Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_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: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 30 of 54
Found at i:7224660 original size:26 final size:26
Alignment explanation
Indices: 7224624--7224754 Score: 97
Period size: 26 Copynumber: 5.5 Consensus size: 26
7224614 TAAAACGAAT
7224624 CCATAAATGAAATGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
*
7224650 CCATAAATGAAATGTATGAAA-GA--
1 CCATAAATGAAATGCATGAAAGGATG
* * * *
7224673 --ATACAT-TAATGTATGAAAGGATA
1 CCATAAATGAAATGCATGAAAGGATG
* * *
7224696 CAATAAACGAAATGCATTAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
*
7224722 -CAT---T--AAGGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
7224742 CCATAAATGAAAT
1 CCATAAATGAAAT
7224755 TAACGAATAA
Statistics
Matches: 79, Mismatches: 14, Indels: 24
0.68 0.12 0.21
Matches are distributed among these distances:
20 25 0.32
21 10 0.13
24 1 0.01
25 8 0.10
26 35 0.44
ACGTcount: A:0.48, C:0.10, G:0.20, T:0.22
Consensus pattern (26 bp):
CCATAAATGAAATGCATGAAAGGATG
Found at i:7224685 original size:20 final size:20
Alignment explanation
Indices: 7224660--7224697 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7224650 CCATAAATGA
7224660 AATGTATGAAAGAATACATT
1 AATGTATGAAAGAATACATT
*
7224680 AATGTATGAAAGGATACA
1 AATGTATGAAAGAATACA
7224698 ATAAACGAAA
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:0.50, C:0.05, G:0.18, T:0.26
Consensus pattern (20 bp):
AATGTATGAAAGAATACATT
Found at i:7224692 original size:46 final size:46
Alignment explanation
Indices: 7224634--7224754 Score: 161
Period size: 46 Copynumber: 2.6 Consensus size: 46
7224624 CCATAAATGA
*
7224634 AATGCATGAAAGGATGCCATAAATGAAATGTATGAAAGAATACATT
1 AATGCATGAAAGGATGCCATAAATGAAATGCATGAAAGAATACATT
* * * * * * *
7224680 AATGTATGAAAGGATACAATAAACGAAATGCATTAAAGGATGCATT
1 AATGCATGAAAGGATGCCATAAATGAAATGCATGAAAGAATACATT
*
7224726 AAGGCATGAAAGGATGCCATAAATGAAAT
1 AATGCATGAAAGGATGCCATAAATGAAAT
7224755 TAACGAATAA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.48, C:0.09, G:0.21, T:0.22
Consensus pattern (46 bp):
AATGCATGAAAGGATGCCATAAATGAAATGCATGAAAGAATACATT
Found at i:7229701 original size:46 final size:46
Alignment explanation
Indices: 7229648--7230094 Score: 633
Period size: 46 Copynumber: 9.6 Consensus size: 46
7229638 TAAAACGAAT
* *
7229648 CCATAAATGAAATGCATGAAAGGAAGCATTAAGGAATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* * * *
7229694 CCATAAATGAAATGAATGAAAGGATGCATTAACGCACGAAAAGATG
1 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* *
7229740 CCATAAATAAAATGCATGAAAGGATACATTAAGGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* * * *
7229786 TCGTAAATGAAATGCATGAAAGGATGCCGTAAATGAAATGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG-C----AT-TAAGGCATGAAAGGATG
*
7229838 CCGTAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* *
7229884 CCATAAATGAAATGCATGAAAGGATGTATTAAGGCATGAAATGATG
1 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* *
7229930 CCATAAATGAATTGCATGAAAGTATGCATTAAGGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* *
7229976 TCATAAATGGAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* * *
7230022 TCATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAAGGATA
1 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
*
7230068 TCATAAATGAAATGCATGAAAGGATGC
1 CCATAAATGAAATGCATGAAAGGATGC
7230095 CATAAATGAA
Statistics
Matches: 359, Mismatches: 36, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
46 313 0.87
47 3 0.01
51 3 0.01
52 40 0.11
ACGTcount: A:0.44, C:0.10, G:0.25, T:0.21
Consensus pattern (46 bp):
CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
Found at i:7229713 original size:26 final size:26
Alignment explanation
Indices: 7229648--7230106 Score: 278
Period size: 26 Copynumber: 19.5 Consensus size: 26
7229638 TAAAACGAAT
*
7229648 CCATAAATGAAATGCATGAAAGGAAG
1 CCATAAATGAAATGCATGAAAGGATG
* *
7229674 -CAT---T--AAGGAATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
*
7229694 CCATAAATGAAATGAATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
* * *
7229720 -CAT---T--AACGCACGAAAAGATG
1 CCATAAATGAAATGCATGAAAGGATG
*
7229740 CCATAAATAAAATGCATGAAAGGAT-
1 CCATAAATGAAATGCATGAAAGGATG
* *
7229765 ACAT---T--AAGGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
* *
7229786 TCGTAAATGAAATGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
*
7229812 CCGTAAATGAAATGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
*
7229838 CCGTAAATGAAATGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
*
7229864 -CAT---T--AAGGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
7229884 CCATAAATGAAATGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
* * ****
7229910 ---T--AT-TAAGGCATGAAATGATGC
1 CCATAAATGAAATGCATGAAA-GGATG
* *
7229931 C-ATAAATGAATTGCATGAAAGTATG
1 CCATAAATGAAATGCATGAAAGGATG
*
7229956 -CAT---T--AAGGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
* *
7229976 TCATAAATGGAATGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
*
7230002 -CAT---T--AAGGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
* *
7230022 TCATAAATGAAATGCATGAAATGATG
1 CCATAAATGAAATGCATGAAAGGATG
* *
7230048 -CAT---T--AAGGCATGAAAGGATA
1 CCATAAATGAAATGCATGAAAGGATG
*
7230068 TCATAAATGAAATGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
7230094 CCATAAATGAAAT
1 CCATAAATGAAAT
7230107 TAATGAATGA
Statistics
Matches: 338, Mismatches: 46, Indels: 98
0.70 0.10 0.20
Matches are distributed among these distances:
20 105 0.31
21 23 0.07
22 7 0.02
23 2 0.01
24 7 0.02
25 22 0.07
26 172 0.51
ACGTcount: A:0.45, C:0.10, G:0.24, T:0.21
Consensus pattern (26 bp):
CCATAAATGAAATGCATGAAAGGATG
Found at i:7230112 original size:26 final size:26
Alignment explanation
Indices: 7230057--7230113 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
7230047 GCATTAAGGC
* *
7230057 ATGAAAGGATATCATAAATGAAATGC
1 ATGAAAGGATACCATAAATGAAATGA
* *
7230083 ATGAAAGGATGCCATAAATGAAATTA
1 ATGAAAGGATACCATAAATGAAATGA
7230109 ATGAA
1 ATGAA
7230114 TGATTACTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.51, C:0.07, G:0.19, T:0.23
Consensus pattern (26 bp):
ATGAAAGGATACCATAAATGAAATGA
Found at i:7230113 original size:72 final size:72
Alignment explanation
Indices: 7229871--7230106 Score: 235
Period size: 72 Copynumber: 3.4 Consensus size: 72
7229861 ATGCATTAAG
* *
7229871 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGTATTAAGGCATGAAATGATGCCATAA
1 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
*
7229936 ATGAATT
66 ATGAAAT
* * *
7229943 GCATGAAAGTATG-CAT---T--AAGGCATGAAAGGATGTCATAAATGGAATGCATGAAAGGATG
1 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATG-CAT---T--AAGGCATGAAAGGATG
*
7230002 -CAT---T--AAG
60 CCATAAATGAAAT
* * **
7230009 GCATGAAAGGATGTCATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAAGGATATCATAA
1 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
7230074 ATGAAAT
66 ATGAAAT
7230081 GCATGAAAGGATGCCATAAATGAAAT
1 GCATGAAAGGATGCCATAAATGAAAT
7230107 TAATGAATGA
Statistics
Matches: 132, Mismatches: 14, Indels: 36
0.73 0.08 0.20
Matches are distributed among these distances:
66 42 0.32
67 8 0.06
68 3 0.02
70 3 0.02
71 9 0.07
72 67 0.51
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.23
Consensus pattern (72 bp):
GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
ATGAAAT
Found at i:7231928 original size:22 final size:22
Alignment explanation
Indices: 7231900--7231977 Score: 83
Period size: 22 Copynumber: 3.6 Consensus size: 22
7231890 ATTGAAAGAG
* * *
7231900 AGTATCGATACTATAGTGTAGT
1 AGTATCGATACCATAGTATAGA
7231922 AGTATCGATA--ATGAG-ATA-A
1 AGTATCGATACCAT-AGTATAGA
7231941 ATGTATCGATACCATAGTATAGA
1 A-GTATCGATACCATAGTATAGA
7231964 AGTATCGATACCAT
1 AGTATCGATACCAT
7231978 TGTAGGGGTA
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
19 1 0.02
20 13 0.27
21 4 0.08
22 28 0.58
23 2 0.04
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (22 bp):
AGTATCGATACCATAGTATAGA
Found at i:7232465 original size:46 final size:46
Alignment explanation
Indices: 7232392--7232814 Score: 648
Period size: 46 Copynumber: 9.2 Consensus size: 46
7232382 GCGAATCCAC
* ** *
7232392 AAATGAAATGCAGGAAAGGATTTATTAAGGCATGAAAGGATGCCAT
1 AAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCAT
* * *
7232438 AAATGAAATGCAAGAAATGATGCATTAAGGCATGAAAGGATGCCAT
1 AAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCAT
* *
7232484 AAATGAAATGCATGAAAGGATGCATTAAGGCGTGAAAGAATGTCAT
1 AAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCAT
* * * *
7232530 AAATAAAATGCACGAAATGATGCATTAAGGCATGAAAGGATTTCAT
1 AAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCAT
* *
7232576 AAATGAAATGCATGAATGGATGCATTAAGACATGAAAGGATGTCAT
1 AAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCAT
* *
7232622 AAATGAAATGGATGAAAGGATGCATTAAGGGATGAAAGGATGTCAT
1 AAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCAT
*
7232668 AAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCAT
1 AAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCAT
* *
7232714 AAATGAAATACATGAAAGGATGCATTAAGGCATGAAAGGATGCCAT
1 AAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCAT
* *
7232760 AAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATATCGT
1 AAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCAT
7232806 AAATGAAAT
1 AAATGAAAT
7232815 TAACGAATAA
Statistics
Matches: 344, Mismatches: 33, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 344 1.00
ACGTcount: A:0.45, C:0.09, G:0.25, T:0.22
Consensus pattern (46 bp):
AAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCAT
Found at i:7233392 original size:2 final size:2
Alignment explanation
Indices: 7233385--7233489 Score: 166
Period size: 2 Copynumber: 55.0 Consensus size: 2
7233375 CCATAAATGA
7233385 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
7233427 AT AT AT AT AT AT AT AT AT AT AT A- AT A- AT A- AA AT A- AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7233464 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7233490 GCCACTCATG
Statistics
Matches: 97, Mismatches: 1, Indels: 10
0.90 0.01 0.09
Matches are distributed among these distances:
1 5 0.05
2 92 0.95
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7235150 original size:2 final size:2
Alignment explanation
Indices: 7235143--7235169 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7235133 AAGTAATAAT
7235143 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7235170 TTCAGATAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7243968 original size:2 final size:2
Alignment explanation
Indices: 7243961--7244009 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
7243951 TGCACCTTTC
7243961 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7244003 AT AT AT A
1 AT AT AT A
7244010 ATCCACGCAT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7247427 original size:19 final size:19
Alignment explanation
Indices: 7247405--7247447 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
7247395 TACTTTTCTA
*
7247405 TAACAGTCATATTTTACTT
1 TAACAGACATATTTTACTT
*
7247424 TAACTGACATATTTTACTT
1 TAACAGACATATTTTACTT
7247443 TAACA
1 TAACA
7247448 TTCTCAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.16, G:0.05, T:0.44
Consensus pattern (19 bp):
TAACAGACATATTTTACTT
Found at i:7249221 original size:21 final size:21
Alignment explanation
Indices: 7249178--7249222 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
7249168 TTAATAAAAA
* *
7249178 TTTATCTAAAATATTATTATT
1 TTTATCTAAAACATCATTATT
*
7249199 TTTATCTAAAACATCATTTTT
1 TTTATCTAAAACATCATTATT
7249220 TTT
1 TTT
7249223 TACATTTCCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTATCTAAAACATCATTATT
Found at i:7258840 original size:30 final size:31
Alignment explanation
Indices: 7258776--7258850 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
7258766 ACTACATCAG
* * *
