Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008693.1 Hibiscus syriacus cultivar Beakdansim tig00111721_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2243253
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 10
Found at i:373955 original size:19 final size:20
Alignment explanation
Indices: 373931--373970 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
373921 TTGATTTGAA
373931 TTCATTTTTC-ATTTTTCTT
1 TTCATTTTTCTATTTTTCTT
*
373950 TTCATTTTTCTTTTTTTCTT
1 TTCATTTTTCTATTTTTCTT
373970 T
1 T
373971 CTCTTTTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (20 bp):
TTCATTTTTCTATTTTTCTT
Found at i:374686 original size:19 final size:18
Alignment explanation
Indices: 374653--374694 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
374643 TTGAACCCCC
374653 TTTTC-ATTTTCTTTTCT
1 TTTTCTATTTTCTTTTCT
*
374670 TTATTCTATTTTTTTTTCT
1 TT-TTCTATTTTCTTTTCT
374689 TTTTCT
1 TTTTCT
374695 CTTTCCTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 2 0.09
18 7 0.32
19 13 0.59
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTCTATTTTCTTTTCT
Found at i:383109 original size:12 final size:14
Alignment explanation
Indices: 383082--383113 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
383072 CTATATACTT
383082 ATATACTAATTATA
1 ATATACTAATTATA
383096 ATAT-CTAA-TATA
1 ATATACTAATTATA
383108 ATATAC
1 ATATAC
383114 CATACTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 8 0.47
13 5 0.29
14 4 0.24
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATACTAATTATA
Found at i:389425 original size:46 final size:45
Alignment explanation
Indices: 389333--389503 Score: 263
Period size: 46 Copynumber: 3.8 Consensus size: 45
389323 GTAAGCATGC
*
389333 AAATAAGCTTACGAGCTTATGGAAT-AATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATTTTGGTA
389377 AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA-TAAATGGTAAGTATTTTGGTA
* * * *
389423 AAATAGGCCTACGAGCTTATGGGATTAAATGGTAAGTGTTTTGGTA
1 AAATAAGCTTACGAGCTTAT-GGAATAAATGGTAAGTATTTTGGTA
*
389469 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
389504 AGATTTTATC
Statistics
Matches: 115, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
44 24 0.21
45 14 0.12
46 74 0.64
47 3 0.03
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.32
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATTTTGGTA
Found at i:399341 original size:52 final size:52
Alignment explanation
Indices: 399263--399367 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
399253 ATGTCAGAGA
399263 AACTCTTCGTGGTAACCTTTAACATGTGGTTAATATATAGAGATTTTAATGT
1 AACTCTTCGTGGTAACCTTTAACATGTGGTTAATATATAGAGATTTTAATGT
* * * *
399315 AACTCTTGGTGGTAGCCTTTAACATGTTGTTAATATATGGAGATTTTAATGT
1 AACTCTTCGTGGTAACCTTTAACATGTGGTTAATATATAGAGATTTTAATGT
399367 A
1 A
399368 TCGATTAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (52 bp):
AACTCTTCGTGGTAACCTTTAACATGTGGTTAATATATAGAGATTTTAATGT
Found at i:406273 original size:21 final size:21
Alignment explanation
Indices: 406247--406287 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
406237 TAAATCCAAA
406247 CTTAAATCC-CTAAACCTAATT
1 CTTAAA-CCTCTAAACCTAATT
*
406268 CTTAAACCTCTAACCCTAAT
1 CTTAAACCTCTAAACCTAAT
406288 ATCAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.37, C:0.32, G:0.00, T:0.32
Consensus pattern (21 bp):
CTTAAACCTCTAAACCTAATT
Found at i:406451 original size:15 final size:17
Alignment explanation
Indices: 406417--406466 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
406407 AGGAGGGGGA
406417 ATTTTATTCTAAAAAAT
1 ATTTTATTCTAAAAAAT
*
406434 ATTTT-TTC-AAATAAT
1 ATTTTATTCTAAAAAAT
*
406449 ATTTTCATT-AAAAAAAT
1 ATTTT-ATTCTAAAAAAT
406466 A
1 A
406467 AAACTTTTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 11 0.39
16 3 0.11
17 14 0.50
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTTTATTCTAAAAAAT
Found at i:407099 original size:3 final size:3
Alignment explanation
Indices: 407091--407146 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
407081 TTTTAATTGT
407091 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
407139 TTA TTA TT
1 TTA TTA TT
407147 TTTAGGTTAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:408224 original size:2 final size:2
Alignment explanation
Indices: 408217--408261 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
408207 GCAGGTTTTG
408217 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
408259 TA T
1 TA T
408262 TAGACACAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:408780 original size:21 final size:22
Alignment explanation
Indices: 408733--408778 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
408723 TTTTAACCCC
* *
408733 TTTTATATAGGTATGTTTAATA
1 TTTTAAATAGGTATGTTTAACA
408755 TTTTAAAT-GGTA-GTTTAACA
1 TTTTAAATAGGTATGTTTAACA
408775 TTTT
1 TTTT
408779 TATATTAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 11 0.50
21 4 0.18
22 7 0.32
ACGTcount: A:0.30, C:0.02, G:0.13, T:0.54
Consensus pattern (22 bp):
TTTTAAATAGGTATGTTTAACA
Found at i:415258 original size:19 final size:17
Alignment explanation
Indices: 415234--415314 Score: 92
Period size: 18 Copynumber: 4.6 Consensus size: 17
415224 AAATAATAAT
415234 AAAAAGAAAACAGAAGAAA
1 AAAAAGAAAA-A-AAGAAA
415253 AAAAAG-AAAAAAGAAA
1 AAAAAGAAAAAAAGAAA
415269 AAAAAGAAAAAAAAGAAAA
1 AAAAAG-AAAAAAAG-AAA
* **
415288 AAAAAGAAAATAAGGGA
1 AAAAAGAAAAAAAGAAA
415305 AAAAAGAAAA
1 AAAAAGAAAA
415315 CTAAAAGGAG
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
16 12 0.21
17 12 0.21
18 17 0.30
19 15 0.27
ACGTcount: A:0.83, C:0.01, G:0.15, T:0.01
Consensus pattern (17 bp):
AAAAAGAAAAAAAGAAA
Found at i:415259 original size:35 final size:35
Alignment explanation
Indices: 415219--415314 Score: 113
Period size: 35 Copynumber: 2.7 Consensus size: 35
415209 ATTCAAGTTG
* * * *
415219 AAAAGAAATAATAATAAAAAGAAAACAGAAG-AAAA
1 AAAAGAAAAAAGAAAAAAAAGAAAA-AAAAGAAAAA
415254 AAAAGAAAAAAGAAAAAAAAGAAAAAAAAGAAAAA
1 AAAAGAAAAAAGAAAAAAAAGAAAAAAAAGAAAAA
**
415289 AAAAGAAAATAAGGGAAAAAAGAAAA
1 AAAAGAAAA-AAGAAAAAAAAGAAAA
415315 CTAAAAGGAG
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
34 4 0.08
35 35 0.66
36 14 0.26
ACGTcount: A:0.81, C:0.01, G:0.14, T:0.04
Consensus pattern (35 bp):
AAAAGAAAAAAGAAAAAAAAGAAAAAAAAGAAAAA
Found at i:415261 original size:9 final size:9
Alignment explanation
Indices: 415234--415297 Score: 87
Period size: 9 Copynumber: 7.1 Consensus size: 9
415224 AAATAATAAT
415234 AAAAAGAAA
1 AAAAAGAAA
*
415243 ACAGAAGAAA
1 A-AAAAGAAA
415253 AAAAAG--A
1 AAAAAGAAA
415260 AAAAAGAAA
1 AAAAAGAAA
415269 AAAAAGAAA
1 AAAAAGAAA
415278 AAAAAGAAAA
1 AAAAAG-AAA
415288 AAAAAGAAA
1 AAAAAGAAA
415297 A
1 A
415298 TAAGGGAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
7 7 0.14
9 25 0.51
10 17 0.35
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:415307 original size:18 final size:17
Alignment explanation
Indices: 415234--415314 Score: 76
Period size: 19 Copynumber: 4.6 Consensus size: 17
415224 AAATAATAAT
*
415234 AAAAAGAAAACAGAAGAAA
1 AAAAAGAAAA-A-AGGAAA
415253 AAAAAGAAAAAA-GAAA
1 AAAAAGAAAAAAGGAAA
*
415269 AAAAAGAAAAAAAAGAAAA
1 AAAAAG--AAAAAAGGAAA
*
415288 AAAAAGAAAATAAGG-GA
1 AAAAAGAAAA-AAGGAAA
415305 AAAAAGAAAA
1 AAAAAGAAAA
415315 CTAAAAGGAG
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
16 10 0.18
17 16 0.29
18 10 0.18
19 19 0.35
ACGTcount: A:0.83, C:0.01, G:0.15, T:0.01
Consensus pattern (17 bp):
AAAAAGAAAAAAGGAAA
Found at i:415307 original size:27 final size:25
Alignment explanation
Indices: 415219--415314 Score: 93
Period size: 25 Copynumber: 3.7 Consensus size: 25
415209 ATTCAAGTTG
* * * *
415219 AAAAGAAATAATAATAAAAAGAAAAC
1 AAAAGAAA-AAAAAGAAAAAAAAAAA
* *
415245 AGAAGAAAAAAAAGAAAAAAGAAAA
1 AAAAGAAAAAAAAGAAAAAAAAAAA
415270 AAAAGAAAAAAAAGAAAAAAAAAGAA
1 AAAAGAAAAAAAAGAAAAAAAAA-AA
**
415296 AATAAGGGAAAAAAGAAAA
1 AA-AAGAAAAAAAAGAAAA
415315 CTAAAAGGAG
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
25 33 0.57
26 11 0.19
27 14 0.24
ACGTcount: A:0.81, C:0.01, G:0.14, T:0.04
Consensus pattern (25 bp):
AAAAGAAAAAAAAGAAAAAAAAAAA
Found at i:415309 original size:1 final size:1
Alignment explanation
Indices: 415250--415297 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
415240 AAAACAGAAG
* * * * *
415250 AAAAAAAAGAAAAAAGAAAAAAAAGAAAAAAAAGAAAAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
415298 TAAGGGAAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (1 bp):
A
Found at i:421119 original size:22 final size:22
Alignment explanation
Indices: 421071--421133 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
421061 TTTTGGTGCA
* *
421071 GAGGGAATCGATCCCCCCTCAT
1 GAGGGAACCGATTCCCCCTCAT
*
421093 GAGGGAACCGATTCCCCCT-TT
1 GAGGGAACCGATTCCCCCTCAT
421114 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATTCCCCC
421134 CACAGGGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.06
22 18 0.50
23 16 0.44
ACGTcount: A:0.22, C:0.35, G:0.25, T:0.17
Consensus pattern (22 bp):
GAGGGAACCGATTCCCCCTCAT
Found at i:424835 original size:37 final size:36
Alignment explanation
Indices: 424793--424883 Score: 110
Period size: 37 Copynumber: 2.4 Consensus size: 36
424783 ATTCAAGTTG
* * * *
424793 AAAAGAAATAATAATAAAAAGAAAACAGAAGAAAAAA
1 AAAAGAAAAAAGAAAAAAAAGAAAA-AAAAGAAAAAA
424830 AAAAGAAAAAAGAAAAAAAAGAAAAAAAAGAAAAAAA
1 AAAAGAAAAAAGAAAAAAAAGAAAAAAAAG-AAAAAA
*
424867 AGAAAAAAAAAAGAAAA
1 A-AAAGAAAAAAGAAAA
424884 TAAGGGAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
36 4 0.09
37 29 0.62
38 14 0.30
ACGTcount: A:0.85, C:0.01, G:0.11, T:0.03
Consensus pattern (36 bp):
AAAAGAAAAAAGAAAAAAAAGAAAAAAAAGAAAAAA
Found at i:424842 original size:18 final size:17
Alignment explanation
Indices: 424824--424883 Score: 86
Period size: 18 Copynumber: 3.5 Consensus size: 17
424814 AAAACAGAAG
424824 AAAAAAAAAAG-AAAAA
1 AAAAAAAAAAGAAAAAA
*
424840 AGAAAAAAAAGAAAAAA
1 AAAAAAAAAAGAAAAAA
424857 AAGAAAAAAAAGAAAAAA
1 AA-AAAAAAAAGAAAAAA
424875 AAAAGAAAA
1 AAAA-AAAA
424884 TAAGGGAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.26
17 8 0.21
18 21 0.54
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAGAAAAAA
Found at i:424883 original size:9 final size:9
Alignment explanation
Indices: 424808--424876 Score: 104
Period size: 9 Copynumber: 7.6 Consensus size: 9
424798 AAATAATAAT
424808 AAAAAGAAA
1 AAAAAGAAA
*
424817 ACAGAAGAAA
1 A-AAAAGAAA
424827 AAAAA-AAGA
1 AAAAAGAA-A
424836 AAAAAGAAA
1 AAAAAGAAA
424845 AAAAAGAAA
1 AAAAAGAAA
424854 AAAAAGAAA
1 AAAAAGAAA
424863 AAAAAGAAA
1 AAAAAGAAA
424872 AAAAA
1 AAAAA
424877 AAGAAAATAA
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
8 2 0.04
9 43 0.78
10 10 0.18
ACGTcount: A:0.87, C:0.01, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:424895 original size:1 final size:1
Alignment explanation
