Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 199 of 325
Found at i:61596006 original size:43 final size:43
Alignment explanation
Indices: 61595959--61596060 Score: 118
Period size: 43 Copynumber: 2.4 Consensus size: 43
61595949 CTAAACAGGG
*
61595959 TCTTACACGAAATCGATC-A-ACGATGCCAATGTCCCAGACATGC
1 TCTTACACGAAATC-A-CAATACAATGCCAATGTCCCAGACATGC
* * *
61596002 TCTTACACGTAATCACAATACAATGCCAATGTTCCAGACATGG
1 TCTTACACGAAATCACAATACAATGCCAATGTCCCAGACATGC
* *
61596045 TCTTACATGTAATCAC
1 TCTTACACGAAATCAC
61596061 GACTCGATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
41 1 0.02
42 2 0.04
43 49 0.94
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.25
Consensus pattern (43 bp):
TCTTACACGAAATCACAATACAATGCCAATGTCCCAGACATGC
Found at i:61601510 original size:39 final size:39
Alignment explanation
Indices: 61601407--61601616 Score: 294
Period size: 39 Copynumber: 5.4 Consensus size: 39
61601397 CTTCAGGACA
* ** * *
61601407 TAGCCCGGTTATGGTAACCCGCACAAATGCCTTCGGGACT
1 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CT
* * *
61601447 TAACTCGGATATCACAACTCGCACAATTGCCTTCGGGCT
1 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
* *
61601486 TAGCCCGGGTATCATATCTCGCACAATTGCCTTCGGGCT
1 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
* *
61601525 TAGTCCGGATATCATAGCTCGCACAATTGCCTTCGGGCT
1 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
*
61601564 TAGCCCGGGTATCATAACTCGCACAATTGCCTTCGGGCT
1 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
61601603 TAGCCCGGATATCA
1 TAGCCCGGATATCA
61601617 CTCGAACATT
Statistics
Matches: 150, Mismatches: 20, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 121 0.81
40 29 0.19
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (39 bp):
TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
Found at i:61606590 original size:40 final size:40
Alignment explanation
Indices: 61606546--61606771 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
61606536 GCTATTCGTT
* * * *
61606546 CAAATACCTTCGGGACATAGCCCGG-TTATAGCAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
61606586 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
61606626 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* *
61606666 CAAATGCCTTC-GAATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
61606706 TAATTGCCTTC-GGATCTTAGTCCGGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
61606747 CAAAT-CCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61606772 CATCATTCGA
Statistics
Matches: 167, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 152 0.91
41 12 0.07
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:61606664 original size:80 final size:80
Alignment explanation
Indices: 61606580--61606771 Score: 291
Period size: 80 Copynumber: 2.4 Consensus size: 80
61606570 GTTATAGCAG
61606580 CTCGCACAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTA
1 CTCGCACAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTA
61606645 GTCCGGATTTAGTAA
66 GTCCGGATTTAGTAA
* * *
61606660 CTCGCACAAATGCCTTC-GAATCTTAGT-CCGGATTTAGTAACTCGCATAATTGCCTTCGGATCT
1 CTCGCACAAATGCCTTCGGGA-CTTA-TCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCT
61606723 TAGTCCGGATTTAGTAA
64 TAGTCCGGATTTAGTAA
* *
61606740 CTTAGCACAAAT-CCTTCGGGACTTAGCCCGGA
1 C-TCGCACAAATGCCTTCGGGACTTATCCCGGA
61606772 CATCATTCGA
Statistics
Matches: 101, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
79 2 0.02
80 87 0.86
81 12 0.12
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (80 bp):
CTCGCACAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTA
GTCCGGATTTAGTAA
Found at i:61611636 original size:93 final size:93
Alignment explanation
Indices: 61611504--61611675 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
61611494 GCCCCTAAGT
* * * *
61611504 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
61611569 CGAGTTCGGATGCTTAGTTACATTTCAC
66 CGAGTTCGGATGCTTAGTTACATTTCAC
* *
61611597 GAACTCGGACTCAACTCAATGAGTTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
61611662 CGAGTTCGGATGCT
66 CGAGTTCGGATGCT
61611676 CAACCATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCTTAGTTACATTTCAC
Found at i:61611671 original size:46 final size:46
Alignment explanation
Indices: 61611499--61611671 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
61611489 AACCTGCCCC
* * * *
61611499 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
*
61611545 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--C--A-TTCACATCCA
* * *
61611593 TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
*
61611638 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
61611672 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.56
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
Found at i:61615043 original size:49 final size:49
Alignment explanation
Indices: 61614987--61615201 Score: 403
Period size: 49 Copynumber: 4.4 Consensus size: 49
61614977 TACATATATG
61614987 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
61615036 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
61615085 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
61615134 TGTGATAAGGCCCAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
61615183 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
61615202 TAATGCAAGA
Statistics
Matches: 161, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 161 1.00
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:61615353 original size:37 final size:37
Alignment explanation
Indices: 61615303--61615387 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
61615293 GGAATATGTT
*
61615303 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
61615340 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
61615377 CCGGGTAAGAC
1 CCGGGTAAGAC
61615388 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:61617502 original size:29 final size:29
Alignment explanation
Indices: 61617463--61617891 Score: 743
Period size: 29 Copynumber: 14.8 Consensus size: 29
61617453 CAAATTCCGT
61617463 TAATCGA-GCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
* *
61617491 TAATCGAGGCACTATGTGTGCGAGATAAT
1 TAATCGAGGCACTATGTGTGCGAGATCAG
61617520 TAATCGAGGCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
61617549 TAATCGAGGCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
61617578 TAATCGAGGCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
61617607 TAATCGAGGCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
61617636 TAATCGAGGCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
*
61617665 TAATCGAGGCATTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
61617694 TAATCGAGGCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
*
61617723 TAATGGAGGCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
*
61617752 TAATTGAGGCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
*
61617781 TAATCAAGGCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
*
61617810 TAATCAAGGCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
* *
61617839 TAATTGAGGCACTATGTGTGTGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
* * *
61617868 TAATTGAAGCACTGTGTGTGCGAG
1 TAATCGAGGCACTATGTGTGCGAG
61617892 TTTTTCAACA
Statistics
Matches: 384, Mismatches: 16, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
28 7 0.02
29 377 0.98
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TAATCGAGGCACTATGTGTGCGAGATCAG
Found at i:61618473 original size:40 final size:41
Alignment explanation
Indices: 61618375--61618473 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
61618365 TTCGAATGGT
* ** * *
61618375 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTTACTAA
1 ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTCACTAA
61618416 ATCCGGGCTAAT-TCCCGAAGGCAATTGTGCGAA-TCACTATA
1 ATCCGGGCT-ATGTCCCGAAGGCAATTGTGCGAAGTCACTA-A
61618457 A-CCGGGCTATGTCCCGA
1 ATCCGGGCTATGTCCCGA
61618474 GGACAATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 2 0.04
40 18 0.36
41 29 0.58
42 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (41 bp):
ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTCACTAA
Found at i:61618496 original size:40 final size:40
Alignment explanation
Indices: 61618418--61618496 Score: 90
Period size: 40 Copynumber: 2.0 Consensus size: 40
61618408 GTTACTAAAT
* *
61618418 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGGCAATCGAGCGAATCACTATAA
* *
61618458 CCGGGCT-ATGTCCCG-AGGACAATCGAGCGAGTCGCTATA
1 CCGGGCTAAT-TCCCGAAGG-CAATCGAGCGAATCACTATA
61618497 TCCGATTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
39 5 0.15
40 28 0.85
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGGCAATCGAGCGAATCACTATAA
Found at i:61621518 original size:49 final size:49
Alignment explanation
Indices: 61621462--61621676 Score: 403
Period size: 49 Copynumber: 4.4 Consensus size: 49
61621452 TACATATATG
61621462 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
61621511 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
61621560 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
61621609 TGTGATAAGGCCCAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
61621658 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
61621677 TAATGCAAGA
Statistics
Matches: 161, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 161 1.00
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:61621828 original size:37 final size:37
Alignment explanation
Indices: 61621778--61621862 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
61621768 GGAATATGTT
*
61621778 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
61621815 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
61621852 CCGGGTAAGAC
1 CCGGGTAAGAC
61621863 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:61628667 original size:40 final size:39
Alignment explanation
Indices: 61628499--61628669 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
61628489 AGAAATTGAA
* *
61628499 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
61628539 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
61628579 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
61628619 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
61628659 TGATATCCGGG
1 TGATATCCGGG
61628670 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:61637097 original size:46 final size:46
Alignment explanation
Indices: 61636983--61637299 Score: 447
Period size: 48 Copynumber: 6.8 Consensus size: 46
61636973 CCCTTCGGGA
* * * * **
61636983 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCA-TTAGC
* * * *
61637030 CCTGTCACATATATACACCTTCACATTCATCACATTGGCTATTCGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGC
61637076 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGC
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGC
* *
