAAAAATATTTGAGTTTGTTCATTTTGAA
1 AAAAAATCTTTGAGTTTGTT-TTTTTGAA
* *
2646674 TAAAAATCTTTGAG-TTGTTTTTTTTAAAAA
1 AAAAAATCTTTGAGTTTG-TTTTTTT--GAA
*
2646704 AAAAAATCTTTGAGATTGTTTCTTTTGAAACA
1 AAAAAATCTTTGAGTTTGTTT-TTTTG--A-A
*
2646736 AAAAAATCTTTGAGTTTGTTTCTTTGGAA
1 AAAAAATCTTTGAGTTTGTTT-TTTTGAA
*
2646765 ACAAAAT
1 AAAAAAT
2646772 TTTTTCTCTC
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
27 24 0.23
28 7 0.07
29 21 0.20
30 19 0.18
31 8 0.08
32 26 0.25
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.44
Consensus pattern (28 bp):
AAAAAATCTTTGAGTTTGTTTTTTTGAA
Found at i:2646744 original size:32 final size:31
Alignment explanation
Indices: 2646675--2646770 Score: 140
Period size: 32 Copynumber: 3.1 Consensus size: 31
2646665 CATTTTGAAT
* *
2646675 AAAAATCTTTGAGTTGTTT-TTTTTAAAAAA
1 AAAAATCTTTGAGTTGTTTCTTTTGAAACAA
2646705 AAAAATCTTTGAGATTGTTTCTTTTGAAACAA
1 AAAAATCTTTGAG-TTGTTTCTTTTGAAACAA
*
2646737 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAA
1 AAAAATCTTTGAG-TTGTTTCTTTTGAAACAA
2646769 AA
1 AA
2646771 TTTTTTCTCT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
30 13 0.22
31 6 0.10
32 41 0.68
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (31 bp):
AAAAATCTTTGAGTTGTTTCTTTTGAAACAA
Found at i:2646804 original size:37 final size:37
Alignment explanation
Indices: 2646754--2646870 Score: 113
Period size: 37 Copynumber: 3.3 Consensus size: 37
2646744 TTTGAGTTTG
2646754 TTTCTTTGGAAACAAAATTTTTTCTCTCTTAAGATAA
1 TTTCTTTGGAAACAAAATTTTTTCTCTCTTAAGATAA
* * * ***
2646791 TTTCTTTTGAAACAAAAATCTTTGAGTC-T--G----
1 TTTCTTTGGAAACAAAATTTTTTCTCTCTTAAGATAA
*
2646821 TTTCTTTGGAAACAAAATTTTATCTCTCTTAAGATAA
1 TTTCTTTGGAAACAAAATTTTTTCTCTCTTAAGATAA
2646858 TTTCTTTTGGAAA
1 TTTC-TTTGGAAA
2646871 AATCTTTGAA
Statistics
Matches: 59, Mismatches: 13, Indels: 15
0.68 0.15 0.17
Matches are distributed among these distances:
30 21 0.36
31 1 0.02
33 1 0.02
34 1 0.02
36 1 0.02
37 26 0.44
38 8 0.14
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (37 bp):
TTTCTTTGGAAACAAAATTTTTTCTCTCTTAAGATAA
Found at i:2646832 original size:67 final size:67
Alignment explanation
Indices: 2646722--2646889 Score: 261
Period size: 67 Copynumber: 2.5 Consensus size: 67
2646712 TTTGAGATTG
* *
2646722 TTTCTTTTGAAACAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTTTCTCTCTTAAG
1 TTTCTTTTGAAAC--AAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTATCTCTCTTAAG
2646787 ATAA
64 ATAA
2646791 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTATCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTATCTCTCTTAAGAT
2646856 AA
66 AA
* *
2646858 TTTCTTTTG---GAAAAATCTTTGAATCTGTTTCT
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCT
2646890 CTTAAAATGA
Statistics
Matches: 95, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
64 21 0.22
67 61 0.64
69 13 0.14
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (67 bp):
TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTATCTCTCTTAAGAT
AA
Found at i:2647275 original size:27 final size:27
Alignment explanation
Indices: 2647238--2647294 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
2647228 AATTTTGTGA
*
2647238 AAAAAATCTTTGAGATTGTTTCTTTTG
1 AAAAAATCTTTGAGATTGTTTCCTTTG
*
2647265 AAAAAATCTTTGAGTTTGTTTCCTTTG
1 AAAAAATCTTTGAGATTGTTTCCTTTG
2647292 AAA
1 AAA
2647295 CAAAATTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.46
Consensus pattern (27 bp):
AAAAAATCTTTGAGATTGTTTCCTTTG
Found at i:2647386 original size:36 final size:38
Alignment explanation
Indices: 2647313--2647387 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
2647303 TGTCTCTCGA
2647313 GACAACTTCTTTTGAAAATACCCACCTTTGAGATCGTTT
1 GACAACTTCTTTTGAAAATACCCA-CTTTGAGATCGTTT
*
2647352 GACAACTTC-TTTGAAAATACCCA-TTTGATATCGTTT
1 GACAACTTCTTTTGAAAATACCCACTTTGAGATCGTTT
2647388 CTATTAAAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
36 12 0.34
38 14 0.40
39 9 0.26
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.37
Consensus pattern (38 bp):
GACAACTTCTTTTGAAAATACCCACTTTGAGATCGTTT
Found at i:2647553 original size:67 final size:63
Alignment explanation
Indices: 2647464--2647591 Score: 157
Period size: 63 Copynumber: 2.0 Consensus size: 63
2647454 TTCAAACGAA
* *
2647464 TTTTGTCTCTTGAAACATTTTCTCTTAAAACAAGATCATCTTTGAGTTTGTTTCTCTGGAAACAA
