Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 2 of 141
Found at i:328798 original size:10 final size:10
Alignment explanation
Indices: 328733--328823 Score: 64
Period size: 10 Copynumber: 9.0 Consensus size: 10
328723 GAGATGAAAG
328733 AAGGAAA-AA
1 AAGGAAAGAA
328742 GAAGGAAAGAA
1 -AAGGAAAGAA
**
328753 AAGGAAAGGG
1 AAGGAAAGAA
*
328763 GAGGAAAG-A
1 AAGGAAAGAA
328772 AA-GAAA-AA
1 AAGGAAAGAA
328780 TAAGGAAAGAA
1 -AAGGAAAGAA
328791 AAGGAAAGGAGA
1 AAGGAAA-GA-A
*
328803 AGAGGAAAAAA
1 A-AGGAAAGAA
*
328814 AAAGAAAGAA
1 AAGGAAAGAA
328824 GAAGAAGAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
8 5 0.08
9 3 0.05
10 40 0.62
11 8 0.12
12 3 0.05
13 6 0.09
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (10 bp):
AAGGAAAGAA
Found at i:329576 original size:19 final size:19
Alignment explanation
Indices: 329543--329594 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
329533 AAAATATATA
**
329543 TAATATTTTGGTATTTTT-
1 TAATATTTTATTATTTTTG
329561 TAAATATTTTATTATTTTTG
1 T-AATATTTTATTATTTTTG
*
329581 TAATGTTTTATTAT
1 TAATATTTTATTAT
329595 GGGTTTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 1 0.03
19 27 0.93
20 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (19 bp):
TAATATTTTATTATTTTTG
Found at i:329661 original size:28 final size:28
Alignment explanation
Indices: 329630--329688 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
329620 AAATAAAAAA
329630 TTACCAAAATAT-TATAACTTTTTTTTAT
1 TTACCAAAATATATATAA-TTTTTTTTAT
329658 TTACCAAAATATATATAATTTTTTTTAT
1 TTACCAAAATATATATAATTTTTTTTAT
329686 TTA
1 TTA
329689 GAAATGAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 25 0.83
29 5 0.17
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.54
Consensus pattern (28 bp):
TTACCAAAATATATATAATTTTTTTTAT
Found at i:331147 original size:27 final size:27
Alignment explanation
Indices: 331074--331151 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
331064 NNNNNNNNNN
** *
331074 TGGTGCCGCCAACAGGGAACCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTCTT
331101 TGGTGCCGCCAACAGGGTTCCCTTCTT
1 TGGTGCCGCCAACAGGGTTCCCTTCTT
*
331128 TGGTGCCGCCAACAGTGTTCCCTT
1 TGGTGCCGCCAACAGGGTTCCCTT
331152 GACCCAGGGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.14, C:0.32, G:0.27, T:0.27
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGTTCCCTTCTT
Found at i:331209 original size:19 final size:19
Alignment explanation
Indices: 331181--331220 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
331171 TCGGTCCAGG
331181 TTTTTTTTTTT-GTTTTTT
1 TTTTTTTTTTTGGTTTTTT
331199 TTTTGTTTTTTTGGTTTTTT
1 TTTT-TTTTTTTGGTTTTTT
331219 TT
1 TT
331221 ATATATTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.20
19 7 0.35
20 9 0.45
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (19 bp):
TTTTTTTTTTTGGTTTTTT
Found at i:331218 original size:11 final size:10
Alignment explanation
Indices: 331183--331220 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
331173 GGTCCAGGTT
331183 TTTTTTTTTG
1 TTTTTTTTTG
331193 TTTTTTTTT-
1 TTTTTTTTTG
*
331202 TGTTTTTTTGG
1 T-TTTTTTTTG
331213 TTTTTTTT
1 TTTTTTTT
331221 ATATATTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 1 0.04
10 23 0.92
11 1 0.04
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:331220 original size:12 final size:11
Alignment explanation
Indices: 331182--331210 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
331172 CGGTCCAGGT
331182 TTTTTTTTTTG
1 TTTTTTTTTTG
331193 TTTTTTTTTTG
1 TTTTTTTTTTG
331204 TTTTTTT
1 TTTTTTT
331211 GGTTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:331251 original size:28 final size:29
Alignment explanation
Indices: 331220--331290 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 29
331210 TGGTTTTTTT
* *
331220 TATATATTTTGGTAAAT-GAAAAAATTTA
1 TATATATTTTGGTAAATAAAAAAAATGTA
331248 TATATATTTTGGTAAATAAAAAAAATGTA
1 TATATATTTTGGTAAATAAAAAAAATGTA
*
331277 TA-ACATTTTGGTAA
1 TATATATTTTGGTAA
331291 TTTTTTTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 28 0.72
29 11 0.28
ACGTcount: A:0.46, C:0.01, G:0.11, T:0.41
Consensus pattern (29 bp):
TATATATTTTGGTAAATAAAAAAAATGTA
Found at i:344554 original size:89 final size:89
Alignment explanation
Indices: 344433--344928 Score: 397
Period size: 89 Copynumber: 5.6 Consensus size: 89
344423 GGATTGGCGT
* * * *
344433 GAAGTGGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAGAAATAGCAG
1 GAAGTAGATTGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAGAAAAAGCAG
*
344498 ATCTTGTCTTCCCATACTGGTGGC
66 ATCTTGTCTTCCCATACTGGTCGC
* * * *
344522 GAAGTAGATTGAAGAAAACAGATCTTGCCTTCATGGATTGACGTGAAGTGGATC-GAAGAAAGCA
1 GAAGTAGATTGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAGAA-AAAGCA
*** * *
344586 GATCTTGTCTTCATGTATTGG-CGT
65 GATCTTGTCTTCCCATACTGGTCGC
* *** * * * *
344610 GAAGTAGA-T-AAAAAATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGAT-TGAAGAAA
1 GAAGTAGATTGAAGAAA-A-CAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAGAA-AAA
* * * * *
344672 ACAGATCTTGCCTT--CATGGA-TTGACGT
62 GCAGATCTTGTCTTCCCAT--ACTGGTCGC
* * * *
344699 GAAGTGGATCGAAGAAAGC-GATCTTGTCCTCATGTATTGGCGTGAAGTAGATCA-AAAATAGCA
1 GAAGTAGATTGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAGAAAA-AGCA
*
344762 GATCTTGTCTTCCCATACTGGTGGC
65 GATCTTGTCTTCCCATACTGGTCGC
* * *
344787 GAAGTAGATTGAAGAAAACGGATCTTGTCTTCATGTATTGGCATGAAGTAGATCA-AAGAAAGCC
1 GAAGTAGATTGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAGAA-AAAGCA
*** * *
344851 GATCTTGTCTTCATGTATTGG-CGT
65 GATCTTGTCTTCCCATACTGGTCGC
** * * * *
344875 GAAGTAGATCAAAGATAGCA-AGTCTTGTCTTCATGTATTAGTGTGAAGTAGATC
1 GAAGTAGATTGAAGAAAACAGA-TCTTGTCTTCATGTATTGGCGTGAAGTAGATC
344929 GAAGATATAA
Statistics
Matches: 321, Mismatches: 68, Indels: 37
0.75 0.16 0.09
Matches are distributed among these distances:
86 7 0.02
87 30 0.09
88 110 0.34
89 167 0.52
90 2 0.01
91 5 0.02
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.29
Consensus pattern (89 bp):
GAAGTAGATTGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAGAAAAAGCAG
ATCTTGTCTTCCCATACTGGTCGC
Found at i:344645 original size:133 final size:133
Alignment explanation
Indices: 344407--344906 Score: 851
Period size: 133 Copynumber: 3.8 Consensus size: 133
344397 GCAAAGATAG
* *
344407 CAGATCTTGTCTTCATGGATTGGCGTGAAGTGGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
1 CAGATCTTGCCTTCATGGATTGACGTGAAGTGGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
*
344472 GGCGTGAAGTAGATCAGAAATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGA
66 GGCGTGAAGTAGATCAAAAATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGA
344537 AAA
131 AAA
344540 CAGATCTTGCCTTCATGGATTGACGTGAAGTGGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
1 CAGATCTTGCCTTCATGGATTGACGTGAAGTGGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
*
344605 GGCGTGAAGTAGATAAAAAATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGA
66 GGCGTGAAGTAGATCAAAAATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGA
344670 AAA
131 AAA
*
344673 CAGATCTTGCCTTCATGGATTGACGTGAAGTGGATCGAAGAAAGC-GATCTTGTCCTCATGTATT
1 CAGATCTTGCCTTCATGGATTGACGTGAAGTGGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
344737 GGCGTGAAGTAGATCAAAAATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGA
66 GGCGTGAAGTAGATCAAAAATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGA
344802 AAA
131 AAA
* * * * * * * *
344805 CGGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGAAAGCCGATCTTGTCTTCATGTATT
1 CAGATCTTGCCTTCATGGATTGACGTGAAGTGGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
*
344870 GGCGTGAAGTAGATCAAAGATAGCA-AGTCTTGTCTTC
66 GGCGTGAAGTAGATCAAAAATAGCAGA-TCTTGTCTTC
344907 ATGTATTAGT
Statistics
Matches: 350, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
132 124 0.35
133 226 0.65
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (133 bp):
CAGATCTTGCCTTCATGGATTGACGTGAAGTGGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
GGCGTGAAGTAGATCAAAAATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGA
AAA
Found at i:344881 original size:265 final size:266
Alignment explanation
Indices: 344407--344906 Score: 851
Period size: 265 Copynumber: 1.9 Consensus size: 266
344397 GCAAAGATAG
* * *
344407 CAGATCTTGTCTTCATGGATTGGCGTGAAGTGGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
1 CAGATCTTGCCTTCATGGATTGACGTGAAGTGGATCGAAGAAAGCAGATCTTGTCCTCATGTATT
*
344472 GGCGTGAAGTAGATCAGAAATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGA
66 GGCGTGAAGTAGATCAAAAATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGA
* * *
344537 AAACAGATCTTGCCTTCATGGATTGACGTGAAGTGGATCGAAGAAAGCAGATCTTGTCTTCATGT
131 AAACAGATCTTGCCTTCATGGATTGACATGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGT
344602 ATTGGCGTGAAGTAGATAAAAAATAGC-AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTG
196 ATTGGCGTGAAGTAGATAAAAAATAGCAAG-TCTTGTCTTCCCATACTGGTGGCGAAGTAGATTG
344666 AAGAAAA
260 AAGAAAA
344673 CAGATCTTGCCTTCATGGATTGACGTGAAGTGGATCGAAGAAAGC-GATCTTGTCCTCATGTATT
1 CAGATCTTGCCTTCATGGATTGACGTGAAGTGGATCGAAGAAAGCAGATCTTGTCCTCATGTATT
344737 GGCGTGAAGTAGATCAAAAATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGA
66 GGCGTGAAGTAGATCAAAAATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGA
* * * * *
344802 AAACGGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGAAAGCCGATCTTGTCTTCATGT
131 AAACAGATCTTGCCTTCATGGATTGACATGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGT
* *
344867 ATTGGCGTGAAGTAGATCAAAGATAGCAAGTCTTGTCTTC
196 ATTGGCGTGAAGTAGATAAAAAATAGCAAGTCTTGTCTTC
344907 ATGTATTAGT
Statistics
Matches: 219, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
265 174 0.79
266 45 0.21
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (266 bp):
CAGATCTTGCCTTCATGGATTGACGTGAAGTGGATCGAAGAAAGCAGATCTTGTCCTCATGTATT
GGCGTGAAGTAGATCAAAAATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGA
AAACAGATCTTGCCTTCATGGATTGACATGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGT
ATTGGCGTGAAGTAGATAAAAAATAGCAAGTCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGA
AGAAAA
Found at i:344935 original size:44 final size:44
Alignment explanation
Indices: 344400--344933 Score: 538
Period size: 44 Copynumber: 12.1 Consensus size: 44
344390 GCAGGTTGCA
* * *
344400 AAGATAGCAGATCTTGTCTTCATGGATTGGCGTGAAGTGGATCG
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
344444 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAG
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC-G
* *** * * * *
344489 AA-ATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTG
1 AAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCG
* * * * *
344533 AAGAAAACAGATCTTGCCTTCATGGATTGACGTGAAGTGGATCG
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