61637122 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGC
1 CTTATCAC--ATATATACACCTTCACATTCATCACATTGGCCATTAGC
61637170 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTAGC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATTAGC
*
61637218 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTA-GC
61637265 CTTATCACATATATACACCTTCACATTCATCACAT
1 CTTATCACATATATACACCTTCACATTCATCACAT
61637300 CCATTCAGCC
Statistics
Matches: 245, Mismatches: 18, Indels: 14
0.88 0.06 0.05
Matches are distributed among these distances:
46 85 0.35
47 73 0.30
48 87 0.36
ACGTcount: A:0.29, C:0.32, G:0.07, T:0.32
Consensus pattern (46 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGC
Found at i:61637172 original size:94 final size:93
Alignment explanation
Indices: 61636983--61637300 Score: 453
Period size: 94 Copynumber: 3.4 Consensus size: 93
61636973 CCCTTCGGGA
* * * * ** * *
61636983 CTTATCACATTTATACACTTTCACATCCATCACGT-TGGCCACTCGGCCCTGTCACATATATACA
1 CTTATCACATATATACACCTTCACATTCATCACATCTGGCCA-TTAGCCTTATCACATATATACA
* * *
61637047 CCTTCACATTCATCACATTGGCTATTCGC
65 CCTTCACATTCATCACATCGGCCATTAGC
61637076 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGCCTTATCACATATATATAC
1 CTTATCACATATATACACCTTCACATTCATCACATCTGGCCATTAGCCTTATCAC--ATATATAC
*
61637140 ACTTTCACATTCATCACATCGGCCATTAGC
64 ACCTTCACATTCATCACATCGGCCATTAGC
61637170 CTTATCACATATATACACACTTTCACATTCATCACAT-TGGCCATTAGCCTTATCACATATATAC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATCTGGCCATTAGCCTTATCACATATATAC
61637234 ACCTTCACATTCATCACATCGGCCATTAGGC
64 ACCTTCACATTCATCACATCGGCCATTA-GC
61637265 CTTATCACATATATACACCTTCACATTCATCACATC
1 CTTATCACATATATACACCTTCACATTCATCACATC
61637301 CATTCAGCCA
Statistics
Matches: 204, Mismatches: 13, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
92 9 0.04
93 51 0.25
94 89 0.44
95 22 0.11
96 33 0.16
ACGTcount: A:0.29, C:0.32, G:0.07, T:0.32
Consensus pattern (93 bp):
CTTATCACATATATACACCTTCACATTCATCACATCTGGCCATTAGCCTTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTAGC
Found at i:61645640 original size:18 final size:18
Alignment explanation
Indices: 61645617--61645653 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
61645607 TCATGAAAGG
*
61645617 TTTTTCGATGATTCTGAC
1 TTTTTCAATGATTCTGAC
61645635 TTTTTCAATGATTCTGAC
1 TTTTTCAATGATTCTGAC
61645653 T
1 T
61645654 CCGTTGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (18 bp):
TTTTTCAATGATTCTGAC
Found at i:61650889 original size:40 final size:40
Alignment explanation
Indices: 61650834--61651037 Score: 248
Period size: 40 Copynumber: 5.1 Consensus size: 40
61650824 TGAATGATAC
* *
61650834 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
61650874 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
61650914 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
61650954 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * * *
61650994 CCAGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
61651034 CCGG
1 CCGG
61651038 TTAAATTCTG
Statistics
Matches: 141, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
39 1 0.01
40 138 0.98
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:61657753 original size:15 final size:15
Alignment explanation
Indices: 61657733--61657766 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
61657723 GATTCTTATA
61657733 CCTCCTAGGATTTTG
1 CCTCCTAGGATTTTG
*
61657748 CCTCCTATGATTTTG
1 CCTCCTAGGATTTTG
61657763 CCTC
1 CCTC
61657767 AAGAAAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.12, C:0.32, G:0.15, T:0.41
Consensus pattern (15 bp):
CCTCCTAGGATTTTG
Found at i:61660910 original size:28 final size:28
Alignment explanation
Indices: 61660853--61660910 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
61660843 ATACTGTATT
*
61660853 TTACATGATATGCTTTTATTAATATCTG
1 TTACATGATATGCTTTTATTAAGATCTG
*
61660881 TTACATGATATGCTTTTATTAAGATTTG
1 TTACATGATATGCTTTTATTAAGATCTG
61660909 TT
1 TT
61660911 GTATAGGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.52
Consensus pattern (28 bp):
TTACATGATATGCTTTTATTAAGATCTG
Found at i:61667177 original size:48 final size:48
Alignment explanation
Indices: 61667112--61668115 Score: 1498
Period size: 48 Copynumber: 21.6 Consensus size: 48
61667102 TATATATGTG
* *
61667112 TGTGGTAAAGCCAAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
61667160 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
61667208 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * * * *
61667256 TGAGGTAAAGCCGAATGGCTAGTGTGGAATATGCATGAGATATTTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
61667304 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTCTGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
61667352 --T-GT---G--GAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
61667392 --T-GT---G--GAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
61667432 TGTCGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * * * *
61667480 TGAGGTAAAGCCGAATGGCTAGTGTGGAATATGCATGAGATATTTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
61667528 TGTGGTAAAGCTGAATGGCTAATGTGAAATATGTCTGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
61667576 --T-GT---G--GAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
61667616 --T-GT---G--GAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
61667656 TGTCGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
61667704 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
61667752 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
61667800 TGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
61667848 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAGGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
61667896 TGTGGTAAAGCCGAATAGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
61667944 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
**
61667992 TGTGGTAAAGCCGAATGGCTAGA-GTGAAATATAAATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTA-ATGTGAAATATGTATGAGATATGTATA
*
61668040 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
61668088 TGTGGTAAAGCCGAATGGCTAGTGTGAA
1 TGTGGTAAAGCCGAATGGCTAATGTGAA
61668116 GTAGGAGATG
Statistics
Matches: 892, Mismatches: 46, Indels: 36
0.92 0.05 0.04
Matches are distributed among these distances:
40 150 0.17
42 4 0.00
43 4 0.00
45 4 0.00
46 4 0.00
48 725 0.81
49 1 0.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:61668319 original size:37 final size:37
Alignment explanation
Indices: 61668269--61668370 Score: 159
Period size: 37 Copynumber: 2.8 Consensus size: 37
61668259 ATATATTCCG
*
61668269 GGTAAGACCCGATGACTATGTGTGGAGATTATGTCCA
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
* *
61668306 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
* *
61668343 GGTAAGACCCGATAACTACGTATGGAGA
1 GGTAAGACCCGATGACTACGTGTGGAGA
61668371 CTATTCGAGC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
Found at i:61673738 original size:40 final size:40
Alignment explanation
Indices: 61673694--61673879 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
61673684 GCTACTCGTT
* * *
61673694 CAAATACCTTCGGGACATAGCCTGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGATT-TAGTAACTCGCA
* *
61673734 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
* *
61673774 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CATAGCCCGGATTTAGTAACTCGCA
* * * * *
61673814 CAATTGCCTTC-AGATCTTAGTCCGGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGGA-CATAGCCCGGATTTAGTAAC-TCGCA
*
61673855 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAGCCCGGA
61673880 CATCATTCGA
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.89
41 11 0.09
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
Found at i:61673812 original size:80 final size:80
Alignment explanation
Indices: 61673700--61673879 Score: 217
Period size: 80 Copynumber: 2.2 Consensus size: 80
61673690 CGTTCAAATA
* * * *
61673700 CCTTCGGGACATAGCCTGG-TTATAGTAGCTCGCACAAATGCCTTCGGGA-CTTA-TCCCGGATT
1 CCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTC-AGATCTTAGT-CCGGATT
*
61673762 TAGTAAC-TCGCACAAATG
63 TAGTAACTTAGCACAAA-G
* *
61673780 CCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACAATTGCCTTCAGATCTTAGTCCGGATTTA
1 CCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCAGATCTTAGTCCGGATTTA
61673844 GTAACTTAGCACAAAG
65 GTAACTTAGCACAAAG
61673860 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAGCCCGGA
61673880 CATCATTCGA
Statistics
Matches: 86, Mismatches: 8, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
79 5 0.06
80 67 0.78
81 14 0.16
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCAGATCTTAGTCCGGATTTAG
TAACTTAGCACAAAG
Found at i:61675811 original size:40 final size:40
Alignment explanation
Indices: 61675750--61675927 Score: 281
Period size: 40 Copynumber: 4.5 Consensus size: 40
61675740 TGGGCTAAGC
* *
61675750 CCGAAGGC-TTTGTGCTAAGTTACTAAATCCAGACTAAGAT
1 CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGAT
*
61675790 CCGAAGGCAATTGTGCGAGTTACTAAATCCGGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
61675830 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
61675870 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGA-TAAG-T
1 CCGAAGGCATTTGTGCGAGTTACTAAATCC-GGACTAAGAT
61675909 CCCGAAGGCATTTGTGCGA
1 -CCGAAGGCATTTGTGCGA
61675928 CTACTATAAC
Statistics
Matches: 131, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 9 0.07
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
Found at i:61675950 original size:39 final size:39
Alignment explanation
Indices: 61675742--61675961 Score: 238
Period size: 40 Copynumber: 5.6 Consensus size: 39
61675732 ATGATGTCTG
*
61675742 GGCTAAG-CCCGAAGGC-TTTGTGCTAAGTTACTAAATCC
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCC
* *
61675780 AGACTAAGAT-CCGAAGGCAATTGTGCGAGTTACTAAATCC
1 -GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
61675820 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
61675860 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* *
61675900 GGGATAAGTCCCGAAGGCATTTGTGCGA-CTACTATAA-CC
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
* *
61675939 AGGCTATGTCCCGAAGGTATTTG
1 -GGCTAAGTCCCGAAGGCATTTG
61675962 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
39 34 0.21
40 121 0.74
41 8 0.05
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:61682451 original size:2 final size:2
Alignment explanation
Indices: 61682444--61682471 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
61682434 CATGTCACTA
61682444 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
61682472 TAGTTAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61688162 original size:40 final size:40
Alignment explanation
Indices: 61688118--61688284 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 40
