Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 17 of 205
Found at i:5276945 original size:22 final size:22
Alignment explanation
Indices: 5276920--5276966 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
5276910 GCCCCCTATT
*
5276920 TACAAACGGTTC-TCCCCTAAAA
1 TACAAACGATTCTTCCCC-AAAA
*
5276942 TACAATCGATTCTTCCCCAAAA
1 TACAAACGATTCTTCCCCAAAA
5276964 TAC
1 TAC
5276967 CATCGATCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.36, C:0.32, G:0.06, T:0.26
Consensus pattern (22 bp):
TACAAACGATTCTTCCCCAAAA
Found at i:5277327 original size:35 final size:35
Alignment explanation
Indices: 5277282--5277350 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
5277272 GGGTGTGTGA
5277282 TGGTGCTGGTGGCAGACAGCATGGAAGAGTGGGAG
1 TGGTGCTGGTGGCAGACAGCATGGAAGAGTGGGAG
* *
5277317 TGGTGTTGGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTGCTGGTGGCAGACAGCATGGAAGAGTGGGA
5277351 AGAGGCAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.22, C:0.10, G:0.49, T:0.19
Consensus pattern (35 bp):
TGGTGCTGGTGGCAGACAGCATGGAAGAGTGGGAG
Found at i:5287017 original size:25 final size:25
Alignment explanation
Indices: 5286951--5287038 Score: 88
Period size: 25 Copynumber: 3.6 Consensus size: 25
5286941 CGTTATTAGC
*
5286951 TCTCAAGAGCATCCTGATAT-TGAA
1 TCTCAAGAGCTTCCTGATATATGAA
** * **
5286975 TCTCTTGAGTTTTATGATATATGAA
1 TCTCAAGAGCTTCCTGATATATGAA
**
5287000 TCTCAAGAGCTTCCTGATATATGGC
1 TCTCAAGAGCTTCCTGATATATGAA
*
5287025 TCTCATGAGCTTCC
1 TCTCAAGAGCTTCC
5287039 CGTTAATAGC
Statistics
Matches: 49, Mismatches: 14, Indels: 1
0.77 0.22 0.02
Matches are distributed among these distances:
24 14 0.29
25 35 0.71
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.36
Consensus pattern (25 bp):
TCTCAAGAGCTTCCTGATATATGAA
Found at i:5287243 original size:24 final size:24
Alignment explanation
Indices: 5287216--5287267 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
5287206 GGCTCTCCAA
5287216 AGCTACCCGATAATGGCTCGCATG
1 AGCTACCCGATAATGGCTCGCATG
* * **
5287240 AGCTTCCCGATTATGGCTCTTATG
1 AGCTACCCGATAATGGCTCGCATG
5287264 AGCT
1 AGCT
5287268 TCTTGTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (24 bp):
AGCTACCCGATAATGGCTCGCATG
Found at i:5287268 original size:24 final size:25
Alignment explanation
Indices: 5287104--5287269 Score: 88
Period size: 27 Copynumber: 6.6 Consensus size: 25
5287094 CACACCGCAA
*
5287104 CTCTTATGAGCTTCCCAA-TATATAG
1 CTCTTATGAGCTTCCCAATTA-ATGG
** ** *
5287129 CTCTTCGGAGCTTCCTGATTAAGGG
1 CTCTTATGAGCTTCCCAATTAATGG
*** *
5287154 CTCTTTCATGAGCTTTAAAATTAAAGG
1 CTC-TT-ATGAGCTTCCCAATTAATGG
*
5287181 CTCTCTCATGAGCTTCTCAATTAATGG
1 CTCT-T-ATGAGCTTCCCAATTAATGG
* * * *
5287208 CTCTCCA-AAGCTACCCGA-TAATGG
1 CTCT-TATGAGCTTCCCAATTAATGG
** *
5287232 CTCGCATGAGCTTCCCGATT-ATGG
1 CTCTTATGAGCTTCCCAATTAATGG
5287256 CTCTTATGAGCTTC
1 CTCTTATGAGCTTC
5287270 TTGTTATATG
Statistics
Matches: 108, Mismatches: 27, Indels: 13
0.73 0.18 0.09
Matches are distributed among these distances:
23 2 0.02
24 34 0.31
25 27 0.25
26 6 0.06
27 39 0.36
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.33
Consensus pattern (25 bp):
CTCTTATGAGCTTCCCAATTAATGG
Found at i:5297684 original size:50 final size:50
Alignment explanation
Indices: 5297569--5297809 Score: 286
Period size: 50 Copynumber: 4.7 Consensus size: 50
5297559 GATCATAACA
* * ** *
5297569 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATATTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* *
5297620 TGCCCATGCCATGTCCCAGACATGGTCTTACA-GTGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG-GGACCTCTCATCTCGG
* * *
5297670 TGCCAACGCCATGTCCCAAACATGGTTTTACATGGGACCTCTCGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
5297720 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTTAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATC-T-CGG
* *
5297775 ATGCCAATGCCATGTCCCAGACATGGTATTACATG
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATG
5297810 AGATCTTTTT
Statistics
Matches: 165, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
50 95 0.58
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 32 0.19
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:5298023 original size:15 final size:15
Alignment explanation
Indices: 5298003--5298033 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
5297993 TTTGCCGTAA
5298003 ACTTACCTCGGTACC
1 ACTTACCTCGGTACC
5298018 ACTTACCTCGGTACC
1 ACTTACCTCGGTACC
5298033 A
1 A
5298034 ATTATAGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.39, G:0.13, T:0.26
Consensus pattern (15 bp):
ACTTACCTCGGTACC
Found at i:5298205 original size:30 final size:30
Alignment explanation
Indices: 5298170--5298227 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
5298160 CCTCGACTCT
5298170 AACTTTGT-CAAAATTACAATTTTGCCCCTA
1 AACTTT-TACAAAATTACAATTTTGCCCCTA
* *
5298200 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
5298228 AAGGCTTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:5305255 original size:51 final size:55
Alignment explanation
Indices: 5305175--5305428 Score: 321
Period size: 51 Copynumber: 4.7 Consensus size: 55
5305165 TGACCATGAC
* **
5305175 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCAT-ATC-A-G
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATGATCTAGG
* *
5305227 -TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATGATCTTAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATGATC-T-AGG
**
5305282 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCAT-ATC-A-G
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATGATCTAGG
* *
5305334 -TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATGATCTTAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATGATC-T-AGG
5305389 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
5305429 ATTTTACCCA
Statistics
Matches: 173, Mismatches: 15, Indels: 23
0.82 0.07 0.11
Matches are distributed among these distances:
50 12 0.07
51 75 0.43
52 1 0.01
53 1 0.01
54 2 0.01
55 2 0.01
56 73 0.42
57 7 0.04
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (55 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATGATCTAGG
Found at i:5305361 original size:107 final size:107
Alignment explanation
Indices: 5305175--5305427 Score: 497
Period size: 107 Copynumber: 2.4 Consensus size: 107
5305165 TGACCATGAC
*
5305175 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCAGTGCCCATGCCATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCAGTGCCCATGCCATG
5305240 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
66 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
5305282 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCAGTGCCCATGCCATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCAGTGCCCATGCCATG
5305347 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
66 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
5305389 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
5305428 CATTTTACCC
Statistics
Matches: 145, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 145 1.00
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (107 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCAGTGCCCATGCCATG
TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
Found at i:5305549 original size:13 final size:13
Alignment explanation
Indices: 5305531--5305555 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5305521 AATCAACATC
5305531 AAATAAATTCATG
1 AAATAAATTCATG
5305544 AAATAAATTCAT
1 AAATAAATTCAT
5305556 AGTTGCAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATAAATTCATG
Found at i:5305804 original size:30 final size:30
Alignment explanation
Indices: 5305769--5305826 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
5305759 CCTCGACTCT
5305769 AACTTTGT-CAAAATTACGA-TTTTGCCCCTA
1 AACTTT-TACAAAATTAC-ATTTTTGCCCCTA
*
5305799 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACATTTTTGCCCC
5305827 AAGGCTTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTTACAAAATTACATTTTTGCCCCTA
Found at i:5306870 original size:52 final size:52
Alignment explanation
Indices: 5306803--5306908 Score: 176
Period size: 52 Copynumber: 2.0 Consensus size: 52
5306793 AAATGTGAGT
* * *
5306803 ATGTTTTGAACGAATTGATAAAATAATAAGTAAATAATTGTTAATTGATGTG
1 ATGTTTTAAAAGAATTGACAAAATAATAAGTAAATAATTGTTAATTGATGTG
*
5306855 ATGTTTTAAAAGAATTGACAAAATAATAAGTACATAATTGTTAATTGATGTG
1 ATGTTTTAAAAGAATTGACAAAATAATAAGTAAATAATTGTTAATTGATGTG
5306907 AT
1 AT
5306909 ATTGAATTCT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (52 bp):
ATGTTTTAAAAGAATTGACAAAATAATAAGTAAATAATTGTTAATTGATGTG
Found at i:5310402 original size:13 final size:14
Alignment explanation
Indices: 5310370--5310407 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
5310360 GTTGCTTTCC
5310370 TTAATTGCCTTCTCT
1 TTAA-TGCCTTCTCT
5310385 TTAATGCCTTCT-T
1 TTAATGCCTTCTCT
*
5310398 TTAATTCCTT
1 TTAATGCCTT
5310408 TAGTAAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 8 0.36
15 4 0.18
ACGTcount: A:0.16, C:0.24, G:0.05, T:0.55
Consensus pattern (14 bp):
TTAATGCCTTCTCT
Found at i:5315872 original size:17 final size:17
Alignment explanation
Indices: 5315850--5315886 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
5315840 ATTAATTTAA
5315850 ATAATCAGTATAAAGTT
1 ATAATCAGTATAAAGTT
*
5315867 ATAATCATTATAAAGTT
1 ATAATCAGTATAAAGTT
5315884 ATA
1 ATA
5315887 TACTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (17 bp):
ATAATCAGTATAAAGTT
Found at i:5316405 original size:23 final size:23
Alignment explanation
Indices: 5316375--5316423 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
5316365 TCTAACCGTG
5316375 GAAAAAACTGATGTTACTTTGAA
1 GAAAAAACTGATGTTACTTTGAA
5316398 GAAAAAACTGATGTTACTTTGAA
1 GAAAAAACTGATGTTACTTTGAA
5316421 GAA
1 GAA
5316424 TTTTGTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (23 bp):
GAAAAAACTGATGTTACTTTGAA
Found at i:5319433 original size:41 final size:41
Alignment explanation
Indices: 5319372--5319477 Score: 169
Period size: 41 Copynumber: 2.6 Consensus size: 41
5319362 ATTTAAATAG
*
5319372 ATTCACTGGCACTTCA-CCTGCTAGGCTTATAGCCTGATTCA
1 ATTCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTGATTCA
* *
5319413 GTTCACCGGCACTTAGCCTGCTAGGCTTATAGCTTGATTCA
1 ATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCA
5319454 ATTCACCGGCACTTAGCCTGCTAG
1 ATTCACCGGCACTTAGCCTGCTAG
5319478 ATGTAAAGTC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 1 0.02
41 59 0.98
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.30
Consensus pattern (41 bp):
ATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCA
Found at i:5321200 original size:28 final size:31
Alignment explanation
Indices: 5321168--5321226 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
5321158 TGTTTTGTTT
5321168 TTATTATAATAA-CATTAT-AAT-ATATAAA
1 TTATTATAATAACCATTATAAATAATATAAA
* *
5321196 TTATTATTATAACCTTTATAAATAATATAAA
1 TTATTATAATAACCATTATAAATAATATAAA
5321227 AACTATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 11 0.42
29 5 0.19
30 3 0.12
31 7 0.27
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (31 bp):
TTATTATAATAACCATTATAAATAATATAAA
Found at i:5324830 original size:114 final size:114
Alignment explanation
Indices: 5324698--5324919 Score: 381
Period size: 114 Copynumber: 1.9 Consensus size: 114
5324688 TCATATATAC
*
5324698 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
1 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTT
*
5324763 TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
66 TCAATTATAGCTCATAAAATATACAATAGATATACATATATATTTACAT
*
5324812 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATATTT
1 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTT
* * * *
5324877 TTAATTATAGCTTATAAAATATACAATATATATATATATATAT
66 TCAATTATAGCTCATAAAATATACAATAGATATACATATATAT
5324920 ATGCTGATTA
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 101 1.00
ACGTcount: A:0.41, C:0.13, G:0.03, T:0.43
Consensus pattern (114 bp):
ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTT
TCAATTATAGCTCATAAAATATACAATAGATATACATATATATTTACAT
Found at i:5325896 original size:13 final size:13