7258776 ATACCATTGAACTTTAGGCATTTTATCGTTT
1 ATACCACTAAACTTTAGGCATTGTATCGTTT
7258807 ATACCACTAAACTTTAGGCATTGTATC-TTT
1 ATACCACTAAACTTTAGGCATTGTATCGTTT
7258837 ATACCACTAAACTT
1 ATACCACTAAACTT
7258851 CCAAGTTTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 17 0.41
31 24 0.59
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (31 bp):
ATACCACTAAACTTTAGGCATTGTATCGTTT
Found at i:7259818 original size:17 final size:17
Alignment explanation
Indices: 7259796--7259845 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 17
7259786 TTATGTTTAG
7259796 TATATATTTTAATATTT
1 TATATATTTTAATATTT
7259813 TATATAGTTTT-AT-TTT
1 TATATA-TTTTAATATTT
7259829 TATTAATAATTTTAATA
1 TA-T-AT-ATTTTAATA
7259846 GTATATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
16 5 0.19
17 9 0.33
18 10 0.37
19 3 0.11
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
TATATATTTTAATATTT
Found at i:7259846 original size:27 final size:26
Alignment explanation
Indices: 7259804--7259855 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
7259794 AGTATATATT
*
7259804 TTAATATTTTATATAGTTTTATTTTTA
1 TTAATATTTTATATAG-TATATTTTTA
7259831 TTAATAATTTTA-ATAGTATATTTTT
1 TTAAT-ATTTTATATAGTATATTTTT
7259856 CATTTTAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 8 0.35
27 9 0.39
28 6 0.26
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (26 bp):
TTAATATTTTATATAGTATATTTTTA
Found at i:7263148 original size:29 final size:30
Alignment explanation
Indices: 7263097--7263158 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
7263087 AAATTTTGTC
* **
7263097 TAGTGACTAAAGTGCAAGTTTTG-AAAGTT
1 TAGTGACTAAAGTACAAACTTTGAAAAGTT
*
7263126 TAGTGACTAAAGTATAAACTTTGAAAAGTT
1 TAGTGACTAAAGTACAAACTTTGAAAAGTT
7263156 TAG
1 TAG
7263159 GGACCAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.39, C:0.06, G:0.21, T:0.34
Consensus pattern (30 bp):
TAGTGACTAAAGTACAAACTTTGAAAAGTT
Found at i:7265699 original size:39 final size:39
Alignment explanation
Indices: 7265654--7265769 Score: 187
Period size: 39 Copynumber: 3.0 Consensus size: 39
7265644 CATCAGGTAG
* *
7265654 TCTTCCCAAGGAGTTCTGATAAGACTAGATATTGGGTTA
1 TCTTCCCAAGGAGTTTTGACAAGACTAGATATTGGGTTA
*
7265693 TCTTCCCAAGGAGTTTTGACAAGGCTAGATATTGGGTTA
1 TCTTCCCAAGGAGTTTTGACAAGACTAGATATTGGGTTA
* *
7265732 TCTTCCCAAGGCGTTTTGACAAGACTAGATATTAGGTT
1 TCTTCCCAAGGAGTTTTGACAAGACTAGATATTGGGTT
7265770 GAAATGGTAT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (39 bp):
TCTTCCCAAGGAGTTTTGACAAGACTAGATATTGGGTTA
Found at i:7283365 original size:54 final size:54
Alignment explanation
Indices: 7283278--7284079 Score: 1117
Period size: 54 Copynumber: 14.9 Consensus size: 54
7283268 GGGAAGCAAA
* *
7283278 AGAAGATTGTTTGAGTT-CTACTCCCTAAAGAAAGAGGGAGCGAACCCGTTGGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* *
7283331 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGAGAGCGAACCCACT-GGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCC-GTAGGC
* * * * * * * *
7283385 AGAAGATTATTCGAGTTCTATACTCCCTGAAGTAAGAGAGAGCAAACCCATTGGC
1 AGAAGATTGTTCGAGTTC-CTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * *
7283440 AGAAGATTGTTCGAGTTCCTACTCCTTAAAGAAAGAGGGAGCGAACTCATAGAC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
*
7283494 AGAAGATTGTTCGAGTTCCTACTCCCTAAAAAAAGAGGGAGCGAACCCGTAGGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
*
7283548 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGT
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * **
7283602 AGAGGATTGTTCGAGTTCCTACTCTCTAAAGAAAGAGGGAATGAACCCGTAGGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* *
7283656 AGAAGATTGTTCGAGTTCCTACTCGCTAAAGAAAGAGGGAGCAAACCCGTAGGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* *
7283710 AGAAGATTGTTCGAGTTCTTACTCCCTAAAGAAAGAGGGAGTGAACCCGTAGGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * *
7283764 AGAAGATTGTTCGAGTTCCTATTCCCAAAAGAAAGAGGGAGCAAAACCGTAGGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * **
7283818 AGATGATTGTTCGAGTTCTTACTCCCTAAAGAAAGAGGAAATGAACCCGTAGGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * * *
7283872 AGAAGATTGTTCGAGTTCCTACTCCCTATAGAAAGAGGGAGTGAACTCATAGGA
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* *
7283926 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCATAAGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
** * *
7283980 AGAAGATTGTTCGAGTT-CTACTCCCGGAAGCAAGAGGGAGCGAACCCGTAAGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * *
7284033 AGAAGATTGTTTGAGTT-CTACTCCCTGAAGTAAGAGGGAGCGAACCC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCC
7284080 ACTGGTTGAA
Statistics
Matches: 670, Mismatches: 75, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
53 92 0.14
54 531 0.79
55 47 0.07
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (54 bp):
AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
Found at i:7288658 original size:39 final size:38
Alignment explanation
Indices: 7288615--7288732 Score: 132
Period size: 39 Copynumber: 3.0 Consensus size: 38
7288605 ACATCAAGTG
*
7288615 GTCTTTTCAAGGAGTTCTGACAATACTAGATATTTGGTT
1 GTCTTCTCAAGGAGTT-TGACAATACTAGATATTTGGTT
*
7288654 GTCTTGC-CAAGGAGTTTTGAGAATACTAGATA-TTGAGTT
1 GTCTT-CTCAAGGAG-TTTGACAATACTAGATATTTG-GTT
* * *
7288693 GTCCTCTCAAGGAGCTTTGACAAGACTAGATATTAGGTT
1 GTCTTCTCAAGGAG-TTTGACAATACTAGATATTTGGTT
7288732 G
1 G
7288733 AAATGGTCTC
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
38 4 0.06
39 59 0.88
40 4 0.06
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.36
Consensus pattern (38 bp):
GTCTTCTCAAGGAGTTTGACAATACTAGATATTTGGTT
Found at i:7298273 original size:11 final size:11
Alignment explanation
Indices: 7298257--7298281 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7298247 AGGAAAGGCG
7298257 GGCTAATATAC
1 GGCTAATATAC
7298268 GGCTAATATAC
1 GGCTAATATAC
7298279 GGC
1 GGC
7298282 GTTACCGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (11 bp):
GGCTAATATAC
Found at i:7298893 original size:138 final size:136
Alignment explanation
Indices: 7298600--7298857 Score: 327
Period size: 138 Copynumber: 1.9 Consensus size: 136
7298590 GCCTATAAAG
* * * *
7298600 TGTCGATACTTTATAAAAATTTATCGATCCACAACGATATAACAGGTAAAAATATGACAAACCAG
1 TGTCGATAC-TTATAAAAATGTATCGATCCACAACAATATAACAGGAAAAAAAATGACAAACCAG
* * * * * *
7298665 TCTCGAAAAGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTTGATAAACTTAGTTTG
65 TCACGAAAAGACAAAACCGGTAAAGCACTACCGAATATATTGAAAGTGTCGAT-AACTTAATTTA
* **
7298730 TCGGTTTA
129 TCGATACA
* *
7298738 TGTCGATACTTTATAAAAATGTATCGATCCACATCAATATAACAGGAAAAAAAATGACAAAACCG
1 TGTCGATAC-TTATAAAAATGTATCGATCCACAACAATATAACAGGAAAAAAAATGAC-AAACCA
* *
7298803 GTCACTAAAAGACAAAACCGGTAAAGCACTACCGAATATATTTAAAGTGTCGATA
64 GTCACGAAAAGACAAAACCGGTAAAGCACTACCGAATATATTGAAAGTGTCGATA
7298858 CTTTAATATA
Statistics
Matches: 107, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
138 54 0.50
139 53 0.50
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (136 bp):
TGTCGATACTTATAAAAATGTATCGATCCACAACAATATAACAGGAAAAAAAATGACAAACCAGT
CACGAAAAGACAAAACCGGTAAAGCACTACCGAATATATTGAAAGTGTCGATAACTTAATTTATC
GATACA
Found at i:7298980 original size:320 final size:318
Alignment explanation
Indices: 7298401--7299039 Score: 1021
Period size: 320 Copynumber: 2.0 Consensus size: 318
7298391 GGCAACCAAC
* *
7298401 AAACTTAGCTTGTCGGTTTATGTCGATACTTTATAAAAATATATCGATCCACGTCAATATAATAG
1 AAACTTAGCTTGTCGGTTTATGTCGATACTTTATAAAAATATATCGATCCACATCAATATAACAG
* * *
7298466 GAAAAATATGACAAAATCGGCCAAGAAAAGAAAAAAACCGATAAAGCGCTACCGAATATATTTAA
66 GAAAAAAATGACAAAACCGGCCAAGAAAAGAAAAAAACCGATAAAGCACTACCGAATATATTTAA
7298531 AGTGTCGATACTTTATAAGTATCGACACATTATGAATTTAAAAGAGAAGCAGTTTTAGCGCCTAT
131 AGTGTCGATACTTTATAAGTATCGACACATTATGAATTTAAAAGAGAAGCAGTTTTAGCGCCTAT
**
7298596 AAAGTGTCGATACTTTATAAAAATTTATCGATCCACAACGATATAACAGGTAAAAATATGAC-AA
196 AAAGTGTCGATACTTTATAAAAAAGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAA
*
7298660 ACCAGTCTCGAAAAGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTTGAT
261 ACCAGTCTCGAAAAGACAAAACCGGTAAAGCGCTACCAGATATATTGAAAGTGTTGAT
* *
7298718 AAACTTAGTTTGTCGGTTTATGTCGATACTTTATAAAAATGTATCGATCCACATCAATATAACAG
1 AAACTTAGCTTGTCGGTTTATGTCGATACTTTATAAAAATATATCGATCCACATCAATATAACAG
* ** * *
7298783 GAAAAAAAATGACAAAACCGGTCACTAAAAG-ACAAAACCGGTAAAGCACTACCGAATATATTTA
66 G-AAAAAAATGACAAAACCGGCCAAGAAAAGAAAAAAACCGATAAAGCACTACCGAATATATTTA
* * *
7298847 AAGTGTCGATACTTTAATATAAGTATCGATACATTGTGAATTTAAAAGAGAATCAGTTTTAGCGC
130 AAGTGTCGATAC-TT--TATAAGTATCGACACATTATGAATTTAAAAGAGAAGCAGTTTTAGCGC
*
7298912 CTATAAAGTGTCGATACTTTATAAAAAAGTATCGATCCACAATGATATAACAGGTAAAAATATGA
192 CTATAAAGTGTCGATACTTTATAAAAAAGTATCGATCCACAACGATATAACAGGTAAAAATATGA
* * * *
7298977 CAAAATCGGTCTCGAAAGGACAAAACCGGTAAAGCGTTACCAGATATATTGAAAGTGTTGAT
257 CAAAACCAGTCTCGAAAAGACAAAACCGGTAAAGCGCTACCAGATATATTGAAAGTGTTGAT
7299039 A
1 A
7299040 CTTTAATATA
Statistics
Matches: 294, Mismatches: 23, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
317 104 0.35
318 26 0.09
320 108 0.37
321 56 0.19
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (318 bp):
AAACTTAGCTTGTCGGTTTATGTCGATACTTTATAAAAATATATCGATCCACATCAATATAACAG
GAAAAAAATGACAAAACCGGCCAAGAAAAGAAAAAAACCGATAAAGCACTACCGAATATATTTAA
AGTGTCGATACTTTATAAGTATCGACACATTATGAATTTAAAAGAGAAGCAGTTTTAGCGCCTAT
AAAGTGTCGATACTTTATAAAAAAGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAA
ACCAGTCTCGAAAAGACAAAACCGGTAAAGCGCTACCAGATATATTGAAAGTGTTGAT
Found at i:7299045 original size:182 final size:181
Alignment explanation
Indices: 7298738--7299228 Score: 675
Period size: 182 Copynumber: 2.7 Consensus size: 181
7298728 TGTCGGTTTA
* * *
7298738 TGTCGATACTTTATAAAAATGTATCGATCCAC-ATCAATATAACAGGAAAAAAAATGACAAAACC
1 TGTCGATACTTTATAAAAATGTATCGATCCACAAT-GATATAACAGGTAAAAATATGACAAAACC
* * ** *
7298802 GGTCACTAAAAGACAAAACCGGTAAAGCACTACCGAATATATTTAAAGTGTCGATACTTTAATAT
65 GGTCTCAAAAAGACAAAACCGGTAAAGCGTTACCG-ATATATTGAAAGTGTCGATACTTTAATAT
* * * *
7298867 AAGTATCGATACATT-GTGAATTTAAAAGAGAATCAGTTTTAGCGCCTATAAAG
129 AAGTATCGACAC-TTAGTGAATTTAAAAGAGAAGCAGTTTTAGCACCTAAAAAG
* *
7298920 TGTCGATACTTTATAAAAAAGTATCGATCCACAATGATATAACAGGTAAAAATATGACAAAATCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAATGATATAACAGGTAAAAATATGACAAAACCG
* * *
7298985 GTCTCGAAAGGACAAAACCGGTAAAGCGTTACCAGATATATTGAAAGTGTTGATACTTTAATATA
66 GTCTCAAAAAGACAAAACCGGTAAAGCGTTACC-GATATATTGAAAGTGTCGATACTTTAATATA
7299050 AGTATCGACACTTAGTGAATTTAAAAGAGAAGCAGTTTTAGCACCTAAAAAG
130 AGTATCGACACTTAGTGAATTTAAAAGAGAAGCAGTTTTAGCACCTAAAAAG
* * * * *
7299102 TGTCAATACTTTATAAAAATGTATCGATCCATAACGATAAAACAGGTAAAATTATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAATGATATAACAGGTAAAAATATGACAAAACCG
* * *
7299167 GTCTCAAAATGACAAAACCGATAAA--GTCTACCGGATATATTGAAAGTGGCGATACTTTAATA
66 GTCTCAAAAAGACAAAACCGGTAAAGCGT-TACC-GATATATTGAAAGTGTCGATACTTTAATA
7299229 AGTACGCGTA
Statistics
Matches: 276, Mismatches: 29, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
180 2 0.01
181 33 0.12
182 238 0.86
183 3 0.01
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.26
Consensus pattern (181 bp):
TGTCGATACTTTATAAAAATGTATCGATCCACAATGATATAACAGGTAAAAATATGACAAAACCG
GTCTCAAAAAGACAAAACCGGTAAAGCGTTACCGATATATTGAAAGTGTCGATACTTTAATATAA
GTATCGACACTTAGTGAATTTAAAAGAGAAGCAGTTTTAGCACCTAAAAAG
Found at i:7301639 original size:21 final size:21
Alignment explanation
Indices: 7301615--7301679 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
7301605 AATACAATCA
7301615 AGAGTCGAAGAGAAAATTGAG
1 AGAGTCGAAGAGAAAATTGAG
7301636 AGAGTCGAAGAGAAAATTGAG
1 AGAGTCGAAGAGAAAATTGAG
* *
7301657 AGAGTCGAAGAGACACTTGAG
1 AGAGTCGAAGAGAAAATTGAG
7301678 AG
1 AG
7301680 GCATAAGGGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.45, C:0.08, G:0.34, T:0.14
Consensus pattern (21 bp):
AGAGTCGAAGAGAAAATTGAG
Found at i:7301755 original size:33 final size:32
Alignment explanation
Indices: 7301713--7301778 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 32