1 TTTTATCTCTTGAAACAGTTTCTCTTAAAA-AA-A--ATCTTTGAGTTTGTTTCTCTGGAAACAA
2647529 GG
62 GG
* * ** *
2647531 TTTTATCTCTTGATACAGTTTCTTTTGGAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAA
1 TTTTATCTCTTGAAACAGTTTCTCTTAAAAAAAATCTTTGAGTTTGTTTCTCTGGAAACAA
2647592 AATTTGCCAT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
63 27 0.50
65 1 0.02
66 2 0.04
67 24 0.44
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.45
Consensus pattern (63 bp):
TTTTATCTCTTGAAACAGTTTCTCTTAAAAAAAATCTTTGAGTTTGTTTCTCTGGAAACAAGG
Found at i:2647992 original size:43 final size:42
Alignment explanation
Indices: 2647887--2648254 Score: 254
Period size: 40 Copynumber: 8.7 Consensus size: 42
2647877 CATAATCCTT
* * * * *
2647887 TAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTC-ATC
1 TAGATGACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACC
*
2647928 -AGCTGACCAGA--TCCTCATCACGTAGGAGCCGTGTCAACC
1 TAGATGACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACC
* * * *
2647967 ATAGATAACCAG-CCGTCCTCATCACGTAAGAACCGTGTTATCACC
1 -TAGATGACCAGACC-TCCTCATCACGTAGGAGCCGTGTCA--ACC
* * * * *
2648012 TTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTC-ATC
1 --TAGATGACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACC
* *
2648055 -AGCTGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACC
1 TAGATGACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACC
* * *
2648096 ATAGATAACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACC
1 -TAGATGACCAGACC-TCCTCATCACGTAGGAGCCGTGTCA--ACC
* * * * *
2648141 TTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTC-ATC
1 --TAGATGACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACC
* * * * *
2648184 -AGCTGACCCGATCTCCTCATCACGTATGAGCCGTGTCACCC
1 TAGATGACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACC
* *
2648225 TAGATAATCAG-CCGTCCTCATCACGTAGGA
1 TAGATGACCAGACC-TCCTCATCACGTAGGA
2648255 ATCGTGTTAT
Statistics
Matches: 254, Mismatches: 52, Indels: 41
0.73 0.15 0.12
Matches are distributed among these distances:
38 22 0.09
39 2 0.01
40 73 0.29
41 12 0.05
42 22 0.09
43 57 0.22
45 6 0.02
46 58 0.23
47 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (42 bp):
TAGATGACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACC
Found at i:2648037 original size:46 final size:45
Alignment explanation
Indices: 2647886--2648308 Score: 261
Period size: 46 Copynumber: 9.9 Consensus size: 45
2647876 CCATAATCCT
* * *
2647886 TTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCAGC
1 TTAGATGGCCAGAACTCCTCATCACGTATGAACCGTGTCATCACC
* *
2647931 -T-GA---CCAG-A-TCCTCATCACGTAGGAGCCGTGTCA--ACC
1 TTAGATGGCCAGAACTCCTCATCACGTATGAACCGTGTCATCACC
* ** * * *
2647967 ATAGATAACCAG-CCGTCCTCATCACGTAAGAACCGTGTTATCACC
1 TTAGATGGCCAGAAC-TCCTCATCACGTATGAACCGTGTCATCACC
* * *
2648012 TTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCAGC
1 -TTAGATGGCCAGAACTCCTCATCACGTATGAACCGTGTCATCACC
* * *
2648058 -T-GA---CCAGATCTCCTCATCACGTAGGAGCCGTGTCA--ACC
1 TTAGATGGCCAGAACTCCTCATCACGTATGAACCGTGTCATCACC
* ** * * *
2648096 ATAGATAACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACC
1 TTAGATGGCCAGAAC-TCCTCATCACGTATGAACCGTGTCATCACC
* * *
2648141 TTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCAGC
1 -TTAGATGGCCAGAACTCCTCATCACGTATGAACCGTGTCATCACC
* * *
2648187 -T-GA---CCCGATCTCCTCATCACGTATGAGCCGTGTCA-C-CC
1 TTAGATGGCCAGAACTCCTCATCACGTATGAACCGTGTCATCACC
*** * * * *
2648225 -TAGATAATCAG-CCGTCCTCATCACGTAGGAATCGTGTTATCACC
1 TTAGATGGCCAGAAC-TCCTCATCACGTATGAACCGTGTCATCACC
* *
2648269 TTTAGATGGCCAGAACTCTTCATCACGTATGAACAGTGTC
1 -TTAGATGGCCAGAACTCCTCATCACGTATGAACCGTGTC
2648309 GTCCCCACCA
Statistics
Matches: 295, Mismatches: 52, Indels: 61
0.72 0.13 0.15
Matches are distributed among these distances:
36 2 0.01
37 1 0.00
38 29 0.10
39 5 0.02
40 64 0.22
41 5 0.02
42 24 0.08
43 56 0.19
44 5 0.02
45 6 0.02
46 95 0.32
47 3 0.01
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.25
Consensus pattern (45 bp):
TTAGATGGCCAGAACTCCTCATCACGTATGAACCGTGTCATCACC
Found at i:2648129 original size:129 final size:129
Alignment explanation
Indices: 2647883--2648300 Score: 761
Period size: 129 Copynumber: 3.3 Consensus size: 129
2647873 AAACCATAAT