Alignment explanation
Indices: 5325878--5325902 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5325868 CAATCAAATG
5325878 CACACAAAATAAA
1 CACACAAAATAAA
5325891 CACACAAAATAA
1 CACACAAAATAA
5325903 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:5342160 original size:141 final size:141
Alignment explanation
Indices: 5341906--5342188 Score: 548
Period size: 141 Copynumber: 2.0 Consensus size: 141
5341896 TAATTTTCAA
5341906 TCTCTTGCCTGTGGAGGATTAGGTCTAAGAGATTTAAATGATTTGAATGCTTATATTTTTTGCTA
1 TCTCTTGCCTGTGGAGGATTAGGTCTAAGAGATTTAAATGATTTGAATGCTTATATTTTTTGCTA
*
5341971 AAATTGGGGATGAATCAAGTCTCTAAGGATACTGCCTTAAGGGTTCGTGTTATTCGATCGAAGTA
66 AAATTGGGGATGAATCAAGTCTCTAAGGATACTGCCTTAAGGGTTCGTGTTATTCGATCGAAGCA
*
5342036 TGGAATGAAAG
131 TGAAATGAAAG
5342047 TCTCTTGCCTGTGGAGGATTAGGTCTAAGAGATTTAAATGATTTGAATGCTTATATTTTTTGCTA
1 TCTCTTGCCTGTGGAGGATTAGGTCTAAGAGATTTAAATGATTTGAATGCTTATATTTTTTGCTA
5342112 AAATTGGGGATGAATCAAGTCTCTAAGGATACTGCCTTAAGGGTTCGTGTTATTCGATCGAAGCA
66 AAATTGGGGATGAATCAAGTCTCTAAGGATACTGCCTTAAGGGTTCGTGTTATTCGATCGAAGCA
5342177 TGAAATGAAAG
131 TGAAATGAAAG
5342188 T
1 T
5342189 GAGGGTGCTT
Statistics
Matches: 140, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
141 140 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (141 bp):
TCTCTTGCCTGTGGAGGATTAGGTCTAAGAGATTTAAATGATTTGAATGCTTATATTTTTTGCTA
AAATTGGGGATGAATCAAGTCTCTAAGGATACTGCCTTAAGGGTTCGTGTTATTCGATCGAAGCA
TGAAATGAAAG
Found at i:5345735 original size:40 final size:40
Alignment explanation
Indices: 5345606--5346667 Score: 1916
Period size: 40 Copynumber: 26.6 Consensus size: 40
5345596 TTGAATGCTG
* * * * * *
5345606 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
5345646 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAG-AACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
5345685 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
5345725 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
5345765 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
5345805 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
5345845 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
5345885 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
5345925 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
5345965 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
5346005 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
5346045 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
5346085 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
5346125 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
5346165 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
5346205 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
5346245 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
5346285 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
5346325 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
5346365 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
5346405 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
5346445 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
5346485 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
5346525 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
5346565 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
5346605 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
5346644 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
5346668 TGAACGAGGA
Statistics
Matches: 1000, Mismatches: 18, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
38 1 0.00
39 65 0.06
40 926 0.93
41 8 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:5349303 original size:104 final size:102
Alignment explanation
Indices: 5349122--5349326 Score: 329
Period size: 104 Copynumber: 2.0 Consensus size: 102
5349112 AATTTTTAAG
* * * *
5349122 GACCTTATCGTGCCTTTTTTTTATGGCTTGTGTTCAAACAACATCTTCTAACTATTTGGAATAGA
1 GACCTTAACGTGCCTTTTTTTTATGGCTTGTGTTCAAACAACATCTTCTAACTATTTCGAACAAA
* *
5349187 TACGGAAGGGCATTGGTCATAGTCCGCCGTGTCAGAA
66 TACGGAAAGGCATTGGTCATAGTCCGCCATGTCAGAA
*
5349224 GACCTTAACGTGCCTTTTTTTATTATGGCTTGTGTTCAAACAACATCTTCTAACTGTTTCGAACA
1 GACCTTAACGTGCC-TTTTTT-TTATGGCTTGTGTTCAAACAACATCTTCTAACTATTTCGAACA
5349289 AATACGGAAAGGCATTGGTCATAGTCCGCCATGTCAGA
64 AATACGGAAAGGCATTGGTCATAGTCCGCCATGTCAGA
5349327 TGTGTCACTA
Statistics
Matches: 94, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
102 13 0.14
103 6 0.06
104 75 0.80
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (102 bp):
GACCTTAACGTGCCTTTTTTTTATGGCTTGTGTTCAAACAACATCTTCTAACTATTTCGAACAAA
TACGGAAAGGCATTGGTCATAGTCCGCCATGTCAGAA
Found at i:5351660 original size:73 final size:73
Alignment explanation
Indices: 5351573--5351718 Score: 256
Period size: 73 Copynumber: 2.0 Consensus size: 73
5351563 GGGATCATTA
* *
5351573 CCTCTTAATTGACAAGGCCTTATCCTTTGAAAATTACTTTATTGAACTTCAAGAAATAATAATGA
1 CCTCTTAATTGACAAAGCCTTATCCTTTGAAAATTACTTTATTGAACTTCAAGAAAGAATAATGA
5351638 GCCATTTG
66 GCCATTTG
* *
5351646 CCTCTTAATTGACAAAGCGTTATCCTTTGAAAATTACTTTATTTAACTTCAAGAAAGAATAATGA
1 CCTCTTAATTGACAAAGCCTTATCCTTTGAAAATTACTTTATTGAACTTCAAGAAAGAATAATGA
5351711 GCCATTTG
66 GCCATTTG
5351719 GAAAGAAAAG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (73 bp):
CCTCTTAATTGACAAAGCCTTATCCTTTGAAAATTACTTTATTGAACTTCAAGAAAGAATAATGA
GCCATTTG
Found at i:5364014 original size:24 final size:24
Alignment explanation
Indices: 5363987--5364038 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
5363977 TTAGTAAGTC
*
5363987 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
5364011 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
5364035 AAAT
1 AAAT
5364039 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:5364860 original size:31 final size:31
Alignment explanation
Indices: 5364800--5364860 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
5364790 ACTATTTGGC
*
5364800 AATGTATAACCATACACGAATCAAGTTCGGA
1 AATGTATAACCATACACAAATCAAGTTCGGA
* *
5364831 AATGTATAATCATATACAAATCCAA-TTCGG
1 AATGTATAACCATACACAAAT-CAAGTTCGG
5364861 CATCCTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 23 0.88
32 3 0.12
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (31 bp):
AATGTATAACCATACACAAATCAAGTTCGGA
Found at i:5365001 original size:184 final size:183
Alignment explanation
Indices: 5364683--5365289 Score: 919
Period size: 184 Copynumber: 3.3 Consensus size: 183
5364673 AAATCCAATT
** * *
5364683 TATTCATAAACAATTCAATATCGACAATATATAACCATGTATGAATTAATTTTTAGCAATGTACA
1 TATTCATAAACAATTCAATATCGACAATATATAACCATGTACAAATTAA-TTTCAGCAAGGTACA
* * *
5364748 ACCATATATGAATCAATTCAGCAACTTATATTCATATACCAAACTATTTGGCAATGTATAACCAT
65 ACCATATATGAATCAATTCAGCAACTTATA-TCATATAACAAACAATTCGGCAATGTATAACCAT
5364813 ACACGAATCAAGTTCGGAAATGTATAATCATATACAAATCCAATTCGGCATCCTA
129 ACACGAATCAAGTTCGGAAATGTATAATCATATACAAATCCAATTCGGCATCCTA
* *
5364868 TATTCATAAACAATTCAATATTGACAATATATAACCATGTACAAATTAATTTCAGCAAGGTACAG
1 TATTCATAAACAATTCAATATCGACAATATATAACCATGTACAAATTAATTTCAGCAAGGTACAA
*
5364933 CCATATATGAATCAATTCAGCAACTTATATCCATATAACAAACAATTCGACAATGTATAACCATA
66 CCATATATGAATCAATTCAGCAACTTATAT-CATATAACAAACAATTCGGCAATGTATAACCATA
* * * * *
5364998 CACGAATCAAGTTTGGAAATGTATCATCAAATAGAAATCCAATTCAGCATCCTA
130 CACGAATCAAGTTCGGAAATGTATAATCATATACAAATCCAATTCGGCATCCTA
* * *
5365052 TATTCATAAGCAATTCAATGTCGACAATATATAACCATGTACAAATTAATTTCAGTAAGGTACAA
1 TATTCATAAACAATTCAATATCGACAATATATAACCATGTACAAATTAATTTCAGCAAGGTACAA
* *
5365117 CCATATACGAATCAATTC-GACAACTTATATCATATAACAAACAATTCGGCAATGTATATCCATA
66 CCATATATGAATCAATTCAG-CAACTTATATCATATAACAAACAATTCGGCAATGTATAACCATA
* * * *
5365181 CAAGAATCAAGTTCGGCAATGTATAATCATATACAAATCCAATTCGACATCCTCG
130 CACGAATCAAGTTCGGAAATGTATAATCATATACAAATCCAATTCGGCATCCT-A
* * *
5365236 TATTCGTAAACAATTCAATATCGACAATATATAACAATGTACGAATTAATTTCA
1 TATTCATAAACAATTCAATATCGACAATATATAACCATGTACAAATTAATTTCA
5365290 AAAATGTATA
Statistics
Matches: 382, Mismatches: 37, Indels: 7
0.90 0.09 0.02
Matches are distributed among these distances:
183 79 0.21
184 257 0.67
185 46 0.12
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (183 bp):
TATTCATAAACAATTCAATATCGACAATATATAACCATGTACAAATTAATTTCAGCAAGGTACAA
CCATATATGAATCAATTCAGCAACTTATATCATATAACAAACAATTCGGCAATGTATAACCATAC
ACGAATCAAGTTCGGAAATGTATAATCATATACAAATCCAATTCGGCATCCTA
Found at i:5365161 original size:29 final size:29
Alignment explanation
Indices: 5365129--5365229 Score: 89
Period size: 31 Copynumber: 3.3 Consensus size: 29
5365119 ATATACGAAT
5365129 CAATTCGACAACT-TATATCATATAACAAA
1 CAATTCGACAA-TGTATATCATATAACAAA
* * * *
5365158 CAATTCGGCAATGTATATCCATACAAGAAT
1 CAATTCGACAATGTATAT-CATATAACAAA
*
5365188 CAAGTTCGGCAATGTATAATCATAT-ACAAA
1 CAA-TTCGACAATGTAT-ATCATATAACAAA
5365218 TCCAATTCGACA
1 --CAATTCGACA
5365230 TCCTCGTATT
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
28 1 0.02
29 15 0.26
30 14 0.24
31 23 0.40
32 5 0.09
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.27
Consensus pattern (29 bp):
CAATTCGACAATGTATATCATATAACAAA
Found at i:5367685 original size:291 final size:291
Alignment explanation
Indices: 5367161--5367742 Score: 1155
Period size: 291 Copynumber: 2.0 Consensus size: 291
5367151 GCAAAAAGTT
5367161 AAAAATTTATACAATGGCAAGGCAGTTGAAAATCGCAGGTTTTGACTGAAAGCACTTTCCACTCC
1 AAAAATTTATACAATGGCAAGGCAGTTGAAAATCGCAGGTTTTGACTGAAAGCACTTTCCACTCC
5367226 TGAAGTTACTACGTCAATGGATATAACCCAACTAGGAACCTTCATTATGAAATTAGGAGCAGCAA
66 TGAAGTTACTACGTCAATGGATATAACCCAACTAGGAACCTTCATTATGAAATTAGGAGCAGCAA
5367291 ATGCCAAAGCAACGTTGAATGTATATAATGAAATAATTAAGAAACCAGGTTCTCACCAAGCTTTT
131 ATGCCAAAGCAACGTTGAATGTATATAATGAAATAATTAAGAAACCAGGTTCTCACCAAGCTTTT
5367356 AAAGCTCTTAATTGTTACATTGAGGCTTACAAATATGCAATCTTATCATTTGAAATGGTATCTTC
196 AAAGCTCTTAATTGTTACATTGAGGCTTACAAATATGCAATCTTATCATTTGAAATGGTATCTTC
*
5367421 AGAATTGGTTGAAGATCCCCAAACTAAAAAC
261 AGAATTGGTTGAAGATCCCCAAACCAAAAAC
5367452 AAAAATTTATACAATGGCAAGGCAGTTGAAAATCGCAGGTTTTGACTGAAAGCACTTTCCACTCC
1 AAAAATTTATACAATGGCAAGGCAGTTGAAAATCGCAGGTTTTGACTGAAAGCACTTTCCACTCC
5367517 TGAAGTTACTACGTCAATGGATATAACCCAACTAGGAACCTTCATTATGAAATTAGGAGCAGCAA
66 TGAAGTTACTACGTCAATGGATATAACCCAACTAGGAACCTTCATTATGAAATTAGGAGCAGCAA
5367582 ATGCCAAAGCAACGTTGAATGTATATAATGAAATAATTAAGAAACCAGGTTCTCACCAAGCTTTT
131 ATGCCAAAGCAACGTTGAATGTATATAATGAAATAATTAAGAAACCAGGTTCTCACCAAGCTTTT
5367647 AAAGCTCTTAATTGTTACATTGAGGCTTACAAATATGCAATCTTATCATTTGAAATGGTATCTTC
196 AAAGCTCTTAATTGTTACATTGAGGCTTACAAATATGCAATCTTATCATTTGAAATGGTATCTTC
5367712 AGAATTGGTTGAAGATCCCCAAACCAAAAAC
261 AGAATTGGTTGAAGATCCCCAAACCAAAAAC
5367743 TATGATGTAG
Statistics
Matches: 290, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
291 290 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (291 bp):
AAAAATTTATACAATGGCAAGGCAGTTGAAAATCGCAGGTTTTGACTGAAAGCACTTTCCACTCC
TGAAGTTACTACGTCAATGGATATAACCCAACTAGGAACCTTCATTATGAAATTAGGAGCAGCAA
ATGCCAAAGCAACGTTGAATGTATATAATGAAATAATTAAGAAACCAGGTTCTCACCAAGCTTTT
AAAGCTCTTAATTGTTACATTGAGGCTTACAAATATGCAATCTTATCATTTGAAATGGTATCTTC
AGAATTGGTTGAAGATCCCCAAACCAAAAAC
Found at i:5376636 original size:26 final size:27
Alignment explanation
Indices: 5376571--5376667 Score: 126
Period size: 27 Copynumber: 3.7 Consensus size: 27
5376561 CTGCACCGAG
*
5376571 ACCC-CATAGGGTAAAATGATCGAAAT
1 ACCCTCATAGGGTAAAATGACCGAAAT
* *
5376597 ACCCTCATAAGGTAAAATGACCGACAT
1 ACCCTCATAGGGTAAAATGACCGAAAT
* *
5376624 A-CCTCATAGGGTAAAATTACCAAAAT
1 ACCCTCATAGGGTAAAATGACCGAAAT
*
5376650 ACCCTCAGAGGGTAAAAT
1 ACCCTCATAGGGTAAAAT
5376668 AACTGTTATA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
26 26 0.43
27 35 0.57
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.20
Consensus pattern (27 bp):
ACCCTCATAGGGTAAAATGACCGAAAT
Found at i:5382454 original size:212 final size:212
Alignment explanation
Indices: 5382087--5382513 Score: 845
Period size: 212 Copynumber: 2.0 Consensus size: 212
5382077 GAAATTAAAA
5382087 AATAACAAGATCAAAATTTGTAATTAAAAATATCTTCGTATTATAATCAAGAAGAGAATGGCGTA
1 AATAACAAGATCAAAATTTGTAATTAAAAATATCTTCGTATTATAATCAAGAAGAGAATGGCGTA
5382152 TCCAAATCAATTATATTTAGTTTTAGTTATTTTCTTATCTATCTTTTCGCTTTCTTCTTTGCCAA
66 TCCAAATCAATTATATTTAGTTTTAGTTATTTTCTTATCTATCTTTTCGCTTTCTTCTTTGCCAA