7301703 AAATAGATGG
7301713 AGTGGTGAAACAAGTTAAGGTGTTGAGGGGTGA
1 AGTGGTGAAACAAGTTAAGGTGTT-AGGGGTGA
* *
7301746 AGTGGTGAAAGAAGTTGAGGTGTTAGGGGTGA
1 AGTGGTGAAACAAGTTAAGGTGTTAGGGGTGA
7301778 A
1 A
7301779 CTTAAGATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 9 0.29
33 22 0.71
ACGTcount: A:0.30, C:0.02, G:0.44, T:0.24
Consensus pattern (32 bp):
AGTGGTGAAACAAGTTAAGGTGTTAGGGGTGA
Found at i:7304966 original size:199 final size:199
Alignment explanation
Indices: 7304514--7305234 Score: 816
Period size: 201 Copynumber: 3.6 Consensus size: 199
7304504 ACCTAAGTAT
* * * *
7304514 GTGTCGATACGTTT-TCTAAAAGTATCGA-CCCAAAAAATATCGAAACCAATAATTATAATGTAA
1 GTGTCGATACATTTAT-TAAAAGTATCGATCAC-AAAAACATCGAAACCGATAATTATAATGTAA
* * * * * * *
7304577 TAGGTAAATTAACAATGTAACTGGTATAAATATACC-GATTAATTAGAAAACAGGTCAACATAAT
64 TAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCATCATAAT
*
7304641 GTATCGACACTTGTGT-AATTTGTGTCGATACTTATTGTCCAAAATGAATGCCCAAACGAGGTGC
129 GTATCGACACTTGT-TAAATTTGTGTCGATACTT-TTTTCCAAAATGAATG-CCAAACGAGGTGC
*
7304705 ACGCATAAA
191 ACACATAAA
*
7304714 GTGTCGATACAATTATTAAAAGTATCGATCACAATAAA-ATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTTATTAAAAGTATCGATCACAA-AAACATCGAAACCGATAATTATAATGTAAT
* * *
7304778 ATGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGATCATCATAAAG
65 AGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCATCATAATG
** * *
7304843 TATCGACACTTGTTAAATTTGTGTCGATACATTTTTTCCTTAATGAATGCCAAAC-CGCTGCACA
130 TATCGACACTTGTTAAATTTGTGTCGATAC-TTTTTTCCAAAATGAATGCCAAACGAGGTGCACA
7304907 CATAAA
194 CATAAA
* * * *
7304913 GTGTCGATACATTTATTAAAAGTATCGATTACAAAAACATCGAAATCGATAATTACAATGTGATA
1 GTGTCGATACATTTATTAAAAGTATCGATCACAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * * *
7304978 GGTAAATTTACAATGTACCCGATAGAAATATACCGATTTTATGAAAAAAAATAGGTC-TAAATAA
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATG--AGAAAATAGGTCAT-CATAA
* * * * * * * *
7305042 TGTATCGACACTAT-TTAAGTTGGTGTCAATACTTGTTTCCAGACTGAATTCCCAACGAGGTGCA
128 TGTATCGACACT-TGTTAAATTTGTGTCGATACTTTTTTCCAAAATGAATGCCAAACGAGGTGCA
*
7305106 CACATAAT
192 CACATAAA
* *
7305114 GTGTCGATACATTTA--AAATTGTATCGATCCAAAAAAACATCGAAACCGATAATTATAATGTAA
1 GTGTCGATACATTTATTAAA-AGTATCGAT-CACAAAAACATCGAAACCGATAATTATAATGTAA
* * * * *
7305177 TAGGTAAATTTGCAATGTTACCGGTAAAAATATACCGG-TTTACTTATAAAATAGGTCA
64 TAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTA-TGAGAAAATAGGTCA
7305235 ATATAAACGC
Statistics
Matches: 445, Mismatches: 60, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
198 3 0.01
199 120 0.27
200 121 0.27
201 198 0.44
202 3 0.01
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (199 bp):
GTGTCGATACATTTATTAAAAGTATCGATCACAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCATCATAATGT
ATCGACACTTGTTAAATTTGTGTCGATACTTTTTTCCAAAATGAATGCCAAACGAGGTGCACACA
TAAA
Found at i:7305305 original size:23 final size:23
Alignment explanation
Indices: 7305235--7305296 Score: 115
Period size: 23 Copynumber: 2.7 Consensus size: 23
7305225 AAATAGGTCA
*
7305235 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
7305258 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
7305281 ATATAAGCGCTACCTA
1 ATATAAGCGCTACCTA
7305297 ATATGTTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.32
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:7306103 original size:180 final size:180
Alignment explanation
Indices: 7305787--7306127 Score: 406
Period size: 180 Copynumber: 1.9 Consensus size: 180
7305777 ATGACAGAAT
* * ***
7305787 AAATTGTCACAACAAATAATGAGATTTAGATTTGTTGTGACAAATTTTGTTTGTGATTATATATT
1 AAATTGTCACAACAAATAATGAGATTTAGATTTGTTGTAAAAAACAATGTTTGTGATTATATATT
* * *
7305852 TTAATTATAGTCACAAAATGTATAGTTACAAATGATTATCTCCAATTTTTTGTACAAAAACAAAA
66 TTAATTATAGTCACAAAATATATAGTCACAAATGATTACCTCCAATTTTTTGTACAAAAACAAAA
* *
7305917 TCATATAGTGACATGA-TTTGTAACTATAAGCTATAATTATTGTTATAAAA
131 TCATATAGTGACA-AATTTTGTAACCATAAGCTATAATTATTGTTATAAAA
7305967 AAATTGTCACAACAAATAATGAGATTTA-AGTTT-TTAGTAAAAAACAATGTTTGTCG-TTATAT
1 AAATTGTCACAACAAATAATGAGATTTAGA-TTTGTT-GTAAAAAACAATGTTTGT-GATTATAT
* * * * * ***
7306029 GTTTTAATTATAGTGACAAAATATATTGTCACAAA-GATTTACCTCCATATTTTTTTTGCGCCAA
63 ATTTTAATTATAGTCACAAAATATATAGTCACAAATGA-TTACCTCCA-ATTTTTTGTACAAAAA
* *
7306093 -AAAGTCATATATTGACAAATTTTGTAACCATAAGC
126 CAAAATCATATAGTGACAAATTTTGTAACCATAAGC
7306128 GTTAATAATT
Statistics
Matches: 135, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
179 6 0.04
180 117 0.87
181 12 0.09
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (180 bp):
AAATTGTCACAACAAATAATGAGATTTAGATTTGTTGTAAAAAACAATGTTTGTGATTATATATT
TTAATTATAGTCACAAAATATATAGTCACAAATGATTACCTCCAATTTTTTGTACAAAAACAAAA
TCATATAGTGACAAATTTTGTAACCATAAGCTATAATTATTGTTATAAAA
Found at i:7306150 original size:180 final size:180
Alignment explanation
Indices: 7305787--7306178 Score: 404
Period size: 180 Copynumber: 2.2 Consensus size: 180
7305777 ATGACAGAAT
* * ***
7305787 AAATTGTCACAACAAATAATGAGATTT-AGATTTGTTGTGACAAATTTTGTTTGTGATTATATAT
1 AAATTGTCACAACAAATAATGAGATTTAAG-TTTGTTGTAAAAAACAATGTTTGTGATTATATAT
* * *
7305851 TTTAATTATAGTCACAAAATGTATAGTTACAAATGATTATCTCCAATTTTTTGTACAAAAACAAA
65 TTTAATTATAGTCACAAAATATATAGTCACAAATGATTACCTCCAATTTTTTGTACAAAAACAAA
* * * * *
7305916 ATCATATAGTGACATGATTTGTAACTATAAGCTATAATTATTGTTATAAAA
130 ATCATATAGTGACATAATTTGTAACCATAAGCTATAATAATTATTACAAAA
*
7305967 AAATTGTCACAACAAATAATGAGATTTAAGTTT-TTAGTAAAAAACAATGTTTGTCG-TTATATG
1 AAATTGTCACAACAAATAATGAGATTTAAGTTTGTT-GTAAAAAACAATGTTTGT-GATTATATA
* * * * ***
7306030 TTTTAATTATAGTGACAAAATATATTGTCACAAA-GATTTACCTCCATATTTTTTTTGCGCCAA-
64 TTTTAATTATAGTCACAAAATATATAGTCACAAATGA-TTACCTCCA-ATTTTTTGTACAAAAAC
* * *
7306093 AAAGTCATATATTGACA-AATTTTGTAACCATAAGCGT-TAATAATTATTACCAAA
127 AAAATCATATAGTGACATAA-TTTGTAACCATAAGC-TATAATAATTATTACAAAA
* * * * *
7306147 AAA-TGCCATAAAAAATAATGATATTTATGTTT
1 AAATTGTCACAACAAATAATGAGATTTAAGTTT
7306179 CTGTGACAAA
Statistics
Matches: 176, Mismatches: 29, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
179 29 0.16
180 132 0.75
181 15 0.09
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.38
Consensus pattern (180 bp):
AAATTGTCACAACAAATAATGAGATTTAAGTTTGTTGTAAAAAACAATGTTTGTGATTATATATT
TTAATTATAGTCACAAAATATATAGTCACAAATGATTACCTCCAATTTTTTGTACAAAAACAAAA
TCATATAGTGACATAATTTGTAACCATAAGCTATAATAATTATTACAAAA
Found at i:7306816 original size:414 final size:411
Alignment explanation
Indices: 7306037--7306870 Score: 1084
Period size: 414 Copynumber: 2.0 Consensus size: 411
7306027 ATGTTTTAAT
* * *
7306037 TATAGTGACAAAATATATTGTCACAAAGATTTACCTCCATATTTTTTTTGCGCCAAAAAGTCATA
1 TATAGTAACAAAATATATTGTCACAAAGATTTACCTCCATATTTTTTTTGCGCAAAAAAATCATA
* * * * *
7306102 TATTGACAAATTTTGTAACCATAAGCGTTAATAATTATTACCAAAAAATGCCATAAAAAATAATG
66 TAGTAACAAATTTTGTAACCATAAGCGTTAATAATCATTACAAAAAAATGCCACAAAAAATAATG
* * ** * *
7306167 ATATTTATGTTTCTGTGACAAATTATATTTTTAGTTATAAATTTTAACTATAGTGATAGCATATA
131 ATATTCATATTTCTGTGACAAATTATATTTGCAATTATAAATTTTAACTATAGTGATAACATATA
* *
7306232 TTGTCATAACTATTTTTCTCCAATTTTTTTTTCAAAAGTTATATTGACAATTTTTATAATTATAA
196 TTGTCATAAATATTTTTCTCC-ATTTTTTTTTCAAAAGTTATATTGACAAGTTTTATAATTATAA
* * *
7306297 TTTATAGTTATTGTTATAGAAAAAATTATCAAATCAAATAATAAAATTAATTTTTTTTATAATTA
260 TTTATAGTTATTGTTATAGAAAAAATTATCAAATCAAATAATAAAATCAATGTTTTTTATAATCA
* * * *
7306362 ATTATTTTTGTACTTATATATTTTAATCATTATAAAAAATTATACTATTAGAACCATTTATCCCT
325 ATTATTTTTGTACTTACATATTTTAATCATTATAAAAAATTATACTATCAGAAACATTTATCCAT
*
7306427 ATTTTTAGTGTCAAAAATGTTA
390 ATTTTTAGTGCCAAAAATGTTA
* * * *
7306449 TATAGTAACAAAATATATTTTCATAAAGATTTTCCTTCATATTTTTTTGTGC-CAAAAAAAAATC
1 TATAGTAACAAAATATATTGTCACAAAGATTTACCTCCATATTTTTTT-TGCGC--AAAAAAATC
* *** * * *
7306513 ATATAGTAACAATTTTTGTAGTTATAAGTGTTTATAATCATTACAAAAAACATTGTCACAAAAAA
63 ATATAGTAACAAATTTTGTAACCATAAGCGTTAATAATCATTACAAAAAA-A-TGCCACAAAAAA
* * *
7306578 TAATGGTATTCATATTTTTGTGACAAATTATATTTGCAATTATAAA-TTTAATTATAGTGATAAC
126 TAATGATATTCATATTTCTGTGACAAATTATATTTGCAATTATAAATTTTAACTATAGTGATAAC
* * * *
7306642 ATATATTGTGATAAATATTTTTCTTC-TTTTTTGTTTCAAAAAGTTATATTGATAAGTTTTGTAA
191 ATATATTGTCATAAATATTTTTCTCCATTTTTT-TTTC-AAAAGTTATATTGACAAGTTTTATAA
* *
7306706 TTATAATTTATAGTTATTGTTATA-AAAAAATTATCACATCAGATAATAAAACTCAA-GTTTTTT
254 TTATAATTTATAGTTATTGTTATAGAAAAAATTATCAAATCAAATAATAAAA-TCAATGTTTTTT
* * * *
7306769 GTAATCATTTATTTTTGTAGTTACATATTTTAATCATTATGAAAAATTATACTATCAGAAACATT
318 ATAATCAATTATTTTTGTACTTACATATTTTAATCATTATAAAAAATTATACTATCAGAAACATT
* * * *
7306834 TCTGCATATTTTTTGTGCCAAAAATGTTG
383 TATCCATATTTTTAGTGCCAAAAATGTTA
7306863 TATAGTAA
1 TATAGTAA
7306871 AAGTTTATAG
Statistics
Matches: 362, Mismatches: 52, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
412 44 0.12
413 9 0.02
414 170 0.47
415 90 0.25
416 49 0.14
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (411 bp):
TATAGTAACAAAATATATTGTCACAAAGATTTACCTCCATATTTTTTTTGCGCAAAAAAATCATA
TAGTAACAAATTTTGTAACCATAAGCGTTAATAATCATTACAAAAAAATGCCACAAAAAATAATG
ATATTCATATTTCTGTGACAAATTATATTTGCAATTATAAATTTTAACTATAGTGATAACATATA
TTGTCATAAATATTTTTCTCCATTTTTTTTTCAAAAGTTATATTGACAAGTTTTATAATTATAAT
TTATAGTTATTGTTATAGAAAAAATTATCAAATCAAATAATAAAATCAATGTTTTTTATAATCAA
TTATTTTTGTACTTACATATTTTAATCATTATAAAAAATTATACTATCAGAAACATTTATCCATA
TTTTTAGTGCCAAAAATGTTA
Found at i:7307992 original size:22 final size:22
Alignment explanation
Indices: 7307960--7308001 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
7307950 TATAAAAAAT
7307960 TATTTATTATTAAATATTTTTGA
1 TATTTATTATTAAAT-TTTTTGA
*
7307983 TATTT-TTATTTAATTTTTT
1 TATTTATTATTAAATTTTTT
7308002 AAATAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 8 0.44
23 5 0.28
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
TATTTATTATTAAATTTTTTGA
Found at i:7325435 original size:2 final size:2
Alignment explanation
Indices: 7325411--7325488 Score: 129
Period size: 2 Copynumber: 39.0 Consensus size: 2
7325401 TTCATCGGAT
* * *
7325411 TA TA AA TA TA TA CA TA TA CA 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
7325453 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
7325489 CTTACCAATA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:7330063 original size:60 final size:60
Alignment explanation
Indices: 7329994--7330114 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
7329984 ATCAAATAAT
7329994 TAAATTCAAATTTTGTAATCTATTATTTTTGTACTTATATATTTTAATAATTATGAAAAA
1 TAAATTCAAATTTTGTAATCTATTATTTTTGTACTTATATATTTTAATAATTATGAAAAA
7330054 TAAATTCAAATTTTGTAATCTATTATTTTTGTACTTATATATTTTAATAATTATGAAAAA
1 TAAATTCAAATTTTGTAATCTATTATTTTTGTACTTATATATTTTAATAATTATGAAAAA
7330114 T
1 T
7330115 TATACTATCA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (60 bp):
TAAATTCAAATTTTGTAATCTATTATTTTTGTACTTATATATTTTAATAATTATGAAAAA
Found at i:7331487 original size:16 final size:16
Alignment explanation
Indices: 7331466--7331496 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
7331456 AAAACTGTGA
7331466 AGGAATTGGAATCTAT
1 AGGAATTGGAATCTAT
7331482 AGGAATTGGAATCTA
1 AGGAATTGGAATCTA
7331497 ATTCCATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.26, T:0.29
Consensus pattern (16 bp):
AGGAATTGGAATCTAT
Found at i:7332127 original size:37 final size:37
Alignment explanation
Indices: 7332067--7332158 Score: 148
Period size: 37 Copynumber: 2.5 Consensus size: 37
7332057 TTTTCACCCT
* *
7332067 AAACCCGACCCGACCCGATCCGAATATCATACTTAAA
1 AAACCCGACCCGACCCGACCCGAATATCACACTTAAA
* *
7332104 AAATCCGACCCGACTCGACCCGAATATCACACTTAAA
1 AAACCCGACCCGACCCGACCCGAATATCACACTTAAA
7332141 AAACCCGACCCGACCCGA
1 AAACCCGACCCGACCCGA
7332159 AATAATAACA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.37, C:0.38, G:0.12, T:0.13
Consensus pattern (37 bp):
AAACCCGACCCGACCCGACCCGAATATCACACTTAAA
Found at i:7332337 original size:27 final size:28
Alignment explanation
Indices: 7332277--7332338 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
7332267 CCAACCCGAT
7332277 CCGACCCGAATATCACACTTAAAAAAAC
