Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 173 of 196
Found at i:50541135 original size:10 final size:10
Alignment explanation
Indices: 50541093--50541135 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
50541083 CCTAAAGCAT
50541093 AAAAAAATGAGA
1 AAAAAAAT-A-A
*
50541105 AAAAAAACAA
1 AAAAAAATAA
50541115 AAAAAAGATAA
1 AAAAAA-ATAA
50541126 AAAAAAATAA
1 AAAAAAATAA
50541136 TTTGGGGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 11 0.39
11 10 0.36
12 7 0.25
ACGTcount: A:0.84, C:0.02, G:0.07, T:0.07
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:50545543 original size:20 final size:20
Alignment explanation
Indices: 50545504--50545558 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
50545494 CAGATCTTTG
* *
50545504 ATTTATATACACATACTTATA
1 ATTTATATACATAT-TTTATA
* * *
50545525 TTTTTTATATATATTTTATA
1 ATTTATATACATATTTTATA
50545545 ATTTATATACATAT
1 ATTTATATACATAT
50545559 ACATATATAT
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTATATACATATTTTATA
Found at i:50556415 original size:24 final size:23
Alignment explanation
Indices: 50556379--50556483 Score: 83
Period size: 23 Copynumber: 4.6 Consensus size: 23
50556369 GTATATAATC
*
50556379 AATTT-AAA-AATATTAAGGATA
1 AATTTAAAATAATATTAACGATA
* *
50556400 AATTTGAAATAGATA-TACATGATA
1 AATTTAAAATA-ATATTA-ACGATA
* *
50556424 AATTTAAAATAATGTTAACGATG
1 AATTTAAAATAATATTAACGATA
* **
50556447 AATTTAAAATAATAATATTGATA
1 AATTTAAAATAATATTAACGATA
50556470 AA-TTACAAATAATA
1 AATTTA-AAATAATA
50556484 AAACATGACA
Statistics
Matches: 68, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
21 5 0.07
22 6 0.09
23 37 0.54
24 20 0.29
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (23 bp):
AATTTAAAATAATATTAACGATA
Found at i:50556457 original size:47 final size:46
Alignment explanation
Indices: 50556351--50556483 Score: 112
Period size: 45 Copynumber: 2.9 Consensus size: 46
50556341 AATCATACGT
** * * * *
50556351 GATAAATCCAAAATAATAGTATATAATCAATTT-AAA-AATATTAAG
1 GATAAATTTAAAATAATAATA-ATGATAAATTTAAAATAATATTAAC
* *
50556396 GATAAATTTGAAATAGAT-ATACATGATAAATTTAAAATAATGTTAAC
1 GATAAATTTAAAATA-ATAATA-ATGATAAATTTAAAATAATATTAAC
* *
50556443 GATGAATTTAAAATAATAATATTGATAAA-TTACAAATAATA
1 GATAAATTTAAAATAATAATAATGATAAATTTA-AAATAATA
50556484 AAACATGACA
Statistics
Matches: 70, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
45 26 0.37
46 21 0.30
47 23 0.33
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (46 bp):
GATAAATTTAAAATAATAATAATGATAAATTTAAAATAATATTAAC
Found at i:50556503 original size:24 final size:22
Alignment explanation
Indices: 50556450--50556506 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
50556440 AACGATGAAT
* * *
50556450 TTAAAATAATAATATTGATAAA
1 TTAAAATAATAAAAATGACAAA
50556472 TTACAAATAATAAAACATGACAAA
1 TTA-AAATAATAAAA-ATGACAAA
50556496 TCTAAAATAAT
1 T-TAAAATAAT
50556507 GATATAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 3 0.10
23 10 0.34
24 14 0.48
25 2 0.07
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.30
Consensus pattern (22 bp):
TTAAAATAATAAAAATGACAAA
Found at i:50557331 original size:19 final size:19
Alignment explanation
Indices: 50557307--50557367 Score: 86
Period size: 19 Copynumber: 3.2 Consensus size: 19
50557297 TTTTCCCTCC
50557307 CTTTACACTGATTTTTTCT
1 CTTTACACTGATTTTTTCT
** *
50557326 CTTTACACTGATTTTCCCC
1 CTTTACACTGATTTTTTCT
*
50557345 CTTTACACTGATTTCTTCT
1 CTTTACACTGATTTTTTCT
50557364 CTTT
1 CTTT
50557368 TTTATGAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.15, C:0.28, G:0.05, T:0.52
Consensus pattern (19 bp):
CTTTACACTGATTTTTTCT
Found at i:50558206 original size:15 final size:15
Alignment explanation
Indices: 50558186--50558223 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
50558176 ACCGTTGAAA
50558186 CCCTAAATCTCAAAC
1 CCCTAAATCTCAAAC
* *
50558201 CCCTAAACCTCTAAC
1 CCCTAAATCTCAAAC
50558216 CCCTAAAT
1 CCCTAAAT
50558224 TAACCTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAATCTCAAAC
Found at i:50558754 original size:41 final size:41
Alignment explanation
Indices: 50558709--50559150 Score: 328
Period size: 41 Copynumber: 10.8 Consensus size: 41
50558699 AGGCAGGAGA
* *
50558709 ATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATCCAAGT
1 ATTAGCGGCGCTCAAATAAAAACGCCACTAAAGATCCAAGT
* * * *
50558750 ATTAGCAGCGCTTAAATAAAATCGCCGCTAAAGA-CCTAA-T
1 ATTAGCGGCGCTCAAATAAAAACGCCACTAAAGATCC-AAGT
* * * * *
50558790 CTTTTGCGGCGTTCATATAAGAACGCCACTAAAGATCCAAGT
1 -ATTAGCGGCGCTCAAATAAAAACGCCACTAAAGATCCAAGT
* * * *
50558832 ATTAGCGGCGCTGAAATAAAATCGCCGCTAAAGA-CCTGAGCT
1 ATTAGCGGCGCTCAAATAAAAACGCCACTAAAGATCC-AAG-T
* * * *
50558874 -TTTGCGGCGTTCATATAAAAACACCACTAAAGATCCAAGT
1 ATTAGCGGCGCTCAAATAAAAACGCCACTAAAGATCCAAGT
* * * * *
50558914 ATTAGCGTCGCTGAAATAAAATCGCCGCTAAAGA-CCTGAGCT
1 ATTAGCGGCGCTCAAATAAAAACGCCACTAAAGATCC-AAG-T
* * *
50558956 -TTTGCGGCGTTCATATAAAAACGCCACTAAAGAT-CAGAG-
1 ATTAGCGGCGCTCAAATAAAAACGCCACTAAAGATCCA-AGT
* *
50558995 ATTTAGCGGCGCTCAGATAAAAACGCCACTAAAGAT-CAGAGA
1 A-TTAGCGGCGCTCAAATAAAAACGCCACTAAAGATCCA-AGT
* * * ** *
50559037 ATTAGCCGCGCCCAGATAAAAACGCCACTAAAGATCGGAGA
1 ATTAGCGGCGCTCAAATAAAAACGCCACTAAAGATCCAAGT
* * ** *
50559078 ATTAGCGGCGCT-AAGATAAAAATGCCACTATAGATCCGTGC
1 ATTAGCGGCGCTCAA-ATAAAAACGCCACTAAAGATCCAAGT
* * * *
50559119 ATTAGTGGCGCACAAAGAAAAACGCCGCTAAA
1 ATTAGCGGCGCTCAAATAAAAACGCCACTAAA
50559151 TGTTTAAAAA
Statistics
Matches: 313, Mismatches: 70, Indels: 36
0.75 0.17 0.09
Matches are distributed among these distances:
40 9 0.03
41 294 0.94
42 10 0.03
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (41 bp):
ATTAGCGGCGCTCAAATAAAAACGCCACTAAAGATCCAAGT
Found at i:50558815 original size:82 final size:82
Alignment explanation
Indices: 50558715--50559098 Score: 495
Period size: 82 Copynumber: 4.7 Consensus size: 82
50558705 GAGAATTAGT
* * * *
50558715 GGCGCTCAGATAAAAACGCCACTAAAGATCCAAGTATTAGCAGCGCTTAAATAAAATCGCCGCTA
1 GGCGTTCATATAAAAACGCCACTAAAGATCCAAGTATTAGCGGCGCTGAAATAAAATCGCCGCTA
* *
50558780 AAGACCTAATCTTTTGC
66 AAGACCTGAGCTTTTGC
*
50558797 GGCGTTCATATAAGAACGCCACTAAAGATCCAAGTATTAGCGGCGCTGAAATAAAATCGCCGCTA
1 GGCGTTCATATAAAAACGCCACTAAAGATCCAAGTATTAGCGGCGCTGAAATAAAATCGCCGCTA
50558862 AAGACCTGAGCTTTTGC
66 AAGACCTGAGCTTTTGC
* *
50558879 GGCGTTCATATAAAAACACCACTAAAGATCCAAGTATTAGCGTCGCTGAAATAAAATCGCCGCTA
1 GGCGTTCATATAAAAACGCCACTAAAGATCCAAGTATTAGCGGCGCTGAAATAAAATCGCCGCTA
50558944 AAGACCTGAGCTTTTGC
66 AAGACCTGAGCTTTTGC
* * * *
50558961 GGCGTTCATATAAAAACGCCACTAAAGAT-CAGAG-ATTTAGCGGCGCTCAGATAAAAACGCCAC
1 GGCGTTCATATAAAAACGCCACTAAAGATCCA-AGTA-TTAGCGGCGCTGAAATAAAATCGCCGC
* * ** *
50559024 TAAAGATCAGAGAATTAGC
64 TAAAGACCTGAGCTTTTGC
* ** * ** *
50559043 CGCGCCCAGATAAAAACGCCACTAAAGATCGGAGAATTAGCGGCGCT-AAGATAAAA
1 GGCGTTCATATAAAAACGCCACTAAAGATCCAAGTATTAGCGGCGCTGAA-ATAAAA
50559099 ATGCCACTAT
Statistics
Matches: 269, Mismatches: 28, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
81 4 0.01
82 264 0.98
83 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (82 bp):
GGCGTTCATATAAAAACGCCACTAAAGATCCAAGTATTAGCGGCGCTGAAATAAAATCGCCGCTA
AAGACCTGAGCTTTTGC
Found at i:50565845 original size:6 final size:6
Alignment explanation
Indices: 50565834--50565884 Score: 50
Period size: 6 Copynumber: 8.5 Consensus size: 6
50565824 GTTTCCCTGC
* * * *
50565834 AAAATA AAAATA AAAATA AAATTA AATAATA AGAA-A AAATTA AAATTA
1 AAAATA AAAATA AAAATA AAAATA AA-AATA AAAATA AAAATA AAAATA
50565882 AAA
1 AAA
50565885 TGTGTATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
5 3 0.08
6 31 0.82
7 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (6 bp):
AAAATA
Found at i:50565872 original size:18 final size:18
Alignment explanation
Indices: 50565834--50565884 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
50565824 GTTTCCCTGC
50565834 AAAA-TAAAAATAAAAAT
1 AAAATTAAAAATAAAAAT
*
50565851 AAAATTAAATAATAAGAA-
1 AAAATTAAA-AATAAAAAT
*
50565869 AAAATTAAAATTAAAA
1 AAAATTAAAAATAAAA
50565885 TGTGTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 9 0.31
18 13 0.45
19 7 0.24
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (18 bp):
AAAATTAAAAATAAAAAT
Found at i:50566532 original size:17 final size:17
Alignment explanation
Indices: 50566510--50566545 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
50566500 TCGTTTCTAA
50566510 TTTCCTCGAGTTCCTGG
1 TTTCCTCGAGTTCCTGG
50566527 TTTCCTCGAGTTCCTGG
1 TTTCCTCGAGTTCCTGG
50566544 TT
1 TT
50566546 ATCCAACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.06, C:0.28, G:0.22, T:0.44
Consensus pattern (17 bp):
TTTCCTCGAGTTCCTGG
Found at i:50586479 original size:18 final size:19
Alignment explanation
Indices: 50586434--50586479 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
50586424 TGTAATTAGA
*
50586434 AAAATGAATAAAAACTATT
1 AAAATAAATAAAAACTATT
*
50586453 ATAAA-AAATAAAACCT-TT
1 A-AAATAAATAAAAACTATT
50586471 AAAATAAAT
1 AAAATAAAT
50586480 TCAAAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
17 3 0.13
18 7 0.30
19 10 0.43
20 3 0.13
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAATAAATAAAAACTATT
Found at i:50600997 original size:18 final size:19
Alignment explanation
Indices: 50600974--50601010 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
50600964 CACACTTCCA
50600974 ATTGTATGTACTT-ATCTT
1 ATTGTATGTACTTAATCTT
*
50600992 ATTGTATGTGCTTAATCTT
1 ATTGTATGTACTTAATCTT
50601011 GTTTATCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.22, C:0.11, G:0.14, T:0.54
Consensus pattern (19 bp):
ATTGTATGTACTTAATCTT
Found at i:50605920 original size:3 final size:3
Alignment explanation
Indices: 50605912--50605949 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
50605902 TTCATCCTCA
50605912 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
50605950 ATCATGCTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:50607008 original size:21 final size:21
Alignment explanation
Indices: 50606984--50607029 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
50606974 ATAAAAATTT
*
50606984 AAAATAT-ATAAATAATTATTA
1 AAAATATCATAAA-AATTATAA
*
50607005 AAAATATCTTAAAAATTATAA
1 AAAATATCATAAAAATTATAA
50607026 AAAA
1 AAAA
50607030 AAACCCAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATATCATAAAAATTATAA
Found at i:50607727 original size:30 final size:29
Alignment explanation
Indices: 50607704--50607759 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
50607694 ATTAATGATA
*
50607704 ATTAACATTCA-TAAAAATTAATTAAAAT
1 ATTAAAATTCATTAAAAATTAATTAAAAT
*
50607732 TTTAAAATTCATTAAAAATTCAATTAAA
1 ATTAAAATTCATTAAAAATT-AATTAAA
50607760 TGTATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.38
29 8 0.33
30 7 0.29
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (29 bp):
ATTAAAATTCATTAAAAATTAATTAAAAT
Found at i:50616892 original size:21 final size:21
Alignment explanation
Indices: 50616827--50616893 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
50616817 TTACTTTCCA
* *
50616827 TTTAGCTCTCTCGAGCTTTTG
1 TTTAGCTCTTTTGAGCTTTTG
* * * * *
50616848 TTTAACACATATGAG-TTTCCG
1 TTTAGCTCTTTTGAGCTTT-TG
50616869 TTTAGCTCTTTTGAGCTTTTG
1 TTTAGCTCTTTTGAGCTTTTG
50616890 TTTA
1 TTTA
50616894 ACCCTTATGG
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
20 3 0.09
21 26 0.81
22 3 0.09
ACGTcount: A:0.16, C:0.18, G:0.16, T:0.49
Consensus pattern (21 bp):
TTTAGCTCTTTTGAGCTTTTG
Found at i:50616976 original size:42 final size:42
Alignment explanation