5382217 CAACTGCAATTATTCCAAAGGCTAATATTTCCCTTTCGGTACCTTCATCACAACTAGTAGAAAAT
131 CAACTGCAATTATTCCAAAGGCTAATATTTCCCTTTCGGTACCTTCATCACAACTAGTAGAAAAT
5382282 TTATGCAATGGCAAGGC
196 TTATGCAATGGCAAGGC
5382299 AATAACAAGATCAAAATTTGTAATTAAAAATATCTTCGTATTATAATCAAGAAGAGAATGGCGTA
1 AATAACAAGATCAAAATTTGTAATTAAAAATATCTTCGTATTATAATCAAGAAGAGAATGGCGTA
5382364 TCCAAATCAATTATATTTAGTTTTAGTTATTTTCTTATCTATCTTTTCGCTTTCTTCTTTGCCAA
66 TCCAAATCAATTATATTTAGTTTTAGTTATTTTCTTATCTATCTTTTCGCTTTCTTCTTTGCCAA
*
5382429 CAACTGCAATTATTCCAAAGGCTAATATTTCCCTTTCGGTACCTTCATCACAACTAGTAGAACAT
131 CAACTGCAATTATTCCAAAGGCTAATATTTCCCTTTCGGTACCTTCATCACAACTAGTAGAAAAT
5382494 TTATGCAATGGCAAGGC
196 TTATGCAATGGCAAGGC
5382511 AAT
1 AAT
5382514 TCAAAATCGC
Statistics
Matches: 214, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
212 214 1.00
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.37
Consensus pattern (212 bp):
AATAACAAGATCAAAATTTGTAATTAAAAATATCTTCGTATTATAATCAAGAAGAGAATGGCGTA
TCCAAATCAATTATATTTAGTTTTAGTTATTTTCTTATCTATCTTTTCGCTTTCTTCTTTGCCAA
CAACTGCAATTATTCCAAAGGCTAATATTTCCCTTTCGGTACCTTCATCACAACTAGTAGAAAAT
TTATGCAATGGCAAGGC
Found at i:5382989 original size:106 final size:106
Alignment explanation
Indices: 5382803--5383011 Score: 364
Period size: 106 Copynumber: 2.0 Consensus size: 106
5382793 TATAGGTCCT
* *
5382803 GAAATTGCTAATTGCGAAAAGGAACTGATTAACGCAAAGGTTCAAGCACCTCGACTCCTTGCTGG
1 GAAATTGCTAATTGCGAAAAGGAACTGATTAACGCAAAGGTTCAAGCACATCAACTCCTTGCTGG
* *
5382868 GAATCGATTTGTGAAATATTATGTCTCAATGGGATATGCCC
66 AAATCGATTTATGAAATATTATGTCTCAATGGGATATGCCC
* *
5382909 GAAATTGCTAATTGTGAAAAGGAACTGATTAACGCAAAGGTTCAAGCACATCAACTCCTTGGTGG
1 GAAATTGCTAATTGCGAAAAGGAACTGATTAACGCAAAGGTTCAAGCACATCAACTCCTTGCTGG
5382974 AAATCGATTTATGAAATATTATGTCTCAATGGGATATG
66 AAATCGATTTATGAAATATTATGTCTCAATGGGATATG
5383012 GGATAACATC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 97 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (106 bp):
GAAATTGCTAATTGCGAAAAGGAACTGATTAACGCAAAGGTTCAAGCACATCAACTCCTTGCTGG
AAATCGATTTATGAAATATTATGTCTCAATGGGATATGCCC
Found at i:5394563 original size:14 final size:14
Alignment explanation
Indices: 5394544--5394579 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
5394534 TTTCCTTAAT
5394544 TGCCTTCTCCGTAA
1 TGCCTTCTCCGTAA
5394558 TGCCTTCTCCGTAA
1 TGCCTTCTCCGTAA
5394572 TGCCTTCT
1 TGCCTTCT
5394580 TTTAATTCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.11, C:0.36, G:0.14, T:0.39
Consensus pattern (14 bp):
TGCCTTCTCCGTAA
Found at i:5394736 original size:27 final size:27
Alignment explanation
Indices: 5394705--5394760 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
5394695 CAACTTTAAG
5394705 AAAGAAGAATGAGTTATTTGTACAGAA
1 AAAGAAGAATGAGTTATTTGTACAGAA
*
5394732 AAAGAATAATGAGTTATTTGTACAGAA
1 AAAGAAGAATGAGTTATTTGTACAGAA
5394759 AA
1 AA
5394761 GCTAGGCAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.50, C:0.04, G:0.20, T:0.27
Consensus pattern (27 bp):
AAAGAAGAATGAGTTATTTGTACAGAA
Found at i:5397646 original size:24 final size:24
Alignment explanation
Indices: 5397603--5397675 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
5397593 AAAACCCGTA
* *
5397603 ATCGGGAAGCTCATGCGAGCCAAT
1 ATCGGGAAGCTCAGGAGAGCCAAT
* *
5397627 ATCGGGAAGCTCCGGAGAGCCATTAA
1 ATCGGGAAGCTCAGGAGAGCCA--AT
* *
5397653 AT-GGGAAGCTTATGAGAGCCAAT
1 ATCGGGAAGCTCAGGAGAGCCAAT
5397676 TATCAGAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
23 1 0.03
24 19 0.49
25 16 0.41
26 3 0.08
ACGTcount: A:0.32, C:0.21, G:0.30, T:0.18
Consensus pattern (24 bp):
ATCGGGAAGCTCAGGAGAGCCAAT
Found at i:5403358 original size:641 final size:638
Alignment explanation
Indices: 5402137--5403363 Score: 1511
Period size: 641 Copynumber: 1.9 Consensus size: 638
5402127 CCCTAAATCA
5402137 TAATTTCATCAAAATTCCCTTTACAAAAGTTGTTTATCTATCAACAACCATTCATTTTCTAACAT
1 TAATTTCATCAAAATTCCCTTTACAAAAGTTGTTTATCTATCAACAACCATTCATTTTCTAACAT
**
5402202 AAAACTTCATAATTCATGTATACTCATCCATAGAAAAACCTTAACACTTTAATAACTTTGCAAAT
66 AAAACTTCATAATTCAACTATACTCATCCATAGAAAAACCTTAACACTTTAATAACTTTGCAAAT
* * ** * *
5402267 TAATCCTCGAGATAGCTAGATTAAGCTATTACGATCTCGAAAACATAAAAATCATTAAAAACGAG
131 TAATCCCCGAGATAGCTAAATTAAGCTAAAACGATCTCGAAAACATAAAAATCAGTAAAAAAGAG
* * * * * ** ***
5402332 ACAATGATACTTACCCAATTTAGCCAAATAAGCTTGCTTGAACTTAGGTTTTCATGGCTAGGGTT
196 ACAATAATACTCACCCAATTAAGCAAAATAAGCTT-CTTGAACTTAAGTCATCAAAACTAGGGTT
* * * * **
5402397 TCCATCTTTCTAATTTAGGAAAGATGATAATATTATGGTATTTTGTTTTATTTTATTATTTATCA
260 TCCATCTTTCTAATTTAGGAAAAATGATAAAATGATGGTAATTTGAATTATTTTATTATTTATCA
* * * * * *
5402462 TCTTTATTTATTTCATCTTTCCAATTTCATCCTTTTCTTTATTAAATTTTCCAATGATGAATCAT
325 TCATTATTTA-TTCATCTTTCCAAATTAACCCTTTACTTTATTAAATTTTCCAATGATGAATAAT
* * *
5402527 CATACTTATCTACTAACTCCTCTTAATGGTCTATTTGCCATATAAGGACCTCCAATTTTGAATTC
389 CATACTTATATACTAACTCCTCTAAATGGTCTATTTCCCATATAAGGACCTCCAATTTTGAATTC
* * * * **
5402592 CATAGCTATTTGATCCCTTTAGCTATTAGAATCCAACTTTTGCACTTTATGCAATTTGGTCTTTT
454 CATAGCTAATTGATACCTTTAGCTACTAGAATCCAACTTTTACACTTTATGCAATTTGGTCCATT
* *
5402657 TCATCAAATTAAACATGTAATCGGTAAAAAAATTTTACGAAATTTTCATACGACATTTCTATCAT
519 TCATCAAATTAAACATGTAATCAGT-AAAAAATTTTACGAAATTTTCATACAACATTTCTATCAT
5402722 AATGCAGACCATGAAATAAAATTAAAATAAGTTTCCATCTAGACTCAAATTTGTGG
583 AATGCAGACCATGAAATAAAATTAAAATAAGTTTCCATCTAGACTCAAATTTGTGG
* * * * *
5402778 TAATTTCATCAAAATTCTCTTTACAAAGGTTGTTTATCTATCACCAACCTTTCATTTTCTACCAT
1 TAATTTCATCAAAATTCCCTTTACAAAAGTTGTTTATCTATCAACAACCATTCATTTTCTAACAT
* * * **
5402843 AGAACTTCATAATTCAACTATATTCATCCATGGAAAAATCC-TAACACTTTAATAGTTTTGCAAA
66 AAAACTTCATAATTCAACTATACTCATCCATAGAAAAA-CCTTAACACTTTAATAACTTTGCAAA
** * * *
5402907 TTAATCCCCGAGATAGCTAAATTAAGCTAAAATTATCTTGGAAACATAAAAATCAGTAAAAAATA
130 TTAATCCCCGAGATAGCTAAATTAAGCTAAAACGATCTCGAAAACATAAAAATCAGTAAAAAAGA
* ** * * *
5402972 GGATAATAATACTCACTTAATTAATCAAAATAAGCTT-TTCTATCTTCAAG-CATCAAAACTAGG
195 -GACAATAATACTCACCCAATTAAGCAAAATAAGCTTCTT-GAACTT-AAGTCATCAAAACTAGG
* * * ** *
5403035 GTTTCTATGTATTTTGTTTTAGGAAAAATGATGAAAATGACT-TTAATTT-AATTA-TTTATTTC
257 GTTTCCATCT-TTCTAATTTAGGAAAAATGAT-AAAATGA-TGGTAATTTGAATTATTTTA-TT-
* * *
5403097 TTTTATCATCATTATTTA-TCATCTTTTCAAATTAACCCTTTACTTTTTTTAAA-TTTCCAATGA
317 ATTTATCATCATTATTTATTCATCTTTCCAAATTAACCCTTTAC-TTTATTAAATTTTCCAATGA
* * *
5403160 TGAATAATCATCCTTATATACTAACTCCTCTAAATGGTCTATTTCCCATATAAGGTCCTTCAATT
381 TGAATAATCATACTTATATACTAACTCCTCTAAATGGTCTATTTCCCATATAAGGACCTCCAATT
* * *
5403225 TTGAATTCCATAGCTAATTGGTACCTTTAGCTACTAGAATTCAACTTTTACATTTTATGCAATTT
446 TTGAATTCCATAGCTAATTGATACCTTTAGCTACTAGAATCCAACTTTTACACTTTATGCAATTT
* * * *
5403290 GTTCCATTTCATCAAATTAAACATGTAATCAGT-AAAATTTCTTAAC-AAATTTTTCATGCAATA
511 GGTCCATTTCATCAAATTAAACATGTAATCAGTAAAAAATT-TT-ACGAAA-TTTTCATACAACA
5403353 TTTCTATCATA
573 TTTCTATCATA
5403364 CTATAGACTA
Statistics
Matches: 492, Mismatches: 81, Indels: 26
0.82 0.14 0.04
Matches are distributed among these distances:
639 6 0.01
640 7 0.01
641 390 0.79
642 62 0.13
643 26 0.05
644 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (638 bp):
TAATTTCATCAAAATTCCCTTTACAAAAGTTGTTTATCTATCAACAACCATTCATTTTCTAACAT
AAAACTTCATAATTCAACTATACTCATCCATAGAAAAACCTTAACACTTTAATAACTTTGCAAAT
TAATCCCCGAGATAGCTAAATTAAGCTAAAACGATCTCGAAAACATAAAAATCAGTAAAAAAGAG
ACAATAATACTCACCCAATTAAGCAAAATAAGCTTCTTGAACTTAAGTCATCAAAACTAGGGTTT
CCATCTTTCTAATTTAGGAAAAATGATAAAATGATGGTAATTTGAATTATTTTATTATTTATCAT
CATTATTTATTCATCTTTCCAAATTAACCCTTTACTTTATTAAATTTTCCAATGATGAATAATCA
TACTTATATACTAACTCCTCTAAATGGTCTATTTCCCATATAAGGACCTCCAATTTTGAATTCCA
TAGCTAATTGATACCTTTAGCTACTAGAATCCAACTTTTACACTTTATGCAATTTGGTCCATTTC
ATCAAATTAAACATGTAATCAGTAAAAAATTTTACGAAATTTTCATACAACATTTCTATCATAAT
GCAGACCATGAAATAAAATTAAAATAAGTTTCCATCTAGACTCAAATTTGTGG
Found at i:5417420 original size:17 final size:17
Alignment explanation
Indices: 5417394--5417443 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
5417384 TCAATCTCAG
5417394 ATTT-TGATACCCATAT
1 ATTTCTGATACCCATAT
5417410 ATTTCTGATACCCATAT
1 ATTTCTGATACCCATAT
* * *
5417427 CTTTCTAATACTCATAT
1 ATTTCTGATACCCATAT
5417444 CTTTGACTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 4 0.13
17 26 0.87
ACGTcount: A:0.30, C:0.22, G:0.04, T:0.44
Consensus pattern (17 bp):
ATTTCTGATACCCATAT
Found at i:5417444 original size:17 final size:17
Alignment explanation
Indices: 5417400--5417447 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
5417390 TCAGATTTTG
* *
5417400 ATACCCATATATTTCTG
1 ATACCCATATCTTTCTA
5417417 ATACCCATATCTTTCTA
1 ATACCCATATCTTTCTA
*
5417434 ATACTCATATCTTT
1 ATACCCATATCTTT
5417448 GACTTTCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.29, C:0.25, G:0.02, T:0.44
Consensus pattern (17 bp):
ATACCCATATCTTTCTA
Found at i:5420802 original size:16 final size:17
Alignment explanation
Indices: 5420769--5420818 Score: 75
Period size: 17 Copynumber: 2.9 Consensus size: 17
5420759 TCTCAGATTT
5420769 TGATACCCATATCTTT-
1 TGATACCCATATCTTTC
*
5420785 TCGATAACCATATCTTTC
1 T-GATACCCATATCTTTC
5420803 TGATACCCATATCTTT
1 TGATACCCATATCTTT
5420819 AACTTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 1 0.03
17 28 0.93
18 1 0.03
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:5421771 original size:29 final size:29
Alignment explanation
Indices: 5421730--5421789 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
5421720 TGGCTAGCCC
*
5421730 GTGTGATCCACACGGCCAAGAACACGCCT
1 GTGTGATCCACACGACCAAGAACACGCCT
* *
5421759 GTGTGATCTACACGACCAAGCACACGCCT
1 GTGTGATCCACACGACCAAGAACACGCCT
5421788 GT
1 GT
5421790 CTGGCCCACC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.27, C:0.33, G:0.23, T:0.17
Consensus pattern (29 bp):
GTGTGATCCACACGACCAAGAACACGCCT
Found at i:5429518 original size:24 final size:24
Alignment explanation
Indices: 5429491--5429574 Score: 91
Period size: 25 Copynumber: 3.4 Consensus size: 24
5429481 GAGTCGTTAA
*
5429491 CGAGAAGCTCATATGAGCCAATAT
1 CGAGAAGCTCATAAGAGCCAATAT
*
5429515 CGAGAAGCTC-TGAAGAGCCATTAAT
1 CGAGAAGCTCAT-AAGAGCCAAT-AT
*
5429540 CGAGAAGCTCATAAGAGTCAATTAT
1 CGAGAAGCTCATAAGAGCCAA-TAT
5429565 C-AGGAAGCTC
1 CGA-GAAGCTC
5429575 CGGAGAGCCA
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
23 1 0.02
24 19 0.37
25 29 0.57
26 2 0.04
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (24 bp):
CGAGAAGCTCATAAGAGCCAATAT
Found at i:5429547 original size:25 final size:25
Alignment explanation
Indices: 5429470--5429549 Score: 85
Period size: 24 Copynumber: 3.3 Consensus size: 25
5429460 CATGACATGG
* * *
5429470 GAAGCTCTGGAGAGTCGTTAA-CGA
1 GAAGCTCTGAAGAGCCATTAATCGA
* *
5429494 GAAGCTCAT-ATGAGCCAAT-ATCGA
1 GAAGCTC-TGAAGAGCCATTAATCGA
5429518 GAAGCTCTGAAGAGCCATTAATCGA
1 GAAGCTCTGAAGAGCCATTAATCGA
5429543 GAAGCTC
1 GAAGCTC
5429550 ATAAGAGTCA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
23 2 0.04
24 30 0.67
25 13 0.29
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (25 bp):
GAAGCTCTGAAGAGCCATTAATCGA
Found at i:5429555 original size:25 final size:25
Alignment explanation
Indices: 5429487--5429556 Score: 92
Period size: 24 Copynumber: 2.9 Consensus size: 25
5429477 TGGAGAGTCG
*
5429487 TTAA-CGAGAAGCTCATATGAGCCA
1 TTAATCGAGAAGCTCATAAGAGCCA
*
5429511 AT-ATCGAGAAGCTC-TGAAGAGCCA
1 TTAATCGAGAAGCTCAT-AAGAGCCA
5429535 TTAATCGAGAAGCTCATAAGAG
1 TTAATCGAGAAGCTCATAAGAG
5429557 TCAATTATCA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 2 0.05
24 19 0.49
25 17 0.44
26 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.20
Consensus pattern (25 bp):
TTAATCGAGAAGCTCATAAGAGCCA
Found at i:5429583 original size:50 final size:47
Alignment explanation
Indices: 5429469--5429599 Score: 145
Period size: 50 Copynumber: 2.7 Consensus size: 47
5429459 CCATGACATG
* * *
5429469 GGAAGCTCTGGAGAGTCGTTAACGAGAAGCTCATATGAGCCAATATC
1 GGAAGCTCTGGAGAGCCATTAACGAGAAGCTCATAAGAGCCAATATC
* *
5429516 GAGAAGCTCTGAAGAGCCATTAATCGAGAAGCTCATAAGAGTCAATTATC
1 G-GAAGCTCTGGAGAGCCATTAA-CGAGAAGCTCATAAGAGCCAA-TATC
* * *
5429566 AGGAAGCTCCGGAGAGCCAAATAACGGGAAGCTC
1 -GGAAGCTCTGGAGAGCC-ATTAACGAGAAGCTC
5429600 GTGGGAGCCT
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
47 1 0.01
48 18 0.26
49 19 0.27
50 27 0.39