1 CCGACCCGAATATCACACTTAAAAAAAC
7332305 CCGACCCGAATATCACACTT-AAAAAAC
1 CCGACCCGAATATCACACTTAAAAAAAC
*
7332332 CTGACCC
1 CCGACCC
7332339 AACCCGAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 13 0.39
28 20 0.61
ACGTcount: A:0.42, C:0.35, G:0.08, T:0.15
Consensus pattern (28 bp):
CCGACCCGAATATCACACTTAAAAAAAC
Found at i:7335310 original size:196 final size:197
Alignment explanation
Indices: 7334895--7335324 Score: 580
Period size: 196 Copynumber: 2.2 Consensus size: 197
7334885 ACAATATGTT
* * * *
7334895 TTTCACAATAATAAAGTGTAACAAATTTATTTAGTTACAATAACATAGTAAATTTAGTCAAAATA
1 TTTCACAATAATAAAATGTAACAAAATTATTTAGTCACAATAACATAGTAAATTTAATCAAAATA
* *
7334960 AAAATGTATGTCAAATTTATTTTGTCACAATATTTTTTCGAAATAAAAAAATTGTGAGATTTATT
66 AAAATGTATGTCAAATTTATTTTGTCACAATATTTTTTCAAAATAAAAAAATTGTGACATTTATT
* * * * * * *
7335025 TAATCAAAATAATAATTTTTAAAAAATATTAATTTCTCATTATAAAAAATTGTGACAACTAATAA
131 TAATCAAAATAACAAATTATAAAAAATATTAATTACACATTATAAAAAACTGTGACAAATAATAA
7335090 AC
196 AC
* * * * *
7335092 TTTCACAATATTAAAATGTAACAAAATGATTTAGTCACAATAACA-CGTTAAGTTTAATCAAAGT
1 TTTCACAATAATAAAATGTAACAAAATTATTTAGTCACAATAACATAG-TAAATTTAATCAAAAT
* *
7335156 AAAAAAT-TATGTCAAATTTATTTTGTCCCAATATTTTTT-AAAAT-GAAAAATTGTGACATTTA
65 -AAAAATGTATGTCAAATTTATTTTGTCACAATATTTTTTCAAAATAAAAAAATTGTGACATTTA
*
7335218 TTTAATCAAAAATAACAAATTATAACAAATATTAATTACACATTATAAAAAACTGTGACAAATAA
129 TTTAATC-AAAATAACAAATTATAAAAAATATTAATTACACATTATAAAAAACTGTGACAAATAA
**
7335283 TATTC
193 TAAAC
* *
7335288 TTTCACAATAATAAATTGTAACAAAATTAGTTAGTCA
1 TTTCACAATAATAAAATGTAACAAAATTATTTAGTCA
7335325 TAGTAAAAAG
Statistics
Matches: 203, Mismatches: 27, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
195 23 0.11
196 90 0.44
197 84 0.41
198 6 0.03
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.37
Consensus pattern (197 bp):
TTTCACAATAATAAAATGTAACAAAATTATTTAGTCACAATAACATAGTAAATTTAATCAAAATA
AAAATGTATGTCAAATTTATTTTGTCACAATATTTTTTCAAAATAAAAAAATTGTGACATTTATT
TAATCAAAATAACAAATTATAAAAAATATTAATTACACATTATAAAAAACTGTGACAAATAATAA
AC
Found at i:7343512 original size:19 final size:20
Alignment explanation
Indices: 7343488--7343530 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
7343478 TAGAAACATT
*
7343488 AAATTCAAACTATC-AAACC
1 AAATTCAAACAATCAAAACC
7343507 AAATTCAAACAATCAAAACC
1 AAATTCAAACAATCAAAACC
7343527 AAAT
1 AAAT
7343531 ATATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (20 bp):
AAATTCAAACAATCAAAACC
Found at i:7343587 original size:14 final size:16
Alignment explanation
Indices: 7343568--7343600 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
7343558 TTCAAACATC
7343568 CATATC-ATCCAA-AA
1 CATATCAATCCAAGAA
7343582 CATATCAATCCAAGAA
1 CATATCAATCCAAGAA
7343598 CAT
1 CAT
7343601 CCAAAATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 6 0.35
16 5 0.29
ACGTcount: A:0.48, C:0.27, G:0.03, T:0.21
Consensus pattern (16 bp):
CATATCAATCCAAGAA
Found at i:7345061 original size:21 final size:21
Alignment explanation
Indices: 7345035--7345080 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
7345025 TGTAGTTTTC
7345035 AAAACAACATAA-TTAAAATCA
1 AAAACAACA-AATTTAAAATCA
*
7345056 AAAACATCAAATTTTAAAATCA
1 AAAACAACAAA-TTTAAAATCA
7345078 AAA
1 AAA
7345081 CATTTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 2 0.09
21 8 0.36
22 12 0.55
ACGTcount: A:0.65, C:0.13, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAACAACAAATTTAAAATCA
Found at i:7349503 original size:22 final size:23
Alignment explanation
Indices: 7349455--7349503 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
7349445 TTTCAAATCG
* * *
7349455 AAATTTTCTTTTTCAATGCTTTC
1 AAATTTTATTTTTCAAAGCTCTC
*
7349478 AAATTTTATTTTTGAAAGCTCT-
1 AAATTTTATTTTTCAAAGCTCTC
7349500 AAAT
1 AAAT
7349504 CCTTCTTCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.51
Consensus pattern (23 bp):
AAATTTTATTTTTCAAAGCTCTC
Found at i:7354139 original size:2 final size:2
Alignment explanation
Indices: 7354134--7354202 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
7354124 TTTATCTTTG
7354134 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
7354176 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7354203 TAAATTTTAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7354452 original size:15 final size:16
Alignment explanation
Indices: 7354428--7354471 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
7354418 ATTTAAATTG
7354428 AAAATATAAAAAATAA
1 AAAATATAAAAAATAA
**
7354444 AAAAT-TAAATTATAA
1 AAAATATAAAAAATAA
7354459 AAAATACTAAAAA
1 AAAATA-TAAAAA
7354472 CATTATTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
15 13 0.59
16 5 0.23
17 4 0.18
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATATAAAAAATAA
Found at i:7354457 original size:22 final size:23
Alignment explanation
Indices: 7354422--7354464 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
7354412 TAAATTATTT
7354422 AAATTGAAAATATAAAAAATAAA
1 AAATTGAAAATATAAAAAATAAA
*
7354445 AAATT-AAATTATAAAAAATA
1 AAATTGAAAATATAAAAAATA
7354465 CTAAAAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (23 bp):
AAATTGAAAATATAAAAAATAAA
Found at i:7358075 original size:9 final size:9
Alignment explanation
Indices: 7358053--7358152 Score: 59
Period size: 9 Copynumber: 11.1 Consensus size: 9
7358043 GGGCCTGCAA
*
7358053 AAATAAAAT
1 AAATAATAT
* *
7358062 TAATAGTAT
1 AAATAATAT
7358071 AAATAATAT
1 AAATAATAT
7358080 -AATAATAAT
1 AAATAAT-AT
7358089 AATATAATA-
1 AA-ATAATAT
7358098 ATAATAA-AT
1 A-AATAATAT
7358107 -AATAATAAT
1 AAATAAT-AT
7358116 AAATAAT-T
1 AAATAATAT
*
7358124 ATTATAATAT
1 A-AATAATAT
*
7358134 ATATATATAT
1 AAATA-ATAT
7358144 AAAT-ATAT
1 AAATAATAT
7358152 A
1 A
7358153 TTTAAGCCTG
Statistics
Matches: 73, Mismatches: 7, Indels: 23
0.71 0.07 0.22
Matches are distributed among these distances:
7 5 0.07
8 14 0.19
9 31 0.42
10 18 0.25
11 5 0.07
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (9 bp):
AAATAATAT
Found at i:7358084 original size:3 final size:3
Alignment explanation
Indices: 7358072--7358132 Score: 72
Period size: 3 Copynumber: 20.3 Consensus size: 3
7358062 TAATAGTATA
7358072 AAT AAT -AT AAT AAT AAT AAT -AT AAT AAT AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* *
7358116 AAAT AAT TAT TAT AAT A
1 -AAT AAT AAT AAT AAT A
7358133 TATATATATA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
2 4 0.08
3 42 0.81
4 6 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:7358089 original size:14 final size:14
Alignment explanation
Indices: 7358072--7358134 Score: 94
Period size: 13 Copynumber: 4.6 Consensus size: 14
7358062 TAATAGTATA
7358072 AATAATATAATAAT
1 AATAATATAATAAT
7358086 AATAATATAATAAT
1 AATAATATAATAAT
7358100 AATAA-ATAATAAT
1 AATAATATAATAAT
*
7358113 AATAA-ATAATTAT
1 AATAATATAATAAT
*
7358126 TATAATATA
1 AATAATATA
7358135 TATATATATA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
13 24 0.52
14 22 0.48
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AATAATATAATAAT
Found at i:7358849 original size:86 final size:85
Alignment explanation
Indices: 7358657--7358908 Score: 299
Period size: 86 Copynumber: 3.0 Consensus size: 85
7358647 TTTTACACCT
* * * * *
7358657 TTGAGCCAAGCTGTAAATTTGACATGCCTTTGAGCCGAA-TGGAATCGAACTCGAAGGTATTTTT
1 TTGAGCTAAGCTGTAAATTTGATATGCCTTTGAG-CTAAGTGTAATCGAACTCGAAGGTCTTTTT
* *
7358721 TGACAGATAACCCTTCTCGCC
65 TGACAGAGAACCCTTCTAGCC
*
7358742 TTGAGTTAAGCTGTAAATTTGATATGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTCTTTTGT
1 TTGAGCTAAGCTGTAAATTTGATATGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTCTTTT-T
* *
7358807 TGATAGAGAGCCCTTCTAGCC
65 TGACAGAGAACCCTTCTAGCC
* * ** * * * **
7358828 TTGAGCTATGCTGTAAATTTGATGTGCCTCAGAGCTGAGTGTAATCGAATTCGAGGGTCTTGGTT
1 TTGAGCTAAGCTGTAAATTTGATATGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTCTTTTTT
*
7358893 GACAGATAACCCTTCT
66 GACAGAGAACCCTTCT
7358909 CGCCATAAGT
Statistics
Matches: 142, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
84 3 0.02
85 68 0.48
86 71 0.50
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (85 bp):
TTGAGCTAAGCTGTAAATTTGATATGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTCTTTTTT
GACAGAGAACCCTTCTAGCC
Found at i:7359269 original size:121 final size:121
Alignment explanation
Indices: 7359055--7359809 Score: 1123
Period size: 121 Copynumber: 6.2 Consensus size: 121
7359045 TTGAATTGGA
* * * *
7359055 CGTGAAGTTGAAATTCAAGGGTTGTATTGCTTCTTGTGGGCACGATATTCTTCGTCGTGAAGTTG
1 CGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTG
* *
7359120 AAATTGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGT
66 AAATCGTGGATGGCTCCTTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGT
* * * * *
7359176 CGTGAAGTTGAAATCCAAGGGTTACATTGCTGCATGTGGGTACGATATTCTTCGTCGTGAAGTTA
1 CGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTG
* * * *
7359241 AAATCATGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTAAATTGGATATCCTTCGT
66 AAATCGTGGATGGCTCCTTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGT
* * * * *
7359297 CGTGAAGTTAAAATCCAAGGGTTGTATTGTTGCTTGTGGGCAAGATATCCTTCGTCGTGAAGTTA
1 CGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTG
* * * * *
7359362 AAATTGTGGATGACCCCTTCGTTGTAAAGTTGAGCCTTGAATTGGATATCCTTCGT
66 AAATCGTGGATGGCTCCTTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGT
* * *
7359418 CGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTGGGAATGATATCCTTCGTCATGAAGTTG
1 CGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTG
* **
7359483 AAATTGTGGATGGCTCCTTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTTTT
66 AAATCGTGGATGGCTCCTTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGT
* *
7359539 CGTGAAGTTGAAATCCAAGGGTTGCATTGATGCTTGTGGGCACGACATCCTTCGTCGTGAAGTTG
1 CGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTG
* * * *
7359604 AAATCATAGATGGCTTCTTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCAT
66 AAATCGTGGATGGCTCCTTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGT
* * *
7359660 CGTGAAGTTGAAATCCAAGGGTTGCGTTGCTGCTTGTTGGTACGATATCCTTCGTCGTGAAGTTG
1 CGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTG
* *
7359725 AAATCGTGGATGGATCCTTCGTTGTGAAGTTGAGCTTTAAATTGGATATCCTTCGT
66 AAATCGTGGATGGCTCCTTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGT
*
7359781 CGTGAAGTTGAAATCTAAGGGTTGCATTG
1 CGTGAAGTTGAAATCCAAGGGTTGCATTG
7359810 TTTCGAGTTC
Statistics
Matches: 571, Mismatches: 63, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
121 571 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (121 bp):
CGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTG
AAATCGTGGATGGCTCCTTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGT
Found at i:7359932 original size:64 final size:64
Alignment explanation
Indices: 7359814--7359983 Score: 250
Period size: 64 Copynumber: 2.7 Consensus size: 64
7359804 GCATTGTTTC
* * *
7359814 GAGTTCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTAAATAAAACTTGAAAGTTATTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTAACTCTAAATAAAACTGGAAAGTTATTTGTT
* * * * *
7359878 GAGTCCAATATCCTTCCCTGTGAAGTTGAAATTAACTCTGAATGAATCTGGAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTAACTCTAAATAAAACTGGAAAGTTATTTGTT
* *
7359942 GAGTCCAATATCCTTCGTTGTGAATTTGAAATTAACTCTAAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTAACTCTAAA
7359984 AGCTACAAAA
Statistics
Matches: 94, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 94 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (64 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTAACTCTAAATAAAACTGGAAAGTTATTTGTT
Found at i:7365458 original size:17 final size:18
Alignment explanation
Indices: 7365436--7365474 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
7365426 AGTTTTTATG
* *
7365436 AAAACAT-AATTGAATCA
1 AAAACATCAATTAAAACA
7365453 AAAACATCAATTAAAACA
1 AAAACATCAATTAAAACA
7365471 AAAA
1 AAAA
7365475 TTTTTGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.67, C:0.13, G:0.03, T:0.18
