Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold269
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: 1389591
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 499 characters in sequence are not A, C, G, or T
File 3 of 7
Found at i:362410 original size:24 final size:24
Alignment explanation
Indices: 362357--362411 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
362347 CTTTTTTTTC
*
362357 TTTTTCTTTCTTTCTTCTTCATCT
1 TTTTTCTTTCTTTCTTCTTCAACT
* *
362381 TCTTTCTTTCTTTTTTACTT-AACT
1 TTTTTCTTTCTTTCTT-CTTCAACT
362405 TTTTTCT
1 TTTTTCT
362412 CAACCCATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTTTCTTTCTTTCTTCTTCAACT
Found at i:373557 original size:76 final size:76
Alignment explanation
Indices: 373472--373622 Score: 176
Period size: 76 Copynumber: 2.0 Consensus size: 76
373462 CTTTAGAATC
* * **
373472 ATTTTGGAACCTTCATGTCAAAACATATCTATTAAGGGTATTTAGATAATATTACCTTAAAAACA
1 ATTTAGGAACCTTCATGTCAAAACATATCCATTAAGGGTATTTAGATAATAGGACCTTAAAAACA
373537 AGTCTAGGATT
66 AGTCTAGGATT
** * * * * * ***
373548 ATTTAGGAACCTTTGTGTTAAAACATGTCCATTAAGGTTATTTCGCTAATAGGACCTTAAAGTTA
1 ATTTAGGAACCTTCATGTCAAAACATATCCATTAAGGGTATTTAGATAATAGGACCTTAAAAACA
373613 AGTCTAGGAT
66 AGTCTAGGAT
373623 CATATTGAAA
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
76 61 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (76 bp):
ATTTAGGAACCTTCATGTCAAAACATATCCATTAAGGGTATTTAGATAATAGGACCTTAAAAACA
AGTCTAGGATT
Found at i:376764 original size:156 final size:154
Alignment explanation
Indices: 376478--377015 Score: 437
Period size: 156 Copynumber: 3.4 Consensus size: 154
376468 TCATTGATGT
* * * * *
376478 TTTTATTTCTAAAACA-CTAATTTTCCAACATCGGGTATACTCCAACGCTATTATTTTCAAGGGG
1 TTTTATTTCTAAAACATC-AATTTTTCACCATCGGG-ATACTCTAACCCCATTATTTTCAAGGGG
** * * * * * * *
376542 ATACTTTAACCTC-GATTTTATTTCTAAAGCA-TCAATTTTCTACCAT-TGGAGATA-TGCCAAC
64 ATACTCCAACCCCAG-TTTTA-TTCTAAAACACT-GATTTTCCACAATCAGG-GATACT-ACAAC
376603 CCTGTTATTTCTGAGGAGATACTCAAACTCTGA
124 CCTGTTATTT-TGAGGAGATACTCAAAC-CTGA
* * * * *
376636 TTTTATTTCTAAAACACCGATTTTTCACCATCAGGGATACTC-CACCTCATT-TTTTCGAGGGGA
1 TTTTATTTCTAAAACATCAATTTTTCACCATC-GGGATACTCTAACCCCATTATTTTCAAGGGGA
** * * **
376699 TACTCCAACCCTGGTTTTATTTCTGAAACATTGATTTTCCATC-ATCAGGGATACTTTAACCCTG
65 TACTCCAACCCCAGTTTTA-TTCTAAAACACTGATTTTCCA-CAATCAGGGATACTACAACCCTG
* * *
376763 TTATTTTCGAAGCGATACTCGAACCTTGA
128 TTATTTT-GAGGAGATACTCAAACC-TGA
* ** * *
376792 TTTTATTTCTAATACATCAATTTTTCATAATCGAGGATACTCTAACCCCGTTATTTTTAAGGGGA
1 TTTTATTTCTAAAACATCAATTTTTCACCATCG-GGATACTCTAACCCCATTATTTTCAAGGGGA
* ** *
376857 TACTCCAACCCCAGTTTTATTCTAAAATACTGATTTTCCACAATTGGGGATACTACAACCCTATT
65 TACTCCAACCCCAGTTTTATTCTAAAACACTGATTTTCCACAATCAGGGATACTACAACCCTGTT
* * *
376922 AGTTTTTAAGGGGATACTCTAA-CTGA
130 A--TTTTGAGGAGATACTCAAACCTGA
* * *** *
376948 TTTTATTTTTGAAACATCAATTTTTCACCATCGGGGATACTCTAACCTTGTTATTTTTAAGGGGA
1 TTTTATTTCTAAAACATCAATTTTTCACCATC-GGGATACTCTAACCCCATTATTTTCAAGGGGA
377013 TAC
65 TAC
377016 CCATTTTTAT
Statistics
Matches: 311, Mismatches: 53, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
155 3 0.01
156 173 0.56
157 56 0.18
158 71 0.23
159 8 0.03
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (154 bp):
TTTTATTTCTAAAACATCAATTTTTCACCATCGGGATACTCTAACCCCATTATTTTCAAGGGGAT
ACTCCAACCCCAGTTTTATTCTAAAACACTGATTTTCCACAATCAGGGATACTACAACCCTGTTA
TTTTGAGGAGATACTCAAACCTGA
Found at i:376801 original size:79 final size:78
Alignment explanation
Indices: 376478--377004 Score: 334
Period size: 79 Copynumber: 6.7 Consensus size: 78
376468 TCATTGATGT
* * * * * *
376478 TTTTATTTCTAAAACA-CTAATTTTCCAACATC-GGGTATACTCCAACGCTATTATTTTC-AAGG
1 TTTTATTTCTAAAACATC-GATTTTTCACCATCAGGG-ATACTCTAACCCTGTTATTTTCGAA-G
**
376540 GGATACTTTAACCTCGA
63 GGATACTCCAACCT-GA
* * * *
376557 TTTTATTTCTAAAGCATC-AATTTTCTACCAT-TGGAGATA-TGCCAACCCTGTTA-TTTCTG-A
1 TTTTATTTCTAAAACATCGATTTTTC-ACCATCAGG-GATACT-CTAACCCTGTTATTTTC-GAA
*
376617 GGAGATACTCAAACTCTGA
62 GG-GATACTCCAAC-CTGA
* * * *
376636 TTTTATTTCTAAAACACCGATTTTTCACCATCAGGGATACTC-CA-CCTCATT-TTTTCGAGGGG
1 TTTTATTTCTAAAACATCGATTTTTCACCATCAGGGATACTCTAACCCT-GTTATTTTCGAAGGG
*
376698 ATACTCCAACCCTGG
65 ATACTCCAA-CCTGA
* * * * * *
376713 TTTTATTTCTGAAACATTGATTTTCCATCATCAGGGATACTTTAACCCTGTTATTTTCGAAGCGA
1 TTTTATTTCTAAAACATCGATTTTTCACCATCAGGGATACTCTAACCCTGTTATTTTCGAAGGGA
*
376778 TACTCGAACCTTGA
66 TACTCCAACC-TGA
* * ** * *
376792 TTTTATTTCTAATACATCAATTTTTCATAATC-GAGGATACTCTAACCCCGTTATTTT-TAAGGG
1 TTTTATTTCTAAAACATCGATTTTTCACCATCAG-GGATACTCTAACCCTGTTATTTTCGAA-GG
**
376855 GATACTCCAACCCCA
64 GATACTCCAACCTGA
* * * ** * *
376870 GTTTTA-TTCTAAAATA-CTGATTTTCCACAATTGGGGATACTAC-AACCCTATTAGTTTT-TAA
1 -TTTTATTTCTAAAACATC-GATTTTTCACCATCAGGGATACT-CTAACCCTGTTA-TTTTCGAA
*
376931 GGGGATACTCTAA-CTGA
62 -GGGATACTCCAACCTGA
* * * * *
376948 TTTTATTTTTGAAACATCAATTTTTCACCATCGGGGATACTCTAACCTTGTTATTTT
1 TTTTATTTCTAAAACATCGATTTTTCACCATCAGGGATACTCTAACCCTGTTATTTT
377005 TAAGGGGATA
Statistics
Matches: 356, Mismatches: 62, Indels: 62
0.74 0.13 0.13
Matches are distributed among these distances:
77 63 0.18
78 100 0.28
79 180 0.51
80 13 0.04
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (78 bp):
TTTTATTTCTAAAACATCGATTTTTCACCATCAGGGATACTCTAACCCTGTTATTTTCGAAGGGA
TACTCCAACCTGA
Found at i:382683 original size:28 final size:28
Alignment explanation
Indices: 382651--382862 Score: 236
Period size: 28 Copynumber: 7.4 Consensus size: 28
382641 GGTTGCATCA
*
382651 ACTTGTGTGCTTTTGAAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTG
*
382679 ACTTGTGGGCTTTTGAAAGTGTTG-CA-TCA
1 ACTTGTGGGCTTTTG-AAG-GTTGCCACT-G
* * *
382708 ACTTGTGTGCTTTTGAAAGTTGTCACTG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTG
*
382736 ACTTGTGGGCTTTTGAAAGTGTTG-CA-TCA
1 ACTTGTGGGCTTTTG-AAG-GTTGCCACT-G
*
382765 ACTTGTGTGCTTTTGAAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTG
382793 ACTTGTGGGCTTTTGAAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTG
*
382821 ACTTGTGGGCTTTTGAAAAAGG-TGCCACTA
1 ACTTGTGGGCTTTTG---AAGGTTGCCACTG
382851 ACTTGTGGGCTT
1 ACTTGTGGGCTT
382863 AAAAGGAAAA
Statistics
Matches: 159, Mismatches: 12, Indels: 24
0.82 0.06 0.12
Matches are distributed among these distances:
27 8 0.05
28 81 0.51
29 39 0.25
30 27 0.17
31 4 0.03
ACGTcount: A:0.18, C:0.16, G:0.28, T:0.38
Consensus pattern (28 bp):
ACTTGTGGGCTTTTGAAGGTTGCCACTG
Found at i:382710 original size:57 final size:57
Alignment explanation
Indices: 382620--382862 Score: 341
Period size: 57 Copynumber: 4.2 Consensus size: 57
382610 GACGCTACCA
*
382620 ACTTGTGTGGACTTTTGAAAGGGTTGCATCAACTTGTGTGCTTTTGAAGGTTGCCACTG
1 ACTTGTG-GG-CTTTTGAAAGTGTTGCATCAACTTGTGTGCTTTTGAAGGTTGCCACTG
* *
382679 ACTTGTGGGCTTTTGAAAGTGTTGCATCAACTTGTGTGCTTTTGAAAGTTGTCACTG
1 ACTTGTGGGCTTTTGAAAGTGTTGCATCAACTTGTGTGCTTTTGAAGGTTGCCACTG
382736 ACTTGTGGGCTTTTGAAAGTGTTGCATCAACTTGTGTGCTTTTGAAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAGTGTTGCATCAACTTGTGTGCTTTTGAAGGTTGCCACTG
* * *
382793 ACTTGTGGGCTTTTG-AAG-GTTGCCA-CTGACTTGTGGGCTTTTGAAAAAGG-TGCCACTA
1 ACTTGTGGGCTTTTGAAAGTGTTG-CATC-AACTTGTGTGCTTTTG---AAGGTTGCCACTG
382851 ACTTGTGGGCTT
1 ACTTGTGGGCTT
382863 AAAAGGAAAA
Statistics
Matches: 171, Mismatches: 8, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
55 5 0.03
56 19 0.11
57 115 0.67
58 21 0.12
59 11 0.06
ACGTcount: A:0.19, C:0.16, G:0.28, T:0.37
Consensus pattern (57 bp):
ACTTGTGGGCTTTTGAAAGTGTTGCATCAACTTGTGTGCTTTTGAAGGTTGCCACTG
Found at i:382752 original size:85 final size:85
Alignment explanation
Indices: 382651--382862 Score: 256
Period size: 85 Copynumber: 2.5 Consensus size: 85
382641 GGTTGCATCA
* *
382651 ACTTGTGTGCTTTTG-AAGGTTGCCACTGACTTGTGGGCTTTTGAAAGTGTTG-CA-TCAACTTG
1 ACTTGTGGGCTTTTGAAAGGTTGCCACTAACTTGTGGGCTTTTG-AAG-GTTGCCACT-AACTTG
* *
382713 TGTGCTTTTGAAAGTTGTCACTG
63 TGGGCTTTTGAAAGTTGCCACTG
* *
382736 ACTTGTGGGCTTTTGAAAGTGTTG-CA-TCAACTTGTGTGCTTTTGAAGGTTGCCACTGACTTGT
1 ACTTGTGGGCTTTTGAAAG-GTTGCCACT-AACTTGTGGGCTTTTGAAGGTTGCCACTAACTTGT
*
382799 GGGCTTTTGAAGGTTGCCACTG
64 GGGCTTTTGAAAGTTGCCACTG
382821 ACTTGTGGGCTTTTGAAAAAGG-TGCCACTAACTTGTGGGCTT
1 ACTTGTGGGCTTTTG--AAAGGTTGCCACTAACTTGTGGGCTT
382863 AAAAGGAAAA
Statistics
Matches: 110, Mismatches: 8, Indels: 17
0.81 0.06 0.13
Matches are distributed among these distances:
84 4 0.04
85 62 0.56
86 35 0.32
87 9 0.08
ACGTcount: A:0.18, C:0.16, G:0.28, T:0.38
Consensus pattern (85 bp):
ACTTGTGGGCTTTTGAAAGGTTGCCACTAACTTGTGGGCTTTTGAAGGTTGCCACTAACTTGTGG
GCTTTTGAAAGTTGCCACTG
Found at i:382924 original size:35 final size:34
Alignment explanation
Indices: 382835--382927 Score: 107
Period size: 35 Copynumber: 2.7 Consensus size: 34
382825 GTGGGCTTTT
* * *
382835 GAAAAAG-GTGCCACTAACTTGTGGGCTTAAAAG
1 GAAAAAGAGTGCCACGAAGTTGTGGGCTTAAAAA
* *
382868 GAAAAAGAGTGCTATGAAGTTGTGGGCTTACAAAA
1 GAAAAAGAGTGCCACGAAGTTGTGGGCTTA-AAAA
* *
382903 GAAAAGGAGTGCCACGGAGTTGTGG
1 GAAAAAGAGTGCCACGAAGTTGTGG
382928 ACTTTGGAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 7 0.14
34 18 0.37
35 24 0.49
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.20
Consensus pattern (34 bp):
GAAAAAGAGTGCCACGAAGTTGTGGGCTTAAAAA
Found at i:382954 original size:29 final size:29
Alignment explanation
Indices: 382903--383063 Score: 132
Period size: 29 Copynumber: 5.6 Consensus size: 29
382893 GCTTACAAAA
* *
382903 GAAAAGGAGTGCCACGGAGTTGTGGACTTTG
1 GAAAA-GA-TGCCACTGACTTGTGGACTTTG
* *
382934 GAAAAGATGCCACTCACTTGTCGG-CTTCG
1 GAAAAGATGCCACTGACTTGT-GGACTTTG
* ** *
382963 GAAAAGGGTGCCACTGGTTTGTGGGCTTT-
1 GAAAA-GATGCCACTGACTTGTGGACTTTG
* * *
382992 G-AAGGTTGCCACTAACTTGTGGACTTT-
1 GAAAAGATGCCACTGACTTGTGGACTTTG
* *
383019 CAAAAGATGCCACTGACTTGTGGGCTTTG
1 GAAAAGATGCCACTGACTTGTGGACTTTG
*
383048 AAAAAGATGCCACTGA
1 GAAAAGATGCCACTGA
383064 TTTATGGGCT
Statistics
Matches: 104, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
27 18 0.17
28 24 0.23
29 38 0.37
30 19 0.18
31 5 0.05
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (29 bp):
GAAAAGATGCCACTGACTTGTGGACTTTG
Found at i:383078 original size:85 final size:86
Alignment explanation
Indices: 382922--383081 Score: 225
Period size: 85 Copynumber: 1.9 Consensus size: 86
382912 TGCCACGGAG
* * * * *
382922 TTGTGGACTTTGGAAAAGATGCCACTCACTTGTCGGCTTCGGAAAAGGGTGCCACTGGTTTGTGG
1 TTGTGGACTTTGCAAAAGATGCCACTCACTTGTCGGCTTCGGAAAAAGATGCCACTGATTTATGG
382987 GCTTTGAAGGTTGCCACTAAC
66 GCTTTGAAGGTTGCCACTAAC
* * *
383008 TTGTGGACTTT-CAAAAGATGCCACTGACTTGTGGGCTT-TGAAAAAGATGCCACTGATTTATGG
1 TTGTGGACTTTGCAAAAGATGCCACTCACTTGTCGGCTTCGGAAAAAGATGCCACTGATTTATGG
383071 GCTTTTGAAGG
66 GC-TTTGAAGG
383082 GTGAGGAATG
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
84 22 0.34
85 32 0.49
86 11 0.17
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (86 bp):
TTGTGGACTTTGCAAAAGATGCCACTCACTTGTCGGCTTCGGAAAAAGATGCCACTGATTTATGG
GCTTTGAAGGTTGCCACTAAC
Found at i:384529 original size:1 final size:1
Alignment explanation
Indices: 384525--384578 Score: 54
Period size: 1 Copynumber: 54.0 Consensus size: 1
384515 CTTTTTGTTG
* * * * * *
384525 TTTTTTTGTTTTGTTTTTGTTTTTGTTTTTTTTGTTTTTTATTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
384579 GCGGAGGACA
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.89
Consensus pattern (1 bp):
T
Found at i:384532 original size:11 final size:12
Alignment explanation
Indices: 384516--384564 Score: 59
Period size: 11 Copynumber: 4.3 Consensus size: 12
384506 ATCCGGACCC
384516 TTTTTGTTGTT-
1 TTTTTGTTGTTG
384527 TTTTTGTT-TTG
1 TTTTTGTTGTTG
*
384538 TTTTTGTTTTTG
1 TTTTTGTTGTTG
*
384550 TTTTTTTTGTT-
1 TTTTTGTTGTTG
384561 TTTT
1 TTTT