51 5 0.07
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (47 bp):
GGAAGCTCTGGAGAGCCATTAACGAGAAGCTCATAAGAGCCAATATC
Found at i:5434626 original size:13 final size:13
Alignment explanation
Indices: 5434610--5434635 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5434600 ATATGTATCA
5434610 TGATTGTTTTGGT
1 TGATTGTTTTGGT
5434623 TGATTGTTTTGGT
1 TGATTGTTTTGGT
5434636 ATGGATCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (13 bp):
TGATTGTTTTGGT
Found at i:5436558 original size:20 final size:21
Alignment explanation
Indices: 5436519--5436563 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
5436509 AAGTGCAATT
** *
5436519 CTTCTAAAGGTTAATGTTCCC
1 CTTCTAAAGGTTAAAATTCCA
5436540 CTTCTAAA-GTTAAAATTCCA
1 CTTCTAAAGGTTAAAATTCCA
5436560 CTTC
1 CTTC
5436564 CAGTAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (21 bp):
CTTCTAAAGGTTAAAATTCCA
Found at i:5438942 original size:1 final size:1
Alignment explanation
Indices: 5438936--5438961 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
5438926 ATGGATTTGA
5438936 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
5438962 GCTTGGCCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:5443280 original size:31 final size:31
Alignment explanation
Indices: 5443245--5443303 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
5443235 TAATCCAATA
*
5443245 ACTTAAATAAAAAATTTTGAATAGTTTATTG
1 ACTTAAACAAAAAATTTTGAATAGTTTATTG
* *
5443276 ACTTAAACGAAAATTTTTGAATAGTTTA
1 ACTTAAACAAAAAATTTTGAATAGTTTA
5443304 GTACTTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (31 bp):
ACTTAAACAAAAAATTTTGAATAGTTTATTG
Found at i:5443310 original size:30 final size:31
Alignment explanation
Indices: 5443245--5443310 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
5443235 TAATCCAATA
* *
5443245 ACTTAAATAAAAAATTTTGAATAGTTTATTG
1 ACTTAAACAAAAAATTTTGAATAGTTTAGTG
* *
5443276 ACTTAAACGAAAATTTTTGAATAGTTTAGT-
1 ACTTAAACAAAAAATTTTGAATAGTTTAGTG
5443306 ACTTA
1 ACTTA
5443311 TTTTATAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 5 0.16
31 26 0.84
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.41
Consensus pattern (31 bp):
ACTTAAACAAAAAATTTTGAATAGTTTAGTG
Found at i:5445394 original size:18 final size:18
Alignment explanation
Indices: 5445371--5445408 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
5445361 ATTTCATACA
5445371 ATCCTTTCTTTTATATAT
1 ATCCTTTCTTTTATATAT
*
5445389 ATCCTTTGTTTTATATAT
1 ATCCTTTCTTTTATATAT
5445407 AT
1 AT
5445409 AAGGAGAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.13, G:0.03, T:0.61
Consensus pattern (18 bp):
ATCCTTTCTTTTATATAT
Found at i:5446141 original size:9 final size:9
Alignment explanation
Indices: 5446129--5446176 Score: 53
Period size: 10 Copynumber: 5.2 Consensus size: 9
5446119 CATTATGTTC
5446129 TTATAATTT
1 TTATAATTT
5446138 TTATAATTT
1 TTATAATTT
*
5446147 TGTATATTTT
1 T-TATAATTT
*
5446157 TTAATATTTT
1 TT-ATAATTT
5446167 TTA-AATTT
1 TTATAATTT
5446175 TT
1 TT
5446177 TAAATTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
8 6 0.17
9 12 0.34
10 17 0.49
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (9 bp):
TTATAATTT
Found at i:5446157 original size:10 final size:9
Alignment explanation
Indices: 5446129--5446178 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
5446119 CATTATGTTC
*
5446129 TTATAATTT
1 TTATATTTT
5446138 TTATAATTTT
1 TTAT-ATTTT
*
5446148 GTATATTTT
1 TTATATTTT
5446157 TTAATATTTT
1 TT-ATATTTT
*
5446167 TTAAATTTT
1 TTATATTTT
5446176 TTA
1 TTA
5446179 AATTATTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
9 19 0.54
10 16 0.46
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (9 bp):
TTATATTTT
Found at i:5446157 original size:19 final size:18
Alignment explanation
Indices: 5446130--5446182 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
5446120 ATTATGTTCT
*
5446130 TATAATTTTTATAATTTTG
1 TATATTTTTTA-AATTTTG
*
5446149 TATATTTTTTAATATTTTT
1 TATATTTTTTAA-ATTTTG
*
5446168 TAAATTTTTTAAATT
1 TATATTTTTTAAATT
5446183 ATTTGAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.13
19 26 0.87
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (18 bp):
TATATTTTTTAAATTTTG
Found at i:5446177 original size:9 final size:9
Alignment explanation
Indices: 5446135--5446182 Score: 60
Period size: 9 Copynumber: 5.1 Consensus size: 9
5446125 GTTCTTATAA
5446135 TTTTTATAAT
1 TTTTTA-AAT
* *
5446145 TTTGTATAT
1 TTTTTAAAT
5446154 TTTTTAATAT
1 TTTTTAA-AT
5446164 TTTTTAAAT
1 TTTTTAAAT
5446173 TTTTTAAAT
1 TTTTTAAAT
5446182 T
1 T
5446183 ATTTGAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 19 0.58
10 14 0.42
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:5447601 original size:21 final size:21
Alignment explanation
Indices: 5447577--5447619 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
5447567 TTTTGCCTAA
*
5447577 AATATGAATTGGATTGAATTG
1 AATATGAATTGGATTAAATTG
*
5447598 AATATGAATTGTATTAAATTG
1 AATATGAATTGGATTAAATTG
5447619 A
1 A
5447620 GTTAAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.40
Consensus pattern (21 bp):
AATATGAATTGGATTAAATTG
Found at i:5448098 original size:25 final size:25
Alignment explanation
Indices: 5448069--5448127 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
5448059 AGCTCTTATG
5448069 AGCTTCCCGATTATGACTCTTCGTA
1 AGCTTCCCGATTATGACTCTTCGTA
*
5448094 AGCTTCCCGATTATGACTCTTCGTG
1 AGCTTCCCGATTATGACTCTTCGTA
5448119 AGCTTCCCG
1 AGCTTCCCG
5448128 TTAATTGGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.17, C:0.31, G:0.19, T:0.34
Consensus pattern (25 bp):
AGCTTCCCGATTATGACTCTTCGTA
Found at i:5448309 original size:25 final size:26
Alignment explanation
Indices: 5448281--5448336 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
5448271 CAGTTATAAA
*
5448281 GCTCGA-ATAAGTTTCCTGTTACATG
1 GCTCGACATAAGCTTCCTGTTACATG
* *
5448306 GCTC-ACATGAGCTTCCTGTTATATG
1 GCTCGACATAAGCTTCCTGTTACATG
5448331 GCTCGA
1 GCTCGA
5448337 GAGAGTGCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 24 0.92
26 1 0.04
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.34
Consensus pattern (26 bp):
GCTCGACATAAGCTTCCTGTTACATG
Found at i:5449943 original size:13 final size:13
Alignment explanation
Indices: 5449909--5449945 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
5449899 ATTTCATTTG
5449909 AAATAATATTTTT
1 AAATAATATTTTT
*
5449922 -AATTA-ATTTTT
1 AAATAATATTTTT
5449933 AAATAATATTTTT
1 AAATAATATTTTT
5449946 TACTATCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
AAATAATATTTTT
Found at i:5450688 original size:20 final size:20
Alignment explanation
Indices: 5450663--5450712 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
5450653 TATCGATCCA
*
5450663 GTATCGATACT-TTTCTTAAG
1 GTATCGATA-TATTTCCTAAG
5450683 GTATCGATATATTTCCTAAG
1 GTATCGATATATTTCCTAAG
*
5450703 GCATCGATAT
1 GTATCGATAT
5450713 TCCTGCTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (20 bp):
GTATCGATATATTTCCTAAG
Found at i:5455309 original size:7 final size:7
Alignment explanation
Indices: 5455297--5455324 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
5455287 TACTAGTTAA
5455297 TATTATT
1 TATTATT
5455304 TATTATT
1 TATTATT
5455311 TATTATT
1 TATTATT
5455318 TATTATT
1 TATTATT
5455325 ACTACTAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TATTATT
Found at i:5459942 original size:30 final size:30
Alignment explanation
Indices: 5459907--5459963 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
5459897 GGTGAGATGA
*
5459907 GGAGGGAATAAAAGTTTTAGGGAAAAAATG
1 GGAGGGAATAAAAATTTTAGGGAAAAAATG
* *
5459937 GGAGGGAGTAAAAATTTTGGGGAAAAA
1 GGAGGGAATAAAAATTTTAGGGAAAAA
5459964 TAAAAGGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.35, T:0.19
Consensus pattern (30 bp):
GGAGGGAATAAAAATTTTAGGGAAAAAATG
Found at i:5460559 original size:30 final size:29
Alignment explanation
Indices: 5460483--5460567 Score: 82
Period size: 30 Copynumber: 2.9 Consensus size: 29
5460473 CTTTAAAATC
* *
5460483 TTAAAAAATTCTAAAAGTTAATAAAACTT
1 TTAAAAAATTATAAAAATTAATAAAACTT
* * *
5460512 TCCAAATAA-TATGAAAATTAATACAAACTT
1 T-TAAAAAATTATAAAAATTAATA-AAACTT
* *
5460542 TTAAAAAATTTTAAAAATCAATAAAA
1 TTAAAAAATTATAAAAATTAATAAAA
5460568 TTAACAGAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
29 20 0.47
30 23 0.53
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (29 bp):
TTAAAAAATTATAAAAATTAATAAAACTT
Found at i:5465071 original size:15 final size:17
Alignment explanation
Indices: 5465051--5465085 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
5465041 GCACACGGCA
5465051 GTGTGG-AC-CGCCCAT
1 GTGTGGCACACGCCCAT
5465066 GTGTGGCACACGCCCAT
1 GTGTGGCACACGCCCAT
5465083 GTG
1 GTG
5465086 GCCACCCGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 2 0.11
17 10 0.56
ACGTcount: A:0.14, C:0.31, G:0.34, T:0.20
Consensus pattern (17 bp):
GTGTGGCACACGCCCAT
Found at i:5469108 original size:42 final size:43
Alignment explanation
Indices: 5469051--5469151 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 43
5469041 TGAGATTTAA
* *
5469051 GTGTAAGACCATGTCTAAGATATTGGCATCG-TATATGATTTT
1 GTGTAAGACCATGTCTAAGACAATGGCATCGATATATGATTTT
* * * **
5469093 GTGTAAGACCCTGTCTAGGACAATGGCATCGATATTTGATTAC
1 GTGTAAGACCATGTCTAAGACAATGGCATCGATATATGATTTT
* *
5469136 ATGTAAGACCACGTCT
1 GTGTAAGACCATGTCT
5469152 GGGACGTTGG
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 27 0.56
43 21 0.44
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (43 bp):
GTGTAAGACCATGTCTAAGACAATGGCATCGATATATGATTTT
Found at i:5469163 original size:43 final size:42
Alignment explanation
Indices: 5469008--5469164 Score: 113
Period size: 43 Copynumber: 3.7 Consensus size: 42
5468998 GGTGACTTTG
* * * * *
5469008 TGTAAGACCACATCTGGGACGTTAGCATCGAT-TTGAGATTTAA
1 TGTAAGACCACGTCTAGGACATTGGCATCGATATT-TGA-TTAA
* * * * **
5469051 GTGTAAGACCATGTCTAAGATATTGGCATCG-TATATGATTTTG
1 -TGTAAGACCACGTCTAGGACATTGGCATCGATATTTGA-TTAA
*
5469094 TGTAAGACC-CTGTCTAGGACAATGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTAGGACATTGGCATCGATATTTGATTA-A
* *
5469137 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTAGGACATTGGCAT
5469165 TATACGAGCT
Statistics
Matches: 87, Mismatches: 21, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
42 27 0.31
43 35 0.40
44 25 0.29
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTAGGACATTGGCATCGATATTTGATTAA
Found at i:5480698 original size:37 final size:36
Alignment explanation
Indices: 5480640--5480739 Score: 103
Period size: 37 Copynumber: 2.7 Consensus size: 36
5480630 ATCTAACTGA
* *
5480640 AACACGCCAA-TCACTCATAAGAGCTAAACCACCAGAT
1 AACACGCCAACT-GCTC-TAAGAGCTAAACAACCAGAT
* * *
5480677 AACACGTCAACTGCTCGTAAGAGCTAATCAACCCGAT
1 AACACGCCAACTGCTC-TAAGAGCTAAACAACCAGAT
*
5480714 AACACGCCAATTGCTCTGAAGAGCTA
1 AACACGCCAACTGCTCT-AAGAGCTA
5480740 GTCCAATCAA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
36 1 0.02
37 51 0.96
38 1 0.02
ACGTcount: A:0.38, C:0.30, G:0.15, T:0.17
Consensus pattern (36 bp):
AACACGCCAACTGCTCTAAGAGCTAAACAACCAGAT
Found at i:5482312 original size:103 final size:104
Alignment explanation
Indices: 5482068--5482333 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
5482058 GTTGTACATA
** *
5482068 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
5482133 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
5482172 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
5482236 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
5482275 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
5482334 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:5489795 original size:103 final size:104
Alignment explanation
Indices: 5489560--5489825 Score: 435
Period size: 103 Copynumber: 2.6 Consensus size: 104
5489550 GTTGTACATA
** *
5489560 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
5489625 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
5489664 GAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
5489729 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
5489767 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
5489826 AATAACGGTT
Statistics