*
344577 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT-A
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
* *** * * * *
344620 AAAAATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTG
1 AAGAA-AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCG
* * * * *
344666 AAGAAAACAGATCTTGCCTTCATGGATTGACGTGAAGTGGATCG
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
*
344710 AAGAAAGC-GATCTTGTCCTCATGTATTGGCGTGAAGTAGATC-
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
* *** * * * *
344752 AAAAATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTG
1 AAGAA-AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCG
* * * *
344798 AAGAAAACGGATCTTGTCTTCATGTATTGGCATGAAGTAGATCA
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
* *
344842 AAGAAAGCCGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCA
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
* * *
344886 AAGATAGCA-AGTCTTGTCTTCATGTATTAGTGTGAAGTAGATCG
1 AAGAAAGCAGA-TCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
344930 AAGA
1 AAGA
344934 TATAAGTCTT
Statistics
Matches: 393, Mismatches: 86, Indels: 22
0.78 0.17 0.04
Matches are distributed among these distances:
42 4 0.01
43 37 0.09
44 257 0.65
45 87 0.22
46 8 0.02
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.29
Consensus pattern (44 bp):
AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
Found at i:348442 original size:20 final size:21
Alignment explanation
Indices: 348399--348443 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
348389 GTATGGTGTT
*
348399 AATATGCATAATGGAATAATA
1 AATATGCATAATGGAACAATA
348420 AATATG-ATAATGTGAACAA-A
1 AATATGCATAATG-GAACAATA
348440 AATA
1 AATA
348444 ATATGAGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.56, C:0.04, G:0.13, T:0.27
Consensus pattern (21 bp):
AATATGCATAATGGAACAATA
Found at i:348695 original size:16 final size:15
Alignment explanation
Indices: 348674--348704 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
348664 GAATATATAT
348674 ATATAAAAATTATAAG
1 ATATAAAAA-TATAAG
348690 ATATAAAAATATAAG
1 ATATAAAAATATAAG
348705 TATTTACATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (15 bp):
ATATAAAAATATAAG
Found at i:348702 original size:30 final size:30
Alignment explanation
Indices: 348639--348702 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
348629 ACTATATATG
* *
348639 TATATACATAAAATTATGAAAATATGAATA
1 TATATACATAAAATTATGAAAATATAAAAA
* *
348669 TATATATATAAAAATTAT-AAGATATAAAAA
1 TATATACAT-AAAATTATGAAAATATAAAAA
348699 TATA
1 TATA
348703 AGTATTTACA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 21 0.72
31 8 0.28
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (30 bp):
TATATACATAAAATTATGAAAATATAAAAA
Found at i:349310 original size:3 final size:3
Alignment explanation
Indices: 349302--349346 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
349292 AAATGAACAT
* * * *
349302 ATA ATA ATA ATA ACA ATA ACA TTA ATA TTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
349347 TTATTATTAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:349338 original size:24 final size:24
Alignment explanation
Indices: 349306--349355 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
349296 GAACATATAA
349306 TAATAATAACAATAACATTAATAT
1 TAATAATAACAATAACATTAATAT
* * *
349330 TAATAATAATAATAATATTATTAT
1 TAATAATAACAATAACATTAATAT
349354 TA
1 TA
349356 TTATTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (24 bp):
TAATAATAACAATAACATTAATAT
Found at i:349352 original size:27 final size:27
Alignment explanation
Indices: 349303--349369 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
349293 AATGAACATA
*
349303 TAATAATAATAACAATAACATTAATAT
1 TAATAATAATAATAATAACATTAATAT
** *
349330 TAATAATAATAATAATATTATTATTAT
1 TAATAATAATAATAATAACATTAATAT
* *
349357 TATTAAAAATAAT
1 TAATAATAATAAT
349370 GAACTGAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (27 bp):
TAATAATAATAATAATAACATTAATAT
Found at i:349809 original size:2 final size:2
Alignment explanation
Indices: 349804--349854 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
349794 AGAGAGAAGG
349804 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
349846 CT CT CT CT C
1 CT CT CT CT C
349855 GGTTTCTCTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:351209 original size:63 final size:63
Alignment explanation
Indices: 351081--351199 Score: 202
Period size: 63 Copynumber: 1.9 Consensus size: 63
351071 AAAAAGGTCA
*
351081 AGCCATTTAAGATTTCTCACAATTCGATATTAAAAATAGAACAATTCCCGAAAAATCTATAGG
1 AGCCATTCAAGATTTCTCACAATTCGATATTAAAAATAGAACAATTCCCGAAAAATCTATAGG
* * *
351144 AGCCATTCAAGATTTCTCACAATTTGATATTAAATATGGAACAATTCCCGAAAAAT
1 AGCCATTCAAGATTTCTCACAATTCGATATTAAAAATAGAACAATTCCCGAAAAAT
351200 TTACTGGAGC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (63 bp):
AGCCATTCAAGATTTCTCACAATTCGATATTAAAAATAGAACAATTCCCGAAAAATCTATAGG
Found at i:351522 original size:3 final size:3
Alignment explanation
Indices: 351514--351551 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
351504 ACTAGTGGTC
351514 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
351552 TATTATTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:351558 original size:3 final size:3
Alignment explanation
Indices: 351552--351585 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
351542 AATAATAATA
351552 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
351586 GTCGCCTTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:352902 original size:21 final size:22
Alignment explanation
Indices: 352862--352908 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
352852 GATATAAGGG
352862 TTTAGGGTTTAAGGTATTAG-A
1 TTTAGGGTTTAAGGTATTAGCA
*
352883 TTTAGGGTTT-AGAGTTTTAGCA
1 TTTAGGGTTTAAG-GTATTAGCA
352905 TTTA
1 TTTA
352909 TTTATATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 2 0.09
21 16 0.70
22 5 0.22
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.47
Consensus pattern (22 bp):
TTTAGGGTTTAAGGTATTAGCA
Found at i:354689 original size:14 final size:14
Alignment explanation
Indices: 354670--354699 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
354660 ACATGTACAA
354670 ACATGGGCTGGGAC
1 ACATGGGCTGGGAC
354684 ACATGGGCTGGGAC
1 ACATGGGCTGGGAC
354698 AC
1 AC
354700 CGCCGTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.23, G:0.40, T:0.13
Consensus pattern (14 bp):
ACATGGGCTGGGAC
Found at i:359729 original size:13 final size:14
Alignment explanation
Indices: 359709--359748 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
359699 TATGCAATTT
359709 ATATATAAAAAATA
1 ATATATAAAAAATA
*
359723 A-ATATAAAAATTA
1 ATATATAAAAAATA
359736 ATATATTAAAAAA
1 ATATA-TAAAAAA
359749 GTTAATTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 12 0.55
14 4 0.18
15 6 0.27
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATATATAAAAAATA
Found at i:362070 original size:9 final size:9
Alignment explanation
Indices: 362058--362083 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
362048 AAAATATATT
362058 AAATGTAAA
1 AAATGTAAA
362067 AAATGTAAA
1 AAATGTAAA
362076 AAATGTAA
1 AAATGTAA
362084 TTTTTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.23
Consensus pattern (9 bp):
AAATGTAAA
Found at i:362603 original size:2 final size:2
Alignment explanation
Indices: 362596--362621 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
362586 TTTAATCTCA
362596 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
362622 TTATCATGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:364948 original size:13 final size:13
Alignment explanation
Indices: 364926--364963 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
364916 GTGATATTTA
364926 TTTT-TTTTCTTT
1 TTTTCTTTTCTTT
364938 TTTTCTTTTCTTT
1 TTTTCTTTTCTTT
*
364951 TATTCTTCTTCTT
1 TTTTCTT-TTCTT
364964 CCCCTTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 4 0.17
13 14 0.61
14 5 0.22
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTCTTTTCTTT
Found at i:365398 original size:30 final size:30
Alignment explanation
Indices: 365363--365468 Score: 140
Period size: 30 Copynumber: 3.5 Consensus size: 30
365353 GGCCAAAGTG
365363 TAATTTTAGGAAAATTTAAGGGTTAAAATA
1 TAATTTTAGGAAAATTTAAGGGTTAAAATA
* * * * *
365393 TAATTTCATGAAAGTTTATGGGTTAAAATG
1 TAATTTTAGGAAAATTTAAGGGTTAAAATA
* *
365423 TAATTTTAGGAAAGTTTAAGGGTCAAAATA
1 TAATTTTAGGAAAATTTAAGGGTTAAAATA
*
365453 TAATTTTAAGAAAATT
1 TAATTTTAGGAAAATT
365469 CAGATGTCAA
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.43, C:0.02, G:0.17, T:0.38
Consensus pattern (30 bp):
TAATTTTAGGAAAATTTAAGGGTTAAAATA
Found at i:365481 original size:60 final size:60
Alignment explanation
Indices: 365342--365488 Score: 170
Period size: 60 Copynumber: 2.4 Consensus size: 60
365332 CAAACATAGC
* * * * *
365342 AAAATTCTTGGGGCCAAAGTGTAATTTTAGGAAAATTTAAGGGTTAAAATATAATTTCATG
1 AAAATTCAT-GGGTCAAAATGTAATTTTAGGAAAATTTAAGGGTCAAAATATAATTTCAAG
* * * * *
365403 AAAGTTTATGGGTTAAAATGTAATTTTAGGAAAGTTTAAGGGTCAAAATATAATTTTAAG
1 AAAATTCATGGGTCAAAATGTAATTTTAGGAAAATTTAAGGGTCAAAATATAATTTCAAG
*
365463 AAAATTCA-GATGTCAAAATGTAATTT
1 AAAATTCATG-GGTCAAAATGTAATTT
365489 AAAAAATGCA
Statistics
Matches: 71, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
59 1 0.01
60 64 0.90
61 6 0.08
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.35
Consensus pattern (60 bp):
AAAATTCATGGGTCAAAATGTAATTTTAGGAAAATTTAAGGGTCAAAATATAATTTCAAG
Found at i:368820 original size:50 final size:50
Alignment explanation
Indices: 368748--368883 Score: 177
Period size: 50 Copynumber: 2.7 Consensus size: 50
368738 AGTGAAAGTG
* *
368748 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAT-G-
1 ATGGTCACATATGTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATGGA
* *
368797 ATGGGTCGCATATGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGAA
1 AT-GGTCACATATGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGG-A
* *
368849 ATGGTCACATGTGTAGTGCTATGTGCAGGCTACTA
1 ATGGTCACATATGTAGTACTATGTGCAGGCTACTA
368884 TGTGAGCCGG
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
49 4 0.05
50 40 0.53
51 30 0.39
52 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (50 bp):
ATGGTCACATATGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGGA
Found at i:370066 original size:49 final size:49
Alignment explanation
Indices: 369994--370087 Score: 125
Period size: 49 Copynumber: 1.9 Consensus size: 49
369984 CTTTCGATAA
* * * *
369994 GTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATAAGTGATTACATATAAGACCATAGCTGGACTATGGCATCGGTAT
* * *
370043 GTGATAAGTGATTACATGTAAGACCATAGTTGGACTATGGTATCG
1 GTGATAAGTGATTACATATAAGACCATAGCTGGACTATGGCATCG
370088 AGAAAAAGAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