384565 ATTTTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 2 0.06
11 20 0.59
12 12 0.35
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (12 bp):
TTTTTGTTGTTG
Found at i:384542 original size:6 final size:6
Alignment explanation
Indices: 384516--384575 Score: 58
Period size: 6 Copynumber: 10.8 Consensus size: 6
384506 ATCCGGACCC
* *
384516 TTTTTG TTGTT- TTTTTG -TTTTG TTTTTG TTTTTG TTTTT- TTTGT-
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
*
384560 TTTTTA TTTTT- TTTTT
1 TTTTTG TTTTTG TTTTT
384576 TTTGCGGAGG
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
5 22 0.47
6 25 0.53
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.87
Consensus pattern (6 bp):
TTTTTG
Found at i:384557 original size:21 final size:20
Alignment explanation
Indices: 384516--384579 Score: 83
Period size: 22 Copynumber: 3.0 Consensus size: 20
384506 ATCCGGACCC
384516 TTTTTGTTGTTTTTTTGTTTTG
1 TTTTTGTT-TTTTTTT-TTTTG
384538 TTTTTGTTTTTGTTTTTTTTG
1 TTTTTGTTTTT-TTTTTTTTG
*
384559 TTTTTTATTTTTTTTTTTTTG
1 -TTTTTGTTTTTTTTTTTTTG
384580 CGGAGGACAC
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
21 17 0.44
22 22 0.56
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (20 bp):
TTTTTGTTTTTTTTTTTTTG
Found at i:388824 original size:47 final size:47
Alignment explanation
Indices: 388755--388848 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
388745 CCATAGAGAA
388755 GGGAACATTTATGTTGTGCATTTGGATGTTTTAAGTTCCCAAAACGT
1 GGGAACATTTATGTTGTGCATTTGGATGTTTTAAGTTCCCAAAACGT
388802 GGGAACATTTATGTTGTGCATTTGGATGTTTTAAGTTCCCAAAACGT
1 GGGAACATTTATGTTGTGCATTTGGATGTTTTAAGTTCCCAAAACGT
388849 ATGTTTTGTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (47 bp):
GGGAACATTTATGTTGTGCATTTGGATGTTTTAAGTTCCCAAAACGT
Found at i:391965 original size:13 final size:13
Alignment explanation
Indices: 391947--391984 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
391937 CAACATTCTC
*
391947 TGTATCGATACAT
1 TGTATCGATACAG
391960 TGTATCGATACAG
1 TGTATCGATACAG
391973 TGTATCGATACA
1 TGTATCGATACA
391985 AAGGGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:397940 original size:20 final size:19
Alignment explanation
Indices: 397864--397938 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
397854 TTTTACCTAG
*
397864 ATGTATCGATACAGTTTTCA
1 ATGTATCGATACA-TTTTAA
* *
397884 ATGTATCGATACATGTATGA
1 ATGTATCGATACAT-TTTAA
**
397904 ATGTATCGATGTATTCTTAA
1 ATGTATCGATACATT-TTAA
397924 ATGTATCGATACATT
1 ATGTATCGATACATT
397939 CTGTTTTTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.04
20 43 0.96
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (19 bp):
ATGTATCGATACATTTTAA
Found at i:397975 original size:91 final size:91
Alignment explanation
Indices: 397813--397988 Score: 237
Period size: 91 Copynumber: 1.9 Consensus size: 91
397803 TTTTACCCAG
* * *
397813 ATGTATCGATACATTCTTCAATGTATCGATAAATTTTATCTTTTTACCTAGATGTATCGATACAG
1 ATGTATCGATACATTCTTAAATGTATCGATAAATTCTATCTTTTTACCCAGATGTATCGATACAG
*
397878 TTTTCAATGTATCGATACATGTATGA
66 TTTTCAATGTATCAATACATGTATGA
** * * * * *
397904 ATGTATCGATGTATTCTTAAATGTATCGATACATTCTGTTTTTTTACCCATATGTATTGATACA-
1 ATGTATCGATACATTCTTAAATGTATCGATAAATTCTATCTTTTTACCCAGATGTATCGATACAG
397968 TTATTCAATGTATCAATACAT
66 TT-TTCAATGTATCAATACAT
397989 CTAGTTAAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
90 2 0.03
91 71 0.97
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (91 bp):
ATGTATCGATACATTCTTAAATGTATCGATAAATTCTATCTTTTTACCCAGATGTATCGATACAG
TTTTCAATGTATCAATACATGTATGA
Found at i:398704 original size:51 final size:51
Alignment explanation
Indices: 398622--398807 Score: 187
Period size: 51 Copynumber: 3.9 Consensus size: 51
398612 AAAAGTCACT
* * * *
398622 TTTTTACCCAGATGTATCGATGCATTCTTCAATATATCGATACATTCTGTC
1 TTTTTACCCAAATGTATCGATACATTATTCAATGTATCGATACATTCTGTC
* *
398673 TTTTTACCCAAATGTATTGATACATTTTTCAATGTATCGATACA---TG--
1 TTTTTACCCAAATGTATCGATACATTATTCAATGTATCGATACATTCTGTC
** *
398719 ----TA--TGAATGTATCGATACATTATTCAATGTATCGATACATTCTATC
1 TTTTTACCCAAATGTATCGATACATTATTCAATGTATCGATACATTCTGTC
* **
398764 TTTTTACCCAGATGTATTAATACATTATTCAATGTATCGATACA
1 TTTTTACCCAAATGTATCGATACATTATTCAATGTATCGATACA
398808 GCTAGTTAAA
Statistics
Matches: 109, Mismatches: 15, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
40 32 0.29
42 2 0.02
43 1 0.01
48 2 0.02
49 2 0.02
51 70 0.64
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (51 bp):
TTTTTACCCAAATGTATCGATACATTATTCAATGTATCGATACATTCTGTC
Found at i:398708 original size:20 final size:20
Alignment explanation
Indices: 398683--398758 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
398673 TTTTTACCCA
*
398683 AATGTATTGATACATTTTTC
1 AATGTATCGATACATTTTTC
* * *
398703 AATGTATCGATACATGTATG
1 AATGTATCGATACATTTTTC
*
398723 AATGTATCGATACATTATTC
1 AATGTATCGATACATTTTTC
398743 AATGTATCGATACATT
1 AATGTATCGATACATT
398759 CTATCTTTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:398788 original size:91 final size:91
Alignment explanation
Indices: 398633--398807 Score: 287
Period size: 91 Copynumber: 1.9 Consensus size: 91
398623 TTTTACCCAG
* * * *
398633 ATGTATCGATGCATTCTTCAATATATCGATACATTCTGTCTTTTTACCCAAATGTATTGATACAT
1 ATGTATCGATACATTATTCAATATATCGATACATTCTATCTTTTTACCCAAATGTATTAATACAT
*
398698 TTTTCAATGTATCGATACATGTATGA
66 TATTCAATGTATCGATACATGTATGA
* *
398724 ATGTATCGATACATTATTCAATGTATCGATACATTCTATCTTTTTACCCAGATGTATTAATACAT
1 ATGTATCGATACATTATTCAATATATCGATACATTCTATCTTTTTACCCAAATGTATTAATACAT
398789 TATTCAATGTATCGATACA
66 TATTCAATGTATCGATACA
398808 GCTAGTTAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 77 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (91 bp):
ATGTATCGATACATTATTCAATATATCGATACATTCTATCTTTTTACCCAAATGTATTAATACAT
TATTCAATGTATCGATACATGTATGA
Found at i:402434 original size:13 final size:13
Alignment explanation
Indices: 402416--402453 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
402406 ATAATCCCCC
402416 TGTATCGATACAG
1 TGTATCGATACAG
*
402429 TGTATCGATACAT
1 TGTATCGATACAG
402442 TGTATCGATACA
1 TGTATCGATACA
402454 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:404556 original size:15 final size:15
Alignment explanation
Indices: 404536--404566 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
404526 ATTTCGTTTG
*
404536 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
404551 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
404566 G
1 G
404567 GACAATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:406398 original size:21 final size:21
Alignment explanation
Indices: 406369--406413 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
406359 AAGTTTTTAT
*
406369 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
406389 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
406411 TTT
1 TTT
406414 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:422335 original size:16 final size:16
Alignment explanation
Indices: 422314--422374 Score: 68
Period size: 17 Copynumber: 3.6 Consensus size: 16
422304 TCTTTCATAC
422314 CAAAAAAAAAAAAAAA
1 CAAAAAAAAAAAAAAA
422330 CAAAAAAACAAATAAAAAA
1 C-AAAAAA-AAA-AAAAAA
* *
422349 CAAACAAAAAAACAAA
1 CAAAAAAAAAAAAAAA
422365 CAAACAAAAA
1 CAAA-AAAAA
422375 GGGGTCTAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.26
17 13 0.34
18 8 0.21
19 7 0.18
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.02
Consensus pattern (16 bp):
CAAAAAAAAAAAAAAA
Found at i:422346 original size:23 final size:23
Alignment explanation
Indices: 422320--422374 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
422310 ATACCAAAAA
*
422320 AAAAAAAAAACAAAAAAACAAAT
1 AAAAAAAAAACAAAAAAACAAAC
*
422343 AAAAAACAAACAAAAAAACAAAC
1 AAAAAAAAAACAAAAAAACAAAC
*
422366 AAACAAAAA
1 AAAAAAAAA
422375 GGGGTCTAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.02
Consensus pattern (23 bp):
AAAAAAAAAACAAAAAAACAAAC
Found at i:423104 original size:15 final size:15
Alignment explanation
Indices: 423084--423112 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
423074 CAAGCTGGTC
423084 AAACATCATACCCCT
1 AAACATCATACCCCT
423099 AAACATCATACCCC
1 AAACATCATACCCC
423113 AATTAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.17
Consensus pattern (15 bp):
AAACATCATACCCCT
Found at i:423588 original size:20 final size:21
Alignment explanation
Indices: 423534--423591 Score: 84
Period size: 20 Copynumber: 2.9 Consensus size: 21
423524 TTTTACCCAG
*
423534 ATGTATCGATACA-TATACGA
1 ATGTATCGATACATTCTACGA
*
423554 ATGTATCGATACATTCTTC-A
1 ATGTATCGATACATTCTACGA
423574 ATGTATCGATACATTCTA
1 ATGTATCGATACATTCTA
423592 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 31 0.91
21 3 0.09
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (21 bp):
ATGTATCGATACATTCTACGA
Found at i:423628 original size:71 final size:71
Alignment explanation
Indices: 423507--423638 Score: 221
Period size: 71 Copynumber: 1.9 Consensus size: 71
423497 ACCTAGATGC
*
423507 ATCGATACATTCTATCTTTTTACCCAGATGTATCGATACATATACGAATGTATCGATACATTCTT
1 ATCGATACATTCTATCTTTTTACCCAGATGTATCAATACATATACGAATGTATCGATACATTCTT
423572 CAATGT
66 CAATGT
* *
423578 ATCGATACATTCTATCTTTTTACCCAGATGTATTAATACATTATTC-AATGTATCGATACAT
1 ATCGATACATTCTATCTTTTTACCCAGATGTATCAATACA-TATACGAATGTATCGATACAT
423639 CTAGCTAAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
71 53 0.93
72 4 0.07
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (71 bp):
ATCGATACATTCTATCTTTTTACCCAGATGTATCAATACATATACGAATGTATCGATACATTCTT
CAATGT
Found at i:426171 original size:20 final size:20
Alignment explanation
Indices: 426146--426221 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
426136 TCCACATGAA
*
426146 AATGTATTAATACATATTGC
1 AATGTATTGATACATATTGC
* *
426166 AATGTATTGATATATCA-TGTA
1 AATGTATTGATACAT-ATTG-C
* *
426187 AAAGTATCGATACATATTGC
1 AATGTATTGATACATATTGC
*
426207 AATGTATCGATACAT
1 AATGTATTGATACAT
426222 CATGTGAAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
20 30 0.67
21 15 0.33
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (20 bp):
AATGTATTGATACATATTGC
Found at i:426212 original size:41 final size:41
Alignment explanation
Indices: 426130--426242 Score: 149
Period size: 41 Copynumber: 2.8 Consensus size: 41
426120 TCCTCATTTC
* **
426130 TATCGATCCA-CATG-AAAATGTATTAATACATATTGCAATG
1 TATCGATACATCATGTAAAA-GTATCGATACATATTGCAATG
* *
426170 TATTGATATATCATGTAAAAGTATCGATACATATTGCAATG
1 TATCGATACATCATGTAAAAGTATCGATACATATTGCAATG
*
426211 TATCGATACATCATGTGAAAGTATCGATACAT
1 TATCGATACATCATGTAAAAGTATCGATACAT
426243 TTCATTGGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
40 7 0.11
41 52 0.83
42 4 0.06
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (41 bp):
TATCGATACATCATGTAAAAGTATCGATACATATTGCAATG
Found at i:426236 original size:21 final size:21
Alignment explanation
Indices: 426169--426242 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
426159 ATATTGCAAT
* * *
426169 GTATTGATATATCATGTAAAA
1 GTATCGATACATCATGTGAAA
*
426190 GTATCGATACAT-AT-TGCAAT
1 GTATCGATACATCATGTG-AAA
426210 GTATCGATACATCATGTGAAA
1 GTATCGATACATCATGTGAAA
426231 GTATCGATACAT
1 GTATCGATACAT
426243 TTCATTGGCA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.02
20 16 0.36
21 26 0.58
22 2 0.04
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (21 bp):
GTATCGATACATCATGTGAAA
Found at i:427539 original size:39 final size:39
Alignment explanation
Indices: 427485--427567 Score: 130
Period size: 39 Copynumber: 2.1 Consensus size: 39
427475 GATTACTGCA
*
427485 TATGATGAACATATTCTCTAAAGCAAACACTAAAAGTAG
1 TATGACGAACATATTCTCTAAAGCAAACACTAAAAGTAG
* * *
427524 TATGACGAACATATTCTCTAAAGCAAATAGTAAGAGTAG
