Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009045.1 Hibiscus syriacus cultivar Beakdansim tig00112455_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 72393
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Found at i:442 original size:13 final size:13
Alignment explanation
Indices: 424--452 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
414 ACCACCGTTA
424 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
437 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
450 CGG
1 CGG
453 AGTACGGTGG
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:0.00, C:0.31, G:0.62, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:1034 original size:18 final size:19
Alignment explanation
Indices: 997--1031 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
987 CAATTTAGTC
997 ATTTATTTTATATGTTTTA
1 ATTTATTTTATATGTTTTA
1016 ATTTA-TTTAT-TGTTTT
1 ATTTATTTTATATGTTTT
1032 TAAATATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (19 bp):
ATTTATTTTATATGTTTTA
Found at i:1789 original size:21 final size:22
Alignment explanation
Indices: 1742--1803 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 22
1732 TTTATATATT
* *
1742 TAATTTTTAATTCTTTCTTTTCA
1 TAATTTTTTATT-TTTATTTTCA
1765 -AATTTTTTATTTTTATTTT-A
1 TAATTTTTTATTTTTATTTTCA
*
1785 TAA-TTTATATGTTTTATTT
1 TAATTTTTTAT-TTTTATTT
1804 GCAAGTATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 7 0.21
21 17 0.50
22 10 0.29
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (22 bp):
TAATTTTTTATTTTTATTTTCA
Found at i:1824 original size:12 final size:14
Alignment explanation
Indices: 1797--1829 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
1787 ATTTATATGT
1797 TTTATTTGCAAGTA
1 TTTATTTGCAAGTA
1811 TTTATTT-C-AGTA
1 TTTATTTGCAAGTA
1823 TTTATTT
1 TTTATTT
1830 TTATGTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 1 0.05
14 7 0.37
ACGTcount: A:0.24, C:0.06, G:0.09, T:0.61
Consensus pattern (14 bp):
TTTATTTGCAAGTA
Found at i:12314 original size:1 final size:1
Alignment explanation
Indices: 12308--12351 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
12298 ATTATGCTTG
* * * *
12308 AAAAAAAAAAAAAAAAAAAAAAAAAGAAGAAGAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
12352 GGGGTCAAGG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (1 bp):
A
Found at i:13367 original size:52 final size:52
Alignment explanation
Indices: 13289--14000 Score: 1295
Period size: 52 Copynumber: 13.7 Consensus size: 52
13279 TATGTGCTCA
*
13289 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
13341 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
13393 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
13445 ATAGCATCTTCTGGAAGTGTTTCTTTGAGTTATCTGATCTGATTGGACAGAAC
1 ATAGCATCTTCTGGAAGTG-TTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
13498 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
13550 ATAGCATCTTCTGGAAGTGTTC-TTGAGTTATCTGATCTGGTTGAACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
13601 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
13653 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
13705 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
13757 ATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATCTGGTT-GA-AGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
13807 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
13859 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
* * *
13911 ATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGATGGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
13963 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
14001 CGAAGAAGTG
Statistics
Matches: 640, Mismatches: 16, Indels: 8
0.96 0.02 0.01
Matches are distributed among these distances:
50 47 0.07
51 54 0.08
52 488 0.76
53 51 0.08
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (52 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
Found at i:13910 original size:206 final size:208
Alignment explanation
Indices: 13289--14000 Score: 1340
Period size: 206 Copynumber: 3.4 Consensus size: 208
13279 TATGTGCTCA
13289 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACATAGCATCTTCTG
13354 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
13419 AGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTTCTTTGAGTTATCTGATC
131 AGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTG-TTCTTTGAGTTATCTGATC
13484 TGATTGGACAGAAC
195 TGATTGGACAGAAC
*
13498 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACATAGCATCTTCTG
13563 GAAGTGTTC-TTGAGTTATCTGATCTGGTTGAACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
13627 AGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
131 AGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
13692 GATTGGACAGAAC
196 GATTGGACAGAAC
13705 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACATAGCATCTTCTG
*
13770 GAAGTGTTCTTTGAATTATCTGATCTGGTTG-A-AGAACATAGCATCTTCTGGAAGTGTTCTTTG
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
13833 AGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
131 AGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
*
13898 GGTTGGACAGAAC
196 GATTGGACAGAAC
* *
13911 ATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGATGGGACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACATAGCATCTTCTG
*
13976 GAAGTGTTCTTTGAGTTATTTGATC
66 GAAGTGTTCTTTGAGTTATCTGATC
14001 CGAAGAAGTG
Statistics
Matches: 494, Mismatches: 8, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
206 194 0.39
207 107 0.22
208 120 0.24
209 73 0.15
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (208 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACATAGCATCTTCTG
GAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
AGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
GATTGGACAGAAC
Found at i:14753 original size:113 final size:113
Alignment explanation
Indices: 14559--15788 Score: 2011
Period size: 113 Copynumber: 10.9 Consensus size: 113
14549 GATTCAAATT
* * *
14559 CATCATTTGATGGATCATCATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * *
14624 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATC
* * * *
14672 CATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
14737 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAACC
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATC
14785 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * *
14850 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATC
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATC
* *
14898 CATCATTTGGTGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
14963 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAACC
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATC
15011 CATCA-TTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * *
15075 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATC
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATC
15123 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
15188 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAACC
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATC
15236 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* ***
15301 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATC
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATC
15349 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
15414 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAACC
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATC
* *
15462 CATCATTTGGTGGATTATCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
15527 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATC
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATC
*
15575 CATCATTTGGTGGATCATATTTTCCAGAGAAAGTTC---AT-AGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * *** * *
15636 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC-CTTTTACCTGAATC
* * * ** *
15685 CATCATTTGATGGATCAACATGGCCAAAGAAAGTTCATGAATGAGAAGAACTCATCTGAAGAAGG
1 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGAAGAAGG
**
15750 AAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
65 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTT
15789 GTTTGATATC
Statistics
Matches: 1047, Mismatches: 63, Indels: 13
0.93 0.06 0.01
Matches are distributed among these distances:
109 56 0.05
110 39 0.04
112 106 0.10
113 785 0.75
114 5 0.00
115 56 0.05
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (113 bp):
CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATC
Found at i:15411 original size:451 final size:452
Alignment explanation
Indices: 14559--15794 Score: 2124
Period size: 451 Copynumber: 2.7 Consensus size: 452
14549 GATTCAAATT
* * *
14559 CATCATTTGATGGATCATCATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * *
14624 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCA
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATCCATCATTTGGTGGATCA
* *
14689 ACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
131 TCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
14754 AGAAGAATTTGTTCAACCTTTTACCTGAACCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGT
196 AGAAGAATTTGTTCAACCTTTTACCTGAACCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGT
14819 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
261 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
*
14884 CTTTTGCTTGAATCCATCATTTGGTGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACT
326 CTTTTGTTTGAATCCATCATTTGGTGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACT
14949 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAACC
391 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAACC
15011 CATCA-TTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
15075 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATCCATCATTTGGTGGATCA
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATCCATCATTTGGTGGATCA
15140 TCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
131 TCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
15205 AGAAGAATTTGTTCAACCTTTTACCTGAACCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGT
196 AGAAGAATTTGTTCAACCTTTTACCTGAACCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGT
15270 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
261 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
* *
15335 CTTTTGTTTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
326 CTTTTGTTTGAATCCATCATTTGGTGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACT
15400 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAACC
391 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAACC
* *
15462 CATCATTTGGTGGATTATCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
15527 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGGTGGATCA
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATCCATCATTTGGTGGATCA
*
15592 TATTTTCCAGAGAAAGTTC---AT-AGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
131 TCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * *** * ** * * * ** *
15653 AGAAGAACTTGTTCAACTTTTTTGTTTAAATTCATCATTTGATGGATCAACATGGCCAAAGAAAG
196 AGAAGAATTTGTTCAAC-CTTTTACCTGAACCCATCATTTGGTGGATCATCTTTTCCAGAGAAAG
*
15718 TTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
260 TTCAT-AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
15783 ACC-TTTGTTTGA
324 ACCTTTTGTTTGA
15795 TATCATCTGA
Statistics
Matches: 748, Mismatches: 33, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
448 56 0.07
449 50 0.07
450 61 0.08
451 439 0.59
452 142 0.19
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (452 bp):
CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATCCATCATTTGGTGGATCA
TCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
AGAAGAATTTGTTCAACCTTTTACCTGAACCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGT
TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
CTTTTGTTTGAATCCATCATTTGGTGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACT
CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAACC
Found at i:16088 original size:3 final size:3
Alignment explanation
Indices: 16080--16237 Score: 277
Period size: 3 Copynumber: 53.7 Consensus size: 3
16070 TTTTTATCCA
16080 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
16128 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
16176 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAA TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
16223 TAT TAT T-T T-T TAT TA
1 TAT TAT TAT TAT TAT TA
16238 AATATATTAA
Statistics
Matches: 150, Mismatches: 3, Indels: 4
0.96 0.02 0.03
Matches are distributed among these distances:
2 6 0.04
3 144 0.96
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:17003 original size:13 final size:13
Alignment explanation
Indices: 16985--17013 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
16975 ACCACCGTTA
16985 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
16998 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
17011 CGG
1 CGG
17014 AGTACGGTGG
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:0.00, C:0.31, G:0.62, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:17611 original size:19 final size:19
Alignment explanation
Indices: 17573--17608 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
17563 CAATTTAGTC
17573 ATTTATTTTATATGTTTTA
1 ATTTATTTTATATGTTTTA
17592 ATTTATTTTAT-TGTTTT
1 ATTTATTTTATATGTTTT
17609 TAAATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (19 bp):
ATTTATTTTATATGTTTTA
Found at i:20050 original size:2 final size:2
Alignment explanation
Indices: 20043--20091 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
20033 ATAAATAATT
20043 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20085 TA TA TA T
1 TA TA TA T
20092 TTATGATGCC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21557 original size:31 final size:31
Alignment explanation
Indices: 21522--21611 Score: 110
Period size: 31 Copynumber: 2.8 Consensus size: 31
21512 ATACATAATG
* *
21522 TTTACTTTTTATTTCATTTTAGTACCCGTCA-
1 TTTACTTTTTGTTTCATTTTAGTACCC-CCAT
* *
21553 TTTACTTTTTGTTTCGTTTTAGTTCCCCCAT
1 TTTACTTTTTGTTTCATTTTAGTACCCCCAT
21584 TGTTAACTTTTTGTTTCATTTTAGTACC
1 T-TT-ACTTTTTGTTTCATTTTAGTACC
21612 TAAATTTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.04
31 25 0.50
32 2 0.04
33 21 0.42
ACGTcount: A:0.16, C:0.19, G:0.09, T:0.57
Consensus pattern (31 bp):
TTTACTTTTTGTTTCATTTTAGTACCCCCAT
Found at i:21623 original size:33 final size:33
Alignment explanation
Indices: 21520--21623 Score: 88
Period size: 33 Copynumber: 3.2 Consensus size: 33
21510 TCATACATAA
* * **
21520 TGTTTACTTTTTATTTCATTTTAGTACCCGTCA-
1 TGTTAACTTTTTGTTTCATTTTAGTACCC-AAAT
* * **
21553 T-TT-ACTTTTTGTTTCGTTTTAGTTCCCCCAT
1 TGTTAACTTTTTGTTTCATTTTAGTACCCAAAT
*
21584 TGTTAACTTTTTGTTTCATTTTAGTACCTAAAT
1 TGTTAACTTTTTGTTTCATTTTAGTACCCAAAT
*
21617 TTTTAAC
1 TGTTAAC
21624 GGTGAAGTAC
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
30 2 0.03
31 22 0.38
32 4 0.07
33 30 0.52
ACGTcount: A:0.18, C:0.17, G:0.09, T:0.56
Consensus pattern (33 bp):
TGTTAACTTTTTGTTTCATTTTAGTACCCAAAT
Found at i:23438 original size:19 final size:18
Alignment explanation
Indices: 23405--23465 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 18
23395 ATTATTTTTT
*
23405 ATATTAATATATTTATGTAA
1 ATATT-ATATTTTTAT-TAA
23425 ATATTATATTTTTATTAA
1 ATATTATATTTTTATTAA
* *
23443 A-ATAATATTTATA-TAA
1 ATATTATATTTTTATTAA
*
23459 TTATTAT
1 ATATTAT
23466 TTATTTAGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
16 3 0.09
17 14 0.40
18 4 0.11
19 9 0.26
20 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATATTATATTTTTATTAA
Found at i:25222 original size:21 final size:21
Alignment explanation