2647883 CCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCAGCTGACCAGA--TCCTCAT
1 CCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCAGCTGACCAGATCTCCTCAT
*
2647946 CACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAAGAACCGTGTTATCA
66 CACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCA
2648010 CCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCAGCTGACCAGATCTCCTCAT
1 CCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCAGCTGACCAGATCTCCTCAT
2648075 CACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCA
66 CACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCA
*
2648139 CCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCAGCTGACCCGATCTCCTCAT
1 CCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCAGCTGACCAGATCTCCTCAT
* * * *
2648204 CACGTATGAGCCGTGTC-ACCCTAGATAATCAGCCGTCCTCATCACGTAGGAATCGTGTTATCA
66 CACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCA
2648267 CCTTTAGATGGCCAGAACTCTTCATCACGTATGA
1 CCTTTAGATGGCCAGAACTCTTCATCACGTATGA
2648301 ACAGTGTCGT
Statistics
Matches: 283, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
127 56 0.20
128 77 0.27
129 150 0.53
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (129 bp):
CCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCAGCTGACCAGATCTCCTCAT
CACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCA
Found at i:2648474 original size:3 final size:3
Alignment explanation
Indices: 2648463--2648526 Score: 71
Period size: 3 Copynumber: 22.0 Consensus size: 3
2648453 TTTTTTTCCG
** *
2648463 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TCG TTA -TC TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2648508 TTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA
2648527 CAATTTTTGC
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
2 5 0.10
3 43 0.84
4 3 0.06
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2648504 original size:32 final size:32
Alignment explanation
Indices: 2648461--2648524 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
2648451 GTTTTTTTTC
*
2648461 CGTTATTTTATTATTATTATTATTA-TTATTAT
1 CGTTATCTTATTATT-TTATTATTATTTATTAT
2648493 CGTTATCTTATTATTTTATTATTATTTATTAT
1 CGTTATCTTATTATTTTATTATTATTTATTAT
2648525 TACAATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 9 0.30
32 21 0.70
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.66
Consensus pattern (32 bp):
CGTTATCTTATTATTTTATTATTATTTATTAT
Found at i:2653269 original size:19 final size:18
Alignment explanation
Indices: 2653235--2653270 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2653225 AGAAAAGAAC
*
2653235 TTTAAAATTTTATATATT
1 TTTAAAATTATATATATT
2653253 TTTAAAATATATATATAT
1 TTTAAAAT-TATATATAT
2653271 ATATTAGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAAAATTATATATATT
Found at i:2660470 original size:12 final size:12
Alignment explanation
Indices: 2660453--2660485 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2660443 AGGGTACTTG
2660453 GAGAAGAAATGA
1 GAGAAGAAATGA
2660465 GAGAAGGAAATGA
1 GAGAA-GAAATGA
2660478 -AGAAGAAA
1 GAGAAGAAA
2660486 AAAAGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 9 0.45
13 7 0.35
ACGTcount: A:0.61, C:0.00, G:0.33, T:0.06
Consensus pattern (12 bp):
GAGAAGAAATGA
Found at i:2668459 original size:16 final size:16
Alignment explanation
Indices: 2668416--2668459 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
2668406 GTGGTAGGGG
2668416 AAGGGGAGAAGGGAGAA
1 AAGGGG-GAAGGGAGAA
2668433 AAGGGGG-AGGGAG-A
1 AAGGGGGAAGGGAGAA
2668447 AAGTGGGGAAGGG
1 AAG-GGGGAAGGG
2668460 GGAGGGAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 5 0.20
17 6 0.24
ACGTcount: A:0.39, C:0.00, G:0.59, T:0.02
Consensus pattern (16 bp):
AAGGGGGAAGGGAGAA
Found at i:2671804 original size:31 final size:31
Alignment explanation
Indices: 2671769--2671827 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
2671759 GTGATCACAT
2671769 CTTAATTAAATAAAAACAAAAGTGACCACGC
1 CTTAATTAAATAAAAACAAAAGTGACCACGC
*
2671800 CTTAATTAAATAAAGACAAAAGTGACCA
1 CTTAATTAAATAAAAACAAAAGTGACCA
2671828 TATCTTATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.53, C:0.17, G:0.10, T:0.20
Consensus pattern (31 bp):
CTTAATTAAATAAAAACAAAAGTGACCACGC
Found at i:2673293 original size:21 final size:21
Alignment explanation