1 TATGACGAACATATTCTCTAAAGCAAACACTAAAAGTAG
427563 TATGA
1 TATGA
427568 TTGTCTCAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.27
Consensus pattern (39 bp):
TATGACGAACATATTCTCTAAAGCAAACACTAAAAGTAG
Found at i:428945 original size:27 final size:25
Alignment explanation
Indices: 428906--428955 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 25
428896 TTGATAATTA
428906 TATTTATGAGATAAATTAGATATTAGT
1 TATTTATGAGATAAA-TA-ATATTAGT
428933 TATTTAT-ATGATAAATAATATTA
1 TATTTATGA-GATAAATAATATTA
428956 TTAACTACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 6 0.27
26 3 0.14
27 13 0.59
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (25 bp):
TATTTATGAGATAAATAATATTAGT
Found at i:429987 original size:18 final size:19
Alignment explanation
Indices: 429950--430001 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
429940 ATCAAAAATC
*
429950 AAAAAATATA-AATTA-T-
1 AAAAAATATATAATAATTG
*
429966 AAAAAATCTATAA-AATTG
1 AAAAAATATATAATAATTG
429984 AAAAAATATATAATAATT
1 AAAAAATATATAATAATT
430002 TTTTAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 10 0.34
17 3 0.10
18 12 0.41
19 4 0.14
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAAAATATATAATAATTG
Found at i:430058 original size:19 final size:18
Alignment explanation
Indices: 430036--430076 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
430026 TATTCTTATT
430036 TTTTTATTTTTAATTTTA
1 TTTTTATTTTTAATTTTA
*
430054 GTTTTTATTTTTATTTTTA
1 -TTTTTATTTTTAATTTTA
430073 TTTT
1 TTTT
430077 GATAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTTATTTTTAATTTTA
Found at i:430093 original size:6 final size:6
Alignment explanation
Indices: 430036--430076 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
430026 TATTCTTATT
*
430036 TTTTTA TTTTTA ATTTTA GTTTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA TTTT
430077 GATAATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:430117 original size:23 final size:23
Alignment explanation
Indices: 430081--430126 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
430071 TATTTTGATA
*
430081 ATTTTTTAGTTTTTTTAAATTTT
1 ATTTTTTAGTTTTTATAAATTTT
*
430104 ATTTTTTA-TATTTTATAAGTTTT
1 ATTTTTTAGT-TTTTATAAATTTT
430127 TGAATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (23 bp):
ATTTTTTAGTTTTTATAAATTTT
Found at i:430117 original size:32 final size:32
Alignment explanation
Indices: 430068--430141 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 32
430058 TTATTTTTAT
*
430068 TTTTA-TTTTGATAATTTT-TTAGTTTTTTTAAA
1 TTTTATTTTTGATAATTTTATAAG--TTTTTAAA
* *
430100 TTTTATTTTTTAT-ATTTTATAAGTTTTTGAA
1 TTTTATTTTTGATAATTTTATAAGTTTTTAAA
430131 TTTTATTTTTG
1 TTTTATTTTTG
430142 TTTTCTGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
31 17 0.47
32 10 0.28
33 9 0.25
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (32 bp):
TTTTATTTTTGATAATTTTATAAGTTTTTAAA
Found at i:437635 original size:15 final size:16
Alignment explanation
Indices: 437615--437646 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
437605 ACATAATAAT
437615 AATT-AAAAAATTAAA
1 AATTAAAAAAATTAAA
437630 AATTAAAAAAATTAAA
1 AATTAAAAAAATTAAA
437646 A
1 A
437647 TAGTATTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
AATTAAAAAAATTAAA
Found at i:441773 original size:13 final size:13
Alignment explanation
Indices: 441754--441792 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
441744 ACAGCATTCT
*
441754 CTGTATCGATATA
1 CTGTATCGATACA
* *
441767 TTGTATCAATACA
1 CTGTATCGATACA
441780 CTGTATCGATACA
1 CTGTATCGATACA
441793 AGGGGATTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:441968 original size:22 final size:21
Alignment explanation
Indices: 441925--441966 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
441915 AAAACTCTTG
441925 TTTTTCACTTCAAAATACATCA
1 TTTTTCAC-TCAAAATACATCA
441947 TTTTTCA-TCAAAAT-CATCA
1 TTTTTCACTCAAAATACATCA
441966 T
1 T
441967 CAAAAACAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 7 0.35
22 7 0.35
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTTTCACTCAAAATACATCA
Found at i:442259 original size:20 final size:21
Alignment explanation
Indices: 442227--442278 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 21
442217 CTCCAAGGCA
*
442227 GCACCCACCAGGTCGCGACC-G
1 GCACCC-CCAGGTCGCAACCGG
442248 GCACCCCCAGGTCGCAACCGG
1 GCACCCCCAGGTCGCAACCGG
442269 GCAGCCCCCA
1 GCA-CCCCCA
442279 CACTAGCAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 12 0.43
21 10 0.36
22 6 0.21
ACGTcount: A:0.19, C:0.50, G:0.27, T:0.04
Consensus pattern (21 bp):
GCACCCCCAGGTCGCAACCGG
Found at i:444246 original size:20 final size:20
Alignment explanation
Indices: 444215--444271 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
444205 GTCAAAACCC
*
444215 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
444235 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* *
444255 TGCATTGTATCGATACA
1 TGAAATGTATCGATACA
444272 TTGTATCGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:444275 original size:13 final size:13
Alignment explanation
Indices: 444257--444285 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
444247 ATACAGATTG
444257 CATTGTATCGATA
1 CATTGTATCGATA
444270 CATTGTATCGATA
1 CATTGTATCGATA
444283 CAT
1 CAT
444286 GACCAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:450370 original size:20 final size:20
Alignment explanation
Indices: 450347--450419 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
450337 ACAATTCAAA
450347 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
450367 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
450388 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
450408 GTATCGATACAT
1 GTATCGATACAT
450420 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:450391 original size:21 final size:21
Alignment explanation
Indices: 450365--450440 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
450355 ACATGTTGCA
450365 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
450386 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
450406 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
450427 TTGTATCGATACAT
1 ATGTATCGATACAT
450441 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:450398 original size:41 final size:41
Alignment explanation
Indices: 450347--450440 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
450337 ACAATTCAAA
*
450347 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
450388 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
450429 GTATCGATACAT
1 GTATCGATACAT
450441 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:450497 original size:13 final size:13
Alignment explanation
Indices: 450479--450504 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
450469 TACAGCAAGT
450479 ATGTATCGATACA
1 ATGTATCGATACA
450492 ATGTATCGATACA
1 ATGTATCGATACA
450505 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:454586 original size:15 final size:15
Alignment explanation
Indices: 454566--454596 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
454556 TAAAAATGTC
*
454566 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
454581 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
454596 C
1 C
454597 CAAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:456689 original size:20 final size:21
Alignment explanation
Indices: 456611--456688 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
456601 ATGTCCAAAA
*
456611 TGTATCGATACATGTTTTTG-
1 TGTATCGATACATCTTTTTGT
** *
456631 TGTATCGATACATCTGGAAATTCT
1 TGTATCGATACATCT---TTTTGT
456655 ATGTATCGATACAT-TTTTTGT
1 -TGTATCGATACATCTTTTTGT
456676 TGTATCGATACAT
1 TGTATCGATACAT
456689 TGTATCGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 27 0.59
21 3 0.07
23 2 0.04
24 1 0.02
25 13 0.28
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.45
Consensus pattern (21 bp):
TGTATCGATACATCTTTTTGT
Found at i:456693 original size:13 final size:13
Alignment explanation
Indices: 456675--456709 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
456665 ACATTTTTTG
456675 TTGTATCGATACA
1 TTGTATCGATACA
456688 TTGTATCGATACA
1 TTGTATCGATACA
*
456701 CTGTATCGA
1 TTGTATCGA
456710 AACAGGGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:458581 original size:36 final size:36
Alignment explanation
Indices: 458534--458606 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
458524 GGGGAGATTT
458534 ATTAATAAACGGGGGAGATAAAGGAGAGAATGCGTG
1 ATTAATAAACGGGGGAGATAAAGGAGAGAATGCGTG
458570 ATTAATAAACGGGGGAGATAAAGGAGAGAATGCGTG
1 ATTAATAAACGGGGGAGATAAAGGAGAGAATGCGTG
458606 A
1 A
458607 ATTACCTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.42, C:0.05, G:0.36, T:0.16
Consensus pattern (36 bp):
ATTAATAAACGGGGGAGATAAAGGAGAGAATGCGTG
Found at i:459215 original size:20 final size:20
Alignment explanation
Indices: 459192--459264 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
459182 ACAATTCAAA
459192 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
459212 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
459233 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
459253 GTATCGATACAT
1 GTATCGATACAT
459265 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:459236 original size:21 final size:21
Alignment explanation
Indices: 459210--459285 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
459200 ACATGTTGCA
459210 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
459231 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
459251 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
459272 TTGTATCGATACAT
1 ATGTATCGATACAT
459286 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:459243 original size:41 final size:41
Alignment explanation
Indices: 459192--459285 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
459182 ACAATTCAAA
*
459192 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
459233 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
459274 GTATCGATACAT
1 GTATCGATACAT
459286 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:459342 original size:13 final size:13
Alignment explanation
Indices: 459324--459349 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
459314 TACAGCAAGT
459324 ATGTATCGATACA
1 ATGTATCGATACA
459337 ATGTATCGATACA
1 ATGTATCGATACA
459350 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:460902 original size:28 final size:28
Alignment explanation
Indices: 460862--460916 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
460852 AGTCTTGAAT
*
460862 GGTCACCACGAAATGACCATGAACTTAA
1 GGTCACAACGAAATGACCATGAACTTAA
460890 GGTCACAACGAAATGACCATGAACTTA
1 GGTCACAACGAAATGACCATGAACTTA
460917 GAGTCGCCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (28 bp):
GGTCACAACGAAATGACCATGAACTTAA
Found at i:461828 original size:79 final size:77
Alignment explanation
Indices: 461733--462026 Score: 257
Period size: 79 Copynumber: 3.7 Consensus size: 77
461723 GTATCCTTTT
* ** * *
461733 GAAAATAACGGGGTTAGAATATTCCCAATGGTGGAAAATTGACATTTTGGAAATAAAACTAGGGT
1 GAAAACAACGGGGTTAGAATA-TCCCAATGGTGGAAAATTGATGTTTTAGAAATAAAAC-GGGGT
*
461798 TTGAGTATTCCCTC
64 TAGAGTATTCCCTC
* * * * * * *
461812 GAAAATAATGGGGTTAGAGTATCCTCGATGGTGAAAAATGGATGTTTTAAAAATAAAACCGGGGT
1 GAAAACAACGGGGTTAGAATATCC-CAATGGTGGAAAATTGATGTTTTAGAAATAAAA-CGGGGT
*
461877 TAGAGTATCCCCTC
64 TAGAGTATTCCCTC
* * * * * * *
461891 AAAAACAACGAGGTTGGAATATCCCTGATGGTAGAAAAATGATGTTTTAGAAATAAATCGGGGTT
1 GAAAACAACGGGGTTAGAATATCCC-AATGGTGGAAAATTGATGTTTTAGAAATAAAACGGGGTT
*
461956 GGAGTA-TCTCCTC
65 AGAGTATTC-CCTC
* * * * * * *