Indices: 25192--25239 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
25182 GCAGGGGTAC
* *
25192 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
25213 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
25234 ATGCCA
1 ATGCCA
25240 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:25315 original size:21 final size:21
Alignment explanation
Indices: 25243--25315 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
25233 TATGCCATCT
* *
25243 CCGCAGGGTTACATTTCGAGC
1 CCGCAGGGTTACATTCCTAGC
*
25264 CCGTAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
25285 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
*
25306 CTGCAGGGTT
1 CCGCAGGGTT
25316 TTATACCATA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
20 2 0.05
21 41 0.93
22 1 0.02
ACGTcount: A:0.18, C:0.30, G:0.27, T:0.25
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:25883 original size:33 final size:33
Alignment explanation
Indices: 25834--25926 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 33
25824 AAATGTTTTT
*
25834 AAAATACAAATTATATTATTCGAAATTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTAAAATA
* * *
25867 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAA-TTAAAATA
* *
25900 AAAATATAAATTATAGTATTCGAAATT
1 AAAATAAAAATTATATTATTCGAAATT
25927 TAACATTAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
32 3 0.06
33 45 0.88
34 3 0.06
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (33 bp):
AAAATAAAAATTATATTATTCGAAATTAAAATA
Found at i:26488 original size:128 final size:128
Alignment explanation
Indices: 26328--27081 Score: 1226
Period size: 128 Copynumber: 5.9 Consensus size: 128
26318 TTACCTGATT
* * *
26328 TACTAATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTTTA
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * *** *
26393 TGACAAAATAATGGAAGGCGCGCCCCCGAGAACGCGCATTCATGTCCCCT-GAGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGG
26456 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
26521 TGATAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
** *
26584 TACTGATATATCGGGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *** *
26649 TGACAAAATAATGGAAGGTGCGCCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGG
26712 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
**
26777 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
* *
26840 TACTGATATATCTAGTGTCCCCGAGGGATATGAGTGACATAATAAGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
** *
26905 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATATGAATAGTGAAATAAT-GG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
26967 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
27032 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATATGAATA
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATA
27082 ATACTCCGAT
Statistics
Matches: 588, Mismatches: 35, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
127 116 0.20
128 471 0.80
129 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:27167 original size:8 final size:8
Alignment explanation
Indices: 27154--27194 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
27144 TCACAATCTT
27154 TCAAATTC
1 TCAAATTC
27162 TCAAATTC
1 TCAAATTC
* *
27170 CCAAACTC
1 TCAAATTC
27178 T-AAATTC
1 TCAAATTC
27185 TCAAATTC
1 TCAAATTC
27193 TC
1 TC
27195 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:27920 original size:309 final size:303
Alignment explanation
Indices: 27366--27981 Score: 1169
Period size: 309 Copynumber: 2.0 Consensus size: 303
27356 GTAGGCCAGA
27366 GAAGACTATCTTCACTTCAGTACAAATTTCCTACTGAACTTTTTCCGCTCACGTATACATCATTC
1 GAAGACTATCTTCACTTCAGTACAAATTTCCTACTGAACTTTTTCCGCTCACGTATACATCATTC
27431 AGCTTTCAACGATGATGATGTTTCTATGATGGTTGATGCTCATATGGGGTTCACAATCACTTATT
66 AGCTTTCAACGATGATGATGTTTCTATGATGGTTGATGCTCATATGGGGTTCACAATCACTTATT
27496 GAAATGTATGCCACTTTTATTGAGGTTCGTGCAACTCGTGGTCTCTCATATCCTCTCACTTTGGC
131 GAAATGTATGCCACTTTTATTGAGGTTCGTGCAACTCGTGGTCTCTCATATCCTCTCACTTTGGC
27561 ATTGCATATCAAACTGATCAAGTTGATAGCCCGACACAACTGATCTGTAATGATTTCACATCATT
196 ATTGCATATCAAACTGATCAAGTTGATAGCCCGACACAACTGATCTGTAATGATTTCACATCATT
27626 AATGGCGGATCCAACGCCATATACCATGCCATCAAGTTCAATAG
261 AATGGCGGATCCAACGCCATATACCATGCCATCAAGTTC-ATAG
*
27670 GAAGACTATCTTCACTTCAGTACAGATTTCCTACTGAACTTTTTCCGCTCACGTATACATCATTT
1 GAAGACTATCTTCACTTCAGTACAAATTTCCTACTGAACTTTTTCCGCTCACGTATACATCA-TT
27735 CAGCTTTCAAACGATGATGATGTTTCTATGATGGTTGATGCTCATATGGGGAGTTCACAATCACT
65 CAGCTTTC-AACGATGATGATGTTTCTATGATGGTTGATGCTCATAT-GGG-GTTCACAATCACT
27800 TATTGAAATGTATGCCACTTTTATTGAGGTTCGTGCAACTCGTGGTCTCTCATATTCCTCTCACT
127 TATTGAAATGTATGCCACTTTTATTGAGGTTCGTGCAACTCGTGGTCTCTCATA-TCCTCTCACT
27865 TTGGCATTGCATATCAAACTGATCAAGTTGATAGCCCGACACAACTGATCTGTAATGATTTCACA
191 TTGGCATTGCATATCAAACTGATCAAGTTGATAGCCCGACACAACTGATCTGTAATGATTTCACA
27930 TCATTAATGGCGGATCCAACGCCATATACCATGCCATCAAGTTCATAG
256 TCATTAATGGCGGATCCAACGCCATATACCATGCCATCAAGTTCATAG
27978 GAAG
1 GAAG
27982 GCATTCATCT
Statistics
Matches: 306, Mismatches: 1, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
304 61 0.20
305 10 0.03
306 38 0.12
307 3 0.01
308 75 0.25
309 119 0.39
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (303 bp):
GAAGACTATCTTCACTTCAGTACAAATTTCCTACTGAACTTTTTCCGCTCACGTATACATCATTC