Consensus pattern (18 bp):
AAAACATCAATTAAAACA
Found at i:7365920 original size:20 final size:21
Alignment explanation
Indices: 7365867--7365927 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 21
7365857 ATTCTCCTAC
7365867 AGGGGGAATCGGTTCCCATTCAA
1 AGGGGGAATCGGTTCCC-TT-AA
7365890 AGGGGGAATCGGTTCCCTT-A
1 AGGGGGAATCGGTTCCCTTAA
* * *
7365910 TGGGGGTATCGATTCCCT
1 AGGGGGAATCGGTTCCCT
7365928 CTGCCAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 16 0.46
22 2 0.06
23 17 0.49
ACGTcount: A:0.20, C:0.21, G:0.33, T:0.26
Consensus pattern (21 bp):
AGGGGGAATCGGTTCCCTTAA
Found at i:7372217 original size:46 final size:45
Alignment explanation
Indices: 7372147--7372254 Score: 164
Period size: 46 Copynumber: 2.4 Consensus size: 45
7372137 CGGTATATGG
* * *
7372147 TTATGGAAT-AATGGCAAGTGTATTGGTAAAATAAGCTTACGAGC
1 TTATGGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
7372191 TTATGGTATTAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGGA-TAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
7372237 TTATGGGATAAATGGTAA
1 TTATGGGATAAATGGTAA
7372255 AAGATTTTAT
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
44 7 0.12
45 11 0.19
46 40 0.69
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.32
Consensus pattern (45 bp):
TTATGGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
Found at i:7375655 original size:12 final size:12
Alignment explanation
Indices: 7375638--7375664 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7375628 TAATTTGCGA
7375638 AAATTGAAATTT
1 AAATTGAAATTT
7375650 AAATTGAAATTT
1 AAATTGAAATTT
7375662 AAA
1 AAA
7375665 AAATTCAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (12 bp):
AAATTGAAATTT
Found at i:7382416 original size:3 final size:3
Alignment explanation
Indices: 7382404--7382437 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
7382394 TAATAGTATA
7382404 AAT AAT -AT AAT AAT AATT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT A
7382438 TCTATATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:7382423 original size:27 final size:26
Alignment explanation
Indices: 7382386--7382438 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
7382376 GGCCTGTAAA
*
7382386 AATAAAATTAATAGT-ATAAATAATAT
1 AATAAAATTAATAATAAT-AATAATAT
7382412 AATAATAATTAATAATAATAATAATAT
1 AATAA-AATTAATAATAATAATAATAT
7382439 CTATATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 5 0.21
27 17 0.71
28 2 0.08
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (26 bp):
AATAAAATTAATAATAATAATAATAT
Found at i:7382431 original size:16 final size:15
Alignment explanation
Indices: 7382401--7382436 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
7382391 AATTAATAGT
*
7382401 ATAAATAATATAATA
1 ATAATTAATATAATA
7382416 ATAATTAATAATAATA
1 ATAATTAAT-ATAATA
7382432 ATAAT
1 ATAAT
7382437 ATCTATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAATTAATATAATA
Found at i:7382743 original size:79 final size:78
Alignment explanation
Indices: 7382574--7382738 Score: 219
Period size: 79 Copynumber: 2.1 Consensus size: 78
7382564 TGACAAAAAT
* *
7382574 ATATCCGTCATCTATTGTTTCAATTATAACACCAATTATCATCATCTATCGTCTCCGATGGTCAT
1 ATATCCCTCATCTATTGTTTCAATTATAACACCAATTATCATCAGCTATCGTCTCCGATGGTCAT
* * **
7382639 CTATTATTTCAATT
66 CTA-TACTCCAAAC
*
7382653 ATATCCGTCATCTATTGTTTCAATTATAACACCAATTATCATCAGCTATCGTCTCCGATGGTCAT
1 ATATCCCTCATCTATTGTTTCAATTATAACACCAATTATCATCAGCTATCGTCTCCGATGGTCAT
7382718 -TGA-ACTCCAAAAC
66 CT-ATACTCC-AAAC
7382731 AT-TCCCTC
1 ATATCCCTC
7382739 TCATCCTTCT
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
77 8 0.10
78 5 0.06
79 65 0.83
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (78 bp):
ATATCCCTCATCTATTGTTTCAATTATAACACCAATTATCATCAGCTATCGTCTCCGATGGTCAT
CTATACTCCAAAC
Found at i:7385188 original size:18 final size:18
Alignment explanation
Indices: 7385165--7385207 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
7385155 CTTTAGATTA
*
7385165 TTTATTTAATTATTTTCT
1 TTTATTTAATTATTATCT
*
7385183 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATCT
7385201 TTTATTT
1 TTTATTT
7385208 TAAAAACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:7385305 original size:5 final size:5
Alignment explanation
Indices: 7385255--7385356 Score: 57
Period size: 5 Copynumber: 19.4 Consensus size: 5
7385245 CTATTATTTA
* * * *
7385255 TTATT TTATT ATATT TCTCTT TTA-T TTATT ATTATT ATAAT TTATT TTATT
1 TTATT TTATT TTATT T-TATT TTATT TTATT -TTATT TTATT TTATT TTATT
* *
7385306 TTA-T TTATT TTCACACTT ATT-TT TTATT TTATT TTGTT TAATTT TTATT
1 TTATT TTATT TT---A-TT -TTATT TTATT TTATT TTATT TTA-TT TTATT
7385355 TT
1 TT
7385357 CTCTTTTAAC
Statistics
Matches: 74, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
4 10 0.14
5 46 0.62
6 13 0.18
8 1 0.01
9 2 0.03
10 2 0.03
ACGTcount: A:0.23, C:0.05, G:0.01, T:0.72
Consensus pattern (5 bp):
TTATT
Found at i:7390117 original size:200 final size:200
Alignment explanation
Indices: 7389759--7390536 Score: 957
Period size: 200 Copynumber: 3.9 Consensus size: 200
7389749 AAAGGAACCT
* * * *
7389759 TTTACAGCATAGCTCAAGGCGATAAGGGTTATCTGTCAACAAAACTTTCAAGTTCGATTTCATTC
1 TTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAACTTTCGAGTTCGATTCCATTC
* ** * * * *
7389824 AGCTTGAAGGCATATCAACCACATATTAGTAACGAGGAACAACTTTTCGGTTGAAGTTTAAACCG
66 AGCTCGAAGGCATATCAACCACATGGTAGCAACGAGGAACTACTTTCCGATTGAAGTTTAAACCG
* * * * * *
7389889 AGTTCTTTAAGTCAAGATGAAGACCTAGGTTGGGTGCGATTTAGCAATAATGAACTATCTCGCAG
131 AGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGATTTAGCAAAAATGAACTATCTCCCAA
7389954 CCGAA
196 CCGAA
* * * *
7389959 TTTACATCATAACTCAAGGCGAGAAGAGCTATCTGTCAATAAAACTTTCGAGTTCGATTCCATTC
1 TTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAACTTTCGAGTTCGATTCCATTC
* * * * * *
7390024 AGCTCGAAGGTATATCAATCGCATGGTAGCAACAAGGAACTACTTTTCGATTGAAGTTTAAACTG
66 AGCTCGAAGGCATATCAACCACATGGTAGCAACGAGGAACTACTTTCCGATTGAAGTTTAAACCG
* * * *
7390089 AGGTCTTTAAGTCAAGAAGAATACCTAGGTTGACTGCGATTTAGCAACAAGGAACTATCTCCCAA
131 AGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGATTTAGCAAAAATGAACTATCTCCCAA
7390154 CCGAA
196 CCGAA
* * * *
7390159 TTTACAACATAGCTCAAGGCGAGAAGGGCTATCTGTCCACGAAACTTTCGTGTTCGATTCCATTC
1 TTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAACTTTCGAGTTCGATTCCATTC
*** *
7390224 AGCGT-GAAGGCATA-CAAATGCATGGTAGCAACGAGGAACTACTTTCCGATTGAAGTTTAAACT
66 AGC-TCGAAGGCATATCAACCACATGGTAGCAACGAGGAACTACTTTCCGATTGAAGTTTAAACC
* * * *
7390287 GAGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCAGTGATTTAGCAAAAATAAATTATCTCCCA
130 GAGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGATTTAGCAAAAATGAACTATCTCCCA
*
7390352 ACCGAT
195 ACCGAA
* * *
7390358 TTTACAGCATAGCTCAAGACGAGAGGGGCTATCTGTCAACAAAAACTTTCGAGTTCGATTACATT
1 TTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAAC-AAAACTTTCGAGTTCGATTCCATT
* * * ** * *
7390423 CAGCTCGAGGGCATATCAACCATATGGTGGCATTGAGGAACTACTTTCCGGTTGAATTTTCAAAC
65 CAGCTCGAAGGCATATCAACCACATGGTAGCAACGAGGAACTACTTTCCGATTGAAGTTT-AAAC
* * * * * * * *
7390488 CCAGGTCTTTAAATCGAGAAGAATACCAAGGTTGACTACGATTTGGCAA
129 CGAGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGATTTAGCAA
7390537 CAAGAAGCCA
Statistics
Matches: 496, Mismatches: 77, Indels: 8
0.85 0.13 0.01
Matches are distributed among these distances:
199 144 0.29
200 274 0.55
201 36 0.07
202 42 0.08
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (200 bp):
TTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAACTTTCGAGTTCGATTCCATTC
AGCTCGAAGGCATATCAACCACATGGTAGCAACGAGGAACTACTTTCCGATTGAAGTTTAAACCG
AGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGATTTAGCAAAAATGAACTATCTCCCAA
CCGAA
Found at i:7391182 original size:18 final size:18
Alignment explanation
Indices: 7391132--7391168 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
7391122 CTCAATCTTT
7391132 TTAG-ATTATTTATTTAA
1 TTAGTATTATTTATTTAA
7391149 TTAGTATTATTTATTTAA
1 TTAGTATTATTTATTTAA
7391167 TT
1 TT
7391169 CTTATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TTAGTATTATTTATTTAA
Found at i:7391285 original size:23 final size:23
Alignment explanation
Indices: 7391228--7391286 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 23
7391218 CTACTACTAT
7391228 TTATTATTTTATTATATTTCTTTG
1 TTATT-TTTTATTATATTTCTTTG
*
7391252 TTATTTATTATTAT-TTTCTTTTG
1 TTATTTTTTATTATATTTC-TTTG
7391275 TT-TTGTTTTATT
1 TTATT-TTTTATT
7391287 TTCCCACTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 6 0.19
23 20 0.65
24 5 0.16
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.75
Consensus pattern (23 bp):
TTATTTTTTATTATATTTCTTTG
Found at i:7403992 original size:36 final size:36
Alignment explanation
Indices: 7403946--7404139 Score: 133
Period size: 36 Copynumber: 5.3 Consensus size: 36
7403936 TATCTTATTT
*
7403946 GAGATAGTTTTCCTTAAAACAAATTTCGTCTCACTC
1 GAGATAGTTTTCCTTAAAACAAATTTCATCTCACTC
* * * * * * *
7403982 GAGGTAGTTTTTCTCGAAATAAAAATTTTATCTCGCTT
1 GAGATAGTTTTCCT-TAAA-ACAAATTTCATCTCACTC
* * * *
7404020 GAGATAGTTTTCATTAAAATAAGTTTCTTCTCACTC
1 GAGATAGTTTTCCTTAAAACAAATTTCATCTCACTC
* * *
7404056 AAGATA--TTTCCTCTCAAAACAAAAATTTCATCTCGCTT
1 GAGATAGTTTTCCT-T-AAAAC--AAATTTCATCTCACTC
* * *
7404094 GAGATAGTTTTCCTTAAAATAAGTTTTC-TCTCACTT
1 GAGATAGTTTTCCTTAAAACAA-ATTTCATCTCACTC
*
7404130 GAGACAGTTT
1 GAGATAGTTT
7404140 CTCTCAAAAT
Statistics
Matches: 119, Mismatches: 30, Indels: 18
0.71 0.18 0.11
Matches are distributed among these distances:
34 5 0.04
35 1 0.01
36 51 0.43
37 10 0.08
38 45 0.38
39 1 0.01
40 6 0.05
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (36 bp):
GAGATAGTTTTCCTTAAAACAAATTTCATCTCACTC
Found at i:7404022 original size:74 final size:73
Alignment explanation
Indices: 7403910--7404169 Score: 276
Period size: 74 Copynumber: 3.5 Consensus size: 73
7403900 ATCTCCCTTT
* * *** *
7403910 AGATAGTTTATCTTC-AAATAAAAA-ATTATCTTATTTGAGATAGTTTTCCTTAAAACAAATTTC
1 AGATAGTTTCTC-TCAAAATAAAAATTTTATCTCGCTTGAGATAGTTTTCCTTAAAATAAATTTC
7403973 GTCTCACTCG
65 -TCTCACTCG
* * * * *
7403983 AGGTAGTTTTTCTCGAAATAAAAATTTTATCTCGCTTGAGATAGTTTTCATTAAAATAAGTTTCT
1 AGATAGTTTCTCTCAAAATAAAAATTTTATCTCGCTTGAGATAGTTTTCCTTAAAATAAATTTC-
*
7404048 TCTCACTCA
65 TCTCACTCG
* * *
7404057 AGATA-TTTCCTCTCAAAACAAAAATTTCATCTCGCTTGAGATAGTTTTCCTTAAAATAAGTTTT
1 AGATAGTTT-CTCTCAAAATAAAAATTTTATCTCGCTTGAGATAGTTTTCCTTAAAATAA-ATTT
*
7404121 CTCTCACTTG
64 CTCTCACTCG
* *
7404131 AGACAGTTTCTCTCAAAATATAAAA-TTTATCTCCCTTGA
1 AGATAGTTTCTCTCAAAATA-AAAATTTTATCTCGCTTGA
7404170 AACAAATTTG
Statistics
Matches: 157, Mismatches: 24, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
72 2 0.01
73 22 0.14
74 122 0.78
75 11 0.07
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (73 bp):
AGATAGTTTCTCTCAAAATAAAAATTTTATCTCGCTTGAGATAGTTTTCCTTAAAATAAATTTCT
CTCACTCG
Found at i:7404613 original size:137 final size:135
Alignment explanation
Indices: 7404458--7405101 Score: 647
Period size: 137 Copynumber: 4.7 Consensus size: 135
7404448 GGATGAATCG
* * *
7404458 TTTGTAATCTAAATTAACTCAACAACGAGGAGCTATTTTCCAGTCAAGATTTTTGAGCCAAATTT
1 TTTGCAATCTAGATTAACTCAACAACGAGGAGCTATTTTCCAGTCAAGATTTTTGAGTCAAATTT
* *
7404523 CAACTTCACGATGAAAGATATTTGGATTCGAAAGAAAATTCAAAATTGACTTAACTCCTAATGGA
66 CAACTTCACGATGAAAGATATTTGGATTCGAAAGCAAATTCAAAATCGACTTAACTCC-AATGGA
7404588 GG-GATC
130 GGAG-TC
** ** *
7404594 TTCTGCAATCTATTTTAACTCAACAGGGAGGAGCTATTTTCCAGTCAAGATTTTTTAGTC-AATT
1 TT-TGCAATCTAGATTAACTCAACAACGAGGAGCTATTTTCCAGTCAAGATTTTTGAGTCAAATT
** * * *
7404658 TCAACTTCAC-AACAAAGGATATTTGGGTTTGAAAGCCAATTCAAAATCGACTTAACTCGCAATG
65 TCAACTTCACGATGAAA-GATATTTGGATTCGAAAGCAAATTCAAAATCGACTTAACTC-CAATG
7404722 GAGGAGTC
128 GAGGAGTC
* * * * * * * *
7404730 GTCTGCAATCTAGCTTAAGTCAACAAAGATGAACTATTTTTCAATCAAGATTTTTGAGTCAAATT
1 -TTTGCAATCTAGATTAACTCAACAACGAGGAGCTATTTTCCAGTCAAGATTTTTGAGTCAAATT
* * * * *
7404795 TCAACTTCATGAAT-AAGGATATTCT-TATTTGAAAGCAAATTCAAAATCGACTTAATTCGCAAT
65 TCAACTTCACG-ATGAAAGATATT-TGGATTCGAAAGCAAATTCAAAATCGACTTAACTC-CAAT