Matches: 151, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
103 84 0.56
104 67 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:5496498 original size:40 final size:42
Alignment explanation
Indices: 5496440--5496531 Score: 116
Period size: 40 Copynumber: 2.2 Consensus size: 42
5496430 AAAAATTATA
* * * *
5496440 TTTAATACAATAAGATATTTATTATAGTTAT-TTGGTG-TTT
1 TTTAATATAATAAAATATTTATTATAGTTATGGTAGTGTTTT
* *
5496480 TTTAATATAATAAAATATTTTTTATATTTATGGTAGTGTTTT
1 TTTAATATAATAAAATATTTATTATAGTTATGGTAGTGTTTT
5496522 TTTAATATAA
1 TTTAATATAA
5496532 ATCATTTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
40 27 0.61
41 4 0.09
42 13 0.30
ACGTcount: A:0.35, C:0.01, G:0.10, T:0.54
Consensus pattern (42 bp):
TTTAATATAATAAAATATTTATTATAGTTATGGTAGTGTTTT
Found at i:5502835 original size:62 final size:62
Alignment explanation
Indices: 5502670--5502841 Score: 163
Period size: 62 Copynumber: 2.7 Consensus size: 62
5502660 ACAAGTTTAA
* * * ** *
5502670 CCCTCTAATATTTACATATTCTATTAATTTAATTCTAAA-TATAAAATAATAA-TAATAAATGTA
1 CCCTC-AATATTTACAAAATATATTTCTTTAATT-TAAATTCTAAAA-AA-AAGTAATAAATGTA
5502733 G
62 G
* * *
5502734 CCCTCAATCTTTACAAAATTTATTTCTTTAATTTAAATTCTAAAAAAAAGTAATAAATTTAG
1 CCCTCAATATTTACAAAATATATTTCTTTAATTTAAATTCTAAAAAAAAGTAATAAATGTAG
* *
5502796 CCCTCAATATTTACAAAA-AT-TTTCAATTTAGTTTTAATTCTAAAAA
1 CCCTCAATATTTACAAAATATATTTC--TTTAATTTAAATTCTAAAAA
5502842 TTTATCATCT
Statistics
Matches: 92, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
60 4 0.04
61 3 0.03
62 52 0.57
63 28 0.30
64 5 0.05
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.41
Consensus pattern (62 bp):
CCCTCAATATTTACAAAATATATTTCTTTAATTTAAATTCTAAAAAAAAGTAATAAATGTAG
Found at i:5506710 original size:33 final size:30
Alignment explanation
Indices: 5506673--5506749 Score: 82
Period size: 33 Copynumber: 2.5 Consensus size: 30
5506663 AATGGTCAAT
* *
5506673 TTTCAAATTTGGTCCCTCTACTTTATAGTTAAA
1 TTTCAAATTTGATCCCTATAC--TAT-GTTAAA
*
5506706 TTTCAATTTTGATCCCTATACTATGTTAAA
1 TTTCAAATTTGATCCCTATACTATGTTAAA
* *
5506736 TTTTAGATTTGATC
1 TTTCAAATTTGATC
5506750 TTTATAATTG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
30 17 0.45
31 3 0.08
33 18 0.47
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.48
Consensus pattern (30 bp):
TTTCAAATTTGATCCCTATACTATGTTAAA
Found at i:5511557 original size:12 final size:12
Alignment explanation
Indices: 5511540--5511564 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5511530 CAAATGGATC
5511540 ATTTCCATTTTT
1 ATTTCCATTTTT
5511552 ATTTCCATTTTT
1 ATTTCCATTTTT
5511564 A
1 A
5511565 GAAACCTACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTTCCATTTTT
Found at i:5514597 original size:27 final size:28
Alignment explanation
Indices: 5514551--5514607 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
5514541 CTTAGGTTAA
*
5514551 AATTTTTTAAATATAATATTTAAAT-TT
1 AATTTTTTAAATATAATATTCAAATATT
*
5514578 AATTTTTTAACTA-AATTATTCAAATATT
1 AATTTTTTAAATATAA-TATTCAAATATT
5514606 AA
1 AA
5514608 ATATAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 2 0.08
27 20 0.77
28 4 0.15
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (28 bp):
AATTTTTTAAATATAATATTCAAATATT
Found at i:5517573 original size:162 final size:162
Alignment explanation
Indices: 5517281--5517576 Score: 459
Period size: 162 Copynumber: 1.8 Consensus size: 162
5517271 CAGGAGTGCT
* * * *
5517281 GAATTAGAGGCAATTGTTGAAGAGAGTAGTGAGGTTGAGAAGGTCAAGTGTGTCGTTACTTCACA
1 GAATTAGAGGCAATTGTTGAAGACAGTAGTGAGGTTGAGAAGGCCAAGTATGTCGCTACTTCACA
* * *
5517346 ACAAGAAGCCCCCTCGAGGAGGAGCAGACGCAAGACTGTGGCTCTTACCGCTCTAGCTTCCGATT
66 ACAAGAAGCCCCCTCGAGGAGGAGCAGACGCAAAACTGTGGCTCTTACCGCTCCAGCTGCCGATT
5517411 TGGCATCGGTTGGAGGAAAGGGCTCGACTGAA
131 TGGCATCGGTTGGAGGAAAGGGCTCGACTGAA
* * *
5517443 GAATTGGATGCAATTGTTGAAGACAGTAGTGAGGTTGAGAGGGCCAAGTATG-CAGCTACTTCAC
1 GAATTAGAGGCAATTGTTGAAGACAGTAGTGAGGTTGAGAAGGCCAAGTATGTC-GCTACTTCAC
* * *
5517507 AACAAGAAGCCCCCTCGAGGAGGGGCAGACGCAAAACTGTGGGTCTTACTGCTCCAGCTGCCGAT
65 AACAAGAAGCCCCCTCGAGGAGGAGCAGACGCAAAACTGTGGCTCTTACCGCTCCAGCTGCCGAT
5517572 TTGGC
130 TTGGC
5517577 CAATAAGGAA
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
161 1 0.01
162 119 0.99
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (162 bp):
GAATTAGAGGCAATTGTTGAAGACAGTAGTGAGGTTGAGAAGGCCAAGTATGTCGCTACTTCACA
ACAAGAAGCCCCCTCGAGGAGGAGCAGACGCAAAACTGTGGCTCTTACCGCTCCAGCTGCCGATT
TGGCATCGGTTGGAGGAAAGGGCTCGACTGAA
Found at i:5517762 original size:201 final size:201
Alignment explanation
Indices: 5517412--5518402 Score: 1393
Period size: 201 Copynumber: 5.0 Consensus size: 201
5517402 CTTCCGATTT
* * *
5517412 GGCATCGGTTGGA-GGAAAGGGCTCGACTGAAGAATTGGATGCAATTGTTGAAGACAGTAGTGAG
1 GGCACCGGTTGGAGGGAAA-GGCACGACTGAAGAATTGGATGCAATTGTTGAAGATAGTAGTGAG
5517476 GTTGAGAGGGCCAAGTATGCAGCTACTTCACAACAAGAAGCCCCCTCGAGGAGGGGCAGACGCAA
65 GTTGAGAGGGCCAAGTATGCAGCTACTTCACAACAAGAAGCCCCCTCGAGGAGGGGCAGACGCAA
*
5517541 AACTGTGGGTCTTACTGCTCCAGCTGCCGATTTGGCCAATAAGGAAGATATTGGTAGAACGGAGC
130 AACTGTGGTTCTTACTGCTCCAGCTGCCGATTTGGCCAATAAGGAAGATATTGGTAGAACGGAGC
5517606 AGTTAGA
195 AGTTAGA
5517613 GGCACCGGTTGGAGGGAAAGGCACGACTGAAGAATTGGATGCAATTGTTGAAGATAGTAGTGAGG
1 GGCACCGGTTGGAGGGAAAGGCACGACTGAAGAATTGGATGCAATTGTTGAAGATAGTAGTGAGG
* * *
5517678 TCGACAGGACCAAGTATGCAGCTACTTCACAACAAGAAGCCCCCTCGAGGAGGGGCAGACGCAAA
66 TTGAGAGGGCCAAGTATGCAGCTACTTCACAACAAGAAGCCCCCTCGAGGAGGGGCAGACGCAAA
*
5517743 ACTGTGGGTCTTACTGCTCCAGCTGCCGATTTGGCCAATAAGGAAGATATTGGTAGAACGGAGCA
131 ACTGTGGTTCTTACTGCTCCAGCTGCCGATTTGGCCAATAAGGAAGATATTGGTAGAACGGAGCA
5517808 GTTAGA
196 GTTAGA
5517814 GGCACCGGTTGGAGGGAAAGGCACGACTGAAGAATTGGATGCAATTGTTGAAGATAGTAGTGAGG
1 GGCACCGGTTGGAGGGAAAGGCACGACTGAAGAATTGGATGCAATTGTTGAAGATAGTAGTGAGG
*
5517879 TCGAGAGGGCCAAGTATGCAGCTACTTCACAACAAGAAGCCCCCTCGAGGAGGGGCAGACGCAAA
66 TTGAGAGGGCCAAGTATGCAGCTACTTCACAACAAGAAGCCCCCTCGAGGAGGGGCAGACGCAAA
5517944 ACTGTGGTTCTTACTGCTCCAGCTGCCGATTTGGCCAATAAGGAAGATATTGGTAGAACGGAGCA
131 ACTGTGGTTCTTACTGCTCCAGCTGCCGATTTGGCCAATAAGGAAGATATTGGTAGAACGGAGCA
5518009 GTTAGA
196 GTTAGA
* * * * *
5518015 GGCACCGCTTGTAGGAAAAGGCACGACTGAAGAACTGGATGCAATTGTGGAAGATAGTAGTGAGG
1 GGCACCGGTTGGAGGGAAAGGCACGACTGAAGAATTGGATGCAATTGTTGAAGATAGTAGTGAGG
** *
5518080 TTGAGAGGGCC-A--A-G--G------CACAACAAGAAGCCCCCTCGAGGAGGAACAGACGCAAG
66 TTGAGAGGGCCAAGTATGCAGCTACTTCACAACAAGAAGCCCCCTCGAGGAGGGGCAGACGCAAA
* * * * *
5518133 ACTGTGATTCTTACTGCTCCAGCTGCAGATTTGGCAAATAAGGAACATATTGGTAGTACGGAGCA
131 ACTGTGGTTCTTACTGCTCCAGCTGCCGATTTGGCCAATAAGGAAGATATTGGTAGAACGGAGCA
5518198 GTT-GAA
196 GTTAG-A
* ** * * * ** *
5518204 GGCACCGCTTCAAGGAAAAGGCACAACTGAAGAAGTGGATGCAATTGTACAAGATAGGAGTGAGG
1 GGCACCGGTTGGAGGGAAAGGCACGACTGAAGAATTGGATGCAATTGTTGAAGATAGTAGTGAGG
* * ** * * * ***
5518269 TTGAGAGGGCCAAGTCTGCCA-TTACTTCACAACACCAATCCCCCTTGAGGAAGAATAGACGCAA
66 TTGAGAGGGCCAAGTATG-CAGCTACTTCACAACAAGAAGCCCCCTCGAGGAGGGGCAGACGCAA
* ** * * * * *
5518333 GACTGTAATTCTCACTGCTCCAGCTGCCGAGTT-GCCAATTAGGGAAGATATTAGTAGAATGGAG
130 AACTGTGGTTCTTACTGCTCCAGCTGCCGATTTGGCCAA-TAAGGAAGATATTGGTAGAACGGAG
5518397 CAGTTA
194 CAGTTA
5518403 AGATCACCGC
Statistics
Matches: 726, Mismatches: 47, Indels: 33
0.90 0.06 0.04
Matches are distributed among these distances:
188 1 0.00
189 168 0.23
190 1 0.00
193 1 0.00
195 1 0.00
197 1 0.00
198 1 0.00
200 5 0.01
201 542 0.75
202 5 0.01
ACGTcount: A:0.31, C:0.19, G:0.30, T:0.19
Consensus pattern (201 bp):
GGCACCGGTTGGAGGGAAAGGCACGACTGAAGAATTGGATGCAATTGTTGAAGATAGTAGTGAGG
TTGAGAGGGCCAAGTATGCAGCTACTTCACAACAAGAAGCCCCCTCGAGGAGGGGCAGACGCAAA
ACTGTGGTTCTTACTGCTCCAGCTGCCGATTTGGCCAATAAGGAAGATATTGGTAGAACGGAGCA
GTTAGA
Found at i:5518226 original size:189 final size:189
Alignment explanation
Indices: 5517906--5518282 Score: 603
Period size: 189 Copynumber: 2.0 Consensus size: 189
5517896 GCAGCTACTT
** * *
5517906 CACAACAAGAAGCCCCCTCGAGGAGGGGCAGACGCAAAACTGTGGTTCTTACTGCTCCAGCTGCC
1 CACAACAAGAAGCCCCCTCGAGGAGGAACAGACGCAAAACTGTGATTCTTACTGCTCCAGCTGCA
* * **
5517971 GATTTGGCCAATAAGGAAGATATTGGTAGAACGGAGCAGTTAGAGGCACCGCTTGTAGGAAAAGG
66 GATTTGGCAAATAAGGAACATATTGGTAGAACGGAGCAGTTAGAGGCACCGCTTCAAGGAAAAGG
* ** *
5518036 CACGACTGAAGAACTGGATGCAATTGTGGAAGATAGTAGTGAGGTTGAGAGGGCCAAGG
131 CACAACTGAAGAACTGGATGCAATTGTACAAGATAGGAGTGAGGTTGAGAGGGCCAAGG
*
5518095 CACAACAAGAAGCCCCCTCGAGGAGGAACAGACGCAAGACTGTGATTCTTACTGCTCCAGCTGCA
1 CACAACAAGAAGCCCCCTCGAGGAGGAACAGACGCAAAACTGTGATTCTTACTGCTCCAGCTGCA
*
5518160 GATTTGGCAAATAAGGAACATATTGGTAGTACGGAGCAGTT-GAAGGCACCGCTTCAAGGAAAAG
66 GATTTGGCAAATAAGGAACATATTGGTAGAACGGAGCAGTTAG-AGGCACCGCTTCAAGGAAAAG
*
5518224 GCACAACTGAAGAAGTGGATGCAATTGTACAAGATAGGAGTGAGGTTGAGAGGGCCAAG
130 GCACAACTGAAGAACTGGATGCAATTGTACAAGATAGGAGTGAGGTTGAGAGGGCCAAG
5518283 TCTGCCATTA
Statistics
Matches: 172, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
188 1 0.01
189 171 0.99
ACGTcount: A:0.32, C:0.19, G:0.31, T:0.18
Consensus pattern (189 bp):
CACAACAAGAAGCCCCCTCGAGGAGGAACAGACGCAAAACTGTGATTCTTACTGCTCCAGCTGCA
GATTTGGCAAATAAGGAACATATTGGTAGAACGGAGCAGTTAGAGGCACCGCTTCAAGGAAAAGG
CACAACTGAAGAACTGGATGCAATTGTACAAGATAGGAGTGAGGTTGAGAGGGCCAAGG
Found at i:5518352 original size:390 final size:395
Alignment explanation
Indices: 5517437--5518402 Score: 1363
Period size: 390 Copynumber: 2.4 Consensus size: 395
5517427 AAAGGGCTCG
*
5517437 ACTGAAGAATTGGATGCAATTGTTGAAGACAGTAGTGAGGTTGAGAGGGCCAAGTATGCAGCTAC
1 ACTGAAGAATTGGATGCAATTGTTGAAGATAGTAGTGAGGTTGAGAGGGCCAAGTATGCAGCTAC
*
5517502 TTCACAACAAGAAGCCCCCTCGAGGAGGGGCAGACGCAAAACTGTGGGTCTTACTGCTCCAGCTG
66 TTCACAACAAGAAGCCCCCTCGAGGAGGGGCAGACGCAAAACTGTGGTTCTTACTGCTCCAGCTG
* *
5517567 CCGATTTGGCCAATAAGGAAGATATTGGTAGAACGGAGCAGTTAGAGGCACCGGTTGGAGGGAAA
131 CCGATTTGGCCAATAAGGAAGATATTGGTAGAACGGAGCAGTTAGAGGCACCGCTTGGAGGAAAA
* *
5517632 GGCACGACTGAAGAATTGGATGCAATTGTTGAAGATAGTAGTGAGGTCGACAGGACCAAGTATGC
196 GGCACGACTGAAGAACTGGATGCAATTGTGGAAGATAGTAGTGAGGTCGACAGGACCAAG-ATG-
** *
5517697 AGCTACTTCACAACAAGAAGCCCCCTCGAGGAGGGGCAGACGCAAAACTGTGGGTCTTACTGCTC
259 AG-----TCACAACAAGAAGCCCCCTCGAGGAGGAACAGACGCAAAACTGTGAGTCTTACTGCTC
* * * * **
5517762 CAGCTGCCGATTTGGCCAATAAGGAAGATATTGGTAGAACGGAGCAGTTAGAGGCACCGGTTGGA
319 CAGCTGCAGATTTGGCAAATAAGGAACATATTGGTAGAACGGAGCAGTTAGAGGCACCGCTTCAA
* *
5517827 GGGAAAGGCACG
384 GGAAAAGGCACA
*
5517839 ACTGAAGAATTGGATGCAATTGTTGAAGATAGTAGTGAGGTCGAGAGGGCCAAGTATGCAGCTAC
1 ACTGAAGAATTGGATGCAATTGTTGAAGATAGTAGTGAGGTTGAGAGGGCCAAGTATGCAGCTAC
5517904 TTCACAACAAGAAGCCCCCTCGAGGAGGGGCAGACGCAAAACTGTGGTTCTTACTGCTCCAGCTG
66 TTCACAACAAGAAGCCCCCTCGAGGAGGGGCAGACGCAAAACTGTGGTTCTTACTGCTCCAGCTG
*
5517969 CCGATTTGGCCAATAAGGAAGATATTGGTAGAACGGAGCAGTTAGAGGCACCGCTTGTAGGAAAA
131 CCGATTTGGCCAATAAGGAAGATATTGGTAGAACGGAGCAGTTAGAGGCACCGCTTGGAGGAAAA
* * *
5518034 GGCACGACTGAAGAACTGGATGCAATTGTGGAAGATAGTAGTGAGGTTGAGAGGGCC-A-A-G-G
196 GGCACGACTGAAGAACTGGATGCAATTGTGGAAGATAGTAGTGAGGTCGACAGGACCAAGATGAG
* *
5518095 -CACAACAAGAAGCCCCCTCGAGGAGGAACAGACGCAAGACTGTGATTCTTACTGCTCCAGCTGC
261 TCACAACAAGAAGCCCCCTCGAGGAGGAACAGACGCAAAACTGTGAGTCTTACTGCTCCAGCTGC
*
5518159 AGATTTGGCAAATAAGGAACATATTGGTAGTACGGAGCAGTT-GAAGGCACCGCTTCAAGGAAAA
326 AGATTTGGCAAATAAGGAACATATTGGTAGAACGGAGCAGTTAG-AGGCACCGCTTCAAGGAAAA
5518223 GGCACA
390 GGCACA
* ** * * *
5518229 ACTGAAGAAGTGGATGCAATTGTACAAGATAGGAGTGAGGTTGAGAGGGCCAAGTCTGCCA-TTA
1 ACTGAAGAATTGGATGCAATTGTTGAAGATAGTAGTGAGGTTGAGAGGGCCAAGTATG-CAGCTA
** * * * *** * ** *
5518293 CTTCACAACACCAATCCCCCTTGAGGAAGAATAGACGCAAGACTGTAATTCTCACTGCTCCAGCT
65 CTTCACAACAAGAAGCCCCCTCGAGGAGGGGCAGACGCAAAACTGTGGTTCTTACTGCTCCAGCT
* * * *
5518358 GCCGAGTT-GCCAATTAGGGAAGATATTAGTAGAATGGAGCAGTTA
130 GCCGATTTGGCCAA-TAAGGAAGATATTGGTAGAACGGAGCAGTTA
5518403 AGATCACCGC
Statistics
Matches: 513, Mismatches: 48, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
389 6 0.01
390 260 0.51
391 2 0.00
396 1 0.00
398 1 0.00
399 1 0.00
401 1 0.00
402 241 0.47
ACGTcount: A:0.31, C:0.19, G:0.30, T:0.20
Consensus pattern (395 bp):
ACTGAAGAATTGGATGCAATTGTTGAAGATAGTAGTGAGGTTGAGAGGGCCAAGTATGCAGCTAC
TTCACAACAAGAAGCCCCCTCGAGGAGGGGCAGACGCAAAACTGTGGTTCTTACTGCTCCAGCTG
CCGATTTGGCCAATAAGGAAGATATTGGTAGAACGGAGCAGTTAGAGGCACCGCTTGGAGGAAAA
GGCACGACTGAAGAACTGGATGCAATTGTGGAAGATAGTAGTGAGGTCGACAGGACCAAGATGAG