Indices: 424824--424883 Score: 66
Period size: 1 Copynumber: 60.0 Consensus size: 1
424814 AAAACAGAAG
* * * * * *
424824 AAAAAAAAAAGAAAAAAGAAAAAAAAGAAAAAAAAGAAAAAAAAGAAAAAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
424884 TAAGGGAAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (1 bp):
A
Found at i:424895 original size:20 final size:20
Alignment explanation
Indices: 424793--424883 Score: 98
Period size: 20 Copynumber: 4.5 Consensus size: 20
424783 ATTCAAGTTG
* *
424793 AAAAGAAATAATAATAAAAAGA
1 AAAAGAAA-AAAAAGAAAAA-A
424815 AAACAGAAGAAAAAA-AAAAGAA
1 AAA-AGAA-AAAAAAGAAAA-AA
424837 AAAAGAAAAAAAAG--AAAA
1 AAAAGAAAAAAAAGAAAAAA
424855 AAAAGAAAAAAAAGAAAAAA
1 AAAAGAAAAAAAAGAAAAAA
424875 AAAAGAAAA
1 AAAAGAAAA
424884 TAAGGGAAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 14
0.81 0.01 0.18
Matches are distributed among these distances:
18 16 0.26
19 2 0.03
20 19 0.31
21 4 0.06
22 11 0.18
23 9 0.15
24 1 0.02
ACGTcount: A:0.85, C:0.01, G:0.11, T:0.03
Consensus pattern (20 bp):
AAAAGAAAAAAAAGAAAAAA
Found at i:424906 original size:29 final size:26
Alignment explanation
Indices: 424826--424900 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 26
424816 AACAGAAGAA
424826 AAAAAAAAGAAAAAAGAA--AAAAAAG
1 AAAAAAAAGAAAAAA-AAGGAAAAAAG
* *
424851 AAAAAAAAGAAAAAAAAGAAAAAAAA
1 AAAAAAAAGAAAAAAAAGGAAAAAAG
**
424877 AAGAAAATAAGGGAAAAAAGGAAA
1 AA-AAAA-AAGAAAAAAAAGGAAA
424901 CTAAAAGGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 2 0.05
25 15 0.36
26 8 0.19
27 4 0.10
28 13 0.31
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.01
Consensus pattern (26 bp):
AAAAAAAAGAAAAAAAAGGAAAAAAG
Found at i:427460 original size:67 final size:66
Alignment explanation
Indices: 427371--427552 Score: 224
Period size: 67 Copynumber: 2.7 Consensus size: 66
427361 TTGATCTCAC
* **
427371 TTGAGATTGTTT-TCCTCGAAACAAAGTTTCTTCTCTTTTGAGACAATTTCTCTTGAAACATAAA
1 TTGAGATTGTTTAT-CTCAAAACAAAGTTTC-TCTCGCTTGAGACAATTTCTCTTGAAACATAAA
427435 ATT
64 ATT
* * * * **
427438 TTGAGATTGTTTATATCTAAACAAAGTTTCATCTCGCTTGAGACATTTTCTTTTGAAACATAAGC
1 TTGAGATTGTTTATCTCAAAACAAAGTTTC-TCTCGCTTGAGACAATTTCTCTTGAAACATAAAA
427503 TT
65 TT
*
427505 TTGAGATTGTTTCA-CTCAAAACAAATTTTCTCTCGCTTGAGACAATTT
1 TTGAGATTGTTT-ATCTCAAAACAAAGTTTCTCTCGCTTGAGACAATTT
427553 TACCTCATAA
Statistics
Matches: 100, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
66 17 0.17
67 81 0.81
68 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (66 bp):
TTGAGATTGTTTATCTCAAAACAAAGTTTCTCTCGCTTGAGACAATTTCTCTTGAAACATAAAAT
T
Found at i:427756 original size:100 final size:100
Alignment explanation
Indices: 427564--427837 Score: 336
Period size: 100 Copynumber: 2.7 Consensus size: 100
427554 ACCTCATAAT
* * * *
427564 ACAAAATTTGAAATTG-TTCCACTTGAAACAAAATTGATCTCACTTAAGATTGTTTTACTCAAAA
1 ACAAATTTTGAAATTGTTTCC-CTTGAAACAAAATTGA-CTCACTTGAGATTGTTTTTCTTAAAA
** *
427628 CAAATTTCGTCTCATTTGAGACAGTTTCCCTTGAAAC
64 CAAATTTCACCTCATTTGAGACAATTTCCCTTGAAAC
* *
427665 ACAAATTTTGAAATTGTTTCCCTTGAAACAAAATTGA-ACATTTGAGATTGTTTTTCTTAAAAAC
1 ACAAATTTTGAAATTGTTTCCCTTGAAACAAAATTGACTCACTTGAGATTGTTTTTCTT-AAAAC
*
427729 AAATTTCACCTCATTTGAGATAATTTCCCTTGAAAC
65 AAATTTCACCTCATTTGAGACAATTTCCCTTGAAAC
* * * * * * *
427765 GCAAATTTTGAAAATGTTTCACTCGAAAGAAAATCTTATCTCACTTGAGATTGTTGTTCTTAAAA
1 ACAAATTTTGAAATTGTTTCCCTTGAAACAAAAT-TGA-CTCACTTGAGATTGTTTTTCTTAAAA
427830 CAAATTTC
64 CAAATTTC
427838 TTTCCACTCT
Statistics
Matches: 149, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
99 16 0.11
100 66 0.44
101 33 0.22
102 16 0.11
103 18 0.12
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (100 bp):
ACAAATTTTGAAATTGTTTCCCTTGAAACAAAATTGACTCACTTGAGATTGTTTTTCTTAAAACA
AATTTCACCTCATTTGAGACAATTTCCCTTGAAAC
Found at i:428582 original size:139 final size:139
Alignment explanation
Indices: 428186--428587 Score: 511
Period size: 139 Copynumber: 2.9 Consensus size: 139
428176 ATCAAACTGT
* * * * *
428186 CAAATTACAACTAGACGTCCTCAACACGAAGGAACAATATCGTCCACCGACTAGATC-TCTTCAA
1 CAAA-TACTACTAGACGTCCTCAACACGAAGGAACAATGTCGTCCACCAACCAAATCTTC-TCAA
* * * * * *
428250 TGTGAAGGAGCAGTGTCATCCTCAGATAATCAGACTTCCTCAATGCAAATGAATCGTGTTGTCTC
64 CGCGAAGAAGCAGTGTCATACTCAGATAATCAGACTTCCTCAATGCGAATGAACCGTGTTGTCTC
428315 CAAATTATCTC
129 CAAATTATCTC
* * * * * *
428326 CAAATACTACTAGACGTCCTCAACATGAAAGAATAATGTCATCCACCAACCATATCTCCTCAACG
1 CAAATACTACTAGACGTCCTCAACACGAAGGAACAATGTCGTCCACCAACCAAATCTTCTCAACG
* * * * * * *
428391 CGAAGAAGCAGTATCATACTTAGATAACCAGACTTCTTTAATACGAAGGAACCGTGTTGTCTCCA
66 CGAAGAAGCAGTGTCATACTCAGATAATCAGACTTCCTCAATGCGAATGAACCGTGTTGTCTCCA
428456 AATTATCTC
131 AATTATCTC
*
428465 CAAATA-TGGCTAGACGTCCTCAACACGAAGGAACAATGTCGTCCACCAACCAAATCTTCTCAAC
1 CAAATACT-ACTAGACGTCCTCAACACGAAGGAACAATGTCGTCCACCAACCAAATCTTCTCAAC
* * *
428529 GCGAAGAAGTAGTGTCATACTCAGACAATCAGACTTCCTCAATGCGAATGAACCATGTT
65 GCGAAGAAGCAGTGTCATACTCAGATAATCAGACTTCCTCAATGCGAATGAACCGTGTT
428588 ATCTTTAAAA
Statistics
Matches: 220, Mismatches: 40, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
138 1 0.00
139 214 0.97
140 5 0.02
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (139 bp):
CAAATACTACTAGACGTCCTCAACACGAAGGAACAATGTCGTCCACCAACCAAATCTTCTCAACG
CGAAGAAGCAGTGTCATACTCAGATAATCAGACTTCCTCAATGCGAATGAACCGTGTTGTCTCCA
AATTATCTC
Found at i:428919 original size:3 final size:3
Alignment explanation
Indices: 428911--428940 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
428901 TTTTAATTTT
428911 TTA TTA TTAA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TT
428941 TTCATGTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:431341 original size:10 final size:10
Alignment explanation
Indices: 431326--431351 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
431316 GGCGACTCCT
431326 ATTCAATTTA
1 ATTCAATTTA
431336 ATTCAATTTA
1 ATTCAATTTA
431346 ATTCAA
1 ATTCAA
431352 AAATCACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (10 bp):
ATTCAATTTA
Found at i:432228 original size:2 final size:2
Alignment explanation
Indices: 432221--432280 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
432211 ACCATATAAG
432221 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
432263 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
432281 TCTTCTCACA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:436102 original size:61 final size:60
Alignment explanation
Indices: 436030--436162 Score: 176
Period size: 61 Copynumber: 2.2 Consensus size: 60
436020 TTAAAGAATC
* * *
436030 CAATTTTATCCCCAAACTATGACTCTCATTCTAAATTAGTCCTTAAAACTTTTGAACATTT
1 CAATTTCATCCCCAAACTATGACCCTCATTCTAAATTAGT-CTCAAAACTTTTGAACATTT
* * * * * *
436091 TAATTTCATCCCTAAACTATGACCCTCTTTCTAAATTGGTCTCCAAACTTTTGAATATTT
1 CAATTTCATCCCCAAACTATGACCCTCATTCTAAATTAGTCTCAAAACTTTTGAACATTT
436151 CAATTTCATCCC
1 CAATTTCATCCC
436163 AAGTTTCATG
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 28 0.45
61 34 0.55
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (60 bp):
CAATTTCATCCCCAAACTATGACCCTCATTCTAAATTAGTCTCAAAACTTTTGAACATTT
Found at i:436400 original size:57 final size:59
Alignment explanation
Indices: 436292--436401 Score: 170
Period size: 57 Copynumber: 1.9 Consensus size: 59
436282 GTATATACAT
* *
436292 ATAGTTTGGGATGAAAATGGAATGTTAAAAAATTTTAGGGACCAATTTAAAATGAAACC
1 ATAGTTTGGGATGAAAATGAAATGTTAAAAAATTTTAAGGACCAATTTAAAATGAAACC
* *
436351 ATAGTTT-GGATGAAATTGAAATGTT-AAAAATTTTAAGGACTAATTTAAAAT
1 ATAGTTTGGGATGAAAATGAAATGTTAAAAAATTTTAAGGACCAATTTAAAAT
436402 AATAGTCATA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
57 24 0.51
58 16 0.34
59 7 0.15
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.33
Consensus pattern (59 bp):
ATAGTTTGGGATGAAAATGAAATGTTAAAAAATTTTAAGGACCAATTTAAAATGAAACC
Found at i:439606 original size:21 final size:21
Alignment explanation
Indices: 439581--439620 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
439571 GTAACAAAGT
439581 AGAAGACACATGGTGGTCGAC
1 AGAAGACACATGGTGGTCGAC
* *
439602 AGAAGACGCATTGTGGTCG
1 AGAAGACACATGGTGGTCG
439621 TCGTGTCTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.35, T:0.17
Consensus pattern (21 bp):
AGAAGACACATGGTGGTCGAC
Found at i:444024 original size:16 final size:16
Alignment explanation
Indices: 444003--444034 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
443993 AACCAAAACT
444003 TGAACTCTTCCTCCGA
1 TGAACTCTTCCTCCGA
444019 TGAACTCTTCCTCCGA
1 TGAACTCTTCCTCCGA
444035 CAGTGAGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.38, G:0.12, T:0.31
Consensus pattern (16 bp):
TGAACTCTTCCTCCGA
Found at i:445334 original size:32 final size:32
Alignment explanation
Indices: 445275--445343 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
445265 AATCGGGTAT
**
445275 CGGGTACCCGATTACCGGGTATTCGTAAAATC
1 CGGGTACCCGATTACCGGGTACCCGTAAAATC
* * *
445307 TGGGTATCCGATTACCGGGTACCCGTAACATC
1 CGGGTACCCGATTACCGGGTACCCGTAAAATC
445339 CGGGT
1 CGGGT
445344 CGGGACACGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.25
Consensus pattern (32 bp):
CGGGTACCCGATTACCGGGTACCCGTAAAATC
Found at i:445402 original size:15 final size:16
Alignment explanation
Indices: 445382--445417 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
445372 CGGAAGTTCT
445382 GGGTACCCGAAAAT-C
1 GGGTACCCGAAAATCC
445397 GGGTACCCGAAAATCC
1 GGGTACCCGAAAATCC
445413 GGGTA
1 GGGTA
445418 TCCGGATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.31, C:0.25, G:0.31, T:0.14
Consensus pattern (16 bp):
GGGTACCCGAAAATCC
Found at i:445872 original size:22 final size:22
Alignment explanation
Indices: 445846--445899 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
445836 TTTTAAAACC
*
445846 ATATACTAAAGCCCATTTTATA
1 ATATACTAAAGCCCATTGTATA
*
445868 ATATACTAAAGTCCATTGTATA
1 ATATACTAAAGCCCATTGTATA
445890 ATATACTAAA
1 ATATACTAAA
445900 CTATATAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (22 bp):
ATATACTAAAGCCCATTGTATA
Found at i:445910 original size:22 final size:22
Alignment explanation
Indices: 445864--445911 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
445854 AAGCCCATTT
* * *
445864 TATAATATACTAAAGTCCATTG
1 TATAATATACTAAACTACATAG
*
445886 TATAATATACTAAACTATATAG
1 TATAATATACTAAACTACATAG
445908 TATA
1 TATA
445912 TAAAAATGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (22 bp):
TATAATATACTAAACTACATAG
Found at i:446675 original size:87 final size:87
Alignment explanation
Indices: 446536--446698 Score: 190
Period size: 87 Copynumber: 1.9 Consensus size: 87
446526 AAAGTAGCGG
* * * * *
446536 TGTTGATTCAACTCCTTCTATGAAGAATCGAGCACAAGGTTGTTGATGATCTAACTCCTT-ATGT
1 TGTTGATCCAACTCCTTCAATGAAGAATCAAACACAA-GTTGTTGATGATCTAACTCATTCA-GT
446600 GA-AGAATCGAGTGACATGAAAAA
64 GATAGAATCGAGTGACATGAAAAA
* *
446623 TGTTGATCCAACTCCTTCAATGAAGAATCAAAC-CAA-TTTTTGATGCTAATCTACCTCATTCAG