Indices: 50616827--50616977 Score: 144
Period size: 42 Copynumber: 3.6 Consensus size: 42
50616817 TTACTTTCCA
* * * *
50616827 TTTAGCTCTC-TCGAGCTTTTGTTTAACACA-TATGAGTTTCCG
1 TTTAGCTCTCAT-GAGCTTCTGTTCAAC-CATTATGGGTTTCTG
** * * * *
50616869 TTTAGCTCTTTTGAGCTTTTGTTTAACCCTTATGGGTTTCTA
1 TTTAGCTCTCATGAGCTTCTGTTCAACCATTATGGGTTTCTG
* * **
50616911 TTCAGCTCTTACAAGCTTCTGTTCAACCATTATGGGTTTCTG
1 TTTAGCTCTCATGAGCTTCTGTTCAACCATTATGGGTTTCTG
50616953 TTTAGCTCTCATGAGCTTCTGTTCA
1 TTTAGCTCTCATGAGCTTCTGTTCA
50616978 GCCTTCGAGC
Statistics
Matches: 90, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
41 1 0.01
42 88 0.98
43 1 0.01
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (42 bp):
TTTAGCTCTCATGAGCTTCTGTTCAACCATTATGGGTTTCTG
Found at i:50622083 original size:25 final size:25
Alignment explanation
Indices: 50622046--50622112 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
50622036 TGTAAACAAT
* * *
50622046 AAGCTCTTTCGAGCTGAATAGCGAG
1 AAGCTCATGCGAGCTGAATAACGAG
* * *
50622071 AAGCTTATGCGAGCTAAATAACGGG
1 AAGCTCATGCGAGCTGAATAACGAG
50622096 AAGCTCATGCGAGCTGA
1 AAGCTCATGCGAGCTGA
50622113 GTATTGGGAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.21
Consensus pattern (25 bp):
AAGCTCATGCGAGCTGAATAACGAG
Found at i:50622121 original size:25 final size:25
Alignment explanation
Indices: 50622046--50622128 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
50622036 TGTAAACAAT
* * * * *
50622046 AAGCTCTTTCGAGCTGAATAGCGAG
1 AAGCTCATGCGAGCTAAATAACGGG
*
50622071 AAGCTTATGCGAGCTAAATAACGGG
1 AAGCTCATGCGAGCTAAATAACGGG
* * **
50622096 AAGCTCATGCGAGCTGAGTATTGGG
1 AAGCTCATGCGAGCTAAATAACGGG
50622121 AAGCTCAT
1 AAGCTCAT
50622129 AAGAGTTGTG
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (25 bp):
AAGCTCATGCGAGCTAAATAACGGG
Found at i:50626034 original size:27 final size:27
Alignment explanation
Indices: 50625983--50626054 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
50625973 TAGTGGAGGG
* *
50625983 ACTGCCACAGGTGGCACCAATGGTGCC
1 ACTGCCACAGGCGGCACCAAAGGTGCC
* * *
50626010 AGTGGCAGAGGCGGCACCAAAGGTGCC
1 ACTGCCACAGGCGGCACCAAAGGTGCC
50626037 ACTGCCACAGGCGGCACC
1 ACTGCCACAGGCGGCACC
50626055 CCCTTTATTC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.24, C:0.33, G:0.33, T:0.10
Consensus pattern (27 bp):
ACTGCCACAGGCGGCACCAAAGGTGCC
Found at i:50626161 original size:17 final size:17
Alignment explanation
Indices: 50626141--50626173 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
50626131 GTTTATGAAA
*
50626141 AAATAAAATACGAAAAG
1 AAATAAAAAACGAAAAG
50626158 AAATAAAAAACGAAAA
1 AAATAAAAAACGAAAA
50626174 TAGTATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.06, G:0.09, T:0.09
Consensus pattern (17 bp):
AAATAAAAAACGAAAAG
Found at i:50626200 original size:51 final size:49
Alignment explanation
Indices: 50626109--50626207 Score: 119
Period size: 49 Copynumber: 2.0 Consensus size: 49
50626099 ATAGTATTAA
* *
50626109 AAATAAAATACCGAAAAAATATGTTTATGAAAAAATAAAATACGAAAAG
1 AAATAAAATAACGAAAAAATATATTTATGAAAAAATAAAATACGAAAAG
* * *
50626158 AAATAAAA-AACGAAAATAGTATATTTACTGAAAGTAATAAAATCCGAAAA
1 AAATAAAATAACGAAAA-AATATATTTA-TGAAA-AAATAAAATACGAAAA
50626208 AAGAAAAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
48 7 0.17
49 16 0.38
50 5 0.12
51 14 0.33
ACGTcount: A:0.62, C:0.07, G:0.10, T:0.21
Consensus pattern (49 bp):
AAATAAAATAACGAAAAAATATATTTATGAAAAAATAAAATACGAAAAG
Found at i:50626422 original size:157 final size:157
Alignment explanation
Indices: 50626159--50626481 Score: 495
Period size: 157 Copynumber: 2.1 Consensus size: 157
50626149 TACGAAAAGA
* *
50626159 AATAAAAAACGAAAATAGTATATTTACTGAAAGTAATAAAATCCGAAAAAAGAAAAATACGAACA
1 AATAAAATACGAAAATAATATATTTACTGAAAGTAATAAAATCCGAAAAAAGAAAAATACGAACA
* * *
50626224 AAGGGCCAAAATAAGGGTTTTTCACTGAATTTATATAAAAAACATACTAAAATAATAGATTTCAA
66 AAGGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATAATACATTTCAA
*
50626289 ACATTATGTACTAAAATAATATAAAAT
131 ACATTATGTAATAAAATAATATAAAAT
** *
50626316 AATAAAATACGAAAATAATATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAATACGAAC
1 AATAAAATACGAAAATAATATATTTACTGAAAGTAATAAAATCCGAAAA-AAGAAAAATACGAAC
* * * * *
50626381 AAATGGCCAAAATGAGGGTTTTTTACTAAATTTATAT-AAAAATACACTAAATTAATACATTTCA
65 AAAGGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATAATACATTTCA
*
50626445 AACTTTATGTAATAAAATAATATAAAAT
130 AACATTATGTAATAAAATAATATAAAAT
50626473 AATAAAATA
1 AATAAAATA
50626482 GTATTAATTT
Statistics
Matches: 150, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
157 102 0.68
158 48 0.32
ACGTcount: A:0.54, C:0.08, G:0.09, T:0.28
Consensus pattern (157 bp):
AATAAAATACGAAAATAATATATTTACTGAAAGTAATAAAATCCGAAAAAAGAAAAATACGAACA
AAGGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATAATACATTTCAA
ACATTATGTAATAAAATAATATAAAAT
Found at i:50626862 original size:159 final size:159
Alignment explanation
Indices: 50626496--50627106 Score: 926
Period size: 159 Copynumber: 3.8 Consensus size: 159
50626486 TAATTTAGTG
**
50626496 TGTTTGAAATGTATTAATTTAGTGTGCCTTTTTATATAAATTTAGTAAAAAACCCTCATTTTGGC
1 TGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGTAAAAAACCCTCATTTTGGC
* * *
50626561 CATTTGTTCGTATTTTTCTTATTTTCGGA-TTTATTACTTT-AAAAAAAATACTATTTTTGTTTT
66 CATTTGTTCGTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATT
*
50626624 TTATTATTTTATATTATTTTATTACATAA
131 TTATTATTTTATATTATTTTAGTACATAA
*
50626653 AGTTTGAAATGTATTAATTTA--GTGTTTTTTTATATAAATTTAGTAAAAAAACCCTCATTTTGG
1 TGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGT-AAAAAACCCTCATTTTGG
*
50626716 CCATTTGTTCGTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCATAT
65 CCATTTGTTCGTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTAT
*
50626781 TTTATTATTTTTATATTATTTTAGTGCATAA
130 TTTATTA-TTTTATATTATTTTAGTACATAA
* * *
50626812 TGTTTGAAATGTATTATTTTAGTGTG-TTTTTTATATAAATTTAGTAAAAAATCTTCATTTTGGC
1 TGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGTAAAAAACCCTCATTTTGGC
50626876 CATTTGTTCGTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATT
66 CATTTGTTCGTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATT
50626941 TTATTATTTTATATTATTTTAGTACATAA
131 TTATTATTTTATATTATTTTAGTACATAA
* * * * *
50626970 TATTTGAAATGTATTATTTTAGTGTGTTTTTTTTATATAAATTTAGTGAAAAACTCTTATTTTGG
1 TGTTTGAAATGTATTAATTTAGTGTG-TTTTTTTATATAAATTTAGTAAAAAACCCTCATTTTGG
* * * * ** * *
50627035 CCCTTTGTTCGTATTTTTGTTTTTTTCCGAATTTTATTACTTTCAGTAAATATACTATTTTTGTT
65 CCATTTGTTCGTATTTTTCTTATTTT-CGGATTTTATTACTTTCAAAAAATATACTATTTTCGTA
50627100 TTTTATT
129 TTTTATT
50627107 TCTTTCCGTA
Statistics
Matches: 416, Mismatches: 29, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
155 21 0.05
156 48 0.12
157 31 0.07
158 72 0.17
159 127 0.31
160 74 0.18
161 43 0.10
ACGTcount: A:0.28, C:0.08, G:0.09, T:0.54
Consensus pattern (159 bp):
TGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGTAAAAAACCCTCATTTTGGC
CATTTGTTCGTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATT
TTATTATTTTATATTATTTTAGTACATAA
Found at i:50653427 original size:15 final size:15
Alignment explanation
Indices: 50653409--50653438 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50653399 ATAAATGCAG
50653409 AAAAATTAAAGTATT
1 AAAAATTAAAGTATT
*
50653424 AAAAATTTAAGTATT
1 AAAAATTAAAGTATT
50653439 CAATTTAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (15 bp):
AAAAATTAAAGTATT
Found at i:50655870 original size:3 final size:3
Alignment explanation
Indices: 50655862--50655904 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
50655852 TTTCATAGTA
50655862 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
50655905 GTGTTGTGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:50676139 original size:20 final size:19
Alignment explanation
Indices: 50676114--50676152 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
50676104 GTGCGTCTGC
50676114 TTCTTTCCTTCTTTCTCTTT
1 TTCTTTCCTTCTTT-TCTTT
*
50676134 TTCTTTCTTTCTTTTCTTT
1 TTCTTTCCTTCTTTTCTTT
50676153 CTAATTTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (19 bp):
TTCTTTCCTTCTTTTCTTT
Found at i:50678760 original size:41 final size:41
Alignment explanation
Indices: 50678703--50678815 Score: 183
Period size: 41 Copynumber: 2.8 Consensus size: 41
50678693 TTTAACGTAT
* * *
50678703 TCACCGGCACTTAGCCTTCTAGGCTTATAGCCTGATTCCA-A
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT-CAGA
50678744 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
50678785 TCACCGGCACTTAGCCTGCTAGGTTTATAAC
1 TCACCGGCACTTAGCCTGCTAGGTTTATAAC
50678816 TGCAATGACC
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
40 2 0.03
41 66 0.97
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:50679319 original size:5 final size:5
Alignment explanation
Indices: 50679309--50679352 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
50679299 ATAAGTAAGT
*
50679309 TATTA TATTA TATTA TTATAA TATTA TATTA TTATTA TA-TA TAT
1 TATTA TATTA TATTA -TATTA TATTA TATTA -TATTA TATTA TAT
50679353 AAAACAAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 4 0.12
5 21 0.62
6 9 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:50679325 original size:8 final size:8
Alignment explanation
Indices: 50679314--50679343 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
50679304 TAAGTTATTA
50679314 TATTATAT
1 TATTATAT
*
50679322 TATTATAA
1 TATTATAT
50679330 TATTATAT
1 TATTATAT
50679338 TATTAT
1 TATTAT
50679344 TATATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTATAT
Found at i:50679332 original size:16 final size:16
Alignment explanation
Indices: 50679308--50679352 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
50679298 AATAAGTAAG
50679308 TTATTATATTATATTA
1 TTATTATATTATATTA
*
50679324 TTATAATATTATATTA
1 TTATTATATTATATTA
50679340 TTATTATA-TATAT
1 TTATTATATTATAT
50679353 AAAACAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 5 0.19
16 22 0.81
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATTATATTATATTA
Found at i:50680477 original size:25 final size:25
Alignment explanation
Indices: 50680449--50680582 Score: 97
Period size: 22 Copynumber: 5.6 Consensus size: 25
50680439 ACTTTAGCGC
*
50680449 GCTCTTTGATTATTAGCACGTTAGT
1 GCTCTCTGATTATTAGCACGTTAGT
* * * *
50680474 GCTCTCTGACTACTAGAACGTTGGT
1 GCTCTCTGATTATTAGCACGTTAGT
* **
50680499 GCTCTCTGATT-TTAGCACATCGGT
1 GCTCTCTGATTATTAGCACGTTAGT
*
50680523 GCTCTCTG--T-TTAGCACATCT-GT
1 GCTCTCTGATTATTAGCACGT-TAGT
*
50680545 GCTCTCTG--TA-TAGCACTTTAGT
1 GCTCTCTGATTATTAGCACGTTAGT
50680567 GCTCTCTG-TTCATTAG
1 GCTCTCTGATT-ATTAG
50680583 TGCATACCAA
Statistics
Matches: 91, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.01
22 38 0.42
23 1 0.01
24 18 0.20
25 33 0.36
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.40
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTTAGT
Found at i:50680534 original size:22 final size:22
Alignment explanation
Indices: 50680496--50680576 Score: 99
Period size: 22 Copynumber: 3.6 Consensus size: 22
50680486 CTAGAACGTT
50680496 GGTGCTCTCTGATTTTAGCACATC
1 GGTGCTCTCTG--TTTAGCACATC
50680520 GGTGCTCTCTGTTTAGCACATC
1 GGTGCTCTCTGTTTAGCACATC
* * * *
50680542 TGTGCTCTCTGTATAGCACTTT
1 GGTGCTCTCTGTTTAGCACATC
*
50680564 AGTGCTCTCTGTT
1 GGTGCTCTCTGTT
50680577 CATTAGTGCA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
22 40 0.78
24 11 0.22
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.41
Consensus pattern (22 bp):
GGTGCTCTCTGTTTAGCACATC