*
7404858 GGAAGAGT-
127 GGAGGAGTC
* * * *
7404866 TGTATGCAATCTAGCTTAACTCAACAACAAGGAGCTATTTTCCAATCAAGATTTTTGAGTTAAAT
1 T-T-TGCAATCTAGATTAACTCAACAACGAGGAGCTATTTTCCAGTCAAGATTTTTGAGTCAAAT
* * ** *
7404931 TTCAACTTCATGATG-AAGAATATTTGGATTCAAAAGCAAATTCAAAATAAACTTAACTTGCAAT
64 TTCAACTTCACGATGAAAG-ATATTTGGATTCGAAAGCAAATTCAAAATCGACTTAAC-TCCAAT
* *
7404995 GGAGAATTC
127 GGAGGAGTC
* * * * * *
7405004 GTTTGTAATTTAGATTAACTCAACAACGAGGAGTTATTTTCTAGCCAAGATTCTTTGAGTCAATT
1 -TTTGCAATCTAGATTAACTCAACAACGAGGAGCTATTTTCCAGTCAAGATT-TTTGAGTCAAAT
* * * *
7405069 TTCTACTTCACGACGAAGGATA-TTGGACTCGAA
64 TTCAACTTCACGATGAAAGATATTTGGATTCGAA
7405102 GAACACCCAA
Statistics
Matches: 421, Mismatches: 68, Indels: 37
0.80 0.13 0.07
Matches are distributed among these distances:
135 5 0.01
136 114 0.27
137 268 0.64
138 30 0.07
139 4 0.01
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (135 bp):
TTTGCAATCTAGATTAACTCAACAACGAGGAGCTATTTTCCAGTCAAGATTTTTGAGTCAAATTT
CAACTTCACGATGAAAGATATTTGGATTCGAAAGCAAATTCAAAATCGACTTAACTCCAATGGAG
GAGTC
Found at i:7404920 original size:273 final size:274
Alignment explanation
Indices: 7404427--7405101 Score: 747
Period size: 273 Copynumber: 2.5 Consensus size: 274
7404417 GAGAACACCT
* * * *
7404427 AAAATTGACTTAACTTGTAATGGATGAATCGTTTGTAATCTAAATTAACTCAACAACGAGGAGCT
1 AAAATAGACTTAACTTGCAATGGAGGAATCGTTTGTAATCTAGATTAACTCAACAACGAGGAGCT
* * *
7404492 ATTTTCCAGTCAAGATTTTTGAGCCAAATTTCAACTTCACG-ATGAAAGATATTTGGATTCGAAA
66 ATTTTTCAGTCAAGATTTTTGAGTCAAATTTCAACTTCACGAAT-AAGGATATTTGGATTCGAAA
* * * ** **
7404556 GAAAATTCAAAATTGACTTAACTCCTAATGGAGGGATCTTCTGCAATCTATTTTAACTCAACAGG
130 GAAAATTCAAAATCGACTTAACTCCTAATGGAGAGATCTTATGCAATCTAGCTTAACTCAACAAC
* * * * * *
7404621 GAGGAGCTATTTTCCAGTCAAGATTTTTTAG-TCAATTTCAACTTCACAACAAAGGATATTTGGG
195 AAGGAGCTATTTTCCAATCAAGATTTTTGAGTTAAATTTCAACTTCACAACAAAGAATATTTGGA
** *
7404685 TTTGAAAGCCAATTC
260 TTCAAAAGCAAATTC
* * * * * * * * * *
7404700 AAAATCGACTTAACTCGCAATGGAGGAGTCGTCTGCAATCTAGCTTAAGTCAACAAAGATGAACT
1 AAAATAGACTTAACTTGCAATGGAGGAATCGTTTGTAATCTAGATTAACTCAACAACGAGGAGCT
* * * *
7404765 ATTTTTCAATCAAGATTTTTGAGTCAAATTTCAACTTCATGAATAAGGATATTCT-TATTTGAAA
66 ATTTTTCAGTCAAGATTTTTGAGTCAAATTTCAACTTCACGAATAAGGATATT-TGGATTCGAAA
* *
7404829 GCAAATTCAAAATCGACTTAATTCGC-AATGGA-AGAGT-TGTATGCAATCTAGCTTAACTCAAC
130 GAAAATTCAAAATCGACTTAACTC-CTAATGGAGAGA-TCT-TATGCAATCTAGCTTAACTCAAC
** **
7404891 AACAAGGAGCTATTTTCCAATCAAGATTTTTGAGTTAAATTTCAACTTCATGATGAAGAATATTT
192 AACAAGGAGCTATTTTCCAATCAAGATTTTTGAGTTAAATTTCAACTTCACAACAAAGAATATTT
7404956 GGATTCAAAAGCAAATTC
257 GGATTCAAAAGCAAATTC
* * *
7404974 AAAATAAACTTAACTTGCAATGGA-GAATTCGTTTGTAATTTAGATTAACTCAACAACGAGGAGT
1 AAAATAGACTTAACTTGCAATGGAGGAA-TCGTTTGTAATCTAGATTAACTCAACAACGAGGAGC
* * * ** *
7405038 TA-TTTTCTAGCCAAGATTCTTTGAGTCAATTTTCTACTTCACGACGAAGGATA-TTGGACTCGA
65 TATTTTTC-AGTCAAGATT-TTTGAGTCAAATTTCAACTTCACGAATAAGGATATTTGGATTCGA
7405101 A
128 A
7405102 GAACACCCAA
Statistics
Matches: 327, Mismatches: 65, Indels: 19
0.80 0.16 0.05
Matches are distributed among these distances:
272 3 0.01
273 189 0.58
274 106 0.32
275 29 0.09
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (274 bp):
AAAATAGACTTAACTTGCAATGGAGGAATCGTTTGTAATCTAGATTAACTCAACAACGAGGAGCT
ATTTTTCAGTCAAGATTTTTGAGTCAAATTTCAACTTCACGAATAAGGATATTTGGATTCGAAAG
AAAATTCAAAATCGACTTAACTCCTAATGGAGAGATCTTATGCAATCTAGCTTAACTCAACAACA
AGGAGCTATTTTCCAATCAAGATTTTTGAGTTAAATTTCAACTTCACAACAAAGAATATTTGGAT
TCAAAAGCAAATTC
Found at i:7407705 original size:43 final size:44
Alignment explanation
Indices: 7407649--7408020 Score: 442
Period size: 43 Copynumber: 8.7 Consensus size: 44
7407639 AGGTCTTATA
* *
7407649 CTTGCACATAGCAAAAGAG-CCT-GGGGAATCTTTAAGGCTTACC
1 CTTGCACACAGCAAAAGAGACCTGGGGGAA-CTGTAAGGCTTACC
* *
7407692 CTTGCACACAGCAAAGGA-ACCT-GGGAAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAAGAGACCTGGGGGAACTGTAAGGCTTACC
* * * * *
7407734 CTTGCACACAGCAAAGGA-AACTGGGAGAACTGTACGGCTTATC
1 CTTGCACACAGCAAAAGAGACCTGGGGGAACTGTAAGGCTTACC
* * *
7407777 CTTGCACATAGCAAATG-GACCTGGGGGAATTGTAAGGCTTACC
1 CTTGCACACAGCAAAAGAGACCTGGGGGAACTGTAAGGCTTACC
*
7407820 CTTGCACACAGC-AAAGGGACCTGGGGGAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAAGAGACCTGGGGGAACTGTAAGGCTTACC
* * *
7407863 CTTGCACACAGC-AAAGAGGCCTGGGGGAATTATAAGGCTTACC
1 CTTGCACACAGCAAAAGAGACCTGGGGGAACTGTAAGGCTTACC
* *
7407906 CTTGCACACAGC-AAAGGGACCTGGGGGAACTGTAAGGCTTATC
1 CTTGCACACAGCAAAAGAGACCTGGGGGAACTGTAAGGCTTACC
* * * *
7407949 ATTGCACACATC-AAAGGGACCTGGGGGAACTGTAAGGCTTGCC
1 CTTGCACACAGCAAAAGAGACCTGGGGGAACTGTAAGGCTTACC
* *
7407992 CTTGCACACAGC-AAAGGGACTTGGGGGAA
1 CTTGCACACAGCAAAAGAGACCTGGGGGAA
7408021 ACTATAACGG
Statistics
Matches: 290, Mismatches: 35, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
42 37 0.13
43 253 0.87
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (44 bp):
CTTGCACACAGCAAAAGAGACCTGGGGGAACTGTAAGGCTTACC
Found at i:7407844 original size:86 final size:85
Alignment explanation
Indices: 7407649--7408020 Score: 498
Period size: 86 Copynumber: 4.3 Consensus size: 85
7407639 AGGTCTTATA
* * *
7407649 CTTGCACATAGCAAA-AGAGCCT-GGGGAATCTTTAAGGCTTACCCTTGCACACAGCAAAGGAAC
1 CTTGCACACAGCAAAGGGA-CCTGGGGGAA-CTGTAAGGCTTACCCTTGCACACAGCAAAGG-AC
*
7407712 CT-GGGAAACTGTAAGGCTTACC
63 CTGGGGGAACTGTAAGGCTTACC
* * * * * *
7407734 CTTGCACACAGCAAAGGAAACTGGGAGAACTGTACGGCTTATCCTTGCACATAGCAAATGGACCT
1 CTTGCACACAGCAAAGGGACCTGGGGGAACTGTAAGGCTTACCCTTGCACACAGCAAA-GGACCT
*
7407799 GGGGGAATTGTAAGGCTTACC
65 GGGGGAACTGTAAGGCTTACC
*
7407820 CTTGCACACAGCAAAGGGACCTGGGGGAACTGTAAGGCTTACCCTTGCACACAGCAAAGAGGCCT
1 CTTGCACACAGCAAAGGGACCTGGGGGAACTGTAAGGCTTACCCTTGCACACAGCAAAG-GACCT
* *
7407885 GGGGGAATTATAAGGCTTACC
65 GGGGGAACTGTAAGGCTTACC
* * *
7407906 CTTGCACACAGCAAAGGGACCTGGGGGAACTGTAAGGCTTATCATTGCACACATCAAAGGGACCT
1 CTTGCACACAGCAAAGGGACCTGGGGGAACTGTAAGGCTTACCCTTGCACACAGCAAA-GGACCT
*
7407971 GGGGGAACTGTAAGGCTTGCC
65 GGGGGAACTGTAAGGCTTACC
*
7407992 CTTGCACACAGCAAAGGGACTTGGGGGAA
1 CTTGCACACAGCAAAGGGACCTGGGGGAA
7408021 ACTATAACGG
Statistics
Matches: 254, Mismatches: 27, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
85 46 0.18
86 207 0.81
87 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (85 bp):
CTTGCACACAGCAAAGGGACCTGGGGGAACTGTAAGGCTTACCCTTGCACACAGCAAAGGACCTG
GGGGAACTGTAAGGCTTACC
Found at i:7407909 original size:129 final size:127
Alignment explanation
Indices: 7407649--7408027 Score: 510
Period size: 129 Copynumber: 2.9 Consensus size: 127
7407639 AGGTCTTATA
* * *
7407649 CTTGCACATAGCAAAAGAGCCT-GGGGAATCTTTAAGGCTTACCCTTGCACACAGCAAAGGAACC
1 CTTGCACATAGCAAAGGA-CCTGGGGGAAT-TGTAAGGCTTACCCTTGCACACAGCAAAGGGACC
* ** * * * *
7407713 T-GGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAAACTGGGAGAACTGTACGGCTTATC
64 TGGGGGAACTGTAAGGCTTACCCTTGCACACAGCAAAGG-GCCTGGGGGAACTATAAGGCTTACC
7407777 CTTGCACATAGCAAATGGACCTGGGGGAATTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCT
1 CTTGCACATAGCAAA-GGACCTGGGGGAATTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCT
*
7407842 GGGGGAACTGTAAGGCTTACCCTTGCACACAGCAAAGAGGCCTGGGGGAATTATAAGGCTTACC
65 GGGGGAACTGTAAGGCTTACCCTTGCACACAGCAAAG-GGCCTGGGGGAACTATAAGGCTTACC
* * * * *
7407906 CTTGCACACAGCAAAGGGACCTGGGGGAACTGTAAGGCTTATCATTGCACACATCAAAGGGACCT
1 CTTGCACATAGCAAA-GGACCTGGGGGAATTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCT
* *
7407971 GGGGGAACTGTAAGGCTTGCCCTTGCACACAGCAAAGGGACTTGGGGGAAACTATAA
65 GGGGGAACTGTAAGGCTTACCCTTGCACACAGCAAAGGG-CCTGGGGG-AACTATAA
7408028 CGGTAATTAA
Statistics
Matches: 225, Mismatches: 20, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
128 53 0.24
129 164 0.73
130 8 0.04
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.19
Consensus pattern (127 bp):
CTTGCACATAGCAAAGGACCTGGGGGAATTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTG
GGGGAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGCCTGGGGGAACTATAAGGCTTACC
Found at i:7410821 original size:17 final size:16
Alignment explanation
Indices: 7410799--7410849 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 16
7410789 GGTCAATAGT
7410799 GGTCAACGTCGGTCAAC-
1 GGTCAACG--GGTCAACA
7410816 GGTCAACGGGTCAACA
1 GGTCAACGGGTCAACA
7410832 GGTC-A--GGTCAACA
1 GGTCAACGGGTCAACA
7410845 GGTCA
1 GGTCA
7410850 GGTCGGGTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 12 0.38
15 8 0.25
16 4 0.12
17 8 0.25
ACGTcount: A:0.27, C:0.25, G:0.31, T:0.16
Consensus pattern (16 bp):
GGTCAACGGGTCAACA
Found at i:7410842 original size:13 final size:13
Alignment explanation
Indices: 7410824--7410853 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
7410814 ACGGTCAACG
7410824 GGTCAACAGGTCA
1 GGTCAACAGGTCA
7410837 GGTCAACAGGTCA
1 GGTCAACAGGTCA
7410850 GGTC
1 GGTC
7410854 GGGTCAACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.27, C:0.23, G:0.33, T:0.17
Consensus pattern (13 bp):
GGTCAACAGGTCA
Found at i:7410872 original size:18 final size:18
Alignment explanation
Indices: 7410832--7410893 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
7410822 CGGGTCAACA
* * *
7410832 GGTCAGGTCAACAGGTCA
1 GGTCGGGTCAACGGGTCG
7410850 GGTCGGGTCAACGGGTCG
1 GGTCGGGTCAACGGGTCG
* *
7410868 GGTCGAGCCAACGGGTCG
1 GGTCGGGTCAACGGGTCG
7410886 GGTCGGGT
1 GGTCGGGT
7410894 TATGACCGGT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.16, C:0.23, G:0.45, T:0.16
Consensus pattern (18 bp):
GGTCGGGTCAACGGGTCG
Found at i:7418776 original size:30 final size:31
Alignment explanation
Indices: 7418719--7418776 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
7418709 CTTTGACTTA
* *
7418719 TGGAAGATGATAAAGTTTAGGTGTCTTGGTT
1 TGGAAGATGATAAAGGTTAGATGTCTTGGTT
7418750 TGGAAGATGAT-AAGGTTAGATGTCTTG
1 TGGAAGATGATAAAGGTTAGATGTCTTG
7418777 ATTTAATGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.28, C:0.03, G:0.33, T:0.36
Consensus pattern (31 bp):
TGGAAGATGATAAAGGTTAGATGTCTTGGTT
Found at i:7421343 original size:182 final size:181
Alignment explanation
Indices: 7421127--7421611 Score: 529
Period size: 183 Copynumber: 2.7 Consensus size: 181
7421117 AACAAGTTTT
* * *
7421127 ATTTATTGTTATATATTTTAATTATAGTGACAAAATGTATAGTCATAAATATTTTCTTCAAGTTT
1 ATTTATAGTTATATATTTTAATTATAGTGACAAAATGTATAGTCATAAATATTTCCTCCAA-TTT
* * *
7421192 TTGGTGCAAAAACA-AAAAGTTATAGAGTGAGAGGTTTTGTAACTATAACTTATAATAATTGTTA
65 TT--TGCAAAAAAACAAAAGTTATAGAATGACAGGTTTTGTAACTATAACTTATAATAATTGTTA
* * * *
7421256 CT-G-AAAAACTATCACAACAAATATTGAGATTCAATTTTTTTGTTACAAATTAC
128 -TAGAAAAAACTATCACAACAAATATTGAGATTCAAATTTTTGGTGAAAAATTAC
* * * * *
7421309 GTTTATAGTTATATATTTTAATTGTAGTGACAAAATGTATAGTCACAAATGCTTGCCTCCAATTT
1 ATTTATAGTTATATATTTTAATTATAGTGACAAAATGTATAGTCATAAAT-ATTTCCTCCAATTT
* * *
7421374 TTTGCAAAAAAACAAAAGTTATAGAATGACATGTTTTGTAACTTTAACTTATAATTATTGTTATA
65 TTTGCAAAAAAACAAAAGTTATAGAATGACAGGTTTTGTAACTATAACTTATAATAATTGTTATA
* * *
7421439 GAAAAAAATTATCACAACAAATATTGAGATTTAAATTTTTGGTGAAAAATTAT
130 G-AAAAAACTATCACAACAAATATTGAGATTCAAATTTTTGGTGAAAAATTAC
* * * * * *
7421492 ATTTGTAGTTATATATTTTAATTATAGTCA-AAAATATATTGCCATAAATATTTCC-CTTAATTT
1 ATTTATAGTTATATATTTTAATTATAGTGACAAAATGTATAGTCATAAATATTTCCTC-CAA-TT
* * * * **
7421555 TTTTG--ACACAA-AAAAGTTATATACTGACAAATTTTGTAACTATAAACTT-TAATAATT
64 TTTTGCAAAAAAACAAAAGTTATAGAATGACAGGTTTTGTAACTAT-AACTTATAATAATT
7421612 ATTACAAATA
Statistics
Matches: 255, Mismatches: 40, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
179 34 0.13
180 20 0.08
181 52 0.20
182 73 0.29
183 76 0.30
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (181 bp):
ATTTATAGTTATATATTTTAATTATAGTGACAAAATGTATAGTCATAAATATTTCCTCCAATTTT
TTGCAAAAAAACAAAAGTTATAGAATGACAGGTTTTGTAACTATAACTTATAATAATTGTTATAG
AAAAAACTATCACAACAAATATTGAGATTCAAATTTTTGGTGAAAAATTAC
Found at i:7421556 original size:181 final size:178
Alignment explanation
Indices: 7421127--7421616 Score: 531
Period size: 182 Copynumber: 2.7 Consensus size: 178
7421117 AACAAGTTTT
* *
7421127 ATTTATTGTTATATATTTTAATTATAGTGACAAAATGTATAGTCATAAATATTTTCTTCAAGTTT