461969 GAAAACAATGGGGTTGGAGTATCCCCAATAGTGGAAAATCGGTGATTTAGAAATAAAA
1 GAAAACAACGGGGTTAGAATAT-CCCAATGGTGGAAAATTGATGTTTTAGAAATAAAA
462027 TCGTTAATGA
Statistics
Matches: 172, Mismatches: 38, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
77 1 0.01
78 62 0.36
79 108 0.63
80 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (77 bp):
GAAAACAACGGGGTTAGAATATCCCAATGGTGGAAAATTGATGTTTTAGAAATAAAACGGGGTTA
GAGTATTCCCTC
Found at i:464465 original size:22 final size:20
Alignment explanation
Indices: 464435--464492 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
464425 ACAATGATGA
*
464435 ATGTTTCGATATAATTTTAAGT
1 ATGTATCGATAT-A-TTTAAGT
**
464457 ATGTATCGATATATTTACTT
1 ATGTATCGATATATTTAAGT
*
464477 ATGTATCGATACATTT
1 ATGTATCGATATATTT
464493 CCTTAGCAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 20 0.62
21 1 0.03
22 11 0.34
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (20 bp):
ATGTATCGATATATTTAAGT
Found at i:464479 original size:20 final size:20
Alignment explanation
Indices: 464456--464497 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
464446 TAATTTTAAG
*
464456 TATGTATCGATATATTTACT
1 TATGTATCGATACATTTACT
*
464476 TATGTATCGATACATTTCCT
1 TATGTATCGATACATTTACT
464496 TA
1 TA
464498 GCAGTATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.48
Consensus pattern (20 bp):
TATGTATCGATACATTTACT
Found at i:467389 original size:20 final size:21
Alignment explanation
Indices: 467366--467406 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
467356 TATTCATGCT
467366 TTCACTTA-TGTATCGATACA
1 TTCACTTATTGTATCGATACA
467386 TTCACTTATTGTATCGATACA
1 TTCACTTATTGTATCGATACA
467407 AATTGTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (21 bp):
TTCACTTATTGTATCGATACA
Found at i:468879 original size:20 final size:20
Alignment explanation
Indices: 468811--468886 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 20
468801 TCCAAGGAAA
* ** *
468811 TGTATTGATACATTAATAAC
1 TGTATCGATACATTTCTAAT
*
468831 TGTATCGATACATGCTTGTAAT
1 TGTATCGATACAT--TTCTAAT
* *
468853 TGCATCGATACATTTCTCAT
1 TGTATCGATACATTTCTAAT
468873 TGTATCGATACATT
1 TGTATCGATACATT
468887 CTGGGTTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 30 0.65
22 16 0.35
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTTCTAAT
Found at i:477840 original size:164 final size:163
Alignment explanation
Indices: 477419--478023 Score: 667
Period size: 164 Copynumber: 3.7 Consensus size: 163
477409 ATTTTAAATC
* * * * *
477419 AAGAAAAATCCCTT-TAAAAAATTACGGAGTAGAAAACTCCGTATTTCAAAAAAAGAAAAATTTT
1 AAGAAAAATCTCTTCGAAAAAATTACGGAATAGAAAACTCCGTATTTCAAAAAAAG-GAAATTTG
* * * * * * *
477483 AAGAAAAAAATTCAGAATTAATGGAAATCAATGAATTTTTGAAAA-TGAGTTAATGTGAAATAAG
65 AAGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAA
* * *
477547 TAATAATATTTTATGAATTTTAAAAATAAGAAACC
130 TAATAATATTTAATGAATTTTAAAATTAA-AAACT
* * * * *
477582 AAGAAAAATTTC-TCGAAAAAATTATGGAGA-AGAAAACTTCGTATTTTAAAAAAAAGG-GATTT
1 AAGAAAAATCTCTTCGAAAAAATTACGGA-ATAGAAAACTCCGTA-TTTCAAAAAAAGGAAATTT
*
477644 GAAGGAAAAAAATCAAAATTTATGGAAATGAATGAATTTTTGAAAACAT-AATTAATATGAAATA
64 GAAGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAAC-TGAATTAATATGAAATA
* *
477708 AATAATAATATTTGATGAATTTTAAAATTAACATA-T
128 AATAATAATATTTAATGAATTTTAAAATTAA-AAACT
*
477744 AAGAAAAATCTCTTCGAAAAAATCTACGGAATAGAAAACTTCGTATTTCAAAAAAAGGAAATTTG
1 AAGAAAAATCTCTTCGAAAAAAT-TACGGAATAGAAAACTCCGTATTTCAAAAAAAGGAAATTTG
*
477809 AAGGAAAAAATTCAAAATTTAGGGAAATGAATGAATTTTTGAAAACTGAATTACA-ATGAAATAA
65 AAGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTA-ATATGAAATAA
* **
477873 ATAATAAAATTTAATGAATTTTGAAGCTTAAAAACT
129 ATAATAATATTTAATGAATTTT-AAAATTAAAAACT
* * * *
477909 AAGAAAAATGC-CTCCGAAAAAATTTACGGAGTAGAAAACTCCGTATTTTAAAAAAA-GAGAACT
1 AAGAAAAAT-CTCTTCGAAAAAA-TTACGGAATAGAAAACTCCGTATTTCAAAAAAAGGA-AATT
* ** * * * *
477972 TCAA-GAAAAAATAAAAAATTCATGAAAATGAAAGAATTTTTTAAAACT-AATT
63 TGAAGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATT
478024 TGATACGGAT
Statistics
Matches: 379, Mismatches: 47, Indels: 32
0.83 0.10 0.07
Matches are distributed among these distances:
162 56 0.15
163 105 0.28
164 154 0.41
165 62 0.16
166 2 0.01
ACGTcount: A:0.52, C:0.07, G:0.13, T:0.28
Consensus pattern (163 bp):
AAGAAAAATCTCTTCGAAAAAATTACGGAATAGAAAACTCCGTATTTCAAAAAAAGGAAATTTGA
AGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAAT
AATAATATTTAATGAATTTTAAAATTAAAAACT
Found at i:477983 original size:327 final size:325
Alignment explanation
Indices: 477419--478023 Score: 783
Period size: 327 Copynumber: 1.9 Consensus size: 325
477409 ATTTTAAATC
* * *
477419 AAGAAAAATCCCTTTAAAAAATTACGGAGTAGAAAACTCCGTATTTCAAAAAAAGAAAAATTTTA
1 AAGAAAAATCCCTTGAAAAAATTACGGAATAGAAAACTCCGTATTTCAAAAAAAGAAAAATTTGA
* * * * *
477484 AGAAAAAAATTCAGAATTAATGGAAATCAATGAATTTTTGAAAATGAGTTAATGTGAAATAAGTA
66 AGAAAAAAATTCAAAATTAAGGGAAATCAATGAATTTTTGAAAATGAATTAATATGAAATAAATA
* * ** *
477549 ATAATATTTTATGAATTTTAAAAATAAGAAACCAAGAAAAATTTCTCGAAAAAATTATGGAGAAG
131 ATAAAATTTAATGAATTTTAAAAATAAGAAACCAAGAAAAATGCCTCGAAAAAATTACGGAGAAG
* * * * * * * *
477614 AAAACTTCGTATTTTAAAAAAAAGGGATTTGAAGGAAAAAAAT-CAAAATTTATGGAAATGAATG
196 AAAACTCCGTATTTTAAAAAAAAGGAACTTCAAGGAAAAAAATAAAAAATTCATGAAAATGAAAG
477678 AATTTTTGAAAACATAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAAATTAACATA
261 AATTTTTGAAAAC-TAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAAATTAACATA
477743 T
325 T
* * *
477744 AAGAAAAATCTCTTCGAAAAAATCTACGGAATAGAAAACTTCGTATTTCAAAAAAAG-GAAATTT
1 AAGAAAAATCCCTT-GAAAAAAT-TACGGAATAGAAAACTCCGTATTTCAAAAAAAGAAAAATTT
* * *
477808 GAAGGAAAAAATTCAAAATTTAGGGAAATGAATGAATTTTTGAAAACTGAATTACA-ATGAAATA
64 GAAGAAAAAAATTCAAAATTAAGGGAAATCAATGAATTTTTGAAAA-TGAATTA-ATATGAAATA
*** *
477872 AATAATAAAATTTAATGAATTTTGAAGCTTAA-AAACTAAGAAAAATGCCTCCGAAAAAATTTAC
127 AATAATAAAATTTAATGAATTTT-AAAAATAAGAAACCAAGAAAAATGCCT-CGAAAAAA-TTAC
*
477936 GGAGTAGAAAACTCCGTATTTT-AAAAAAAGAGAACTTCAA-G-AAAAAATAAAAAATTCATGAA
189 GGAGAAGAAAACTCCGTATTTTAAAAAAAAG-GAACTTCAAGGAAAAAAATAAAAAATTCATGAA
*
477998 AATGAAAGAATTTTTTAAAACTAATT
253 AATGAAAGAATTTTTGAAAACTAATT
478024 TGATACGGAT
Statistics
Matches: 238, Mismatches: 33, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
325 13 0.05
326 53 0.22
327 91 0.38
328 52 0.22
329 29 0.12
ACGTcount: A:0.52, C:0.07, G:0.13, T:0.28
Consensus pattern (325 bp):
AAGAAAAATCCCTTGAAAAAATTACGGAATAGAAAACTCCGTATTTCAAAAAAAGAAAAATTTGA
AGAAAAAAATTCAAAATTAAGGGAAATCAATGAATTTTTGAAAATGAATTAATATGAAATAAATA
ATAAAATTTAATGAATTTTAAAAATAAGAAACCAAGAAAAATGCCTCGAAAAAATTACGGAGAAG
AAAACTCCGTATTTTAAAAAAAAGGAACTTCAAGGAAAAAAATAAAAAATTCATGAAAATGAAAG
AATTTTTGAAAACTAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAAATTAACATAT
Found at i:479378 original size:84 final size:84
Alignment explanation
Indices: 479276--479653 Score: 386
Period size: 84 Copynumber: 4.5 Consensus size: 84
479266 AGGAAGAAAG
* * * * * *
479276 GGTTTAT-AGAGGATTAAGCTGACATGTAAATAATGGAT-AGAGGATGACGAGAGACTGAGCTCA
1 GGTTTATCA-AGGACTAAGCTGACAGGTAAACAATGGATGA-AGGTTGACTAGAGACTGAGCTGA
*
479339 TAGGTCACCATAAGGGTAATA
64 CAGGTCACCATAAGGGTAATA
* * * * * * *
479360 GGTTTATCAAGGACTAAGCCGAAAGGTAAACAATTGATGAAAGTTGACTAGAGATTGGGCTGACG
1 GGTTTATCAAGGACTAAGCTGACAGGTAAACAATGGATGAAGGTTGACTAGAGACTGAGCTGACA
* *
479425 GGTCACCAGAAGGGTAATG
66 GGTCACCATAAGGGTAATA
* * * ** *
479444 GGTTTATCGAGGACAAAGCCGACAGGTAAATGATGGATGAAGGTTGGC-AGGAGACTGAGCTGAC
1 GGTTTATCAAGGACTAAGCTGACAGGTAAACAATGGATGAAGGTTGACTA-GAGACTGAGCTGAC
*
479508 AAGTCACCATAAGGGTAATA
65 AGGTCACCATAAGGGTAATA
* * * * *
479528 GGTTTACCAAGGACTAAGCTGACGAGG-AAACAATGGATAAAGGTTTACTAAAGACTGAGTTGAC
1 GGTTTATCAAGGACTAAGCTGAC-AGGTAAACAATGGATGAAGGTTGACTAGAGACTGAGCTGAC
*
479592 AGGTCACCATAAGGGTAATG
65 AGGTCACCATAAGGGTAATA
* * * *
479612 GGTTTATCGAGGACTCAGCTGATAGATAAACAATGAGATGAA
1 GGTTTATCAAGGACTAAGCTGACAGGTAAACAATG-GATGAA
479654 AGTTATTTCC
Statistics
Matches: 238, Mismatches: 49, Indels: 13
0.79 0.16 0.04
Matches are distributed among these distances:
83 3 0.01
84 224 0.94
85 11 0.05
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.22
Consensus pattern (84 bp):
GGTTTATCAAGGACTAAGCTGACAGGTAAACAATGGATGAAGGTTGACTAGAGACTGAGCTGACA
GGTCACCATAAGGGTAATA
Found at i:479549 original size:43 final size:43
Alignment explanation
Indices: 479496--479633 Score: 127
Period size: 43 Copynumber: 3.3 Consensus size: 43
479486 GTTGGCAGGA
479496 GACTGAGCTGACAAGTCACCATAAGGGTAATAGGTTTACCAAG
1 GACTGAGCTGACAAGTCACCATAAGGGTAATAGGTTTACCAAG
* * ** * * * * *
479539 GACTAAGCTGACGAGGAAACA-ATGGATAA-AGGTTTACTAAA
1 GACTGAGCTGACAAGTCACCATAAGGGTAATAGGTTTACCAAG
* * * * *
479580 GACTGAGTTGACAGGTCACCATAAGGGTAATGGGTTTATCGAG
1 GACTGAGCTGACAAGTCACCATAAGGGTAATAGGTTTACCAAG
*
479623 GACTCAGCTGA
1 GACTGAGCTGA
479634 TAGATAAACA
Statistics
Matches: 68, Mismatches: 25, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
41 24 0.35
42 12 0.18
43 32 0.47
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.22
Consensus pattern (43 bp):
GACTGAGCTGACAAGTCACCATAAGGGTAATAGGTTTACCAAG
Found at i:479889 original size:85 final size:85
Alignment explanation
Indices: 479691--479932 Score: 203
Period size: 85 Copynumber: 2.9 Consensus size: 85
479681 GCAAATAAAG
** * * * * * *
479691 AGATGAAGAAGTCTCCTAAGTCTCAGCT-GA-TGGCGGACGATTGATAAAG-AAGTCTCTTAAGT
1 AGATGAAGAAGTCTCCCGAGTCT-AACTCGACTAGCAGACAATTGATAAAGCAAGTCTCCTAAGA
* * * *
479753 CTAAGTTGACAGGCAGA-CAA
65 CTAAGTCGACGGGCAGATTAT
* * * *
479773 AGAATGAAGAAGTCTCCCGAGTTTGAGTCGAC-AGGCAAGA-GATTGATAAAAGCAA-TCTCCTA
1 AG-ATGAAGAAGTCTCCCGAGTCTAACTCGACTA-GC-AGACAATTGAT-AAAGCAAGTCTCCTA
*
479835 GGACTAAGTCGACGGGCAGATTAT
62 AGACTAAGTCGACGGGCAGATTAT
* *
479859 AGATGAAGAAGTCTCCC-AGGTCTAACTCGACTAGCAGACAATTGATAAAGGAAGTCTCCTAAGT
1 AGATGAAGAAGTCTCCCGA-GTCTAACTCGACTAGCAGACAATTGATAAAGCAAGTCTCCTAAGA
479923 CTAAGTCGAC
65 CTAAGTCGAC
479933 AGGTAGATGA
Statistics
Matches: 126, Mismatches: 22, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
82 3 0.02
83 20 0.16
84 19 0.15
85 78 0.62
86 6 0.05
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.22
Consensus pattern (85 bp):
AGATGAAGAAGTCTCCCGAGTCTAACTCGACTAGCAGACAATTGATAAAGCAAGTCTCCTAAGAC
TAAGTCGACGGGCAGATTAT
Found at i:479968 original size:128 final size:128
Alignment explanation
Indices: 479779--480044 Score: 281
Period size: 128 Copynumber: 2.1 Consensus size: 128
479769 ACAAAGAATG
** * * *
479779 AAGAAGTCTCCCGAGTTTGAGTCGACAGGCAAGAGATTGATAAAAGCAATCTCCTAGGACTAAG-
1 AAGAAGTCTCCTAAGTCTAAGTCGACAGGCAAGAGATTGATAAAAGAAATCTCCTAGGACTAAGC
* ** * * *
479843 TCGACGGGCAGA-TTATAGATGAAGAAGTCTCCCAGGTCTAACTCGACT-AGCAGACAATTGATA
66 T-GACAGGCA-ACAAAAAGATAAAAAAGTCTCCCAGGTCTAACTCGA-TGAGCAGACAATTGATA
479906 A
128 A
* * * *
479907 AGGAAGTCTCCTAAGTCTAAGTCGACAGG-TAGATGATTGATAAAGGAAATCT-CTTGAGACTAA
1 AAGAAGTCTCCTAAGTCTAAGTCGACAGGCAAGA-GATTGATAAAAGAAATCTCCTAG-GACTAA
* * * *
479970 GCTGACAGGCAACAAAAAGATAAAAAAGTCTCCCGGGTCTAAGTCGATGGGCAGACGATTGATAA
64 GCTGACAGGCAACAAAAAGATAAAAAAGTCTCCCAGGTCTAACTCGATGAGCAGACAATTGATAA
480035 AAGAAGTCTC
1 AAGAAGTCTC
480045 TCGGGTCTAA
Statistics
Matches: 113, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
127 8 0.07
128 104 0.92
129 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.21
Consensus pattern (128 bp):
AAGAAGTCTCCTAAGTCTAAGTCGACAGGCAAGAGATTGATAAAAGAAATCTCCTAGGACTAAGC
TGACAGGCAACAAAAAGATAAAAAAGTCTCCCAGGTCTAACTCGATGAGCAGACAATTGATAA
Found at i:480097 original size:41 final size:42
Alignment explanation
Indices: 479726--480139 Score: 196
Period size: 43 Copynumber: 9.8 Consensus size: 42
479716 GCTGATGGCG
**** * **
479726 GACGATTGATAAAGAAGTCTCTTAAGTCTAAGTTGACAGGCA