Found at i:50694670 original size:17 final size:18
Alignment explanation
Indices: 50694640--50694681 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
50694630 TCGAAATTCA
*
50694640 TCAAATTAACTAATTT-TC
1 TCAAA-TAAATAATTTATC
50694658 TCAAATAAATAATTTATC
1 TCAAATAAATAATTTATC
50694676 -CAAATA
1 TCAAATA
50694682 TTCTAAGCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (18 bp):
TCAAATAAATAATTTATC
Found at i:50696130 original size:43 final size:42
Alignment explanation
Indices: 50696082--50696183 Score: 123
Period size: 43 Copynumber: 2.4 Consensus size: 42
50696072 CTAATGTCCT
*
50696082 AGACATAGTCTTACATGTTTCCTCACTTCGATTCCAATATCCC
1 AGACAT-GTCTTACATGTTTCCTCACTTCGATGCCAATATCCC
* * * *
50696125 AGACATGATCTTACACGTTTTCTCACTTCGATGCTAATGTCCC
1 AGACATG-TCTTACATGTTTCCTCACTTCGATGCCAATATCCC
*
50696168 AAACATGGTCTTACAT
1 AGACAT-GTCTTACAT
50696184 CAGAAGTCAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 1 0.02
43 48 0.96
44 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.34
Consensus pattern (42 bp):
AGACATGTCTTACATGTTTCCTCACTTCGATGCCAATATCCC
Found at i:50697923 original size:22 final size:21
Alignment explanation
Indices: 50697888--50698002 Score: 89
Period size: 19 Copynumber: 5.7 Consensus size: 21
50697878 AAAAGGTATC
* * *
50697888 TACAAATTAAATCTCTAATAT
1 TACAAATCATATCTCTAAGAT
50697909 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
50697932 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
50697951 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
50697970 TGCATATCATATC-C-AAGAT
1 TACAAATCATATCTCTAAGAT
*
50697989 TACATATCATATCT
1 TACAAATCATATCT
50698003 AAGATTGCAT
Statistics
Matches: 81, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
19 53 0.65
20 1 0.01
21 3 0.04
22 15 0.19
23 9 0.11
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:50697948 original size:19 final size:19
Alignment explanation
Indices: 50697924--50698015 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
50697914 AATCATATCT
50697924 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
50697943 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
50697962 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
50697981 TCCAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
50698000 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
50698016 CTTGAAGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:50697972 original size:38 final size:38
Alignment explanation
Indices: 50697917--50698015 Score: 175
Period size: 38 Copynumber: 2.7 Consensus size: 38
50697907 ATTACAAAAT
*
50697917 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTA
1 CATATCATATCTAAGATTGCATATCATATCCAAGATTA
50697953 CATATCATATCTAAGATTGCATATCATATCCAAGATTA
1 CATATCATATCTAAGATTGCATATCATATCCAAGATTA
50697991 CATATCATATCTAAGATTGCATATC
1 CATATCATATCTAAGATTGCATATC
50698016 CTTGAAGATT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
36 6 0.10
37 1 0.02
38 53 0.88
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.36
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCCAAGATTA
Found at i:50698785 original size:88 final size:89
Alignment explanation
Indices: 50698676--50699520 Score: 714
Period size: 88 Copynumber: 9.6 Consensus size: 89
50698666 ATAAGACTGA
* * *
50698676 TGTC-TTCGATCTGCTTCACTGCTAGTAAAGGAAGGCAAGATCTACTATTTTCAACCTACTCCAC
1 TGTCTTTCGATCTGCTTCACTGCTAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCAC
** * *
50698740 TGC-TGCTCAGGGAGACAAGGCCGG
66 TGCAACCT-AGGGAGGCAAGACCGG
* ** * ** *
50698764 AGT-TTTCGATCTGCTTCACTGCCGGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCAT
1 TGTCTTTCGATCTGCTTCACTGCTAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCAC
* *
50698828 TGCAACCTAGAGAGGTAAGACCGG
66 TGCAACCTAGGGAGGCAAGACCGG
* * * * *
50698852 TGTC-TTCGATCAGCTTCGCTG-TCAGTACAGGAAGGCAAGATCTGTTATTTTCAACCTACTCCG
1 TGTCTTTCGATCTGCTTCACTGCT-AGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCA
* * *
50698915 CTGCAACCCAGGGAGGCAAGGCTGG
65 CTGCAACCTAGGGAGGCAAGACCGG
* ** ** * * **
50698940 TGTCTTT-GATCTGTTTCGTTGCCGGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCAC
1 TGTCTTTCGATCTGCTTCACTGCTAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCAC
* * **
50699004 TGTAACCTAAGGAGGCAAGACTAG
66 TGCAACCTAGGGAGGCAAGACCGG
* *
50699028 TGTCTTT-GATCTGCTTCACTG-TCAGTACAGGAAGGCAAGATATGCTATTTTCAACCTGCTCCG
1 TGTCTTTCGATCTGCTTCACTGCT-AGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCA
* ** * **
50699091 CTTCAATCC-AGGGAAACAAGGCTAG
65 CTGCAA-CCTAGGGAGGCAAGACCGG
** * * * * * * ** *
50699116 TGTCTTT-GATCTGCTTCGTTGTTGGTACAAGAAGGTAGGATCTGCTATCTTCAGTCTACTCCAC
1 TGTCTTTCGATCTGCTTCACTGCTAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCAC
*
50699180 TGCAACCTAGGGAGGCAAGACTGG
66 TGCAACCTAGGGAGGCAAGACCGG
* * * *
50699204 TGTCTTT-GATCTACTTCACTG-TCAGTACAGGAAGGTAAGATCTGCTACTTTCAACCTGCTCCG
1 TGTCTTTCGATCTGCTTCACTGCT-AGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCA
* * * * * **
50699267 TTACAACCCAGAGAGGCAAGGCTAG
65 CTGCAACCTAGGGAGGCAAGACCGG
** * * * * **
50699292 TGTCTTT-GATCTGCTTCGTTGCCAGTACAAGAAGGCAAGATCTACTATCTTCAGTCTGCTCCAC
1 TGTCTTTCGATCTGCTTCACTGCTAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCAC
* *
50699356 TACAACCTAGGGAGGCAAGACTGG
66 TGCAACCTAGGGAGGCAAGACCGG
* * * * *
50699380 TGTCTTT-GATCTACTTCACTG-TCAGTACAGGAAGGTAAGATCTGCTACTTTCAACCTGCTTCG
1 TGTCTTTCGATCTGCTTCACTGCT-AGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCA
* * * *
50699443 CTACAACCCAGGGAGGCAAGGCTGG
65 CTGCAACCTAGGGAGGCAAGACCGG
** *
50699468 TGTCTTT-GATCTGCTTCACTGCCGGTACAGGAAGGCAAGATCTGCTATCTTCA
1 TGTCTTTCGATCTGCTTCACTGCTAGTACAGGAAGGCAAGATCTGCTATTTTCA
50699521 CTGATCTGTT
Statistics
Matches: 603, Mismatches: 140, Indels: 28
0.78 0.18 0.04
Matches are distributed among these distances:
87 3 0.00
88 593 0.98
89 7 0.01
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (89 bp):
TGTCTTTCGATCTGCTTCACTGCTAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCAC
TGCAACCTAGGGAGGCAAGACCGG
Found at i:50698976 original size:176 final size:176
Alignment explanation
Indices: 50698668--50699520 Score: 1122
Period size: 176 Copynumber: 4.8 Consensus size: 176
50698658 TCAATGCAAT
* * * * *
50698668 AAGACTGATGTCTTCGATCTGCTTCACTG-CTAGTAAAGGAAGGCAAGATCTACTATTTTCAACC
1 AAGACTGGTGTCTTTGATCAGCTTCACTGTC-AGTACAGGAAGGCAAGATCTGCTATTTTCAACC
* * * ** * * * * ** *
50698732 TACTCCACTGCTGCTCAGGGAGACAAGGCCGGAGT-TTTCGATCTGCTTCACTGCCGGTACAGGA
65 TGCTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTT-GATCTGCTTCGTTGCCGGTACAAGA
* *
50698796 AGGCAAGATCTGCTATCTTCAGTCTGCTCCATTGCAACCTAGAGAGGT
129 AGGCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACCTAGAGAGGC
* * * *
50698844 AAGACCGGTGTCTTCGATCAGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATTTTCAACCT
1 AAGACTGGTGTCTTTGATCAGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCT
* * *
50698909 ACTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGTTTCGTTGCCGGTACAAGAAG
66 GCTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGTTGCCGGTACAAGAAG
*
50698974 GCAAGATCTGCTATCTTCAGTCTGCTCCACTGTAACCTA-AGGAGGC
131 GCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACCTAGA-GAGGC
* * *
50699020 AAGACTAGTGTCTTTGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATATGCTATTTTCAACCT
1 AAGACTGGTGTCTTTGATCAGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCT
* * ** * **
50699085 GCTCCGCTTCAATCCAGGGAAACAAGGCTAGTGTCTTTGATCTGCTTCGTTGTTGGTACAAGAAG
66 GCTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGTTGCCGGTACAAGAAG
* * * *
50699150 GTAGGATCTGCTATCTTCAGTCTACTCCACTGCAACCTAGGGAGGC
131 GCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACCTAGAGAGGC
* *
50699196 AAGACTGGTGTCTTTGATCTA-CTTCACTGTCAGTACAGGAAGGTAAGATCTGCTACTTTCAACC
1 AAGACTGGTGTCTTTGATC-AGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACC
* * * *
50699260 TGCTCCGTTACAACCCAGAGAGGCAAGGCTAGTGTCTTTGATCTGCTTCGTTGCCAGTACAAGAA
65 TGCTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGTTGCCGGTACAAGAA
* * *
50699325 GGCAAGATCTACTATCTTCAGTCTGCTCCACTACAACCTAGGGAGGC
130 GGCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACCTAGAGAGGC
* *
50699372 AAGACTGGTGTCTTTGATCTA-CTTCACTGTCAGTACAGGAAGGTAAGATCTGCTACTTTCAACC
1 AAGACTGGTGTCTTTGATC-AGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACC
* ** *
50699436 TGCTTCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCACTGCCGGTACAGGAA
65 TGCTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGTTGCCGGTACAAGAA
50699501 GGCAAGATCTGCTATCTTCA
130 GGCAAGATCTGCTATCTTCA
50699521 CTGATCTGTT
Statistics
Matches: 602, Mismatches: 70, Indels: 10
0.88 0.10 0.01
Matches are distributed among these distances:
175 1 0.00
176 597 0.99
177 4 0.01
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (176 bp):
AAGACTGGTGTCTTTGATCAGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCT
GCTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGTTGCCGGTACAAGAAG
GCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACCTAGAGAGGC
Found at i:50699194 original size:264 final size:263
Alignment explanation
Indices: 50698676--50699520 Score: 928
Period size: 264 Copynumber: 3.2 Consensus size: 263
50698666 ATAAGACTGA
* ** * * * *
50698676 TGTCTTCGATCTGCTTCACTGCTAGTAAAGGAAGGCAAGATCTACTATTTTCAACCTACTCCACT
1 TGTCTTTGATCTGCTTCACTGCCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT
* ** * * * ** * *
50698741 GCTGCTC-AGGGAGACAAGGCCGGAGT-TTTCGATCTGCTTCACTGCCGGTACAGGAAGGCAAGA
66 ACAAC-CAAGAGAGGCAAGACTAGTGTCTTT-GATCTGCTTCACTGCCAGTACAGGAAGGCAAGA
* * * * * *
50698804 TCTGCTATCTTCAGTCTGCTCCATTGCAACCTAGAGAGGTAAGACCGGTGTCTTCGATCAGCTTC
129 TCTGCTATCTTCAGTCTGCTCCCTT-CAACCTAGGGAGGCAAGACTGGTGTCTTTGATCTGCTTC
* * *
50698869 GCTGTCAGTACAGGAAGGCAAGATCTGTTATTTTCAACCTACTCCGCTGCAACCCAGGGAGGCAA
193 GCTGTCAGTACAGGAAGGTAAGATCTGCTATCTTCAACCTACTCCGCTGCAACCCAGGGAGGCAA
50698934 GGCTGG
258 GGCTGG
* ** * **
50698940 TGTCTTTGATCTGTTTCGTTGCCGGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCACT
1 TGTCTTTGATCTGCTTCACTGCCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT
** *
50699005 GTAACCTAAG-GAGGCAAGACTAGTGTCTTTGATCTGCTTCACTGTCAGTACAGGAAGGCAAGAT
66 ACAACC-AAGAGAGGCAAGACTAGTGTCTTTGATCTGCTTCACTGCCAGTACAGGAAGGCAAGAT
* * ** ** * *
50699069 ATGCTATTTTCAACCTGCTCCGCTTCAATCC-AGGGAAACAAGGCTAGTGTCTTTGATCTGCTTC
130 CTGCTATCTTCAGTCTGCTCC-CTTCAA-CCTAGGGAGGCAAGACTGGTGTCTTTGATCTGCTTC
* ** * * ** * *
50699133 GTTGTTGGTACAAGAAGGTAGGATCTGCTATCTTCAGTCTACTCCACTGCAACCTAGGGAGGCAA
193 GCTGTCAGTACAGGAAGGTAAGATCTGCTATCTTCAACCTACTCCGCTGCAACCCAGGGAGGCAA
*
50699198 GACTGG
258 GGCTGG
* * * * **
50699204 TGTCTTTGATCTACTTCACTGTCAGTACAGGAAGGTAAGATCTGCTA-CTTTCAACCTGCTCCGT
1 TGTCTTTGATCTGCTTCACTGCCGGTACAGGAAGGCAAGATCTGCTATC-TTCAACCTGCTCCAC
* * ** *
50699268 TACAACCCAGAGAGGCAAGGCTAGTGTCTTTGATCTGCTTCGTTGCCAGTACAAGAAGGCAAGAT
65 TACAACCAAGAGAGGCAAGACTAGTGTCTTTGATCTGCTTCACTGCCAGTACAGGAAGGCAAGAT
* * * *
50699333 CTACTATCTTCAGTCTGCTCCACTACAACCTAGGGAGGCAAGACTGGTGTCTTTGATCTACTTCA
130 CTGCTATCTTCAGTCTGCTCC-CTTCAACCTAGGGAGGCAAGACTGGTGTCTTTGATCTGCTTCG
* * *
50699398 CTGTCAGTACAGGAAGGTAAGATCTGCTA-CTTTCAACCTGCTTCGCTACAACCCAGGGAGGCAA
194 CTGTCAGTACAGGAAGGTAAGATCTGCTATC-TTCAACCTACTCCGCTGCAACCCAGGGAGGCAA
50699462 GGCTGG
258 GGCTGG
50699468 TGTCTTTGATCTGCTTCACTGCCGGTACAGGAAGGCAAGATCTGCTATCTTCA
1 TGTCTTTGATCTGCTTCACTGCCGGTACAGGAAGGCAAGATCTGCTATCTTCA
50699521 CTGATCTGTT
Statistics