1 TGTTGATCCAACTCCTTCAATGAAGAATCAAACACAAGTTGTTGATG---ATCTAACTCATTCAG
446686 TGATAGAATCGAG
63 TGATAGAATCGAG
446699 CAAAATTAGA
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
84 8 0.12
86 3 0.05
87 43 0.67
88 10 0.16
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (87 bp):
TGTTGATCCAACTCCTTCAATGAAGAATCAAACACAAGTTGTTGATGATCTAACTCATTCAGTGA
TAGAATCGAGTGACATGAAAAA
Found at i:448758 original size:19 final size:20
Alignment explanation
Indices: 448734--448773 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
448724 GTGGTTGTAA
448734 TTGAAT-ATGTCGTGGCAAG
1 TTGAATAATGTCGTGGCAAG
448753 TTGAATGAAATGTCGTGGCAA
1 TTGAAT--AATGTCGTGGCAA
448774 ATTCAATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
22 12 0.67
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.30
Consensus pattern (20 bp):
TTGAATAATGTCGTGGCAAG
Found at i:465696 original size:17 final size:17
Alignment explanation
Indices: 465670--465713 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
465660 GTAGTGAGCG
* *
465670 TATTAAATACTAGTTCA
1 TATTATATACTAGTACA
465687 TATTATATACTAGTACA
1 TATTATATACTAGTACA
465704 TATTATATAC
1 TATTATATAC
465714 AAGCCCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (17 bp):
TATTATATACTAGTACA
Found at i:467508 original size:41 final size:41
Alignment explanation
Indices: 467451--467532 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
467441 TGCAACAAGC
467451 CCATTACCAAATCATGGTGGGAAGGGGGTGAATACCATACA
1 CCATTACCAAATCATGGTGGGAAGGGGGTGAATACCATACA
467492 CCATTACCAAATCATGGTGGGAAGGGGGTGAATACCATACA
1 CCATTACCAAATCATGGTGGGAAGGGGGTGAATACCATACA
467533 AGAAGAAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.34, C:0.20, G:0.27, T:0.20
Consensus pattern (41 bp):
CCATTACCAAATCATGGTGGGAAGGGGGTGAATACCATACA
Found at i:469679 original size:18 final size:18
Alignment explanation
Indices: 469656--469690 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
469646 ATATTTATTC
*
469656 TTTTATTTTTATATTCTA
1 TTTTATTTTGATATTCTA
469674 TTTTATTTTGATATTCT
1 TTTTATTTTGATATTCT
469691 CTCCAAGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.06, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTATTTTGATATTCTA
Found at i:473794 original size:26 final size:27
Alignment explanation
Indices: 473748--473798 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
473738 CTGATAAATT
473748 AATACTAAAATTAAATAAATAAATACA
1 AATACTAAAATTAAATAAATAAATACA
*
473775 AATACTCAAA-TAAATAAATAAATA
1 AATACTAAAATTAAATAAATAAATA
473799 AACCATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (27 bp):
AATACTAAAATTAAATAAATAAATACA
Found at i:478502 original size:103 final size:103
Alignment explanation
Indices: 478368--478660 Score: 335
Period size: 103 Copynumber: 2.8 Consensus size: 103
478358 ACTCCTTCAT
* * *
478368 TATGAGTTAAGTTGAAA-TTGGATGACTCCCCTGT-GTGGGTTAATTC-GGATGGAAATTAACTC
1 TATGAGTTAAG-TCAAATTTGGATTACTCCCCT-TCGCGGGTTAATTCAGG-TGGAAATTAACTC
** *
478430 CTCGTTGTTGAGTTAAGCTAAATTGAAGATGAATCCTCTAC
63 CTCGTTGTTGAGTTAAGCTAAATTGAAGATGAATAATCCAC
* *
478471 TATGAGTTAAGTCAAATTTGGATTACTCCCCTTCGCGGGTTAATTCAGGTGGAAATTAGCTCCTT
1 TATGAGTTAAGTCAAATTTGGATTACTCCCCTTCGCGGGTTAATTCAGGTGGAAATTAACTCCTC
* *
478536 GTTGTTGAGTTAAGCTAAATTGAAGATGACTAATCCAT
66 GTTGTTGAGTTAAGCTAAATTGAAGATGAATAATCCAC
* * * * ** * * *
478574 TCTGAGTTAAGTCAAATTTTGATTACT-CTCTTCTACAAGTTAAGTCAGGTGGAAATTAGCTCAA
1 TATGAGTTAAGTCAAATTTGGATTACTCCCCTTC-GCGGGTTAATTCAGGTGGAAATTAACTC-C
478638 T-GTTGTTGAGTTAAGCTAAATTG
64 TCGTTGTTGAGTTAAGCTAAATTG
478661 CAGACAATTT
Statistics
Matches: 167, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
102 10 0.06
103 154 0.92
104 3 0.02
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (103 bp):
TATGAGTTAAGTCAAATTTGGATTACTCCCCTTCGCGGGTTAATTCAGGTGGAAATTAACTCCTC
GTTGTTGAGTTAAGCTAAATTGAAGATGAATAATCCAC
Found at i:488517 original size:54 final size:54
Alignment explanation
Indices: 488452--489686 Score: 1685
Period size: 54 Copynumber: 22.8 Consensus size: 54
488442 GTGAAGCAAA
*
488452 AAGAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
* * * *
488506 AAGAATATGTTCGAGTTCTATACTCCCTAAAGAAAGACGAAGCGAACCCGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
488560 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
* * *
488614 AAGAAGATGATCGAGTTCTATAGTCCCTGAAGAAAGAGGGAGCGAACCCATTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
*
488668 AAGAAGATGTTCGAGTTCTATAGTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
* * *
488722 AAGAAGATATTCGAGTTCTATACTCCATGAATAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
* *
488776 AAAAAGATGATT-GAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATG-TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
* *
488830 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGTAGCAAACCCGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
* *
488884 AAGAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGTGAACCCGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
* *
488938 AAGAACATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGTACCCGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
* * *
488992 AAGAAGATGTTTGAGTTCTATACTCCCTGAAGAAAGAGGGAGAGAACCCATTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
* * *
489046 AAGAAGATGTTCGAGTTCTATACTCCTTGAAGAAAGAGGGAGCGAACTCGTTTA
1 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
*
489100 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
* * * *
489154 AAGAAGATGTCCAAGTTCTATACTCCCTGAAGAAAAAGAGAGCGAACCCGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
* * *
489208 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAAGAAGCGAACCCATTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
* *
489262 AAGAAGATGTTCGAGTTCTATAGTCCCTGAAGAAAGAGAGAGCGAACCCGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
* *
489316 AAGAAGATGTCCGAGTTCTATACTCCCTGAAGAAAGAGGGAACGAACCCGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
*
489370 AAGAAAATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
* * * **
489424 AAGAAGATATCCGAGTTCTATACTCCCTGAAGAAAGTGGGAGCGAACCCGTAAG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
* * ** * *
489478 AAGAAGATTGTTCGAG-TCTCATACTCTCTGAAGAAATAGGGAGC-AGACATGATGG
1 AAGAAGA-TGTTCGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGCGA-ACCCGTTTG
** * * * * * *
489533 TTGAAGATTGTTTGAG-TCTCATACTCTCTGAAGAAATAGGGAGC-AGACACGATGG
1 AAGAAGA-TGTTCGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGCGA-ACCCGTTTG
** * * * * *
489588 TTGAAGATTGTTTGAG-TCTCATACTCTCTGAAGAAATAGGGAGC-AGACACGATTG
1 AAGAAGA-TGTTCGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGCGA-ACCCGTTTG
** * *
489643 TTGAAGATTGTTCGAG-TCTCATACTCTCTGAAGAAATAGGGAGC
1 AAGAAGA-TGTTCGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGC
489687 AGACATGATT
Statistics
Matches: 1082, Mismatches: 94, Indels: 9
0.91 0.08 0.01
Matches are distributed among these distances:
53 2 0.00
54 899 0.83
55 181 0.17
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.23
Consensus pattern (54 bp):
AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
Found at i:489076 original size:29 final size:29
Alignment explanation
Indices: 489043--489133 Score: 77
Period size: 29 Copynumber: 3.3 Consensus size: 29
489033 GAGAACCCAT
489043 TTGAAGAAGATGTTCGAGTTCTATACTCC
1 TTGAAGAAGATGTTCGAGTTCTATACTCC
* * *
489072 TTGAAGAAAGA-G--GGAG--CGA-ACTCGT
1 TTGAAG-AAGATGTTCGAGTTCTATACTC-C
*
489097 TTAAAGAAGATGTTCGAGTTCTATACTCC
1 TTGAAGAAGATGTTCGAGTTCTATACTCC
*
489126 CTGAAGAA
1 TTGAAGAA
489134 AGAGGGAGCG
Statistics
Matches: 45, Mismatches: 9, Indels: 16
0.64 0.13 0.23
Matches are distributed among these distances:
24 8 0.18
25 8 0.18
27 6 0.13
29 15 0.33
30 8 0.18
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (29 bp):
TTGAAGAAGATGTTCGAGTTCTATACTCC
Found at i:489805 original size:55 final size:55
Alignment explanation
Indices: 489480--489871 Score: 576
Period size: 55 Copynumber: 7.1 Consensus size: 55
489470 CCCGTAAGAA
* *
489480 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACATGATGGTT
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
* *
489535 GAAGATTGTTTGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATGGTT
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
*
489590 GAAGATTGTTTGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
*
489645 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACATGATTGTT
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
* * * * *
489700 GAAGATTGTTTGAGTTTCATACTCTCTGAAAAAATAGGGAGCATG-TACGATTCTT
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCA-GACACGATTGTT
* *
489755 GAAGATTGTTCGAGTCTCATACTCTCTGATA-AAATAGGGAGTAGACACGATTGTG
1 GAAGATTGTTCGAGTCTCATACTCTCTGA-AGAAATAGGGAGCAGACACGATTGTT
* * *
489810 GAAGATTGCTCGAGT-TCTATACTGC-CTGAAGGAATAGGGAGCAGACACGATTGTA
1 GAAGATTGTTCGAGTCTC-ATACT-CTCTGAAGAAATAGGGAGCAGACACGATTGTT
489865 GAAGATT
1 GAAGATT
489872 CTTTTTAAAA
Statistics
Matches: 310, Mismatches: 21, Indels: 12
0.90 0.06 0.03
Matches are distributed among these distances:
54 4 0.01
55 303 0.98
56 3 0.01
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (55 bp):
GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
Found at i:492695 original size:100 final size:101
Alignment explanation
Indices: 492558--492846 Score: 275
Period size: 100 Copynumber: 2.8 Consensus size: 101
492548 CCTTCATCAT
* * * * * * **
492558 GAGTTAAGTCAAATTTGGACGACTCACCTATGCGGGTTATGTCCGGTGGAAATTAGCTTCTTTTT
1 GAGTTAAGT-AAATTTGGATGACTCCCCTATGCGGGTTAAGTCAGATGGAAATTAGATTCTCATT
* * * *
492623 GTTGAGTTAAGCTAAATTGC-A-GACTCCTCCATTGC
65 GTTGAGTTAAGCTAAATTACAACAACTCATCCATTAC
* *
492658 GAGTTAAGTAGAATTTGGATGACTCCCCTCTGTGGGTTAAGTCAGATGGAAATTAGATTCTCATT
1 GAGTTAAGTA-AATTTGGATGACTCCCCTATGCGGGTTAAGTCAGATGGAAATTAGATTCTCATT
* *
492723 GTTGAGTTAAGCTAGATTACAAACAACTCATCCATTAT
65 GTTGAGTTAAGCTAAATTAC-AACAACTCATCCATTAC
* * * * *
492761 GAGTTAAGTCAATTTCGGATGACTCCCCT-TAGAGGGTTAAGTTAGGTGGAACTTAGA---TCAT
1 GAGTTAAGTAAATTT-GGATGACTCCCCTAT-GCGGGTTAAGTCAGATGGAAATTAGATTCTCAT
492822 TGTTATAGAGTTAAGCTAAATTACA
64 TG-T-T-GAGTTAAGCTAAATTACA
492847 GATGACTCCT
Statistics
Matches: 158, Mismatches: 22, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
99 1 0.01
100 77 0.49
101 1 0.01
102 9 0.06
103 70 0.44
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (101 bp):
GAGTTAAGTAAATTTGGATGACTCCCCTATGCGGGTTAAGTCAGATGGAAATTAGATTCTCATTG
TTGAGTTAAGCTAAATTACAACAACTCATCCATTAC
Found at i:492798 original size:103 final size:99
Alignment explanation
Indices: 492556--492887 Score: 280
Period size: 103 Copynumber: 3.3 Consensus size: 99
492546 ATCCTTCATC
* * * * * * *
492556 ATGAGTTAAGTCAAATTTGGACGACTCACC-TATGCGGGTTATGTCCGGTGGAAATTAGCTTCTT
1 ATGAGTTAAGTC-AATTTGGATGACTCCCCTTA-GAGGGTTAAGTCAGGTGGAAATTAGATTCTC