49 38 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (49 bp):
GTGATAAGTGATTACATATAAGACCATAGCTGGACTATGGCATCGGTAT
Found at i:370791 original size:157 final size:157
Alignment explanation
Indices: 370505--370819 Score: 558
Period size: 157 Copynumber: 2.0 Consensus size: 157
370495 TTTGTCCATA
* *
370505 CGGGTAGACACATGGGCGTGTGACCGCTATATGTGAGAAAATATATGAATGAACTAGGTGGTTAT
1 CGGGTAGACACACGGGCGTGTGACCCCTATATGTGAGAAAATATATGAATGAACTAGGTGGTTAT
*
370570 GATGGTATTACATTGAAGATGAATGTTAAGTCTTATATATATATATATATATATATGAGAATAAG
66 GATGGTATTACATTGAAGATGAATGTAAAGTCTTATATATATATATATATATATATGAGAATAAG
*
370635 ATAAAGGCTTTATGACCTCACCCTCAC
131 ATAAAGGCTTTATGACCTCACCATCAC
*
370662 CGGGTAGACACACGGGTGTGTGACCCCTATATGTGAGAAAATATATGAATGAACTAGGTGGTTAT
1 CGGGTAGACACACGGGCGTGTGACCCCTATATGTGAGAAAATATATGAATGAACTAGGTGGTTAT
* *
370727 GATGGTATTACATTGAAGATGAATGTAAAGTCTTATATATATATATATGTATTTATGAGAATAAG
66 GATGGTATTACATTGAAGATGAATGTAAAGTCTTATATATATATATATATATATATGAGAATAAG
*
370792 TTAAAGGCTTTATGACCTCACCATCAC
131 ATAAAGGCTTTATGACCTCACCATCAC
370819 C
1 C
370820 CCTTTATTAG
Statistics
Matches: 150, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
157 150 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (157 bp):
CGGGTAGACACACGGGCGTGTGACCCCTATATGTGAGAAAATATATGAATGAACTAGGTGGTTAT
GATGGTATTACATTGAAGATGAATGTAAAGTCTTATATATATATATATATATATATGAGAATAAG
ATAAAGGCTTTATGACCTCACCATCAC
Found at i:376017 original size:45 final size:46
Alignment explanation
Indices: 375944--376051 Score: 177
Period size: 46 Copynumber: 2.4 Consensus size: 46
375934 TACGTATGAT
*
375944 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACCTGATCAGATAAGTGTAGCTAAAGCTAC
*
375987 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACCTGATCAGATAAGTGTAGCTAAAGCTAC
376033 CACTTATCACTTTGTCACC
1 CACTTATCACTTTGTCACC
376052 ACTTATCACT
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
43 10 0.17
44 5 0.08
45 20 0.34
46 24 0.41
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (46 bp):
CACTTATCACTTTGTCACCTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:376154 original size:37 final size:37
Alignment explanation
Indices: 376050--376270 Score: 376
Period size: 37 Copynumber: 6.1 Consensus size: 37
376040 CACTTTGTCA
* *
376050 CCACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
* **
376085 CTAAATATCACTTTGTTTC-TGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
376121 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
376158 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
376195 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
376232 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
376269 CC
1 CC
376271 GCTCAATTTG
Statistics
Matches: 176, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
35 8 0.05
36 36 0.20
37 132 0.75
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.38
Consensus pattern (37 bp):
CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
Found at i:378946 original size:7 final size:7
Alignment explanation
Indices: 378930--378961 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
378920 CTAAAGCTAC
*
378930 CACTTAT
1 CACTTGT
378937 CACTTGT
1 CACTTGT
378944 CACTTGT
1 CACTTGT
378951 CACTTGT
1 CACTTGT
378958 CACT
1 CACT
378962 GATTAGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.19, C:0.31, G:0.09, T:0.41
Consensus pattern (7 bp):
CACTTGT
Found at i:378988 original size:51 final size:51
Alignment explanation
Indices: 378933--379114 Score: 211
Period size: 51 Copynumber: 3.4 Consensus size: 51
378923 AAGCTACCAC
* * * *
378933 TTATCACTTGTCACTTGTCACTTGTCACTGATTAGATAAGTGTACCTGAAG
1 TTATCACTTATCACTTGTCACTTGTCACTGATAAGATAAGTGTAGCTAAAG
*
378984 TTATCACTTATCACTTGCCACTTGCCACTTGCCACTGATAAGATAAGTGTAGCTAAAG
1 TTATCACTTATCACTTG-----T--CACTTGTCACTGATAAGATAAGTGTAGCTAAAG
* * * *
379042 CTATCACTTATCACTTGCCATTTGTCACTGATCAGATAAGTGTAGCTAAAG
1 TTATCACTTATCACTTGTCACTTGTCACTGATAAGATAAGTGTAGCTAAAG
*
379093 TTACCACTTATCACTTGTCACT
1 TTATCACTTATCACTTGTCACT
379115 GATCAGAAGA
Statistics
Matches: 110, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
51 64 0.58
56 1 0.01
58 45 0.41
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (51 bp):
TTATCACTTATCACTTGTCACTTGTCACTGATAAGATAAGTGTAGCTAAAG
Found at i:378992 original size:58 final size:58
Alignment explanation
Indices: 378885--379114 Score: 276
Period size: 58 Copynumber: 4.1 Consensus size: 58
378875 TTGCGTATGA
* * *
378885 TCACTTATCACTTGTCCCTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCACTTG
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* * * * *
378943 TCACTTGTCACTTGTCACTGATTAGATAAGTGTACCTGAAGTTATCACTTATCACTTG
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* * * * *
379001 CCACTTGCCACTTGCCACTGATAAGATAAGTGTAGCTAAAGCTATCACTTATCACTTG
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* *
379059 ---C----CATTTGTCACTGATCAGATAAGTGTAGCTAAAGTTACCACTTATCACTTG
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
379110 TCACT
1 TCACT
379115 GATCAGAAGA
Statistics
Matches: 148, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
51 45 0.30
54 1 0.01
55 1 0.01
58 101 0.68
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (58 bp):
TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
Found at i:379005 original size:7 final size:7
Alignment explanation
Indices: 378995--379019 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
378985 TATCACTTAT
378995 CACTTGC
1 CACTTGC
379002 CACTTGC
1 CACTTGC
379009 CACTTGC
1 CACTTGC
379016 CACT
1 CACT
379020 GATAAGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.44, G:0.12, T:0.28
Consensus pattern (7 bp):
CACTTGC
Found at i:385530 original size:30 final size:30
Alignment explanation
Indices: 385490--385613 Score: 128
Period size: 30 Copynumber: 4.2 Consensus size: 30
385480 AAAATTTTAT
385490 ATTTTAACCCCTAAAATTTTTCAAAATTAC
1 ATTTTAACCCCTAAAATTTTTCAAAATTAC
* * *
385520 ATGTCAACCCCTAAACA-TTTT-GAAATTAC
1 ATTTTAACCCCTAAA-ATTTTTCAAAATTAC
* * * * *
385549 ATTTTGACCCCTGAACTTTCTCGAAATTAC
1 ATTTTAACCCCTAAAATTTTTCAAAATTAC
*
385579 ATTTTAACCCCT-AAATTTTCTCAAAATTAT
1 ATTTTAACCCCTAAAATTTT-TCAAAATTAC
385609 ATTTT
1 ATTTT
385614 GGCCCCAGAA
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
29 26 0.34
30 49 0.64
31 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.40
Consensus pattern (30 bp):
ATTTTAACCCCTAAAATTTTTCAAAATTAC
Found at i:386157 original size:17 final size:16
Alignment explanation
Indices: 386117--386171 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 16
386107 GTCTGAACGA
386117 AGAAGAAG-AAAAAAG
1 AGAAGAAGAAAAAAAG
*
386132 A-AAGGAGAAAAAAAG
1 AGAAGAAGAAAAAAAG
* *
386147 AGAAGAA-AGAAGAAG
1 AGAAGAAGAAAAAAAG
386162 -GAAGAAGAAA
1 AGAAGAAGAAA
386172 GGGGGAAAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
14 11 0.34
15 17 0.53
16 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (16 bp):
AGAAGAAGAAAAAAAG
Found at i:386318 original size:16 final size:17
Alignment explanation
Indices: 386297--386328 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
386287 GCAGCCCCCC
386297 AAAAAAAGAA-AAGCAA
1 AAAAAAAGAAGAAGCAA
386313 AAAAAAAGAAGAAGCA
1 AAAAAAAGAAGAAGCA
386329 GGCCACTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.78, C:0.06, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAGAAGCAA
Found at i:386499 original size:10 final size:10
Alignment explanation
Indices: 386484--386560 Score: 63
Period size: 10 Copynumber: 7.8 Consensus size: 10
386474 AGCCCAGTCC
386484 AAAAAAAGAG
1 AAAAAAAGAG
386494 AAAAAAA-A-
1 AAAAAAAGAG
*
386502 AGAAAAAGAG
1 AAAAAAAGAG
**
386512 AGGAAAAGAG
1 AAAAAAAGAG
386522 AAGAAAAA-AG
1 AA-AAAAAGAG
*
386532 -AAAAAAGAA
1 AAAAAAAGAG
386541 AAAAAAAGAAG
1 AAAAAAAG-AG
386552 AAGAAAAAG
1 AA-AAAAAG
386561 GGGGTTCAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
8 11 0.20
9 4 0.07
10 26 0.48
11 7 0.13
12 6 0.11
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:386528 original size:28 final size:29
Alignment explanation
Indices: 386484--386559 Score: 100
Period size: 28 Copynumber: 2.6 Consensus size: 29
386474 AGCCCAGTCC
* *
386484 AAAAAAAGAGAAAAAAAAAG-AAAAAGAG
1 AAAAAAAGAGAAGAAAAAAGAAAAAAGAA
**
386512 AGGAAAAGAGAAGAAAAAAGAAAAAAGAA
1 AAAAAAAGAGAAGAAAAAAGAAAAAAGAA
386541 AAAAAAAGAAGAAGAAAAA
1 AAAAAAAG-AGAAGAAAAA
386560 GGGGGTTCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
28 17 0.43
29 13 0.32
30 10 0.25
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (29 bp):
AAAAAAAGAGAAGAAAAAAGAAAAAAGAA
Found at i:386911 original size:16 final size:16
Alignment explanation
Indices: 386892--386958 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 16
386882 AAAAAAATCC
*
386892 TCGTGTTTCGAAATTT
1 TCGTGTTTCAAAATTT
386908 TCGTGTCTTCAAAAAATTTT
1 TCGTGT-TTC--AAAA-TTT
*
386928 CTCGTGTTTCAAAATTC
1 -TCGTGTTTCAAAATTT
386945 TCGTGTTTTCAAAA
1 TCGTG-TTTCAAAA
386959 ATAAGGAAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
16 11 0.26
17 13 0.30
18 4 0.09
19 3 0.07
20 6 0.14
21 6 0.14
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (16 bp):
TCGTGTTTCAAAATTT
Found at i:386959 original size:18 final size:17
Alignment explanation
Indices: 386884--386960 Score: 68
Period size: 16 Copynumber: 4.4 Consensus size: 17
386874 AAATTTTCAA
*
386884 AAAAATCCTCGTGTTTC
1 AAAAATTCTCGTGTTTC
* *
386901 -GAAATTTTCGTGTCTTC
1 AAAAATTCTCGTGT-TTC
386918 AAAAAATTTTCTCGTGTTTC
1 -AAAAA--TTCTCGTGTTTC
386938 -AAAATTCTCGTGTTTTC
1 AAAAATTCTCGTG-TTTC
386955 AAAAAT
1 AAAAAT
386961 AAGGAAACAA
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
16 18 0.38
17 7 0.15
18 9 0.19
19 3 0.06
20 3 0.06
21 8 0.17
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.42
Consensus pattern (17 bp):
AAAAATTCTCGTGTTTC
Found at i:387153 original size:18 final size:18
Alignment explanation
Indices: 387089--387270 Score: 138
Period size: 18 Copynumber: 10.3 Consensus size: 18
387079 AAAAATCCAG
* *
387089 TGTTTTCAAAAAATTCCA
1 TGTTTTCAAAAATTTTCA
* ** *
387107 T-TTTCCAAATTTTTTCG
1 TGTTTTCAAAAATTTTCA
*
387124 TGTTTTCTAAAAATTTTTA
1 TGTTTTC-AAAAATTTTCA
*
387143 TG-TTTCAAAAATTTTCG
1 TGTTTTCAAAAATTTTCA
*
387160 TGTTTTCAAAAATTTTCG
1 TGTTTTCAAAAATTTTCA
* *
387178 TGTTTTCAACAATTTTCG
1 TGTTTTCAAAAATTTTCA
* * *
387196 TATTTTCAAAAAATTTCG
1 TGTTTTCAAAAATTTTCA
* *
387214 TGTTTTCAACAATTCTCA
1 TGTTTTCAAAAATTTTCA
* * * *
387232 TG-TTTCTAGAATTCTCG
1 TGTTTTCAAAAATTTTCA
*
387249 TG-TTTCAAAAATTTTCG
1 TGTTTTCAAAAATTTTCA
387266 TGTTT
1 TGTTT
387271 AAAAAAAATT
Statistics
Matches: 132, Mismatches: 28, Indels: 8
0.79 0.17 0.05
Matches are distributed among these distances:
17 50 0.38
18 73 0.55
19 9 0.07
ACGTcount: A:0.27, C:0.14, G:0.09, T:0.49
Consensus pattern (18 bp):
TGTTTTCAAAAATTTTCA