AGCTTTCAACGATGATGATGTTTCTATGATGGTTGATGCTCATATGGGGTTCACAATCACTTATT
GAAATGTATGCCACTTTTATTGAGGTTCGTGCAACTCGTGGTCTCTCATATCCTCTCACTTTGGC
ATTGCATATCAAACTGATCAAGTTGATAGCCCGACACAACTGATCTGTAATGATTTCACATCATT
AATGGCGGATCCAACGCCATATACCATGCCATCAAGTTCATAG
Found at i:35005 original size:62 final size:63
Alignment explanation
Indices: 34907--35030 Score: 205
Period size: 62 Copynumber: 2.0 Consensus size: 63
34897 CCATACCATC
34907 GTTGTGGCCCCTGTATAGCAATAATGAAAGAATTTTTAATAATAATAGAAATCCATGCAAAAT
1 GTTGTGGCCCCTGTATAGCAATAATGAAAGAATTTTTAATAATAATAGAAATCCATGCAAAAT
* * * *
34970 GTTGTGG-TCCTGTATAGCAATAATGGAAGAATTTTTTATAATAATAGAAATCTATGCAAAA
1 GTTGTGGCCCCTGTATAGCAATAATGAAAGAATTTTTAATAATAATAGAAATCCATGCAAAA
35031 CGCATGGAAG
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
62 50 0.88
63 7 0.12
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.32
Consensus pattern (63 bp):
GTTGTGGCCCCTGTATAGCAATAATGAAAGAATTTTTAATAATAATAGAAATCCATGCAAAAT
Found at i:35245 original size:28 final size:28
Alignment explanation
Indices: 35184--35237 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
35174 AATTAAATCC
*
35184 AAATATTAAACCCTAAACTCTAAATCAT
1 AAATCTTAAACCCTAAACTCTAAATCAT
*
35212 AAATCTTAACCCCTAAA-TCCTAAATC
1 AAATCTTAAACCCTAAACT-CTAAATC
35238 TTGAATCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 22 0.96
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (28 bp):
AAATCTTAAACCCTAAACTCTAAATCAT
Found at i:35598 original size:12 final size:11
Alignment explanation
Indices: 35576--35609 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
35566 ATAAATGAAA
35576 AGAAGAAGAGG
1 AGAAGAAGAGG
35587 AGAAGAAAGAGG
1 AGAAG-AAGAGG
35599 AGAA-AAGAGG
1 AGAAGAAGAGG
35609 A
1 A
35610 AGAAATAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 7 0.32
11 5 0.23
12 10 0.45
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (11 bp):
AGAAGAAGAGG
Found at i:35611 original size:20 final size:20
Alignment explanation
Indices: 35588--35635 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
35578 AAGAAGAGGA
*
35588 GAAGAAAGAGGAGAAAAGAG
1 GAAGAAAGAAGAGAAAAGAG
* *
35608 GAAGAAATAAGAGAAAAGCG
1 GAAGAAAGAAGAGAAAAGAG
*
35628 AAAGAAAG
1 GAAGAAAG
35636 GAGAAGAAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.62, C:0.02, G:0.33, T:0.02
Consensus pattern (20 bp):
GAAGAAAGAAGAGAAAAGAG
Found at i:37646 original size:18 final size:19
Alignment explanation
Indices: 37619--37664 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
37609 TTTATAAAAT
*
37619 TATAACTAAAGAAAT-AAA
1 TATAAATAAAGAAATGAAA
* *
37637 TATAAATAAATAAATGAAG
1 TATAAATAAAGAAATGAAA
37656 T-TAAATAAA
1 TATAAATAAA
37665 TTAAATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (19 bp):
TATAAATAAAGAAATGAAA
Found at i:37660 original size:14 final size:14
Alignment explanation
Indices: 37630--37676 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
37620 ATAACTAAAG
*
37630 AAATAAAT-ATAAAT
1 AAATAAATGA-AATT
*
37644 AAATAAATGAAGTT
1 AAATAAATGAAATT
*
37658 AAATAAATTAAATT
1 AAATAAATGAAATT
37672 AAATA
1 AAATA
37677 GTATAATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 27 0.96
15 1 0.04
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (14 bp):
AAATAAATGAAATT
Found at i:39284 original size:21 final size:21
Alignment explanation
Indices: 39239--39284 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
39229 TAAACATTTT
*
39239 ATAATATTTAATAAAAAAATT
1 ATAATATTTAATAAAAAAATA
* * *
39260 ATAATATTTCATTAAATAATA
1 ATAATATTTAATAAAAAAATA
39281 ATAA
1 ATAA
39285 CACCATCACT
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:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
ATAATATTTAATAAAAAAATA
Found at i:39663 original size:20 final size:20
Alignment explanation
Indices: 39615--39663 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
39605 TCTTATTCTC
*
39615 CTTTCTTTCTATTTTCTCTT
1 CTTTCTTCCTATTTTCTCTT
* *
39635 ATTTTTTCCTATTTTCTCTT
1 CTTTCTTCCTATTTTCTCTT
39655 CTTTCTTCC
1 CTTTCTTCC
39664 CCTCTTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.06, C:0.27, G:0.00, T:0.67
Consensus pattern (20 bp):
CTTTCTTCCTATTTTCTCTT
Found at i:53455 original size:39 final size:41
Alignment explanation
Indices: 53395--53495 Score: 111
Period size: 39 Copynumber: 2.5 Consensus size: 41
53385 TTTAAGCATA
* *
53395 TAGCGGCGTTTATAATCCAAACGCCAC-A-AAACG-A-TACTT
1 TAGCGGCGTTTTTAA-ACAAACGCCACTATAAA-GTAGTACTT
*
53434 TAGCGGCGTTTCTTAAACAAACGCCGCTATAAAGTAGTACTT
1 TAGCGGCGTTT-TTAAACAAACGCCACTATAAAGTAGTACTT
*
53476 TAGCGGCGTTTTTATACAAA
1 TAGCGGCGTTTTTAAACAAA
53496 TGCCGCAATA
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
39 20 0.38
40 5 0.09
41 12 0.23
42 16 0.30
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.28
Consensus pattern (41 bp):
TAGCGGCGTTTTTAAACAAACGCCACTATAAAGTAGTACTT
Found at i:53526 original size:83 final size:83
Alignment explanation
Indices: 53438--53674 Score: 271
Period size: 83 Copynumber: 2.9 Consensus size: 83
53428 ATACTTTAGC
* * *
53438 GGCGTTTCTT-AAACAAACGCCGCTATAAAGTAGTACTTTAGCGGCGTTTTTATACAAATGCCGC
1 GGCGTTT-TTCAAACAAACGTCGCAATAAAGTAGTACTTTAGCAGCGTTTTTATACAAATGCCGC
*
53502 AATAGGGATCGTTTATAAT
65 AATAGGGATCGTTCATAAT
* * * * * * * *
53521 GGCGTTTTTCTAACAAACGTCGCGATAGATTAGTACTTTAGCAGTGTTTTTATACAAACGTCGTA