61688108 CGGAATATAA
*
61688118 CCGGATATAAGCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCACT-AGCACAAATGCCTTCGGGTCTTAGC
* * *
61688158 CCGGATAGAATG-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
61688198 CCGGATAT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAG-CACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
61688238 CC-GATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
61688277 CCGGATAT
1 CCGGATAT
61688285 CATTCAATTT
Statistics
Matches: 105, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
38 1 0.01
39 30 0.29
40 72 0.69
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:61695258 original size:40 final size:39
Alignment explanation
Indices: 61695147--61695298 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 39
61695137 TATAACATGT
* ** *
61695147 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
*
61695187 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* *** *
61695227 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* * *
61695267 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
61695299 CATTCAATTT
Statistics
Matches: 95, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 2 0.02
40 93 0.98
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
Found at i:61695281 original size:80 final size:80
Alignment explanation
Indices: 61695147--61695298 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
61695137 TATAACATGT
* *
61695147 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
61695212 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* * ** * *
61695227 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
61695290 CCCGGATAT
64 CCCGGATAT
61695299 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:61698780 original size:29 final size:29
Alignment explanation
Indices: 61698747--61698878 Score: 156
Period size: 29 Copynumber: 4.6 Consensus size: 29
61698737 GTGACGAGAT
61698747 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
61698776 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
61698805 TGACACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
61698834 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
61698863 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
61698879 GGCTTAAATT
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 87 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:61701649 original size:29 final size:29
Alignment explanation
Indices: 61701616--61701747 Score: 156
Period size: 29 Copynumber: 4.6 Consensus size: 29
61701606 GTGACGAGAT
61701616 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
61701645 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
61701674 TGACACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
61701703 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
61701732 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
61701748 GGCTTAAATT
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 87 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:61704677 original size:40 final size:39
Alignment explanation
Indices: 61704512--61704695 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
61704502 AAATTGAATG
* * *
61704512 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
61704552 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
61704592 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
61704632 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
61704671 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
61704696 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:61704720 original size:80 final size:81
Alignment explanation
Indices: 61704552--61704740 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
61704542 GCTGGAAATT
* * * *
61704552 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
61704617 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
61704633 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
61704696 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
61704712 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
61704741 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:61712794 original size:40 final size:39
Alignment explanation
Indices: 61712629--61712812 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
61712619 AAATTGAATG
* * *
61712629 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
61712669 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
61712709 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
61712749 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
61712788 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
61712813 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:61712837 original size:80 final size:81
Alignment explanation
Indices: 61712669--61712857 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
61712659 GCTGGAAATT
* * * *
61712669 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
61712734 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
61712750 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
61712813 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
61712829 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
61712858 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:61720926 original size:29 final size:29
Alignment explanation
Indices: 61720893--61720966 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
61720883 GTGACGAGAT
61720893 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
61720922 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
61720951 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
61720967 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:61720982 original size:29 final size:29
Alignment explanation
Indices: 61720950--61721025 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
61720940 CTGGAAATAT
* *
61720950 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
61720979 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
61721008 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
61721026 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:61720993 original size:58 final size:58
Alignment explanation
Indices: 61720893--61721025 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
61720883 GTGACGAGAT
* * * * * *
61720893 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
61720951 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
61721009 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
61721026 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:61726332 original size:29 final size:29
Alignment explanation
Indices: 61726272--61726402 Score: 145
Period size: 29 Copynumber: 4.5 Consensus size: 29
61726262 ATTTAAGCCC
* *** * *
61726272 GCACACATAGTGCCATACCCTTCGAGCTT
1 GCACACTTAGTGCCATATATTTCCAGCAT
** * *
61726301 GCACACCCAGTGCCGTATTTTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
61726330 GCACAGTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
* *
61726359 GCACACTTAGTGCCTTATATTTCCAGCAC
1 GCACACTTAGTGCCATATATTTCCAGCAT
61726388 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
61726403 ATCTCGTCAC
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 85 1.00
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:61727597 original size:10 final size:10
Alignment explanation
Indices: 61727573--61727651 Score: 51
Period size: 9 Copynumber: 8.1 Consensus size: 10
61727563 AACACTTTTT
61727573 TTTTTCTTTC
1 TTTTTCTTTC
* *
61727583 CTTTTCTTTG
1 TTTTTCTTTC
61727593 TTTTTC-TTC
1 TTTTTCTTTC
* * *
61727602 ATATTCTCTC
1 TTTTTCTTTC
61727612 -TTTT-TTTC
1 TTTTTCTTTC
61727620 TTTTT-TCTT-
1 TTTTTCT-TTC
61727629 TTTTTCATTTC
1 TTTTTC-TTTC
61727640 TTTATTCTTTC
1 TTT-TTCTTTC
61727651 T
1 T
61727652 ACATAATCCA
Statistics
Matches: 53, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
8 3 0.06
9 19 0.36
10 19 0.36
11 9 0.17
12 3 0.06
ACGTcount: A:0.05, C:0.19, G:0.01, T:0.75
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:61728787 original size:20 final size:20
Alignment explanation
Indices: 61728741--61728787 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
61728731 ACATATTATT
* *
61728741 ACTATTCATGACATGACTCC
1 ACTATTTATGACATGACCCC
*
61728761 ACTATTTATGACTTGACCCC
1 ACTATTTATGACATGACCCC
61728781 ACTATTT
1 ACTATTT
61728788 CTAGGACTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.36
Consensus pattern (20 bp):
ACTATTTATGACATGACCCC
Found at i:61730822 original size:30 final size:30
Alignment explanation
Indices: 61730788--61730847 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
61730778 ACTTAACAAG
61730788 CAAAT-ACTTCTAAAATAATAACAAAATTAA
1 CAAATGACTT-TAAAATAATAACAAAATTAA
*
61730818 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGACTTTAAAATAATAACAAAATTAA
61730848 TAATAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 25 0.89
31 3 0.11
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATGACTTTAAAATAATAACAAAATTAA
Found at i:61736468 original size:24 final size:24
Alignment explanation
Indices: 61736441--61736493 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
61736431 CATCAACCAA
61736441 CTCAGCCAAAGATTCATCCTTAAC
1 CTCAGCCAAAGATTCATCCTTAAC
*
61736465 CTCAGCCAAATATTCATCCTTAAC
1 CTCAGCCAAAGATTCATCCTTAAC
61736489 CTCAG
1 CTCAG
61736494 AAAAAGTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.32, C:0.34, G:0.08, T:0.26
Consensus pattern (24 bp):
CTCAGCCAAAGATTCATCCTTAAC
Found at i:61736943 original size:21 final size:22
Alignment explanation
Indices: 61736905--61736945 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
61736895 ATCCAATATC
*
61736905 TTCCAAATGAAAATCCTCCAAA
1 TTCCAAATGAAAAGCCTCCAAA
*
61736927 TTCCAACT-AAAAGCCTCCA
1 TTCCAAATGAAAAGCCTCCA
61736946 TTCTAGCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.41, C:0.32, G:0.05, T:0.22
Consensus pattern (22 bp):
TTCCAAATGAAAAGCCTCCAAA
Found at i:61759932 original size:16 final size:16
Alignment explanation
Indices: 61759908--61759938 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61759898 GTAAATCGGC
61759908 AAATCCCAAAAAGCTG
1 AAATCCCAAAAAGCTG
*
61759924 AAATGCCAAAAAGCT
1 AAATCCCAAAAAGCT
61759939 AAAAGTTTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.23, G:0.13, T:0.13
Consensus pattern (16 bp):
AAATCCCAAAAAGCTG
Found at i:61760190 original size:29 final size:28
Alignment explanation
Indices: 61760152--61760231 Score: 106
Period size: 29 Copynumber: 2.8 Consensus size: 28
61760142 GACTGTAAAA
*
61760152 GTGATTGGGCCTAGCAGGCCATATAGAT
1 GTGATTGGGCCTAGTAGGCCATATAGAT
* * *
61760180 GTGATTTGGGCCTAATGGGCCATATGGAT
1 GTGA-TTGGGCCTAGTAGGCCATATAGAT
*
61760209 GAGATTGGGCCTAGTAGGCCATA
1 GTGATTGGGCCTAGTAGGCCATA
61760232 AGCATGTATA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 21 0.48