1 ATTTATAGTTATATATTTTAATTATAGTGACAAAATGTATAGTCATAAATATTTCCTT-AA-TTT
* * *
7421192 TTGGTGCAAAAACAAAAAGTTATAGAGTGAGAGGTTTTGTAACTATAACTTATAATAATTGTTAC
64 TT--TGCAAAAAAAAAAAGTTATAGAATGACAGGTTTTGTAACTATAACTTATAATAATTGTTAC
* * * *
7421257 TGAAAAACTATCACAACAAATATTGAGATTCAATTTTTTTGTTACAAATTAC
127 TGAAAAACTATCACAACAAATATTGAGATTCAAATTTTTGGTGAAAAATTAC
* * * * * *
7421309 GTTTATAGTTATATATTTTAATTGTAGTGACAAAATGTATAGTCACAAATGCTTGCCTCCAATTT
1 ATTTATAGTTATATATTTTAATTATAGTGACAAAATGTATAGTCATAAAT-ATTTCCT-TAATTT
* * *
7421374 TTTGCAAAAAAACAAAAGTTATAGAATGACATGTTTTGTAACTTTAACTTATAATTATTGTTA-T
64 TTTGCAAAAAAA-AAAAGTTATAGAATGACAGGTTTTGTAACTATAACTTATAATAATTGTTACT
* * *
7421438 AGAAAAAAATTATCACAACAAATATTGAGATTTAAATTTTTGGTGAAAAATTAT
128 -G--AAAAACTATCACAACAAATATTGAGATTCAAATTTTTGGTGAAAAATTAC
* * * * *
7421492 ATTTGTAGTTATATATTTTAATTATAGTCA-AAAATATATTGCCATAAATATTTCCCTTAATTTT
1 ATTTATAGTTATATATTTTAATTATAGTGACAAAATGTATAGTCATAAATATTT-CCTTAA-TTT
* * * * ** *
7421556 TTTG--ACACAAAAAAGTTATATACTGACAAATTTTGTAACTATAAACTT-TAATAATTATTAC
64 TTTGCAAAAAAAAAAAGTTATAGAATGACAGGTTTTGTAACTAT-AACTTATAATAATTGTTAC
7421617 AAATAAAATA
Statistics
Matches: 257, Mismatches: 41, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
179 37 0.14
180 19 0.07
181 50 0.19
182 76 0.30
183 75 0.29
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (178 bp):
ATTTATAGTTATATATTTTAATTATAGTGACAAAATGTATAGTCATAAATATTTCCTTAATTTTT
TGCAAAAAAAAAAAGTTATAGAATGACAGGTTTTGTAACTATAACTTATAATAATTGTTACTGAA
AAACTATCACAACAAATATTGAGATTCAAATTTTTGGTGAAAAATTAC
Found at i:7423909 original size:42 final size:42
Alignment explanation
Indices: 7423856--7423971 Score: 162
Period size: 42 Copynumber: 2.8 Consensus size: 42
7423846 CCCGAATTTT
* * *
7423856 CGTGTATGTTTCACCTAATTCGTTTTCTGGAAAATGTTTTCC
1 CGTGTTTGTTTCACGTAATTCGTTTTCTGGAAAATATTTTCC
*
7423898 CGTGTTTGTTTCACGTAATTCGTTTT-TCGGAAAATATTTTTC
1 CGTGTTTGTTTCACGTAATTCGTTTTCT-GGAAAATATTTTCC
* *
7423940 CGTGTTTGTTTCACGTAATTGGTTTTCCGGAA
1 CGTGTTTGTTTCACGTAATTCGTTTTCTGGAA
7423972 TGTAATTCAT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
41 1 0.02
42 65 0.98
ACGTcount: A:0.18, C:0.16, G:0.19, T:0.47
Consensus pattern (42 bp):
CGTGTTTGTTTCACGTAATTCGTTTTCTGGAAAATATTTTCC
Found at i:7424191 original size:22 final size:22
Alignment explanation
Indices: 7424166--7424234 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
7424156 TTATTTATTA
7424166 ATATTTATAATAATATAATAAT
1 ATATTTATAATAATATAATAAT
*
7424188 ATATTTTTAATATTATATAA-AAT
1 ATATTTATAATA--ATATAATAAT
** * *
7424211 A-ATCAATTATATTATAATAAT
1 ATATTTATAATAATATAATAAT
7424232 ATA
1 ATA
7424235 AGATATTATA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
20 5 0.14
21 4 0.11
22 18 0.49
23 4 0.11
24 6 0.16
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (22 bp):
ATATTTATAATAATATAATAAT
Found at i:7424194 original size:57 final size:57
Alignment explanation
Indices: 7424083--7424194 Score: 129
Period size: 57 Copynumber: 2.0 Consensus size: 57
7424073 GAATAAATAC
* **
7424083 TCAAAATAATTTTATTTTATAAATTAATATTAATAAAATGTTTTAATATCATTTTCA
1 TCAAAATAATTTTATTTTATAAATTAATATTAATAAAATATAATAATATCATTTTCA
* ** *
7424140 TCAAAATATTATTTA-TTTATTTATTAATATTTATAATAATATAATAATAT-ATTTT
1 TCAAAATAAT-TTTATTTTATAAATTAATATTAATAA-AATATAATAATATCATTTT
7424195 TAATATTATA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
57 32 0.70
58 14 0.30
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.52
Consensus pattern (57 bp):
TCAAAATAATTTTATTTTATAAATTAATATTAATAAAATATAATAATATCATTTTCA
Found at i:7424222 original size:31 final size:32
Alignment explanation
Indices: 7424157--7424233 Score: 88
Period size: 31 Copynumber: 2.4 Consensus size: 32
7424147 ATTATTTATT
*
7424157 TATTTATTAATATTTATAATAATATAATAATA
1 TATTTATTAATATTTATAATAAAATAATAATA
7424189 TATTT-TTAATA-TTAT-ATAAAATAATCAATTA
1 TATTTATTAATATTTATAATAAAATAAT-AA-TA
*
7424220 TATTATAATAATAT
1 TATT-TATTAATAT
7424234 AAGATATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
29 9 0.24
30 6 0.16
31 12 0.32
32 6 0.16
33 5 0.13
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (32 bp):
TATTTATTAATATTTATAATAAAATAATAATA
Found at i:7424300 original size:19 final size:19
Alignment explanation
Indices: 7424278--7424330 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
7424268 AAAAAGTTTT
*
7424278 ATATATTTAATAATGAATA
1 ATATATTTAATAATAAATA
*
7424297 ATATTATTTATATATTTAAATA
1 ATA-TATTTA-ATA-ATAAATA
7424319 ATAT-TTTAATAA
1 ATATATTTAATAA
7424331 AGATATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 6 0.21
20 10 0.36
21 4 0.14
22 8 0.29
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
ATATATTTAATAATAAATA
Found at i:7424351 original size:23 final size:23
Alignment explanation
Indices: 7424325--7424369 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
7424315 AATAATATTT
7424325 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
7424348 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
7424370 ATATAACATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:7426864 original size:30 final size:27
Alignment explanation
Indices: 7426813--7426868 Score: 67
Period size: 30 Copynumber: 2.0 Consensus size: 27
7426803 TATGTTTTAA
*
7426813 ATATATATTTTTATATGGATTATCTATT
1 ATATATATTTTTATATAGATTA-CTATT
*
7426841 ATATATTTTATTTAATATAGATTACTAT
1 ATATATATT-TTT-ATATAGATTACTAT
7426869 ATTTTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.33
29 7 0.29
30 9 0.38
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (27 bp):
ATATATATTTTTATATAGATTACTATT
Found at i:7427654 original size:20 final size:21
Alignment explanation
Indices: 7427631--7427670 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7427621 ACTGCATAAA
*
7427631 TATAAA-AGAACAATTATATT
1 TATAAAGAGAAAAATTATATT
*
7427651 TATAAAGGGAAAAATTATAT
1 TATAAAGAGAAAAATTATAT
7427671 ACCTTCAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.55, C:0.03, G:0.10, T:0.33
Consensus pattern (21 bp):
TATAAAGAGAAAAATTATATT
Found at i:7428190 original size:12 final size:11
Alignment explanation
Indices: 7428165--7428232 Score: 56
Period size: 12 Copynumber: 6.4 Consensus size: 11
7428155 ACTAATCTAA
*
7428165 TATTATTTATT
1 TATTAATTATT
7428176 TATTAATTAATT
1 TATTAATT-ATT
*
7428188 TATT-AGTA-T
1 TATTAATTATT
7428197 TATTAA-TA-T
1 TATTAATTATT
7428206 TATT-ATTGATT
1 TATTAATT-ATT
7428217 TATTAATTTATT
1 TATTAA-TTATT
7428229 TATT
1 TATT
7428233 TTCTTTTCTC
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
8 1 0.02
9 13 0.27
10 3 0.06
11 14 0.29
12 15 0.31
13 2 0.04
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (11 bp):
TATTAATTATT
Found at i:7428217 original size:29 final size:29
Alignment explanation
Indices: 7428165--7428221 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
7428155 ACTAATCTAA
*
7428165 TATTATTTATTTATTAATTAATTTATTAG
1 TATTATTAATTTATTAATTAATTTATTAG
*
7428194 TATTATTAATATTATT-ATTGATTTATTA
1 TATTATTAAT-TTATTAATTAATTTATTA
7428222 ATTTATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (29 bp):
TATTATTAATTTATTAATTAATTTATTAG
Found at i:7432476 original size:20 final size:19
Alignment explanation
Indices: 7432440--7432481 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
7432430 AATTATTTGA
7432440 TTAATTAATTAAATTAAATT
1 TTAATTAATTAAATT-AATT
*
7432460 TTAATTCAATT-ACTTAATT
1 TTAATT-AATTAAATTAATT
7432479 TTA
1 TTA
7432482 TTTTTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 7 0.35
20 9 0.45
21 4 0.20
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAATTAATTAAATTAATT
Found at i:7434915 original size:14 final size:14
Alignment explanation
Indices: 7434896--7434924 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7434886 AAAATAAATT
7434896 ATATTTTTTGAAAA
1 ATATTTTTTGAAAA
7434910 ATATTTTTTGAAAA
1 ATATTTTTTGAAAA
7434924 A
1 A
7434925 CGTTTTACGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
ATATTTTTTGAAAA
Found at i:7435209 original size:22 final size:22
Alignment explanation
Indices: 7435161--7435225 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
7435151 TTTCTTATAT
* *
7435161 TATTATAATA-TAATTAATTATTT
1 TATTATAATATTAA--AAATATTA
7435184 TATTATAATATTAAAAATATTA
1 TATTATAATATTAAAAATATTA
* *
7435206 TATTATATTATTAGAAATAT
1 TATTATAATATTAAAAATAT
7435226 AAATAAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 24 0.65
23 10 0.27
24 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TATTATAATATTAAAAATATTA
Found at i:7435403 original size:16 final size:16
Alignment explanation
Indices: 7435384--7435421 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
7435374 ATTTTCTAGA
7435384 AAACAATTTTTCCTCC
1 AAACAATTTTTCCTCC
7435400 AAACAATTTTTCCTCC
1 AAACAATTTTTCCTCC
7435416 AAACAA
1 AAACAA
7435422 ACACTGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (16 bp):
AAACAATTTTTCCTCC
Found at i:7435760 original size:28 final size:28
Alignment explanation
Indices: 7435728--7435817 Score: 96
Period size: 28 Copynumber: 3.2 Consensus size: 28
7435718 AATTACATAC
7435728 TTAAATTGATTAATTAAAATATTCATTA
1 TTAAATTGATTAATTAAAATATTCATTA
** * *
7435756 TTAAATCAATTATAGT-AGATA-T-ATGTAA
1 TTAAATTGATTA-ATTAAAATATTCAT-T-A
7435784 TTAAATTGATTAATTAAAATATTCATTA
1 TTAAATTGATTAATTAAAATATTCATTA
7435812 TTAAAT
1 TTAAAT
7435818 CAATTATAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
26 2 0.04
27 4 0.08
28 36 0.75
29 4 0.08
30 2 0.04
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (28 bp):
TTAAATTGATTAATTAAAATATTCATTA
Found at i:7435793 original size:56 final size:56
Alignment explanation
Indices: 7435728--7435835 Score: 216
Period size: 56 Copynumber: 1.9 Consensus size: 56
7435718 AATTACATAC
7435728 TTAAATTGATTAATTAAAATATTCATTATTAAATCAATTATAGTAGATATATGTAA
1 TTAAATTGATTAATTAAAATATTCATTATTAAATCAATTATAGTAGATATATGTAA
7435784 TTAAATTGATTAATTAAAATATTCATTATTAAATCAATTATAGTAGATATAT
1 TTAAATTGATTAATTAAAATATTCATTATTAAATCAATTATAGTAGATATAT
7435836 TCCAATTTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (56 bp):
TTAAATTGATTAATTAAAATATTCATTATTAAATCAATTATAGTAGATATATGTAA
Found at i:7435833 original size:28 final size:28
Alignment explanation
Indices: 7435746--7435833 Score: 92
Period size: 28 Copynumber: 3.1 Consensus size: 28
7435736 ATTAATTAAA
7435746 ATATTCATTATTAAATCAATTATAGTAG
1 ATATTCATTATTAAATCAATTATAGTAG
** * *
7435774 ATA-T-ATGTAATTAAATTGATTA-ATTAAA
1 ATATTCAT-T-ATTAAATCAATTATAGT-AG
7435802 ATATTCATTATTAAATCAATTATAGTAG
1 ATATTCATTATTAAATCAATTATAGTAG
7435830 ATAT
1 ATAT
7435834 ATTCCAATTT
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
26 2 0.04
27 4 0.09
28 34 0.74
29 4 0.09
30 2 0.04
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (28 bp):
ATATTCATTATTAAATCAATTATAGTAG
Found at i:7436191 original size:20 final size:20
Alignment explanation
Indices: 7436154--7436200 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
7436144 ATGTTTTTAG
7436154 ATTAATT-TTATGAAAATAT
1 ATTAATTATTATGAAAATAT
* *
7436173 ATTAATTATTATTATAATAT
1 ATTAATTATTATGAAAATAT
*
7436193 TTTAATTA
1 ATTAATTA
7436201 CTTTTTCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
ATTAATTATTATGAAAATAT
Found at i:7440471 original size:27 final size:27
Alignment explanation
Indices: 7440423--7440493 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 27
7440413 CCCCTTACTC
* *
7440423 TAACACTTCT-CCCCTTTAAAACATTT
1 TAACATTTCTCCCCCTTTAAAACACTT
*
7440449 TAACATTTCTCCCCCTTTAAAACGCTT
1 TAACATTTCTCCCCCTTTAAAACACTT
7440476 TAACATTTCTCCCCCTTT
1 TAACATTTCTCCCCCTTT
7440494 TTGTTAAATC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 9 0.22
27 32 0.78
ACGTcount: A:0.25, C:0.34, G:0.01, T:0.39
Consensus pattern (27 bp):
TAACATTTCTCCCCCTTTAAAACACTT
Found at i:7452481 original size:23 final size:22
Alignment explanation
Indices: 7452450--7452500 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 22
7452440 GGAATCAATA
*
7452450 CCCCCTTGAAGGGGAACTGATT
1 CCCCCTTGAAGGGGAACCGATT
7452472 CCCCCTTTGAAGGGGAACCGATT