Found at i:387158 original size:36 final size:36
Alignment explanation
Indices: 387118--387270 Score: 177
Period size: 36 Copynumber: 4.3 Consensus size: 36
387108 TTTCCAAATT
**
387118 TTTTCGTGTTTTCTAAAAATTTTTATG-TTTCAAAAA
1 TTTTCGTGTTTTC-AAAAATTTTCGTGTTTTCAAAAA
*
387154 TTTTCGTGTTTTCAAAAATTTTCGTGTTTTCAACAA
1 TTTTCGTGTTTTCAAAAATTTTCGTGTTTTCAAAAA
* * *
387190 TTTTCGTATTTTCAAAAAATTTCGTGTTTTCAACAA
1 TTTTCGTGTTTTCAAAAATTTTCGTGTTTTCAAAAA
* * * * *
387226 TTCTCATG-TTTCTAGAATTCTCGTG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAATTTTCGTGTTTTCAAAAA
387260 TTTTCGTGTTT
1 TTTTCGTGTTT
387271 AAAAAAAATT
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
34 14 0.14
35 26 0.26
36 60 0.60
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.50
Consensus pattern (36 bp):
TTTTCGTGTTTTCAAAAATTTTCGTGTTTTCAAAAA
Found at i:387213 original size:54 final size:54
Alignment explanation
Indices: 387091--387270 Score: 172
Period size: 54 Copynumber: 3.4 Consensus size: 54
387081 AAATCCAGTG
* * * **
387091 TTTTCAAAAAATTCCAT-TTTCCAAATTTTTTCGTGTTTTCTAAAAATTTT--TA
1 TTTTCAAAAAATTTCGTGTTTTCAAAAATTTTCGTGTTTTC-AAAAATTTTCGTA
* *
387143 TGTTTCAAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTTTCAACAATTTTCGTA
1 T-TTTCAAAAAATTTCGTGTTTTCAAAAATTTTCGTGTTTTCAAAAATTTTCGTA
* * * * * *
387198 TTTTCAAAAAATTTCGTGTTTTCAACAATTCTCATG-TTTCTAGAATTCTCGT-
1 TTTTCAAAAAATTTCGTGTTTTCAAAAATTTTCGTGTTTTCAAAAATTTTCGTA
* *
387250 GTTTCAAAAATTTTCGTGTTT
1 TTTTCAAAAAATTTCGTGTTT
387271 AAAAAAAATT
Statistics
Matches: 108, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
52 20 0.19
53 34 0.31
54 51 0.47
55 3 0.03
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.49
Consensus pattern (54 bp):
TTTTCAAAAAATTTCGTGTTTTCAAAAATTTTCGTGTTTTCAAAAATTTTCGTA
Found at i:387276 original size:17 final size:17
Alignment explanation
Indices: 387118--387275 Score: 156
Period size: 18 Copynumber: 9.0 Consensus size: 17
387108 TTTCCAAATT
387118 TTTTCGTGTTTTCTAAAAA
1 TTTTCGTG-TTTC-AAAAA
**
387137 TTTTTATGTTTCAAAAA
1 TTTTCGTGTTTCAAAAA
387154 TTTTCGTGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAA
*
387172 TTTTCGTGTTTTCAACAA
1 TTTTCGTG-TTTCAAAAA
*
387190 TTTTCGTATTTTCAAAAA
1 TTTTCGT-GTTTCAAAAA
* *
387208 ATTTCGTGTTTTCAACAA
1 TTTTCGTG-TTTCAAAAA
* * * *
387226 TTCTCATGTTTCTAGAA
1 TTTTCGTGTTTCAAAAA
*
387243 TTCTCGTGTTTCAAAAA
1 TTTTCGTGTTTCAAAAA
387260 TTTTCGTGTTT-AAAAA
1 TTTTCGTGTTTCAAAAA
387276 AAATTTTCTT
Statistics
Matches: 117, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
16 5 0.04
17 42 0.36
18 64 0.55
19 6 0.05
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.49
Consensus pattern (17 bp):
TTTTCGTGTTTCAAAAA
Found at i:392931 original size:14 final size:14
Alignment explanation
Indices: 392906--392949 Score: 63
Period size: 13 Copynumber: 3.1 Consensus size: 14
392896 CAATAATAAT
392906 AACAAGAAAAACAAA
1 AACAA-AAAAACAAA
392921 AACAAAAAAAC-AA
1 AACAAAAAAACAAA
*
392934 AACAAAAAAATAAA
1 AACAAAAAAACAAA
392948 AA
1 AA
392950 AATAAAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 12 0.44
14 10 0.37
15 5 0.19
ACGTcount: A:0.84, C:0.11, G:0.02, T:0.02
Consensus pattern (14 bp):
AACAAAAAAACAAA
Found at i:392935 original size:13 final size:13
Alignment explanation
Indices: 392906--392966 Score: 61
Period size: 13 Copynumber: 4.6 Consensus size: 13
392896 CAATAATAAT
392906 AACAAGAAAAACAAA
1 AACAA-AAAAAC-AA
392921 AACAAAAAAACAA
1 AACAAAAAAACAA
*
392934 AACAAAAAAATAA
1 AACAAAAAAACAA
* *
392947 AA-AAATAAAGAA
1 AACAAAAAAACAA
*
392959 AAGAAAAA
1 AACAAAAA
392967 GAAAAGTCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.24
13 20 0.49
14 6 0.15
15 5 0.12
ACGTcount: A:0.84, C:0.08, G:0.05, T:0.03
Consensus pattern (13 bp):
AACAAAAAAACAA
Found at i:392948 original size:21 final size:22
Alignment explanation
Indices: 392878--392971 Score: 75
Period size: 23 Copynumber: 4.1 Consensus size: 22
392868 TATTATGCCT
392878 AAAAAA-AAGACAAAAAAACAATA
1 AAAAAACAAGA-AAAAAAA-AATA
* *
392901 ATAATAACAAGAAAAACAAAAACA
1 A-AAAAACAAGAAAAA-AAAAATA
*
392925 AAAAAACAA-AACAAAAAAATA
1 AAAAAACAAGAAAAAAAAAATA
* * *
392946 AAAAAATAAAGAAAAGAAAAAGA
1 AAAAAA-CAAGAAAAAAAAAATA
392969 AAA
1 AAA
392972 GTCAAGATGA
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
21 12 0.21
22 6 0.11
23 20 0.35
24 12 0.21
25 7 0.12
ACGTcount: A:0.82, C:0.07, G:0.05, T:0.05
Consensus pattern (22 bp):
AAAAAACAAGAAAAAAAAAATA
Found at i:392951 original size:35 final size:34
Alignment explanation
Indices: 392878--392960 Score: 78
Period size: 35 Copynumber: 2.4 Consensus size: 34
392868 TATTATGCCT
* * * *
392878 AAAAAAAAGACAAAAAAACAATAATAATAACAAGA
1 AAAAAAAAAACAAAAAAACAATAACAA-AAAAAAA
* *
392913 AAAACAAAAACAAAAAAACAA-AACAAAAAAATA
1 AAAAAAAAAACAAAAAAACAATAACAAAAAAAAA
* *
392946 AAAAAATAAAGAAAA
1 AAAAAAAAAACAAAA
392961 GAAAAAGAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
33 17 0.43
34 4 0.10
35 19 0.47
ACGTcount: A:0.82, C:0.08, G:0.04, T:0.06
Consensus pattern (34 bp):
AAAAAAAAAACAAAAAAACAATAACAAAAAAAAA
Found at i:395477 original size:75 final size:75
Alignment explanation
Indices: 393847--395498 Score: 1751
Period size: 75 Copynumber: 21.8 Consensus size: 75
393837 ATTTTTGGAA
* **
393847 AAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCACGGGT--CAT-CCTGAGGTATTTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATACC-GAGGTA-TTTTCAA
* *
393909 TTTTTGTTTTTTA
64 TTTCTG-TTTTTC
* * *
393922 AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGT--CAT-CCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATACC-GAGGTATTTTCAAT
*
393984 TTATGTTTTTC
65 TTCTGTTTTTC
* *
393995 AAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTTGGGT--CAT-CCTGAGGTATTTTCA
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATACC-GAGGTATTTTCA
* *
394057 ATTTATGTTTTTAAAAA
63 ATTTCTGTTTTT----C
* * *
394074 AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGGT--CAT-CCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATACC-GAGGTATTTTCAAT
*
394136 TTATGTTTTTC
65 TTCTGTTTTTC
* * *
394147 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGTGCCTCGGGT--CAT-CCTGAGATATTTTTC
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATACC-GAGGTA-TTTTC
* * *
394209 ATTTTATCTTTTTC
62 AATTTCTGTTTTTC
* * **
394223 AAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAACCTCAGGT--CAT-CCTGAGGTATTTTCA
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATACC-GAGGTATTTTCA
*
394285 ATTTATGTTTTTC
63 ATTTCTGTTTTTC
* * ** *
394298 AAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGTTACACGCTGAGGTATTTTTCA
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATACCGAGGTA-TTTTCA
394363 ATTTCTGTTTTTC
63 ATTTCTGTTTTTC
* * * *
394376 AAAAAAGTCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGATCACACGA-TGAGGTATTTTTC
1 -AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACA-TACCGAGGTA-TTTTC
394440 AATTTCTGTTTTTC
62 AATTTCTGTTTTTC
* * * ** *
394454 AAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAGACGCTGAGGTATTTTTCA
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATACCGAGGTA-TTTTCA
*
394519 ATTTTTGTTTTTC
63 ATTTCTGTTTTTC
* *
394532 AAATAAATCAACTCATATTGCGAGAGGGGAGTTGAGCCTTGGGTCACATACCGGGGTATCTTT-A
1 -AA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATACCGAGGTAT-TTTCA
*
394596 ATTTCTGCTTTTC
63 ATTTCTGTTTTTC
* * *
394609 AGAAATCAACTCATATTGCGAGAGGGGAGTTGAGCCTTGGGTCACATACCGGGGTATCTTT-AAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATACCGAGGTAT-TTTCAAT
*
394673 TTCTGCTTTTC
65 TTCTGTTTTTC
* * *
394684 AGAAATCAACTCATATTGCGAGAGGGGAGTTGAGCCTTGGGTCACATACCGGGGTATCTTT-AAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATACCGAGGTAT-TTTCAAT
*
394748 TTCTGCTTTTC
65 TTCTGTTTTTC
* * *
394759 AGAAATCAACTCATATTGCGAGAGGGGAGTTGAGCCTTGGGTCACATACCGGGGTATCTTT-AAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATACCGAGGTAT-TTTCAAT
*
394823 TTCTGCTTTTC
65 TTCTGTTTTTC
* * *
394834 AGAAATCAACTCATATTGCGAGAGGGGAGTTGAGCCTTGGGTCACATACCGGGGTATCTTT-AAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATACCGAGGTAT-TTTCAAT
*
394898 TTCTGCTTTTC
65 TTCTGTTTTTC
* * *
394909 AGAAATCAACTCATATTGCGAGAGGGGAGTTGAGCCTTGGGTCACATACCGGGGTATCTTT-AAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATACCGAGGTAT-TTTCAAT
*
394973 TTCTGCTTTTC
65 TTCTGTTTTTC
* * *
394984 AGAAATCAACTCATATTGCGAGAGGGGAGTTGAGCCTTGGGTCACATACCGGGGTATCTTT-AAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATACCGAGGTAT-TTTCAAT
*
395048 TTCTGCTTTTC
65 TTCTGTTTTTC
* * *
395059 AGAAATCAACTCATATTGCGAGAGGGGAGTTGAGCCTTGGGTCACATACCGGGGTATCTTT-AAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATACCGAGGTAT-TTTCAAT
*
395123 TTCTGCTTTTC
65 TTCTGTTTTTC
* * *
395134 AGAAATCAACTCATATTGCGAGAGGGGAGTTGAGCCTTGGGTCACATACCGGGGTATCTTT-AAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATACCGAGGTAT-TTTCAAT
*
395198 TTCTGCTTTTC
65 TTCTGTTTTTC
* * * ** *
395209 AGAAATCAACTCATATTGCGAGAGGGGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTCTTTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATACCGAGGTA----TTTTC
*
395274 AATTT-TTTTTTTC
62 AATTTCTGTTTTTC
* * *
395287 AGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCGCATGCCGAGGTATTCTTTTCA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATACCGAGGTA---TTTTCA
395352 ATTTCTGTTTTTC
63 ATTTCTGTTTTTC
* * * ** * *
395365 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCTCACGCTGAGGTATTTTAAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATACCGAGGTATTTTCAATT
*
395430 TCCGTTTTTC
66 TCTGTTTTTC
* * *** *
395440 AAAAATGAACTCATATTGCGAAAGGTGAGTTGAGCCTCAAGTCACATGCCGAGGTATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATACCGAGGTATTT
395499 CTTTTTAATT
Statistics
Matches: 1470, Mismatches: 82, Indels: 50
0.92 0.05 0.03
Matches are distributed among these distances:
73 5 0.00
74 12 0.01
75 947 0.64
76 69 0.05
77 111 0.08
78 314 0.21
79 12 0.01
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.34
Consensus pattern (75 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATACCGAGGTATTTTCAATT
TCTGTTTTTC
Found at i:395780 original size:30 final size:30
Alignment explanation
Indices: 395740--395872 Score: 119
Period size: 30 Copynumber: 4.4 Consensus size: 30
395730 TGTGTTTAAA
395740 AAAATTTACATTTTAACCCCTAAAATTTTTC
1 AAAA-TTACATTTTAACCCCTAAAATTTTTC
* * *
395771 AAAATTACATATCAACCTCTAAACA-TTTT-
1 AAAATTACATTTTAACCCCTAAA-ATTTTTC
* * * * * *
395800 GAAATTACATTTTGACCTCTGAACTTTCTC
1 AAAATTACATTTTAACCCCTAAAATTTTTC
*
395830 GAAATTACATTTTAACCCCT-AAATTTTCTC
1 AAAATTACATTTTAACCCCTAAAATTTT-TC
*
395860 AAAATTATATTTT
1 AAAATTACATTTT
395873 GGCCTCAGAA
Statistics
Matches: 82, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
29 26 0.32
30 51 0.62
31 5 0.06