29 23 0.52
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.26
Consensus pattern (28 bp):
GTGATTGGGCCTAGTAGGCCATATAGAT
Found at i:61763671 original size:46 final size:46
Alignment explanation
Indices: 61763604--61763815 Score: 302
Period size: 46 Copynumber: 4.6 Consensus size: 46
61763594 GCTCTCTGAA
* *
61763604 ATGAAAGGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
61763650 ATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
61763696 ATGAAATGTGTAAGACAATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
61763742 ATGAAA-GAATAAGATCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
61763787 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGA
61763816 CATTATGGCA
Statistics
Matches: 150, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
44 1 0.01
45 38 0.25
46 111 0.74
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:61763825 original size:91 final size:92
Alignment explanation
Indices: 61763604--61763815 Score: 293
Period size: 91 Copynumber: 2.3 Consensus size: 92
61763594 GCTCTCTGAA
* * * **
61763604 ATGAAAGGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCAT
* *
61763669 GGTTGAAAGATATCATGGCAACATGAT
66 GGTTGAAAGATACCATGGCAACATGAC
* * * *
61763696 ATGAAATGTGTAAGACAATGGTTGAAAGATACCATGGCAACGTGACATGAAA-GAATAAGATCAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCAT
61763760 GGTTGAAAGATACCATGGCAACATGAC
66 GGTTGAAAGATACCATGGCAACATGAC
*
61763787 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGAGTAAGACCATGGTTGAAAGA
61763816 CATTATGGCA
Statistics
Matches: 107, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
90 1 0.01
91 58 0.54
92 48 0.45
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.22
Consensus pattern (92 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCAT
GGTTGAAAGATACCATGGCAACATGAC
Found at i:61763844 original size:91 final size:91
Alignment explanation
Indices: 61763604--61763848 Score: 242
Period size: 91 Copynumber: 2.7 Consensus size: 91
61763594 GCTCTCTGAA
* * * * * * * **
61763604 ATGAAAGGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCAT
1 ATGAAATGAGTAAGACAATAGTTGAAAGACACCATGGCAACATGACAAGAAA-GAATAAGACCAT
* *
61763669 GGTTGAAAGATATCATGGCAACATGAT
65 GGTTGAAAGATACCATGGCAACATGAC
* * * * * *
61763696 ATGAAATGTGTAAGACAATGGTTGAAAGATACCATGGCAACGTGACATGAAAGAATAAGATCATG
1 ATGAAATGAGTAAGACAATAGTTGAAAGACACCATGGCAACATGACAAGAAAGAATAAGACCATG
61763761 GTTGAAAGATACCATGGCAACATGAC
66 GTTGAAAGATACCATGGCAACATGAC
* ** * * *
61763787 A-GAAAATGAGTAAGACCATAGTTGAAAGACATTATGGCATCATGTCAAAGATA-AATAAGACC
1 ATG-AAATGAGTAAGACAATAGTTGAAAGACACCATGGCAACATGAC-AAGAAAGAATAAGACC
61763849 GTGGATAGGA
Statistics
Matches: 130, Mismatches: 21, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
90 1 0.01
91 77 0.59
92 52 0.40
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (91 bp):
ATGAAATGAGTAAGACAATAGTTGAAAGACACCATGGCAACATGACAAGAAAGAATAAGACCATG
GTTGAAAGATACCATGGCAACATGAC
Found at i:61764468 original size:5 final size:5
Alignment explanation
Indices: 61764446--61764481 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
61764436 AGATTTTGCA
61764446 AAAAT AATAAT AAAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AA-AAT -AAAAT AAAAT AAAAT AAAAT AAAA
61764482 AAATTATGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 21 0.72
6 6 0.21
7 2 0.07
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:61767712 original size:29 final size:28
Alignment explanation
Indices: 61767679--61767812 Score: 99
Period size: 29 Copynumber: 4.6 Consensus size: 28
61767669 CGGTGACGAG
*
61767679 ATGGCACTAAGTGTGCGTGCTGGAAATAT
1 ATGGCACTAAGTGTGCGAGCTGGAAAT-T
* * *
61767708 ATGGCACTAAGTGTGCAAGCTGAAAAAAT
1 ATGGCACTAAGTGTGCGAGCTG-GAAATT
* ** **
61767737 ACGGCACTGGGTGTGCGAGCTCGGAGGTT
1 ATGGCACTAAGTGTGCGAGCT-GGAAATT
** * *
61767766 ATGGCACTGTGTGTGCGGGCT-TAAATT
1 ATGGCACTAAGTGTGCGAGCTGGAAATT
61767793 ACGTGGCACTAAGTGTGCGA
1 A--TGGCACTAAGTGTGCGA
61767813 AATCAAGTAA
Statistics
Matches: 80, Mismatches: 21, Indels: 8
0.73 0.19 0.07
Matches are distributed among these distances:
27 4 0.05
29 72 0.90
30 4 0.05
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTGGAAATT
Found at i:61775483 original size:29 final size:29
Alignment explanation
Indices: 61775421--61775485 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
61775411 GTGACGAGAT
** * * *
61775421 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCAAGCTGAAAAAAAA
*
61775450 TGGCACTAAGTGTGCAAGCTGAAAAAAAA
1 CGGCACTAAGTGTGCAAGCTGAAAAAAAA
61775479 CGGCACT
1 CGGCACT
61775486 GGGTGTGCGA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (29 bp):
CGGCACTAAGTGTGCAAGCTGAAAAAAAA
Found at i:61778432 original size:16 final size:16
Alignment explanation
Indices: 61778413--61778443 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61778403 AAAAAAGTCG
*
61778413 AAATGCCGAAAAGCTA
1 AAATGCCAAAAAGCTA
61778429 AAATGCCAAAAAGCT
1 AAATGCCAAAAAGCT
61778444 GAAAGTTTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.19, G:0.16, T:0.13
Consensus pattern (16 bp):
AAATGCCAAAAAGCTA
Found at i:61785064 original size:28 final size:28
Alignment explanation
Indices: 61784995--61785095 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
61784985 GACAAGATTG
* * * *
61784995 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
61785025 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
61785053 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
61785082 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
61785096 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:61791152 original size:33 final size:32
Alignment explanation
Indices: 61791115--61791176 Score: 115
Period size: 33 Copynumber: 1.9 Consensus size: 32
61791105 AAGAGTTCCA
61791115 TTGGGAACCCGAGAACTCTATGAAGAGAGCTAC
1 TTGGGAACCCGAGAACTCTATGAA-AGAGCTAC
61791148 TTGGGAACCCGAGAACTCTATGAAAGAGC
1 TTGGGAACCCGAGAACTCTATGAAAGAGC
61791177 GTTACCCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 5 0.17
33 24 0.83
ACGTcount: A:0.34, C:0.21, G:0.27, T:0.18
Consensus pattern (32 bp):
TTGGGAACCCGAGAACTCTATGAAAGAGCTAC
Found at i:61794470 original size:80 final size:80
Alignment explanation
Indices: 61794321--61794526 Score: 220
Period size: 80 Copynumber: 2.6 Consensus size: 80
61794311 AATTGAATGA
* * ** * ** * *
61794321 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT-CGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
61794385 TTGTGCTAG-CG-AC
66 TTGTGCAAGTCGTAC
* * *
61794398 TACATCCGGGCTAAGACCTGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGC
* *
61794463 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
61794480 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGG
61794527 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
77 1 0.01
79 33 0.31
80 68 0.64
81 2 0.02
82 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:61794524 original size:40 final size:40
Alignment explanation
Indices: 61794320--61794526 Score: 179
Period size: 40 Copynumber: 5.2 Consensus size: 40
61794310 CAATTGAATG
* * ** **
61794320 ATATCCGGGCTAAGTCCCGAAGACATTTATGC-TAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAT-GTGGTT
* * **
61794360 ATAT-CGGGTTAAGACCCGAAGGCAATT-GTGC-TAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAT-GTGGTT
* * * *
61794399 ACATCCGGGCTAAGACCTGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
* * * * *
61794439 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
*
61794479 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
61794519 ATATCCGG
1 ATATCCGG
61794527 TTGTATTCCG
Statistics
Matches: 136, Mismatches: 27, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
39 30 0.22
40 106 0.78
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
Found at i:61798416 original size:55 final size:56
Alignment explanation
Indices: 61798351--61798465 Score: 132
Period size: 55 Copynumber: 2.1 Consensus size: 56
61798341 AGCATGGCTG
*
61798351 CCAGATACAGA-AAATGT-GACAGAGTCACCAGATACAGAT-ATGTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGGA-AGAGCCACCAGA-ACAGATAAT-TTGTGGCA-TAGCCA
* *
61798407 CCAGA-ACAGATATATGTGGAAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGGAAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
61798462 CCAG
1 CCAG
61798466 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
54 1 0.02
55 27 0.52
56 22 0.42
57 2 0.04
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGGAAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:61798433 original size:27 final size:28
Alignment explanation
Indices: 61798376--61798445 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
61798366 GTGACAGAGT
* * *
61798376 CACCAGATACAGATATGTTGTGGCAGTGC
1 CACCAGA-ACAGATATGATGTGGAAGGGC
61798405 CACCAGAACAGATAT-ATGTGGAAGGGC
1 CACCAGAACAGATATGATGTGGAAGGGC
61798432 CACCAGAACAGATA
1 CACCAGAACAGATA
61798446 ATTTGTGGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.61
28 8 0.21
29 7 0.18
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.17
Consensus pattern (28 bp):
CACCAGAACAGATATGATGTGGAAGGGC
Found at i:61798461 original size:28 final size:26
Alignment explanation
Indices: 61798376--61798465 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 26
61798366 GTGACAGAGT
61798376 CACCAGATACAGATATGTTGTGGCAGTGC
1 CACCAGA-ACAGATAT-TTGTGGCA-TGC
* * *
61798405 CACCAGAACAGATATATGTGGAAGGGC
1 CACCAGAACAGATATTTGTGGCA-TGC
61798432 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGAT-ATTTGTGGCAT-GC
61798460 CACCAG
1 CACCAG
61798466 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 22 0.42
28 24 0.45
29 7 0.13
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (26 bp):
CACCAGAACAGATATTTGTGGCATGC
Found at i:61803521 original size:25 final size:25
Alignment explanation
Indices: 61803477--61803527 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
61803467 ATATTTCATT
*
61803477 TGATAAGTTTTTAATAATAATAATA
1 TGATAAGTCTTTAATAATAATAATA
*
61803502 TGATAA-TCTTTAATATATAATTATA
1 TGATAAGTCTTTAATA-ATAATAATA
61803527 T
1 T
61803528 CTATTATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (25 bp):
TGATAAGTCTTTAATAATAATAATA
Found at i:61803633 original size:17 final size:18
Alignment explanation
Indices: 61803607--61803640 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
61803597 GTTTTGTTTA
61803607 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
61803624 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
61803641 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:61819146 original size:40 final size:39
Alignment explanation
Indices: 61819102--61819294 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
61819092 GTTCAAAACA
* * ** * *
61819102 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
61819142 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