TCACAACAAGAAGCCCCCTCGAGGAGGAACAGACGCAAAACTGTGAGTCTTACTGCTCCAGCTGC
AGATTTGGCAAATAAGGAACATATTGGTAGAACGGAGCAGTTAGAGGCACCGCTTCAAGGAAAAG
GCACA
Found at i:5539034 original size:42 final size:42
Alignment explanation
Indices: 5538948--5539074 Score: 130
Period size: 42 Copynumber: 3.0 Consensus size: 42
5538938 AAGCCCGAAG
* * * * *
5538948 GCTGAACAGAAGCACATAAGTGCTAAACAGAAACCCATAAGA
1 GCTGAACAGAAACCCATAAGGGTTAAACAGAAACCAATAAGA
* *
5538990 GCTGAACAGAAACCCATAAGGGTTAAACAGAAGCTCAAT-GGA
1 GCTGAACAGAAACCCATAAGGGTTAAACAGAAAC-CAATAAGA
* * *
5539032 GCTGAACAGAAACCCATCAGGGTTGAACGGAAACTCATATAAG
1 GCTGAACAGAAACCCATAAGGGTTAAACAGAAAC-CA-ATAAG
5539075 TTAAACAGAA
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 64 0.91
43 5 0.07
44 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.14
Consensus pattern (42 bp):
GCTGAACAGAAACCCATAAGGGTTAAACAGAAACCAATAAGA
Found at i:5539058 original size:21 final size:21
Alignment explanation
Indices: 5538947--5539070 Score: 106
Period size: 21 Copynumber: 5.9 Consensus size: 21
5538937 GAAGCCCGAA
* *
5538947 GGCTGAACAGAAGCACATAAG
1 GGCTGAACAGAAACCCATAAG
* *
5538968 TGCTAAACAGAAACCCATAAG
1 GGCTGAACAGAAACCCATAAG
*
5538989 AGCTGAACAGAAACCCATAAG
1 GGCTGAACAGAAACCCATAAG
* * * * *
5539010 GGTTAAACAGAAGCTCA-ATG
1 GGCTGAACAGAAACCCATAAG
*
5539030 GAGCTGAACAGAAACCCATCAG
1 G-GCTGAACAGAAACCCATAAG
* * *
5539052 GGTTGAACGGAAACTCATA
1 GGCTGAACAGAAACCCATA
5539071 TAAGTTAAAC
Statistics
Matches: 79, Mismatches: 22, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
20 3 0.04
21 74 0.94
22 2 0.03
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.14
Consensus pattern (21 bp):
GGCTGAACAGAAACCCATAAG
Found at i:5539103 original size:63 final size:63
Alignment explanation
Indices: 5538969--5539106 Score: 163
Period size: 63 Copynumber: 2.2 Consensus size: 63
5538959 GCACATAAGT
*
5538969 GCTAAACAGAAACCCATAAGAGCTGAACAGAAACCCATAAGGGTTAAACAGAAGCTCAATGGA
1 GCTAAACAGAAACCCATAAGAGCTGAACAGAAACCCATAAGAGTTAAACAGAAGCTCAATGGA
* * * * * * *
5539032 GCTGAACAGAAACCCATCAGGGTTGAACGGAAACTCATATA-AGTTAAACAGAAGCTC-GTGAGA
1 GCTAAACAGAAACCCATAAGAGCTGAACAGAAACCCATA-AGAGTTAAACAGAAGCTCAATG-GA
*
5539095 GTTAAACAGAAA
1 GCTAAACAGAAA
5539107 GTAAACACGA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
62 2 0.03
63 60 0.95
64 1 0.02
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (63 bp):
GCTAAACAGAAACCCATAAGAGCTGAACAGAAACCCATAAGAGTTAAACAGAAGCTCAATGGA
Found at i:5542286 original size:5 final size:5
Alignment explanation
Indices: 5542276--5542301 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
5542266 CTCGTACTTA
5542276 AACTC AACTC AACTC AACTC AACTC A
1 AACTC AACTC AACTC AACTC AACTC A
5542302 GCTGATGGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.19
Consensus pattern (5 bp):
AACTC
Found at i:5548049 original size:43 final size:42
Alignment explanation
Indices: 5547944--5548053 Score: 127
Period size: 41 Copynumber: 2.6 Consensus size: 42
5547934 TAACCATTAC
*
5547944 ACGGTGGAATCAGCACTTAGCAACCACCATATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCATATAATCAAGGAT
** *
5547986 ACGG-GGAATCAGCAGATAGCAACC-CC-TTTCACAGTCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCATAT-A-A-TCAAGGAT
*
5548028 ACGGTGGAATCAACACTTAGCAACCA
1 ACGGTGGAATCAGCACTTAGCAACCA
5548054 TCTTTATATT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 2 0.04
40 3 0.05
41 19 0.34
42 15 0.27
43 17 0.30
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.18
Consensus pattern (42 bp):
ACGGTGGAATCAGCACTTAGCAACCACCATATAATCAAGGAT
Found at i:5548158 original size:51 final size:51
Alignment explanation
Indices: 5548082--5548373 Score: 276
Period size: 51 Copynumber: 5.8 Consensus size: 51
5548072 CGGATTCACA
* * * *
5548082 TAGTAGCATGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTACACG
* ** * *
5548133 TAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCCAGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCTGGTACACG
* ****
5548184 TAGTAGTCTGCACATAGTACTACACATACAACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCTGGTACACG
* * * *
5548234 TAGTAGCCTACACATAGTACTACACACGTGATCGA--AGCTATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCTGGTACACG
* * *
5548285 TAGTAGCCTGTACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCTGGTACACG
*
5548335 TAGTAGCCTACACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
5548374 TTCACTTTCA
Statistics
Matches: 191, Mismatches: 37, Indels: 27
0.75 0.15 0.11
Matches are distributed among these distances:
48 1 0.01
49 4 0.02
50 76 0.40
51 106 0.55
52 2 0.01
53 2 0.01
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTACACG
Found at i:5548256 original size:50 final size:50
Alignment explanation
Indices: 5548184--5548360 Score: 200
Period size: 50 Copynumber: 3.5 Consensus size: 50
5548174 CCAGTACGCA
* *
5548184 TAGTAGTCTGCACATAGTACTACACATACAACCTATCATTCTGGTACACG
1 TAGTAGCCTACACATAGTACTACACATACAACCTATCATTCTGGTACACG
* * *
5548234 TAGTAGCCTACACATAGTACTACACACGTGATCGAAGC--T-A-TCTGGTACGCA
1 TAGTAGCCTACACATAGTACTACACA--T-A-C-AACCTATCATTCTGGTACACG
** * *
5548285 TAGTAGCCTGTACATAGTACTACACATGCGACCTATCATTCTGGTACACG
1 TAGTAGCCTACACATAGTACTACACATACAACCTATCATTCTGGTACACG
5548335 TAGTAGCCTACACATAGTACTACACA
1 TAGTAGCCTACACATAGTACTACACA
5548361 CGTGACCATC
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
46 2 0.02
47 1 0.01
48 1 0.01
49 2 0.02
50 57 0.55
51 33 0.32
52 2 0.02
53 2 0.02
54 1 0.01
55 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTACACATAGTACTACACATACAACCTATCATTCTGGTACACG
Found at i:5548256 original size:101 final size:100
Alignment explanation
Indices: 5548080--5548365 Score: 439
Period size: 101 Copynumber: 2.8 Consensus size: 100
5548070 TGCGGATTCA
* * * *
5548080 CATAGTAGCATGCACATAGTACTACACATGTGACC-ATCACTATCCGATACACGTAGTAGCCTGC
1 CATAGTAGC-TGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTAC
5548144 ACATAGTACTACACACGTGATCGAAGCTATCCAGTACG
63 ACATAGTACTACACACGTGATCGAAGCTATCCAGTACG
* *
5548182 CATAGTAGTCTGCACATAGTACTACACATACAACCTATCATTCTGGTACACGTAGTAGCCTACAC
1 CATAGTAG-CTGCACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTACAC
**
5548247 ATAGTACTACACACGTGATCGAAGCTATCTGGTACG
65 ATAGTACTACACACGTGATCGAAGCTATCCAGTACG
*
5548283 CATAGTAGCCTGTACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTACAC
1 CATAGTAG-CTGCACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTACAC
5548348 ATAGTACTACACACGTGA
65 ATAGTACTACACACGTGA
5548366 CCATCACTTT
Statistics
Matches: 170, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
101 134 0.79
102 31 0.18
103 5 0.03
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (100 bp):
CATAGTAGCTGCACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTACACA
TAGTACTACACACGTGATCGAAGCTATCCAGTACG
Found at i:5556107 original size:14 final size:14
Alignment explanation
Indices: 5556083--5556121 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
5556073 TTTAGGATTT
*
5556083 GGGTTTAAGGTTTA
1 GGGTTCAAGGTTTA
* *
5556097 GGGTTCGAGGTTTG
1 GGGTTCAAGGTTTA
5556111 GGGTTCAAGGT
1 GGGTTCAAGGT
5556122 AAAAAAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.15, C:0.05, G:0.44, T:0.36
Consensus pattern (14 bp):
GGGTTCAAGGTTTA
Found at i:5556420 original size:30 final size:31
Alignment explanation
Indices: 5556384--5556455 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
5556374 GGTTTCATTT
5556384 CAGTCACTCAAC-T-TTGAAAAAATAACAAAA
1 CAGTCACTCAACGTATTG-AAAAATAACAAAA
* * *
5556414 CAGTCACT-AACGTTATTGAAAAGTGACAAAT
1 CAGTCACTCAACG-TATTGAAAAATAACAAAA
5556445 CAGTCACTCAA
1 CAGTCACTCAA
5556456 TTAACATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
29 3 0.09
30 8 0.23
31 19 0.54
32 5 0.14
ACGTcount: A:0.46, C:0.21, G:0.11, T:0.22
Consensus pattern (31 bp):
CAGTCACTCAACGTATTGAAAAATAACAAAA
Found at i:5557276 original size:17 final size:16
Alignment explanation
Indices: 5557227--5557291 Score: 58
Period size: 17 Copynumber: 3.9 Consensus size: 16
5557217 CTCTCCCATT
5557227 TTCTCTTATTCTTCTTC
1 TTCTCTT-TTCTTCTTC
* ** *
5557244 TCCTCCTCCTCCTCTTC
1 TTCT-CTTTTCTTCTTC
*
5557261 TTCTCTATTTCTTCTTT
1 TTCTCT-TTTCTTCTTC
5557278 TTCTCTTTTCTTCT
1 TTCTCTTTTCTTCT
5557292 ACTGTCCAAG
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
16 10 0.27
17 25 0.68
18 2 0.05
ACGTcount: A:0.03, C:0.35, G:0.00, T:0.62
Consensus pattern (16 bp):
TTCTCTTTTCTTCTTC
Found at i:5562295 original size:5 final size:5
Alignment explanation
Indices: 5562284--5562321 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
5562274 ATAGAATTCA
*
5562284 ATTAT ATAAT ATTAT ATTAT ATTAT ATTAT ATTAT ATT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATT
5562322 GAAAGGATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:5567397 original size:29 final size:29
Alignment explanation
Indices: 5567338--5567398 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
5567328 TTTTTCATCT
* *
5567338 ATTTTAAAATAATTTAACAAAAAATAGAA
1 ATTTTAAAATAATTTAAAAAAAAAAAGAA
* *
5567367 ATTTTAAAA-ATTTTAAAAAATAAAAATAA
1 ATTTTAAAATAATTTAAAAAA-AAAAAGAA
5567396 ATT
1 ATT
5567399 AAATAAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (29 bp):
ATTTTAAAATAATTTAAAAAAAAAAAGAA
Found at i:5567582 original size:21 final size:22
Alignment explanation
Indices: 5567551--5567591 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
5567541 ATAAGTATTA
5567551 TATAAGTATTATAATAATTTGT
1 TATAAGTATTATAATAATTTGT
*
5567573 TATAA-TATTATTATAATTT
1 TATAAGTATTATAATAATTT
5567592 TAAATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (22 bp):
TATAAGTATTATAATAATTTGT
Found at i:5567588 original size:11 final size:11
Alignment explanation
Indices: 5567540--5567589 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
5567530 TTTTAAAAAG
5567540 TATAAGTATTA-
1 TATAA-TATTAT
5567551 TATAAGTATTAT
1 TATAA-TATTAT
* *
5567563 AATAAT-TTGT
1 TATAATATTAT
5567573 TATAATATTAT
1 TATAATATTAT
5567584 TATAAT
1 TATAAT
5567590 TTTAAATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 8 0.24
11 21 0.64
12 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (11 bp):
TATAATATTAT
Found at i:5567673 original size:19 final size:19
Alignment explanation
Indices: 5567649--5567688 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
5567639 TTTAAATTTT
*
5567649 ACTTAATAAATAAACCATA
1 ACTTAATAAATAAACAATA
*
5567668 ACTTAATAGATAAACAATA
1 ACTTAATAAATAAACAATA
5567687 AC
1 AC
5567689 CAACTAAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.57, C:0.15, G:0.03, T:0.25
Consensus pattern (19 bp):
ACTTAATAAATAAACAATA
Found at i:5568963 original size:124 final size:124
Alignment explanation
Indices: 5568730--5569106 Score: 551
Period size: 124 Copynumber: 3.0 Consensus size: 124
5568720 TTAGGGTTTT
* ***
5568730 TAGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGA-TCAAATAGTATAAAATCGCTTCTAG
1 TAGGTCATGGAAGAAATAATTT-TTTTTGACGTTTCTGAGT-AAATAGTATAAAATCGCTTCTAG
* * *
5568794 CATGATGCTATTTGAGAAGAATTTGTGAAATCGTGCCCTCGTGGACGCGCTTTTGCTACAG
64 CAGGATGCTATTTGAGAAGAATTTGTAAAATCGTGCCCTCATGGACGCGCTTTTGCTACAG
*
5568855 TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTGAGTAAATAGTATAAAATCGCTTCTAGTA
1 TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTGAGTAAATAGTATAAAATCGCTTCTAGCA
* *
5568920 GGATGCTATTTGAGAAGAATTTGTAAAATCATGCCATCATGGACGCGCTTTTGCTACAG
66 GGATGCTATTTGAGAAGAATTTGTAAAATCGTGCCCTCATGGACGCGCTTTTGCTACAG
* * * *
5568979 TCGGTCATGGAAGAAATAAATTTTTTTT-ATGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCATGGAAGAAAT-AATTTTTTTTGACGTTTCTGAGTAAATAGTATAAAATCGCTTCTAGC
* * *
5569043 AGGATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTTATGAACGCGCTTTTGCTACAG
65 AGGATGCTATTTGAGAAGAATTTGT-AAAATCGTGCCCTCATGGACGCGCTTTTGCTACAG
5569104 TAG
1 TAG
5569107 CATGTTTGGG
Statistics
Matches: 228, Mismatches: 21, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
124 164 0.72
125 64 0.28
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (124 bp):
TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTGAGTAAATAGTATAAAATCGCTTCTAGCA
GGATGCTATTTGAGAAGAATTTGTAAAATCGTGCCCTCATGGACGCGCTTTTGCTACAG
Found at i:5572299 original size:17 final size:17