* * * *
492620 TTTGTTGAGTTAAGCTAAATTGCAGACTCCTCCATT
64 ATTGTTGAGTTAAGCTAAATTACAAACTCATCCATT
** * * *
492656 GCGAGTTAAGTAGAATTTGGATGACTCCCCTCT-GTGGGTTAAGTCAGATGGAAATTAGATTCTC
1 ATGAGTTAAGT-CAATTTGGATGACTCCCCT-TAGAGGGTTAAGTCAGGTGGAAATTAGATTCTC
*
492720 ATTGTTGAGTTAAGCTAGATTACAAACAACTCATCCATT
64 ATTGTTGAGTTAAGCTAAATTAC--A-AACTCATCCATT
* *
492759 ATGAGTTAAGTCAATTTCGGATGACTCCCCTTAGAGGGTTAAGTTAGGTGGAACTTAGA---TCA
1 ATGAGTTAAGTCAATTT-GGATGACTCCCCTTAGAGGGTTAAGTCAGGTGGAAATTAGATTCTCA
*
492821 TTGTTATAGAGTTAAGCTAAATTACAGATGACTCCTCCATT
65 TTG-T-T-GAGTTAAGCTAAATTACA-A--ACTCATCCATT
* *
492862 GTTAGTTATA-TCAAATTTGGATGACT
1 ATGAGTTA-AGTC-AATTTGGATGACT
492888 TCTTTTTTGT
Statistics
Matches: 189, Mismatches: 28, Indels: 27
0.77 0.11 0.11
Matches are distributed among these distances:
100 75 0.40
101 3 0.02
102 9 0.05
103 96 0.51
104 6 0.03
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (99 bp):
ATGAGTTAAGTCAATTTGGATGACTCCCCTTAGAGGGTTAAGTCAGGTGGAAATTAGATTCTCAT
TGTTGAGTTAAGCTAAATTACAAACTCATCCATT
Found at i:499598 original size:20 final size:20
Alignment explanation
Indices: 499573--499612 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
499563 CCGTTGTAGC
* *
499573 CAGGGTGTATGGATACACTA
1 CAGGGTATATCGATACACTA
499593 CAGGGTATATCGATACACTA
1 CAGGGTATATCGATACACTA
499613 GTGCATGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (20 bp):
CAGGGTATATCGATACACTA
Found at i:500014 original size:18 final size:19
Alignment explanation
Indices: 499967--500023 Score: 71
Period size: 18 Copynumber: 2.9 Consensus size: 19
499957 ATGTTTAATG
499967 AAAAAGATACCAATTGTTAA
1 AAAAAGATACCAATTGTT-A
**
499987 AAAAAGGATATTAATTGTT-
1 AAAAA-GATACCAATTGTTA
500006 AAAAAGATACCAATTGTT
1 AAAAAGATACCAATTGTT
500024 GGAAAATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 11 0.34
19 5 0.16
20 5 0.16
21 11 0.34
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (19 bp):
AAAAAGATACCAATTGTTA
Found at i:503142 original size:20 final size:18
Alignment explanation
Indices: 503116--503188 Score: 78
Period size: 20 Copynumber: 3.9 Consensus size: 18
503106 TTTGCAGCCA
*
503116 AGGTGTATGGATACACTAC
1 AGGTGTATCGATACACT-C
503135 AGGGTGTATCGATACACT-
1 A-GGTGTATCGATACACTC
*
503153 A-GTGTATGGATACACTC
1 AGGTGTATCGATACACTC
503170 ATAGGTGTATCGATACACT
1 --AGGTGTATCGATACACT
503189 ATTTACATTC
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
16 14 0.30
18 1 0.02
19 2 0.04
20 29 0.63
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (18 bp):
AGGTGTATCGATACACTC
Found at i:503165 original size:36 final size:36
Alignment explanation
Indices: 503118--503189 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
503108 TGCAGCCAAG
*
503118 GTGTATGGATACACTACA-GGGTGTATCGATACACTA
1 GTGTATGGATACACT-CATAGGTGTATCGATACACTA
503154 GTGTATGGATACACTCATAGGTGTATCGATACACTA
1 GTGTATGGATACACTCATAGGTGTATCGATACACTA
503190 TTTACATTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 2 0.06
36 32 0.94
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (36 bp):
GTGTATGGATACACTCATAGGTGTATCGATACACTA
Found at i:503246 original size:20 final size:20
Alignment explanation
Indices: 503221--503269 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
503211 GTCATAGGTG
*
503221 TATGGATACACTGCAGGGTA
1 TATGGATACACTGCAGCGTA
*
503241 TATGGATACACTGCAGCGTG
1 TATGGATACACTGCAGCGTA
503261 TATGGATAC
1 TATGGATAC
503270 CCTTTGACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (20 bp):
TATGGATACACTGCAGCGTA
Found at i:503933 original size:15 final size:15
Alignment explanation
Indices: 503915--503962 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
503905 ATTCCTAAAT
503915 AAAATAATCAAACTA
1 AAAATAATCAAACTA
*
503930 AAAATCAT-AAA-TA
1 AAAATAATCAAACTA
503943 AAAATAATCAAACTA
1 AAAATAATCAAACTA
503958 AAAAT
1 AAAAT
503963 TCTAAATCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 9 0.31
14 6 0.21
15 14 0.48
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAATAATCAAACTA
Found at i:503942 original size:27 final size:28
Alignment explanation
Indices: 503910--503962 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
503900 AACTAATTCC
503910 TAAAT-AAAATAATCAAACTAAAAATCA
1 TAAATAAAAATAATCAAACTAAAAATCA
503937 TAAATAAAAATAATCAAACTAAAAAT
1 TAAATAAAAATAATCAAACTAAAAAT
503963 TCTAAATCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (28 bp):
TAAATAAAAATAATCAAACTAAAAATCA
Found at i:503960 original size:14 final size:14
Alignment explanation
Indices: 503914--503960 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
503904 AATTCCTAAA
503914 TAAAATAATCAAAC
1 TAAAATAATCAAAC
*
503928 T-AAA-AATCATAAA
1 TAAAATAATCA-AAC
503941 TAAAAATAATCAAAC
1 T-AAAATAATCAAAC
503956 TAAAA
1 TAAAA
503961 ATTCTAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
12 5 0.19
13 6 0.22
14 5 0.19
15 6 0.22
16 5 0.19
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAAATAATCAAAC
Found at i:503968 original size:28 final size:27
Alignment explanation
Indices: 503904--503969 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 27
503894 CAAAATAACT
503904 AATTCCTAAATAAAATAATCAAACTAAA
1 AATT-CTAAATAAAATAATCAAACTAAA
503932 AA-TCATAAATAAAAATAATCAAACTAAA
1 AATTC-TAAAT-AAAATAATCAAACTAAA
503960 AATTCTAAAT
1 AATTCTAAAT
503970 CTAAAAGGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
26 1 0.03
27 6 0.17
28 26 0.74
29 2 0.06
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (27 bp):
AATTCTAAATAAAATAATCAAACTAAA
Found at i:510859 original size:46 final size:45
Alignment explanation
Indices: 510799--510915 Score: 164
Period size: 46 Copynumber: 2.6 Consensus size: 45
510789 TTATTCATTA
* *
510799 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGT
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCAT-CATTCATGC
*
510845 ATTTCATTTATGGCATCATTTCATGCCTTAATGCATCATTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCATTCATGC
* *
510890 ATTTTAGTTAAT-GCATCCTTTCATGC
1 ATTTCA-TTTATGGCATCCTTTCATGC
510916 ATTTTAGTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
45 25 0.39
46 39 0.61
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.44
Consensus pattern (45 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCATTCATGC
Found at i:510901 original size:25 final size:26
Alignment explanation
Indices: 510872--511079 Score: 104
Period size: 26 Copynumber: 8.7 Consensus size: 26
510862 ATTTCATGCC
510872 TTAATGCAT-CATTCATGCATTTTAG
1 TTAATGCATCCATTCATGCATTTTAG
*
510897 TTAATGCATCCTTTCATGCATTTTAG
1 TTAATGCATCCATTCATGCATTTTAG
**
510923 TT-ATGACAT-CATT--T-CA--TTCC
1 TTAATG-CATCCATTCATGCATTTTAG
*
510943 TTAATGCATCCTTTCATGCATTTTAG
1 TTAATGCATCCATTCATGCATTTTAG
* * *
510969 TT-ATGGCATTCTTTCATGC------C
1 TTAAT-GCATCCATTCATGCATTTTAG
* *
510989 TTAATGCGTCCTTTCATGCATTTTAG
1 TTAATGCATCCATTCATGCATTTTAG
* *
511015 TT-ATGGCATCCTTTCATGC------C
1 TTAAT-GCATCCATTCATGCATTTTAG
511035 TTAATGCAT-CATTTCATGCATTTTAG
1 TTAATGCATCCA-TTCATGCATTTTAG
511061 TT-ATGTCATCCATTCATGC
1 TTAATG-CATCCATTCATGC
511080 CTTAATGCAT
Statistics
Matches: 139, Mismatches: 16, Indels: 55
0.66 0.08 0.26
Matches are distributed among these distances:
19 1 0.01
20 34 0.24
21 10 0.07
22 2 0.01
23 2 0.01
24 2 0.01
25 22 0.16
26 64 0.46
27 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (26 bp):
TTAATGCATCCATTCATGCATTTTAG
Found at i:510905 original size:71 final size:72
Alignment explanation
Indices: 510826--510987 Score: 238
Period size: 71 Copynumber: 2.3 Consensus size: 72
510816 CTTTCATGCC
* * *
510826 TTAATGCATCCTTTCATGTATTTCATTTATGGCATCATTTCATGCCTTAATGCAT-CATTCATGC
1 TTAATGCATCCTTTCATGCATTTCAGTTATGACATCATTTCATGCCTTAATGCATCCATTCATGC
510890 ATTTTAG
66 ATTTTAG
* * *
510897 TTAATGCATCCTTTCATGCATTTTAGTTATGACATCATTTCATTCCTTAATGCATCCTTTCATGC
1 TTAATGCATCCTTTCATGCATTTCAGTTATGACATCATTTCATGCCTTAATGCATCCATTCATGC
510962 ATTTTAG
66 ATTTTAG
*
510969 TT-ATGGCATTCTTTCATGC
1 TTAAT-GCATCCTTTCATGC
510988 CTTAATGCGT
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
71 52 0.63
72 30 0.37
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.46
Consensus pattern (72 bp):
TTAATGCATCCTTTCATGCATTTCAGTTATGACATCATTTCATGCCTTAATGCATCCATTCATGC
ATTTTAG
Found at i:510951 original size:46 final size:46
Alignment explanation
Indices: 510897--511120 Score: 328
Period size: 46 Copynumber: 4.9 Consensus size: 46
510887 TGCATTTTAG
*
510897 TTAATGCATCCTTTCATGCATTTTAGTTATGACATCATTTCATTCC
1 TTAATGCATCCTTTCATGCATTTTAGTTATGACATCATTTCATGCC
*
510943 TTAATGCATCCTTTCATGCATTTTAGTTATGGCATTC-TTTCATGCC
1 TTAATGCATCCTTTCATGCATTTTAGTTATGACA-TCATTTCATGCC
* * *
510989 TTAATGCGTCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCC
1 TTAATGCATCCTTTCATGCATTTTAGTTATGACATCATTTCATGCC
* *
511035 TTAATGCATCATTTCATGCATTTTAGTTATGTCATCCA-TTCATGCC
1 TTAATGCATCCTTTCATGCATTTTAGTTATGACAT-CATTTCATGCC
*
511081 TTAATGCATCCTTTTATGCATTTTAGTTATGA-ATTCATTT
1 TTAATGCATCCTTTCATGCATTTTAGTTATGACA-TCATTT
511121 TAGAGCAGTT
Statistics
Matches: 163, Mismatches: 10, Indels: 10
0.89 0.05 0.05
Matches are distributed among these distances:
45 5 0.03
46 155 0.95
47 3 0.02
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.46
Consensus pattern (46 bp):
TTAATGCATCCTTTCATGCATTTTAGTTATGACATCATTTCATGCC
Found at i:517918 original size:46 final size:46
Alignment explanation
Indices: 517868--518423 Score: 467
Period size: 46 Copynumber: 11.9 Consensus size: 46
517858 CATTCATGAT
* *
517868 ATCCTTTCATGCCTTAATGCATCCTTTCATACATTTCATTTATGGC
1 ATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCAGTTATGGC
* * * *
517914 ATCCTTTTCATACCTCAATGCATCATTTCATGCATTTTAGTTATGGC
1 ATCC-TTTCATGCCTTAATGCATCCTTTCATGCATTTCAGTTATGGC
* * * *
517961 ATCCTTTTCATACCTCAATGCATCATTTCATGCATTTTAGTTA-GGC
1 ATCC-TTTCATGCCTTAATGCATCCTTTCATGCATTTCAGTTATGGC
* * *
518007 ATCCTTTCATGCCTTAATGCATCCTTCCATTCATTTTAGTTATGGC
1 ATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCAGTTATGGC
* * * *
518053 ATCCTTTCATGCCTTAATGTATCATTTCATGCATTTTAGTTATGGT
1 ATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCAGTTATGGC
*
518099 ATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGC
1 ATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCAGTTATGGC
* * *
518145 ATCCTTTTATACCTTAATGCATCCTTTCATGCA-TTCTAGTTATGAC
1 ATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTC-AGTTATGGC
* * *
518191 ATCTTTTCATGCATTCTAGTTATGGCATCCTTTCATGC-CTT-A---AT-GC
1 ATCCTTTCATGC---CT--TAAT-GCATCCTTTCATGCATTTCAGTTATGGC
* * *
518237 ATCCTTTCATTCATTTTAGTTATGGCATCCTTTCATGC-CTT-A---AT-GC
1 ATCCTTTCATGC--CTTA---AT-GCATCCTTTCATGCATTTCAGTTATGGC
*
518283 ATCCTTTCATGCATTCTAGTTATGACATCCTTTCATGCA-TTCTAGTTATGGC
1 ATCCTTTCATGC---CT--TAATG-CATCCTTTCATGCATTTC-AGTTATGGC
* * * * * *
518335 ATCCTTTCATGCCTTAATACATCATTTCATTCATTTTATTTATTGC
1 ATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCAGTTATGGC
* * * *
518381 ATTCTTTCATGCCTTAATACATCCTTTCATGCGTTTTAGTTAT
1 ATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCAGTTAT
518424 AAATTCGTTT
Statistics
Matches: 436, Mismatches: 49, Indels: 50
0.81 0.09 0.09
Matches are distributed among these distances:
43 1 0.00
45 38 0.09
46 267 0.61
47 88 0.20
48 1 0.00
49 5 0.01
50 1 0.00
51 5 0.01
52 30 0.07
ACGTcount: A:0.22, C:0.23, G:0.11, T:0.45
Consensus pattern (46 bp):
ATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCAGTTATGGC
Found at i:517941 original size:38 final size:39
Alignment explanation
Indices: 517899--517991 Score: 107
Period size: 47 Copynumber: 2.2 Consensus size: 39
517889 TCCTTTCATA
517899 CATTTCAT-TTATGGCATCCTTTTCATACCTCAATGCAT
1 CATTTCATATTATGGCATCCTTTTCATACCTCAATGCAT
517937 CATTTCATGCATTTTAGTTATGGCATCCTTTTCATACCTCAATGCAT
1 CA-TT--T-CA---TA-TTATGGCATCCTTTTCATACCTCAATGCAT
517984 CATTTCAT
1 CATTTCAT
517992 GCATTTTAGT
Statistics
Matches: 46, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
38 2 0.04
39 2 0.04
40 1 0.02
41 1 0.02
42 2 0.04
43 2 0.04
44 1 0.02
45 1 0.02
46 2 0.04
47 32 0.70
ACGTcount: A:0.24, C:0.25, G:0.09, T:0.43
Consensus pattern (39 bp):
CATTTCATATTATGGCATCCTTTTCATACCTCAATGCAT
Found at i:518048 original size:92 final size:92
Alignment explanation
Indices: 517868--518423 Score: 526
Period size: 92 Copynumber: 6.0 Consensus size: 92
517858 CATTCATGAT
* * * * * * *
517868 ATCCTTTCATGCCTTAATGCATCCTTTCATACATTTCATTTATGGCATCCTTTTCATACCTCAAT
1 ATCCTTTCATACCTTAATGCATCATTTCATGCATTTTAGTTATGGCATCC-TTTCATGCCTTAAT
*
517933 GCATCATTTCATGCATTTTAGTTATGGC
65 GCATCCTTTCATGCATTTTAGTTATGGC
*
517961 ATCCTTTTCATACCTCAATGCATCATTTCATGCATTTTAGTTA-GGCATCCTTTCATGCCTTAAT
1 ATCC-TTTCATACCTTAATGCATCATTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAAT
* *
518025 GCATCCTTCCATTCATTTTAGTTATGGC
65 GCATCCTTTCATGCATTTTAGTTATGGC
* * *
518053 ATCCTTTCATGCCTTAATGTATCATTTCATGCATTTTAGTTATGGTATCCTTTCATGCCTTAATG
1 ATCCTTTCATACCTTAATGCATCATTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATG
518118 CATCCTTTCATGCATTTTAGTTATGGC
66 CATCCTTTCATGCATTTTAGTTATGGC
* * * * *
518145 ATCCTTTTATACCTTAATGCATCCTTTCATGCATTCTAGTTATGACATCTTTTCATGCATTCTAG
1 ATCCTTTCATACCTTAATGCATCATTTCATGCATTTTAGTTATGGCATCCTTTCATGC---CT--
* *
518210 TTATGGCATCCTTTCATGC--CTTA---AT-GC
61 TAAT-GCATCCTTTCATGCATTTTAGTTATGGC
** * *
518237 ATCCTTTCATTCATTTTAGTTATGGCATCCTTTCATGC--CTTA---AT-GCATCCTTTCATGCA
1 ATCCTTTCA-T-ACCTTA---AT-GCATCATTTCATGCATTTTAGTTATGGCATCCTTTCATGC-
* *
518296 TTCTAGTTATGACATCCTTTCATGCATTCTAGTTATGGC
59 --CT--TAATG-CATCCTTTCATGCATTTTAGTTATGGC
* * * * * * *
518335 ATCCTTTCATGCCTTAATACATCATTTCATTCATTTTATTTATTGCATTCTTTCATGCCTTAATA
1 ATCCTTTCATACCTTAATGCATCATTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATG
*
518400 CATCCTTTCATGCGTTTTAGTTAT
66 CATCCTTTCATGCATTTTAGTTAT
518424 AAATTCGTTT
Statistics
Matches: 388, Mismatches: 48, Indels: 55
0.79 0.10 0.11
Matches are distributed among these distances:
91 36 0.09
92 216 0.56
93 21 0.05
94 41 0.11
95 4 0.01
96 8 0.02
97 10 0.03
98 52 0.13
ACGTcount: A:0.22, C:0.23, G:0.11, T:0.45
Consensus pattern (92 bp):
ATCCTTTCATACCTTAATGCATCATTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATG
CATCCTTTCATGCATTTTAGTTATGGC
Found at i:518347 original size:72 final size:70
Alignment explanation
Indices: 517884--518392 Score: 276
Period size: 72 Copynumber: 7.2 Consensus size: 70
517874 TCATGCCTTA
* * * * *
517884 ATGCATCCTTTCATACATT-TCATTTATGGCATCCTTTTCATACCTCAATGCATCATTTCATGCA
1 ATGCATCCTTTCATGCATTCT-AGTTATGGCATCC-TTTCATGCCTTAATGCATCCTTTCATGCA
*
517948 TTTTAGTT
64 TTCTA-TT
* * * * *
517956 ATGGCATCCTTTTCATAC-CTC-A---AT-GCATCATTTCATGCATTTTAGTTAGGCATCCTTTC
1 AT-GCATCC-TTTCATGCATTCTAGTTATGGCATCCTTTCATGC--CTTA---ATGCATCCTTTC
*
518015 ATGC---CT-TA
59 ATGCATTCTATT
* * * * *
518023 ATGCATCCTTCCATTCATTTTAGTTATGGCATCCTTTCATGCCTTAATGTATCATTTCATGCATT
1 ATGCATCCTTTCATGCATTCTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATT
*
518088 TTAGTT
66 CTA-TT
* * * *
518094 ATGGTATCCTTTCATGC---CT--TAAT-GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTT
1 AT-GCATCCTTTCATGCATTCTAGTTATGGCATCCTTTCATGC--CTTA---AT-GCATCCTTTC
* *
518153 AT--A-CCT-TA
59 ATGCATTCTATT
* * *
518161 ATGCATCCTTTCATGCATTCTAGTTATGACATCTTTTCATGCATTCTAGTTATGGCATCCTTTCA
1 ATGCATCCTTTCATGCATTCTAGTTATGGCATCCTTTCATGC---CT--TAAT-GCATCCTTTCA
*
518226 TGC---CT-TA
60 TGCATTCTATT
* *
518233 ATGCATCCTTTCATTCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATT
1 ATGCATCCTTTCATGCATTCTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATT
518298 CTAGTT
66 CTA-TT
* * *
518304 ATGACATCCTTTCATGCATTCTAGTTATGGCATCCTTTCATGCCTTAATACATCATTTCATTCAT
1 ATG-CATCCTTTCATGCATTCTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCAT
*
518369 TTTATTT
65 TCTA-TT
*
518376 ATTGCATTCTTTCATGC
1 A-TGCATCCTTTCATGC
518393 CTTAATACAT
Statistics
Matches: 339, Mismatches: 54, Indels: 88
0.70 0.11 0.18
Matches are distributed among these distances:
65 6 0.02
66 61 0.18
67 20 0.06
68 8 0.02
69 17 0.05
70 3 0.01
71 25 0.07
72 179 0.53
73 11 0.03
74 8 0.02
75 1 0.00
ACGTcount: A:0.22, C:0.23, G:0.11, T:0.44
Consensus pattern (70 bp):
ATGCATCCTTTCATGCATTCTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATT
CTATT
Found at i:518390 original size:164 final size:164
Alignment explanation
Indices: 517981--518423 Score: 576
Period size: 164 Copynumber: 2.7 Consensus size: 164
517971 TACCTCAATG
* * * * *
517981 CATCATTTCATGCATTTTAGTTA-GGCATCCTTTCATGCCTTAATGCATCCTTCCATTCATTTTA
1 CATCCTTTCATGCATTCTAGTTATGGCATCCTTTCATGCCTTAATACATCATTTCATTCATTTTA
* * *
518045 GTTATGGCATCCTTTCATGCCTTAATGTATCATTTCATGCATTTTAGTTATGGTATCCTTTCATG
66 GTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATG
* *
518110 CCTTAATGCATCCTTTCATGCATTTTAGTTATGG
131 CCTTAATGCATCCTTTCATGCATTCTAGTTATGA
* * * * * *
518144 CATCCTTTTAT--A-CCT--TAAT-GCATCCTTTCATGCATTCTAGTTATGACATCTTTTCATGC
1 CATCCTTTCATGCATTCTAGTTATGGCATCCTTTCATGC---CT--TAAT-ACATCATTTCATTC
* *
518203 ATTCTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATTCATTTTAGTTATGGCATCCT
60 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGCATCCT
518268 TTCATGCCTTAATGCATCCTTTCATGCATTCTAGTTATGA
125 TTCATGCCTTAATGCATCCTTTCATGCATTCTAGTTATGA
518308 CATCCTTTCATGCATTCTAGTTATGGCATCCTTTCATGCCTTAATACATCATTTCATTCATTTTA
1 CATCCTTTCATGCATTCTAGTTATGGCATCCTTTCATGCCTTAATACATCATTTCATTCATTTTA
* * * * *
518373 TTTATTGCATTCTTTCATGCCTTAATACATCCTTTCATGCGTTTTAGTTAT
66 GTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTAT
518424 AAATTCGTTT
Statistics
Matches: 237, Mismatches: 30, Indels: 25
0.81 0.10 0.09
Matches are distributed among these distances:
158 16 0.07
160 1 0.00
161 3 0.01
163 12 0.05
164 180 0.76
165 3 0.01
166 1 0.00
167 4 0.02
169 3 0.01
170 14 0.06
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.45
Consensus pattern (164 bp):
CATCCTTTCATGCATTCTAGTTATGGCATCCTTTCATGCCTTAATACATCATTTCATTCATTTTA
GTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATG
CCTTAATGCATCCTTTCATGCATTCTAGTTATGA
Found at i:518421 original size:118 final size:118
Alignment explanation
Indices: 518077--518423 Score: 568
Period size: 118 Copynumber: 2.9 Consensus size: 118
518067 TAATGTATCA
* * *
518077 TTTCATGCATTTTAGTTATGGTATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTAT
1 TTTCATGCATTCTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATTCATTTTAGTTAT
* * *
518142 GGCATCCTTTTATACCTTAATGCATCCTTTCATGCATTCTAGTTATGACATCT
66 GGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTCTAGTTATGACATCC
518195 TTTCATGCATTCTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATTCATTTTAGTTAT
1 TTTCATGCATTCTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATTCATTTTAGTTAT
518260 GGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTCTAGTTATGACATCC
66 GGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTCTAGTTATGACATCC
* * *
518313 TTTCATGCATTCTAGTTATGGCATCCTTTCATGCCTTAATACATCATTTCATTCATTTTATTTAT
1 TTTCATGCATTCTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATTCATTTTAGTTAT
* * * * *
518378 TGCATTCTTTCATGCCTTAATACATCCTTTCATGCGTTTTAGTTAT
66 GGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTCTAGTTAT
518424 AAATTCGTTT
Statistics
Matches: 215, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 215 1.00
ACGTcount: A:0.21, C:0.22, G:0.11, T:0.46
Consensus pattern (118 bp):
TTTCATGCATTCTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATTCATTTTAGTTAT
GGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTCTAGTTATGACATCC
Found at i:519045 original size:95 final size:96
Alignment explanation
Indices: 518845--519023 Score: 240
Period size: 95 Copynumber: 1.9 Consensus size: 96
518835 TACTACCCAG
* * * * * *
518845 GTATCGATATTTCTATACTATGGTATTGATACCCCCTTTCAGTATCGATACCATTTCTATATTCT
1 GTATCGATACTACTATACTACGGTATCGATACCCCCTTTCAGTATCAATACCATTTCTACATTCT
* *
518910 GTGTTTGCATGGTATCGATACCTTTCTCTCA
66 GTGTATCCATGGTATCGATACCTTTCTCTCA
*
518941 GTATCGATACTACTATACTACGGTATCGATA-CCTCTTTCAGTATCAATACCATTT-TGACATTC
1 GTATCGATACTACTATACTACGGTATCGATACCCCCTTTCAGTATCAATACCATTTCT-ACATTC
519004 TG-G-ATCCATGGTATCGATAC
65 TGTGTATCCATGGTATCGATAC
519024 TTCCCTTTGT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
93 15 0.21
94 2 0.03
95 29 0.40
96 27 0.37
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (96 bp):
GTATCGATACTACTATACTACGGTATCGATACCCCCTTTCAGTATCAATACCATTTCTACATTCT
GTGTATCCATGGTATCGATACCTTTCTCTCA
Found at i:528611 original size:19 final size:19
Alignment explanation
Indices: 528566--528611 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
528556 AGATCAGCAA
*
528566 TAGGGATCGGTTCATTATG
1 TAGGGATTGGTTCATTATG
*
528585 TAGGGATTGGTTTATTATG
1 TAGGGATTGGTTCATTATG
528604 TAGGGATT
1 TAGGGATT
528612 TTGTGTCAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.22, C:0.04, G:0.33, T:0.41
Consensus pattern (19 bp):
TAGGGATTGGTTCATTATG
Found at i:529233 original size:22 final size:22
Alignment explanation
Indices: 529206--529254 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
529196 TTTGGATTAA
529206 CAATGGCTATCGATGTTAACAC
1 CAATGGCTATCGATGTTAACAC
529228 CAATGGCTATCGATGTTAACAC
1 CAATGGCTATCGATGTTAACAC
529250 CAATG
1 CAATG
529255 CTACTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (22 bp):
CAATGGCTATCGATGTTAACAC
Found at i:530026 original size:36 final size:36
Alignment explanation
Indices: 529986--530125 Score: 167
Period size: 36 Copynumber: 3.9 Consensus size: 36
529976 TATGTCCCTT
* *
529986 GAAAGACACATGTTGATGAAGCATTGTGTCTATTTG
1 GAAAGACACCTCTTGATGAAGCATTGTGTCTATTTG
* *
530022 GAAAGACACCTCTTGATGAAGCATTATGTCTCTTTG
1 GAAAGACACCTCTTGATGAAGCATTGTGTCTATTTG
* * * *
530058 GAAAGACTCCTCTTGATGAATCATTGTATCTCTTT-
1 GAAAGACACCTCTTGATGAAGCATTGTGTCTATTTG
*