61819182 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
61819221 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
61819260 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
61819295 TTCATTCACA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:61819213 original size:39 final size:39
Alignment explanation
Indices: 61819132--61819294 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
61819122 TATGGTAACC
* *
61819132 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
61819172 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
61819211 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
61819250 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
61819289 CGCACA
1 CGCACA
61819295 TTCATTCACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:61827349 original size:40 final size:40
Alignment explanation
Indices: 61827307--61827481 Score: 174
Period size: 40 Copynumber: 4.4 Consensus size: 40
61827297 CATTTATTCT
* *
61827307 AGTAATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AGTAATTATATCCGGGCTAAGACCCGAAGGCAATTGTGCA
* * *
61827347 AGTGACTACATCCGGGCTAAGACCCGAAGGC-ATTCGTGCA
1 AGTAATTATATCCGGGCTAAGACCCGAAGGCAATT-GTGCA
** * * *
61827387 AGTTGTTAAATCCGGGCTAATACCCGAAGGCATTTGTGCA
1 AGTAATTATATCCGGGCTAAGACCCGAAGGCAATTGTGCA
** *
61827427 AGTCGTTATATCCGGGCTAAGACCTGAAGGC-ATTCGTGCA
1 AGTAATTATATCCGGGCTAAGACCCGAAGGCAATT-GTGCA
* **
61827467 TGTGGTTATATCCGG
1 AGTAATTATATCCGG
61827482 TTGTATTCCG
Statistics
Matches: 114, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 5 0.04
40 107 0.94
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTAATTATATCCGGGCTAAGACCCGAAGGCAATTGTGCA
Found at i:61827417 original size:80 final size:80
Alignment explanation
Indices: 61827316--61827481 Score: 226
Period size: 80 Copynumber: 2.1 Consensus size: 80
61827306 TAGTAATTAT
* *
61827316 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGT-GACTACATCCGGGCTAAGACCCGAAGGCAT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCG-CTACATCCGGGCTAAGACCCGAAGGCAT
*
61827380 TCGTGCAAGTTGTTAA
65 TCGTGCAAGTGGTTAA
* * * * *
61827396 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATATCCGGGCTAAGACCTGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCGCTACATCCGGGCTAAGACCCGAAGGCATT
* *
61827461 CGTGCATGTGGTTAT
66 CGTGCAAGTGGTTAA
61827476 ATCCGG
1 ATCCGG
61827482 TTGTATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
80 74 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCGCTACATCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTGGTTAA
Found at i:61828844 original size:46 final size:46
Alignment explanation
Indices: 61828794--61828969 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
61828784 TGGTTGAGCA
*
61828794 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
61828840 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
61828887 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
61828933 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61828970 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
46 70 0.67
47 35 0.33
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:61828950 original size:93 final size:93
Alignment explanation
Indices: 61828791--61828962 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
61828781 GGATGGTTGA
* * *
61828791 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
61828856 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
61828884 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
61828949 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
61828963 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:61836487 original size:40 final size:39
Alignment explanation
Indices: 61836443--61836635 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
61836433 GTTCAAAACA
* * ** * *
61836443 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
61836483 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
61836523 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
61836562 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
61836601 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
61836636 TTCATTCACA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:61836554 original size:39 final size:39
Alignment explanation
Indices: 61836473--61836635 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
61836463 TATGGTAACC
* *
61836473 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
61836513 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
61836552 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
61836591 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
61836630 CGCACA
1 CGCACA
61836636 TTCATTCACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:61851363 original size:46 final size:48
Alignment explanation
Indices: 61851309--61851442 Score: 179
Period size: 46 Copynumber: 2.9 Consensus size: 48
61851299 CTGGATATTG
61851309 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-CGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACGA
* * * *
61851356 -GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG--ACGA
61851402 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61851443 GCGGGTTACA
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
43 4 0.05
45 2 0.03
46 33 0.45
47 31 0.42
48 2 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (48 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACGA
Found at i:61856820 original size:27 final size:28
Alignment explanation
Indices: 61856763--61856832 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
61856753 AAATTTGTAC
**
61856763 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
61856791 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
61856818 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
61856833 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:61856841 original size:27 final size:27
Alignment explanation
Indices: 61856763--61856844 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
61856753 AAATTTGTAC
* *
61856763 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
61856791 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
61856818 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
61856845 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:61864732 original size:27 final size:28
Alignment explanation
Indices: 61864675--61864744 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
61864665 AAATTTGTAC
**
61864675 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
61864703 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
61864730 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
61864745 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:61864753 original size:27 final size:27
Alignment explanation
Indices: 61864675--61864756 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
61864665 AAATTTGTAC
* *
61864675 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
61864703 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
61864730 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
61864757 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:61873250 original size:38 final size:37
Alignment explanation
Indices: 61872887--61873563 Score: 567
Period size: 38 Copynumber: 18.5 Consensus size: 37
61872877 GAGACAAATA
* *
61872887 TCTATCCCGACC-TTTTTAAGTTTGCCTTAGAC--GG
1 TCTATCCCAACCTTTTTTAAGGTTGCCTTAGACAAGG
* *
61872921 ATTTATCCTAA-CTTTTTTAAGGTTGCCTTAGAC-AGG
1 -TCTATCCCAACCTTTTTTAAGGTTGCCTTAGACAAGG
* * * *
61872957 TTTATCCCAACTTTTTTTAA-GTTGCCTTGGAAAAGG
1 TCTATCCCAACCTTTTTTAAGGTTGCCTTAGACAAGG
**
61872993 TCTATCTTAACC-TTTTTAAGGTTG--TT-GTA-AATGGG
1 TCTATCCCAACCTTTTTTAAGGTTGCCTTAG-ACAA--GG
* * * *
61873028 TCTATCCCAA-CATTTTTAACGTTGTCTTAGA-TAGG
1 TCTATCCCAACCTTTTTTAAGGTTGCCTTAGACAAGG
* * ** * *
61873063 TCAATCCCAACCTTTTCTAAAATTTGCTTTAGACAAGA
1 TCTATCCCAACCTTTT-TTAAGGTTGCCTTAGACAAGG
* * ** *
61873101 TCTATTCTAACC-TTTTGGAGGTTACCTTAGACGAA--
1 TCTATCCCAACCTTTTTTAAGGTTGCCTTAGAC-AAGG
*
61873136 TCTATCCCAACC-TTTTTAAGGTTGCTTTAGACAA-G
1 TCTATCCCAACCTTTTTTAAGGTTGCCTTAGACAAGG
** *
61873171 TCTATCGTAACCTTTTTTTAAGGTTGCCTTAAACAA-G
1 TCTATCCCAACC-TTTTTTAAGGTTGCCTTAGACAAGG
* *
61873208 TCTATCCCAACCCTTTTTTAAGGTTGCCTTAAACAAGA
1 TCTATCCCAA-CCTTTTTTAAGGTTGCCTTAGACAAGG
*
61873246 TCTATCCCAACCTTTTTTAAATGTTGCCTTAGACAAGG
1 TCTATCCCAACCTTTTTT-AAGGTTGCCTTAGACAAGG
* * *
61873284 TCTATCCCAACATTTTTAAAAGGTTGCCTTAGATAAGG
1 TCTATCCCAACCTTTTT-TAAGGTTGCCTTAGACAAGG
* *
61873322 TCTATCCCAACCTTTTTTAAAGGTTTCCCTAGACAAGG
1 TCTATCCCAACCTTTTTT-AAGGTTGCCTTAGACAAGG
*
61873360 TCTA-CACCAACC-TATTTAAGGTTGCCTTAGACAAGG
1 TCTATC-CCAACCTTTTTTAAGGTTGCCTTAGACAAGG
* * * * * *
61873396 TTTATCGCAACTTTTTTTAAATGTTGCCTTAGATATGG
1 TCTATCCCAACCTTTTTT-AAGGTTGCCTTAGACAAGG
* ** *
61873434 TCTATCCCAACTTTTTTTAAAGGTTATCTTAGAC-TGG
1 TCTATCCCAACCTTTTTT-AAGGTTGCCTTAGACAAGG
61873471 TCTATCCCAACC-TTTTTAAGGTTGCCTTAGAC-AGG
1 TCTATCCCAACCTTTTTTAAGGTTGCCTTAGACAAGG
* * *
61873506 TCTATCACAACCTTTTTCAAAGGTTGGCCTT-GACTAGG
1 TCTATCCCAACCTTTTT-TAAGGTT-GCCTTAGACAAGG
*
61873544 TCTATCGCAACCTTTTTTAA
1 TCTATCCCAACCTTTTTTAA
61873564 AGGTCGGCAT
Statistics
Matches: 527, Mismatches: 83, Indels: 62
0.78 0.12 0.09
Matches are distributed among these distances:
33 3 0.01
34 7 0.01
35 146 0.28
36 73 0.14
37 115 0.22
38 183 0.35
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (37 bp):
TCTATCCCAACCTTTTTTAAGGTTGCCTTAGACAAGG
Found at i:61873380 original size:150 final size:149
Alignment explanation
Indices: 61872887--61873564 Score: 559
Period size: 150 Copynumber: 4.6 Consensus size: 149
61872877 GAGACAAATA
* * * * *
61872887 TCTATCCCGACC-TTTTTAAGTTTGCCTTAGAC--GGATTTATC-CTAACTTTTTTAAGGTTGCC
1 TCTATCCCAACCTTTTTTAAGGTTGCCTTAGACAAGG-TCTATCACCAACCTTTTTAAGGTTGCC
* * * * * ** *
61872948 TTAGAC-AGGTTTATCCCAA-CTTTTTTTAA-GTTGCCTTGGAAAAGGTCTATCTTAACCTTTTT
65 TTAGACAAGGTCTATCGCAACCTTTTTTAAATGTTGCCTTAGACAAGGTCTATCCCAACATTTTT
* * *
61873010 -AAGGTTG-TTGTAAAT-GGG
130 AAAGGTTGCCT-TAGATAAGG
* * * * * **
61873028 TCTATCCCAA-CATTTTTAACGTTGTCTTAGA-TAGGTCAATC-CCAACCTTTTCTAAAATTTGC
1 TCTATCCCAACCTTTTTTAAGGTTGCCTTAGACAAGGTCTATCACCAACCTTTT-T-AAGGTTGC
* * * ** * * *
61873090 TTTAGACAAGATCTATTC-TAACC--TTTTGGAGGTTACCTTAGACGAA--TCTATCCCAACCTT
64 CTTAGACAAGGTCTA-TCGCAACCTTTTTTAAATGTTGCCTTAGAC-AAGGTCTATCCCAACATT
* *
61873150 TTT-AAGGTTGCTTTAGACAA-G
127 TTTAAAGGTTGCCTTAGATAAGG
** *
61873171 TCTATCGTAACCTTTTTTTAAGGTTGCCTTAAACAA-GTCTATC-CCAACCCTTTTTTAAGGTTG
1 TCTATCCCAACC-TTTTTTAAGGTTGCCTTAGACAAGGTCTATCACCAA-CC-TTTTTAAGGTTG
* * *
61873234 CCTTAAACAAGATCTATCCCAACCTTTTTTAAATGTTGCCTTAGACAAGGTCTATCCCAACATTT
63 CCTTAGACAAGGTCTATCGCAACCTTTTTTAAATGTTGCCTTAGACAAGGTCTATCCCAACATTT
61873299 TTAAAAGGTTGCCTTAGATAAGG
128 TT-AAAGGTTGCCTTAGATAAGG