ACGTcount: A:0.37, C:0.20, G:0.03, T:0.41
Consensus pattern (30 bp):
AAAATTACATTTTAACCCCTAAAATTTTTC
Found at i:396401 original size:17 final size:17
Alignment explanation
Indices: 396379--396413 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
396369 GGTCTGAACG
396379 AAGGAGAAGAAAAA-AGA
1 AAGGAGAA-AAAAAGAGA
396396 AAGGAGAAAAAAAGAGA
1 AAGGAGAAAAAAAGAGA
396413 A
1 A
396414 GAAAGAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (17 bp):
AAGGAGAAAAAAAGAGA
Found at i:396418 original size:24 final size:24
Alignment explanation
Indices: 396386--396455 Score: 65
Period size: 26 Copynumber: 2.9 Consensus size: 24
396376 ACGAAGGAGA
*
396386 AGAAAAAAGAAAGGAGAAAAAAAG
1 AGAAGAAAGAAAGGAGAAAAAAAG
396410 AGAAGAAAGAAGAAGGA-AGAAAAAAG
1 AGAAGAAAG-A-AAGGAGA-AAAAAAG
* *
396436 AG-GGAAAGAAA-AAGAAAAAA
1 AGAAGAAAGAAAGGAGAAAAAA
396456 GAAAAAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
22 6 0.15
23 3 0.08
24 9 0.23
25 7 0.18
26 14 0.36
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (24 bp):
AGAAGAAAGAAAGGAGAAAAAAAG
Found at i:396441 original size:14 final size:14
Alignment explanation
Indices: 396384--396462 Score: 67
Period size: 14 Copynumber: 5.7 Consensus size: 14
396374 GAACGAAGGA
396384 GAAGAAAAAAGAAAG
1 GAAGAAAAAAG-AAG
396399 G-AG-AAAAA-AAG
1 GAAGAAAAAAGAAG
*
396410 AGAAGAAAGAAGAAG
1 -GAAGAAAAAAGAAG
*
396425 GAAGAAAAAAGAGG
1 GAAGAAAAAAGAAG
*
396439 GAA-AGAAAAAGAAA
1 GAAGA-AAAAAGAAG
*
396453 AAAGAAAAAA
1 GAAGAAAAAA
396463 ATTAAATCAG
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
11 3 0.06
12 1 0.02
13 8 0.15
14 35 0.67
15 5 0.10
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (14 bp):
GAAGAAAAAAGAAG
Found at i:396463 original size:8 final size:7
Alignment explanation
Indices: 396385--396462 Score: 52
Period size: 7 Copynumber: 11.3 Consensus size: 7
396375 AACGAAGGAG
396385 AAGAAAA
1 AAGAAAA
*
396392 AAGAAAG
1 AAGAAAA
*
396399 GAGAAAA
1 AAGAAAA
* *
396406 AA-AGAG
1 AAGAAAA
*
396412 AAGAAAG
1 AAGAAAA
**
396419 AAGAAGG
1 AAGAAAA
396426 AAGAAAA
1 AAGAAAA
**
396433 AAGAGGGA
1 AAGA-AAA
396441 AAG-AAA
1 AAGAAAA
396447 AAGAAAA
1 AAGAAAA
396454 AAGAAAA
1 AAGAAAA
396461 AA
1 AA
396463 ATTAAATCAG
Statistics
Matches: 54, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
6 8 0.15
7 42 0.78
8 4 0.07
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:396592 original size:17 final size:16
Alignment explanation
Indices: 396560--396593 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
396550 TAGCAGCCCA
396560 AAAAAAAAAGAAAAGC
1 AAAAAAAAAGAAAAGC
*
396576 AAAAAAGAAGAAGAAGC
1 AAAAAAAAAGAA-AAGC
396593 A
1 A
396594 GACCACTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.76, C:0.06, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAAAGC
Found at i:396765 original size:11 final size:11
Alignment explanation
Indices: 396749--396831 Score: 75
Period size: 12 Copynumber: 7.7 Consensus size: 11
396739 AGCCCAGTCC
396749 AAAAAAAGAG-
1 AAAAAAAGAGA
396759 AAAAAAA-A-A
1 AAAAAAAGAGA
*
396768 AGAAAAAGAGA
1 AAAAAAAGAGA
**
396779 GGAAAAA-AGA
1 AAAAAAAGAGA
396789 AAAAAAAGAGA
1 AAAAAAAGAGA
*
396800 AGAAAAAAGAAA
1 A-AAAAAAGAGA
396812 AAAAAAAGAAGA
1 AAAAAAAG-AGA
*
396824 AGAAAAAG
1 AAAAAAAG
396832 GGGGTTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
9 7 0.12
10 16 0.27
11 18 0.30
12 19 0.32
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAGA
Found at i:396784 original size:18 final size:18
Alignment explanation
Indices: 396751--396831 Score: 74
Period size: 18 Copynumber: 4.3 Consensus size: 18
396741 CCCAGTCCAA
*
396751 AAAAAGAGAAAAAAAAAAG
1 AAAAAGAG-AAGAAAAAAG
*
396770 AAAAAGAGAGGAAAAAAG
1 AAAAAGAGAAGAAAAAAG
396788 AAAAAAAAGAGAAGAAAAAAG
1 ---AAAAAGAGAAGAAAAAAG
* * *
396809 AAAAAAAAAAG-AAGAAG
1 AAAAAGAGAAGAAAAAAG
396826 AAAAAG
1 AAAAAG
396832 GGGGTTCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
17 10 0.19
18 17 0.33
19 8 0.15
21 17 0.33
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAGAGAAGAAAAAAG
Found at i:396791 original size:24 final size:23
Alignment explanation
Indices: 396749--396830 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 23
396739 AGCCCAGTCC
396749 AAAAAA-AG-AGAAAAAA-AAAA
1 AAAAAAGAGAAGAAAAAAGAAAA
* *
396769 GAAAAAGAGAGGAAAAAAG--AA
1 AAAAAAGAGAAGAAAAAAGAAAA
396790 AAAAAAGAGAAGAAAAAAGAAAA
1 AAAAAAGAGAAGAAAAAAGAAAA
396813 AAAAAAGAAGAAGAAAAA
1 AAAAAAG-AGAAGAAAAA
396831 GGGGGTTCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
20 5 0.10
21 21 0.40
22 7 0.13
23 9 0.17
24 10 0.19
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (23 bp):
AAAAAAGAGAAGAAAAAAGAAAA
Found at i:397180 original size:16 final size:16
Alignment explanation
Indices: 397161--397227 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 16
397151 AAAAAAATCC
*
397161 TCGTGTTTCGAAATTT
1 TCGTGTTTCAAAATTT
397177 TCGTGTCTTCAAAAAATTTT
1 TCGTGT-TTC--AAAA-TTT
*
397197 CTCGTGTTTCAAAATTC
1 -TCGTGTTTCAAAATTT
397214 TCGTGTTTTCAAAA
1 TCGTG-TTTCAAAA
397228 ATAAGGCAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
16 11 0.26
17 13 0.30
18 4 0.09
19 3 0.07
20 6 0.14
21 6 0.14
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (16 bp):
TCGTGTTTCAAAATTT
Found at i:397191 original size:37 final size:37
Alignment explanation
Indices: 397150--397228 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
397140 TAAATTTTCA
* *
397150 AAAAAAAATCCTCGTGTTTCGAAATTTTCGTGTCTTC
1 AAAAAAAATCCTCGTGTTTCAAAATTCTCGTGTCTTC
** * *
397187 AAAAAATTTTCTCGTGTTTCAAAATTCTCGTGTTTTC
1 AAAAAAAATCCTCGTGTTTCAAAATTCTCGTGTCTTC
397224 AAAAA
1 AAAAA
397229 TAAGGCAACT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.39
Consensus pattern (37 bp):
AAAAAAAATCCTCGTGTTTCAAAATTCTCGTGTCTTC
Found at i:397228 original size:18 final size:17
Alignment explanation
Indices: 397153--397229 Score: 68
Period size: 16 Copynumber: 4.4 Consensus size: 17
397143 ATTTTCAAAA
*
397153 AAAAATCCTCGTGTTTC
1 AAAAATTCTCGTGTTTC
* *
397170 -GAAATTTTCGTGTCTTC
1 AAAAATTCTCGTGT-TTC
397187 AAAAAATTTTCTCGTGTTTC
1 -AAAAA--TTCTCGTGTTTC
397207 -AAAATTCTCGTGTTTTC
1 AAAAATTCTCGTG-TTTC
397224 AAAAAT
1 AAAAAT
397230 AAGGCAACTA
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
16 18 0.38
17 7 0.15
18 9 0.19
19 3 0.06
20 3 0.06
21 8 0.17
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.42
Consensus pattern (17 bp):
AAAAATTCTCGTGTTTC
Found at i:397401 original size:36 final size:35
Alignment explanation
Indices: 397358--397533 Score: 171
Period size: 36 Copynumber: 5.0 Consensus size: 35
397348 AAAAAATCCA
**
397358 GTGTTTTCAAAAATTTCCAT-TTTCCAAATTTTTTTC
1 GTGTTTTCAAAAATTTCCATGTTT-CAAA-AATTTTC
**
397394 GTGTTTTCTAAAAATTTCTGTGTTTCAAAAATTTTC
1 GTGTTTTC-AAAAATTTCCATGTTTCAAAAATTTTC
* *
397430 GTGTTTTCAAAAATTTTCGTAT-TTTCAAAAAATTTC
1 GTGTTTTCAAAAA-TTTC-CATGTTTCAAAAATTTTC
* * * *
397466 GTGTTTTCAACAA-TTCTCATGTTTCTAGAATTCTC
1 GTGTTTTCAAAAATTTC-CATGTTTCAAAAATTTTC
*
397501 GTG-TTTCAAAAATTTCCGTGTTTCAAAAATTTT
1 GTGTTTTCAAAAATTTCCATGTTTCAAAAATTTT
397534 GCTTCAAAAT
Statistics
Matches: 116, Mismatches: 18, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
34 26 0.22
35 21 0.18
36 50 0.43
37 16 0.14
38 3 0.03
ACGTcount: A:0.28, C:0.14, G:0.10, T:0.48
Consensus pattern (35 bp):
GTGTTTTCAAAAATTTCCATGTTTCAAAAATTTTC
Found at i:397419 original size:18 final size:19
Alignment explanation
Indices: 397392--397532 Score: 103
Period size: 18 Copynumber: 7.9 Consensus size: 19
397382 CAAATTTTTT
397392 TCGTGTTTTCTAAAAATTTC
1 TCGTG-TTTCTAAAAATTTC
397412 T-GTGTTTC-AAAAATTT-
1 TCGTGTTTCTAAAAATTTC
397428 TCGTGTTT-TCAAAAATTT-
1 TCGTGTTTCT-AAAAATTTC
* *
397446 TCGTATTT-TCAAAAAATT-
1 TCGTGTTTCT-AAAAATTTC
*
397464 TCGTGTTT-TCAACAA-TTC
1 TCGTGTTTCT-AAAAATTTC
* *
397482 TCATGTTTCT-AGAA-TTC
1 TCGTGTTTCTAAAAATTTC
397499 TCGTGTTTC-AAAAATTTC
1 TCGTGTTTCTAAAAATTTC
397517 -CGTGTTTC-AAAAATTT
1 TCGTGTTTCTAAAAATTT
397533 TGCTTCAAAA
Statistics
Matches: 106, Mismatches: 8, Indels: 17
0.81 0.06 0.13
Matches are distributed among these distances:
16 1 0.01
17 49 0.46
18 51 0.48
19 4 0.04
20 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.47
Consensus pattern (19 bp):
TCGTGTTTCTAAAAATTTC
Found at i:397425 original size:17 final size:18
Alignment explanation
Indices: 397362--397532 Score: 135
Period size: 17 Copynumber: 9.7 Consensus size: 18
397352 AATCCAGTGT
*
397362 TTTCAAAAATTTC-CAT-
1 TTTCAAAAATTTCTCGTG
** *
397378 TTTCCAAATTTTTTTCGTG
1 TTT-CAAAAATTTCTCGTG
397397 TTTTCTAAAAATTTCT-GTG
1 -TTTC-AAAAATTTCTCGTG
397416 TTTCAAAAATTT-TCGTG
1 TTTCAAAAATTTCTCGTG
*
397433 TTTTCAAAAATTT-TCGTAT
1 -TTTCAAAAATTTCTCGT-G
*
397452 TTTCAAAAAATT-TCGTG
1 TTTCAAAAATTTCTCGTG
* *
397469 TTTTCAACAA-TTCTCATG
1 -TTTCAAAAATTTCTCGTG
* *
397487 TTTCTAGAA-TTCTCGTG
1 TTTCAAAAATTTCTCGTG
397504 TTTCAAAAATTTC-CGTG
1 TTTCAAAAATTTCTCGTG
397521 TTTCAAAAATTT
1 TTTCAAAAATTT
397533 TGCTTCAAAA
Statistics
Matches: 127, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
16 4 0.03
17 57 0.45
18 52 0.41
19 4 0.03
20 10 0.08
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.48
Consensus pattern (18 bp):
TTTCAAAAATTTCTCGTG
Found at i:398045 original size:26 final size:24
Alignment explanation
Indices: 398009--398059 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 24
397999 CTCTACCAAA
398009 ATTAAATTTAAATAATAAAAATATAT
1 ATTAAATTT-AATAAT-AAAATATAT
*
398035 ATTAAATTTAATTATAAAATATAT
1 ATTAAATTTAATAATAAAATATAT
398059 A
1 A
398060 AATATCAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 10 0.42
25 5 0.21
26 9 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
ATTAAATTTAATAATAAAATATAT
Found at i:407504 original size:9 final size:9
Alignment explanation
Indices: 407486--407546 Score: 52
Period size: 9 Copynumber: 6.4 Consensus size: 9
407476 TTATCTAAAT
*
407486 TTTTTAATA
1 TTTTTCATA
407495 TTTTTCATA
1 TTTTTCATA
*
407504 TATTTCTATAA
1 TTTTTC-AT-A
407515 TTTTTCATA
1 TTTTTCATA
*
407524 TTTCTACA-A
1 TTT-TTCATA
407533 TTTTTTCATA
1 -TTTTTCATA
407543 TTTT
1 TTTT
407547 ATGATTTTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
9 25 0.60
10 11 0.26
11 6 0.14
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTTTCATA
Found at i:407519 original size:20 final size:20
Alignment explanation
Indices: 407494--407543 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
407484 ATTTTTTAAT
*
407494 ATTTTTCATATATTTCTATA
1 ATTTTTCATATATTTCTACA
407514 ATTTTTC--ATATTTCTACA
1 ATTTTTCATATATTTCTACA
407532 ATTTTTTCATAT
1 A-TTTTTCATAT
407544 TTTATGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 11 0.42
19 6 0.23
20 7 0.27
21 2 0.08
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTTTCATATATTTCTACA
Found at i:407526 original size:18 final size:18
Alignment explanation