530093 GAATAGGA-ACCTCTTGATGAAGCATTCTGTCTA
1 GAA-A-GACACCTCTTGATGAAGCATTGTGTCTA
530126 GACACCTCTT
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
35 3 0.03
36 84 0.94
37 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (36 bp):
GAAAGACACCTCTTGATGAAGCATTGTGTCTATTTG
Found at i:530317 original size:77 final size:77
Alignment explanation
Indices: 530196--530348 Score: 209
Period size: 77 Copynumber: 2.0 Consensus size: 77
530186 TCTTGTCGCC
* *
530196 GTTGGAAGTGGATGAAGGCATCTCTTCATCTTATTGGCCCTTGGAAGTGAAGAAAAGAAATTATT
1 GTTGGAAGTGGAGGAAGGCATCTCTTCATCTTATTGGCCCTTGGAAGTGAAGAAAAGAAACTATT
530261 CTCCTTGTAGTA
66 CTCCTTGTAGTA
* * *** * *
530273 GTTGGTAGTGGAGGAAGGCGTCTCTTCATCTTACTT-GTTGTTGGAAGTGAAGAAAGGAAACTCT
1 GTTGGAAGTGGAGGAAGGCATCTCTTCATCTTA-TTGGCCCTTGGAAGTGAAGAAAAGAAACTAT
530337 TCTCCTTGTAGT
65 TCTCCTTGTAGT
530349 CATTGGATCC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
77 64 0.97
78 2 0.03
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.33
Consensus pattern (77 bp):
GTTGGAAGTGGAGGAAGGCATCTCTTCATCTTATTGGCCCTTGGAAGTGAAGAAAAGAAACTATT
CTCCTTGTAGTA
Found at i:530944 original size:21 final size:21
Alignment explanation
Indices: 530898--530952 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
530888 TTTAAATACG
*
530898 TTAAAATATAACTAAAAACTAA
1 TTAAAATA-AAATAAAAACTAA
530920 -TAAAATAAAATAAAAA-TCAA
1 TTAAAATAAAATAAAAACT-AA
*
530940 TT-AAAGAAAATAA
1 TTAAAATAAAATAA
530953 TAATGACATG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 1 0.03
20 20 0.69
21 8 0.28
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (21 bp):
TTAAAATAAAATAAAAACTAA
Found at i:536828 original size:134 final size:132
Alignment explanation
Indices: 536567--536828 Score: 303
Period size: 132 Copynumber: 2.0 Consensus size: 132
536557 GGATGAATCC
* * *
536567 TTCGACGTGAAGTTGAGTTAATCTCGAATGACTCAAGCCTAATATCCTTCATCTTGAAGTTGAAA
1 TTCGACGTGAAGTTGAGTTAATCTCGAATGACTCAAGCATAATATCCTTCAGCGTGAAGTTGAAA
* * * * * * *
536632 TTTGACTCGAAATCTAGGTTGAAAATAGCTCCTTGTTGTTGAGTTAAGTTAAATTATGGTTGAGT
66 TTAGACTCAAAATCTAGGTAGAAAATAGCTCCTTATTGTTGAGTTAAGCTAAATAATAGTTGAGT
536697 CA
131 CA
* * * * ** *
536699 TTCGTCGTGAAGTTGAGTTGATCTTGGATGACTTGAGCATGATATCCTTCACGCGTGAAGTTGAA
1 TTCGACGTGAAGTTGAGTTAATCTCGAATGACTCAAGCATAATATCCTTCA-GCGTGAAGTTGAA
* *
536764 ATCTAG-CTCAAAATCT-GGACTAGGAAATAGCTCTTTATTGTTGAGTTAAGCTAAATAATAGTT
65 AT-TAGACTCAAAATCTAGG--TAGAAAATAGCTCCTTATTGTTGAGTTAAGCTAAATAATAGTT
536827 GA
127 GA
536829 TTATGAGTGT
Statistics
Matches: 107, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
132 45 0.42
133 22 0.21
134 40 0.37
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (132 bp):
TTCGACGTGAAGTTGAGTTAATCTCGAATGACTCAAGCATAATATCCTTCAGCGTGAAGTTGAAA
TTAGACTCAAAATCTAGGTAGAAAATAGCTCCTTATTGTTGAGTTAAGCTAAATAATAGTTGAGT
CA
Found at i:537064 original size:79 final size:79
Alignment explanation
Indices: 536928--537089 Score: 225
Period size: 79 Copynumber: 2.1 Consensus size: 79
536918 GAGTTAAGCT
* * ** ** * *
536928 AAATTGTGGATGACTCATTCGTTGTGAAGTTGAGTCGATCTCGGATGATTTGGGCATGATATCCT
1 AAATAGTGGATGACCCATTCGTCATGAAGTTGAGTCGATCTCAAATGACTTGAGCATGATATCCT
* * *
536993 TCTTTGTGAAGTTG
66 TCGTCGTGAAGTTA
537007 AAATAGTGGATGACCCATTCGTCATGAAGTTGAGTCGATCTCAAATGACTTGAGCATGATATCCT
1 AAATAGTGGATGACCCATTCGTCATGAAGTTGAGTCGATCTCAAATGACTTGAGCATGATATCCT
537072 TCGTCGTGAAGTTA
66 TCGTCGTGAAGTTA
537086 AAAT
1 AAAT
537090 CTAGCTTGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
79 72 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.34
Consensus pattern (79 bp):
AAATAGTGGATGACCCATTCGTCATGAAGTTGAGTCGATCTCAAATGACTTGAGCATGATATCCT
TCGTCGTGAAGTTA
Found at i:541393 original size:15 final size:15
Alignment explanation
Indices: 541370--541410 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
541360 AATGTATATT
*
541370 AATGTAAAATTAAAA
1 AATGCAAAATTAAAA
541385 AATGCAAAAATTAAAA
1 AATGC-AAAATTAAAA
541401 AATGCAAAAT
1 AATGCAAAAT
541411 GATAGATGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.22
Consensus pattern (15 bp):
AATGCAAAATTAAAA
Found at i:541396 original size:16 final size:16
Alignment explanation
Indices: 541375--541409 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
541365 ATATTAATGT
541375 AAAATTAAAAAATGCA
1 AAAATTAAAAAATGCA
541391 AAAATTAAAAAATGCA
1 AAAATTAAAAAATGCA
541407 AAA
1 AAA
541410 TGATAGATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.17
Consensus pattern (16 bp):
AAAATTAAAAAATGCA
Found at i:547589 original size:20 final size:21
Alignment explanation
Indices: 547564--547615 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
547554 TTTTCCCAAT
* *
547564 TCGCAATGTGAA-TAGGTAAA
1 TCGCAATGCGAATTAGGAAAA
*
547584 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAGGAAAA
547605 TCGCAATGCGA
1 TCGCAATGCGA
547616 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:547629 original size:20 final size:20
Alignment explanation
Indices: 547604--547758 Score: 134
Period size: 20 Copynumber: 7.7 Consensus size: 20
547594 AATTTGGAAA
*
547604 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
547624 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
547645 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
547665 TTCGCAACGCGATACTGCCT
1 ATCGCAACGCGATACTGACT
* **
547685 TTCGCAACGCGATTTTGACT
1 ATCGCAACGCGATACTGACT
* * *
547705 TTCGCAACACGATTCTGACT
1 ATCGCAACGCGATACTGACT
* *
547725 -TACGCAACGAGATTCTGACT
1 AT-CGCAACGCGATACTGACT
*
547745 ATCGCAACGAGATA
1 ATCGCAACGCGATA
547759 ATACAGAATC
Statistics
Matches: 113, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 3 0.03
20 93 0.82
21 15 0.13
22 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:547677 original size:41 final size:41
Alignment explanation
Indices: 547601--547678 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
547591 GCGAATTTGG
547601 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
*
547642 AAAATCGCAATGCGATACTGACTTTCGCAACGCGATA
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATA
547679 CTGCCTTTCG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (41 bp):
AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
Found at i:547930 original size:12 final size:12
Alignment explanation
Indices: 547911--547944 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
547901 CTCTCCGGCG
547911 ACATCCGTTCCT
1 ACATCCGTTCCT
*
547923 ATATCCGTTCCT
1 ACATCCGTTCCT
547935 ACATCC-TTCC
1 ACATCCGTTCC
547945 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:548744 original size:12 final size:12
Alignment explanation
Indices: 548727--548751 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
548717 ATATAATCCT
548727 GAAGAAGAAAAA
1 GAAGAAGAAAAA
548739 GAAGAAGAAAAA
1 GAAGAAGAAAAA
548751 G
1 G
548752 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:560680 original size:19 final size:20
Alignment explanation
Indices: 560638--560681 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
560628 CAATCATTTT
*
560638 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGCGGA
*
560658 AATGACTATCGCAATGC-GA
1 AATGACTATCGCAACGCGGA
560677 AATGA
1 AATGA
560682 AAATCACAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (20 bp):
AATGACTATCGCAACGCGGA
Found at i:560707 original size:33 final size:33
Alignment explanation
Indices: 560665--560822 Score: 280
Period size: 33 Copynumber: 4.8 Consensus size: 33
560655 GGAAATGACT
*
560665 ATCGCAATGCGAAATGAAAATCACAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
560698 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
560731 ATCGCAATGCGAAATGAAAATCGTAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
560764 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
560797 ATCGCAAAGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
560823 TGCAAATTTA
Statistics
Matches: 120, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 120 1.00
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:560735 original size:14 final size:14
Alignment explanation
Indices: 560683--560803 Score: 53
Period size: 14 Copynumber: 7.6 Consensus size: 14
560673 GCGAAATGAA
*
560683 AATCACAACGAGAG
1 AATCGCAACGAGAG
*
560697 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
560716 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
560730 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
560749 AATCGTAACGAGAG
1 AATCGCAACGAGAG
*
560763 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
560782 AATCGCAACGAGGG
1 AATCGCAACGAGAG
560796 AATCGCAA
1 AATCGCAA
560804 AGCGAAATGA
Statistics
Matches: 82, Mismatches: 10, Indels: 30
0.67 0.08 0.25
Matches are distributed among these distances:
14 35 0.43
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 29 0.35
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.12
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:560876 original size:33 final size:33
Alignment explanation
Indices: 560834--560946 Score: 172
Period size: 33 Copynumber: 3.4 Consensus size: 33
560824 GCAAATTTAG
* *
560834 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
* *
560867 TTTCGCGTTGCGATTCTCTCGTTGCAATTTCCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
*
560900 TTTCGCGTTGCGATTCTCTCGTTACGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
*
560933 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
560947 AGTCATTTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 72 1.00
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
Found at i:560877 original size:19 final size:19
Alignment explanation
Indices: 560853--560946 Score: 64
Period size: 19 Copynumber: 5.5 Consensus size: 19
560843 GCGATTTTGT
560853 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
560872 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
* *
560886 CGTTGCAATTTCCATTTCG
1 CGTTGCGATTTTCATTTCG
*
560905 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
*
560919 CGTTACGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
560938 CATTGCGAT
1 CGTTGCGAT
560947 AGTCATTTTT
Statistics
Matches: 54, Mismatches: 11, Indels: 20
0.64 0.13 0.24
Matches are distributed among these distances:
14 18 0.33
16 5 0.09
17 5 0.09
19 26 0.48
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:561072 original size:14 final size:14
Alignment explanation
Indices: 561053--561089 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
561043 CATCAATTAA
561053 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
561067 ACAAATCATCTTTT
1 ACAAATCAACTTTT
561081 ACAAATCAA
1 ACAAATCAA
561090 TTAAACAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:562488 original size:21 final size:21
Alignment explanation
Indices: 562422--562488 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
562412 GTGAATCGGG
*
562422 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