Indices: 2673240--2673295 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
2673230 CGAGTTACCT
* *
2673240 GCGATGGCCGCAATAGCGTCC
1 GCGACGGCCGCAATAGCGCCC
**
2673261 GCGACGATCGCAATAGCGCCC
1 GCGACGGCCGCAATAGCGCCC
2673282 GCGACGGCCGCAAT
1 GCGACGGCCGCAAT
2673296 CACGGTAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.21, C:0.36, G:0.32, T:0.11
Consensus pattern (21 bp):
GCGACGGCCGCAATAGCGCCC
Found at i:2675163 original size:70 final size:70
Alignment explanation
Indices: 2675082--2675222 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
2675072 TCATAATAAA
2675082 TCTCTACAAAATTCAATCTAAAATAGTCAACCAATAAAACAGATATTGATTATTAAATTAAAGGG
1 TCTCTACAAAATTCAATCTAAAATAGTCAACCAATAAAACAGATATTGATTATTAAATTAAAGGG
2675147 TTTTT
66 TTTTT
2675152 TCTCTACAAAATTCAATCTAAAATAGTCAACCAATAAAACAGATATTGATTATTAAATTAAAGGG
1 TCTCTACAAAATTCAATCTAAAATAGTCAACCAATAAAACAGATATTGATTATTAAATTAAAGGG
2675217 TTTTT
66 TTTTT
2675222 T
1 T
2675223 TTTGCATTTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.35
Consensus pattern (70 bp):
TCTCTACAAAATTCAATCTAAAATAGTCAACCAATAAAACAGATATTGATTATTAAATTAAAGGG
TTTTT
Found at i:2685589 original size:30 final size:30
Alignment explanation
Indices: 2685547--2685613 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 30
2685537 AAAAATATTT
**
2685547 TTTTTATCTTAACTTATTAAATATATTTTA
1 TTTTTATCTTAACAAATTAAATATATTTTA
2685577 CTTTTT-TCTTAACAAATTAAATATATTTTA
1 -TTTTTATCTTAACAAATTAAATATATTTTA
2685607 TTTTTAT
1 TTTTTAT
2685614 TTTGATGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 5 0.15
30 23 0.70
31 5 0.15
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTTTATCTTAACAAATTAAATATATTTTA
Found at i:2685745 original size:21 final size:23
Alignment explanation
Indices: 2685719--2685767 Score: 70
Period size: 21 Copynumber: 2.3 Consensus size: 23
2685709 TAACTTAAAA
2685719 TATTTTAAATAT-TTTTAT-TAT
1 TATTTTAAATATATTTTATATAT
2685740 TATTTT-AATATATTTTATATAT
1 TATTTTAAATATATTTTATATAT
2685762 T-TTTTA
1 TATTTTA
2685768 TTTGTTCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 5 0.20
21 16 0.64
22 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TATTTTAAATATATTTTATATAT
Found at i:2685761 original size:11 final size:11
Alignment explanation
Indices: 2685718--2685768 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
2685708 TTAACTTAAA
*
2685718 ATATTTTAAAT
1 ATATTTTATAT
2685729 AT-TTTTAT-T
1 ATATTTTATAT
2685738 ATTATTTTA-AT
1 A-TATTTTATAT
2685749 ATATTTTATAT
1 ATATTTTATAT
*
2685760 ATTTTTTAT
1 ATATTTTAT
2685769 TTGTTCATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
9 2 0.06
10 13 0.38
11 19 0.56
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
ATATTTTATAT
Found at i:2686632 original size:43 final size:42
Alignment explanation
Indices: 2686543--2686905 Score: 244
Period size: 43 Copynumber: 8.5 Consensus size: 42
2686533 TTATTATATT
* * **
2686543 TTTTTA-CTTTATAATTGA-ATCCTTTAATTTCCTTAAATTTTA-
1 TTTTTATCTTTATAATTGAGA-CCCTTAATTT--TTTAATCCTAC
*
2686585 TTTTTATCTTTATAATTGAGATCCTTAATTTTTGTAATCCTAC
1 TTTTTATCTTTATAATTGAGACCCTTAATTTTT-TAATCCTAC
*
2686628 TTTTTATCTTTATAA-TGAAGACCCTTAATTTTTTTTCAATCCCAC
1 TTTTTATCTTTATAATTG-AGACCCTTAA--TTTTTT-AATCCTAC
* * * * ** *
2686673 TTTATACCTTTTTAATTAAG-TTCTTAATTTTTTAATCTTAC
1 TTTTTATCTTTATAATTGAGACCCTTAATTTTTTAATCCTAC
* * *
2686714 TTTCTA-CATTTATAATTCAGACCCCTAATTTTTTTAAT-CTCAC
1 TTTTTATC-TTTATAATTGAGACCCTTAA-TTTTTTAATCCT-AC
* * * *
2686757 ATTTTATCTCTATAATTGAGACCCCTAAATTTTTCAAT-CT-C
1 TTTTTATCTTTATAATTGAGA-CCCTTAATTTTTTAATCCTAC
* * * *
2686798 ATTTTTTTACTTATATAATTTAGGCCCTTAATTTTTTAAATCTTAC
1 -TTTTTAT-CTT-TATAATTGAGACCCTTAATTTTTT-AATCCTAC
* *
2686844 TTTTTACCTTTAAAATTGAGACGCC-TAATTTTTTAAT-CTCAC
1 TTTTTATCTTTATAATTGAGAC-CCTTAATTTTTTAATCCT-AC
*
2686886 TTTTTACCTTTATAATTGAG
1 TTTTTATCTTTATAATTGAG
2686906 GTCCCTACTA
Statistics
Matches: 254, Mismatches: 44, Indels: 46
0.74 0.13 0.13
Matches are distributed among these distances:
40 1 0.00
41 25 0.10
42 53 0.21
43 111 0.44
44 30 0.12
45 32 0.13
46 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.05, T:0.51
Consensus pattern (42 bp):
TTTTTATCTTTATAATTGAGACCCTTAATTTTTTAATCCTAC
Found at i:2686743 original size:129 final size:128
Alignment explanation
Indices: 2686593--2686925 Score: 343
Period size: 129 Copynumber: 2.6 Consensus size: 128