Alignment explanation
Indices: 5572232--5572299 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
5572222 TATGTGAATG
*
5572232 TAAAATTATTAATT-GA
1 TAAAATTATTAATTATA
* *
5572248 TAAATTGTATTAATGATTA
1 TAAAAT-TATTAATTA-TA
*
5572267 GTAAAATTATCAAATTATA
1 -TAAAATTAT-TAATTATA
5572286 TAAAATTATTAATT
1 TAAAATTATTAATT
5572300 GTTAGTACCA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
16 5 0.12
17 11 0.28
18 9 0.22
19 6 0.15
20 9 0.22
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (17 bp):
TAAAATTATTAATTATA
Found at i:5572317 original size:115 final size:116
Alignment explanation
Indices: 5572114--5572360 Score: 433
Period size: 115 Copynumber: 2.1 Consensus size: 116
5572104 AAATTAAGTT
*
5572114 TGTAAAATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAATTATCAAATTATATAAAATTA
1 TGTAAAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATTATCAAATTATATAAAATTA
* **
5572179 TTAATTTTTAGTACCAATCAAAACATTTTTCCAAATCTAACATTATGTGAA
66 TTAATTGTTAGTACCAAAAAAAACATTTTTCCAAATCTAACATTATGTGAA
5572230 TGTAAAATTATTAATTGATAAATTGTATTAATGATTAGT-AAAATTATCAAATTATATAAAATTA
1 TGTAAAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATTATCAAATTATATAAAATTA
*
5572294 TTAATTGTTAGTACCAAAAAAAACATTTTTCTAAATCTAACATTATGTGAA
66 TTAATTGTTAGTACCAAAAAAAACATTTTTCCAAATCTAACATTATGTGAA
*
5572345 AGTAAAATTATTAATT
1 TGTAAAATTATTAATT
5572361 TAGTTTAGGG
Statistics
Matches: 125, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
115 87 0.70
116 38 0.30
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.40
Consensus pattern (116 bp):
TGTAAAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATTATCAAATTATATAAAATTA
TTAATTGTTAGTACCAAAAAAAACATTTTTCCAAATCTAACATTATGTGAA
Found at i:5572386 original size:23 final size:22
Alignment explanation
Indices: 5572354--5572948 Score: 442
Period size: 23 Copynumber: 26.1 Consensus size: 22
5572344 AAGTAAAATT
*
5572354 ATTAATTTAGTTTAGGGTTTTTA
1 ATTAA-TTAGGTTAGGGTTTTTA
5572377 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
5572400 ATTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
** * *
5572423 AGTTAA-GGGGATATGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
* * *
5572445 AGT--TTAGGGTTTAAGGTTTTAA
1 ATTAATTA-GG-TTAGGGTTTTTA
*
5572467 ATTAAATTAGGTTAGGATTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
*
5572490 ATTTAATTAGGTTAGAGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
***
5572513 AGTTAAGGGGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
5572536 ATTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
5572559 AGT--TTAGGGTTTAGGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
5572581 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
*** *
5572604 AGTTTAGGGAGGTTATGGTTTTTA
1 A--TTAATTAGGTTAGGGTTTTTA
* *
5572628 ATTTAGTTAGCTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
5572651 ATT--TTAGGGTTTAGGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
*
5572673 ATTAAATTAGGTTATGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
** *
5572696 A--GCTTAGGGTTTAAGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
5572718 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
*
5572741 ATTTAATTAGGTTAGGTTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
5572764 AGTTAATTAGGTTAGGTTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*** *
5572787 AGTTAAGGGGGTTAAGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
* *
5572810 AGT--TTAGGGTTTAAGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
5572832 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
*
5572855 ATTTAATTAGGTTAGGTTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*** *
5572878 AGTTAAGGGGGTTAAGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
* *
5572901 AGT--TTAGGGTTTAAGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
*
5572923 ATTAAATTAGGTTAGGATTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
5572946 ATT
1 ATT
5572949 TAAGGGTATT
Statistics
Matches: 462, Mismatches: 72, Indels: 76
0.76 0.12 0.12
Matches are distributed among these distances:
20 9 0.02
21 12 0.03
22 98 0.21
23 285 0.62
24 38 0.08
25 20 0.04
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.49
Consensus pattern (22 bp):
ATTAATTAGGTTAGGGTTTTTA
Found at i:5572462 original size:22 final size:22
Alignment explanation
Indices: 5572415--5572464 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
5572405 ATTAGGTTAG
*
5572415 GGTTTTTAAGTTAAGGGGATAT
1 GGTTTTTAAGTTAAGGGGATAA
* **
5572437 GGTTTTTAAGTTTAGGGTTTAA
1 GGTTTTTAAGTTAAGGGGATAA
5572459 GGTTTT
1 GGTTTT
5572465 AAATTAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (22 bp):
GGTTTTTAAGTTAAGGGGATAA
Found at i:5572595 original size:114 final size:113
Alignment explanation
Indices: 5572354--5572948 Score: 629
Period size: 114 Copynumber: 5.2 Consensus size: 113
5572344 AAGTAAAATT
* *
5572354 ATTAATTTAGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTT
1 ATTAAATTAGGTTA-GGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTT
** * * *
5572419 TTTAAGTTAA-GGGGATATGGTTTTTAAGTTTAGGGTTTAAGGTTTTAA
65 TTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAAGGTTTTTA
* * * ***
5572467 ATTAAATTAGGTTAGGATTTTTAATTTAATTAGGTTAGAGTTTTTAAGTTAAGGGGGTTAGGGTT
1 ATTAAATTAGGTTAGG-TTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTT
* *
5572532 TTTAATTTAATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTTTTA
65 TTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAAGGTTTTTA
* *** * * *
5572581 ATTAAATTAGGTTAGGGTTTTTAAGTTTAGGGAGGTTATGGTTTTTAATTTAGTTAGCTTAGGGT
1 ATTAAATTAGGTTA-GGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGT
* *
5572646 TTTTAA-TT--TTAGGGTTTAGGGTTTTTAATTAAATTA-GG-TTATGGTTTTT-
64 TTTTAAGTTAATTA-GG-TTAGGGTTTTTAAGT---TTAGGGTTTAAGGTTTTTA
** *
5572695 A--AGCTTAGGGTTTAAGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGT
1 ATTAAATTA-GG-TT-AGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGG
* * *
5572758 TTTTTAAGTTAATTAGGTTAGGTTTTTTAAGTTAAGGGGGTTAAGGTTTTTA
63 TTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTA-GGGTTTAAGGTTTTTA
* *
5572810 AGT---TTAGGGTTTAAGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGT
1 ATTAAATTA-GG-TT-AGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGG
*** *
5572872 TTTTTAAGTTAAGGGGGTTAAGGTTTTTAAGTTTAGGGTTTAAGGTTTTTA
63 TTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAAGGTTTTTA
5572923 ATTAAATTAGGTTAGGATTTTTAATT
1 ATTAAATTAGGTTAGG-TTTTTAATT
5572949 TAAGGGTATT
Statistics
Matches: 407, Mismatches: 50, Indels: 49
0.80 0.10 0.10
Matches are distributed among these distances:
111 2 0.00
112 9 0.02
113 127 0.31
114 205 0.50
115 53 0.13
116 8 0.02
117 3 0.01
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.49
Consensus pattern (113 bp):
ATTAAATTAGGTTAGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTT
TTAAGTTAATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAAGGTTTTTA
Found at i:5572907 original size:91 final size:90
Alignment explanation
Indices: 5572363--5572951 Score: 702
Period size: 91 Copynumber: 6.5 Consensus size: 90
5572353 TATTAATTTA
5572363 GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTA
1 GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTA-GGTTTTTAAGTTA
* *
5572428 A-GGGGATATGGTTTTTAAGTTTAGG
65 AGGGGGTTAAGGTTTTTAAGTTTAGG
* * *
5572453 GTTTAAGGTTTTAAATTAAATTAGGTTAGGATTTTTAATTTAATTAGGTTAGAGTTTTTAAGTTA
1 GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAG-GTTTTTAAGTTA
* *
5572518 AGGGGGTTAGGGTTTTTAA-TTTAATTAG
65 AGGGGGTTAAGGTTTTTAAGTTT-A--GG
* *
5572546 G-TTAGGGTTTTTAAGT---TTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGT
1 GTTTAGGGTTTTTAATTAAATTA-GG-TTAGGGTTTTTAATTTAATTAGGTTA-GGTTTTTAAGT
* * *
5572607 TTAGGGAGGTTATGGTTTTTAA-TTTAGTTA
63 TAAGGG-GGTTAAGGTTTTTAAGTTTAG--G
* *
5572637 GCTTAGGGTTTTTAATT---TTAGGGTTTAGGGTTTTTAATTAAATTAGGTTATGGTTTTTAAGC
1 GTTTAGGGTTTTTAATTAAATTA-GG-TTAGGGTTTTTAATTTAATTAGGTTA-GGTTTTTAAG-
* *
5572699 TT-A-GGGTTTAAGGTTTTTAATTAAATTA-G
62 TTAAGGGGGTTAAGGTTTTTAAGT---TTAGG
* * *
5572728 G-TTAGGGTTTTTAATTTAATTAGGTTAGGTTTTTTAAGTTAATTAGGTTAGGTTTTTTAAGTTA
1 GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGG-TTTTTAAGTTA
5572792 AGGGGGTTAAGGTTTTTAAGTTTAGG
65 AGGGGGTTAAGGTTTTTAAGTTTAGG
*
5572818 GTTTAAGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGTTTTTTAAGTTA
1 GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGG-TTTTTAAGTTA
5572883 AGGGGGTTAAGGTTTTTAAGTTTAGG
65 AGGGGGTTAAGGTTTTTAAGTTTAGG
* *
5572909 GTTTAAGGTTTTTAATTAAATTAGGTTAGGATTTTTAATTTAA
1 GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAA
5572952 GGGTATTAAT
Statistics
Matches: 444, Mismatches: 30, Indels: 49
0.85 0.06 0.09
Matches are distributed among these distances:
89 7 0.02
90 100 0.23
91 220 0.50
92 107 0.24
93 7 0.02
94 3 0.01
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (90 bp):
GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGTTTTTAAGTTAA
GGGGGTTAAGGTTTTTAAGTTTAGG
Found at i:5572918 original size:137 final size:131
Alignment explanation
Indices: 5572499--5572921 Score: 385
Period size: 137 Copynumber: 3.1 Consensus size: 131
5572489 AATTTAATTA
*
5572499 GGTTAGAG-TTTTTAAGTTAAGGGGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGT-
1 GGTTAG-GTTTTTTAAGTTAAGGGGGTTAGGGTTTTTAA--T--TTAGGTTAAGGTTTTTAA-TA
* *
5572562 TTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTTAGGGAGGTTATGGTTTTT
60 TTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGG-GGTTAAGGTTTTT
5572627 AA-TTTAG
124 AAGTTTAG
* * * * * * *
5572634 TTAGCTTAGGGTTTTTAATTTTA-GGGTTTAGGGTTTTTAATTAAATTAGGTTATGGTTTTTAAG
1 ---GGTTAGGTTTTTTAAGTTAAGGGGGTTAGGGTTTTTAA-T---TTAGGTTAAGGTTTTTAAT
* * * ***
5572698 CTTAGGGTTTAAGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTT-AGGTTTTT
59 ATTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGGGTTAAGG-TTTT
5572762 TAAGTTAATTA-
123 TAAG-T--TTAG
*
5572773 GGTTAGGTTTTTTAAGTTAAGGGGGTTAAGGTTTTTAAGTTTAGGGTTTAAGGTTTTTAATTAAA
1 GGTTAGGTTTTTTAAGTTAAGGGGGTTAGGGTTTTTAA-TTTA-GG-TTAAGGTTTTTAA-T--A
* *
5572838 TTA-GG-TTAGGGTTTTTAATTTAATTAGGTTAGGTTTTTTAAGTTAAGGGGGTTAAGGTTTTTA
60 TTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGGGTTAAGGTTTTTA
5572901 AGTTTAG
125 AGTTTAG
5572908 GGTTTAAGGTTTTT
1 GG-TT-AGGTTTTT
5572922 AATTAAATTA
Statistics
Matches: 237, Mismatches: 30, Indels: 37
0.78 0.10 0.12
Matches are distributed among these distances:
134 6 0.03
135 6 0.03
136 44 0.19
137 154 0.65
138 21 0.09
139 3 0.01
140 3 0.01
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (131 bp):
GGTTAGGTTTTTTAAGTTAAGGGGGTTAGGGTTTTTAATTTAGGTTAAGGTTTTTAATATTAGGG
TTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGGGTTAAGGTTTTTAAGTTTA
G
Found at i:5573024 original size:25 final size:25
Alignment explanation
Indices: 5572994--5573041 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
5572984 TATCAAAAAT
5572994 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
5573019 TTCTATTTTATTACATCAAATAA
1 TTCTATTTTATTACATCAAATAA
5573042 TATCAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.46
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:5573497 original size:18 final size:18
Alignment explanation
Indices: 5573474--5573509 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
5573464 CGGAAAAGAG
*
5573474 TACATATAAGGGTTAGGA
1 TACATATAAGGGCTAGGA
5573492 TACATATAAGGGCTAGGA
1 TACATATAAGGGCTAGGA
5573510 AACGCACCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.28, T:0.25
Consensus pattern (18 bp):
TACATATAAGGGCTAGGA
Found at i:5574170 original size:7 final size:7
Alignment explanation
Indices: 5574160--5574184 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
5574150 TTATATACAT
5574160 AATACTA
1 AATACTA
5574167 AATACTA
1 AATACTA
5574174 AATACTA
1 AATACTA
5574181 AATA
1 AATA
5574185 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:5574392 original size:20 final size:20
Alignment explanation
Indices: 5574355--5574392 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5574345 TTTATTTTTA
*
5574355 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