1 GGCGTTTTTCAAACAAACGTCGCAATAAAGTAGTACTTTAGCAGCGTTTTTATACAAATGCCGCA
* * *
53586 ATAGGGTTTGTTCATAGT
66 ATAGGGATCGTTCATAAT
* * * *
53604 GGCGTTTTTCCAACAAAATGTCGCAATAAAG-AGTACTTTAGTAGCGTTTTTATACAAATGCCAC
1 GGCGTTTTTCAAAC-AAACGTCGCAATAAAGTAGTACTTTAGCAGCGTTTTTATACAAATGCCGC
53668 AATAGGG
65 AATAGGG
53675 TTCTTTAGCG
Statistics
Matches: 127, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
82 2 0.02
83 113 0.89
84 12 0.09
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (83 bp):
GGCGTTTTTCAAACAAACGTCGCAATAAAGTAGTACTTTAGCAGCGTTTTTATACAAATGCCGCA
ATAGGGATCGTTCATAAT
Found at i:53900 original size:41 final size:41
Alignment explanation
Indices: 53855--53969 Score: 122
Period size: 41 Copynumber: 2.8 Consensus size: 41
53845 AAAATAGTAA
* *
53855 CATTAGCGGCGTTTTAAAAAAAACGCCGCAAGAAATCAGTG
1 CATTAGTGGCGTTTTAAAACAAACGCCGCAAGAAATCAGTG
* * * * * *
53896 CATTAGTGGCATTTTTAAACAAACGTCGCAATAAGTTAGTG
1 CATTAGTGGCGTTTTAAAACAAACGCCGCAAGAAATCAGTG
* * *
53937 AAGTAGTGGCGTTTTAAATACAAACGCTGCAAG
1 CATTAGTGGCGTTTTAAA-ACAAACGCCGCAAG
53970 TTTTGGATAT
Statistics
Matches: 58, Mismatches: 15, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
41 47 0.81
42 11 0.19
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (41 bp):
CATTAGTGGCGTTTTAAAACAAACGCCGCAAGAAATCAGTG
Found at i:55400 original size:13 final size:13
Alignment explanation
Indices: 55382--55406 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55372 TTCCAATGGC
55382 AGGATCATGCTAA
1 AGGATCATGCTAA
55395 AGGATCATGCTA
1 AGGATCATGCTA
55407 TATTACATGA
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:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (13 bp):
AGGATCATGCTAA
Found at i:62208 original size:221 final size:223
Alignment explanation
Indices: 61924--62345 Score: 659
Period size: 221 Copynumber: 1.9 Consensus size: 223
61914 ATATATTGAT
* * * *
61924 ATATAACAAGTAAACAATGATAAAACCGGTTTATAAATGACAAAACAGGTAAAATGTTACCGGAT
1 ATATAACAAGTAAACAATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAACGCTACCGGAT
* *
61989 ATATTGAAAGTGTCAATACTTTGTAAAAATATATTGATCCATAACAATATAACAGGTAAA-AAAT
66 ATATTGAAAGTGTCAATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAACAAAT
* * *
62053 GATAAAATCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCCATA
131 GACAAAATCGGTCTATAAATGACAAAACAGGTAAAGCACTACCGAATATATTGAAAGTGTCCATA
*
62118 TTTTATAAAAATGTATCGATCCATAACA
196 CTTTATAAAAATGTATCGATCCATAACA
* *
62146 ATATAACAGGTAAA-AATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGAT
1 ATATAACAAGTAAACAATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAACGCTACCGGAT
* * *
62210 ATATTGAAAGTGTCGATACTTTATAAAAATGTGTCGATCCATAACAATATAACAGGTAAACAAAT
66 ATATTGAAAGTGTCAATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAACAAAT
* * * *
62275 GACAAAATCGGTCTATAAATGACAAAATAGGTAAAGCACTACCGAATATGTTGATAGTGTCGATA
131 GACAAAATCGGTCTATAAATGACAAAACAGGTAAAGCACTACCGAATATATTGAAAGTGTCCATA
62340 CTTTAT
196 CTTTAT
62346 TATAAGTATC
Statistics
Matches: 180, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
221 100 0.56
222 80 0.44
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.26
Consensus pattern (223 bp):
ATATAACAAGTAAACAATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAACGCTACCGGAT
ATATTGAAAGTGTCAATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAACAAAT
GACAAAATCGGTCTATAAATGACAAAACAGGTAAAGCACTACCGAATATATTGAAAGTGTCCATA
CTTTATAAAAATGTATCGATCCATAACA
Found at i:62218 original size:110 final size:111
Alignment explanation
Indices: 61924--62345 Score: 630
Period size: 111 Copynumber: 3.8 Consensus size: 111
61914 ATATATTGAT
* * * * ** *
61924 ATATAACAAGTAAACAATGATAAAACCGGTTTATAAATGACAAAACAGGTAAAATGTTACCGGAT
1 ATATAACAGGTAAAAAATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGAT
* * * *
61989 ATATTGAAAGTGTCAATACTTTGTAAAAATATATTGATCCATAACA
66 ATATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACA
* *
62035 ATATAACAGGTAAAAAATGATAAAATCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGAT
1 ATATAACAGGTAAAAAATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGAT
* *
62100 ATATTGAAAGTGTCCATATTTTATAAAAATGTATCGATCCATAACA
66 ATATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACA
62146 ATATAACAGGT-AAAAATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGAT
1 ATATAACAGGTAAAAAATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGAT
*
62210 ATATTGAAAGTGTCGATACTTTATAAAAATGTGTCGATCCATAACA
66 ATATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACA
* * * *
62256 ATATAACAGGTAAACAAATGACAAAATCGGTCTATAAATGACAAAATAGGTAAAGCACTACCGAA
1 ATATAACAGGTAAA-AAATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGA
* *
62321 TATGTTGATAGTGTCGATACTTTAT
65 TATATTGAAAGTGTCGATACTTTAT
62346 TATAAGTATC
Statistics
Matches: 286, Mismatches: 23, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
110 105 0.37
111 112 0.39
112 69 0.24
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.26
Consensus pattern (111 bp):
ATATAACAGGTAAAAAATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGAT
ATATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACA
Found at i:62439 original size:182 final size:182
Alignment explanation
Indices: 62216--62850 Score: 1058
Period size: 182 Copynumber: 3.5 Consensus size: 182