2686583 TATTTTTATC
* * *
2686593 TTTATAATTGAGATCCTTAATTTTTGTAATC-CTACTTTTTATCTTTATAATGAAGACCCTTAAT
1 TTTATAATTGAGACCCCTAATTTTT-TAATCTC-ACTTTTTATCTTTATAATG-AGACCCCTAA-
* * **
2686657 TTTTTTTCAATCCCA-CTTTATACCTT-TTTAA-TTAAGTTCTTAATTTTTT-AATCTTACTTTC
62 -ATTTTTCAATCCCATCTTTATA-CTTATATAATTTAAGCCCTTAATTTTTTAAATCTTACTTTC
2686718 TACA
125 TACA
* * *
2686722 TTTATAATTCAGACCCCTAATTTTTTTAATCTCACATTTTATCTCTATAATTGAGACCCCTAAAT
1 TTTATAATTGAGACCCCTAA-TTTTTTAATCTCACTTTTTATCTTTATAA-TGAGACCCCTAAAT
* * * * * *
2686787 TTTTCAATCTCATTTTTTTACTTATATAATTTAGGCCCTTAATTTTTTAAATCTTACTTTTTACC
64 TTTTCAATCCCATCTTTATACTTATATAATTTAAGCCCTTAATTTTTTAAATCTTACTTTCTACA
* * * ** *
2686852 TTTAAAATTGAGACGCCTAATTTTTTAATCTCACTTTTTACCTTTATAATTGAGGTCCCTACTAT
1 TTTATAATTGAGACCCCTAATTTTTTAATCTCACTTTTTATCTTTATAA-TGAGACCCCTA-AAT
2686917 TTTTCAATC
64 TTTTCAATC
2686926 ATACTCTTTA
Statistics
Matches: 171, Mismatches: 25, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
127 15 0.09
128 9 0.05
129 97 0.57
130 50 0.29
ACGTcount: A:0.27, C:0.18, G:0.05, T:0.50
Consensus pattern (128 bp):
TTTATAATTGAGACCCCTAATTTTTTAATCTCACTTTTTATCTTTATAATGAGACCCCTAAATTT
TTCAATCCCATCTTTATACTTATATAATTTAAGCCCTTAATTTTTTAAATCTTACTTTCTACA
Found at i:2686748 original size:44 final size:42
Alignment explanation
Indices: 2686585--2686905 Score: 256
Period size: 43 Copynumber: 7.5 Consensus size: 42
2686575 TTAAATTTTA
* * *
2686585 TTTTTATCTTTATAATTGAGATCCTTAATTTTTGTAATC-CTAC
1 TTTTTA-CTTTATAATTGAGACCCCTAATTTTTTTAATCTC-AC
* *
2686628 TTTTTATCTTTATAA-TGAAGACCCTTAATTTTTTTTCAATCCCAC
1 TTTTTA-CTTTATAATTG-AGACCCCTAA-TTTTTTT-AATCTCAC
* * * ** * *
2686673 TTTATACCTTTTTAATTAAG-TTCTTAA-TTTTTTAATCTTAC
1 TTTTTA-CTTTATAATTGAGACCCCTAATTTTTTTAATCTCAC
* *
2686714 TTTCTACATTTATAATTCAGACCCCTAATTTTTTTAATCTCAC
1 TTTTTAC-TTTATAATTGAGACCCCTAATTTTTTTAATCTCAC
* * * * *
2686757 ATTTTATCTCTATAATTGAGACCCCTAAATTTTTCAATCTCATT
1 TTTTTA-CTTTATAATTGAGACCCCTAATTTTTTTAATCTCA-C
* * * * *
2686801 TTTTTACTTATATAATTTAGGCCCTTAATTTTTTAAATCTTAC
1 TTTTTACTT-TATAATTGAGACCCCTAATTTTTTTAATCTCAC
* *
2686844 TTTTTACCTTTAAAATTGAGACGCCTAA-TTTTTTAATCTCAC
1 TTTTTA-CTTTATAATTGAGACCCCTAATTTTTTTAATCTCAC
2686886 TTTTTACCTTTATAATTGAG
1 TTTTTA-CTTTATAATTGAG
2686906 GTCCCTACTA
Statistics
Matches: 225, Mismatches: 41, Indels: 25
0.77 0.14 0.09
Matches are distributed among these distances:
40 1 0.00
41 21 0.09
42 43 0.19
43 92 0.41
44 46 0.20
45 20 0.09
46 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.50
Consensus pattern (42 bp):
TTTTTACTTTATAATTGAGACCCCTAATTTTTTTAATCTCAC
Found at i:2686788 original size:86 final size:84
Alignment explanation
Indices: 2686586--2686902 Score: 293
Period size: 87 Copynumber: 3.7 Consensus size: 84
2686576 TAAATTTTAT
* *
2686586 TTTTATCTTTATAATTGAGA-TCCTTAATTTTTGTAATC-CTACTTTTTATCTTTATAATGAAGA
1 TTTTACCTTTATAATTGAGACTCCTTAATTTTT-TAATCTC-ACTTTTTA-CTTTATAATTAAGA
*
2686649 CCCTTAATTTTTTTTCAATCCCAC
63 CCCTTAA-TTTTTTT-AATCTCAC
* * * * * *
2686673 TTTATACCTTTTTAATT-A-AGTTCTTAATTTTTTAATCTTACTTTCTACATTTATAATTCAGAC
1 TTT-TACCTTTATAATTGAGACTCCTTAATTTTTTAATCTCACTTTTTAC-TTTATAATTAAGAC
*
2686736 CCCTAATTTTTTTAATCTCAC
64 CCTTAATTTTTTTAATCTCAC
* * * * * * * *
2686757 ATTTTATCTCTATAATTGAGACCCCTAAATTTTTCAATCTCATTTTTTTACTTATATAATTTAGG
1 -TTTTACCTTTATAATTGAGACTCCTTAATTTTTTAATCTCA-CTTTTTACTT-TATAATTAAGA
* *
2686822 CCCTTAATTTTTTAAATCTTAC
63 CCCTTAATTTTTTTAATCTCAC
* *
2686844 TTTTTACCTTTAAAATTGAGACGCC-TAATTTTTTAATCTCACTTTTTACCTTTATAATT
1 -TTTTACCTTTATAATTGAGACTCCTTAATTTTTTAATCTCACTTTTTA-CTTTATAATT
2686903 GAGGTCCCTA
Statistics
Matches: 187, Mismatches: 33, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
84 17 0.09
85 25 0.13
86 65 0.35
87 69 0.37
88 11 0.06
ACGTcount: A:0.27, C:0.17, G:0.04, T:0.51
Consensus pattern (84 bp):
TTTTACCTTTATAATTGAGACTCCTTAATTTTTTAATCTCACTTTTTACTTTATAATTAAGACCC
TTAATTTTTTTAATCTCAC
Found at i:2686920 original size:43 final size:43
Alignment explanation
Indices: 2686585--2686943 Score: 243
Period size: 43 Copynumber: 8.3 Consensus size: 43
2686575 TTAAATTTTA
* * *
2686585 TTTTTATCTTTATAATTGAGATCCTTAATTTTTGT-AATC-CTAC
1 TTTTTACCTTTATAATTGAGGTCCCTAATTTTT-TCAATCTC-AC
* * * *
2686628 TTTTTATCTTTATAA-TGAAGACCCTTAATTTTTTTTCAATCCCAC
1 TTTTTACCTTTATAATTGAGGTCCC-TAA--TTTTTTCAATCTCAC