1 GACGATTGATAAAGAAGTCTCCCGGGTCTAAGTCGATGGGCA
** * * * * **
479768 GAC-AAAGAATGAAGAAGTCTCCCGAGTTTGAGTCGACAGGCAA
1 GACGATTG-ATAAAGAAGTCTCCCGGGTCTAAGTCGATGGGC-A
** * *
479811 GA-GATTGATAAAAGCAA-TCTCCTAGGACTAAGTCGACGGGCA
1 GACGATTGAT-AAAG-AAGTCTCCCGGGTCTAAGTCGATGGGCA
** * * * * *
479853 GATTATAGATGAAGAAGTCTCCCAGGTCTAACTCGACT-AGCA
1 GACGATTGATAAAGAAGTCTCCCGGGTCTAAGTCGA-TGGGCA
* *** ** *
479895 GACAATTGATAAAGGAAGTCTCCTAAGTCTAAGTCGACAGGTA
1 GACGATTGATAAA-GAAGTCTCCCGGGTCTAAGTCGATGGGCA
* * ** * * **
479938 GATGATTGATAAAGGAAATCTCTTGAGACTAAG-CTGACAGGCA
1 GACGATTGATAAA-GAAGTCTCCCGGGTCTAAGTC-GATGGGCA
* ** *
479981 -ACAAAAAGATAAAAAAGTCTCCCGGGTCTAAGTCGATGGGCA
1 GAC-GATTGATAAAGAAGTCTCCCGGGTCTAAGTCGATGGGCA
* **
480023 GACGATTGATAAAAGAAGTCTCTCGGGTCTAAGTCGATAAGCA
1 GACGATTGAT-AAAGAAGTCTCCCGGGTCTAAGTCGATGGGCA
*
480066 GACGATTGAT-GAGAAGTCTCCCGGG-CTTAAGTCGATGGGCA
1 GACGATTGATAAAGAAGTCTCCCGGGTC-TAAGTCGATGGGCA
* * *
480107 GACAATTGATAAAGGAAGCCTCTCGGGTCTAAG
1 GACGATTGATAAA-GAAGTCTCCCGGGTCTAAG
480140 CCAATGAGAA
Statistics
Matches: 282, Mismatches: 71, Indels: 37
0.72 0.18 0.09
Matches are distributed among these distances:
40 1 0.00
41 38 0.13
42 91 0.32
43 149 0.53
44 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (42 bp):
GACGATTGATAAAGAAGTCTCCCGGGTCTAAGTCGATGGGCA
Found at i:480242 original size:43 final size:43
Alignment explanation
Indices: 479984--480269 Score: 211
Period size: 43 Copynumber: 6.7 Consensus size: 43
479974 ACAGGCAACA
*
479984 AAAAGAT-AAAAAAGTCTCCCGGGTCTAAGTCGATGGGCAGAC
1 AAAAGATAAAAAAAGTCTCCCGGGTCTAAGCCGATGGGCAGAC
* ** * * * **
480026 GATTGATAAAAGAAGTCTCTCGGGTCTAAGTCGATAAGCAGAC
1 AAAAGATAAAAAAAGTCTCCCGGGTCTAAGCCGATGGGCAGAC
* ** * * *
480069 GATTGAT--GAGAAGTCTCCCGGG-CTTAAGTCGATGGGCAGAC
1 AAAAGATAAAAAAAGTCTCCCGGGTC-TAAGCCGATGGGCAGAC
** ** * * * * * *
480110 AATTGATAAAGGAAGCCTCTCGGGTCTAAGCCAATGAGAAGAT
1 AAAAGATAAAAAAAGTCTCCCGGGTCTAAGCCGATGGGCAGAC
** * * * *
480153 AAAAGATATAGGAAAGTCTCCTGGGTCTAAGCCAATAGGCATAC
1 AAAAGATA-AAAAAAGTCTCCCGGGTCTAAGCCGATGGGCAGAC
* *
480197 AAAAGATAAAAAAAATCTCCCGGGTCTAAGCCGATGGGCAAAC
1 AAAAGATAAAAAAAGTCTCCCGGGTCTAAGCCGATGGGCAGAC
**
480240 AAAAGATAAAAAAAGTCTCATGGGTCTAAG
1 AAAAGATAAAAAAAGTCTCCCGGGTCTAAG
480270 TCGACAAGTA
Statistics
Matches: 195, Mismatches: 43, Indels: 11
0.78 0.17 0.04
Matches are distributed among these distances:
40 1 0.01
41 34 0.17
42 4 0.02
43 122 0.63
44 34 0.17
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (43 bp):
AAAAGATAAAAAAAGTCTCCCGGGTCTAAGCCGATGGGCAGAC
Found at i:480283 original size:43 final size:43
Alignment explanation
Indices: 480175--480284 Score: 112
Period size: 43 Copynumber: 2.6 Consensus size: 43
480165 AAAGTCTCCT
* * * * *
480175 GGGTCTAAGCCAATAGGCATACAAAAGATAAAAAAAATCTCCC
1 GGGTCTAAGCCGACAAGCAAACAAAAGATAAAAAAAATCTCAC
*** * *
480218 GGGTCTAAGCCGATGGGCAAACAAAAGATAAAAAAAGTCTCAT
1 GGGTCTAAGCCGACAAGCAAACAAAAGATAAAAAAAATCTCAC
* *
480261 GGGTCTAAGTCGACAAGTAAACAA
1 GGGTCTAAGCCGACAAGCAAACAA
480285 GGGATCAAAG
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.16
Consensus pattern (43 bp):
GGGTCTAAGCCGACAAGCAAACAAAAGATAAAAAAAATCTCAC
Found at i:480414 original size:44 final size:44
Alignment explanation
Indices: 480366--480743 Score: 171
Period size: 44 Copynumber: 8.8 Consensus size: 44
480356 ATGCAAATCG
* * * * * *
480366 TTTGACCAAGGTGGTAATCATATGTCAGACAGGAAAGAGGTAGA
1 TTTGACCAAGGTGGTAACCATACGTCACAAAAGAAAGAGGCAGA
* *
480410 TTTGACCAGGGTGGTAACCATACGTCACAAAAGAAAGAGGCGGA
1 TTTGACCAAGGTGGTAACCATACGTCACAAAAGAAAGAGGCAGA
* * * * **
480454 TTTGACCAAAGTGGTAACCATACATCA-AATTAGAATGA-AAAGAA
1 TTTGACCAAGGTGGTAACCATACGTCACAA-AAGAAAGAGGCAG-A
* * * * * *
480498 TCTGACCAGGGTGTTAACCATACGTCAGAGAGGAATA-AGGCAGA
1 TTTGACCAAGGTGGTAACCATACGTCACAAAAGAA-AGAGGCAGA
* * *
480542 TTTGACCAGGGTGGTAACCATATGT--C-AAA-CAA-A---A-A
1 TTTGACCAAGGTGGTAACCATACGTCACAAAAGAAAGAGGCAGA
** * * * * *
480577 TTTGACC-AGTGTGGTAGGCATACATCAGACAGGAAGGAGGCAGA
1 TTTGACCAAG-GTGGTAACCATACGTCACAAAAGAAAGAGGCAGA
* * ** **
480621 TTTGACCACGGTGATAACCATACGTCA-AATCGAAATGA-AAAGAA
1 TTTGACCAAGGTGGTAACCATACGTCACAAAAGAAA-GAGGCAG-A
* * * *
480665 TCTGACCAGGGTGTTAACCATATGTCA-AATAA-AAAGGAGGCAGA
1 TTTGACCAAGGTGGTAACCATACGTCACAA-AAGAAA-GAGGCAGA
* * *
480709 TTTGACTAGGGTGGTAACCATACGTCA-AATAGAAA
1 TTTGACCAAGGTGGTAACCATACGTCACAAAAGAAA
480744 AGAAGAGAGT
Statistics
Matches: 244, Mismatches: 69, Indels: 42
0.69 0.19 0.12
Matches are distributed among these distances:
34 1 0.00
35 19 0.08
36 1 0.00
38 1 0.00
39 3 0.01
40 2 0.01
41 1 0.00
43 11 0.05
44 199 0.82
45 6 0.02
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (44 bp):
TTTGACCAAGGTGGTAACCATACGTCACAAAAGAAAGAGGCAGA
Found at i:480506 original size:88 final size:87
Alignment explanation
Indices: 480412--480742 Score: 306
Period size: 88 Copynumber: 3.9 Consensus size: 87
480402 GAGGTAGATT
* * **
480412 TGACCAGGGTGGTAACCATACGTCACAAAAGAAAGAGGCGGATTTGACCAAAGTGGTAACCATAC
1 TGACCAGGGTGGTAACCATACGTCAGAAAAGAAAGAGGCAGATTTGACCAGGGTGGTAACCATAC
480477 ATCAAATTAGAATGAAAAGAATC
66 ATCAAA-TAGAATGAAAAGAATC
* * *
480500 TGACCAGGGTGTTAACCATACGTCAGAGAGGAATA-AGGCAGATTTGACCAGGGTGGTAACCATA
1 TGACCAGGGTGGTAACCATACGTCAGAAAAGAA-AGAGGCAGATTTGACCAGGGTGGTAACCATA
** * *
480564 TGTC----A-AA--CAAA-AATT
65 CATCAAATAGAATGAAAAGAATC
* ** * * * * * *
480579 TGACCAGTGTGGTAGGCATACATCAGACAGGAAGGAGGCAGATTTGACCACGGTGATAACCATAC
1 TGACCAGGGTGGTAACCATACGTCAGAAAAGAAAGAGGCAGATTTGACCAGGGTGGTAACCATAC
* *
480644 GTCAAATCGAAATGAAAAGAATC
66 ATCAAATAG-AATGAAAAGAATC
* * *
480667 TGACCAGGGTGTTAACCATATGTCA-AATAA-AAAGGAGGCAGATTTGACTAGGGTGGTAACCAT
1 TGACCAGGGTGGTAACCATACGTCAGAA-AAGAAA-GAGGCAGATTTGACCAGGGTGGTAACCAT
*
480730 ACGTCAAATAGAA
64 ACATCAAATAGAA
480743 AAGAAGAGAG
Statistics
Matches: 193, Mismatches: 37, Indels: 27
0.75 0.14 0.11
Matches are distributed among these distances:
79 60 0.31
80 3 0.02
82 2 0.01
83 1 0.01
85 2 0.01
87 8 0.04
88 116 0.60
89 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.20
Consensus pattern (87 bp):
TGACCAGGGTGGTAACCATACGTCAGAAAAGAAAGAGGCAGATTTGACCAGGGTGGTAACCATAC
ATCAAATAGAATGAAAAGAATC
Found at i:480660 original size:167 final size:167
Alignment explanation
Indices: 480409--480737 Score: 435
Period size: 167 Copynumber: 2.0 Consensus size: 167
480399 AAAGAGGTAG
* * *
480409 ATTTGACCAGGGTGGTAACCATACGTCACAAAAGAAAGAGGCGGATTTGACCAAAGTGGTAACCA
1 ATTTGACCAGGGTGGTAACCATACATCACAAAAGAAAGAGGCAGATTTGACCAAAGTGATAACCA
* * ** *
480474 TACATCAAATTAGAATGAAAAGAATCTGACCAGGGTGTTAACCATACGTCAGAGAGGAATAAGGC
66 TACATCAAATGAGAATGAAAAGAATCTGACCAGGGTGTTAACCATACGTCAAAGAAAAAGAAGGC
*
480539 AGATTTGACCAGGGTGGTAACCATATGTCAAACAAAA
131 AGATTTGACCAGGGTGGTAACCATACGTCAAACAAAA
* ** * * * * **
480576 ATTTGACCAGTGTGGTAGGCATACATCAGACAGGAAGGAGGCAGATTTGACCACGGTGATAACCA
1 ATTTGACCAGGGTGGTAACCATACATCACAAAAGAAAGAGGCAGATTTGACCAAAGTGATAACCA
* * * *
480641 TACGTCAAATCGA-AATGAAAAGAATCTGACCAGGGTGTTAACCATATGTCAAATAAAAAGGAGG
66 TACATCAAAT-GAGAATGAAAAGAATCTGACCAGGGTGTTAACCATACGTCAAAGAAAAAGAAGG
*
480705 CAGATTTGACTAGGGTGGTAACCATACGTCAAA
130 CAGATTTGACCAGGGTGGTAACCATACGTCAAA
480738 TAGAAAAGAA
Statistics
Matches: 138, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
167 137 0.99
168 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (167 bp):
ATTTGACCAGGGTGGTAACCATACATCACAAAAGAAAGAGGCAGATTTGACCAAAGTGATAACCA
TACATCAAATGAGAATGAAAAGAATCTGACCAGGGTGTTAACCATACGTCAAAGAAAAAGAAGGC
AGATTTGACCAGGGTGGTAACCATACGTCAAACAAAA
Found at i:480757 original size:44 final size:44
Alignment explanation
Indices: 480621--480757 Score: 143
Period size: 44 Copynumber: 3.1 Consensus size: 44
480611 AGGAGGCAGA
* * * * *
480621 TTTGACCACGGTGATAACCATACGTCAAATCGAAATGAAAAGAA
1 TTTGACCAGGGTGATAACCATACGTCAAATAGAAAAGAAGAGAG
* * * *
480665 TCTGACCAGGGTGTTAACCATATGTCAAATA-AAAAGGAG-GCAG
1 TTTGACCAGGGTGATAACCATACGTCAAATAGAAAAGAAGAG-AG
* *
480708 ATTTGACTAGGGTGGTAACCATACGTCAAATAGAAAAGAAGAGAG
1 -TTTGACCAGGGTGATAACCATACGTCAAATAGAAAAGAAGAGAG
480753 TTTGA
1 TTTGA
480758 TAAGGCCCCA
Statistics
Matches: 75, Mismatches: 14, Indels: 8
0.77 0.14 0.08
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
44 58 0.77
45 9 0.12
46 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (44 bp):
TTTGACCAGGGTGATAACCATACGTCAAATAGAAAAGAAGAGAG
Found at i:480897 original size:94 final size:95
Alignment explanation
Indices: 480767--480948 Score: 222
Period size: 94 Copynumber: 1.9 Consensus size: 95
480757 ATAAGGCCCC
* * * * * *
480767 AACACCAATATAGTCAAACGAGGGATGAAAAAAGTTTGACTAGGCCCTAACACCAAT-ATTTAAA
1 AACACCAATATAGTCAAACAAGGGAAGAAAAAAGTTTAACCAGGCCCTAACACCAATAAGTCAAA
* *
480831 TGAGGGATGAAAAGCGTTTGACTAGACCTT
66 TGAGGGATAAAAAGAGTTTGACTAGACCTT
* **** *
480861 AACACCAATATAGTCAAACAAGGTAAGATTTGAGTTTAACCAGGCCTTAACACCAATACAGTCAA
1 AACACCAATATAGTCAAACAAGGGAAGAAAAAAGTTTAACCAGGCCCTAACACCAATA-AGTCAA
480926 ATGAGGGATAAAAAGAGTTTGAC
65 ATGAGGGATAAAAAGAGTTTGAC
480949 CAGATACAGT
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
94 47 0.65
96 25 0.35
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (95 bp):
AACACCAATATAGTCAAACAAGGGAAGAAAAAAGTTTAACCAGGCCCTAACACCAATAAGTCAAA
TGAGGGATAAAAAGAGTTTGACTAGACCTT
Found at i:480951 original size:48 final size:48
Alignment explanation
Indices: 480749--480951 Score: 182
Period size: 48 Copynumber: 4.3 Consensus size: 48
480739 AGAAAAGAAG
** * *
480749 AGAGTTTGATAAGGCCCCAACACCAATATAGTCAAACGAGGGATGAAAA
1 AGAGTTTGACCAGGCCCTAACACCAATATAGTCAAATGAGGGAT-AAAA
* * *
480798 A-AGTTTGACTAGGCCCTAACACCAATAT--TTAAATGAGGGATGAAA
1 AGAGTTTGACCAGGCCCTAACACCAATATAGTCAAATGAGGGATAAAA
* * * * * * *
480843 AGCGTTTGACTAGACCTTAACACCAATATAGTCAAA-CAAGG-TAAGATT
1 AGAGTTTGACCAGGCCCTAACACCAATATAGTCAAATGAGGGATAA-A-A
* * * *
480891 TGAGTTTAACCAGGCCTTAACACCAATACAGTCAAATGAGGGATAAAA
1 AGAGTTTGACCAGGCCCTAACACCAATATAGTCAAATGAGGGATAAAA
480939 AGAGTTTGACCAG
1 AGAGTTTGACCAG
480952 ATACAGTCAA
Statistics
Matches: 122, Mismatches: 25, Indels: 15
0.75 0.15 0.09
Matches are distributed among these distances:
45 4 0.03
46 37 0.30
47 4 0.03
48 69 0.57
49 5 0.04
50 3 0.02
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (48 bp):
AGAGTTTGACCAGGCCCTAACACCAATATAGTCAAATGAGGGATAAAA
Found at i:481651 original size:44 final size:43
Alignment explanation
Indices: 481593--481734 Score: 128
Period size: 44 Copynumber: 3.2 Consensus size: 43
481583 CAGATATGCG
* *
481593 TGAAATGATTTAAATGCAAGCATCAATAAAATGGCAAATGCATA
1 TGAAATGATGTAAATGCAAGCATCAATAAAAT-GCAAATGCACA
* * **
481637 TGAAATGATGTAAATACCAATGTCATC--TAAAATGCAAATGTAGG
1 TGAAATGATGTAAAT-GCAA-G-CATCAATAAAATGCAAATGCACA
* *
481681 TGAAATAATGCAAATGCAAAG-ATCAATAAAATAGCAAATGCACA
1 TGAAATGATGTAAATGC-AAGCATCAATAAAAT-GCAAATGCACA
*
481725 TGAAACGATG
1 TGAAATGATG
481735 CATTACAAAT
Statistics
Matches: 78, Mismatches: 13, Indels: 14
0.74 0.12 0.13
Matches are distributed among these distances:
41 3 0.04
43 8 0.10
44 53 0.68
45 9 0.12
46 1 0.01
47 4 0.05
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.23
Consensus pattern (43 bp):
TGAAATGATGTAAATGCAAGCATCAATAAAATGCAAATGCACA
Found at i:483141 original size:18 final size:18
Alignment explanation
Indices: 483113--483156 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
483103 ACTATCGACA
*
483113 TTTTCTTTTTCATTTCA-
1 TTTTTTTTTTCATTTCAG
*
483130 TTCTTTTTTTTCGTTTCAG
1 TT-TTTTTTTTCATTTCAG
483149 TTTTTTTT
1 TTTTTTTT
483157 CTTCTTCTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 19 0.83
19 2 0.09
ACGTcount: A:0.07, C:0.14, G:0.05, T:0.75
Consensus pattern (18 bp):
TTTTTTTTTTCATTTCAG
Found at i:483169 original size:17 final size:16
Alignment explanation