Matches: 471, Mismatches: 100, Indels: 20
0.80 0.17 0.03
Matches are distributed among these distances:
263 7 0.01
264 454 0.96
265 10 0.02
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (263 bp):
TGTCTTTGATCTGCTTCACTGCCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT
ACAACCAAGAGAGGCAAGACTAGTGTCTTTGATCTGCTTCACTGCCAGTACAGGAAGGCAAGATC
TGCTATCTTCAGTCTGCTCCCTTCAACCTAGGGAGGCAAGACTGGTGTCTTTGATCTGCTTCGCT
GTCAGTACAGGAAGGTAAGATCTGCTATCTTCAACCTACTCCGCTGCAACCCAGGGAGGCAAGGC
TGG
Found at i:50701739 original size:25 final size:26
Alignment explanation
Indices: 50701688--50701748 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
50701678 AAGAAAATCC
* **
50701688 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
50701714 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
50701739 AAAATGAATG
1 AAAA-GAATG
50701749 CAAAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:50705541 original size:102 final size:102
Alignment explanation
Indices: 50705417--50705647 Score: 390
Period size: 102 Copynumber: 2.3 Consensus size: 102
50705407 CCTATGAGTC
* ** * **
50705417 GGGGAATCAGCACTTAGGAACCCTTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
50705482 CCAATGATTCGGGGAATCAACACTTAGCAACCCCTCG
66 CCAATGATTCGGGGAATCAACACTTAGCAACCCCTCG
*
50705519 GGGGAATCAGCATTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
50705584 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCG
66 CCAATGATTCGGGGAATCAACACTTAGCAACCCCTCG
50705621 GGGGAATCAGCACTTAGCAACCCCCTT
1 GGGGAATCAGCACTTAGCAACCCCCTT
50705648 TTTATTCAAT
Statistics
Matches: 120, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 120 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGATTCGGGGAATCAACACTTAGCAACCCCTCG
Found at i:50712923 original size:33 final size:33
Alignment explanation
Indices: 50712881--50713133 Score: 172
Period size: 33 Copynumber: 7.5 Consensus size: 33
50712871 TACGGTGGGT
50712881 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
50712914 TCAGCACTTAGCAACC-CC------TCGGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTC-GGGGAA
* *
50712941 TCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAA
1 TCAGCACTTAGCAA-CCAC--CA-A--T--GATTCGG-GGAA
*
50712983 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
* *
50713016 TCAGCACTTAGTAACC-CC-----TTGGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
* * *
50713043 TCAGCACTTAGCAACCCCCTTCACATTTAAAATGCGGTGGAA
1 TCAGCACTTAGCAA-CCAC--CA-A--T--GATTCGG-GGAA
50713085 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
50713118 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
50713134 CCTCGGGGGA
Statistics
Matches: 175, Mismatches: 13, Indels: 64
0.69 0.05 0.25
Matches are distributed among these distances:
26 2 0.01
27 40 0.23
28 4 0.02
29 2 0.01
31 2 0.01
32 4 0.02
33 55 0.31
34 10 0.06
36 2 0.01
38 2 0.01
39 4 0.02
41 11 0.06
42 37 0.21
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.20
Consensus pattern (33 bp):
TCAGCACTTAGCAACCACCAATGATTCGGGGAA
Found at i:50713015 original size:102 final size:102
Alignment explanation
Indices: 50712830--50713165 Score: 573
Period size: 102 Copynumber: 3.3 Consensus size: 102
50712820 TTAACCGTTA
* * ** **
50712830 TCGGTGGATTCAGCACTTAGCAACCCTTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAA
1 TCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAA
50712895 CCACCAATGATTCGGGGAATCAGCACTTAGCAACCCC
66 CCACCAATGATTCGGGGAATCAGCACTTAGCAACCCC
50712932 TCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAA
1 TCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAA
* *
50712997 CCACCAATGAGTCGGGGAATCAGCACTTAGTAACCCC
66 CCACCAATGATTCGGGGAATCAGCACTTAGCAACCCC
* * *
50713034 TTGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATGCGGTGGAATCAGCACTTAGCAA
1 TCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAA
50713099 CCACCAATGATTCGGGGAATCAGCACTTAGCAACCCC
66 CCACCAATGATTCGGGGAATCAGCACTTAGCAACCCC
50713136 TCGGGGGAATCAGCACTTAGCAACCCCCTT
1 TCGGGGGAATCAGCACTTAGCAACCCCCTT
50713166 TTTATTCAAT
Statistics
Matches: 220, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 220 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (102 bp):
TCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAA
CCACCAATGATTCGGGGAATCAGCACTTAGCAACCCC
Found at i:50713528 original size:30 final size:30
Alignment explanation
Indices: 50713494--50713558 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
50713484 TAATTCACCA
*
50713494 CCCAAATTTTTGAAAAATTACAATTTTGCC
1 CCCAAACTTTTGAAAAATTACAATTTTGCC
* * * *
50713524 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCCAAACTTTTGAAAAATTACAATTTTGCC
50713554 CCCAA
1 CCCAA
50713559 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.35
Consensus pattern (30 bp):
CCCAAACTTTTGAAAAATTACAATTTTGCC
Found at i:50715821 original size:12 final size:12
Alignment explanation
Indices: 50715804--50715835 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
50715794 TAAAAAATTT
50715804 ATAAAATAAAAA
1 ATAAAATAAAAA
50715816 ATAAAATAAAAA
1 ATAAAATAAAAA
*
50715828 ATAGAATA
1 ATAAAATA
50715836 TAAACACTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (12 bp):
ATAAAATAAAAA
Found at i:50716057 original size:43 final size:42
Alignment explanation
Indices: 50715919--50716144 Score: 208
Period size: 43 Copynumber: 5.3 Consensus size: 42
50715909 GTTTTTTCCT
** * *
50715919 ACAAACGCCGCTATAGATTTGGACCTTCAGCGGCGCTTTTTC
1 ACAAACGCCGCTATAGATCAGGACCTTTAGCGACGCTTTTTC
* * *
50715961 -CAAAACGCCGTTATAGATCATGACCTTTAGCGACGCTTTTAC
1 AC-AAACGCCGCTATAGATCAGGACCTTTAGCGACGCTTTTTC
* * *
50716003 ACAAACGCCGCTATA-ACTCAGGATCTTTAGCGGCACTTTTCTC
1 ACAAACGCCGCTATAGA-TCAGGACCTTTAGCGACGCTTTT-TC
* * *
50716046 ACAAACGCCGCTATAGATCATGATCTTTAACGACGCTTTTTTC
1 ACAAACGCCGCTATAGATCAGGACCTTTAGCGACGC-TTTTTC
* * * *
50716089 AAAAACACCACTATA-ACTCAAGACCTTTAGCGACGCTTTGATT-
1 ACAAACGCCGCTATAGA-TCAGGACCTTTAGCGACGCTTT--TTC
50716132 ACAAACGCCGCTA
1 ACAAACGCCGCTA
50716145 AAAGTACCGT
Statistics
Matches: 149, Mismatches: 26, Indels: 17
0.78 0.14 0.09
Matches are distributed among these distances:
41 2 0.01
42 68 0.46
43 72 0.48
44 7 0.05
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (42 bp):
ACAAACGCCGCTATAGATCAGGACCTTTAGCGACGCTTTTTC
Found at i:50716140 original size:86 final size:85
Alignment explanation
Indices: 50715963--50716144 Score: 229
Period size: 86 Copynumber: 2.1 Consensus size: 85
50715953 GCTTTTTCCA
* * * * * * *
50715963 AAACGCCGTTATAGATCATGACCTTTAGCGACGCTTTTACACAAACGCCGCTATAACTCAGGATC
1 AAACGCCGCTATAGATCATGACCTTTAACGACGCTTTTACAAAAACACCACTATAACTCAAGACC
* **
50716028 TTTAGCGGCACTTTTCTCAC
66 TTTAGCGACACTTTGATCAC
* *
50716048 AAACGCCGCTATAGATCATGATCTTTAACGACGCTTTTTTCAAAAACACCACTATAACTCAAGAC
1 AAACGCCGCTATAGATCATGACCTTTAACGACGC-TTTTACAAAAACACCACTATAACTCAAGAC
* *
50716113 CTTTAGCGACGCTTTGATTAC
65 CTTTAGCGACACTTTGATCAC
50716134 AAACGCCGCTA
1 AAACGCCGCTA
50716145 AAAGTACCGT
Statistics
Matches: 82, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
85 31 0.38
86 51 0.62
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (85 bp):
AAACGCCGCTATAGATCATGACCTTTAACGACGCTTTTACAAAAACACCACTATAACTCAAGACC
TTTAGCGACACTTTGATCAC
Found at i:50721722 original size:16 final size:17
Alignment explanation
Indices: 50721686--50721727 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
50721676 CACTATAATC
50721686 ATTATTTTAATATATTAA
1 ATTA-TTTAATATATTAA
50721704 ATTATTTAATATA-TAA
1 ATTATTTAATATATTAA
50721720 ATTATTTA
1 ATTATTTA
50721728 TAAATAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 11 0.46
17 9 0.38
18 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTATTTAATATATTAA
Found at i:50721870 original size:28 final size:27
Alignment explanation
Indices: 50721838--50721947 Score: 78
Period size: 28 Copynumber: 4.0 Consensus size: 27
50721828 CTAAATCATA
*
50721838 AACCCCTAACTCTTAACCCTCAACCCC
1 AACCCCTAACTCTTAACCCTAAACCCC
* *
50721865 TAACCCCTAACTCCTAAACCTTAAACCCC
1 -AACCCCTAACT-CTTAACCCTAAACCCC
* * * **
50721894 AACCCTTAA-TCTATAACCTTATACCAT
1 AACCCCTAACTCT-TAACCCTAAACCCC
* * *
50721921 AAACCGTAACCCTTAAACCCTAAACCC
1 AACCCCTAACTCTT-AACCCTAAACCC
50721948 TAAACCTTAA
Statistics
Matches: 64, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
26 2 0.03
27 19 0.30
28 30 0.47
29 13 0.20
ACGTcount: A:0.35, C:0.42, G:0.01, T:0.22
Consensus pattern (27 bp):
AACCCCTAACTCTTAACCCTAAACCCC
Found at i:50721880 original size:14 final size:14
Alignment explanation
Indices: 50721838--50721881 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
50721828 CTAAATCATA
*
50721838 AACCCCTAACTCTT
1 AACCCCTAACTCCT
*
50721852 AA-CCCTCAACCCCT
1 AACCCCT-AACTCCT
50721866 AACCCCTAACTCCT
1 AACCCCTAACTCCT
50721880 AA
1 AA
50721882 ACCTTAAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 4 0.16
14 17 0.68
15 4 0.16
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.20
Consensus pattern (14 bp):
AACCCCTAACTCCT
Found at i:50721889 original size:7 final size:7
Alignment explanation
Indices: 50721879--50721988 Score: 55
Period size: 7 Copynumber: 15.9 Consensus size: 7
50721869 CCCTAACTCC
50721879 TAAACCT
1 TAAACCT
*
50721886 TAAACCC
1 TAAACCT
* *
50721893 CAACCCT
1 TAAACCT
*
50721900 T-AATCT
1 TAAACCT
50721906 ATA-ACCT
1 -TAAACCT
* *
50721913 TATACCA
1 TAAACCT
*
50721920 TAAACCG
1 TAAACCT
*
50721927 TAACCCT
1 TAAACCT
*
50721934 TAAACCC
1 TAAACCT
*
50721941 TAAACCC
1 TAAACCT
50721948 TAAACCT
1 TAAACCT
*
50721955 TAAACCA
1 TAAACCT
50721962 TAAA-CT
1 TAAACCT
*
50721968 GTAAACCA
1 -TAAACCT
* *
50721976 TAACCCC
1 TAAACCT
50721983 TAAACC
1 TAAACC
50721989 CATAATCCAT
Statistics
Matches: 76, Mismatches: 22, Indels: 10
0.70 0.20 0.09
Matches are distributed among these distances:
6 6 0.08
7 69 0.91
8 1 0.01
ACGTcount: A:0.42, C:0.35, G:0.02, T:0.22
Consensus pattern (7 bp):
TAAACCT
Found at i:50721925 original size:14 final size:14
Alignment explanation
Indices: 50721879--50722048 Score: 103
Period size: 14 Copynumber: 12.1 Consensus size: 14
50721869 CCCTAACTCC
*
50721879 TAAACCTTAAACCC
1 TAAACCTTAAACCA
* * * *
50721893 CAACCCTTAATCTA
1 TAAACCTTAAACCA
*
50721907 T-AACCTTATACCA
1 TAAACCTTAAACCA
* * *
50721920 TAAACCGTAACCCT
1 TAAACCTTAAACCA
* *
50721934 TAAACCCTAAACCC
1 TAAACCTTAAACCA
50721948 TAAACCTTAAACCA
1 TAAACCTTAAACCA
50721962 TAAA-CTGTAAACCA
1 TAAACCT-TAAACCA
* *
50721976 TAACCCCTAAACCCA
1 TAAACCTTAAA-CCA
* * * *
50721991 TAATCCATAAAACT
1 TAAACCTTAAACCA
*
50722005 TAAA-CTCTATACCA
1 TAAACCT-TAAACCA
* *
50722019 TATACCCTAAACCA
1 TAAACCTTAAACCA
*
50722033 AAAACCTTAAACCA
1 TAAACCTTAAACCA
50722047 TA
1 TA
50722049 GAGATAATTA
Statistics
Matches: 113, Mismatches: 37, Indels: 12
0.70 0.23 0.07
Matches are distributed among these distances:
13 12 0.11
14 87 0.77
15 14 0.12
ACGTcount: A:0.44, C:0.32, G:0.01, T:0.22
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:50721935 original size:21 final size:21
Alignment explanation
Indices: 50721908--50721988 Score: 90
Period size: 21 Copynumber: 3.9 Consensus size: 21
50721898 CTTAATCTAT
*
50721908 AACCTTATACCATAAACCGTA
1 AACCTTAAACCATAAACCGTA
* * *
50721929 ACCCTTAAACCCTAAACCCTA
1 AACCTTAAACCATAAACCGTA
*
50721950 AACCTTAAACCATAAACTGTA
1 AACCTTAAACCATAAACCGTA
* * *
50721971 AACCATAACCCCTAAACC
1 AACCTTAAACCATAAACC
50721989 CATAATCCAT
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.43, C:0.35, G:0.02, T:0.20
Consensus pattern (21 bp):
AACCTTAAACCATAAACCGTA