* * * * * *
2686673 TTTATACCTTTTTAATT-AAGTTCTTAATTTTTT-AATCTTAC
1 TTTTTACCTTTATAATTGAGGTCCCTAATTTTTTCAATCTCAC
* * * ** *
2686714 TTTCTACATTTATAATTCAGACCCCTAATTTTTTTAATCTCAC
1 TTTTTACCTTTATAATTGAGGTCCCTAATTTTTTCAATCTCAC
* * * ** * *
2686757 ATTTTATCTCTATAATTGAGACCCCTAAATTTTTCAATCTCATT
1 TTTTTACCTTTATAATTGAGGTCCCTAATTTTTTCAATCTCA-C
* * *
2686801 TTTTTA-CTTATATAATTTAGG-CCCTTAATTTTTTAAATCTTAC
1 TTTTTACCTT-TATAATTGAGGTCCC-TAATTTTTTCAATCTCAC
* *
2686844 TTTTTACCTTTAAAATTGA-GACGCCTAATTTTTT-AATCTCAC
1 TTTTTACCTTTATAATTGAGGTC-CCTAATTTTTTCAATCTCAC
*
2686886 TTTTTACCTTTATAATTGAGGTCCCTACTATTTTTCAATCAT-AC
1 TTTTTACCTTTATAATTGAGGTCCCTAAT-TTTTTCAATC-TCAC
* *
2686930 TCTTTACTTTTATA
1 TTTTTACCTTTATA
2686944 GTTTAAGCCC
Statistics
Matches: 252, Mismatches: 46, Indels: 35
0.76 0.14 0.11
Matches are distributed among these distances:
41 20 0.08
42 53 0.21
43 94 0.37
44 55 0.22
45 28 0.11
46 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.05, T:0.50
Consensus pattern (43 bp):
TTTTTACCTTTATAATTGAGGTCCCTAATTTTTTCAATCTCAC
Found at i:2718080 original size:40 final size:39
Alignment explanation
Indices: 2718021--2718125 Score: 142
Period size: 39 Copynumber: 2.7 Consensus size: 39
2718011 TAAAAATCGG
*
2718021 TTTTT-AAAAT-TATATATATTATATAGCTTTGAAAATGT
1 TTTTTGAAAATATATATATATTATATAG-TTTGAAAATGA
* *
2718059 TTTTTGAAAATATATAGATATTATATAGTTTGCAAATGA
1 TTTTTGAAAATATATATATATTATATAGTTTGAAAATGA
*
2718098 TTTTTGAATATATATATATATATATATA
1 TTTTTGAAAATATATATATAT-TATATA
2718126 TATATATATA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 5 0.08
39 33 0.56
40 21 0.36
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.49
Consensus pattern (39 bp):
TTTTTGAAAATATATATATATTATATAGTTTGAAAATGA
Found at i:2718112 original size:2 final size:2
Alignment explanation
Indices: 2718105--2718140 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
2718095 TGATTTTTGA
2718105 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2718141 GTTTCTGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2718129 original size:55 final size:53
Alignment explanation
Indices: 2718068--2718173 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 53
2718058 TTTTTTGAAA
* **
2718068 ATATATAGATATTATATAGTTT-GCAAATGATTTTTGAATATATATATATATATAT
1 ATATATAGATATAATATAGTTTCG-AAAACA-TTTTGAATATATAT-TATATATAT
*
2718123 ATATATATATATAATATAGTTTCTGAAAACATTTTGAATATATATTATATA
1 ATATATAGATATAATATAGTTTC-GAAAACATTTTGAATATATATTATATA
2718174 GTTTTTGAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 6 0.13
55 34 0.76
56 4 0.09
57 1 0.02
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (53 bp):
ATATATAGATATAATATAGTTTCGAAAACATTTTGAATATATATTATATATAT
Found at i:2718201 original size:37 final size:37
Alignment explanation
Indices: 2718123--2718484 Score: 368
Period size: 37 Copynumber: 9.8 Consensus size: 37
2718113 ATATATATAT
*
2718123 ATATATATATATAATATAGTTTCTGAAAACATTTTG--A
1 ATATATATA-AT-ATATAGTTTTTGAAAACATTTTGAAA
2718160 ATATATAT--TATATAGTTTTTGAAAACATTTTGAAA
1 ATATATATAATATATAGTTTTTGAAAACATTTTGAAA
* * *
2718195 ATATATATAGAATATATAGTTTTTAAAAATATTTTAAAA
1 ATATATAT--AATATATAGTTTTTGAAAACATTTTGAAA
* * **
2718234 ATTTATATAATATTTAGTTTTTGAAAACATTTAAAAA
1 ATATATATAATATATAGTTTTTGAAAACATTTTGAAA
*
2718271 AAACTTATATAATATATAG-TTTT-AAAATCATTTTGAAA
1 ATA--TATATAATATATAGTTTTTGAAAA-CATTTTGAAA
*
2718309 ACT-TATATAATATATAG-TTTTGAAATCATTTTGAAA
1 A-TATATATAATATATAGTTTTTGAAAACATTTTGAAA
* * *
2718345 ACT-TATATAATATATGACTTTTTAAAAACATTTTAAAA
1 A-TATATATAATATAT-AGTTTTTGAAAACATTTTGAAA
* * *
2718383 ACATATATAATATATGGTTTTTAAAAACATTTTGAAA
1 ATATATATAATATATAGTTTTTGAAAACATTTTGAAA
* *
2718420 ACT-TATATAATATATGGTTTTTAAAAAACATTTTGAAA
1 A-TATATATAATATATAGTTTTT-GAAAACATTTTGAAA
*
2718458 ATATATATAATATAT-GATTTTGAAAAC
1 ATATATATAATATATAGTTTTTGAAAAC
2718485 TATATAATAT
Statistics
Matches: 281, Mismatches: 27, Indels: 35
0.82 0.08 0.10
Matches are distributed among these distances:
33 22 0.08
34 1 0.00
35 9 0.03
36 48 0.17
37 87 0.31
38 70 0.25
39 44 0.16
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (37 bp):
ATATATATAATATATAGTTTTTGAAAACATTTTGAAA
Found at i:2718329 original size:75 final size:75
Alignment explanation
Indices: 2718161--2718484 Score: 349
Period size: 75 Copynumber: 4.3 Consensus size: 75