Indices: 407503--407554 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
407493 TATTTTTCAT
407503 ATATTTCTATAATTTTTC
1 ATATTTCTATAATTTTTC
*
407521 ATATTTCTACAATTTTTTC
1 ATATTTCTATAA-TTTTTC
*
407540 ATATTT-TATGATTTT
1 ATATTTCTATAATTTT
407555 CATTGAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 4 0.13
18 14 0.47
19 12 0.40
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.62
Consensus pattern (18 bp):
ATATTTCTATAATTTTTC
Found at i:407537 original size:19 final size:18
Alignment explanation
Indices: 407503--407545 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
407493 TATTTTTCAT
*
407503 ATATTTCTATAATTTTTC
1 ATATTTCTACAATTTTTC
407521 ATATTTCTACAATTTTTTC
1 ATATTTCTACAA-TTTTTC
407540 ATATTT
1 ATATTT
407546 TATGATTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTTCTACAATTTTTC
Found at i:410228 original size:18 final size:18
Alignment explanation
Indices: 410205--410243 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
410195 CATATACATG
410205 CATACATTTT-ATAATACA
1 CATACATTTTAAT-ATACA
410223 CATACATTTTAATATACA
1 CATACATTTTAATATACA
410241 CAT
1 CAT
410244 TTTTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (18 bp):
CATACATTTTAATATACA
Found at i:410801 original size:106 final size:108
Alignment explanation
Indices: 410537--410845 Score: 338
Period size: 106 Copynumber: 2.9 Consensus size: 108
410527 AAAAGAAAAT
* * * *
410537 TTTCTAAATAAGGCAATGTTTTGCGTTTGGAAAATCGAGAAAATGTACCCTAACGTGTTGGGTTT
1 TTTCAAAACAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCCCTAACGTGTTGGGTTT
* * *
410602 CGATTTCTAGTTCGACCAAAATAGCCAAATACCCTTTTTAAAC
66 CGATTACTAGTTCGACCAAAATAGCCAAATACCATTTTGAAAC
* * * * * * *
410645 TTTCAAAATAAGACCATATTTCGCGTTTGGAAATTTGAGAAAATGTGCCCTAACATGTTGGGTTT
1 TTTCAAAACAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCCCTAACGTGTTGGGTTT
* * * * * *
410710 CGATTACTCGTTTGGCC-AAATAGTCGAATATCATTTTGAAA-
66 CGATTACTAGTTCGACCAAAATAGCCAAATACCATTTTGAAAC
* * * *
410751 TTTTAAAACGAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTT
1 TTTCAAAACAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCCCTAACGTGTTGGGTTT
* * *
410816 CGATTTA-TCGTTCGA-CTAAATAGCGAAATA
66 CGA-TTACTAGTTCGACCAAAATAGCCAAATA
410846 TCCTCTTAAA
Statistics
Matches: 165, Mismatches: 34, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
105 1 0.01
106 73 0.44
107 22 0.13
108 69 0.42
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (108 bp):
TTTCAAAACAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCCCTAACGTGTTGGGTTT
CGATTACTAGTTCGACCAAAATAGCCAAATACCATTTTGAAAC
Found at i:411711 original size:67 final size:68
Alignment explanation
Indices: 411622--411760 Score: 192
Period size: 69 Copynumber: 2.0 Consensus size: 68
411612 GATTTTTTTC
* *
411622 TTAAAGGATTATTAAACTTATAAACCTGTG-TTTTTTAAGGGATAAATCTTAAAGA-TATACATG
1 TTAAAGGATTATTAAACTTATAAACCTGTGTTTTTTTAAGGGATAAATATCAAA-ACTATACATG
411685 AAAT
65 AAAT
* * *
411689 TTAAGGGATTTTTAAACTTATAAACCTGTGTTTTTTTTTAGGGATAAATATCAAAACTATACATG
1 TTAAAGGATTATTAAACTTATAAACCTGTG-TTTTTTTAAGGGATAAATATCAAAACTATACATG
*
411754 AACT
65 AAAT
411758 TTA
1 TTA
411761 GTCTAATGTG
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
67 28 0.44
68 1 0.02
69 34 0.54
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.40
Consensus pattern (68 bp):
TTAAAGGATTATTAAACTTATAAACCTGTGTTTTTTTAAGGGATAAATATCAAAACTATACATGA
AAT
Found at i:411783 original size:31 final size:29
Alignment explanation
Indices: 411746--411815 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
411736 ATATCAAAAC
*
411746 TATACATGAACTTTAGTCTAATGTGCAATTCT
1 TATACATGAACTTT-GACT-ATGTGCAATT-T
* *
411778 T-TACATGTACTTTGACTTTGTGCAATTT
1 TATACATGAACTTTGACTATGTGCAATTT
411806 TATACATGAA
1 TATACATGAA
411816 ATTTTGATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
28 2 0.06
29 16 0.48
30 3 0.09
31 11 0.33
32 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (29 bp):
TATACATGAACTTTGACTATGTGCAATTT
Found at i:418942 original size:23 final size:22
Alignment explanation
Indices: 418904--418946 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
418894 AAATTATAAA
*
418904 ATATAAAAAGATATATATGTTC
1 ATATAAAAAAATATATATGTTC
418926 ATATAAGAAAAATATATATGT
1 ATATAA-AAAAATATATATGT
418947 ATGTGAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.35
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTTC
Found at i:419144 original size:24 final size:25
Alignment explanation
Indices: 419104--419151 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
419094 TTAAAAAAAT
419104 ATGTACGTCTATGTATATATTATAAA
1 ATGTACGTCTATGTATATA-TATAAA
419130 ATGTACG-C-ATGTATATATATAA
1 ATGTACGTCTATGTATATATATAA
419152 CAAAATTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.23
24 9 0.41
25 1 0.05
26 7 0.32
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (25 bp):
ATGTACGTCTATGTATATATATAAA
Found at i:419156 original size:26 final size:26
Alignment explanation
Indices: 419104--419157 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
419094 TTAAAAAAAT
*
419104 ATGTACGTCTATGTATATATTATAAA
1 ATGTACGTCTATGTATATATTACAAA
419130 ATGTACG-C-ATGTATATATATAACAAA
1 ATGTACGTCTATGTATATAT-T-ACAAA
419156 AT
1 AT
419158 TTGAAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 10 0.40
25 2 0.08
26 13 0.52
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (26 bp):
ATGTACGTCTATGTATATATTACAAA
Found at i:421004 original size:13 final size:13
Alignment explanation
Indices: 420986--421010 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
420976 CTTAACCAAC
420986 AAACAAAAAAACA
1 AAACAAAAAAACA
420999 AAACAAAAAAAC
1 AAACAAAAAAAC
421011 CCTAGCCCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (13 bp):
AAACAAAAAAACA
Found at i:422122 original size:15 final size:14
Alignment explanation
Indices: 422091--422132 Score: 61
Period size: 15 Copynumber: 3.1 Consensus size: 14
422081 TTTCGGTTTG
422091 TTTGTT-TTATTA-
1 TTTGTTGTTATTAT
422103 TTTGTTGTTATTAT
1 TTTGTTGTTATTAT
422117 TGTTGTTGTTATTAT
1 T-TTGTTGTTATTAT
422132 T
1 T
422133 ATTATCACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.22
13 6 0.22
14 1 0.04
15 14 0.52
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (14 bp):
TTTGTTGTTATTAT
Found at i:422282 original size:22 final size:22
Alignment explanation
Indices: 422242--422348 Score: 77
Period size: 22 Copynumber: 5.0 Consensus size: 22
422232 TAATATTTTC
422242 TTATTATGCGTTGTATTATTTATTG
1 TTATTAT-CGTTG--TTATTTATTG
422267 TTATTATCGTTGTTATTTATTG
1 TTATTATCGTTGTTATTTATTG
422289 ----T-T-GTTGTTA-TTATTG
1 TTATTATCGTTGTTATTTATTG
*
422304 TTATTTATTGTT-TTATTTATTG
1 TTA-TTATCGTTGTTATTTATTG
* *
422326 TTATTTATTGTTATTATGTTATT
1 TTA-TTATCGTTGTTAT-TTATT
422349 TATTGATGTC
Statistics
Matches: 72, Mismatches: 0, Indels: 21
0.77 0.00 0.23
Matches are distributed among these distances:
15 6 0.08
16 7 0.10
17 1 0.01
18 1 0.01
20 1 0.01
21 4 0.06
22 31 0.43
23 4 0.06
24 10 0.14
25 7 0.10
ACGTcount: A:0.19, C:0.02, G:0.13, T:0.66
Consensus pattern (22 bp):
TTATTATCGTTGTTATTTATTG
Found at i:422292 original size:25 final size:25
Alignment explanation
Indices: 422264--422342 Score: 101
Period size: 25 Copynumber: 3.3 Consensus size: 25
422254 GTATTATTTA
*
422264 TTGTTATTATCGTTGTTATTTATTG
1 TTGTTATTATCATTGTTATTTATTG
* *
422289 TTGTTGTTATTATTGTTATTTATTG
1 TTGTTATTATCATTGTTATTTATTG
422314 TT-TTATT-T-ATTGTTATTTATTG
1 TTGTTATTATCATTGTTATTTATTG
*
422336 TTATTAT
1 TTGTTAT
422343 GTTATTTATT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
22 16 0.33
23 5 0.10
24 4 0.08
25 24 0.49
ACGTcount: A:0.18, C:0.01, G:0.13, T:0.68
Consensus pattern (25 bp):
TTGTTATTATCATTGTTATTTATTG
Found at i:422292 original size:37 final size:37
Alignment explanation
Indices: 422251--422351 Score: 107
Period size: 37 Copynumber: 2.6 Consensus size: 37
422241 CTTATTATGC
422251 GTTG-TATTATTTATTGTTA-TTATCGTTGTTATTTATT
1 GTTGTTATTA-TTATTGTTATTTATCGTT-TTATTTATT
* *
422288 GTTGTTGTTATTATTGTTATTTATTGTTTTATTTATT
1 GTTGTTATTATTATTGTTATTTATCGTTTTATTTATT
* *
422325 GTTATTTATTGTTATTATGTTATTTAT
1 GTT-GTTATTATTA-T-TGTTATTTAT
422352 TGATGTCTCA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
37 25 0.46
38 18 0.33
39 1 0.02
40 10 0.19
ACGTcount: A:0.19, C:0.01, G:0.13, T:0.67
Consensus pattern (37 bp):
GTTGTTATTATTATTGTTATTTATCGTTTTATTTATT
Found at i:422352 original size:22 final size:24
Alignment explanation
Indices: 422257--422348 Score: 104
Period size: 22 Copynumber: 4.0 Consensus size: 24
422247 ATGCGTTGTA
422257 TTATTTATTGTTATTATCG---TTG
1 TTATTTATTGTTATTAT-GTTATTG
* * *
422279 TTATTTATTGTTGTTGTTATTATTG
1 TTATTTATTGTTATT-ATGTTATTG
422304 TTATTTATTGTT-TTAT-TTATTG
1 TTATTTATTGTTATTATGTTATTG
422326 TTATTTATTGTTATTATGTTATT
1 TTATTTATTGTTATTATGTTATT
422349 TATTGATGTC
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
22 32 0.53
23 6 0.10
24 7 0.12
25 15 0.25
ACGTcount: A:0.18, C:0.01, G:0.12, T:0.68
Consensus pattern (24 bp):
TTATTTATTGTTATTATGTTATTG
Found at i:431368 original size:22 final size:23
Alignment explanation
Indices: 431342--431395 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
431332 TTCTAATAAA
*
431342 TTATAAAAAAATCT-TTAAAATT
1 TTATAAAAAAAACTATTAAAATT
*
431364 TTATAAAAAAAAGTATTAAAATT
1 TTATAAAAAAAACTATTAAAATT
*
431387 ATATAAAAA
1 TTATAAAAA
431396 CCATCAAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (23 bp):
TTATAAAAAAAACTATTAAAATT
Found at i:431450 original size:39 final size:38
Alignment explanation
Indices: 431369--431467 Score: 101
Period size: 39 Copynumber: 2.5 Consensus size: 38
431359 AAATTTTATA
*
431369 AAAAAAAGTATTAAAATTATATAAAAACCATCAAAACAAT
1 AAAAAAA-TATTAAAATTATAT-AAAACCATAAAAACAAT
* **
431409 AAAAATATATTAAAATTGATAT-AAACCTATAAAAATTAT
1 AAAAAAATATTAAAATT-ATATAAAACC-ATAAAAACAAT
431448 AAAAAAATAATATAAAATTA
1 AAAAAAAT-AT-TAAAATTA
431468 AACTAGACAG
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
38 5 0.10
39 25 0.50
40 13 0.26
41 7 0.14
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (38 bp):
AAAAAAATATTAAAATTATATAAAACCATAAAAACAAT
Found at i:436085 original size:7 final size:7
Alignment explanation
Indices: 436073--436097 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
436063 TACGCTACTG
436073 AATATAA
1 AATATAA
436080 AATATAA
1 AATATAA
436087 AATATAA
1 AATATAA
436094 AATA
1 AATA
436098 GATATTAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AATATAA
Found at i:449627 original size:87 final size:87
Alignment explanation
Indices: 449461--449651 Score: 210
Period size: 87 Copynumber: 2.2 Consensus size: 87
449451 CCAGTTTGTG
* **
449461 GATGAACCACCAGTGTCTGCAGATAAACTACCAGTAGGTGATGAATGCACAATGTATTTGCAGAT
1 GATGAACCACCAGTGTTTGCAGATAAACTACCAGTAGGTGATGAATGCACAACATATTTGCAGAT