62206 GGATATATTG
*
62216 AAAGTGTCGATACTTTATAAAAATGTGTCGATCCATAACAATATAACAGGTAAACAA-ATGACAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAA-AATATGACAA
** ** *
62280 AATCGGTCTATAAATGACAAAATAGGTAAAGCACTACCGAATATGTTGATAGTGTCGATACTTTA
65 AATCGGTCTCGAAATGACAAAACCGGTAAAGCACTACCGAATATGTTGAAAGTGTCGATACTTTA
*
62345 TTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
130 TTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAAT
*
62398 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* * * *
62463 ACCGATCTCGAAATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAT
66 ATCGGTCTCGAAATGACAAAACCGGTAAAGCACTACCGAATATGTTGAAAGTGTCGATACTTTAT
* *
62528 TATAAGTATCGATACTTTTGGAATTTAAAAGAAAAGAAGTTATA-CTGCCAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGC-GCCAAT
*
62580 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
*
62645 ATCGGTCTCGAAATGACAAAACCGGTAAAGAACTACCGAATATGTTGAAAGTGTCGATACTTTAT
66 ATCGGTCTCGAAATGACAAAACCGGTAAAGCACTACCGAATATGTTGAAAGTGTCGATACTTTAT
* *
62710 TATAAGTATCAACACTTTTGTAATTTAAAAGAGAAGAAGTTATAGCGCCAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAAT
*
62762 AAAGTGTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
*
62827 ATCAGTCTCGAAATGACAAAACCG
66 ATCGGTCTCGAAATGACAAAACCG
62851 ATAGTAAAAA
Statistics
Matches: 423, Mismatches: 27, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
181 3 0.01
182 419 0.99
183 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.28
Consensus pattern (182 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
ATCGGTCTCGAAATGACAAAACCGGTAAAGCACTACCGAATATGTTGAAAGTGTCGATACTTTAT
TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAAT
Found at i:65200 original size:20 final size:19
Alignment explanation
Indices: 65172--65218 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
65162 TAATAAACAA
*
65172 AAAAT-AATTGGATGAAAA-
1 AAAATAAATTGAAT-AAAAT
65190 AAAATGAAATTGAATAAAAT
1 AAAAT-AAATTGAATAAAAT
65210 AAAATAAAT
1 AAAATAAAT
65219 GAAGATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.20
19 8 0.32
20 12 0.48
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (19 bp):
AAAATAAATTGAATAAAAT
Found at i:65351 original size:25 final size:23
Alignment explanation
Indices: 65316--65370 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
65306 ATATAATGAA
*
65316 AATAAATAAATAGTATAAATAAAAT
1 AATAAAAAAATA-TATAAA-AAAAT
*
65341 AATAAAAAAATATATATAAAAAT
1 AATAAAAAAATATATAAAAAAAT
65364 -ATAAAAA
1 AATAAAAA
65371 TGTATTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 7 0.25
23 5 0.18
24 5 0.18
25 11 0.39
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (23 bp):
AATAAAAAAATATATAAAAAAAT
Found at i:65354 original size:22 final size:22
Alignment explanation
Indices: 65302--65370 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
65292 CAAAGAAACT
65302 AAAAATAT-AATGAAAATAA-ATA
1 AAAAATATAAAT-AAAATAATA-A
* *
65324 AATAGTATAAATAAAATAATAA
1 AAAAATATAAATAAAATAATAA
*
65346 AAAAATATATATAAAA-ATATAA
1 AAAAATATAAATAAAATA-ATAA
65368 AAA
1 AAA
65371 TGTATTTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 1 0.03
22 34 0.87
23 4 0.10
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (22 bp):
AAAAATATAAATAAAATAATAA
Found at i:65380 original size:22 final size:23
Alignment explanation
Indices: 65316--65419 Score: 68
Period size: 22 Copynumber: 4.5 Consensus size: 23
65306 ATATAATGAA
* *
65316 AATAAATAAATAGTATAAATAAAAT
1 AATAAAAAAATA-TATATA-AAAAT
65341 AATAAAAAAATATATATAAAAAT
1 AATAAAAAAATATATATAAAAAT
** * *
65364 -ATAAAAATGTATTTAT-AATAT
1 AATAAAAAAATATATATAAAAAT
* * * *
65385 AATAAAATACTAAATATTAATAAT
1 AATAAAAAAATATATA-TAAAAAT
*
65409 AATAAATAAAT
1 AATAAAAAAAT
65420 GAAAAATAAA
Statistics
Matches: 60, Mismatches: 16, Indels: 7
0.72 0.19 0.08
Matches are distributed among these distances:
21 4 0.07
22 23 0.38
23 6 0.10
24 16 0.27
25 11 0.18
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (23 bp):
AATAAAAAAATATATATAAAAAT
Found at i:65420 original size:48 final size:47
Alignment explanation
Indices: 65304--65429 Score: 118
Period size: 44 Copynumber: 2.7 Consensus size: 47
65294 AAGAAACTAA
65304 AAATATAATGAA-AATAAATAAATAGTATAAATAAAATAATAAAAAAAT
1 AAATATAAT-AATAATAAATAAAT-GTATAAATAAAATAATAAAAAAAT
* * ** * * *
65352 ATATATAAAAAT-AT-AA-AAATGTATTTATAATATAATAAAATACT
1 AAATATAATAATAATAAATAAATGTATAAATAAAATAATAAAAAAAT
*
65396 AAATATTAATAATAATAAATAAATG-AAAAATAAA
1 AAATA-TAATAATAATAAATAAATGTATAAATAAA
65430 TATATATATT
Statistics
Matches: 60, Mismatches: 13, Indels: 11
0.71 0.15 0.13
Matches are distributed among these distances:
44 23 0.38
45 10 0.17
46 4 0.07
47 11 0.18
48 12 0.20
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (47 bp):
AAATATAATAATAATAAATAAATGTATAAATAAAATAATAAAAAAAT
Found at i:65537 original size:14 final size:14
Alignment explanation
Indices: 65514--65562 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
65504 ATAACGTTAG
*
65514 AAAAATATAGTAAA
1 AAAAACATAGTAAA
65528 AAAAACATAGTAAA
1 AAAAACATAGTAAA
65542 TAAGTAAACATAGATAAA
1 -AA--AAACATAG-TAAA
65560 AAA
1 AAA
65563 TAATAATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 13 0.43
15 3 0.10
17 10 0.33
18 4 0.13
ACGTcount: A:0.69, C:0.04, G:0.08, T:0.18
Consensus pattern (14 bp):