Indices: 483131--483173 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
483121 TTCATTTCAT
483131 TCTTTTTTTTCGTTTC
1 TCTTTTTTTTCGTTTC
** *
483147 AGTTTTTTTTCTTCTTC
1 TCTTTTTTTTCGT-TTC
483164 TCTTTTTTTT
1 TCTTTTTTTT
483174 TGTGTTTCTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.02, C:0.16, G:0.05, T:0.77
Consensus pattern (16 bp):
TCTTTTTTTTCGTTTC
Found at i:488912 original size:2 final size:2
Alignment explanation
Indices: 488905--488934 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
488895 GAGTTGCTGT
488905 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
488935 AATATCAGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:489038 original size:19 final size:19
Alignment explanation
Indices: 489006--489057 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
488996 ATCACTATAT
489006 ACAAAA-AAATTTAAAATTA
1 ACAAAATAAA-TTAAAATTA
* *
489025 ACAAAATAAATTAAATTTT
1 ACAAAATAAATTAAAATTA
*
489044 TCAAAATAAATTAA
1 ACAAAATAAATTAA
489058 TAGGAGTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 26 0.90
20 3 0.10
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (19 bp):
ACAAAATAAATTAAAATTA
Found at i:493208 original size:20 final size:20
Alignment explanation
Indices: 493163--493215 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
493153 ACACACCCAG
493163 ATGTATCGATACAAATTGCT
1 ATGTATCGATACAAATTGCT
*
493183 AAGTATCGATACAAATTGCT
1 ATGTATCGATACAAATTGCT
* *
493203 TTGTATCAATACA
1 ATGTATCGATACA
493216 CCATGAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAAATTGCT
Found at i:495399 original size:22 final size:21
Alignment explanation
Indices: 495350--495406 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
495340 CAATACTCTT
*
495350 GAAAAGAAATTAAATGATTCA
1 GAAAAGAAAATAAATGATTCA
*
495371 GAAAAGAAAATAAATGAGTT-G
1 GAAAAGAAAATAAATGA-TTCA
495392 GAAGAAGAAAATAAA
1 GAA-AAGAAAATAAA
495407 GAATTAACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 19 0.59
22 13 0.41
ACGTcount: A:0.61, C:0.02, G:0.19, T:0.18
Consensus pattern (21 bp):
GAAAAGAAAATAAATGATTCA
Found at i:495425 original size:21 final size:21
Alignment explanation
Indices: 495399--495444 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
495389 TTGGAAGAAG
* *
495399 AAAATAAAGAATTAACTAATA
1 AAAATAAAGAATTAACAAAGA
**
495420 AAAATAGTGAATTAACAAAGA
1 AAAATAAAGAATTAACAAAGA
495441 AAAA
1 AAAA
495445 GAAAAACTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.67, C:0.04, G:0.09, T:0.20
Consensus pattern (21 bp):
AAAATAAAGAATTAACAAAGA
Found at i:502434 original size:13 final size:13
Alignment explanation
Indices: 502416--502445 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
502406 ACAATTCTTC
502416 TTGTATCGATACA
1 TTGTATCGATACA
*
502429 TTGTATGGATACA
1 TTGTATCGATACA
502442 TTGT
1 TTGT
502446 GCAATGTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:502550 original size:13 final size:13
Alignment explanation
Indices: 502532--502556 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
502522 ATAATGAACA
502532 TGTATCGATACAT
1 TGTATCGATACAT
502545 TGTATCGATACA
1 TGTATCGATACA
502557 AAGCATAATG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:503527 original size:33 final size:33
Alignment explanation
Indices: 503485--503551 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
503475 AAGAGAACTA
* *
503485 AAGTGCTCATTCACGCGCTACGAAAGTGAAGTG
1 AAGTGCTCATCCACGCGCTACAAAAGTGAAGTG
*
503518 AAGTGCTCATCCATGCGCTACAAAAGTGAAGTG
1 AAGTGCTCATCCACGCGCTACAAAAGTGAAGTG
503551 A
1 A
503552 TCAACTTTCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (33 bp):
AAGTGCTCATCCACGCGCTACAAAAGTGAAGTG
Found at i:504921 original size:21 final size:21
Alignment explanation
Indices: 504897--504961 Score: 121
Period size: 21 Copynumber: 3.0 Consensus size: 21
504887 TGTTATGAAA
504897 TTGAAGAAATTTGAGAAAAAT
1 TTGAAGAAATTTGAGAAAAAT
504918 TTGAAGAAATTTGAGAAAAAT
1 TTGAAGAAATTTGAGAAAAAT
504939 TTGAAGAAATTTGATGAAAAAT
1 TTGAAGAAATTTGA-GAAAAAT
504961 T
1 T
504962 ATTAGGGTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
21 35 0.81
22 8 0.19
ACGTcount: A:0.51, C:0.00, G:0.18, T:0.31
Consensus pattern (21 bp):
TTGAAGAAATTTGAGAAAAAT
Found at i:504927 original size:10 final size:10
Alignment explanation
Indices: 504893--504957 Score: 78
Period size: 10 Copynumber: 6.4 Consensus size: 10
504883 GTTTTGTTAT
504893 GAAA-TTGAA
1 GAAATTTGAA
504902 GAAATTTGAGA
1 GAAATTTGA-A
*
504913 AAAATTTGAA
1 GAAATTTGAA
504923 GAAATTTGAGA
1 GAAATTTGA-A
*
504934 AAAATTTGAA
1 GAAATTTGAA
*
504944 GAAATTTGAT
1 GAAATTTGAA
504954 GAAA
1 GAAA
504958 AATTATTAGG
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
9 4 0.08
10 26 0.54
11 18 0.38
ACGTcount: A:0.52, C:0.00, G:0.20, T:0.28
Consensus pattern (10 bp):
GAAATTTGAA
Found at i:505069 original size:13 final size:13
Alignment explanation
Indices: 505051--505075 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
505041 TAGTAACCCA
505051 TGTATCGATACAT
1 TGTATCGATACAT
505064 TGTATCGATACA
1 TGTATCGATACA
505076 AAGAACATTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:513293 original size:51 final size:50
Alignment explanation
Indices: 513236--513350 Score: 194
Period size: 51 Copynumber: 2.3 Consensus size: 50
513226 AATTAACTAG
*
513236 ATGTATCGATACATTGAAAAATGTATCCATACATCTAGGTAAAAAAATAGA
1 ATGTATCGATACATTGAAAAATGCATCCATACATCTAGGT-AAAAAATAGA
**
513287 ATGTATCGATACATTGAAAAATGCATTGATACATCTAGGTAAAAAATAGA
1 ATGTATCGATACATTGAAAAATGCATCCATACATCTAGGTAAAAAATAGA
513337 ATGTATCGATACAT
1 ATGTATCGATACAT
513351 GTATTGTTCA
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
50 24 0.39
51 37 0.61
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (50 bp):
ATGTATCGATACATTGAAAAATGCATCCATACATCTAGGTAAAAAATAGA
Found at i:515494 original size:33 final size:33
Alignment explanation
Indices: 515431--515496 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
515421 CAGACCTAGA
*
515431 TGTATCGATACAAATTGCTAAATATGGATACAT
1 TGTATCGATACAAATTGCTAAATATCGATACAT
***
515464 TGTATCGATACAAATTGCTTTGTATCGATACAT
1 TGTATCGATACAAATTGCTAAATATCGATACAT
515497 GAAACTGGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (33 bp):
TGTATCGATACAAATTGCTAAATATCGATACAT
Found at i:516091 original size:34 final size:34
Alignment explanation
Indices: 516015--516148 Score: 155
Period size: 34 Copynumber: 3.9 Consensus size: 34
516005 AGTAACTGAA
*
516015 AGGTTCTATCTTAGCCTTTGAAAAAGATAGAGG-AG
1 AGGTTCTATCTTAGCTTTTG-AAAAGATAG-GGAAG
*
516050 AGTTTCTATCTTAGCTTTTGAAAAGATAGGGAAG
1 AGGTTCTATCTTAGCTTTTGAAAAGATAGGGAAG
* ** *
516084 AGGTTCTATCCTAGCTTAGGAAAAAATA-GGAAG
1 AGGTTCTATCTTAGCTTTTGAAAAGATAGGGAAG
* *
516117 AAAGTTCTATCTTAGCTTGTGAAAAGATAGGG
1 -AGGTTCTATCTTAGCTTTTGAAAAGATAGGG
516149 TTGTAAGGTT
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
33 7 0.08
34 57 0.68
35 20 0.24
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (34 bp):
AGGTTCTATCTTAGCTTTTGAAAAGATAGGGAAG
Found at i:516821 original size:155 final size:159
Alignment explanation
Indices: 516400--516821 Score: 522
Period size: 155 Copynumber: 2.7 Consensus size: 159
516390 CTAAAAAATG
* * *
516400 TGAATTAAATAACAATATTTGATGAATTTTAAAAATTAAAACCAAGAAAAAT--TCGCAAAAACA
1 TGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAACCAAGAAAAATCCCCCCAAAAACA
* * * * * * *
516463 TTTACGAAGTAGAAAACTTTGTATTTCAAAAACATGAGAATTTCAAGGAAAAAATAAAAAAGGAT
66 TTTACGGAGTAGAAAACTCTGTATTTCGAAAATA-AAAAATTTCAAGAAAAAAATAAAAAA-GAT
*
516528 GAAAATAAAGAAATTTTTGAAAATTGATTTACTA
129 G-AAAT--AGAAATTTTTGAAAATTAATTTACTA
* *
516562 TGAATTAAATACTAATATTTTATGAATTTTAAAAATTAAAAGCCAAGAAAAATCCCCTCC-AAAA
1 TGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAA-CCAAGAAAAATCCCC-CCAAAAA
* *
516626 CATTTAC-GA-TGAGAAAACTCTGTATTTCGAAAATGGAAAAATTTCAAGAAAAAAAT-GAAAA-
64 CATTTACGGAGT-AGAAAACTCTGTATTTCGAAAAT-AAAAAATTTCAAGAAAAAAATAAAAAAG
*
516687 ATG-AAT-G-AATTTTTTAAAATTAATTTACTA
127 ATGAAATAGAAATTTTTGAAAATTAATTTACTA
516717 TGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAGAACCAAGAAAAATCCCCCCAAAAAC
1 TGAATTAAATAATAATATTTGATGAATTTTAAAAATTAA-AACCAAGAAAAATCCCCCCAAAAAC
* *
516782 ATTTACGGAGTAAAAAACTCTATATTTCGAAAATAAAAAA
65 ATTTACGGAGTAGAAAACTCTGTATTTCGAAAATAAAAAA
516822 AATTTTAAGG
Statistics
Matches: 229, Mismatches: 21, Indels: 27
0.83 0.08 0.10
Matches are distributed among these distances:
154 2 0.01
155 89 0.39
156 26 0.11
157 1 0.00
159 3 0.01
161 3 0.01
162 38 0.17
163 16 0.07
164 38 0.17
165 12 0.05
166 1 0.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (159 bp):
TGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAACCAAGAAAAATCCCCCCAAAAACA
TTTACGGAGTAGAAAACTCTGTATTTCGAAAATAAAAAATTTCAAGAAAAAAATAAAAAAGATGA
AATAGAAATTTTTGAAAATTAATTTACTA
Found at i:519386 original size:155 final size:154
Alignment explanation
Indices: 518435--519405 Score: 452
Period size: 155 Copynumber: 6.2 Consensus size: 154
518425 TAAGTTCAAG
* * * * *
518435 AAAATTA-CAAAAATGCCTCTAGGGGATGCCTTCGATGT-AGAAGTA-CCT-GATACCCCTAAAG
1 AAAATTATC-AAAATGCCT-TATGGGATACCTTCGACGTGA-AAGTATCCTAG-TAACCCTAAAA
* * * * * ** *
518496 GACTTAAAAAGGACTATAA-AAGGGATGAAGCTCTCCTAAATACCCACCTTCAACATAAAAGCGA
62 GACTTAAAAA-GA-TATAAGATGAGATAAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAA
* * * * *
518560 ACCCGGTGATAACCTAGGACTCGATTCTAA
125 ACTCGGTGACAACCTAGGACTTGGTTCTGA
* * * * * * ** * *
518590 AAAATT-TCGAAAATACCCCTAGGGGACACATTC-AGCGTGAAAGGA-CCCGGTACCCCTAAAGG
1 AAAATTATC-AAAAT-GCCTTATGGGATACCTTCGA-CGTGAAAGTATCCTAGTAACCCTAAAAG
* * * * *
518652 A-TTAAAAAAAGACATAGCCAAGATGGGATGAACCTATCCTAAATACCTACCTTCGGCA-AGAAG
63 ACTT--AAAAAG--ATA--TAAGATGAGATAAACCTATCCTAAATACCCACCTTCGGCATAAAAG
*** * * * * * * *
518715 TGGACCCGATGGCAACATTGGACTCGGTTCTAA
122 CAAACTCGGTGACAACCTAGGACTTGGTTCTGA
* * * *
518748 AAAATTATGAAAAAGCCTCTATGGGTATACCTTCGATGTGAAATTATCCTCA-TAACCCT-AAAG
1 AAAATTATCAAAATGCCT-TATGGG-ATACCTTCGACGTGAAAGTATCCT-AGTAACCCTAAAAG
* *
518811 AACTTAAAAAGAT-TAAGGAT-AGGACAAACCTATCCTAAATACCCACCTTC-G-ATATAAAGTA
63 -ACTTAAAAAGATATAA-GATGA-GATAAACCTATCCTAAATACCCACCTTCGGCATA-AAAGCA
* ** * * * * *
518872 GACAAGGTGATAACTTAGGAGTTAGTT-TTA
124 AACTCGGTGACAACCTAGGACTTGGTTCTGA
** * * * * * * *
518902 GAAAATTATGGAAATGCTTTATGCGATACCTTTGACGTAAAAGTA--CTCG-ATACCTTTAAAAA
1 -AAAATTATCAAAATGCCTTATGGGATACCTTCGACGTGAAAGTATCCTAGTA-ACC-CTAAAAG
* * * * * **
518964 ACTT-AAAAGCTACTATAAAAAG-GATGAACCTATCATAAATACCCACCTTCAGCATAAAAGCGG
63 ACTTAAAAAG--A-TATAAGATGAGATAAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAA
* * * *
519027 ACCCGGTGATAACCTAAGACTTGGTTTTGA
125 ACTCGGTGACAACCTAGGACTTGGTTCTGA
* * * * * * * *
519057 AAAATTA-CAAAAATACCTCTAAGGGACAACTTCGACATGAAAGTATCCTGGTACCCCTAAAGGA
1 AAAATTATC-AAAATGCCT-TATGGGATACCTTCGACGTGAAAGTATCCTAGTAACCCTAAAAGA
* * *
519121 CTTAAAAATGATATAGCTAAGATGTA-ATAAACCCATCCTAAATACCTACCTTTGGCATAAAAGC
64 CTTAAAAA-G--ATA--TAAGATG-AGATAAACCTATCCTAAATACCCACCTTCGGCATAAAAGC
* * * * * *
519185 GAA-TCTGGTGGCAACTTATGACTCGATTCT-A
123 AAACTC-GGTGACAACCTAGGACTTGGTTCTGA
* *
519216 AGATATTA-CAAAAATGCCCTTATGGGTATACCTTTGACGTGAAAGTATCCTAGTAACCCTAAAA
1 A-AAATTATC-AAAATG-CCTTATGGG-ATACCTTCGACGTGAAAGTATCCTAGTAACCCTAAAA
*
519280 GACTTAAAAAGAT-TAGAGATGAGATAAACCTAT-CTAAATACCCACCTTCGGCATAAAAACAAA
62 GACTTAAAAAGATATA-AGATGAGATAAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAAA
* *
519343 CTCGGTGACGACCTAGGAGTTGGTTCTGA
126 CTCGGTGACAACCTAGGACTTGGTTCTGA
*
519372 AAAATTATCAAAATGCCCTTAAGGGATACCTTCG
1 AAAATTATCAAAATG-CCTTATGGGATACCTTCG
519406 GTGCAAAAGT
Statistics
Matches: 618, Mismatches: 141, Indels: 115
0.71 0.16 0.13
Matches are distributed among these distances:
150 1 0.00