2718151 ACATTTTGAA
* * *
2718161 TATATATTATATAGTTTTTGAAAACATTTTGAAAATA-TATATAGAATATATAGTTTTT-AAAAA
1 TATATAATATATAGTTTTTGAAAACA-TTT-AAAAAACT-TATATAATATATAGTTTTTAAAAAA
* *
2718224 TATTTTAAAAATT
63 CATTTTAAAAACT
* *
2718237 TATATAATATTTAGTTTTTGAAAACATTTAAAAAAAACTTATATAATATATAG-TTTT-AAAATC
1 TATATAATATATAGTTTTTGAAAACATTT--AAAAAACTTATATAATATATAGTTTTTAAAAAAC
*
2718300 ATTTTGAAAACT
64 ATTTTAAAAACT
* ** *
2718312 TATATAATATATAG-TTTTGAAATCATTTTGAAAACTTATATAATATATGACTTTTT-AAAAACA
1 TATATAATATATAGTTTTTGAAAACATTTAAAAAACTTATATAATATAT-AGTTTTTAAAAAACA
*
2718375 TTTTAAAAACA
65 TTTTAAAAACT
* * ** *
2718386 TATATAATATATGGTTTTTAAAAACATTTTGAAAACTTATATAATATATGGTTTTTAAAAAACAT
1 TATATAATATATAGTTTTTGAAAACATTTAAAAAACTTATATAATATATAGTTTTTAAAAAACAT
*
2718451 TTTGAAAA-T
66 TTTAAAAACT
*
2718460 ATATATAATATAT-GATTTTGAAAAC
1 -TATATAATATATAGTTTTTGAAAAC
2718485 TATATAATAT
Statistics
Matches: 215, Mismatches: 26, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
72 18 0.08
73 1 0.00
74 60 0.28
75 93 0.43
76 42 0.20
77 1 0.00
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.43
Consensus pattern (75 bp):
TATATAATATATAGTTTTTGAAAACATTTAAAAAACTTATATAATATATAGTTTTTAAAAAACAT
TTTAAAAACT
Found at i:2718447 original size:38 final size:37
Alignment explanation
Indices: 2718126--2718472 Score: 377
Period size: 38 Copynumber: 9.3 Consensus size: 37
2718116 TATATATATA
* *
2718126 TATATATATAATATAGTTTCTGAAAACATTTTG--AA--
1 TATATA-AT-ATATAGTTTTTAAAAACATTTTGAAAACT
* *
2718161 TATATATTATATAGTTTTTGAAAACATTTTGAAAA-T
1 TATATAATATATAGTTTTTAAAAACATTTTGAAAACT
* * *
2718197 ATATATAGAATATATAGTTTTTAAAAATATTTTAAAAATT
1 -TATAT--AATATATAGTTTTTAAAAACATTTTGAAAACT
* * **
2718237 TATATAATATTTAGTTTTTGAAAACATTTAAAAAAAACT
1 TATATAATATATAGTTTTTAAAAACATTT--TGAAAACT
*
2718276 TATATAATATATAG-TTTTAAAATCATTTTGAAAACT
1 TATATAATATATAGTTTTTAAAAACATTTTGAAAACT
* *
2718312 TATATAATATATAG-TTTTGAAATCATTTTGAAAACT
1 TATATAATATATAGTTTTTAAAAACATTTTGAAAACT
* * *
2718348 TATATAATATATGACTTTTTAAAAACATTTTAAAAACA
1 TATATAATATAT-AGTTTTTAAAAACATTTTGAAAACT
*
2718386 TATATAATATATGGTTTTTAAAAACATTTTGAAAACT
1 TATATAATATATAGTTTTTAAAAACATTTTGAAAACT
*
2718423 TATATAATATATGGTTTTTAAAAAACATTTTGAAAA-T
1 TATATAATATATAGTTTTT-AAAAACATTTTGAAAACT
2718460 ATATATAATATAT
1 -TATATAATATAT
2718473 GATTTTGAAA
Statistics
Matches: 273, Mismatches: 26, Indels: 23
0.85 0.08 0.07
Matches are distributed among these distances:
33 22 0.08
34 1 0.00
35 8 0.03
36 53 0.19
37 68 0.25
38 70 0.26
39 50 0.18
40 1 0.00
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (37 bp):
TATATAATATATAGTTTTTAAAAACATTTTGAAAACT
Found at i:2718493 original size:24 final size:23
Alignment explanation
Indices: 2718449--2718509 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 23
2718439 TTTAAAAAAC
*
2718449 ATTTTGAAAATATATATAATATAT
1 ATTTTGAAAA-CTATATAATATAT
2718473 GATTTTGAAAACTATATAATATAT
1 -ATTTTGAAAACTATATAATATAT
2718497 AGTTTTGAAAACT
1 A-TTTTGAAAACT
2718510 TTTTTAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
23 1 0.03
24 23 0.68
25 10 0.29
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (23 bp):
ATTTTGAAAACTATATAATATAT
Found at i:2718496 original size:26 final size:25
Alignment explanation
Indices: 2718449--2718509 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
2718439 TTTAAAAAAC
2718449 ATTTTGAAAA-TATATATAATATATG
1 ATTTTGAAAACTATATATAATATA-G
2718474 ATTTTGAAAACTATATA-ATATATAG
1 ATTTTGAAAACTATATATA-ATATAG
2718499 -TTTTGAAAACT
1 ATTTTGAAAACT
2718510 TTTTTAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
24 11 0.32
25 12 0.35
26 11 0.32
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (25 bp):
ATTTTGAAAACTATATATAATATAG
Found at i:2718526 original size:99 final size:100
Alignment explanation
Indices: 2718374--2718565 Score: 239
Period size: 99 Copynumber: 1.9 Consensus size: 100
2718364 TTTTAAAAAC
* * *
2718374 ATTTTAAAAACATATATAATATATGGTTTTTAAAAACATTTTG-AAAA-CTTATATAATATATGG
1 ATTTTAAAAACATATATAATATATAGTTTTTAAAAACATTTTGAAAAATATTATATAATATATAG
*
2718437 TTTTTAAAAAACATTTTGAAAATATATATAATATATG
66 -TTTTAAAAAA-ATTTTGAAAAAATATATAATATATG
* * * *
2718474 ATTTTGAAAAC-TATATAATATATAG-TTTTGAAAACTTTTTTAAAAATATATATATAATATATA
1 ATTTTAAAAACATATATAATATATAGTTTTTAAAAACATTTTGAAAAATAT-TATATAATATATA