**
449526 AAAAGTTGTCAGTAAGATT-GCA
66 AAAAGTACTCAGTAA-ATTCGCA
* * * *
449548 GATGAACCACCAGTGTTTGTAGATAAACTGCCAGTAGGTTG-TGAGTGCACAACATAATTT-TAG
1 GATGAACCACCAGTGTTTGCAGATAAACTACCAGTAGG-TGATGAATGCACAACAT-ATTTGCAG
**
449611 ATAAAAGCTACT-AGTAAATTCGTG
64 ATAAAAG-TACTCAGTAAATTCGCA
*
449635 GATAAACCACCAGTGTT
1 GATGAACCACCAGTGTT
449652 GCTGATTATT
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
86 3 0.03
87 77 0.88
88 8 0.09
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (87 bp):
GATGAACCACCAGTGTTTGCAGATAAACTACCAGTAGGTGATGAATGCACAACATATTTGCAGAT
AAAAGTACTCAGTAAATTCGCA
Found at i:449797 original size:38 final size:38
Alignment explanation
Indices: 449746--449843 Score: 142
Period size: 38 Copynumber: 2.6 Consensus size: 38
449736 ACAAGAACAA
*
449746 TAGACATGCTTAACATGTATTCGGTTCAACAATAGTAG
1 TAGACATGCTTAACATGTATTCGGTTCAACAATAATAG
* * *
449784 TAGACATGCTTAACATGTATTAGGTTTAATAATAATAG
1 TAGACATGCTTAACATGTATTCGGTTCAACAATAATAG
* *
449822 TAGGCATGTTTAACATGTATTC
1 TAGACATGCTTAACATGTATTC
449844 AATTTAATAG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (38 bp):
TAGACATGCTTAACATGTATTCGGTTCAACAATAATAG
Found at i:450047 original size:13 final size:13
Alignment explanation
Indices: 450029--450053 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
450019 GAATTAATAT
450029 GTGTGAAAATTTC
1 GTGTGAAAATTTC
450042 GTGTGAAAATTT
1 GTGTGAAAATTT
450054 TATTGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:451209 original size:43 final size:42
Alignment explanation
Indices: 451146--451271 Score: 130
Period size: 43 Copynumber: 2.9 Consensus size: 42
451136 AGGATTCCGT
*
451146 TATGTGTTATCGTGTAAGACCATGTCTGGGACGTTGGCATCAAC
1 TATGTGTTA-CGTGTAAGACCATGTTTGGGACGTTGGCATC-AC
* **
451190 T-TGTGTTTACGTGTAAGACCCTGTTTGGGACAG-TGGCATCGT
1 TATGTG-TTACGTGTAAGACCATGTTTGGGAC-GTTGGCATCAC
* * *
451232 TATGTGATTACATGTAAGACCACGTTTGGGATGTTGGCAT
1 TATGTG-TTACGTGTAAGACCATGTTTGGGACGTTGGCAT
451272 TGTAAAATAT
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
42 2 0.03
43 62 0.90
44 5 0.07
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (42 bp):
TATGTGTTACGTGTAAGACCATGTTTGGGACGTTGGCATCAC
Found at i:452270 original size:125 final size:125
Alignment explanation
Indices: 452043--452291 Score: 462
Period size: 125 Copynumber: 2.0 Consensus size: 125
452033 ATGGTTGATG
*
452043 AATGCGTTTTAGTTATGATTATTGTTGGCTTATTAATGAAATGTATAATTGGTATTATGAATTGG
1 AATGCGTTTTAGTTATGATTATTGTTGGCTTATTAACGAAATGTATAATTGGTATTATGAATTGG
*
452108 TTTAGAAGTGGTAAATGATGTGATTATATGTTTGGTTAATGATAGGTTGATTGAATATGA
66 TTTAGAAGTGATAAATGATGTGATTATATGTTTGGTTAATGATAGGTTGATTGAATATGA
* *
452168 AATGTGTTTTAGTTGTGATTATTGTTGGCTTATTAACGAAATGTATAATTGGTATTATGAATTGG
1 AATGCGTTTTAGTTATGATTATTGTTGGCTTATTAACGAAATGTATAATTGGTATTATGAATTGG
452233 TTTAGAAGTGATAAATGATGTGATTATATGTTTGGTTAATGATAGGTTGATTGAATATG
66 TTTAGAAGTGATAAATGATGTGATTATATGTTTGGTTAATGATAGGTTGATTGAATATG
452292 TATATATATT
Statistics
Matches: 120, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
125 120 1.00
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.44
Consensus pattern (125 bp):
AATGCGTTTTAGTTATGATTATTGTTGGCTTATTAACGAAATGTATAATTGGTATTATGAATTGG
TTTAGAAGTGATAAATGATGTGATTATATGTTTGGTTAATGATAGGTTGATTGAATATGA
Found at i:452396 original size:23 final size:23
Alignment explanation
Indices: 452361--452677 Score: 393
Period size: 23 Copynumber: 13.7 Consensus size: 23
452351 TAGGTATATA
*
452361 TATATATGCTGTCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* *
452384 TATAAATGTTGTCCAATTTAGTG
1 TATAAATGCTGTCCAATTTGGTG
*
452407 TATAAATTGCTGTCCAATTTAGTG
1 TATAAA-TGCTGTCCAATTTGGTG
*
452431 TATATATGCT-TCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
*
452453 TATAAAATGTTGTCCAATTTGGTG
1 TAT-AAATGCTGTCCAATTTGGTG
452477 TATAAATGCTGTCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
*
452500 TATATATGCTGTCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* *
452523 TATATATGCTATCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* *
452546 TATAAAATGCTATCCGATTTGGTG
1 TAT-AAATGCTGTCCAATTTGGTG
*
452570 TATAAATGCTATCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* *
452593 TATATATGCTGTCCAATTTGGTA
1 TATAAATGCTGTCCAATTTGGTG
* * * *
452616 TATATATGCTGTCCGATTGGGTA
1 TATAAATGCTGTCCAATTTGGTG
* * *
452639 TATAAATGATGTCCGATTTGATG
1 TATAAATGCTGTCCAATTTGGTG
* *
452662 TATAAAAGCTATCCAA
1 TATAAATGCTGTCCAA
452678 ACAGGGTAGA
Statistics
Matches: 262, Mismatches: 28, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
22 14 0.05
23 191 0.73
24 57 0.22
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (23 bp):
TATAAATGCTGTCCAATTTGGTG
Found at i:452464 original size:70 final size:70
Alignment explanation
Indices: 452361--452677 Score: 397
Period size: 70 Copynumber: 4.6 Consensus size: 70
452351 TAGGTATATA
* *
452361 TATATATGCTGTCCAATTTGGTGTATAAATGTTGTCCAATTTAGTGTATAAATTGCTGTCCAATT
1 TATATATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATAAATTGCTGTCCAATT
*
452426 TAGTG
66 TGGTG
*
452431 TATATATGCT-TCCAATTTGGTGTATAAAATGTTGTCCAATTTGGTGTATAAA-TGCTGTCCAAT
1 TATATATGCTGTCCAATTTGGTGTAT-AAATGCTGTCCAATTTGGTGTATAAATTGCTGTCCAAT
452494 TTGGTG
65 TTGGTG
* * * * *
452500 TATATATGCTGTCCAATTTGGTGTATATATGCTATCCAATTTGGTGTATAAAATGCTATCCGATT
1 TATATATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATAAATTGCTGTCCAATT
452565 TGGTG
66 TGGTG
* * * * * *
452570 TATAAATGCTATCCAATTTGGTGTATATATGCTGTCCAATTTGGTATATATA-TGCTGTCCGATT
1 TATATATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATAAATTGCTGTCCAATT
* *
452634 GGGTA
66 TGGTG
* * * * * *
452639 TATAAATGATGTCCGATTTGATGTATAAAAGCTATCCAA
1 TATATATGCTGTCCAATTTGGTGTATAAATGCTGTCCAA
452678 ACAGGGTAGA
Statistics
Matches: 222, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
69 110 0.50
70 112 0.50
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (70 bp):
TATATATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATAAATTGCTGTCCAATT
TGGTG
Found at i:452538 original size:93 final size:92
Alignment explanation
Indices: 452370--452677 Score: 431
Period size: 93 Copynumber: 3.3 Consensus size: 92
452360 ATATATATGC
* * * * *
452370 TGTCCAATTTGGTGTATAAATGTTGTCCAATTTAGTGTATAAATTGCTGTCCAATTTAGTGTATA
1 TGTCCAATTTGGTGTATAAATGCTATCCAATTTGGTGTATATA-TGCTGTCCAATTTGGTGTATA
*
452435 TATGCTTCCAATTTGGTGTATAAAATGT
65 TATGCTTCCAATTTGGTGTATAAAATGA
*
452463 TGTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATATATGCTGTCCAATTTGGTGTATAT
1 TGTCCAATTTGGTGTATAAATGCTATCCAATTTGGTGTATATATGCTGTCCAATTTGGTGTATAT
*
452528 ATGCTATCCAATTTGGTGTATAAAATGC
66 ATGCT-TCCAATTTGGTGTATAAAATGA
* * *
452556 TATCCGATTTGGTGTATAAATGCTATCCAATTTGGTGTATATATGCTGTCCAATTTGGTATATAT
1 TGTCCAATTTGGTGTATAAATGCTATCCAATTTGGTGTATATATGCTGTCCAATTTGGTGTATAT
*
452621 ATGCTGTCCGA-TTGG-GTATATAAATGA
66 ATGCT-TCCAATTTGGTGTATA-AAATGA
* * *
452648 TGTCCGATTTGATGTATAAAAGCTATCCAA
1 TGTCCAATTTGGTGTATAAATGCTATCCAA
452678 ACAGGGTAGA
Statistics
Matches: 198, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
91 5 0.03
92 62 0.31
93 131 0.66
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (92 bp):
TGTCCAATTTGGTGTATAAATGCTATCCAATTTGGTGTATATATGCTGTCCAATTTGGTGTATAT
ATGCTTCCAATTTGGTGTATAAAATGA
Found at i:452577 original size:116 final size:117
Alignment explanation
Indices: 452361--452677 Score: 435
Period size: 116 Copynumber: 2.7 Consensus size: 117
452351 TAGGTATATA
* * *
452361 TATATATGCTGTCCAATTTGGTGTATAAATGTTGTCCAATTTAGTGTATAAATTGCTGTCCAATT
1 TATATATGCTGTCCAATTTGGTGTATATATGCTGTCCAATTTGGTGTATAAA-TGCTGTCCAATT
* * * *
452426 TAGTGTAT-ATATGCT-TCCAATTTGGTGTATAAAATGTTGTCCAATTTGGTG
65 TGGTGTATAAAATGCTATCCAATTTGGTGTATAAAATGCTATCCAATTTGGTG
* * *
452477 TATAAATGCTGTCCAATTTGGTGTATATATGCTGTCCAATTTGGTGTATATATGCTATCCAATTT
1 TATATATGCTGTCCAATTTGGTGTATATATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTT
*
452542 GGTGTATAAAATGCTATCCGATTTGGTGTAT-AAATGCTATCCAATTTGGTG
66 GGTGTATAAAATGCTATCCAATTTGGTGTATAAAATGCTATCCAATTTGGTG
* * * * * *
452593 TATATATGCTGTCCAATTTGGTATATATATGCTGTCCGATTGGGTATATAAATGATGTCCGATTT
1 TATATATGCTGTCCAATTTGGTGTATATATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTT
*
452658 GATGTATAAAA-GCTATCCAA
66 GGTGTATAAAATGCTATCCAA
452678 ACAGGGTAGA
Statistics
Matches: 177, Mismatches: 22, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
115 26 0.15
116 137 0.77
117 14 0.08
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (117 bp):
TATATATGCTGTCCAATTTGGTGTATATATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTT
GGTGTATAAAATGCTATCCAATTTGGTGTATAAAATGCTATCCAATTTGGTG
Found at i:452673 original size:139 final size:139
Alignment explanation
Indices: 452359--452677 Score: 433
Period size: 139 Copynumber: 2.3 Consensus size: 139
452349 ACTAGGTATA
* * * *
452359 TATATATATGCTGTCCAATTTGGTGTATAAATGTTGTCCAATTTAGTGTATAAATTGCTGTCCAA
1 TATATATATGCTGTCCAATTTGGTGTATAAATGCTATCCAATTTAGTGTATAAAATGCTATCCAA
* * *
452424 TTTAGTGTATATATGCTTCCAATTTGGTGTATAAAATGTTGTCCAATTTGGTGTATAAATGCTGT
66 TTTAGTGTATAAATGCTTCCAATTTGGTGTATAAAATGCTGTCCAATTTGGTATATAAATGCTGT
*
452489 CCAATTTGG
131 CCAATTGGG
* * * *
452498 TGTATATATGCTGTCCAATTTGGTGTATATATGCTATCCAATTTGGTGTATAAAATGCTATCCGA
1 TATATATATGCTGTCCAATTTGGTGTATAAATGCTATCCAATTTAGTGTATAAAATGCTATCCAA
* * *
452563 TTTGGTGTATAAATGCTATCCAATTTGGTGTAT-ATATGCTGTCCAATTTGGTATATATATGCTG
66 TTTAGTGTATAAATGCT-TCCAATTTGGTGTATAAAATGCTGTCCAATTTGGTATATAAATGCTG
*
452627 TCCGATTGGG
130 TCCAATTGGG
* * * * *
452637 TATATAAATGATGTCCGATTTGATGTATAAAAGCTATCCAA
1 TATATATATGCTGTCCAATTTGGTGTATAAATGCTATCCAA
452678 ACAGGGTAGA
Statistics
Matches: 156, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
139 141 0.90
140 15 0.10
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (139 bp):
TATATATATGCTGTCCAATTTGGTGTATAAATGCTATCCAATTTAGTGTATAAAATGCTATCCAA
TTTAGTGTATAAATGCTTCCAATTTGGTGTATAAAATGCTGTCCAATTTGGTATATAAATGCTGT
CCAATTGGG
Found at i:453008 original size:2 final size:2
Alignment explanation
Indices: 453001--453034 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
452991 AATTTGGTCG
453001 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
453035 GAAATGAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:455306 original size:3 final size:3
Alignment explanation
Indices: 455294--455368 Score: 61
Period size: 3 Copynumber: 25.7 Consensus size: 3
455284 GTTAATATAG
* *
455294 TAA T-A TAA TAA TAA TGAA TCAC TAA -AA -AA TAA -AA AAA TAA -AA
1 TAA TAA TAA TAA TAA T-AA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
*
455336 AAGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
455369 CAATTAACAA
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
2 10 0.16
3 44 0.72
4 7 0.11
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:471009 original size:22 final size:22
Alignment explanation