Found at i:50722019 original size:43 final size:42
Alignment explanation
Indices: 50721937--50722031 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 42
50721927 TAACCCTTAA
* * *
50721937 ACCCTAAACCCTAAACCTTAAACCATAAACTGTAAACCATA-
1 ACCCTAAACCCTAAACCATAAAACATAAACTCTAAACCATAT
* * *
50721978 ACCCCTAAACCCATAATCCATAAAACTTAAACTCTATACCATAT
1 A-CCCTAAACCC-TAAACCATAAAACATAAACTCTAAACCATAT
50722022 ACCCTAAACC
1 ACCCTAAACC
50722032 AAAAACCTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.02
42 10 0.22
43 33 0.73
44 1 0.02
ACGTcount: A:0.44, C:0.34, G:0.01, T:0.21
Consensus pattern (42 bp):
ACCCTAAACCCTAAACCATAAAACATAAACTCTAAACCATAT
Found at i:50724276 original size:54 final size:55
Alignment explanation
Indices: 50724193--50724296 Score: 165
Period size: 54 Copynumber: 1.9 Consensus size: 55
50724183 TCTTCCACGG
*
50724193 AGAAACTTTCAGAAATACTCGATCACCAACTGCAAATTCAATATTTTTTCCTTGA
1 AGAAACTTTCAGAAATACTCGATCACCAACTGCAAATTCAATATCTTTTCCTTGA
* * *
50724248 AGAAACTTTCAG-GATACTCGATCGCCAACTGTAAATTCAATATCTTTTC
1 AGAAACTTTCAGAAATACTCGATCACCAACTGCAAATTCAATATCTTTTC
50724297 TTTTCAGATC
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
54 33 0.73
55 12 0.27
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.33
Consensus pattern (55 bp):
AGAAACTTTCAGAAATACTCGATCACCAACTGCAAATTCAATATCTTTTCCTTGA
Found at i:50727174 original size:7 final size:7
Alignment explanation
Indices: 50727162--50727211 Score: 64
Period size: 7 Copynumber: 7.0 Consensus size: 7
50727152 AACTCCAATT
50727162 TTTAGGG
1 TTTAGGG
50727169 TTTAGGG
1 TTTAGGG
*
50727176 TTTAAGGT
1 TTT-AGGG
50727184 TTTAGGG
1 TTTAGGG
*
50727191 TTTATGG
1 TTTAGGG
*
50727198 TTTAAGG
1 TTTAGGG
50727205 TTTAGGG
1 TTTAGGG
50727212 ATCCCCCACG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 31 0.84
8 6 0.16
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:50727186 original size:22 final size:22
Alignment explanation
Indices: 50727161--50727211 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
50727151 TAACTCCAAT
50727161 TTTTAGGGTTTAGGGTTTAAGG
1 TTTTAGGGTTTAGGGTTTAAGG
*
50727183 TTTTAGGGTTTATGGTTTAAGG
1 TTTTAGGGTTTAGGGTTTAAGG
50727205 -TTTAGGG
1 TTTTAGGG
50727212 ATCCCCCACG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (22 bp):
TTTTAGGGTTTAGGGTTTAAGG
Found at i:50727189 original size:15 final size:15
Alignment explanation
Indices: 50727169--50727200 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
50727159 ATTTTTAGGG
50727169 TTTAGGGTTTAAGGT
1 TTTAGGGTTTAAGGT
*
50727184 TTTAGGGTTTATGGT
1 TTTAGGGTTTAAGGT
50727199 TT
1 TT
50727201 AAGGTTTAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.31, T:0.53
Consensus pattern (15 bp):
TTTAGGGTTTAAGGT
Found at i:50729552 original size:39 final size:39
Alignment explanation
Indices: 50729495--50729614 Score: 195
Period size: 39 Copynumber: 3.1 Consensus size: 39
50729485 TCCAATACAC
* *
50729495 CGGCACATAGCCTACTAGGCACTTAGCCCGAATAATCAT
1 CGGCACAAAGCCTGCTAGGCACTTAGCCCGAATAATCAT
* *
50729534 CGGCACAAAGCCTGCTAGGCAATTAGCCCGAATAATCAC
1 CGGCACAAAGCCTGCTAGGCACTTAGCCCGAATAATCAT
*
50729573 CGGCACAAAGCCTGCTAGGCACTTATCCCGAATAATCAT
1 CGGCACAAAGCCTGCTAGGCACTTAGCCCGAATAATCAT
50729612 CGG
1 CGG
50729615 ATTTTTATTT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (39 bp):
CGGCACAAAGCCTGCTAGGCACTTAGCCCGAATAATCAT
Found at i:50731104 original size:44 final size:44
Alignment explanation
Indices: 50731055--50731140 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
50731045 TATCAACATA
*
50731055 AATTTTCTTTCCATA-AGTATGTTTGGTAGGAAAGATGAAAAAAT
1 AATTTTCTTTCAATAGA-TATGTTTGGTAGGAAAGATGAAAAAAT
50731099 AATTTTCTTTCAATAGATATGTTTGGTAGGAAAGATGAAAAA
1 AATTTTCTTTCAATAGATATGTTTGGTAGGAAAGATGAAAAA
50731141 TAGAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
44 39 0.98
45 1 0.03
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.36
Consensus pattern (44 bp):
AATTTTCTTTCAATAGATATGTTTGGTAGGAAAGATGAAAAAAT
Found at i:50732330 original size:20 final size:20
Alignment explanation
Indices: 50732297--50732335 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
50732287 AAGACTTCCA
50732297 AACATCTTACAAAATATTTTT
1 AACATCTTACAAAA-ATTTTT
*
50732318 AACA-CTTAGAAAAATTTT
1 AACATCTTACAAAAATTTT
50732336 GGACAAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 8 0.47
21 4 0.24
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.38
Consensus pattern (20 bp):
AACATCTTACAAAAATTTTT
Found at i:50732470 original size:27 final size:27
Alignment explanation
Indices: 50732440--50732495 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
50732430 TTTCAAAAAG
50732440 TATGGATACCTATTGTATTTTTATCGA
1 TATGGATACCTATTGTATTTTTATCGA
*
50732467 TATGGATATCTATTGTATTTTTATCGA
1 TATGGATACCTATTGTATTTTTATCGA
50732494 TA
1 TA
50732496 CCATCTTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.50
Consensus pattern (27 bp):
TATGGATACCTATTGTATTTTTATCGA
Found at i:50733016 original size:41 final size:41
Alignment explanation
Indices: 50732959--50733161 Score: 334
Period size: 41 Copynumber: 5.0 Consensus size: 41
50732949 TGAGTTTTTG
*
50732959 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATTCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * *
50733000 GGGCCTTTAGTGGCGTTTGTGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
50733041 GGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
50733082 GGGCCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTT
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
50733123 GGGCCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
50733162 CCGCTTTTGA
Statistics
Matches: 150, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 150 1.00
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:50733542 original size:14 final size:14
Alignment explanation
Indices: 50733525--50733561 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
50733515 AGGTTTAATA
50733525 TATATGGTTTAGGG
1 TATATGGTTTAGGG
*
50733539 TATATGATTTAGGG
1 TATATGGTTTAGGG
50733553 TATATGGTT
1 TATATGGTT
50733562 AATTTAGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (14 bp):
TATATGGTTTAGGG
Found at i:50733641 original size:14 final size:15
Alignment explanation
Indices: 50733610--50733642 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
50733600 AAGATTTATA
50733610 GATTATGGAATTACG
1 GATTATGGAATTACG
*
50733625 GATTATGG-ATTAGG
1 GATTATGGAATTACG
50733639 GATT
1 GATT
50733643 CTGGTTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.30, C:0.03, G:0.30, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTACG
Found at i:50733870 original size:7 final size:7
Alignment explanation
Indices: 50733860--50733911 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
50733850 TAAATAAGAT
50733860 TTAGGGG
1 TTAGGGG
**
50733867 TTAGTAG
1 TTAGGGG
50733874 TTAGGGG
1 TTAGGGG
50733881 TTAGGGG
1 TTAGGGG
50733888 TTAGGGG
1 TTAGGGG
**
50733895 TTAAAGG
1 TTAGGGG
*
50733902 TTAGAGG
1 TTAGGGG
50733909 TTA
1 TTA
50733912 ATAGTTAGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.23, C:0.00, G:0.44, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:50733879 original size:14 final size:14
Alignment explanation
Indices: 50733860--50733919 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 14
50733850 TAAATAAGAT
50733860 TTAGGGGTTAGTAG
1 TTAGGGGTTAGTAG
**
50733874 TTAGGGGTTAGGGG
1 TTAGGGGTTAGTAG
*
50733888 TTAGGGGTTA-AAGG
1 TTAGGGGTTAGTA-G
* *
50733902 TTAGAGGTTAATAG
1 TTAGGGGTTAGTAG
50733916 TTAG
1 TTAG
50733920 TGATTTAGGG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
14 37 0.97
15 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.42, T:0.33
Consensus pattern (14 bp):
TTAGGGGTTAGTAG
Found at i:50733884 original size:21 final size:21
Alignment explanation
Indices: 50733860--50733919 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
50733850 TAAATAAGAT
*
50733860 TTAGGGGTTAGTAGTTAGGGG
1 TTAGGGGTTAGTAGTTAGAGG
** *
50733881 TTAGGGGTTAGGGGTTAAAGG
1 TTAGGGGTTAGTAGTTAGAGG
* *
50733902 TTAGAGGTTAATAGTTAG
1 TTAGGGGTTAGTAGTTAG
50733920 TGATTTAGGG
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.25, C:0.00, G:0.42, T:0.33
Consensus pattern (21 bp):
TTAGGGGTTAGTAGTTAGAGG
Found at i:50738433 original size:43 final size:43
Alignment explanation
Indices: 50738373--50738463 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
50738363 CTTTGAGTTC
* * * *
50738373 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
*
50738415 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATATTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
50738458 ATTACC
1 ATTACC
50738464 TTGTATATGT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
Found at i:50738813 original size:43 final size:43
Alignment explanation
Indices: 50738737--50738963 Score: 248
Period size: 43 Copynumber: 5.3 Consensus size: 43
50738727 AAGATATATT
* ** *
50738737 TTTAGTGGCGTTTGTGTTAAAAGCGACGCTAAAGGTCTAT-TC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTATGTC
* * * * * *
50738779 TATAGCGGCATTTGTGGGAAAAAGCGCCGTTAAAGCTCAATATC
1 TTTAGCGGCGTTTGTGGG-AAAAGCGCCGCTAAAGGTCTATGTC
* *
50738823 TTTAGCGGCGTTTGTGGGAAAAGTGTCGCTAAAGGTCT-TGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTAT-GTC
*
50738866 TTTAGCGGCGTTTGTGGG-GAAGCGCCGCTAAAGGTC-ATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTAT-GTC
* *
50738908 TTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCT-TAGTT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTAT-GTC
50738951 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
50738964 ATTTATAAAA
Statistics
Matches: 155, Mismatches: 24, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
42 52 0.34
43 85 0.55
44 18 0.12
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTATGTC
Found at i:50738919 original size:85 final size:85
Alignment explanation
Indices: 50738732--50738963 Score: 263
Period size: 85 Copynumber: 2.7 Consensus size: 85
50738722 TTTAAAAGAT
* * ** * *
50738732 ATATTTTTAGTGGCGTTTGTGTTAAAAGCGACGCTAAAGGTCTAT-TCTATAGCGGCATTTGTGG
1 ATATCTTTAGCGGCGTTTGTGGGAAAAGCGACGCTAAAGGTCT-TGTCTTTAGCGGCGTTTGTGG
*
50738796 GAAAAAGCGCCGTTAAAGCTCA
65 G-AAAAGCGCCGCTAAAGCTCA
* *
50738818 ATATCTTTAGCGGCGTTTGTGGGAAAAGTGTCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGG
1 ATATCTTTAGCGGCGTTTGTGGGAAAAGCGACGCTAAAGGTCTT-GTCTTTAGCGGCGTTTGTGG
* *
50738883 G-GAAGCGCCGCTAAAGGTC-
65 GAAAAGCGCCGCTAAAGCTCA
* * * *
50738902 ATGGTCTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCTTAGTTTTTAGCGGCGTTT
1 AT-ATCTTTAGCGGCGTTTGTGGGAAAAGCGACGCTAAAGGTCTT-GTCTTTAGCGGCGTTT
50738964 ATTTATAAAA
Statistics
Matches: 126, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
84 2 0.02
85 69 0.55
86 37 0.29
87 18 0.14
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.31
Consensus pattern (85 bp):
ATATCTTTAGCGGCGTTTGTGGGAAAAGCGACGCTAAAGGTCTTGTCTTTAGCGGCGTTTGTGGG
AAAAGCGCCGCTAAAGCTCA
Found at i:50739092 original size:22 final size:21
Alignment explanation
Indices: 50739055--50739100 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
50739045 TTTAATGGCG
* *
50739055 CTAAAAAACGCTGCTAAAGGC
1 CTAAAAAACGCCGCTAAAAGC
50739076 CTAAAAAAGCGCCGCTAAAAGC
1 CTAAAAAA-CGCCGCTAAAAGC
50739098 CTA
1 CTA
50739101 TTTTGGTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.43, C:0.26, G:0.17, T:0.13
Consensus pattern (21 bp):
CTAAAAAACGCCGCTAAAAGC
Found at i:50739777 original size:19 final size:19