1 CCCCC-TTGAAGGGGAACCGATT
7452495 CTCCCC
1 C-CCCC
7452501 CAGGGGAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 5 0.19
23 17 0.65
24 4 0.15
ACGTcount: A:0.20, C:0.35, G:0.24, T:0.22
Consensus pattern (22 bp):
CCCCCTTGAAGGGGAACCGATT
Found at i:7452521 original size:19 final size:20
Alignment explanation
Indices: 7452482--7452521 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
7452472 CCCCCTTTGA
*
7452482 AGGGGAACCGATTCTCCCCC
1 AGGGGAACCGATACTCCCCC
*
7452502 AGGGGAATCGATAC-CCCCC
1 AGGGGAACCGATACTCCCCC
7452521 A
1 A
7452522 CGGGTTCTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (20 bp):
AGGGGAACCGATACTCCCCC
Found at i:7458499 original size:21 final size:21
Alignment explanation
Indices: 7458474--7458513 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
7458464 CAATCATTTA
7458474 AACTT-CATTCGATCACCCTTG
1 AACTTGCATTCGAT-ACCCTTG
7458495 AACTTGCATTCGATACCCT
1 AACTTGCATTCGATACCCT
7458514 AAAATATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.25, C:0.33, G:0.10, T:0.33
Consensus pattern (21 bp):
AACTTGCATTCGATACCCTTG
Found at i:7458590 original size:17 final size:19
Alignment explanation
Indices: 7458550--7458591 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
7458540 AAATTACTTC
*
7458550 AAAAATAGGATTTAATCGG
1 AAAAATAGGATTAAATCGG
*
7458569 AAAAAT-GGATTAAATTGG
1 AAAAATAGGATTAAATCGG
7458587 AAAAA
1 AAAAA
7458592 CGCTGAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.55, C:0.02, G:0.19, T:0.24
Consensus pattern (19 bp):
AAAAATAGGATTAAATCGG
Found at i:7469575 original size:18 final size:17
Alignment explanation
Indices: 7469548--7469582 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7469538 GCACCAAGTG
7469548 TGCATCGATGCTTGAAA
1 TGCATCGATGCTTGAAA
*
7469565 TGCATTCGATGTTTGAAA
1 TGCA-TCGATGCTTGAAA
7469583 AATAGCCTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (17 bp):
TGCATCGATGCTTGAAA
Found at i:7469597 original size:64 final size:64
Alignment explanation
Indices: 7469544--7469706 Score: 202
Period size: 65 Copynumber: 2.5 Consensus size: 64
7469534 CGGTGCACCA
* *
7469544 AGTGTGCATCGATGCTTGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAGTGCATCGATGCATGG
** * * **
7469608 CTTGTGAATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
* * *
7469673 AGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
7469707 CAATTAATTC
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
64 37 0.45
65 45 0.55
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:7469678 original size:19 final size:19
Alignment explanation
Indices: 7469654--7469704 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
7469644 GAAAATATTC
7469654 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
7469673 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
7469692 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
7469705 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:7472326 original size:20 final size:20
Alignment explanation
Indices: 7472279--7472335 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 20
7472269 GCATGGTCTT
7472279 ATGCATCGATGCATATTCAAGG
1 ATGCATCGATGCAT-TTCAA-G
*
7472301 ATGCATCGATGCATTGTTAA-
1 ATGCATCGATGCATT-TCAAG
*
7472321 ATGCATCGGTGCATT
1 ATGCATCGATGCATT
7472336 AAGCACAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.44
21 1 0.03
22 17 0.53
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (20 bp):
ATGCATCGATGCATTTCAAG
Found at i:7474192 original size:28 final size:28
Alignment explanation
Indices: 7474152--7474208 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
7474142 TACTCTCTTG
7474152 GATAGATACTTCCTTTTCTTCAATGGTT
1 GATAGATACTTCCTTTTCTTCAATGGTT
7474180 GATAGATACTTCCTTTTCTTCAATGGTT
1 GATAGATACTTCCTTTTCTTCAATGGTT
7474208 G
1 G
7474209 GATTCTCAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.46
Consensus pattern (28 bp):
GATAGATACTTCCTTTTCTTCAATGGTT
Found at i:7477670 original size:64 final size:64
Alignment explanation
Indices: 7477617--7477779 Score: 220
Period size: 65 Copynumber: 2.5 Consensus size: 64
7477607 CGGTGCACCA
*
7477617 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAGTGCATCGATGCATGG
** * **
7477681 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
* * *
7477746 AGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
7477780 CAATTAATTC
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
64 39 0.46
65 46 0.54
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:7477751 original size:19 final size:19
Alignment explanation
Indices: 7477727--7477777 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
7477717 GAAAATATTC
7477727 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
7477746 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
7477765 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
7477778 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:7478646 original size:24 final size:24
Alignment explanation
Indices: 7478568--7478670 Score: 122
Period size: 23 Copynumber: 4.4 Consensus size: 24
7478558 GAGTCAAGGG
*
7478568 TCTACGTGGTCCTTCGGGACAAA-
1 TCTACGTGGTCCTTTGGGACAAAT
* *
7478591 TCTATGTGGTCCTTTGGGAC-AAC
1 TCTACGTGGTCCTTTGGGACAAAT
*
7478614 TCTACGTGGTCATTTGGGACAAAT
1 TCTACGTGGTCCTTTGGGACAAAT
*
7478638 TCTACGTGGTCCTTCT-GGATAAAT
1 TCTACGTGGTCCTT-TGGGACAAAT
*
7478662 TATACGTGG
1 TCTACGTGG
7478671 CACTTCAGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
22 2 0.03
23 36 0.52
24 30 0.43
25 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.33
Consensus pattern (24 bp):
TCTACGTGGTCCTTTGGGACAAAT
Found at i:7478676 original size:24 final size:24
Alignment explanation
Indices: 7478634--7478689 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
7478624 CATTTGGGAC
* *
7478634 AAATTCTACGTGGTCCTTCTG-GAT
1 AAATTATACGTGGTCCTTCAGTG-T
7478658 AAATTATACGTGG-CACTTCAGTGT
1 AAATTATACGTGGTC-CTTCAGTGT
7478682 AAATTATA
1 AAATTATA
7478690 TGAGAAGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 1 0.04
24 26 0.93
25 1 0.04
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (24 bp):
AAATTATACGTGGTCCTTCAGTGT
Found at i:7485962 original size:2 final size:2
Alignment explanation
Indices: 7485888--7485943 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
7485878 ATTGCATGTA
7485888 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7485930 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
7485944 GTTTTTATTG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7492562 original size:2 final size:2
Alignment explanation
Indices: 7492555--7492621 Score: 113
Period size: 2 Copynumber: 35.0 Consensus size: 2
7492545 AAAGGATCAT
7492555 TA TA TA TA TA TA TA TA TA TA TA -A 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
7492596 T- TA TA TA TA TA TA T- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7492622 AATGAGTTGC
Statistics
Matches: 62, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
1 3 0.05
2 59 0.95
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7492582 original size:19 final size:19
Alignment explanation
Indices: 7492558--7492621 Score: 105
Period size: 19 Copynumber: 3.5 Consensus size: 19
7492548 GGATCATTAT
7492558 ATATATATATATATATATA
1 ATATATATATATATATATA
7492577 ATATATATATATATATATA
1 ATATATATATATATATATA
*
7492596 TTATATATATATAT-TAT-
1 ATATATATATATATATATA
7492613 ATATATATA
1 ATATATATA
7492622 AATGAGTTGC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
17 8 0.19
18 3 0.07
19 32 0.74
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATATATATATATATATA
Found at i:7493080 original size:19 final size:19
Alignment explanation
Indices: 7493032--7493082 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
7493022 CTTTCTTTAT
7493032 TTTTAAAAAAT-A-T-ATA
1 TTTTAAAAAATAATTAATA
* * *
7493048 TTTTTAACATTAATTAATA
1 TTTTAAAAAATAATTAATA
7493067 TTTTAAAAAATAATTA
1 TTTTAAAAAATAATTA
7493083 GCAGGGGCTT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
16 8 0.31
17 1 0.04
18 1 0.04
19 16 0.62
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTTAAAAAATAATTAATA
Found at i:7494207 original size:21 final size:21
Alignment explanation
Indices: 7494178--7494224 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
7494168 AATATGTGAA
*
7494178 TCGCATTGCGATTTTCTAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
7494199 TCGCGTTGCGATTTTCCAATT
1 TCGCATTGCGATTTTCCAAAT
7494220 TCGCA
1 TCGCA
7494225 ACGCGAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:7494302 original size:22 final size:20
Alignment explanation
Indices: 7494276--7494349 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
7494266 ACGCGTTTGC
7494276 CAAATTCGCAACACTGAAATTT
1 CAAATTCGCAACAC-G-AATTT
* *
7494298 CAAATTCGCAACTCGATTTT
1 CAAATTCGCAACACGAATTT
* *
7494318 CGAATTTGCAACACGAATTT
1 CAAATTCGCAACACGAATTT
*
7494338 -AATTTCGCAACA
1 CAAATTCGCAACA
7494350 GGTTTTAGTT
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
19 9 0.21
20 20 0.47
21 1 0.02
22 13 0.30
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (20 bp):
CAAATTCGCAACACGAATTT
Found at i:7497951 original size:20 final size:20
Alignment explanation
Indices: 7497926--7497994 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
7497916 ATCGCAATGG
* *
7497926 AATTTGAATTTTGCGTTGCA
1 AATTTGACTTTAGCGTTGCA
* *
7497946 AATTTGACTTTAACGTTGCG
1 AATTTGACTTTAGCGTTGCA
* **
7497966 AATTTGACTTTCGCGTTGTG
1 AATTTGACTTTAGCGTTGCA
7497986 AATTTGACT
1 AATTTGACT
7497995 ATCGCAACGA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.43
Consensus pattern (20 bp):
AATTTGACTTTAGCGTTGCA
Found at i:7498159 original size:37 final size:37
Alignment explanation
Indices: 7498108--7498242 Score: 126
Period size: 37 Copynumber: 3.5 Consensus size: 37
7498098 CAAATCAACT
7498108 TTTACAAATCAATTAAACAAGCAAAAAATAATTCTTA
1 TTTACAAATCAATTAAACAAGCAAAAAATAATTCTTA
* * * *** * * *
7498145 TTTACATATTAATTAAACAAATCAACTTTTACAAATCATA
1 TTTACAAATCAATTAAAC-AAGCAA--AAAATAATTCTTA
7498185 TTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTA
1 -TTTACAAATCAATTAAACAAGCAAAAAATAATTCTTA
* **
7498223 TTTCCTCATCAATTAAACAA
1 TTTACAAATCAATTAAACAA
7498243 ATCAACTTTT
Statistics
Matches: 73, Mismatches: 21, Indels: 8
0.72 0.21 0.08
Matches are distributed among these distances:
37 33 0.45
38 12 0.16
40 12 0.16
41 16 0.22
ACGTcount: A:0.50, C:0.16, G:0.01, T:0.33
Consensus pattern (37 bp):
TTTACAAATCAATTAAACAAGCAAAAAATAATTCTTA
Found at i:7498180 original size:14 final size:13
Alignment explanation
Indices: 7498161--7498199 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 13
7498151 TATTAATTAA
7498161 ACAAATCAACTTTT
1 ACAAATCAA-TTTT
7498175 ACAAATCATATTTT
1 ACAAATCA-ATTTT
7498189 ACAAATCAATT
1 ACAAATCAATT
7498200 AAACAAGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 3 0.12
14 20 0.83
15 1 0.04
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (13 bp):
ACAAATCAATTTT
Found at i:7498237 original size:78 final size:77
Alignment explanation
Indices: 7498097--7498289 Score: 284
Period size: 78 Copynumber: 2.5 Consensus size: 77
7498087 TGAATAAACA
*
7498097 ACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACATATTAATTAAA
1 ACAAATCAA-TTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACATATCAATTAAA
7498162 CAAATCAACTTTT
65 CAAATCAACTTTT
*
7498175 ACAAATCATATTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTT-CCTCATCAATTAA
1 ACAAATCA-ATTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACAT-ATCAATTAA
7498239 ACAAATCAACTTTT
64 ACAAATCAACTTTT
* **
7498253 TCAAATCAA-CGTA-AAATTCAATTAAACAAGCAAAAAA
1 ACAAATCAATTTTACAAA-TCAATTAAACAAGCAAAAAA
7498290 AGTGTACCCC
Statistics
Matches: 107, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
75 3 0.03
76 22 0.21
77 3 0.03
78 78 0.73
79 1 0.01
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.31
Consensus pattern (77 bp):
ACAAATCAATTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACATATCAATTAAAC
AAATCAACTTTT
Done.