Indices: 470982--471032 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
470972 CTCTCTAATC
470982 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
*
471004 CTCTCAATTTCCTTTCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
471026 CTCTCAA
1 CTCTCAA
471033 ACCCATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.41
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:473001 original size:18 final size:18
Alignment explanation
Indices: 472980--473014 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
472970 AAGTATGTTT
* *
472980 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
472998 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
473015 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:473302 original size:5 final size:5
Alignment explanation
Indices: 473294--473319 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
473284 AATTGAAAAC
473294 CCTAA CCTAA CCTAA CCTAA CCTAA C
1 CCTAA CCTAA CCTAA CCTAA CCTAA C
473320 TTAATTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.42, G:0.00, T:0.19
Consensus pattern (5 bp):
CCTAA
Found at i:473344 original size:29 final size:29
Alignment explanation
Indices: 473304--473523 Score: 326
Period size: 29 Copynumber: 7.8 Consensus size: 29
473294 CCTAACCTAA
*
473304 CCTAA-CCTAACCTAACTTAATTAAAAAC
1 CCTAACCCTAACCTAAATTAATTAAAAAC
*
473332 CCTAACCCTAACCTAAATTAACTAAAAAC
1 CCTAACCCTAACCTAAATTAATTAAAAAC
*
473361 CCTAACCCTAACCTAAATTAATTAAAAAT
1 CCTAACCCTAACCTAAATTAATTAAAAAC
*
473390 CCTAACCCTAACCTAAATTAACTAAAAAC
1 CCTAACCCTAACCTAAATTAATTAAAAAC
* *
473419 CCTAACCCTCACCTAACTTAATTAAAAAC
1 CCTAACCCTAACCTAAATTAATTAAAAAC
473448 CCTAA--C---CCTAAATTAATTAAAAAC
1 CCTAACCCTAACCTAAATTAATTAAAAAC
*
473472 CCTAACCCTAATCTAAATTAATTAAAAAC
1 CCTAACCCTAACCTAAATTAATTAAAAAC
*
473501 CCTAACCCTAACCTAACTTAATT
1 CCTAACCCTAACCTAAATTAATT
473524 TGATAAATTT
Statistics
Matches: 173, Mismatches: 13, Indels: 11
0.88 0.07 0.06
Matches are distributed among these distances:
24 22 0.13
26 1 0.01
27 1 0.01
28 5 0.03
29 144 0.83
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (29 bp):
CCTAACCCTAACCTAAATTAATTAAAAAC
Found at i:473476 original size:82 final size:84
Alignment explanation
Indices: 473304--473523 Score: 329
Period size: 82 Copynumber: 2.6 Consensus size: 84
473294 CCTAACCTAA
* * *
473304 CCTAA-CCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAAATTAACTAAAAACCCTAACC
1 CCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAA-C
*
473368 CTAACCTAAATTAATTAAAAAT
65 C--ACCTAAATTAATTAAAAAC
* *
473390 CCTAACCCTAACCTAAATTAACTAAAAACCCTAACCCTCACCTAACTTAATTAAAAACCCTAA-C
1 CCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACC
473454 -CCTAAATTAATTAAAAAC
66 ACCTAAATTAATTAAAAAC
*
473472 CCTAACCCTAATCTAAATTAATTAAAAACCCTAACCCTAACCTAACTTAATT
1 CCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAACTTAATT
473524 TGATAAATTT
Statistics
Matches: 124, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
82 66 0.53
85 1 0.01
86 5 0.04
87 52 0.42
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (84 bp):
CCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACC
ACCTAAATTAATTAAAAAC
Found at i:473593 original size:56 final size:54
Alignment explanation
Indices: 473521--473658 Score: 206
Period size: 56 Copynumber: 2.5 Consensus size: 54
473511 ACCTAACTTA
**
473521 ATTTGATAAATTTTACTAACCATTAACACAATTTTTGGACTTAATAATTTTAGTTT
1 ATTTGATAAATTTTACTAACCATTAACACAATTTTTGG-CTTAATAATTTTA-CAT
* *
473577 ATTTCATAAATTTTACTAACCATTAATACAATTTTTGGCTTAATAATTTTACAT
1 ATTTGATAAATTTTACTAACCATTAACACAATTTTTGGCTTAATAATTTTACAT
473631 ATTTTGAT-AATTTTACTAACCATTAACA
1 A-TTTGATAAATTTTACTAACCATTAACA
473659 NNNNNNNNNN
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
54 21 0.28
55 18 0.24
56 36 0.48
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (54 bp):
ATTTGATAAATTTTACTAACCATTAACACAATTTTTGGCTTAATAATTTTACAT
Found at i:478788 original size:26 final size:26
Alignment explanation
Indices: 478752--478801 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
478742 AGGTATATTA
478752 TTTTTGTTTTT-TTTCTCTGCTTGTGC
1 TTTTTGTTTTTGTTTCTCTG-TTGTGC
478778 TTTTTGTTTTTGTTTCTCTGTTGT
1 TTTTTGTTTTTGTTTCTCTGTTGT
478802 TTTACAGGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.00, C:0.12, G:0.16, T:0.72
Consensus pattern (26 bp):
TTTTTGTTTTTGTTTCTCTGTTGTGC
Found at i:484370 original size:118 final size:119
Alignment explanation
Indices: 484237--484473 Score: 467
Period size: 118 Copynumber: 2.0 Consensus size: 119
484227 TTTTATTTTA
484237 TTTTATTTTTTTATGTATGTAGGCTGGGCATAAATTGGGTATTACATTATTCATAGTATATATAT
1 TTTTATTTTTTTATGTATGTAGGCTGGGCATAAATTGGGTATTACATTATTCATAGTATATATAT
484302 ATATATATAAAGTCAACCACAACAAATCAGATAAGTCTTTATTCTACATATAAG
66 ATATATATAAAGTCAACCACAACAAATCAGATAAGTCTTTATTCTACATATAAG
484356 TTTTA-TTTTTTATGTATGTAGGCTGGGCATAAATTGGGTATTACATTATTCATAGTATATATAT
1 TTTTATTTTTTTATGTATGTAGGCTGGGCATAAATTGGGTATTACATTATTCATAGTATATATAT
484420 ATATATATAAAGTCAACCACAACAAATCAGATAAGTCTTTATTCTACATATAAG
66 ATATATATAAAGTCAACCACAACAAATCAGATAAGTCTTTATTCTACATATAAG
484474 AATATATATT
Statistics
Matches: 118, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
118 113 0.96
119 5 0.04
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (119 bp):
TTTTATTTTTTTATGTATGTAGGCTGGGCATAAATTGGGTATTACATTATTCATAGTATATATAT
ATATATATAAAGTCAACCACAACAAATCAGATAAGTCTTTATTCTACATATAAG
Found at i:485479 original size:46 final size:46
Alignment explanation
Indices: 485412--485502 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
485402 CATTTTCCTA
*
485412 TAGAGTTGAGTGTTTTTCCTTCCTTTCAAAAATATAGTGAATTCTG
1 TAGAGTTGAGTGTTTTTCCTTCCTTTCAAAAATATAGTAAATTCTG
485458 TAGAGTTGAGTGTTTTTCCTTCCTTTCAAAAATATAGTAAATTCT
1 TAGAGTTGAGTGTTTTTCCTTCCTTTCAAAAATATAGTAAATTCT
485503 TCTCCACTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.44
Consensus pattern (46 bp):
TAGAGTTGAGTGTTTTTCCTTCCTTTCAAAAATATAGTAAATTCTG
Found at i:485932 original size:67 final size:68
Alignment explanation
Indices: 485818--485949 Score: 230
Period size: 67 Copynumber: 1.9 Consensus size: 68
485808 TTGCCTTCTA
*
485818 ATATATCTCGTTCACTTATTTGCAACGCTTCCTCTCTCCAT-AAAAAAATTCTCTTCAATTCCAA
1 ATATATCTCGTTCACTTATTTGCAACGCTTCCTCTCTCCATAAAAAAAACTCTCTTCAATTCCAA
485882 CTC
66 CTC
*
485885 ATATATCTCGTTCACTTATTTGCAACGCTTCCTCTCTCCATTTAAAAAAACTCTCTTCAATTCCA
1 ATATATCTCGTTCACTTATTTGCAACGCTTCCTCTCTCCA-TAAAAAAAACTCTCTTCAATTCCA
485950 GACTGTCGAA
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
67 40 0.65
68 1 0.02
69 21 0.34
ACGTcount: A:0.28, C:0.30, G:0.05, T:0.38
Consensus pattern (68 bp):
ATATATCTCGTTCACTTATTTGCAACGCTTCCTCTCTCCATAAAAAAAACTCTCTTCAATTCCAA
CTC
Found at i:486428 original size:106 final size:106
Alignment explanation
Indices: 486286--486498 Score: 327
Period size: 106 Copynumber: 2.0 Consensus size: 106
486276 AAATATCGCT
* * *
486286 AATTAAATCAAATTTTATGAAAAATGCCTTCATATTTCGAGTTAATCGGGAAGAAAATCATGCCT
1 AATTAAATCAAATTTTATGAAAAATGCCTTCATATTTCAAGTTAATCAGGAAGAAAATCATGCCC
* *
486351 CGTAAGTTAGGGCACGATGTCTTGAATCCCCAAAAATAAGA
66 CGTAAGGTAGGGCACGATGTCTCGAATCCCCAAAAATAAGA
* * * *
486392 AATTAAATCAAATTTTATGAAGAATGTCTTCGTATTTCAAGTTAATCAGGAAGAGAATCATGCCC
1 AATTAAATCAAATTTTATGAAAAATGCCTTCATATTTCAAGTTAATCAGGAAGAAAATCATGCCC
**
486457 CGTAAGGTAGGGCACGATGTCTCGAATCCCTGAAAATAAGA
66 CGTAAGGTAGGGCACGATGTCTCGAATCCCCAAAAATAAGA
486498 A
1 A
486499 TGCTCATTTT
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
106 96 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (106 bp):
AATTAAATCAAATTTTATGAAAAATGCCTTCATATTTCAAGTTAATCAGGAAGAAAATCATGCCC
CGTAAGGTAGGGCACGATGTCTCGAATCCCCAAAAATAAGA
Found at i:487930 original size:51 final size:51
Alignment explanation
Indices: 487875--487980 Score: 112
Period size: 50 Copynumber: 2.1 Consensus size: 51
487865 TTTTAATCTG
487875 ATTTTTCATCTAG-ATTT-ATCTTTTTCATTC-TTCTTTCTTTTTCTTATTTTC
1 ATTTTTCATCTAGAATTTGAT-TTTTTC-TTCTTTC-TTCTTTTTCTTATTTTC
* * * * *
487926 A-TTTTGATCTTGAATTTGATTTTTTCTTCTTTCTTCTTTTTGTTTTTTTT
1 ATTTTTCATCTAGAATTTGATTTTTTCTTCTTTCTTCTTTTTCTTATTTTC
487976 ATTTT
1 ATTTT
487981 AATTTTTTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
50 27 0.59
51 17 0.37
52 2 0.04
ACGTcount: A:0.12, C:0.13, G:0.05, T:0.70
Consensus pattern (51 bp):
ATTTTTCATCTAGAATTTGATTTTTTCTTCTTTCTTCTTTTTCTTATTTTC
Found at i:487987 original size:22 final size:22
Alignment explanation
Indices: 487962--488034 Score: 71
Period size: 22 Copynumber: 3.5 Consensus size: 22
487952 TTCTTTCTTC
* *
487962 TTTTTGTTTTTTTTATTTTAAT
1 TTTTTGATTTTTTTACTTTAAT
*
487984 TTTTTGATTTTTTTACTTTGA-
1 TTTTTGATTTTTTTACTTTAAT
* **
488005 -TTTTGATTTTTTTTCTTCCA-
1 TTTTTGATTTTTTTACTTTAAT
488025 TTTTTGATTT
1 TTTTTGATTT
488035 GAGCCTTTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
20 17 0.39
21 9 0.20
22 18 0.41
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.75
Consensus pattern (22 bp):
TTTTTGATTTTTTTACTTTAAT
Found at i:488029 original size:21 final size:21
Alignment explanation
Indices: 487984--488034 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
487974 TTATTTTAAT
**
487984 TTTTTGATTTTTTTACTTTGA
1 TTTTTGATTTTTTTACTTCCA
*
488005 -TTTTGATTTTTTTTCTTCCA
1 TTTTTGATTTTTTTACTTCCA
488025 TTTTTGATTT
1 TTTTTGATTT
488035 GAGCCTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.73
Consensus pattern (21 bp):
TTTTTGATTTTTTTACTTCCA
Found at i:492073 original size:11 final size:12
Alignment explanation
Indices: 492056--492122 Score: 66
Period size: 12 Copynumber: 5.7 Consensus size: 12
492046 ATATAGAAGC
*
492056 AATAATATTAGT
1 AATAATAATAGT
492068 -ATAATAATAGT
1 AATAATAATAGT
492079 AATAATAAT-GAT
1 AATAATAATAG-T
* * *
492091 AACACTAATAAT
1 AATAATAATAGT
*
492103 AATAATAATAAT
1 AATAATAATAGT
492115 AATAATAA
1 AATAATAA
492123 ACTTAAATAA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
11 11 0.24
12 35 0.76
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (12 bp):
AATAATAATAGT
Found at i:492135 original size:3 final size:3
Alignment explanation
Indices: 492068--492122 Score: 74
Period size: 3 Copynumber: 18.3 Consensus size: 3
492058 TAATATTAGT
* * * *
492068 ATA ATA ATA GTA ATA ATA ATG ATA ACA CTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
492116 ATA ATA A
1 ATA ATA A
492123 ACTTAAATAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:493791 original size:16 final size:16
Alignment explanation
Indices: 493770--493809 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
493760 GGTTATTTAT
493770 TTGGGCCTAGGCTAAA
1 TTGGGCCTAGGCTAAA
493786 TTGGGCCTAGGCTAAA
1 TTGGGCCTAGGCTAAA
493802 TTGGGCCT
1 TTGGGCCT
493810 TTAAACAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.28
Consensus pattern (16 bp):
TTGGGCCTAGGCTAAA
Done.