Alignment explanation
Indices: 50739753--50739791 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
50739743 GTGTTTTGTA
50739753 TTTATGT-TGAATACATATT
1 TTTATGTGT-AATACATATT
*
50739772 TTTATGTGTTATACATATT
1 TTTATGTGTAATACATATT
50739791 T
1 T
50739792 GGTTGATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.56
Consensus pattern (19 bp):
TTTATGTGTAATACATATT
Found at i:50740651 original size:20 final size:20
Alignment explanation
Indices: 50740621--50740658 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
50740611 TATGAATGAC
50740621 ATTTGAATTTGATTATTTGTT
1 ATTTGAATTTGA-TATTTGTT
50740642 ATTT-AATTTGATATTTG
1 ATTTGAATTTGATATTTG
50740659 GATGGTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (20 bp):
ATTTGAATTTGATATTTGTT
Found at i:50741478 original size:102 final size:103
Alignment explanation
Indices: 50741294--50741491 Score: 281
Period size: 102 Copynumber: 1.9 Consensus size: 103
50741284 ATTTTTAACT
* * **
50741294 AATTTGCATGAAATAATAGTAATGGAAATATTACCAAAAAAAAAAAATTAAGTTAGTTTGTTATT
1 AATTTGCATGAAATAATAGTAATCGAAATATTA-CAAAAAAAAAAAATAAAACTAGTTTGTTATT
* *
50741359 GGACATTCTAACGTAAGTCAACTGCAAATTAAATTTATA
65 GGACATTCTAACATAAGTCAACTACAAATTAAATTTATA
* *** *
50741398 AATTTGCATGAAATAATAGTAATCGAAATATTA-AAAAAGAAGTCATAAAACTGGTTTGTTATTG
1 AATTTGCATGAAATAATAGTAATCGAAATATTACAAAAAAAAAAAATAAAACTAGTTTGTTATTG
50741462 GACATTCTAACATAAGTCAACTACAAATTA
66 GACATTCTAACATAAGTCAACTACAAATTA
50741492 GATATGTAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
102 51 0.61
104 32 0.39
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.32
Consensus pattern (103 bp):
AATTTGCATGAAATAATAGTAATCGAAATATTACAAAAAAAAAAAATAAAACTAGTTTGTTATTG
GACATTCTAACATAAGTCAACTACAAATTAAATTTATA
Found at i:50744109 original size:28 final size:29
Alignment explanation
Indices: 50744046--50744109 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
50744036 AAAATTACCC
50744046 ATTTTTAT-AAAAATTATTGGATTAGACCG
1 ATTTTT-TCAAAAATTATTGGATTAGACCG
* * **
50744075 ATTTTTTCAAAATTTATTTGATTAGGTCG
1 ATTTTTTCAAAAATTATTGGATTAGACCG
50744104 ATTTTT
1 ATTTTT
50744110 GAAAGAGAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.50
Consensus pattern (29 bp):
ATTTTTTCAAAAATTATTGGATTAGACCG
Found at i:50744145 original size:21 final size:21
Alignment explanation
Indices: 50744120--50744159 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
50744110 GAAAGAGAAG
50744120 AAAATTATTGGATTAGACATA
1 AAAATTATTGGATTAGACATA
50744141 AAAATTATTGGATTAGACA
1 AAAATTATTGGATTAGACA
50744160 CATTTTCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.15, T:0.33
Consensus pattern (21 bp):
AAAATTATTGGATTAGACATA
Found at i:50744426 original size:18 final size:19
Alignment explanation
Indices: 50744389--50744425 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
50744379 TTGGTGGGAA
50744389 TATAAAT-TTTAGAGTTTT
1 TATAAATATTTAGAGTTTT
*
50744407 TATAAATATTTTGAGTTTT
1 TATAAATATTTAGAGTTTT
50744426 AAAAATAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (19 bp):
TATAAATATTTAGAGTTTT
Found at i:50744431 original size:18 final size:20
Alignment explanation
Indices: 50744394--50744432 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
50744384 GGGAATATAA
*
50744394 ATTTTAGAGTTTTTATAAAT
1 ATTTTAGAGTTTTTAAAAAT
50744414 ATTTT-GAG-TTTTAAAAAT
1 ATTTTAGAGTTTTTAAAAAT
50744432 A
1 A
50744433 ACGTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 3 0.17
20 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.51
Consensus pattern (20 bp):
ATTTTAGAGTTTTTAAAAAT
Found at i:50748563 original size:27 final size:27
Alignment explanation
Indices: 50748518--50748863 Score: 335
Period size: 27 Copynumber: 12.9 Consensus size: 27
50748508 GTCATGAACT
* * * *
50748518 GAAATACCTTCGATGGGTAAAATTATT
1 GAAATACCCTCAATAGGTAAAATTATC
* * *
50748545 GAAATACCCCCAATAGGTATAATTATT
1 GAAATACCCTCAATAGGTAAAATTATC
* *
50748572 GAAATACCCTTAATAGGTAAAATTATT
1 GAAATACCCTCAATAGGTAAAATTATC
* * * *
50748599 GAAATACCCCCGATGGGTATAATTATC
1 GAAATACCCTCAATAGGTAAAATTATC
*
50748626 AAAATACCC-CTAATAGGTAAAATTATC
1 GAAATACCCTC-AATAGGTAAAATTATC
* *
50748653 GAAATACCCTCGATGGGTAAAATTATC
1 GAAATACCCTCAATAGGTAAAATTATC
* * *
50748680 AAAATACCCTCGATAGATAAAATTATC
1 GAAATACCCTCAATAGGTAAAATTATC
* *
50748707 GAAATACCCCCAATAGGTAAAATTATA
1 GAAATACCCTCAATAGGTAAAATTATC
50748734 GAAATACCCTC-ATAGGGTAAAATTA-C
1 GAAATACCCTCAATA-GGTAAAATTATC
* * *
50748760 TAAAATACCCTCGATGGGTAAAATTA-C
1 -GAAATACCCTCAATAGGTAAAATTATC
* * *
50748787 AAAAATACCCTCAATAGATAAAATTATT
1 -GAAATACCCTCAATAGGTAAAATTATC
* *
50748815 GAAATACCCT-GATGGGTAAAATTATC
1 GAAATACCCTCAATAGGTAAAATTATC
*
50748841 GAAATACCCT-TATATGGTAAAAT
1 GAAATACCCTCAATA-GGTAAAAT
50748864 GACTGTTATA
Statistics
Matches: 267, Mismatches: 45, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
26 28 0.10
27 236 0.88
28 3 0.01
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (27 bp):
GAAATACCCTCAATAGGTAAAATTATC
Found at i:50748599 original size:54 final size:54
Alignment explanation
Indices: 50748533--50748863 Score: 384
Period size: 54 Copynumber: 6.1 Consensus size: 54
50748523 ACCTTCGATG
* * * **
50748533 GGTAAAATTATTGAAATACCCCCAATAGGTATAATTATTGAAATACCCTTAATA
1 GGTAAAATTATTGAAATACCCCCGATGGGTAAAATTATCAAAATACCCTTAATA
* *
50748587 GGTAAAATTATTGAAATACCCCCGATGGGTATAATTATCAAAATACCCCTAATA
1 GGTAAAATTATTGAAATACCCCCGATGGGTAAAATTATCAAAATACCCTTAATA
* * **
50748641 GGTAAAATTATCGAAATACCCTCGATGGGTAAAATTATCAAAATACCCTCGATA
1 GGTAAAATTATTGAAATACCCCCGATGGGTAAAATTATCAAAATACCCTTAATA
* * * * *
50748695 GATAAAATTATCGAAATACCCCCAATAGGTAAAATTAT-AGAAATACCC-TCATA
1 GGTAAAATTATTGAAATACCCCCGATGGGTAAAATTATCA-AAATACCCTTAATA
* * * *
50748748 GGGTAAAATTACTAAAATACCCTCGATGGGTAAAATTA-CAAAAATACCCTCAATA
1 -GGTAAAATTATTGAAATACCCCCGATGGGTAAAATTATC-AAAATACCCTTAATA
* * *
50748803 GATAAAATTATTGAAATA-CCCTGATGGGTAAAATTATCGAAATACCCTT-ATA
1 GGTAAAATTATTGAAATACCCCCGATGGGTAAAATTATCAAAATACCCTTAATA
50748855 TGGTAAAAT
1 -GGTAAAAT
50748864 GACTGTTATA
Statistics
Matches: 236, Mismatches: 34, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
52 3 0.01
53 36 0.15
54 193 0.82
55 4 0.02
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (54 bp):
GGTAAAATTATTGAAATACCCCCGATGGGTAAAATTATCAAAATACCCTTAATA
Found at i:50748657 original size:81 final size:80
Alignment explanation
Indices: 50748517--50748850 Score: 418
Period size: 81 Copynumber: 4.1 Consensus size: 80
50748507 AGTCATGAAC
* ** *
50748517 TGAAATACCTTCGATGGGTAAAATTATTGAAATACCCCCAATAGGTATAATTATTGAAATACCCT
1 TGAAATACCCTCGATGGGTAAAATTATCAAAATACCCCCAATAGGTAAAATTATTGAAATACCC-
*
50748582 TAATAGGTAAAATTAT
65 TGATAGGTAAAATTAT
* * * *
50748598 TGAAATACCCCCGATGGGTATAATTATCAAAATACCCCTAATAGGTAAAATTATCGAAATACCCT
1 TGAAATACCCTCGATGGGTAAAATTATCAAAATACCCCCAATAGGTAAAATTATTGAAATACCCT
*
50748663 CGATGGGTAAAATTAT
66 -GATAGGTAAAATTAT
** * * * *
50748679 CAAAATACCCTCGATAGATAAAATTATCGAAATACCCCCAATAGGTAAAATTATAGAAATACCCT
1 TGAAATACCCTCGATGGGTAAAATTATCAAAATACCCCCAATAGGTAAAATTATTGAAATACCCT
* *
50748744 CATAGGGTAAAATTAC
66 GATA-GGTAAAATTAT
* * *
50748760 TAAAATACCCTCGATGGGTAAAATTA-CAAAAATACCCTCAATAGATAAAATTATTGAAATACCC
1 TGAAATACCCTCGATGGGTAAAATTATC-AAAATACCCCCAATAGGTAAAATTATTGAAATACCC
*
50748824 TGATGGGTAAAATTAT
65 TGATAGGTAAAATTAT
*
50748840 CGAAATACCCT
1 TGAAATACCCT
50748851 TATATGGTAA
Statistics
Matches: 216, Mismatches: 34, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
80 23 0.11
81 193 0.89
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (80 bp):
TGAAATACCCTCGATGGGTAAAATTATCAAAATACCCCCAATAGGTAAAATTATTGAAATACCCT
GATAGGTAAAATTAT
Found at i:50749042 original size:27 final size:26
Alignment explanation
Indices: 50749005--50749101 Score: 79
Period size: 26 Copynumber: 3.7 Consensus size: 26
50748995 AGGGGAAATG
**
50749005 TACTG-TACTGGTGGCTTTACCACATA
1 TACTGTTACTGGCAGCTTTACCACA-A
**
50749031 TACTGTTACTGGCAGCTTTACTGCAA
1 TACTGTTACTGGCAGCTTTACCACAA
* * * ** *
50749057 TACTGTTACCGGCAGCTCTGCTGCGA
1 TACTGTTACTGGCAGCTTTACCACAA
*
50749083 TACTGTTACTGGTAGCTTT
1 TACTGTTACTGGCAGCTTT
50749102 GCTGCATTAT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 44 0.75
27 15 0.25
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.35
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTACCACAA
Found at i:50749059 original size:26 final size:26
Alignment explanation
Indices: 50749030--50749132 Score: 118
Period size: 26 Copynumber: 4.0 Consensus size: 26
50749020 TTTACCACAT
*
50749030 ATACTGTTACTGGCAGCTTTACTGCA
1 ATACTGTTACTGGCAGCTTTGCTGCA
* * *
50749056 ATACTGTTACCGGCAGCTCTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCA
*
50749082 ATACTGTTACTGGTAGCTTTGCTGCA
1 ATACTGTTACTGGCAGCTTTGCTGCA
* * *
50749108 TTA-TAATTACTGGCAGCTATGCTGC
1 ATACT-GTTACTGGCAGCTTTGCTGC
50749133 GATATTGGTG
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
25 1 0.02
26 63 0.98
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.34
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGCA
Found at i:50749086 original size:52 final size:52
Alignment explanation
Indices: 50749030--50749136 Score: 144
Period size: 52 Copynumber: 2.1 Consensus size: 52
50749020 TTTACCACAT
* *
50749030 ATACTGTTACTGGCAGCTTTACTGCAATACT-GTTACCGGCAGCTCTGCTGCG
1 ATACTGTTACTGGCAGCTTTACTGCAATA-TAATTACCGGCAGCTATGCTGCG
* * * *
50749082 ATACTGTTACTGGTAGCTTTGCTGCATTATAATTACTGGCAGCTATGCTGCG
1 ATACTGTTACTGGCAGCTTTACTGCAATATAATTACCGGCAGCTATGCTGCG
50749134 ATA
1 ATA
50749137 TTGGTGTGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
51 1 0.02
52 47 0.98
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.34
Consensus pattern (52 bp):
ATACTGTTACTGGCAGCTTTACTGCAATATAATTACCGGCAGCTATGCTGCG
Found at i:50753342 original size:21 final size:22
Alignment explanation
Indices: 50753318--50753363 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
50753308 GTTGTTAAAA
*
50753318 TTTTTATAATTTGTATTTA-CT
1 TTTTTATAATTTATATTTATCT
*
50753339 TTTTTATACTTTATATTTATCT
1 TTTTTATAATTTATATTTATCT
50753361 TTT
1 TTT
50753364 CTCATTAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTTTATAATTTATATTTATCT
Found at i:50756319 original size:19 final size:20
Alignment explanation
Indices: 50756284--50756322 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
50756274 AATACATGTG
50756284 TAATAATAAACATATGTATT
1 TAATAATAAACATATGTATT
*
50756304 TAATAATGAA-ATATGTATT
1 TAATAATAAACATATGTATT
50756323 GCTTATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (20 bp):
TAATAATAAACATATGTATT
Found at i:50757367 original size:41 final size:38
Alignment explanation
Indices: 50757322--50757456 Score: 121
Period size: 40 Copynumber: 3.4 Consensus size: 38
50757312 CGACTTTGAG
50757322 TCGATGAGACACTAGGTGTCAATTTATTACTTCGGATTAA
1 TCGATGAGACACTAGGTGTCAA-TTATTACTTCGGATT-A
* * * *
50757362 TTCGATGAGGCACTGGGTGCCAA-T-TTACTTCGGTTTA
1 -TCGATGAGACACTAGGTGTCAATTATTACTTCGGATTA
* * * *
50757399 GCCGATGAAACACTGGGTGTCAAATTATTACTTCGAATTA
1 -TCGATGAGACACTAGGTGTC-AATTATTACTTCGGATTA
*
50757439 TCTGATGAGGCACTAGGT
1 TC-GATGAGACACTAGGT
50757457 ACCAAACTAG
Statistics
Matches: 75, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
37 17 0.23
38 13 0.17
39 3 0.04
40 23 0.31
41 19 0.25
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.33
Consensus pattern (38 bp):
TCGATGAGACACTAGGTGTCAATTATTACTTCGGATTA
Found at i:50757849 original size:9 final size:9
Alignment explanation