AAAAACATAGTAAA
Found at i:66170 original size:37 final size:37
Alignment explanation
Indices: 66077--66178 Score: 132
Period size: 37 Copynumber: 2.8 Consensus size: 37
66067 ATGCTTGTGG
* * ** * *
66077 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
* *
66114 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
66151 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
66179 TAGGACGAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
Found at i:67116 original size:106 final size:106
Alignment explanation
Indices: 66931--68206 Score: 2061
Period size: 106 Copynumber: 12.0 Consensus size: 106
66921 GCATTGTTCT
* * ** *
66931 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAATCAGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * * *
66995 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * ** * *
67037 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCCAAAATTAGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
67102 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
67143 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
67208 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
67249 GAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
67314 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
67355 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
67420 CCAGCGGTCCCTTCGTAGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
67461 GAGTACAATATCTTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
67526 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
67567 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
67632 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** *
67673 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
67738 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
67779 GAGTCCAATATTCTTCCCTGTGAAGTTGAAATTGACTCTGACATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
67844 CCAGTGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
67885 GAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
67950 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
67991 GAGTCCAATATCCTTCG-TCGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
68055 ACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTATCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
68097 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * *
68162 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
68203 GAGT
1 GAGT
68207 GGCACGATAT
Statistics
Matches: 1095, Mismatches: 72, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
105 1 0.00
106 1092 1.00
107 2 0.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:68738 original size:18 final size:19
Alignment explanation
Indices: 68709--68745 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
68699 TTTTGAATCC
68709 CCAAATAATGCCCCAATAT
1 CCAAATAATGCCCCAATAT
68728 CCAAA-AATGCCCCAATAT
1 CCAAATAATGCCCCAATAT
68746 TTGATGTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.43, C:0.32, G:0.05, T:0.19
Consensus pattern (19 bp):
CCAAATAATGCCCCAATAT
Found at i:69186 original size:22 final size:22
Alignment explanation
Indices: 69160--69214 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
69150 TTGTGTTTGG
69160 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
69182 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
69204 TCAAAGGTTTG
1 TCAAAGGTTTG
69215 ATGGGGTAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:69832 original size:19 final size:19
Alignment explanation
Indices: 69808--69851 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
69798 TGCATGTACT
69808 TTTTTGTCCATTT-TTTTTA
1 TTTTTGTCC-TTTCTTTTTA
* *
69827 TTTTTGTTCTTTCTTTTTT
1 TTTTTGTCCTTTCTTTTTA
69846 TTTTTG
1 TTTTTG
69852 CTTTCTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.05, C:0.09, G:0.07, T:0.80
Consensus pattern (19 bp):
TTTTTGTCCTTTCTTTTTA
Found at i:69843 original size:20 final size:20
Alignment explanation
Indices: 69820--69865 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
69810 TTTGTCCATT
69820 TTTTTTATTTTTG--TTCTTTC
1 TTTTTT-TTTTTGCTTTC-TTC
69840 TTTTTTTTTTTGCTTTCTTC
1 TTTTTTTTTTTGCTTTCTTC
69860 TTTTTT
1 TTTTTT
69866 GCTTCTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 15 0.62
21 3 0.12
ACGTcount: A:0.02, C:0.11, G:0.04, T:0.83
Consensus pattern (20 bp):
TTTTTTTTTTTGCTTTCTTC
Found at i:69863 original size:15 final size:16
Alignment explanation
Indices: 69845--69882 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
69835 CTTTCTTTTT
69845 TTTTTTGCTT-TCTTC
1 TTTTTTGCTTCTCTTC
*
69860 TTTTTTGCTTCTTTTC
1 TTTTTTGCTTCTCTTC
69876 TTTTTTG
1 TTTTTTG
69883 TTTTTGCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.00, C:0.16, G:0.08, T:0.76
Consensus pattern (16 bp):
TTTTTTGCTTCTCTTC
Found at i:69882 original size:16 final size:16
Alignment explanation
Indices: 69837--69882 Score: 67
Period size: 15 Copynumber: 2.9 Consensus size: 16
69827 TTTTTGTTCT
*
69837 TTCTTTTTTTTTTTGC
1 TTCTTTTCTTTTTTGC
*
69853 TT-TCTTCTTTTTTGC
1 TTCTTTTCTTTTTTGC
69868 TTCTTTTCTTTTTTG
1 TTCTTTTCTTTTTTG
69883 TTTTTGCCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.00, C:0.15, G:0.07, T:0.78
Consensus pattern (16 bp):
TTCTTTTCTTTTTTGC
Done.