* * *
61873322 TCTATCCCAACCTTTTTTAAAGGTTTCCCTAGACAAGGTCTA-CACCAACCTATTTAAGGTTGCC
1 TCTATCCCAACCTTTTTT-AAGGTTGCCTTAGACAAGGTCTATCACCAACCTTTTTAAGGTTGCC
* * * * *
61873386 TTAGACAAGGTTTATCGCAACTTTTTTTAAATGTTGCCTTAGATATGGTCTATCCCAACTTTTTT
65 TTAGACAAGGTCTATCGCAACCTTTTTTAAATGTTGCCTTAGACAAGGTCTATCCCAAC-ATTTT
**
61873451 TAAAGGTTATCTTAGACT--GG
129 TAAAGGTTGCCTTAGA-TAAGG
61873471 TCTATCCCAACC-TTTTTAAGGTTGCCTTAGAC-AGGTCTATCA-CAACCTTTTTCAAAGGTTGG
1 TCTATCCCAACCTTTTTTAAGGTTGCCTTAGACAAGGTCTATCACCAACCTTTTT--AAGGTT-G
*
61873533 CCTT-GACTAGGTCTATCGCAACCTTTTTTAAA
63 CCTTAGACAAGGTCTATCGCAACCTTTTTTAAA
61873565 GGTCGGCATT
Statistics
Matches: 437, Mismatches: 66, Indels: 61
0.77 0.12 0.11
Matches are distributed among these distances:
140 1 0.00
141 37 0.08
142 3 0.01
143 51 0.12
144 21 0.05
145 54 0.12
146 22 0.05
147 35 0.08
148 52 0.12
149 19 0.04
150 99 0.23
151 34 0.08
152 9 0.02
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (149 bp):
TCTATCCCAACCTTTTTTAAGGTTGCCTTAGACAAGGTCTATCACCAACCTTTTTAAGGTTGCCT
TAGACAAGGTCTATCGCAACCTTTTTTAAATGTTGCCTTAGACAAGGTCTATCCCAACATTTTTA
AAGGTTGCCTTAGATAAGG
Found at i:61873595 original size:39 final size:38
Alignment explanation
Indices: 61873507--61873596 Score: 108
Period size: 38 Copynumber: 2.3 Consensus size: 38
61873497 TTAGACAGGT
* * * * *
61873507 CTATCACAACCTTTTTCAAAGGTTGGCCTTGACTAGGT
1 CTATCGCAACCTTTTTCAAAGGTCGGCATTGACTAAGC
*
61873545 CTATCGCAACCTTTTTTAAAGGTCGGCATTGACTAAGC
1 CTATCGCAACCTTTTTCAAAGGTCGGCATTGACTAAGC
*
61873583 CTTTCGCAAACCTT
1 CTATCGC-AACCTT
61873597 CAATAAAGGT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
38 38 0.86
39 6 0.14
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (38 bp):
CTATCGCAACCTTTTTCAAAGGTCGGCATTGACTAAGC
Found at i:61874315 original size:43 final size:44
Alignment explanation
Indices: 61874244--61874378 Score: 184
Period size: 43 Copynumber: 3.1 Consensus size: 44
61874234 TATCGAAATG
* *
61874244 TGATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
61874288 TGATA-TCGGGCTTTGAGCTTAGTAGGCTATGATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
*
61874331 T-ATTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATTCG-GGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
61874376 TGA
1 TGA
61874379 AATGTTATGT
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.01
43 36 0.46
44 8 0.10
45 32 0.41
46 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (44 bp):
TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:61874360 original size:45 final size:43
Alignment explanation
Indices: 61874261--61874378 Score: 166
Period size: 45 Copynumber: 2.7 Consensus size: 43
61874251 CGGGCTTCGG
*
61874261 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
* * *
61874304 GCTTAGTAGGCTATGATGCCGGTGAAAT-ATTATTCGAGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA-TA-TCG-GCCTTTGA
61874349 GCCTAGCAGGCTATAATGCCGGTGAAATGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA
61874379 AATGTTATGT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 1 0.02
43 27 0.42
44 3 0.05
45 32 0.50
46 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (43 bp):
GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
Found at i:61874707 original size:38 final size:38
Alignment explanation
Indices: 61874684--61874845 Score: 243
Period size: 38 Copynumber: 4.3 Consensus size: 38
61874674 ATGCTAGAAT
*
61874684 TATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
61874722 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* *
61874760 TATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
** * * *
61874798 TATATCCGGGTTAAATTTCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
*
61874836 TATATTCGGG
1 TATATCCGGG
61874846 CCTTTGAGCC
Statistics
Matches: 115, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 115 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
Found at i:61874963 original size:45 final size:45
Alignment explanation
Indices: 61874838--61875010 Score: 201
Period size: 45 Copynumber: 3.9 Consensus size: 45
61874828 GCTGGTATTA
* * *
61874838 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCAGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
*
61874883 TATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* *
61874928 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCGATGAAATGA-
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGAT-AC
* ** * *
61874973 TAATCGGGCC-TCAATCCTAGCAGGC-AAAATGCCGGTGA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
61875011 TTTGAGAAAA
Statistics
Matches: 112, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
43 11 0.10
44 15 0.13
45 84 0.75
46 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
Found at i:61878598 original size:3 final size:3
Alignment explanation
Indices: 61878590--61878640 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
61878580 ATTGTAATGC
61878590 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
61878638 TTA
1 TTA
61878641 CATAAATTGC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:61879034 original size:42 final size:43
Alignment explanation
Indices: 61878956--61879041 Score: 156
Period size: 42 Copynumber: 2.0 Consensus size: 43
61878946 CCACTAGGAA
61878956 TTATGTGATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGAT
1 TTATGTGATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGAT
*
61878999 TTATGTGATTTGAACTCA-TGAGTTGTGGTCTGAGTTCATGAT
1 TTATGTGATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGAT
61879041 T
1 T
61879042 ACGAGACACT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 25 0.60
43 17 0.40
ACGTcount: A:0.21, C:0.10, G:0.26, T:0.43
Consensus pattern (43 bp):
TTATGTGATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGAT
Found at i:61879037 original size:20 final size:20
Alignment explanation
Indices: 61878975--61879039 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
61878965 CTGAACTCAT
61878975 TGAGTTGTGGTCTGAGTTCA
1 TGAGTTGTGGTCTGAGTTCA
* * * **
61878995 TGATTTATGTGATTTGAACTCA
1 TGA-GT-TGTGGTCTGAGTTCA
61879017 TGAGTTGTGGTCTGAGTTCA
1 TGAGTTGTGGTCTGAGTTCA
61879037 TGA
1 TGA
61879040 TTACGAGACA
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
20 17 0.52
21 2 0.06
22 14 0.42
ACGTcount: A:0.20, C:0.09, G:0.29, T:0.42
Consensus pattern (20 bp):
TGAGTTGTGGTCTGAGTTCA
Found at i:61882346 original size:20 final size:18
Alignment explanation
Indices: 61882321--61882359 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
61882311 GAAGTTTATA
*
61882321 AAATAGGTTGTAAATGTGTG
1 AAATA-GTTGAAAAT-TGTG
61882341 AAATAGTTGAAAATTGTG
1 AAATAGTTGAAAATTGTG
61882359 A
1 A
61882360 GTTGCTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 8 0.44
20 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.26, T:0.33
Consensus pattern (18 bp):
AAATAGTTGAAAATTGTG
Found at i:61882901 original size:48 final size:48
Alignment explanation
Indices: 61882824--61883142 Score: 355
Period size: 48 Copynumber: 6.6 Consensus size: 48
61882814 TATATGTGCT
*
61882824 AGTGTAAGACCATGTCTGGGAAATGGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* *
61882872 AGTGTAAGACCATGTTTGGGACATAGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* *** * * **
61882920 AGTGTAAGACCATGTCTGGGACATGGCATTGGCGTTGA-TATGTGTGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CACATTATGAGAGCC
*
61882968 AGTGTAAGACCATGTCTGGGATATGGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* * *
61883016 AGTGTAAGACCATGTCTGGGATATGGCATCGG---CATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT---ATGAGAGCC
* * *
61883064 AGTGTAAGGCCATGTTTGGGACATGGCATCAGCCTCGACA-TAT--GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GGC-C-ACATTATGAGAGCC
*
61883112 AGTGTAAGACCATGTTTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
61883143 ATAAGTTACC
Statistics
Matches: 229, Mismatches: 31, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
45 4 0.02
47 2 0.01
48 217 0.95
49 2 0.01
50 1 0.00
53 1 0.00
54 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
Found at i:61882998 original size:144 final size:142
Alignment explanation
Indices: 61882811--61883142 Score: 441
Period size: 144 Copynumber: 2.3 Consensus size: 142
61882801 GACATTTGGG
61882811 TGATATATGTGCTAGTGTAAGACCATGTCTGGGAAATGGCATCGGCCACATTATGAGAGCCAGTG
1 TGATATATGTGCTAGTGTAAGACCATGTCTGGGAAATGGCATCGGCCACATTATGAGAGCCAGTG
* *
61882876 TAAGACCATGTTTGGGACATAGCATCGGCCACATT-ATGAGAGCCAGTGTAAGACCATGTCTGGG
66 TAAGACCATGTCTGGGACATAGCATCGG---CATTGACGAGAGCCAGTGTAAGACCATGTCTGGG
** *
61882940 ACATGGCATTGGCGT
128 ACATGGCATCAGCCT
* * *
61882955 TGATATGTGTGTTAGTGTAAGACCATGTCTGGGATATGGCATCGGCCACATTATGAGAGCCAGTG
1 TGATATATGTGCTAGTGTAAGACCATGTCTGGGAAATGGCATCGGCCACATTATGAGAGCCAGTG
* * * * *
61883020 TAAGACCATGTCTGGGATATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGGCCATGTTTGGGA
66 TAAGACCATGTCTGGGACATAGCATCGGCATT--GACGAGAGCCAGTGTAAGACCATGTCTGGGA
61883085 CATGGCATCAGCCT
129 CATGGCATCAGCCT
* * * * * *
61883099 CGACATATGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCG
1 TGATATATGTGCTAGTGTAAGACCATGTCTGGGAAATGGCATCG
61883143 ATAAGTTACC
Statistics
Matches: 164, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
141 4 0.02
144 160 0.98
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (142 bp):
TGATATATGTGCTAGTGTAAGACCATGTCTGGGAAATGGCATCGGCCACATTATGAGAGCCAGTG
TAAGACCATGTCTGGGACATAGCATCGGCATTGACGAGAGCCAGTGTAAGACCATGTCTGGGACA
TGGCATCAGCCT
Found at i:61889262 original size:27 final size:27
Alignment explanation
Indices: 61889222--61889561 Score: 432
Period size: 27 Copynumber: 12.6 Consensus size: 27
61889212 AAAGTACTCC
*
61889222 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
61889249 C-AGGTTATAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** * *
61889276 CGATTTGTAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
61889303 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
61889330 C-AGTTTACAAAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
61889357 CGATTTACAGAATTACCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
61889384 CAATTTACATAATTACCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* *
61889411 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
61889438 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
61889465 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
61889492 CGATTTATAGAATTACTGTTTCACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
61889519 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
61889546 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
61889562 TAAAATACCC
Statistics
Matches: 274, Mismatches: 35, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.01
27 270 0.99
28 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:61889599 original size:81 final size:80