Indices: 50757832--50757868 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
50757822 TGAGTTTTCG
50757832 AATTCGAAT
1 AATTCGAAT
*
50757841 AACTCGAAT
1 AATTCGAAT
50757850 AATTCGAAT
1 AATTCGAAT
50757859 AATTCGAAT
1 AATTCGAAT
50757868 A
1 A
50757869 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:50757945 original size:21 final size:21
Alignment explanation
Indices: 50757904--50757946 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
50757894 ACCCCAAACT
* *
50757904 CTCAAACCTTTTTACTTTTCC
1 CTCAAAACTTTTTACTATTCC
50757925 CTCAAAAC-TTTTACTCATTCC
1 CTCAAAACTTTTTACT-ATTCC
50757946 C
1 C
50757947 ACTTTCCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.23, C:0.35, G:0.00, T:0.42
Consensus pattern (21 bp):
CTCAAAACTTTTTACTATTCC
Found at i:50760245 original size:25 final size:27
Alignment explanation
Indices: 50760216--50760269 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
50760206 TTTTTGAAAT
50760216 ATTAAATA-TTA-AATTTTAGTCACTC
1 ATTAAATATTTATAATTTTAGTCACTC
50760241 ATTAAATATTTTATAATTTTAGTCACTC
1 ATTAAATA-TTTATAATTTTAGTCACTC
50760269 A
1 A
50760270 ACTATCCGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 8 0.31
27 3 0.12
28 15 0.58
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.46
Consensus pattern (27 bp):
ATTAAATATTTATAATTTTAGTCACTC
Found at i:50762225 original size:3 final size:3
Alignment explanation
Indices: 50762217--50762244 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
50762207 TACTAGAATA
50762217 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
50762245 TTGCTTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:50767087 original size:15 final size:15
Alignment explanation
Indices: 50767067--50767096 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50767057 TTAGATGAGA
50767067 TTTTTCTTCTACTTC
1 TTTTTCTTCTACTTC
*
50767082 TTTTTCTTCTTCTTC
1 TTTTTCTTCTACTTC
50767097 AAATTCTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTCTTCTACTTC
Found at i:50778247 original size:126 final size:125
Alignment explanation
Indices: 50778022--50778357 Score: 478
Period size: 126 Copynumber: 2.7 Consensus size: 125
50778012 GTTTCTGATA
* * * *
50778022 AAATAATATAAAATCGCTTCTAGCAGGATGATATTCGAGAAGAATTTGTGAAATCGTGCCCTCGT
1 AAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGGCCTCGT
* * *
50778087 GGACGCGCTTTTGCTATAGTAGGTCACGGAAGAAATAATTATTTTTTTGACGTTTGTGAGC
66 GGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAA-AATTTTTTTAACGTTTGTGAGC
* *
50778148 AAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATTGCGGCCTCGT
1 AAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGGCCTCGT
* * * *
50778213 -CAGCGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAAAATTTTTTTAACGTTTTTGAGC
66 GGA-CGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAAAATTTTTTTAACGTTTGTGAGC
* * * *
50778273 AAATAATATAAAATCGCTTATACCAGGATGCTATCTGAGAAGAATTTGTGAAATCGC-GCCCCGT
1 AAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGGCCTCGT
*
50778337 GGACGCGATTTTGCTACAGTA
66 GGACGCGCTTTTGCTACAGTA
50778358 ACATGTTTGG
Statistics
Matches: 187, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
124 23 0.12
125 73 0.39
126 91 0.49
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (125 bp):
AAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGGCCTCGT
GGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAAAATTTTTTTAACGTTTGTGAGC
Found at i:50781589 original size:116 final size:116
Alignment explanation
Indices: 50781385--50781602 Score: 357
Period size: 116 Copynumber: 1.9 Consensus size: 116
50781375 TGATAAATTG
* * *
50781385 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATAGACAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATAATAGAAAATTATTAATTGA
50781450 TAGTACCACTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCACTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
*
50781501 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATAAT-GTAAAATTATTATTTG
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATAATAG-AAAATTATTAATTG
* * *
50781565 ATAGTACCAGTCAAAATATTTTTCCAAATCTACCATTA
65 ATAGTACCACTCAAAACATTTTTCCAAATCTAACATTA
50781603 CGTTAAGGTT
Statistics
Matches: 94, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
115 1 0.01
116 93 0.99
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATAATAGAAAATTATTAATTGA
TAGTACCACTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:50781641 original size:29 final size:29
Alignment explanation
Indices: 50781599--50781654 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
50781589 CAAATCTACC
50781599 ATTACGTTAAGGTTAGGGTTTTTAATTGA
1 ATTACGTTAAGGTTAGGGTTTTTAATTGA
* *
50781628 ATTAGGTTAGGGTTAGGGTTTTTAATT
1 ATTACGTTAAGGTTAGGGTTTTTAATT
50781655 AAGGGTTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.25, C:0.02, G:0.27, T:0.46
Consensus pattern (29 bp):
ATTACGTTAAGGTTAGGGTTTTTAATTGA
Found at i:50781749 original size:45 final size:45
Alignment explanation
Indices: 50781688--50781949 Score: 332
Period size: 45 Copynumber: 5.6 Consensus size: 45
50781678 ATTAGGTTAG
50781688 GGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGGGTTT-A
1 GGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGGGTTTAA
50781732 GAGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAA-TTAAGGGTTTAA
1 G-GTTTTTAATT-AA--A--TTA-GGTTAGGGTTTTTAATTTAAGGGTTTAA
* *
50781783 GGCTTTTAATTAAATTAGGTTAGAGTTTTTAATTTAAGGGTTTAA
1 GGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGGGTTTAA
50781828 GGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAA-TTAAGGGTTTAA
1 GGTTTTTAATT-AA--A--TTA-GGTTAGGGTTTTTAATTTAAGGGTTTAA
* *
50781878 GGCTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGGGTTTAG
1 GGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGGGTTTAA
* *
50781923 GGTTTTTGATTGAATTAGGTTAGGGTT
1 GGTTTTTAATTAAATTAGGTTAGGGTT
50781950 AGGGTTAGGG
Statistics
Matches: 193, Mismatches: 9, Indels: 31
0.83 0.04 0.13
Matches are distributed among these distances:
44 30 0.16
45 73 0.38
46 4 0.02
47 2 0.01
48 2 0.01
49 4 0.02
50 47 0.24
51 31 0.16
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.47
Consensus pattern (45 bp):
GGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGGGTTTAA
Found at i:50781803 original size:95 final size:96
Alignment explanation
Indices: 50781684--50782243 Score: 673
Period size: 95 Copynumber: 5.8 Consensus size: 96
50781674 TTAAATTAGG
*
50781684 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGGGTTTAGAGTTTTTAATTGAATT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTGAATT
50781749 AGGTTAGGGTTAGGGTTTTTAA-TTAAGGGT
66 AGGTTAGGGTTAGGGTTTTTAATTTAAGGGT
* * * *
50781779 TTAAGGCTTTTAATTAAATTAGGTTAGAGTTTTTAATTTAAGGGTTTAAGGTTTTTAATTGAATT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTGAATT
50781844 AGGTTAGGGTTAGGGTTTTTAA-TTAAGGGT
66 AGGTTAGGGTTAGGGTTTTTAATTTAAGGGT
* * *
50781874 TTAAGGCTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTGATTGAATT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTG-A--
50781939 AGGTTAGGGTTAGGGTTAGGGTTTTTAATTTAAGGGT
63 A--TTA-GGTTAGGGTTAGGGTTTTTAATTTAAGGGT
* * *
50781976 TTAGGGTTTTTGATTGAATTAGGTTAGGGTTAGGGCTTTTAA-TTAAGGGTTTAGGGCTTTTAAT
1 TTAGGGTTTTTAATT-AA--A--TTA-GGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAAT
50782040 T-AA--A--TTA-GGTTAGGGTTTTTAATTTAAGGGT
60 TGAATTAGGTTAGGGTTAGGGTTTTTAATTTAAGGGT
* * * *
50782071 TTAGGGTTTTTGATTGAATTAGGTTAGGGATAGGGTTTTTAATTTTTAGGGTTTAGGGCTTTTAA
1 TTAGGGTTTTTAATT-AA--A--TTA-GGTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTTTTTAA
50782136 TT-AA--A--TTA-GGTTAGGGTTTTTAATTTAAGGGT
59 TTGAATTAGGTTAGGGTTAGGGTTTTTAATTTAAGGGT
* * *
50782168 TTAGGGTTTTTAATTAAATTAGGTTAGAGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTGAATT
*
50782233 AGGCTAGGGTT
66 AGGTTAGGGTT
50782244 TTTATTACAT
Statistics
Matches: 420, Mismatches: 24, Indels: 41
0.87 0.05 0.08
Matches are distributed among these distances:
90 21 0.05
91 15 0.04
92 3 0.01
93 1 0.00
94 1 0.00
95 214 0.51
96 10 0.02
97 66 0.16
98 1 0.00
99 1 0.00
100 3 0.01
101 21 0.05
102 20 0.05
103 3 0.01
105 2 0.00
107 24 0.06
108 14 0.03
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.46
Consensus pattern (96 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTGAATT
AGGTTAGGGTTAGGGTTTTTAATTTAAGGGT
Found at i:50781958 original size:57 final size:57
Alignment explanation
Indices: 50781895--50782056 Score: 239
Period size: 57 Copynumber: 3.0 Consensus size: 57
50781885 AATTAAATTA
50781895 GGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTGATTGAATTAGGTTAGGGTTAG
1 GGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTGATTGAATTAGGTTAGGGTTAG
50781952 GGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTGATTG-A--A--TTA-GGTTAG
1 GGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTGATTGAATTAGGTTAGGGTTAG
* * * *
50782003 GGTTAGGGCTTTTAA-TTAAGGGTTTAGGGCTTTTAATTAAATTAGGTTAGGGTT
1 GGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTGATTGAATTAGGTTAGGGTT
50782057 TTTAATTTAA
Statistics
Matches: 95, Mismatches: 4, Indels: 13
0.85 0.04 0.12
Matches are distributed among these distances:
50 21 0.22
51 21 0.22
52 3 0.03
53 1 0.01
54 1 0.01
55 3 0.03
56 5 0.05
57 40 0.42
ACGTcount: A:0.22, C:0.01, G:0.31, T:0.45
Consensus pattern (57 bp):
GGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTGATTGAATTAGGTTAGGGTTAG
Found at i:50782003 original size:45 final size:45
Alignment explanation
Indices: 50781952--50782247 Score: 378
Period size: 45 Copynumber: 6.3 Consensus size: 45
50781942 TTAGGGTTAG
*
50781952 GGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTGATTGAATTAGGTTA
1 GGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATT-AA--A--TTA
* *
50782002 GGGTTAGGGCTTTTAA-TTAAGGGTTTAGGGCTTTTAATTAAATTA
1 -GGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTAAATTA
*
50782047 GGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTGATTGAATTAGGTTA
1 GGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATT-AA--A--TTA
* * *
50782097 GGGATAGGGTTTTTAATTTTTAGGGTTTAGGGCTTTTAATTAAATTA
1 -GGTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTTTTTAATTAAATTA
50782144 GGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTAAATTA
* *
50782189 GGTTAGAGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTAAATTA
*
50782234 GGCTAGGGTTTTTA
1 GGTTAGGGTTTTTA
50782248 TTACATGTCA
Statistics
Matches: 220, Mismatches: 17, Indels: 22
0.85 0.07 0.08
Matches are distributed among these distances:
44 14 0.06
45 107 0.49
46 16 0.07
47 4 0.02
48 1 0.00
49 3 0.01
50 24 0.11
51 30 0.14
52 21 0.10
ACGTcount: A:0.25, C:0.01, G:0.27, T:0.47
Consensus pattern (45 bp):
GGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTAAATTA
Found at i:50782003 original size:152 final size:151
Alignment explanation
Indices: 50781797--50782243 Score: 673
Period size: 152 Copynumber: 3.0 Consensus size: 151
50781787 TTTAATTAAA
* *
50781797 TTAGGTTAGAGTTTTTAATTTAAGGGTTTAAGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTT
1 TTAGGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTT
*
50781862 TTAATTAAGGGTTTAAGGCTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGGGTTTAGGGTT
66 TTAATTAAGGGTTTAGGGCTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGGGTTTAGGGTT
50781927 TTTGATTGAATTAGGTTAGGG
131 TTTGATTGAATTAGGTTAGGG
* *
50781948 TTAGGGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTGATTGAATTAGGTTAGGGTTAGGGCT