151 10 0.02
152 5 0.01
153 46 0.07
154 63 0.10
155 202 0.33
156 38 0.06
157 16 0.03
158 52 0.08
159 61 0.10
160 79 0.13
161 45 0.07
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.24
Consensus pattern (154 bp):
AAAATTATCAAAATGCCTTATGGGATACCTTCGACGTGAAAGTATCCTAGTAACCCTAAAAGACT
TAAAAAGATATAAGATGAGATAAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAAACTCGG
TGACAACCTAGGACTTGGTTCTGA
Found at i:521031 original size:12 final size:12
Alignment explanation
Indices: 521008--521047 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
520998 AATCCTACAA
521008 TTTTTCTATTCTT
1 TTTTTCT-TTCTT
521021 TTTTTCTTTCTT
1 TTTTTCTTTCTT
*
521033 TTTTTCTCTCTT
1 TTTTTCTTTCTT
521045 TTT
1 TTT
521048 CTCTCTCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 19 0.73
13 7 0.27
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTCTTTCTT
Found at i:521052 original size:12 final size:12
Alignment explanation
Indices: 521008--521055 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
520998 AATCCTACAA
*
521008 TTTTTCTAT-TC
1 TTTTTCTCTCTC
* *
521019 TTTTTTTCTTTC
1 TTTTTCTCTCTC
*
521031 TTTTTTTCTCTC
1 TTTTTCTCTCTC
521043 TTTTTCTCTCTC
1 TTTTTCTCTCTC
521055 T
1 T
521056 AAGTTTCTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
11 7 0.22
12 25 0.78
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTTCTCTCTC
Found at i:521888 original size:166 final size:165
Alignment explanation
Indices: 521579--521921 Score: 372
Period size: 166 Copynumber: 2.1 Consensus size: 165
521569 GGGAGTTTTG
* ** * *
521579 TAATAATATTAGATGAATTTTAAAAATTTAAAACTGAGAAAAATCCTTCCTAAATTATTTATGGG
1 TAATAATATTTGATGAATTTTAAAAATTTAAAACCAAGAAAAATCCTTCCTAAAATATTTATGGA
** * ** * * * * * *
521644 GTAGAAACTTCAGTTTTTTTGAAAATAGGGAGATTTTGAAGAAAAATTCAACACTCATGAAAATT
66 GTAGAAACGCCAG-TATTTCAAAAATAGAGAGAATTTCAAAAAAAAATCAAAACTCATGAAAATT
* * *
521709 AATTAATTTTTCAAAATTGATTTAAT-ATGAATTAAA
130 AATAAAATTTTCAAAACTGATTTAATGATG-ATTAAA
* * *
521745 TAATAATATTTGATGAATTTTAAAAATTTAAAACCAAGAAAATTTC-TCTTGAAAATATTTATGG
1 TAATAATATTTGATGAATTTTAAAAATTTAAAACCAAGAAAAATCCTTCCT-AAAATATTTATGG
521809 AGTAGAGAACGCCA-TATTTCAAAAATAGAGAGAATTTCAAAAAAAAATCAATAACTCAT-AAAA
65 AGTAGA-AACGCCAGTATTTCAAAAATAGAGAGAATTTCAAAAAAAAATCAA-AACTCATGAAAA
*
521872 -TAGATGAAAATTTTCAAAACTGATTTAATGGTGATTAAA
128 TTA-AT-AAAATTTTCAAAACTGATTTAATGATGATTAAA
*
521911 TGATAATATTT
1 TAATAATATTT
521922 AAGAAATTTT
Statistics
Matches: 147, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
164 2 0.01
165 38 0.26
166 100 0.68
167 7 0.05
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.35
Consensus pattern (165 bp):
TAATAATATTTGATGAATTTTAAAAATTTAAAACCAAGAAAAATCCTTCCTAAAATATTTATGGA
GTAGAAACGCCAGTATTTCAAAAATAGAGAGAATTTCAAAAAAAAATCAAAACTCATGAAAATTA
ATAAAATTTTCAAAACTGATTTAATGATGATTAAA
Found at i:523070 original size:85 final size:84
Alignment explanation
Indices: 522956--523131 Score: 262
Period size: 85 Copynumber: 2.1 Consensus size: 84
522946 AAGGGCTTGA
* * * *
522956 GACTAAATCGACAGGTAGATGAAAGATGCAAAGGTTGACTTAGGTTAGACTAACATGCCAACAAA
1 GACTAAGTCGACAGGTAGATGAAAGATGCAAAGGTTGACTTACGTTAAACTAACAAGCCAACAAA
* *
523021 GGATAAAAAGATTTACCTGG
66 -GATAAAAAAATTTACCCGG
* * *
523041 GACTAAGTCGATAGGTAGATGAAAGATGCAATGGTTGACTTACGTTAAACTGACAAGCCAACAAA
1 GACTAAGTCGACAGGTAGATGAAAGATGCAAAGGTTGACTTACGTTAAACTAACAAGCCAACAAA
523106 GATAAAAAAATTTACCCGG
66 GATAAAAAAATTTACCCGG
523125 GACTAAG
1 GACTAAG
523132 CCAGCAAGTA
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
84 24 0.29
85 58 0.71
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (84 bp):
GACTAAGTCGACAGGTAGATGAAAGATGCAAAGGTTGACTTACGTTAAACTAACAAGCCAACAAA
GATAAAAAAATTTACCCGG
Found at i:523258 original size:83 final size:83
Alignment explanation
Indices: 523126--523287 Score: 184
Period size: 83 Copynumber: 2.0 Consensus size: 83
523116 TTTACCCGGG
* * * ** * * * * *
523126 ACTAAGCCAGCAAGTAAACAAAGGATGAAAAATTGATTGGGATTGAACTAATGAA-TTACCAATG
1 ACTAAACCAACAAGTAAACAAAGGATGAAAAATTAATCAGGACTAAACTAA-CAAGTTAACAAAG
523190 GATAAAAGAGTTACTTGGA
65 GATAAAAGAGTTACTTGGA
*
523209 ACTAAACCAACAAGTAAACAAGGGAT-AAAAAGTTAATCAGGACTAAACTAACAAGTTAACAAAG
1 ACTAAACCAACAAGTAAACAAAGGATGAAAAA-TTAATCAGGACTAAACTAACAAGTTAACAAAG
*
523273 GATAAAAGATTTACT
65 GATAAAAGAGTTACT
523288 CAAGATTAAG
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
82 7 0.11
83 58 0.89
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (83 bp):
ACTAAACCAACAAGTAAACAAAGGATGAAAAATTAATCAGGACTAAACTAACAAGTTAACAAAGG
ATAAAAGAGTTACTTGGA
Found at i:523957 original size:20 final size:20
Alignment explanation
Indices: 523911--523964 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
523901 CTACCACTGT
*
523911 TTGTATCGATACATGGTACA
1 TTGTATCGATACATGATACA
*
523931 TTATATCGATACATGATGA-A
1 TTGTATCGATACATGAT-ACA
*
523951 TTGTATCAATACAT
1 TTGTATCGATACAT
523965 TACTTCTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATACA
Found at i:531852 original size:19 final size:19
Alignment explanation
Indices: 531809--531881 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
531799 AACCCTTGAA
*
531809 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
531829 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
531848 TGTATCGATACATGGACAAT
1 TGTATCGATACATGTTC-AT
531868 TGTATCGATACATG
1 TGTATCGATACATG
531882 AAACTGGCAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 17 0.35
20 30 0.62
21 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:531923 original size:63 final size:63
Alignment explanation
Indices: 531847--532006 Score: 261
Period size: 63 Copynumber: 2.5 Consensus size: 63
531837 TACATGTTCA
* *
531847 TTGTATCGATACATGGACAATTGTATCGATACATGAAACTGGC-AGTAGCTATCTTATCACTGT
1 TTGTATCGATACATGGACAATTGTATCGATACATCAAACTGGCTA-TAGCTATCTTACCACTGT
*
531910 TTGTATTGATACATGGACAATTGTATCGATACATCAAACTGGCTATAGCTATCTTACCACTGT
1 TTGTATCGATACATGGACAATTGTATCGATACATCAAACTGGCTATAGCTATCTTACCACTGT
531973 TTGTATCGATACATGGTAC-ATTGTATCGATACAT
1 TTGTATCGATACATGG-ACAATTGTATCGATACAT
532007 AATGAATTGT
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
63 88 0.97
64 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (63 bp):
TTGTATCGATACATGGACAATTGTATCGATACATCAAACTGGCTATAGCTATCTTACCACTGT
Found at i:532015 original size:20 final size:20
Alignment explanation
Indices: 531973--532026 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
531963 TTACCACTGT
**
531973 TTGTATCGATACATGGTACA
1 TTGTATCGATACATAATACA
531993 TTGTATCGATACATAATGA-A
1 TTGTATCGATACATAAT-ACA
*
532013 TTGTATTGATACAT
1 TTGTATCGATACAT
532027 TGCTTCCAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATAATACA
Found at i:533187 original size:167 final size:168
Alignment explanation
Indices: 532809--533422 Score: 474
Period size: 168 Copynumber: 3.7 Consensus size: 168
532799 CGATAGGTAG
* * * * *
532809 ACAAAAGATGAAGAAGTCTCCTAGGTGTGAA-TCGAC-GAGAAAACAAAAGATGAAAAAGTCTCC
1 ACAAAAGATGAAGAAGTCTCCTAGGTCT-AAGCCAACAG-GCAGACAAAAGATGAAAAAGTCTCC
* * * *
532872 CAAGTTTGAGTTGACAGGCAGATAAAAGATGAAGAAGTCTCCCGAGTCTAAGATGACAGGCAGAC
64 TAAGTTTGAGCTGACAGGCAGATAAAAGATGAAGAAGTCTCCCAAATCTAAGATGACAGGCAGAC
* ****
532937 AAAAGGTGAAGAAGTCTATTGGGTCTAAGTTGACGGACAA
129 AAAAGATGAAGAAGTCTACCAAGTCTAAGTTGACGGACAA
* * **
532977 ATAAAAGATGAAGAAGTCTCCTGGGTCTAAGCCAATGGGCAGACAAAAGATGAAAAAGTCTCCTA
1 ACAAAAGATGAAGAAGTCTCCTAGGTCTAAGCCAACAGGCAGACAAAAGATGAAAAAGTCTCCTA
* * * * ** *
533042 AGTTTGAGCTGACTGGCAGATAAAAGAT-ATGAAGTCTCCCAAATTTAAGCTGATGGGTAGACAA
66 AGTTTGAGCTGACAGGCAGATAAAAGATGAAGAAGTCTCCCAAATCTAAGATGACAGGCAGACAA
* * * *
533106 AAGATGAAGAAGTCTCCCAAGTCTGAGTTGAC-GAGTAG
131 AAGATGAAGAAGTCTACCAAGTCTAAGTTGACGGA-CAA
* * *
533144 ACAAAAGATGAAGAAGTCTCGTAGGTCTATGCCAACAGGCAGACAAAAGATAGAGAAA-TCTCCT
1 ACAAAAGATGAAGAAGTCTCCTAGGTCTAAGCCAACAGGCAGACAAAAGAT-GAAAAAGTCTCCT
* * * * * * * * * ** * *
533208 GAGTCTAAG-TCGACTGGCAAACATAAGATAGAA-AAGCCTCCCAAGTCCGAG-TCA-ACGAGTA
65 AAGTTTGAGCT-GACAGGCAGATAAAAGAT-GAAGAAGTCTCCCAAATCTAAGATGACA-G-GCA
* * *** * **
533269 AACAAAAGATGAAAAAGTCT-CTTGGGTCTAAGCTGATAGACAA
126 GACAAAAGATGAAGAAGTCTAC-CAAGTCTAAGTTGACGGACAA
* * * ** * *
533312 ATAAAAGATGAAGAAGTCTCCTAGGTCTAAGTCGATGGGCAGACAAAAGATGAAGAAGTCTCCCA
1 ACAAAAGATGAAGAAGTCTCCTAGGTCTAAGCCAACAGGCAGACAAAAGATGAAAAAGTCTCCTA
* * * * * * *
533377 GGTCTGAGCCGACTGGTAGACAAAAGATGAAGAAGTCTCCGAAATC
66 AGTTTGAGCTGACAGGCAGATAAAAGATGAAGAAGTCTCCCAAATC
533423 CGAGCCAACG
Statistics
Matches: 353, Mismatches: 79, Indels: 28
0.77 0.17 0.06
Matches are distributed among these distances:
166 3 0.01
167 139 0.39
168 207 0.59
169 4 0.01
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (168 bp):
ACAAAAGATGAAGAAGTCTCCTAGGTCTAAGCCAACAGGCAGACAAAAGATGAAAAAGTCTCCTA
AGTTTGAGCTGACAGGCAGATAAAAGATGAAGAAGTCTCCCAAATCTAAGATGACAGGCAGACAA
AAGATGAAGAAGTCTACCAAGTCTAAGTTGACGGACAA
Found at i:533327 original size:168 final size:167
Alignment explanation
Indices: 532933--533625 Score: 549
Period size: 168 Copynumber: 4.1 Consensus size: 167
532923 GATGACAGGC
* * * * ** ** *
532933 AGACAAAAGGTGAAGAAGTCTATTGGGTCTAAGTTGACGGACAAATAAAAGATGAAGAAGTCTCC
1 AGACAAAAGATGAAAAAGTCTCTCGGGTCTAAGTCAATAGACAAACAAAAGATGAAGAAGTCTCC
* * * * * * *
532998 TGGGTCTAAGCCAATGGGCAGACAAAAGAT-GAAAAAGTCTCCTAAGTTTGAG-CTGACTGGCAG
66 TAGGTCTAAGTCAACGGGCAGACAAAAGATAG-AGAAGTCTCC-GAGTCTGAGTC-GACTGGCAA
* * *** * * *
533061 ATAAAAGATATG--AAGTCTCCCAAATTTAAG-CTGATGGGT
128 ACAAAAGATA-GAAAAGCCTCCCAAATCCGAGTC-AACGAGT
* * ** * ** * * *
533100 AGACAAAAGATGAAGAAGTCTCCCAAGTCTGAGTTGA-CGAGTAGACAAAAGATGAAGAAGTCTC
1 AGACAAAAGATGAAAAAGTCTCTCGGGTCTAAGTCAATAGA-CAAACAAAAGATGAAGAAGTCTC
* * * * * *
533164 GTAGGTCTATGCCAACAGGCAGACAAAAGATAGAGAAATCTCCTGAGTCTAAGTCGACTGGCAAA
65 CTAGGTCTAAGTCAACGGGCAGACAAAAGATAGAGAAGTCTCC-GAGTCTGAGTCGACTGGCAAA
* *
533229 CATAAGATAGAAAAGCCTCCCAAGTCCGAGTCAACGAGT
129 CAAAAGATAGAAAAGCCTCCCAAATCCGAGTCAACGAGT
* * * *
533268 AAACAAAAGATGAAAAAGTCTCTTGGGTCTAAG-CTGATAGACAAATAAAAGATGAAGAAGTCTC
1 AGACAAAAGATGAAAAAGTCTCTCGGGTCTAAGTC-AATAGACAAACAAAAGATGAAGAAGTCTC
* * * * * *
533332 CTAGGTCTAAGTCGATGGGCAGACAAAAGAT-GAAGAAGTCTCCCAGGTCTGAGCCGACTGGTAG
65 CTAGGTCTAAGTCAACGGGCAGACAAAAGATAG-AGAAGTCTCCGA-GTCTGAGTCGACTGGCAA
* * * *
533396 ACAAAAGAT-GAAGAAGTCTCCGAAATCCGAGCCAACGAAT
128 ACAAAAGATAGAA-AAGCCTCCCAAATCCGAGTCAACGAGT
* * * * ** * *
533436 AGACGAATGATGAAAAAGTCTCTCGGGTCTGAGTCAATGGGTAAACAAAAGATGAAAAAGTCTCT
1 AGACAAAAGATGAAAAAGTCTCTCGGGTCTAAGTCAATAGACAAACAAAAGATGAAGAAGTCTCC
* * * *
533501 TCGATCTAAGTCAACGGGCAAATAAAAGATAGAGAAGTCTCCCGAGTCTGAGTCGACTGGCAAAC
66 TAGGTCTAAGTCAACGGGCAGACAAAAGATAGAGAAGTCT-CCGAGTCTGAGTCGACTGGCAAAC
* * * * *
533566 AAAAGATAGAGAAGCCTCTCAAATCTGAGTCGACGGGT
130 AAAAGATAGAAAAGCCTCCCAAATCCGAGTCAACGAGT
*
533604 AGATAAAAGATGAAAAAGTCTC
1 AGACAAAAGATGAAAAAGTCTC
533626 CTGAGTCTGA
Statistics
Matches: 415, Mismatches: 96, Indels: 29
0.77 0.18 0.05
Matches are distributed among these distances:
166 3 0.01
167 112 0.27
168 290 0.70
169 10 0.02
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (167 bp):
AGACAAAAGATGAAAAAGTCTCTCGGGTCTAAGTCAATAGACAAACAAAAGATGAAGAAGTCTCC
TAGGTCTAAGTCAACGGGCAGACAAAAGATAGAGAAGTCTCCGAGTCTGAGTCGACTGGCAAACA
AAAGATAGAAAAGCCTCCCAAATCCGAGTCAACGAGT
Found at i:534070 original size:42 final size:42
Alignment explanation
Indices: 532769--534075 Score: 422
Period size: 42 Copynumber: 31.1 Consensus size: 42
532759 GAGCTTTCAT
* * * * * *
532769 AAAAGATAAAAAAGTCTCTCGGGTTTTAGCCGATAGGTAGAC
1 AAAAGATGAAGAAGTCTCTCGAGTCTGAGCCGATGGGTAGAC
* * ** * * * *
532811 AAAAGATGAAGAAGTCTC-CTAGGTGTGAATCGACGAGAAAAC
1 AAAAGATGAAGAAGTCTCTCGA-GTCTGAGCCGATGGGTAGAC
* * * * ** ** * *
532853 AAAAGATGAAAAAGTCTCCCAAGTTTGAGTTGACAGGCAGAT