Alignment explanation
Indices: 61889222--61889605 Score: 227
Period size: 81 Copynumber: 4.7 Consensus size: 80
61889212 AAAGTACTCC
**** * ** ** *
61889222 CGATTTACAAAATTACCGTTTTACCCTC-AGGTTATAGAATTACCGTTTTACCCTCGATTTGTAA
1 CGATTTACAAAATTACCAAAATACCCTCGA-TTTATAGAATTACCG-AATACCCTCGATTTACAG
*
61889286 AATTATCGTTTTACCCT
64 AATTACCGTTTTACCCT
* ***** * * * *
61889303 CGATTTACAGAATTACTGTTTTACCCTC-AGTTTACAAAATTA-CTATTTTACCCTCGATTTACA
1 CGATTTACAAAATTACCAAAATACCCTCGA-TTTATAGAATTACCGA--ATACCCTCGATTTACA
*
61889366 GAATTACCGTTTTACCCC
63 GAATTACCGTTTTACCCT
* * **** * * * * **
61889384 CAATTTACATAATTACCGTTTTACCCCCGATTTACATAATTATCGTTTTACCCTCGATTTACAGA
1 CGATTTACAAAATTACCAAAATACCCTCGATTTATAGAATTACCG-AATACCCTCGATTTACAGA
61889449 ATTACCGTTTTACCCT
65 ATTACCGTTTTACCCT
* *** * ** *
61889465 CGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTCACCCTTGATTTACAGA
1 CGATTTACAAAATTACCAAAATACCCTCGATTTATAGAATTACCGAAT-ACCCTCGATTTACAGA
*
61889530 ATTACTGTTTTACCCT
65 ATTACCGTTTTACCCT
* * * * *
61889546 CGATTTACAAAATTACTAAAATACCCTTGGTTTGT-GAAATTACCGCAATACCCTCAATTT
1 CGATTTACAAAATTACCAAAATACCCTCGATTTATAG-AATTACCG-AATACCCTCGATTT
61889606 GTAAAACTAC
Statistics
Matches: 252, Mismatches: 43, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
80 5 0.02
81 244 0.97
82 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (80 bp):
CGATTTACAAAATTACCAAAATACCCTCGATTTATAGAATTACCGAATACCCTCGATTTACAGAA
TTACCGTTTTACCCT
Found at i:61891037 original size:24 final size:24
Alignment explanation
Indices: 61890980--61891170 Score: 280
Period size: 24 Copynumber: 8.0 Consensus size: 24
61890970 GGAGGAAGTG
61890980 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
61891004 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
61891027 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
61891051 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
61891075 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
61891099 -TAAAGGGATTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
61891122 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
61891146 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
61891171 ATGATAAAGC
Statistics
Matches: 154, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
23 43 0.28
24 100 0.65
25 11 0.07
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:61891049 original size:47 final size:47
Alignment explanation
Indices: 61890980--61891149 Score: 295
Period size: 47 Copynumber: 3.6 Consensus size: 47
61890970 GGAGGAAGTG
61890980 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
61891027 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
*
61891075 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGATTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
61891122 TAAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
61891150 AGAGGCTAGG
Statistics
Matches: 117, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
47 71 0.61
48 46 0.39
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:61891104 original size:71 final size:71
Alignment explanation
Indices: 61890980--61891170 Score: 278
Period size: 71 Copynumber: 2.7 Consensus size: 71
61890970 GGAGGAAGTG
* *
61890980 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGATTATGCCCC
61891045 AGTTAT
66 AGTTAT
*
61891051 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGATTATGCCC
1 CAAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATCAAAAGGGATTATGCCC
61891115 CAGTTAT
65 CAGTTAT
* * *
61891122 TAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
61891171 ATGATAAAGC
Statistics
Matches: 110, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
71 76 0.69
72 34 0.31
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGATTATGCCCC
AGTTAT
Found at i:61891399 original size:31 final size:31
Alignment explanation
Indices: 61891364--61891427 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
61891354 CGTTTACAGT
*
61891364 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
61891395 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
61891426 AA
1 AA
61891428 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:61893004 original size:18 final size:20
Alignment explanation
Indices: 61892981--61893024 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
61892971 TGTGGGTAGG
61892981 CCGTGTGG-TCT-CACACGC
1 CCGTGTGGCTCTGCACACGC
*
61892999 CCGTGTGGCTCTGGACACGC
1 CCGTGTGGCTCTGCACACGC
61893019 CCGTGT
1 CCGTGT
61893025 CATCAACCCG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.35
19 3 0.13
20 12 0.52
ACGTcount: A:0.09, C:0.36, G:0.32, T:0.23
Consensus pattern (20 bp):
CCGTGTGGCTCTGCACACGC
Found at i:61894612 original size:16 final size:16
Alignment explanation
Indices: 61894593--61894624 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61894583 AATTGTTTTA
61894593 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
61894609 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
61894625 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:61894908 original size:50 final size:50
Alignment explanation
Indices: 61894822--61895262 Score: 440
Period size: 50 Copynumber: 8.7 Consensus size: 50
61894812 TAAGAAGCTC
* *
61894822 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * *
61894872 TCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACATATCCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * ** *
61894922 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACATGATCAAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAA
* * * *
61894974 -CGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * *
61895023 TCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* ** * * * ** * *
61895073 TCTGATACATGTAGTAGCTTGCACTTAGTACTACATACATGATCAAAACTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCTATCAA
* * *
61895124 TC-GGTTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTGG-TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * *
61895174 TCTGGTATACGTAGTAGCCTGCACTTAGTAGTACACACGTGACCTA-AAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* *
61895223 T-TGTCTTAAACACATAGTAGCCTGCACATAGTACTACACA
1 TCTG--GT--ACACATAGTAGCCTGCACTTAGTACTACACA
61895263 TATGTTCTCA
Statistics
Matches: 322, Mismatches: 59, Indels: 18
0.81 0.15 0.05
Matches are distributed among these distances:
48 2 0.01
49 5 0.02
50 209 0.65
51 77 0.24
52 29 0.09
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
Found at i:61895007 original size:101 final size:99
Alignment explanation
Indices: 61894831--61895262 Score: 418
Period size: 101 Copynumber: 4.3 Consensus size: 99
61894821 CTCTGGTACG
* ** *
61894831 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTAGTACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACAAATCAA-CTGGTACACGTAGTAGCCTGCAC
* *
61894896 TTAGTACTACACACGTGACATATCCATCTGATACA
65 TTAGTACTACACACGTGACATATCTATCCGATACA
* * * * *
61894931 CGTAGTAGCCTGCACTTAGTACTACACACATGATCAAAGTTAACGGGTACACATAGTAGCCTGCA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA-CAAA-TCAACTGGTACACGTAGTAGCCTGCA
* * * *
61894996 CTTAGTACTACACATGCGACCTATCTATCCGGTACA
64 CTTAGTACTACACACGTGACATATCTATCCGATACA
* * * * * *
61895032 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACATGTAGTAGCTTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA-CAAATCAACTGGTACACGTAGTAGCCTGCAC
* * * * * *
61895097 TTAGTACTACATACATGATCAAAACTATCGGTTACA
65 TTAGTACTACACACGTGA-CATATCTATCCGATACA
* * * *
61895133 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-CAATCTGGTATACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA-CAAATCAA-CTGGTACACGTAGTAGCCTGCA
* * * ** *
61895197 CTTAGTAGTACACACGTGACCTAAAAT-TGTCTTAAACA
64 CTTAGTACTACACACGTGA-C--ATATCTATCCGATACA
*
61895235 CATAGTAGCCTGCACATAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
61895263 TATGTTCTCA
Statistics
Matches: 272, Mismatches: 54, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
100 65 0.24
101 168 0.62
102 36 0.13
103 3 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (99 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACAAATCAACTGGTACACGTAGTAGCCTGCACT
TAGTACTACACACGTGACATATCTATCCGATACA
Found at i:61895010 original size:26 final size:26
Alignment explanation
Indices: 61894978--61895059 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
61894968 AGTTAACGGG
61894978 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
* *
61895004 TACACAT-G-CGACCT--A-TCTA-TCC
1 TACACATAGTAG-CCTGCACT-TAGTAC
61895026 GGTACACATAGTAGCCTGCACTTAGTAC
1 --TACACATAGTAGCCTGCACTTAGTAC
61895054 TACACA
1 TACACA
61895060 CGTGACCTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 20
0.64 0.06 0.30
Matches are distributed among these distances:
22 3 0.07
23 3 0.07
24 8 0.19
25 8 0.19
26 14 0.33
27 3 0.07
28 3 0.07
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (26 bp):
TACACATAGTAGCCTGCACTTAGTAC
Found at i:61895099 original size:151 final size:151
Alignment explanation
Indices: 61894825--61895262 Score: 635
Period size: 151 Copynumber: 2.9 Consensus size: 151
61894815 GAAGCTCTCT
* * *
61894825 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTAGTACACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* *
61894890 CTGCACTTAGTACTACACACGTGACATATCCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
**
61894955 CACACATGATCAAAGTTAACG
131 CACACATGATCAAAACTAACG
* * *
61894976 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCTATCCGGTACACATAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* *
61895041 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACATGTAGTAGCTTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
* *
61895106 CATACATGATCAAAACTATCG
131 CACACATGATCAAAACTAACG
* * *
61895127 GTTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTATACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * * * * *
61895192 CTGCACTTAGTAGTACACACGTGACCTAA-AATTGTCTTAAACACATAGTAGCCTGCACATAGTA
66 CTGCACTTAGTACTACACACGTGACCTAACCA---TCTGATACACGTAGTAGCCTGCACTTAGTA
61895256 CTACACA
128 CTACACA
61895263 TATGTTCTCA
Statistics
Matches: 255, Mismatches: 29, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
150 1 0.00
151 224 0.88
153 30 0.12
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (151 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
CACACATGATCAAAACTAACG
Found at i:61898422 original size:48 final size:48
Alignment explanation
Indices: 61898348--61898663 Score: 341
Period size: 48 Copynumber: 6.6 Consensus size: 48
61898338 TATGTGTGCT
61898348 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* * *
61898396 AGTGTAAGACCGTGTCTGGGATATGGCATCGGCCACATTATAAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* * * **** * * *
61898444 AGCGTAAAACCATGTCTGGGACATGGCATTGGTGTTAATATGAGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* *