1 TTA-GGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTT
50782013 TTTAATTAAGGGTTTAGGGCTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGGGTTTAGGGT
65 TTTAATTAAGGGTTTAGGGCTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGGGTTTAGGGT
50782078 TTTTGATTGAATTAGGTTAGGG
130 TTTTGATTGAATTAGGTTAGGG
* *
50782100 --A---TAGGGTTTTTAATTTTTAGGGTTTAGGGCTTTTAATT-AA--A--TTA-GGTTAGGGTT
1 TTAGGTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTT
* * *
50782154 TTTAATTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGAGTTTTTAAGTTAAGGGTTTAGGG
65 TTTAA-TTAAGGGTTTAGGGCTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGGGTTTAGGG
* * *
50782219 TTTTTAATTAAATTAGGCTAGGG
129 TTTTTGATTGAATTAGGTTAGGG
50782242 TT
1 TT
50782244 TTTATTACAT
Statistics
Matches: 276, Mismatches: 15, Indels: 17
0.90 0.05 0.06
Matches are distributed among these distances:
141 14 0.05
142 79 0.29
144 1 0.00
146 14 0.05
147 21 0.08
150 1 0.00
151 3 0.01
152 143 0.52
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (151 bp):
TTAGGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTT
TTAATTAAGGGTTTAGGGCTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGGGTTTAGGGTT
TTTGATTGAATTAGGTTAGGG
Found at i:50782250 original size:22 final size:23
Alignment explanation
Indices: 50781608--50782247 Score: 216
Period size: 23 Copynumber: 26.7 Consensus size: 23
50781598 CATTACGTTA
50781608 AGGTTAGGGTTTTTAATTGAATTAGGTT
1 AGGTTAGGGTTTTTAATT-AA--A--TT
50781636 AGGGTTAGGGTTTTTAATT-AA--
1 A-GGTTAGGGTTTTTAATTAAATT
* * *
50781657 GGGTTTAGTGCTTTTAATTAAATT
1 AGG-TTAGGGTTTTTAATTAAATT
50781681 AGGTTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
*
50781704 AGGTTAGGGTTTTTAATTTAA--
1 AGGTTAGGGTTTTTAATTAAATT
* *
50781725 GGGTTTAGAGTTTTTAATTGAATTAGGTT
1 AGG-TTAGGGTTTTTAATT-AA--A--TT
50781754 AGGGTTAGGGTTTTTAATT-AA--
1 A-GGTTAGGGTTTTTAATTAAATT
* * *
50781775 GGGTTTAAGGCTTTTAATTAAATT
1 AGG-TTAGGGTTTTTAATTAAATT
* *
50781799 AGGTTAGAGTTTTTAATTTAA--
1 AGGTTAGGGTTTTTAATTAAATT
* *
50781820 GGGTTTAAGGTTTTTAATTGAATTAGGTT
1 AGG-TTAGGGTTTTTAATT-AA--A--TT
50781849 AGGGTTAGGGTTTTTAATT-AA--
1 A-GGTTAGGGTTTTTAATTAAATT
* * *
50781870 GGGTTTAAGGCTTTTAATTAAATT
1 AGG-TTAGGGTTTTTAATTAAATT
*
50781894 AGGTTAGGGTTTTTAATTTAA--
1 AGGTTAGGGTTTTTAATTAAATT
* * *
50781915 GGGTTTAGGGTTTTTGATTGAATT
1 AGG-TTAGGGTTTTTAATTAAATT
* * *
50781939 AGGTTAGGGTTAGGGTTAGGGTT--TTT
1 AGGTTAGGGTT---TTTA--ATTAAATT
** * *
50781965 AATTTAAGGGTTTAGGGTTTTTGATTGAATT
1 AGGTT-A-------GGGTTTTTAATTAAATT
***** *
50781996 AGGTTAGGGTTAGGGCTTTTAATT
1 AGGTTAGGGTT-TTTAATTAAATT
*
50782020 AAGGGTTTAGGGCTTTTAATTAAATT
1 -A-GG-TTAGGGTTTTTAATTAAATT
*
50782046 AGGTTAGGGTTTTTAATTTAA--
1 AGGTTAGGGTTTTTAATTAAATT
* *
50782067 GGGTTTAGGGTTTTTGATTGAATTAGGTT
1 AGG-TTAGGGTTTTTAATT-AA--A--TT
* *
50782096 AGGGATAGGGTTTTTAATT--TTT
1 A-GGTTAGGGTTTTTAATTAAATT
*
50782118 AGGGTTTAGGGCTTTTAATTAAATT
1 A-GG-TTAGGGTTTTTAATTAAATT
*
50782143 AGGTTAGGGTTTTTAATTTAA--
1 AGGTTAGGGTTTTTAATTAAATT
*
50782164 GGGTTTAGGGTTTTTAATTAAATT
1 AGG-TTAGGGTTTTTAATTAAATT
*
50782188 AGGTTAGAGTTTTTAAGTT-AA--
1 AGGTTAGGGTTTTTAA-TTAAATT
*
50782209 GGGTTTAGGGTTTTTAATTAAATT
1 AGG-TTAGGGTTTTTAATTAAATT
*
50782233 AGGCTAGGGTTTTTA
1 AGGTTAGGGTTTTTA
50782248 TTACATGTCA
Statistics
Matches: 455, Mismatches: 84, Indels: 151
0.66 0.12 0.22
Matches are distributed among these distances:
20 6 0.01
21 53 0.12
22 100 0.22
23 153 0.34
24 24 0.05
25 11 0.02
26 15 0.03
27 11 0.02
28 3 0.01
29 60 0.13
30 7 0.02
31 7 0.02
34 5 0.01
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.46
Consensus pattern (23 bp):
AGGTTAGGGTTTTTAATTAAATT
Found at i:50782784 original size:18 final size:18
Alignment explanation
Indices: 50782761--50782795 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
50782751 CGAAAAAGGA
50782761 TACATATAAAGGTTAGGG
1 TACATATAAAGGTTAGGG
*
50782779 TACATATAAGGGTTAGG
1 TACATATAAAGGTTAGG
50782796 AAACGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.06, G:0.29, T:0.29
Consensus pattern (18 bp):
TACATATAAAGGTTAGGG
Found at i:50783458 original size:7 final size:7
Alignment explanation
Indices: 50783448--50783479 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
50783438 ATACATACAT
50783448 AATACTA
1 AATACTA
50783455 AATACTA
1 AATACTA
50783462 AATACTA
1 AATACTA
50783469 AATACTA
1 AATACTA
50783476 AATA
1 AATA
50783480 TCAATCGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:50784684 original size:40 final size:40
Alignment explanation
Indices: 50784637--50784724 Score: 158
Period size: 40 Copynumber: 2.2 Consensus size: 40
50784627 AAATTGAGAA
* *
50784637 GAAATTGAAATTAAATATGGATTTGAGAGAATTTTTGAAG
1 GAAATTGAAATTAAATATAGATTTGAGAGAATTTTGGAAG
50784677 GAAATTGAAATTAAATATAGATTTGAGAGAATTTTGGAAG
1 GAAATTGAAATTAAATATAGATTTGAGAGAATTTTGGAAG
50784717 GAAATTGA
1 GAAATTGA
50784725 GAGAATTTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (40 bp):
GAAATTGAAATTAAATATAGATTTGAGAGAATTTTGGAAG
Found at i:50784724 original size:22 final size:22
Alignment explanation
Indices: 50784699--50784746 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
50784689 AAATATAGAT
50784699 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
50784721 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
50784743 TTGA
1 TTGA
50784747 AAGGAATTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:50785180 original size:11 final size:9
Alignment explanation
Indices: 50785146--50785563 Score: 74
Period size: 9 Copynumber: 44.4 Consensus size: 9
50785136 TTTTATAAAC
50785146 TATAATTTT
1 TATAATTTT
50785155 T-TATATTTAT
1 TATA-ATTT-T
*
50785165 TA-ATTTTT
1 TATAATTTT
50785173 TATGAATTTT
1 TAT-AATTTT
50785183 TATAAGTTTT
1 TATAA-TTTT
* *
50785193 TATAAAATAT
1 TAT-AATTTT
*
50785203 TA-AATGTTC
1 TATAAT-TTT
50785212 TA-AATTTTT
1 TATAA-TTTT
*
50785221 TTTAATTTT
1 TATAATTTT
*
50785230 TATAATAATT
1 TATAAT-TTT
50785240 TATTATATTTT
1 TA-TA-ATTTT
*
50785251 TATAATATT
1 TATAATTTT
*
50785260 CATAAGTTTTTAT
1 TATAA---TTT-T
50785273 TATAATTTT
1 TATAATTTT
**
50785282 TATAAGTTAA
1 TATAA-TTTT
50785292 TATCAATTTT
1 TAT-AATTTT
* *
50785302 AATACTTTT
1 TATAATTTT
50785311 TAGT-A-TTT
1 TA-TAATTTT
* *
50785319 AATAATATT
1 TATAATTTT
*
50785328 TATGATTTT
1 TATAATTTT
50785337 AATATATATTTT
1 --TATA-ATTTT
50785349 TAT-ATTTT
1 TATAATTTT
*
50785357 TATGATTTT
1 TATAATTTT
* *
50785366 TACACGTTTT
1 TATA-ATTTT
*
50785376 TATATAATTT
1 TATA-ATTTT
*
50785386 TA-AATATT
1 TATAATTTT
*
50785394 TAAATATGTTT
1 TATA-AT-TTT
50785405 TATTAA-TTT
1 TA-TAATTTT
***
50785414 TATAA-AAA
1 TATAATTTT
*
50785422 TAGAATTTAT
1 TATAATTT-T
*
50785432 TAGAATTTAT
1 TATAATTT-T
*
50785442 TA-AAATTT
1 TATAATTTT
50785450 TA-AATGTTT
1 TATAAT-TTT
*
50785459 TA-AATATT
1 TATAATTTT
50785467 TATAAGTTTT
1 TATAA-TTTT
* *
50785477 TATTATTTG
1 TATAATTTT
*
50785486 TATAAGTTTA
1 TATAA-TTTT
50785496 TATCAATTTT
1 TAT-AATTTT
*
50785506 AAT-ATTTT
1 TATAATTTT
* * *
50785514 AAAAATATT
1 TATAATTTT
50785523 T-TAATTTT
1 TATAATTTT
* *
50785531 AATATTTTT
1 TATAATTTT
* *
50785540 TTTATTTTT
1 TATAATTTT
*
50785549 CTCTAAATTTT
1 -TAT-AATTTT
50785560 TATA
1 TATA
50785564 TCATTATTGT
Statistics
Matches: 297, Mismatches: 70, Indels: 84
0.66 0.16 0.19
Matches are distributed among these distances:
7 1 0.00
8 53 0.18
9 108 0.36
10 95 0.32
11 25 0.08
12 10 0.03
13 5 0.02
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (9 bp):
TATAATTTT
Found at i:50785251 original size:30 final size:30
Alignment explanation
Indices: 50785217--50785282 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
50785207 TGTTCTAAAT
* *
50785217 TTTTTTTAATTTTTATAA-TAATTTATTATA
1 TTTTTTTAATATTCATAAGT-ATTTATTATA
* *
50785247 TTTTTATAATATTCATAAGTTTTTATTATA
1 TTTTTTTAATATTCATAAGTATTTATTATA
*
50785277 ATTTTT
1 TTTTTT
50785283 ATAAGTTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (30 bp):
TTTTTTTAATATTCATAAGTATTTATTATA
Found at i:50785631 original size:16 final size:17
Alignment explanation
Indices: 50785610--50785642 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
50785600 TCAGAAATAA
50785610 ATAAAT-AAACAAAAAT
1 ATAAATAAAACAAAAAT
50785626 ATAAATGAAAACAAAAA
1 ATAAAT-AAAACAAAAA
50785643 ATTTTAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (17 bp):
ATAAATAAAACAAAAAT
Found at i:50790104 original size:15 final size:15
Alignment explanation
Indices: 50790084--50790113 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
50790074 ATGAGGCATC
50790084 TTGAAAAGCAAAGGG
1 TTGAAAAGCAAAGGG
50790099 TTGAAAAGCAAAGGG
1 TTGAAAAGCAAAGGG
50790114 GTGGTAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.33, T:0.13
Consensus pattern (15 bp):
TTGAAAAGCAAAGGG
Found at i:50790974 original size:22 final size:22
Alignment explanation
Indices: 50790944--50790987 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
50790934 ATACAATAAA
*
50790944 TAATAAATATATA-ATTTAAAAT
1 TAATAAATA-ATACATATAAAAT
*
50790966 TAATTAATAATACATATAAAAT
1 TAATAAATAATACATATAAAAT
50790988 ATATACATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
TAATAAATAATACATATAAAAT
Found at i:50792367 original size:7 final size:7
Alignment explanation
Indices: 50792355--50792393 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
50792345 ATGCGGAATG
50792355 ATTTTAA
1 ATTTTAA
50792362 ATTTTAA
1 ATTTTAA
50792369 ATTTTAA
1 ATTTTAA
50792376 ATTTTAA
1 ATTTTAA
50792383 ATTTTAA
1 ATTTTAA
50792390 ATTT
1 ATTT
50792394 AATAAATATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
ATTTTAA
Found at i:50793785 original size:3 final size:3
Alignment explanation
Indices: 50793777--50793817 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
50793767 TCATTAAATA
50793777 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
50793818 AACACCAACC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:50796005 original size:43 final size:43
Alignment explanation
Indices: 50795905--50796041 Score: 143
Period size: 43 Copynumber: 3.2 Consensus size: 43
50795895 GCGTTTACAG
* *
50795905 AAAAAAACGCCGCTAAAGGTTATGTTCTTTAGCGGCGC-TTAA
1 AAAAAAACGCCGCTAAAGATAATGTTCTTTAGCGGCGCTTTAA
* *
50795947 AAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTCA
1 AAAAAA-ACGCCGCTAAAGATAATGTTCTTTAGCGGCGCTTTAA
** * * * *
50795991 TCACAAACGTCGCTAAA-AGTAATGTTCTTTAGCGGCACTTTTA
1 AAAAAAACGCCGCTAAAGA-TAATGTTCTTTAGCGGCGCTTTAA
*
50796034 TAAAAAAC
1 AAAAAAAC
50796042 ACCACTAATT
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
42 7 0.09
43 67 0.84
44 6 0.08
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (43 bp):
AAAAAAACGCCGCTAAAGATAATGTTCTTTAGCGGCGCTTTAA
Found at i:50796712 original size:9 final size:9
Alignment explanation
Indices: 50796683--50796727 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
50796673 AAGTTATATA
*
50796683 TATAAATAT
1 TATAATTAT
50796692 TAT-ATGTA-
1 TATAAT-TAT
50796700 TATAATTAT
1 TATAATTAT
50796709 TATAATTAT
1 TATAATTAT
50796718 TATAATTAT
1 TATAATTAT
50796727 T
1 T
50796728 TATTTAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
TATAATTAT
Found at i:50797090 original size:15 final size:17
Alignment explanation
Indices: 50797072--50797103 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
50797062 CAAAATAGAA
50797072 AGAA-CAAA-GAAACAG
1 AGAAGCAAACGAAACAG
50797087 AGAAGCAAACGAAACAG
1 AGAAGCAAACGAAACAG
50797104 GGGAAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.62, C:0.16, G:0.22, T:0.00
Consensus pattern (17 bp):
AGAAGCAAACGAAACAG
Done.