1 AAAAGATGAAGAAGTCTCTCGAGTCTGAGCCGATGGGTAGAC
* * ** ** *
532895 AAAAGATGAAGAAGTCTCCCGAGTCTAAGATGACAGGCAGAC
1 AAAAGATGAAGAAGTCTCTCGAGTCTGAGCCGATGGGTAGAC
* * * * * ** * ** * *
532937 AAAAGGTGAAGAAGTCTATTGGGTCTAAGTTGACGGACAAAT
1 AAAAGATGAAGAAGTCTCTCGAGTCTGAGCCGATGGGTAGAC
* * * *
532979 AAAAGATGAAGAAGTCTC-CTGGGTCTAAGCCAATGGGCAGAC
1 AAAAGATGAAGAAGTCTCTC-GAGTCTGAGCCGATGGGTAGAC
* * * * * *
533021 AAAAGATGAAAAAGTCTC-CTAAGTTTGAGCTGACT-GGCAGAT
1 AAAAGATGAAGAAGTCTCTC-GAGTCTGAGCCGA-TGGGTAGAC
* * * * * * *
533063 AAAAGAT-ATGAAGTCTCCCAAATTTAAGCTGATGGGTAGAC
1 AAAAGATGAAGAAGTCTCTCGAGTCTGAGCCGATGGGTAGAC
* * ** * *
533104 AAAAGATGAAGAAGTCTCCCAAGTCTGAGTTGACGAGTAGAC
1 AAAAGATGAAGAAGTCTCTCGAGTCTGAGCCGATGGGTAGAC
* * ** *
533146 AAAAGATGAAGAAGTCTCGTAG-GTCT-ATGCCAACAGGCAGAC
1 AAAAGATGAAGAAGTCTC-TCGAGTCTGA-GCCGATGGGTAGAC
* * * * *
533188 AAAAGAT-AGAGAAATCTC-CTGAGTCTAAGTCGACT-GGCAAAC
1 AAAAGATGA-AGAAGTCTCTC-GAGTCTGAGCCGA-TGGGTAGAC
* * * * * * * * * *
533230 ATAAGATAGAA-AAGCCTCCCAAGTCCGAGTCAACGAGTAAAC
1 AAAAGAT-GAAGAAGTCTCTCGAGTCTGAGCCGATGGGTAGAC
* * * * * * ** * *
533272 AAAAGATGAAAAAGTCTCTTGGGTCTAAGCTGATAGACAAAT
1 AAAAGATGAAGAAGTCTCTCGAGTCTGAGCCGATGGGTAGAC
* * * *
533314 AAAAGATGAAGAAGTCTC-CTAGGTCTAAGTCGATGGGCAGAC
1 AAAAGATGAAGAAGTCTCTCGA-GTCTGAGCCGATGGGTAGAC
*
533356 AAAAGATGAAGAAGTCTC-CCAGGTCTGAGCCGACT-GGTAGAC
1 AAAAGATGAAGAAGTCTCTCGA-GTCTGAGCCGA-TGGGTAGAC
* * * * **
533398 AAAAGATGAAGAAGTCTC-CGAAATCCGAGCCAACGAATAGAC
1 AAAAGATGAAGAAGTCTCTCG-AGTCTGAGCCGATGGGTAGAC
* * * * * * *
533440 GAATGATGAAAAAGTCTCTCGGGTCTGAGTCAATGGGTAAAC
1 AAAAGATGAAGAAGTCTCTCGAGTCTGAGCCGATGGGTAGAC
* * * * * * * *
533482 AAAAGATGAAAAAGTCTCTTCGA-TCTAAGTCAACGGGCAAAT
1 AAAAGATGAAGAAGTCTC-TCGAGTCTGAGCCGATGGGTAGAC
* * * *
533524 AAAAGAT-AGAGAAGTCTCCCGAGTCTGAGTCGACT-GGCAAAC
1 AAAAGATGA-AGAAGTCTCTCGAGTCTGAGCCGA-TGGGTAGAC
* * * * * *
533566 AAAAGAT-AGAGAAGCCTCTCAAATCTGAGTCGACGGGTAGAT
1 AAAAGATGA-AGAAGTCTCTCGAGTCTGAGCCGATGGGTAGAC
* * * * *
533608 AAAAGATGAAAAAGTCTC-CTGAGTCTGAACCAACT-GGCAAAC
1 AAAAGATGAAGAAGTCTCTC-GAGTCTGAGCCGA-TGGGTAGAC
* ** *
533650 AAAAGATAAAGAAACCTC-CTGAGTCTGAGCCGATTGGTAGAC
1 AAAAGATGAAGAAGTCTCTC-GAGTCTGAGCCGATGGGTAGAC
* * * * *** * *
533692 AAAAGATGAAAAAGTCT-TCTAGGTCTAAACCGACAAGCAGAA
1 AAAAGATGAAGAAGTCTCTCGA-GTCTGAGCCGATGGGTAGAC
* * ** * * * *
533734 AAAAGATGAAGAAGTCT-TCCGGGTCTAAGCTAACGAGCAGAT
1 AAAAGATGAAGAAGTCTCT-CGAGTCTGAGCCGATGGGTAGAC
* * * * * * **
533776 AAAAAATAAAAAAGTCTCCCGAGTATGAGCCCACAGGTAGAC
1 AAAAGATGAAGAAGTCTCTCGAGTCTGAGCCGATGGGTAGAC
* * * * * * *
533818 AAAAGATGAAGAAGTCTC-CTAGGTCGGAGCTGACGAGAAGAT
1 AAAAGATGAAGAAGTCTCTCGA-GTCTGAGCCGATGGGTAGAC
* **
533860 AAAAGATGAAGAAGTCTCTCAAGTCTGAGTGGATGGGTAGAC
1 AAAAGATGAAGAAGTCTCTCGAGTCTGAGCCGATGGGTAGAC
* * * * *
533902 AAAAAATGAAGAAGTCTCCCGAGTCT-AACCTGACGAGTAGAC
1 AAAAGATGAAGAAGTCTCTCGAGTCTGAGCC-GATGGGTAGAC
* * ** *
533944 AAAAGATGAAGAAGTCTCATAG-GTTTGAGCTAACGGGTAGAC
1 AAAAGATGAAGAAGTCTC-TCGAGTCTGAGCCGATGGGTAGAC
* * * *
533986 AAAAGATGAAGAAGTCTCCTGGA-TCTGA-ACTATCAGGTAGAC
1 AAAAGATGAAGAAGTCT-CTCGAGTCTGAGCCGAT-GGGTAGAC
* * *
534028 AAAAGATGAAGAAATCTCTCGAGTATGAGCCGATGGGCAGAC
1 AAAAGATGAAGAAGTCTCTCGAGTCTGAGCCGATGGGTAGAC
534070 AAAAGA
1 AAAAGA
534076 AGTTTGGAGT
Statistics
Matches: 951, Mismatches: 267, Indels: 94
0.72 0.20 0.07
Matches are distributed among these distances:
40 1 0.00
41 53 0.06
42 872 0.92
43 24 0.03
44 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.19
Consensus pattern (42 bp):
AAAAGATGAAGAAGTCTCTCGAGTCTGAGCCGATGGGTAGAC
Found at i:534984 original size:20 final size:20
Alignment explanation
Indices: 534959--534996 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
534949 ATTCTGGGTT
534959 TTAATGTATAGATGCATTTC
1 TTAATGTATAGATGCATTTC
*
534979 TTAATGTATCGATGCATT
1 TTAATGTATAGATGCATT
534997 CAGGCGTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.45
Consensus pattern (20 bp):
TTAATGTATAGATGCATTTC
Found at i:537472 original size:79 final size:78
Alignment explanation
Indices: 537389--537596 Score: 249
Period size: 79 Copynumber: 2.6 Consensus size: 78
537379 GGGATATTTT
* *
537389 AACCCCGTTATTTTTGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATCAACCTTTT-AC
1 AACCCCATTATTTTTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATC--CCTTTTCAC
*
537453 CATCGAGGATACTCC
64 CATCGAGGACACTCC
* ** * **
537468 AACCCCATAATTTTCT-AGGGGATACTCCAACCCCATTTTTAATTCTAAAATATCGTTTTTCCAC
1 AACCCCATTATTTT-TGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATCCCTTTT-CAC
* * *
537532 CATTGGGGACACTCT
64 CATCGAGGACACTCC
*
537547 AACCCCATTATTTTAGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
1 AACCCCATTATTTTTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
537597 CACTAATTTT
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
77 4 0.04
79 103 0.95
80 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (78 bp):
AACCCCATTATTTTTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATCCCTTTTCACCA
TCGAGGACACTCC
Found at i:537627 original size:51 final size:51
Alignment explanation
Indices: 537564--537680 Score: 148
Period size: 50 Copynumber: 2.3 Consensus size: 51
537554 TTATTTTAGA
* * *
537564 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCATTATC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACTATC
* * * *
537615 GGGGATGCTCCAA-CCTGATTTTATTTCTAAAACACCCATTTTTCACTATC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACTATC
537665 GGAGG-TACTCCAACCC
1 GG-GGATACTCCAACCC
537681 TATTATTTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
50 40 0.71
51 16 0.29
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACTATC
Found at i:537834 original size:157 final size:156
Alignment explanation
Indices: 537615--537897 Score: 390
Period size: 157 Copynumber: 1.8 Consensus size: 156
537605 TTCCATTATC
* * *
537615 GGGGATGCTCCAACCTGATTTTATTTCTAAAACACCCATTTTTCACTATCGGAGGTACTCCAACC
1 GGGGATACTCCAACCTGATTTTATTGCTAAAACACCCATTTTTCACCATCGGAGGTACTCCAACC
* * * * *
537680 -CTATTATTTTCAAGGGGGTACTCCAACCCTGCTTTTATTTCTAAAACATCGATTTTCCATCATC
66 TC-ATTATTTTCAAGAGGATACTCCAACCCTACTTTTATCTCTAAAACATCAATTTT-CATCATC
537744 GGGGATACTCCAACTACGTTATTTTTGA
129 GGGGATACTCCAACTACGTTATTTTTGA
* * *
537772 GGGGATACTCCAACCCTGATTTTATTGCTAAAACACCGA-TTTTCACCATCGGGGGTATTCCAAC
1 GGGGATACTCCAA-CCTGATTTTATTGCTAAAACACCCATTTTTCACCATCGGAGGTACTCCAAC
* * * *
537836 CTCGTTATTTTCAAGAGGATACTCTAACCCTATTTTTATCTCTAAAATATCAATTTTCATCA
65 CTCATTATTTTCAAGAGGATACTCCAACCCTACTTTTATCTCTAAAACATCAATTTTCATCA
537898 GGGAGTGTAC
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
156 5 0.05
157 80 0.73
158 24 0.22
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (156 bp):
GGGGATACTCCAACCTGATTTTATTGCTAAAACACCCATTTTTCACCATCGGAGGTACTCCAACC
TCATTATTTTCAAGAGGATACTCCAACCCTACTTTTATCTCTAAAACATCAATTTTCATCATCGG
GGATACTCCAACTACGTTATTTTTGA
Found at i:537865 original size:78 final size:78
Alignment explanation
Indices: 537615--537882 Score: 310
Period size: 79 Copynumber: 3.4 Consensus size: 78
537605 TTCCATTATC
* * * *
537615 GGGGATGCTCCAA-CCTGATTTTATTTCTAAAACACCCATTTTTCACTATCGGAGGTACTCCAAC
1 GGGGATACTCCAACCCTGATTTTATTTCTAAAACACCGA-TTTTCACCATCGGGGGTACTCCAAC
*
537679 C-CTATTATTTTCAA
65 CTC-GTTATTTTCAA
* * * * *
537693 GGGGGTACTCCAACCCTGCTTTTATTTCTAAAACATCGATTTTCCATCATCGGGGATACTCCAA-
1 GGGGATACTCCAACCCTGATTTTATTTCTAAAACACCGATTTT-CACCATCGGGGGTACTCCAAC
**
537757 CTACGTTATTTTTGA
65 CT-CGTTATTTTCAA
* *
537772 GGGGATACTCCAACCCTGATTTTATTGCTAAAACACCGATTTTCACCATCGGGGGTATTCCAACC
1 GGGGATACTCCAACCCTGATTTTATTTCTAAAACACCGATTTTCACCATCGGGGGTACTCCAACC
537837 TCGTTATTTTCAA
66 TCGTTATTTTCAA
* * *
537850 GAGGATACTCTAACCCT-ATTTTTATCTCTAAAA
1 GGGGATACTCCAACCCTGA-TTTTATTTCTAAAA
537883 TATCAATTTT
Statistics
Matches: 159, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
77 1 0.01
78 70 0.44
79 87 0.55
80 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (78 bp):
GGGGATACTCCAACCCTGATTTTATTTCTAAAACACCGATTTTCACCATCGGGGGTACTCCAACC
TCGTTATTTTCAA
Found at i:537912 original size:78 final size:75
Alignment explanation
Indices: 537615--537914 Score: 250
Period size: 78 Copynumber: 3.8 Consensus size: 75
537605 TTCCATTATC
* * * *
537615 GGGGATGCTCCAA-CCTGATTTTATTTCTAAAACACCCATTTTTCA-CTATCGGAGGTACTCCAA
1 GGGGATACTCCAACCCT-ATTTTA-TTCTAAAACATCGA-TTTTCATC-A-CGGGGGTACTCCAA
*
537678 CC-CTATTATTTTCAA
61 CCTC-GTTATTTTCAA
* * *
537693 GGGGGTACTCCAACCCTGCTTTTATTTCTAAAACATCGATTTTCCATCATCGGGGATACTCCAA-
1 GGGGATACTCCAACCCT-ATTTTA-TTCTAAAACATCGATTTT-CATCA-CGGGGGTACTCCAAC
**
537757 CTACGTTATTTTTGA
62 CT-CGTTATTTTCAA
* * *
537772 GGGGATACTCCAACCCTGATTTTATTGCTAAAACACCGATTTTCACCATCGGGGGTATTCCAACC
1 GGGGATACTCCAACCCT-ATTTTATT-CTAAAACATCGATTTTCATCA-CGGGGGTACTCCAACC
537837 TCGTTATTTTCAA
63 TCGTTATTTTCAA
* * * *
537850 GAGGATACTCTAACCCTATTTTTATCTCTAAAATATCAATTTTCATCA-GGGAGTGTACTCCAAC
1 GGGGATACTCCAACCCTA-TTTTAT-TCTAAAACATCGATTTTCATCACGGG-G-GTACTCCAAC
537914 C
62 C
537915 CCGTACTCCG
Statistics
Matches: 186, Mismatches: 25, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
76 3 0.02
77 2 0.01
78 93 0.50
79 86 0.46
80 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.34
Consensus pattern (75 bp):
GGGGATACTCCAACCCTATTTTATTCTAAAACATCGATTTTCATCACGGGGGTACTCCAACCTCG
TTATTTTCAA
Found at i:540809 original size:31 final size:31
Alignment explanation
Indices: 540760--540818 Score: 77
Period size: 33 Copynumber: 1.9 Consensus size: 31
540750 GTGTAAAAGC
*
540760 AAAAAATGAGAAACACAAGAGAAACAAAAATGA
1 AAAAAATCAGAAACACAAG-GAAA-AAAAATGA
540793 AAAAAATCA-AAA-ACAAGGAAAAAAAA
1 AAAAAATCAGAAACACAAGGAAAAAAAA
540819 CAAAAAGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 5 0.20
30 4 0.16
31 5 0.20
32 3 0.12
33 8 0.32
ACGTcount: A:0.75, C:0.08, G:0.12, T:0.05
Consensus pattern (31 bp):
AAAAAATCAGAAACACAAGGAAAAAAAATGA
Found at i:540836 original size:19 final size:19
Alignment explanation
Indices: 540788--540836 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
540778 GAGAAACAAA
540788 AATGAAAAAAATCAAAAAC
1 AATGAAAAAAATCAAAAAC
* * *
540807 AAGGAAAAAAAACAAAAAG
1 AATGAAAAAAATCAAAAAC
*
540826 AATGAATAAAA
1 AATGAAAAAAA
540837 GGGTAACAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.76, C:0.06, G:0.10, T:0.08
Consensus pattern (19 bp):
AATGAAAAAAATCAAAAAC
Found at i:542714 original size:21 final size:21
Alignment explanation
Indices: 542688--542763 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
542678 CTGCCAAGAA
*
542688 ATGTATTGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
542709 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
542729 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
542750 ATGTATCGATACAT
1 ATGTATCGATACAT
542764 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:542733 original size:20 final size:20
Alignment explanation
Indices: 542708--542781 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
542698 ACATCTTTTT
542708 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
542728 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
542749 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
542769 CATGTATCGATAC
1 CATGTATCGATAC
542782 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:542745 original size:41 final size:41
Alignment explanation
Indices: 542688--542781 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
542678 CTGCCAAGAA
*
542688 ATGTATTGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
542729 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
542770 ATGTATCGATAC
1 ATGTATCGATAC
542782 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Done.