* *
2718537 GTTTTAAAATATTTTTGAAAAAATATATA
65 GTTTTAAAAAAATTTTGAAAAAATATATA
2718566 TTATTATTAT
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
98 13 0.16
99 33 0.42
100 20 0.25
101 13 0.16
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.43
Consensus pattern (100 bp):
ATTTTAAAAACATATATAATATATAGTTTTTAAAAACATTTTGAAAAATATTATATAATATATAG
TTTTAAAAAAATTTTGAAAAAATATATAATATATG
Found at i:2718535 original size:63 final size:63
Alignment explanation
Indices: 2718411--2718527 Score: 168
Period size: 61 Copynumber: 1.9 Consensus size: 63
2718401 TTTTAAAAAC
* *
2718411 ATTTTGAAAACTTATATAATATATGGTTTTTAAAAAACATTTTGAAAATATATATAATATATG
1 ATTTTGAAAACTTATATAATATATAGTTTTTAAAAAACATTTTAAAAATATATATAATATATG
* *
2718474 ATTTTGAAAAC-TATATAATATATAG-TTTT-GAAAACTTTTTTAAAAATATATATA
1 ATTTTGAAAACTTATATAATATATAGTTTTTAAAAAAC-ATTTTAAAAATATATATA
2718528 TAATATATAG
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
60 5 0.10
61 20 0.41
62 13 0.27
63 11 0.22
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (63 bp):
ATTTTGAAAACTTATATAATATATAGTTTTTAAAAAACATTTTAAAAATATATATAATATATG
Found at i:2718563 original size:38 final size:39
Alignment explanation
Indices: 2718485--2718566 Score: 125
Period size: 39 Copynumber: 2.1 Consensus size: 39
2718475 TTTTGAAAAC
2718485 TATATAATATATAGTTTTGAAAACTTTTTTAAAAATATA
1 TATATAATATATAGTTTTGAAAACTTTTTTAAAAATATA
2718524 TATATAATATATAGTTTT-AAAA-TATTTTTGAAAAA-ATA
1 TATATAATATATAGTTTTGAAAACT-TTTTT-AAAAATATA
2718562 TATAT
1 TATAT
2718567 TATTATTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
37 1 0.02
38 17 0.41
39 23 0.56
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.46
Consensus pattern (39 bp):
TATATAATATATAGTTTTGAAAACTTTTTTAAAAATATA
Found at i:2718575 original size:6 final size:6
Alignment explanation
Indices: 2718564--2718600 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
2718554 AAAAAATATA
* *
2718564 TATTAT TATTAT TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT T
2718601 GTGGTCTAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (6 bp):
TATTTT
Found at i:2719131 original size:17 final size:15
Alignment explanation
Indices: 2719109--2719152 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
2719099 GTTTTTTCGA
2719109 TTCGGTTCGGTTTTT
1 TTCGGTTCGGTTTTT
*
2719124 TTAACGGTTCGG-GTTT
1 TT--CGGTTCGGTTTTT
2719140 TTCGGTTCGGTTT
1 TTCGGTTCGGTTT
2719153 ATCTGTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
14 8 0.33
15 3 0.12
16 5 0.21
17 8 0.33
ACGTcount: A:0.05, C:0.14, G:0.30, T:0.52
Consensus pattern (15 bp):
TTCGGTTCGGTTTTT
Found at i:2722866 original size:21 final size:21
Alignment explanation
Indices: 2722841--2722880 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2722831 AACCATTCAG
2722841 GGGGGAATCGGTACCCTCTTA
1 GGGGGAATCGGTACCCTCTTA
*
2722862 GGGGGAATCGGTTCCCTCT
1 GGGGGAATCGGTACCCTCT
2722881 GAGCAATCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.25, G:0.35, T:0.25
Consensus pattern (21 bp):
GGGGGAATCGGTACCCTCTTA
Found at i:2725139 original size:26 final size:24
Alignment explanation
Indices: 2725094--2725143 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
2725084 CAAAACACAA
*
2725094 TAATTTGAAAATTAACATTTTTTT
1 TAATTTGAAAATTAAAATTTTTTT
2725118 TAATTTCGAAAATTTAAAATTTTTTT
1 TAATTT-GAAAA-TTAAAATTTTTTT
2725144 GGGAAATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.26
25 5 0.22
26 12 0.52
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (24 bp):
TAATTTGAAAATTAAAATTTTTTT
Found at i:2725352 original size:20 final size:20
Alignment explanation
Indices: 2725315--2725353 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2725305 AGATTGAGTG
* * *
2725315 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
2725335 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
2725354 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:2725586 original size:20 final size:20
Alignment explanation
Indices: 2725553--2725590 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2725543 CCCCTTCAAA
2725553 GGGGGAATCAATTCCCTCAT
1 GGGGGAATCAATTCCCTCAT
* *
2725573 GGGGGGATCGATTCCCTC
1 GGGGGAATCAATTCCCTC
2725591 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.26, G:0.32, T:0.24
Consensus pattern (20 bp):
GGGGGAATCAATTCCCTCAT
Done.