562442 CCTCTTCAACGATGACAGTGGT
1 -CTCTTGAACGGTGGGAGGGGA
562464 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
562485 CTCT
1 CTCT
562489 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.19, G:0.36, T:0.25
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:562987 original size:19 final size:19
Alignment explanation
Indices: 562965--563030 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
562955 AAAAATGACT
*
562965 ATCGCAACGCGAAATAAAA
1 ATCGCAACGCGAAATGAAA
*
562984 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
562998 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
563017 ATCGCAACTCGAAA
1 ATCGCAACGCGAAA
563031 ACAAAAGACA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
14 9 0.24
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:563036 original size:19 final size:19
Alignment explanation
Indices: 562997--563036 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
562987 GCAACGAGAG
**
562997 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAAACAA
*
563016 AATCGCAACTCGAAAACAA
1 AATCGCAACGCGAAAACAA
563035 AA
1 AA
563037 GACAAAACAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.23, G:0.15, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAAACAA
Found at i:563045 original size:12 final size:12
Alignment explanation
Indices: 563028--563057 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
563018 TCGCAACTCG
563028 AAAACAAAAGAC
1 AAAACAAAAGAC
563040 AAAACAAAAGAC
1 AAAACAAAAGAC
563052 AAAACA
1 AAAACA
563058 GTGTTACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.77, C:0.17, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAACAAAAGAC
Found at i:563235 original size:94 final size:94
Alignment explanation
Indices: 563129--563383 Score: 467
Period size: 94 Copynumber: 2.7 Consensus size: 94
563119 ATGGATTGCA
* *
563129 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
563193 TTAGCAGAATTGGCAGCAAACGAACAAAT
66 TTAGCAGAATTGGCAGCAAACGAACAAAT
563222 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
563287 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAAACGAACAAAT
*
563316 TTACTTTCAACCAAAAGACAAAACAATGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
563381 TTA
66 TTA
563384 ATCTAACTGA
Statistics
Matches: 157, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
93 4 0.03
94 153 0.97
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.21
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAAACGAACAAAT
Found at i:565110 original size:19 final size:19
Alignment explanation
Indices: 565046--565144 Score: 110
Period size: 19 Copynumber: 5.1 Consensus size: 19
565036 TCTTTTGGTT
*
565046 GAAATAAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
565065 GATAATGAAAATCGCAATGCG-
1 GA-AATGAAAATCGCAA--CGA
** *
565086 GAAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACGA
**
565105 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
565124 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
565143 GA
1 GA
565145 TAATCGCAAC
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.03
19 39 0.56
20 25 0.36
21 2 0.03
22 2 0.03
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:565761 original size:20 final size:20
Alignment explanation
Indices: 565738--565831 Score: 125
Period size: 20 Copynumber: 4.7 Consensus size: 20
565728 CGATAGTCAG
565738 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
565758 ATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGT
*
565778 AATTCGCATTGCGATTTACTT
1 -ATTCGCATTGCGATTTACGT
* *
565799 AATCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
565819 ATTCGTATTGCGA
1 ATTCGCATTGCGA
565832 ATTATGAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
20 45 0.71
21 18 0.29
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:565790 original size:41 final size:40
Alignment explanation
Indices: 565738--565831 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 40
565728 CGATAGTCAG
* *
565738 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
* * *
565778 AATTCGCATTGCGATTTACTTAATCGCGTTGCGATTTACGT
1 -ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
*
565819 ATTCGTATTGCGA
1 ATTCGCATTGCGA
565832 ATTATGAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 12 0.26
41 35 0.74
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.40
Consensus pattern (40 bp):
ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
Found at i:565975 original size:21 final size:22
Alignment explanation
Indices: 565923--565975 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
565913 ATTTACTTAT
565923 TCGCATTGCG-AATTGTGAAAA
1 TCGCATTGCGAAATTGTGAAAA
* **
565944 ACGCAACGCGAAATTG-GAAAA
1 TCGCATTGCGAAATTGTGAAAA
565965 TCGCATTGCGA
1 TCGCATTGCGA
565976 TAGTCATAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGTGAAAA
Found at i:566973 original size:16 final size:16
Alignment explanation
Indices: 566954--566997 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
566944 TAAAAACATA
566954 AATAATAATAACAAAT
1 AATAATAATAACAAAT
* **
566970 AATAATATTATTAAAT
1 AATAATAATAACAAAT
566986 AATAATAATAAC
1 AATAATAATAAC
566998 CCATATAAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (16 bp):
AATAATAATAACAAAT
Found at i:567837 original size:259 final size:258
Alignment explanation
Indices: 567140--567837 Score: 898
Period size: 259 Copynumber: 2.7 Consensus size: 258
567130 CCCGATGGAT
* * * * *
567140 TTAATCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGGCTTATCAATTTTGGAAATAATTTA
1 TTAATCATCATGTTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTA
* * * * * *
567205 CTAGGTAAGAAACTTTGGAAATCACTTTTTTCCTTTTGAAAAATTTCATTTTCTGAAAATATTAA
66 CTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTTTGAAAAAACTAA
* * * * * *
567270 ATGAGAAATTTTGGAAATCGTTTTCTCATTTTTTACAAACATCATATGAAAGCATATTGCACAAA
131 ATGAGAAATTTTGAAAATCGCTCTCTCA--TTTTACAAATATCATATGAAAACATATTACACAAA
* * ** * * * * *
567335 GGTCTTATAGATGACCCGAAGGACTTGTCATCTTTCTCGAAAGAGTGACAGATGACCTGAAGGAT
194 GGTCTTATAGATGACCCGAAGGACATATCATCTAGCTCAAAAGACTGACAGATGACCCGAAAGAC
* * * *
567400 TTAATCATCATGTTCGAAAGACTTACGGATAGCCCGAAGGACTTGCTAATTTTGGAAATAGTTTA
1 TTAATCATCATGTTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTA
* *
567465 CTAGGTAAGAAACTTTGGAAATCGCTCTCTTACTTTTCAAAAATTTCATTTTTTGAAAAAAAAAC
66 CTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTTTG---AAAAAAC
* * *
567530 TAATTGAGAAATTTTGAAAATCGCTCTCTCATTTTTCAAGT-T-ATATGAAAACATATTAC-CTA
128 TAAATGAGAAATTTTGAAAATCGCTCTCTCATTTTACAAATATCATATGAAAACATATTACAC-A
* *
567592 AAGGTCTTATAGATGGCCTGAAGGACATATCATCTAGCTCAAAAGACTGACAGATGACCCGAAAG
192 AAGGTCTTATAGATGACCCGAAGGACATATCATCTAGCTCAAAAGACTGACAGATGACCCGAAAG
567657 AC
257 AC
* * * * *
567659 TTAATCATCATGTTGGAAAGATTTACTAATGGCCCGAAGGACTTACCAATTTTGGAAGTAGTCTA
1 TTAATCATCATGTTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTA
*
567724 CTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTTTGAAAAAACTAA
66 CTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTTTGAAAAAACTAA
* * *
567789 ATGATAAACTTTGAAAATCGCTCTCTCATTTTCCAAATTATCATATGAA
131 ATGAGAAATTTTGAAAATCGCTCTCTCATTTTACAAA-TATCATATGAA
567838 GGCATCTTAA
Statistics
Matches: 377, Mismatches: 54, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
256 42 0.11
257 1 0.00
258 2 0.01
259 187 0.50
260 106 0.28
261 7 0.02
263 32 0.08
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.33
Consensus pattern (258 bp):
TTAATCATCATGTTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTA
CTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTTTGAAAAAACTAA
ATGAGAAATTTTGAAAATCGCTCTCTCATTTTACAAATATCATATGAAAACATATTACACAAAGG
TCTTATAGATGACCCGAAGGACATATCATCTAGCTCAAAAGACTGACAGATGACCCGAAAGAC
Found at i:569388 original size:14 final size:14
Alignment explanation
Indices: 569369--569403 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
569359 GTTCAAGGAC
569369 ATCATTCTAAAGAT
1 ATCATTCTAAAGAT
569383 ATCATTCTAAAGAT
1 ATCATTCTAAAGAT
*
569397 ATGATTC
1 ATCATTC
569404 CTAAGTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (14 bp):
ATCATTCTAAAGAT
Found at i:572929 original size:3 final size:3
Alignment explanation
Indices: 572921--572973 Score: 52
Period size: 3 Copynumber: 16.7 Consensus size: 3
572911 ATAAAACATA
* * *
572921 AAT AAT AAT AACA AAT AAT ATT ATT AAT AAAT AAAT AAT AAT AAT AAT
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT AAT
572969 AAT AA
1 AAT AA
572974 CCTGGATATA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
3 35 0.80
4 9 0.20
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:572953 original size:23 final size:23
Alignment explanation
Indices: 572922--572973 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
572912 TAAAACATAA
*
572922 ATAAT-AATAACA-AATAATATTA
1 ATAATAAATAA-ATAATAATAATA
*
572944 TTAATAAATAAATAATAATAATA
1 ATAATAAATAAATAATAATAATA
572967 ATAATAA
1 ATAATAA
572974 CCTGGATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
ATAATAAATAAATAATAATAATA
Found at i:572958 original size:20 final size:20
Alignment explanation
Indices: 572903--572970 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
572893 TTTGTAAAAT
572903 TAATAA-AAATAAA-ACATAAA
1 TAATAATAAATAAATA-AT-AA
* *
572923 TAATAAT-AACAAATAATAT
1 TAATAATAAATAAATAATAA
*
572942 TATTAATAAATAAATAATAA
1 TAATAATAAATAAATAATAA
572962 TAATAATAA
1 TAATAATAA
572971 TAACCTGGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 7 0.18
20 31 0.79
21 1 0.03
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (20 bp):
TAATAATAAATAAATAATAA
Found at i:577838 original size:19 final size:20
Alignment explanation
Indices: 577792--577839 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 20
577782 CCAATTTTTC
577792 TTTTTTTTATTATTTATATT
1 TTTTTTTTATTATTTATATT
577812 TTTGTTTTT-TTATTT-TATT
1 TTT-TTTTTATTATTTATATT
577831 TTATTTTTT
1 TT-TTTTTT
577840 CCTTGATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 11 0.42
20 10 0.38
21 5 0.19
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (20 bp):
TTTTTTTTATTATTTATATT
Found at i:577839 original size:25 final size:24
Alignment explanation
Indices: 577785--577838 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
577775 AGGCAACCCA
577785 ATTTTTCTTTTTTTTATTATTTAT
1 ATTTTTCTTTTTTTTATTATTTAT
* *
577809 ATTTTTGTTTTTTTATTTTATTT-T
1 ATTTTTCTTTTTTT-TATTATTTAT
577833 ATTTTT
1 ATTTTT
577839 TCCTTGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 20 0.74
25 7 0.26
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (24 bp):
ATTTTTCTTTTTTTTATTATTTAT
Found at i:582729 original size:32 final size:32
Alignment explanation
Indices: 582630--582731 Score: 134
Period size: 32 Copynumber: 3.2 Consensus size: 32
582620 TTTCTAACTT
*
582630 ACTAACATTCTAACTTTTATTTTATTGTTCAT
1 ACTAACATTCTAACTTTTATTTTATTGTTCAA