5574375 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
5574393 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:5575025 original size:11 final size:11
Alignment explanation
Indices: 5575009--5575037 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
5574999 AAAAAGGGAG
5575009 TTAAGAGGAAC
1 TTAAGAGGAAC
5575020 TTAAGAGGAAC
1 TTAAGAGGAAC
5575031 TTAAGAG
1 TTAAGAG
5575038 AATTTTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.45, C:0.07, G:0.28, T:0.21
Consensus pattern (11 bp):
TTAAGAGGAAC
Found at i:5578833 original size:27 final size:27
Alignment explanation
Indices: 5578764--5578833 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
5578754 GTCAGGTGGC
*
5578764 GCCTCATAGGGAGGCACCATTAAAAGT
1 GCCTCATAGGGAGGCGCCATTAAAAGT
*
5578791 GCCTCATAAGGAGGCGCCATTAAAAGT
1 GCCTCATAGGGAGGCGCCATTAAAAGT
*
5578818 GCCTTATAGGGAGGCG
1 GCCTCATAGGGAGGCG
5578834 TCAATGGGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.30, C:0.21, G:0.30, T:0.19
Consensus pattern (27 bp):
GCCTCATAGGGAGGCGCCATTAAAAGT
Found at i:5578890 original size:19 final size:19
Alignment explanation
Indices: 5578841--5579338 Score: 168
Period size: 19 Copynumber: 24.3 Consensus size: 19
5578831 GCGTCAATGG
*
5578841 GTAATTTTGTATGTATATT
1 GTAATTTTGTATGAATATT
5578860 GTAACTTTTTGTATGAATATT
1 GTAA--TTTTGTATGAATATT
*
5578881 ATAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
*
5578900 GTAATTATTTTAT-AATTAATTTT
1 GTAATT-TTGTATGAA-T-A--TT
* * *
5578923 GT-ATTTATAGTTTTGGAT-TA
1 GTAATTT-T-G-TATGAATATT
* *
5578943 GT-ATTTTTTATGAATAGT
1 GTAATTTTGTATGAATATT
5578961 GTAATTTTTTGTATGAATATT
1 GTAA--TTTTGTATGAATATT
*
5578982 GTAATTTTTTATGAATATT
1 GTAATTTTGTATGAATATT
*
5579001 GTAATTATT-T-T--ATAAT
1 GTAATT-TTGTATGAATATT
* *
5579017 -TAATTTTGTATTTATAGTTTTT
1 GTAATTTTGTA-TGA-A--TATT
5579039 GATTAGTATTTTGTATGAATATT
1 G--TA--ATTTTGTATGAATATT
5579062 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
* *
5579081 TTAATTTTATATGAATATT
1 GTAATTTTGTATGAATATT
*
5579100 GTAATTATT-T-T--ATAAT
1 GTAATT-TTGTATGAATATT
* *
5579116 -TAATTTTGTATTTATAGTTTTT
1 GTAATTTTGTA-TGA-A--TATT
5579138 GATTAGTATTTTGTATGAATATT
1 G--TA--ATTTTGTATGAATATT
* *
5579161 ATAATGTTGTATGAATATT
1 GTAATTTTGTATGAATATT
*
5579180 GTAATTATTTTAT-AATTAATTTT
1 GTAATT-TTGTATGAA-T-A--TT
* * *
5579203 GT-ATTTATAGTTTTGGAT-TA
1 GTAATTT-T-G-TATGAATATT
5579223 GT-ATTTTGTATGAATATTGTAATTTT
1 GTAATTTTGTATG-A-A---T-A--TT
5579249 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
5579268 GTAATATTGTTTGTATGAATATT
1 GT-A-A-T-TTTGTATGAATATT
*
5579291 GTAATTTTGTATGGATATT
1 GTAATTTTGTATGAATATT
5579310 GTAATATTGTTTGTATGAATATT
1 GT-A-A-T-TTTGTATGAATATT
5579333 GTAATT
1 GTAATT
5579339 ATTTTATAAT
Statistics
Matches: 366, Mismatches: 43, Indels: 140
0.67 0.08 0.26
Matches are distributed among these distances:
14 4 0.01
15 12 0.03
16 8 0.02
17 10 0.03
18 5 0.01
19 131 0.36
20 36 0.10
21 47 0.13
22 18 0.05
23 46 0.13
24 6 0.02
25 9 0.02
26 8 0.02
27 26 0.07
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.56
Consensus pattern (19 bp):
GTAATTTTGTATGAATATT
Found at i:5579109 original size:80 final size:83
Alignment explanation
Indices: 5578967--5579248 Score: 233
Period size: 80 Copynumber: 3.5 Consensus size: 83
5578957 TAGTGTAATT
* * *
5578967 TTTTGTATGAATATTGTAATTTTTTATGAATATTGTAATTATTTTAT-AATTAATT-T--TGTAT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATT-TTATATGAA-T-ATTGTAAT-TAT
5579028 TTAT-AGT-TTTTG-A-TTAGTA
62 TTATAAGTATTTTGTATTTA-TA
*
5579047 TTTTGTATGAATATTGTAATTTTGTATGAATATTTTAATTTTATATGAATATTGTAATTATTTTA
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATTTTATATGAATATTGTAATTA-TTTA
*
5579112 TAATTAATTTTGTATTTATA
65 TAAGT-ATTTTGTATTTATA
* * * *
5579132 GTTT-T-TG-AT-TAGT-ATTTTGTATGAATATTATAATGTTGTATGAATATTGTAATTATTTTA
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATTTTATATGAATATTGTAATTA-TTTA
*
5579192 TAATTAATTTTGTATTTATA
65 TAAGT-ATTTTGTATTTATA
* *
5579212 GTTTTG---G-AT-TAGT-ATTTTGTATGAATATTGTAATTTT
1 -TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATTTT
5579249 GTAATTTTGT
Statistics
Matches: 178, Mismatches: 12, Indels: 24
0.83 0.06 0.11
Matches are distributed among these distances:
78 3 0.02
79 7 0.04
80 135 0.76
81 12 0.07
82 4 0.02
83 2 0.01
84 6 0.03
85 6 0.03
86 3 0.02
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.57
Consensus pattern (83 bp):
TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATTTTATATGAATATTGTAATTATTTAT
AAGTATTTTGTATTTATA
Found at i:5579138 original size:99 final size:100
Alignment explanation
Indices: 5578844--5579314 Score: 574
Period size: 101 Copynumber: 4.6 Consensus size: 100
5578834 TCAATGGGTA
* * *
5578844 ATTTTGTATGTATATTGTAACTTTTTGTATGAATATTATAATTTTGTATGAATATTGTAATTATT
1 ATTTTGTATGAATATTGTAA-TTTTTGTATGAATATTGTAATTTTATATGAATATTGTAATTATT
*
5578909 TTATAATTAATTTTGTATTTATAGTTTTGGATTAGT
65 TTATAATTAATTTTGTATTTATAGTTTTTGATTAGT
* * *
5578945 ATTTTTTATGAATAGTGTAATTTTTTGTATGAATATTGTAATTTTTTATGAATATTGTAATTATT
1 ATTTTGTATGAATATTGTAA-TTTTTGTATGAATATTGTAATTTTATATGAATATTGTAATTATT
5579010 TTATAATTAATTTTGTATTTATAGTTTTTGATTAGT
65 TTATAATTAATTTTGTATTTATAGTTTTTGATTAGT
*
5579046 ATTTTGTATGAATATTGTAA-TTTTGTATGAATATTTTAATTTTATATGAATATTGTAATTATTT
1 ATTTTGTATGAATATTGTAATTTTTGTATGAATATTGTAATTTTATATGAATATTGTAATTATTT
5579110 TATAATTAATTTTGTATTTATAGTTTTTGATTAGT
66 TATAATTAATTTTGTATTTATAGTTTTTGATTAGT
* * * * *
5579145 ATTTTGTATGAATATTATAA-TGTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTT
1 ATTTTGTATGAATATTGTAATTTTTGTATGAATATTGT-A--ATTTTAT-ATGAATATTGTAATT
* ** * * *
5579209 ATAGTTT-TGGATTAGTATTTTGTATGAATA--TTGTAATTTTGT
62 AT--TTTAT-AATTA--ATTTTGTATTTATAGTTTTTGA-TTAGT
* *
5579251 AATTTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAATTTTGTATGGATATTGTAAT
1 -ATTTTGTATGAATATTGT-A-ATT-TTTGTATGAATATTGTAATTTTATATGAATATTGTAAT
5579315 ATTGTTTGTA
Statistics
Matches: 325, Mismatches: 30, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
99 111 0.34
100 1 0.00
101 112 0.34
102 7 0.02
103 14 0.04
104 1 0.00
105 11 0.03
106 4 0.01
107 39 0.12
108 7 0.02
109 1 0.00
110 2 0.01
111 15 0.05
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.56
Consensus pattern (100 bp):
ATTTTGTATGAATATTGTAATTTTTGTATGAATATTGTAATTTTATATGAATATTGTAATTATTT
TATAATTAATTTTGTATTTATAGTTTTTGATTAGT
Found at i:5579251 original size:80 final size:80
Alignment explanation
Indices: 5579065--5579251 Score: 329
Period size: 80 Copynumber: 2.3 Consensus size: 80
5579055 GAATATTGTA
* *
5579065 ATTTTGTATGAATATTTTAATTTTATATGAATATTGTAATTATTTTATAATTAATTTTGTATTTA
1 ATTTTGTATGAATATTATAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTA
*
5579130 TAGTTTTTGATTAGT
66 TAGTTTTGGATTAGT
*
5579145 ATTTTGTATGAATATTATAATGTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTA
1 ATTTTGTATGAATATTATAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTA
5579210 TAGTTTTGGATTAGT
66 TAGTTTTGGATTAGT
*
5579225 ATTTTGTATGAATATTGTAATTTTGTA
1 ATTTTGTATGAATATTATAATTTTGTA
5579252 ATTTTGTATG
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 101 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (80 bp):
ATTTTGTATGAATATTATAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTA
TAGTTTTGGATTAGT
Found at i:5579255 original size:27 final size:27
Alignment explanation
Indices: 5579225--5579301 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
5579215 TTGGATTAGT
5579225 ATTTTGTATGAATATTGTAATTTTGTA
1 ATTTTGTATGAATATTGTAATTTTGTA
*
5579252 ATTTTGTATGAATATTGTAATATTG--
1 ATTTTGTATGAATATTGTAATTTTGTA
5579277 --TTTGTATGAATATTGTAATTTTGTA
1 ATTTTGTATGAATATTGTAATTTTGTA
5579302 TGGATATTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
23 22 0.48
27 24 0.52
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (27 bp):
ATTTTGTATGAATATTGTAATTTTGTA
Found at i:5579284 original size:23 final size:23
Alignment explanation
Indices: 5579227--5579337 Score: 140
Period size: 23 Copynumber: 4.8 Consensus size: 23
5579217 GGATTAGTAT
*
5579227 TTTGTATGAATATTGTAATTTTG
1 TTTGTATGAATATTGTAATATTG
5579250 TAATTTTGTATGAATATTGTAATATTG
1 ----TTTGTATGAATATTGTAATATTG
5579277 TTTGTATGAATATTGT-A-A-T-
1 TTTGTATGAATATTGTAATATTG
*
5579296 TTTGTATGGATATTGTAATATTG
1 TTTGTATGAATATTGTAATATTG
5579319 TTTGTATGAATATTGTAAT
1 TTTGTATGAATATTGTAAT
5579338 TATTTTATAA
Statistics
Matches: 77, Mismatches: 3, Indels: 12
0.84 0.03 0.13
Matches are distributed among these distances:
19 15 0.19
20 2 0.03
21 2 0.03
22 2 0.03
23 34 0.44
27 22 0.29
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (23 bp):
TTTGTATGAATATTGTAATATTG
Found at i:5579297 original size:42 final size:42
Alignment explanation
Indices: 5579247--5579338 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
5579237 TATTGTAATT
5579247 TTGTAATTTTGTATGAATATTGTAATATTGTTTGTATGAATA
1 TTGTAATTTTGTATGAATATTGTAATATTGTTTGTATGAATA
*
5579289 TTGTAATTTTGTATGGATATTGTAATATTGTTTGTATGAATA
1 TTGTAATTTTGTATGAATATTGTAATATTGTTTGTATGAATA
5579331 TTGTAATT
1 TTGTAATT
5579339 ATTTTATAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.53
Consensus pattern (42 bp):
TTGTAATTTTGTATGAATATTGTAATATTGTTTGTATGAATA
Found at i:5579402 original size:60 final size:59
Alignment explanation
Indices: 5579331--5579452 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 59
5579321 TGTATGAATA
* *** *
5579331 TTGTAATTATTTTATAA-TTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTA-TTTA-AATTTAATTTATTAGTAATTTAGGATTAAACTATAAATTGTTGTGT
5579391 TTGTAATTATTTAAATTTTAATTTATTAGTAATTTAGGATTAAACTATAAATTGTTGTGT
1 TTGTAATTATTTAAA-TTTAATTTATTAGTAATTTAGGATTAAACTATAAATTGTTGTGT
5579451 TT
1 TT
5579453 AGTTTAGTAT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
58 2 0.04
59 4 0.07
60 49 0.89
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.55
Consensus pattern (59 bp):
TTGTAATTATTTAAATTTAATTTATTAGTAATTTAGGATTAAACTATAAATTGTTGTGT
Found at i:5579605 original size:15 final size:16
Alignment explanation
Indices: 5579569--5579605 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
5579559 CTCATTTAAT
5579569 TTTTATATAATGTAAC
1 TTTTATATAATGTAAC
*
5579585 TTTTATATTATGTAA-
1 TTTTATATAATGTAAC
5579600 TTTTAT
1 TTTTAT
5579606 TTGATTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (16 bp):
TTTTATATAATGTAAC
Found at i:5581754 original size:15 final size:15
Alignment explanation
Indices: 5581736--5581765 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5581726 AATGACTTTT
5581736 TATAAAATTATAAAA
1 TATAAAATTATAAAA
*
5581751 TATATAATTATAAAA
1 TATAAAATTATAAAA
5581766 ATTAAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TATAAAATTATAAAA
Found at i:5581766 original size:24 final size:23
Alignment explanation
Indices: 5581735--5581802 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
5581725 AAATGACTTT
*
5581735 TTAT-AAAATTATAAAATATATAA
1 TTATAAAAATTATAAAATAAAT-A
5581758 TTATAAAAATTA-AAAA-AAATA
1 TTATAAAAATTATAAAATAAATA
*
5581779 TTATAAAATGTTATAAAATGAAAT
1 TTATAAAA-ATTATAAAAT-AAAT
5581803 TTAAATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
21 9 0.24
22 6 0.16
23 12 0.32
24 7 0.18
25 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (23 bp):
TTATAAAAATTATAAAATAAATA
Found at i:5582943 original size:8 final size:8
Alignment explanation
Indices: 5582930--5582961 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
5582920 TGTTAAACAG
5582930 ATTGTTTT
1 ATTGTTTT
5582938 ATTGTTTT
1 ATTGTTTT
5582946 ATTGTTTT
1 ATTGTTTT
*
5582954 ATGGTTTT
1 ATTGTTTT
5582962 GGTGATTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.16, T:0.72
Consensus pattern (8 bp):
ATTGTTTT
Found at i:5584966 original size:18 final size:17
Alignment explanation
Indices: 5584938--5584993 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 17
5584928 ATTATTTTAA
5584938 ATTTT-ATTAAATCATAT
1 ATTTTAATTAAAT-ATAT
5584955 ATTTTAATTAAA-ATAT
1 ATTTTAATTAAATATAT
*
5584971 A-TTTAA-TAATTAT-T
1 ATTTTAATTAAATATAT
5584985 ATTTTAATT
1 ATTTTAATT
5584994 TATATTTTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
14 5 0.15
15 12 0.35
16 6 0.18
17 5 0.15
18 6 0.18
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Done.