61898492 AGTGTAAGACCATGTCTGCGACATGGCATCGGCCACATTATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* *** * * *
61898540 AGTGTAAGACCATGTCT-GGATATGGCATCGGCGTTGA-GACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CACATTATGAGAGCC
* * * *
61898587 AGTGTAAGACCAAGTCTGGGACATGGCATCGGCCTCGA-CATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATGAGAGCC
* *
61898635 AGTTTCAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
61898664 TGGCAATTTA
Statistics
Matches: 221, Mismatches: 44, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
47 38 0.17
48 183 0.83
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
Found at i:61898520 original size:96 final size:96
Alignment explanation
Indices: 61898348--61898663 Score: 384
Period size: 96 Copynumber: 3.3 Consensus size: 96
61898338 TATGTGTGCT
*** * * *
61898348 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCGTGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTAATATGAGAGCTAGTGTAAGACCATGTCT
* *
61898413 GGGATATGGCATCGGCCACATTATAAGAGCC
66 GGGACATGGCATCGGCCACATTATGAGAGCC
* * * * *
61898444 AGCGTAAAACCATGTCTGGGACATGGCATTGGTGTTAATATGAGTGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTAATATGAGAGCTAGTGTAAGACCATGTCT
* *
61898509 GCGACATGGCATCGGCCACATTATGAGAGCT
66 GGGACATGGCATCGGCCACATTATGAGAGCC
* * * * *
61898540 AGTGTAAGACCATGTCT-GGATATGGCATCGGCGTTGAGACGAGAGCTAGTGTAAGACCAAGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTAATATGAGAGCTAGTGTAAGACCATGTCT
* * *
61898604 GGGACATGGCATCGGCCTCGA-CATGTGAGCC
66 GGGACATGGCATCGGCCAC-ATTATGAGAGCC
* *
61898635 AGTTTCAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
61898664 TGGCAATTTA
Statistics
Matches: 185, Mismatches: 33, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
95 78 0.42
96 107 0.58
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTAATATGAGAGCTAGTGTAAGACCATGTCT
GGGACATGGCATCGGCCACATTATGAGAGCC
Found at i:61908654 original size:25 final size:25
Alignment explanation
Indices: 61908626--61908673 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
61908616 CAGAGGACCA
* *
61908626 ATCATATAACTCATGATAATGATTG
1 ATCACATAACTCATCATAATGATTG
* *
61908651 ATCACATAATTCTTCATAATGAT
1 ATCACATAACTCATCATAATGAT
61908674 AATAATAAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.38
Consensus pattern (25 bp):
ATCACATAACTCATCATAATGATTG
Found at i:61917110 original size:13 final size:13
Alignment explanation
Indices: 61917092--61917117 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61917082 CCCTAACCAT
61917092 CAAAATTTTCAAA
1 CAAAATTTTCAAA
61917105 CAAAATTTTCAAA
1 CAAAATTTTCAAA
61917118 AAATCATTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
CAAAATTTTCAAA
Found at i:61918862 original size:7 final size:7
Alignment explanation
Indices: 61918850--61918882 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
61918840 CCAATGCTAC
61918850 CACATAT
1 CACATAT
61918857 CACATAT
1 CACATAT
61918864 CACATAT
1 CACATAT
61918871 CACATAT
1 CACATAT
61918878 CACAT
1 CACAT
61918883 GTTGCTCGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.27
Consensus pattern (7 bp):
CACATAT
Found at i:61919081 original size:20 final size:20
Alignment explanation
Indices: 61919056--61919093 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
61919046 GTCACATATA
61919056 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
61919076 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
61919094 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:61927864 original size:36 final size:36
Alignment explanation
Indices: 61927824--61927892 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
61927814 TCGGAAAACA
61927824 ATTCCCTTATTCTAATAAACTACTAAAACATAAGGT
1 ATTCCCTTATTCTAATAAACTACTAAAACATAAGGT
* *
61927860 ATTCCCTTATTCTAATAAACTTCTAAAAGATAA
1 ATTCCCTTATTCTAATAAACTACTAAAACATAA
61927893 AATAAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (36 bp):
ATTCCCTTATTCTAATAAACTACTAAAACATAAGGT
Found at i:61927952 original size:19 final size:18
Alignment explanation
Indices: 61927924--61927963 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
61927914 TGAAGAAAAC
*
61927924 TTATCTACCTAAATAAGAT
1 TTATCCACCTAAATAA-AT
61927943 TTATCCACCTAAATAAAT
1 TTATCCACCTAAATAAAT
61927961 TTA
1 TTA
61927964 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (18 bp):
TTATCCACCTAAATAAAT
Found at i:61935559 original size:46 final size:46
Alignment explanation
Indices: 61935377--61935549 Score: 292
Period size: 46 Copynumber: 3.8 Consensus size: 46
61935367 TATATACACA
* * *
61935377 CATCTCATACATATCTCACATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
*
61935423 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
* *
61935469 CATCTCATACACGTTTCGCATTAGCCATTCGACTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
61935515 CATCTCATACACATTTCGCATTAGCCATTCGGCTT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTT
61935550 CGCCACATAT
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 120 1.00
ACGTcount: A:0.24, C:0.32, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
Found at i:61935604 original size:47 final size:47
Alignment explanation
Indices: 61935573--61935907 Score: 589
Period size: 47 Copynumber: 7.1 Consensus size: 47
61935563 CACTTCCACG
**
61935573 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
61935620 TTCATCACATTGGCCATTCGGCCTTATCACATATATGTATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
61935667 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCAAGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
61935714 TTCATCACATTGGCCATTCGGCCTTATCACGTATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
61935761 TTCATCACGTTGGCCATTCGGCCTTATCACGTATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
61935808 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
61935855 TTCATCACATTGGCCATTTGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
61935902 TTCATC
1 TTCATC
61935908 TCATAAAATC
Statistics
Matches: 275, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 275 1.00
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:61935886 original size:22 final size:22
Alignment explanation
Indices: 61935811--61935886 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
61935801 GTTCACATTC
*
61935811 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTTGGCCTT
* ** *
61935833 ATCACATATATG-CATGTTCACATT
1 ATCACAT-T-GGCCAT-TTGGCCTT
61935857 CATCACATTGGCCATTTGGCCTT
1 -ATCACATTGGCCATTTGGCCTT
61935880 ATCACAT
1 ATCACAT
61935887 ATATGCATGT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 14 0.35
23 10 0.25
24 9 0.22
25 7 0.17
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTTGGCCTT
Found at i:61941627 original size:40 final size:39
Alignment explanation
Indices: 61941516--61941667 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 39
61941506 TATAACATGT
* ** *
61941516 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
*
61941556 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* *** *
61941596 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* * *
61941636 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
61941668 CATTCAATTT
Statistics
Matches: 95, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 2 0.02
40 93 0.98
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
Found at i:61941650 original size:80 final size:80
Alignment explanation
Indices: 61941516--61941667 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
61941506 TATAACATGT
* *
61941516 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
61941581 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* * ** * *
61941596 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
61941659 CCCGGATAT
64 CCCGGATAT
61941668 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:61941737 original size:12 final size:12
Alignment explanation
Indices: 61941720--61941746 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
61941710 ATACATATTT
61941720 ATCATTAGCATA
1 ATCATTAGCATA
61941732 ATCATTAGCATA
1 ATCATTAGCATA
61941744 ATC
1 ATC
61941747 GCCTTCGGGA
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:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (12 bp):
ATCATTAGCATA
Found at i:61949450 original size:93 final size:93
Alignment explanation
Indices: 61949338--61949508 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
61949328 GCCCATAAGT
* *
61949338 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
61949403 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
61949431 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
61949496 CGAGTTCGGATGC
66 CGAGTTCGGATGC
61949509 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:61949524 original size:46 final size:46
Alignment explanation
Indices: 61949330--61949510 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
61949320 TGTAACCCGC
* * *
61949330 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
61949376 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
61949426 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
61949469 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
61949511 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:61951917 original size:30 final size:30
Alignment explanation
Indices: 61951873--61951961 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
61951863 CAAAGATAAC
*
61951873 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
61951902 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
61951932 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
61951962 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:61951921 original size:15 final size:14
Alignment explanation
Indices: 61951873--61951955 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
61951863 CAAAGATAAC
*
61951873 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
61951887 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
61951902 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
61951917 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
61951932 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
61951947 AAGAAACCC
1 AAGAAACCC
61951956 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:61951961 original size:15 final size:15
Alignment explanation
Indices: 61951884--61951961 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
61951874 AGAAAACCGA
61951884 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
61951899 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
61951913 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
61951928 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
61951944 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
61951959 ATA
1 ATA
61951962 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Done.