* *
582662 ACTAACATTCTAACTTTTACTTTATTGTTCTA
1 ACTAACATTCTAACTTTTATTTTATTGTTCAA
* **
582694 ACTAAC-TTACTAACATTTATTTTATTGCACAA
1 ACTAACATT-CTAACTTTTATTTTATTGTTCAA
582726 ACTAAC
1 ACTAAC
582732 CCGCTAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
31 2 0.03
32 59 0.97
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.46
Consensus pattern (32 bp):
ACTAACATTCTAACTTTTATTTTATTGTTCAA
Found at i:583492 original size:24 final size:25
Alignment explanation
Indices: 583450--583513 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
583440 GTTTTTATTT
* * *
583450 TATTTTTATCTCA-TCATCTTGTTC
1 TATTTTTATTTCATTTATCTCGTTC
583474 TA-TTTTATTTCATTTATCTCGTTC
1 TATTTTTATTTCATTTATCTCGTTC
*
583498 TATTTTTATTTTATTT
1 TATTTTTATTTCATTT
583514 TTAATTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 9 0.26
24 13 0.38
25 12 0.35
ACGTcount: A:0.17, C:0.14, G:0.03, T:0.66
Consensus pattern (25 bp):
TATTTTTATTTCATTTATCTCGTTC
Found at i:593126 original size:12 final size:11
Alignment explanation
Indices: 593111--593167 Score: 64
Period size: 12 Copynumber: 5.1 Consensus size: 11
593101 AAAAGCATAT
593111 AGAAAAAGAAGA
1 AGAAAAAGAA-A
*
593123 AGAAATAGGAAA
1 AGAAA-AAGAAA
593135 AGAAAGAAGAAA
1 AGAAA-AAGAAA
593147 AG-AAAAGAAA
1 AGAAAAAGAAA
593157 AG-AAAAGAAA
1 AGAAAAAGAAA
593167 A
1 A
593168 ATGAATCATG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
10 17 0.41
11 2 0.05
12 18 0.44
13 4 0.10
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (11 bp):
AGAAAAAGAAA
Found at i:593130 original size:18 final size:17
Alignment explanation
Indices: 593111--593168 Score: 75
Period size: 18 Copynumber: 3.4 Consensus size: 17
593101 AAAAGCATAT
593111 AGAAAAAGAAGAAGAAA
1 AGAAAAAGAAGAAGAAA
*
593128 TAGGAAAAGAAAGAAGAAA
1 -AGAAAAAG-AAGAAGAAA
593147 AG-AAAAGAA-AAGAAA
1 AGAAAAAGAAGAAGAAA
593162 AGAAAAA
1 AGAAAAA
593169 TGAATCATGT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
15 8 0.22
16 6 0.16
17 5 0.14
18 9 0.24
19 9 0.24
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (17 bp):
AGAAAAAGAAGAAGAAA
Found at i:593143 original size:22 final size:21
Alignment explanation
Indices: 593115--593161 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 21
593105 GCATATAGAA
593115 AAAGAAG-AAGAAATAGGAAAAG
1 AAAGAAGAAAGAAA-A-GAAAAG
593137 AAAGAAGAAAAGAAAAGAAAAG
1 AAAGAAG-AAAGAAAAGAAAAG
593159 AAA
1 AAA
593162 AGAAAAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 16 0.70
23 1 0.04
24 6 0.26
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.02
Consensus pattern (21 bp):
AAAGAAGAAAGAAAAGAAAAG
Found at i:593149 original size:5 final size:5
Alignment explanation
Indices: 593114--593167 Score: 63
Period size: 5 Copynumber: 9.8 Consensus size: 5
593104 AGCATATAGA
593114 AAAAG AAGAAG AAATAGG AAAAG AAAGAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AA-AAG AAA-A-G AAAAG -AA-AAG AAAAG AAAAG AAAAG AAAAG
593164 AAAA
1 AAAA
593168 ATGAATCATG
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
5 26 0.59
6 11 0.25
7 7 0.16
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:596419 original size:167 final size:168
Alignment explanation
Indices: 596214--596528 Score: 422
Period size: 167 Copynumber: 1.9 Consensus size: 168
596204 ATTGATAATG
* * * *
596214 TTTGAGATTGTTTTTCTTAAAAACAAATCTCGTCTCGCTTGAGACAGTTTTCCCTT-GAGATGC-
1 TTTGAGATTGTTTTTCCTAAAAACAAATCTCGTCTCGCTTAAGACAATTCT-CCTTCGA-AT-CA
* * * **
596277 AAATTTTGAATTTGTTTCACTTGAAACAAAGCTGATCTCACTTGATATTGTTTTTCTCAAAACAA
63 AAATTTTGAATTTATTTCACTTGAAACAAAACTGATCTCACTTGAGATTGTTTCCCTCAAAACAA
596342 ATTTT-CCTCACTTGAGATAGTCTTCCTTAATACTCGAACA
128 ATTTTACCTCACTTGAGATAGTCTTCCTTAATACTCGAACA
* * *
596382 TTTGAGATT-TTTTTCCTCAAAACAAATTTCGTCTCGCTTAAGAGAATTCTCCTTCGAATCATAA
1 TTTGAGATTGTTTTTCCTAAAAACAAATCTCGTCTCGCTTAAGACAATTCTCCTTCGAATCA-AA
* *
596446 ATTTTGAATTTATTTCACTTGAAACAAAATTGTTCTCACTTGAGATTGTTTCCCTCAAAACAAAT
65 ATTTTGAATTTATTTCACTTGAAACAAAACTGATCTCACTTGAGATTGTTTCCCTCAAAACAAAT
* *
596511 TTTATCTCGCTTGAGATA
130 TTTACCTCACTTGAGATA
596529 ATTTTCCCAT
Statistics
Matches: 127, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
165 1 0.01
166 6 0.05
167 99 0.78
168 21 0.17
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.40
Consensus pattern (168 bp):
TTTGAGATTGTTTTTCCTAAAAACAAATCTCGTCTCGCTTAAGACAATTCTCCTTCGAATCAAAA
TTTTGAATTTATTTCACTTGAAACAAAACTGATCTCACTTGAGATTGTTTCCCTCAAAACAAATT
TTACCTCACTTGAGATAGTCTTCCTTAATACTCGAACA
Found at i:596524 original size:36 final size:38
Alignment explanation
Indices: 596467--596553 Score: 94
Period size: 36 Copynumber: 2.4 Consensus size: 38
596457 ATTTCACTTG
*
596467 AAACA-AAATTGT-TCTCACTTGAGAT-TGTTTCCC-TC
1 AAACACAAATTTTATCTCACTTGAGATAT-TTTCCCATC
* *
596502 AAA-ACAAATTTTATCTCGCTTGAGATAATTTTCCCATG
1 AAACACAAATTTTATCTCACTTGAGAT-ATTTTCCCATC
596540 AAACACAAATTTTA
1 AAACACAAATTTTA
596554 AAAATGTTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
34 1 0.02
35 9 0.21
36 12 0.28
37 6 0.14
38 5 0.12
39 10 0.23
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (38 bp):
AAACACAAATTTTATCTCACTTGAGATATTTTCCCATC
Found at i:596957 original size:83 final size:83
Alignment explanation
Indices: 596811--596994 Score: 215
Period size: 83 Copynumber: 2.2 Consensus size: 83
596801 TAAAACAGCT
* * * ** *
596811 AGACTTCCTCAACACAAAGGAAAAATATCGTCCACCGACCAGATCTTCTCAATGCGAATGAGTAG
1 AGACTTCCTCAACACGAAGGAAAAATATCATCCACCGACCAGATCTCCTCAACACGAAGGAGTAG
*
596876 TGTCATCCTCATACAACC
66 TGTCATCCTCAGACAACC
* * * * *
596894 AGACTTCCTCAACACGAAGGAACAATGTCATCCACCGATCATATCTCCTCAACATGAAGGAGTAG
1 AGACTTCCTCAACACGAAGGAAAAATATCATCCACCGACCAGATCTCCTCAACACGAAGGAGTAG
* * *
596959 TGTCATCCTTAGATAATC
66 TGTCATCCTCAGACAACC
* *
596977 AAACTTCCTCAACGCGAA
1 AGACTTCCTCAACACGAA
596995 AATTCGAATT
Statistics
Matches: 84, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (83 bp):
AGACTTCCTCAACACGAAGGAAAAATATCATCCACCGACCAGATCTCCTCAACACGAAGGAGTAG
TGTCATCCTCAGACAACC
Found at i:597258 original size:122 final size:122
Alignment explanation
Indices: 597034--597427 Score: 395
Period size: 122 Copynumber: 3.2 Consensus size: 122
597024 ACTTCTAGAA
* * * * * *
597034 CATCTTCAATACCAAATTATCTCCATATTGA-CCTAACTTCCTTAACAAGAAGGAACAATATCAT
1 CATCTTCAACACTAAATTATCTCCAGATTAATCC-AATTTCCTTAACAAGAAGGAACAGTATCAT
* * * *
597098 CTTCAGCAAACAATTTA-CTTGAAAGAGGCTAGAA-CTCTTCAACACGGATGAGCAGAGT
65 CTTCAACAAACAATTTATC-TGAAAGAGACCA-AATCTCTTCAACATGGATGAGCAGAGT
* * * * * *
597156 CGTCTTCAACAC-AGTATTATCTTCGGATTAA-CCAGATTTCCTTAAAAAGAAGGAACAGTTTCA
1 CATCTTCAACACTA-AATTATCTCCAGATTAATCCA-ATTTCCTTAACAAGAAGGAACAGTATCA
* *
597219 TCTTCAACAAACAATATATCTGAAAGAGACCAAATCTCTTCAACATGTATGAGCAGAGT
64 TCTTCAACAAACAATTTATCTGAAAGAGACCAAATCTCTTCAACATGGATGAGCAGAGT
* * * * * *
597278 CATCTTCAACACTAAATTATCTCCAGATTAATCCATTTTCCTCAACGAGAAGGAATAGTGTCTTC
1 CATCTTCAACACTAAATTATCTCCAGATTAATCCAATTTCCTTAACAAGAAGGAACAGTATCATC
* * ** *
597343 TTCAACAAATAATTTATTTGAAAGCA-ACCGTATCTCTTCAACATGGATGAGCAGTGT
66 TTCAACAAACAATTTATCTGAAAG-AGACCAAATCTCTTCAACATGGATGAGCAGAGT
** *
597400 CATCTTCAATGCTAAAATTATGTCCAGA
1 CATCTTCAACACT-AAATTATCTCCAGA
597428 CTGACCTGAA
Statistics
Matches: 226, Mismatches: 38, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
121 4 0.02
122 203 0.90
123 19 0.08
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (122 bp):
CATCTTCAACACTAAATTATCTCCAGATTAATCCAATTTCCTTAACAAGAAGGAACAGTATCATC
TTCAACAAACAATTTATCTGAAAGAGACCAAATCTCTTCAACATGGATGAGCAGAGT
Found at i:598910 original size:32 final size:32
Alignment explanation
Indices: 598810--598899 Score: 137
Period size: 32 Copynumber: 2.8 Consensus size: 32
598800 TTCTAACTTG
598810 CTAACATTCTAACTTTTATTTTATTGTTCATA
1 CTAACATTCTAACTTTTATTTTATTGTTCATA
* *
598842 CTAACATTCTAACTTTTACTTTATTGTTCTTA
1 CTAACATTCTAACTTTTATTTTATTGTTCATA
*
598874 CTAAC-TTACTAACATTTATTTTATTG
1 CTAACATT-CTAACTTTTATTTTATTG
598900 CACAAACTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
31 2 0.04
32 51 0.96
ACGTcount: A:0.28, C:0.17, G:0.03, T:0.52
Consensus pattern (32 bp):
CTAACATTCTAACTTTTATTTTATTGTTCATA
Found at i:601106 original size:36 final size:35
Alignment explanation
Indices: 601059--601129 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 35
601049 CGAAAATGTT
*
601059 ATATTACGGCCGGTTTAAGGTTTACAACTAAAAAAA
1 ATATTACGGCCGATTTAAGGTTTACAA-TAAAAAAA
* * *
601095 ATATTATGGCCGATTTAGGGTTTACAATCAAAAAA
1 ATATTACGGCCGATTTAAGGTTTACAATAAAAAAA
601130 GTTATACAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 7 0.23
36 24 0.77
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.30
Consensus pattern (35 bp):
ATATTACGGCCGATTTAAGGTTTACAATAAAAAAA
Found at i:604122 original size:15 final size:15
Alignment explanation
Indices: 604102--604131 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
604092 ATTTAATATT
*
604102 TAATAATTATAATAA
1 TAATAATTAAAATAA
604117 TAATAATTAAAATAA
1 TAATAATTAAAATAA
604132 ATTGATAAAA
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):
TAATAATTAAAATAA
Found at i:604461 original size:55 final size:55
Alignment explanation
Indices: 604392--604856 Score: 567
Period size: 55 Copynumber: 8.5 Consensus size: 55
604382 TATTCAGACG
* * * *
604392 ACGGGTTCGCTCCCTCTTCTTTCAGGGAGTATAAGACTTGAACAATCTTCAGAAA
1 ACGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTTGAAAAATCTTCGGAAA
* * *
604447 ACGAGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAAAATCTTCGAAAA
1 ACGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTTGAAAAATCTTCGGAAA
* ** * *
604502 ACAGGTTTGCTCCCTCTTCTTTCAGGGAGTATAGGACCTGAAAAATCTTTGGAAA
1 ACGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTTGAAAAATCTTCGGAAA
** * * *
604557 ACGGGTATGTTCCCTCTTCTTTCAGGGAGTATAAGACTTGAAAAATCTTTGGAAA
1 ACGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTTGAAAAATCTTCGGAAA
* * *
604612 ATGGGTCCGCT-CCTTTTCTTTCAAGGAGTATAGGACTT-AAACAATCTTCGGAAA
1 ACGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTTGAAA-AATCTTCGGAAA
* * ** * * *
604666 ATGCGTTTGCTCCTTCTTCTTTCAAGGAGTATAGGACTTGAACAATCTTCGGAAA
1 ACGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTTGAAAAATCTTCGGAAA
* * *
604721 ATGGGTCCGCTCTCTCTTCTTTCAGGGAGTATAGGACTTG-AAAATCTTCGAAAA
1 ACGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTTGAAAAATCTTCGGAAA
* * **
604775 ACGGGTCCGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAAAAATCTTTAGAAA
1 ACGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTTGAAAAATCTTCGGAAA
* * *
604830 ATGGGTCTGCTCCCTCTTTTTTCAGGG
1 ACGGGTCCGCTCCCTCTTCTTTCAGGG
604857 GAGATCAGTC
Statistics
Matches: 353, Mismatches: 53, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
53 3 0.01
54 91 0.26
55 257 0.73
56 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (55 bp):
ACGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTTGAAAAATCTTCGGAAA
Done.