Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 708 of 770
Found at i:223573012 original size:29 final size:29
Alignment explanation
Indices: 223572979--223573109 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
223572969 GTGACGAGAT
223572979 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
223573008 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
223573037 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
223573066 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
223573095 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
223573110 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:223578603 original size:24 final size:25
Alignment explanation
Indices: 223578575--223578638 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
223578565 TCACCCGAAT
* * *
223578575 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCCATACTAAAC
223578599 TCGCACACATAGTGCCATACTAAAC
1 TCGCACACATAGTGCCATACTAAAC
223578624 -CGCACACATAGTGCC
1 TCGCACACATAGTGCC
223578639 TAAAATTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (25 bp):
TCGCACACATAGTGCCATACTAAAC
Found at i:223591404 original size:56 final size:54
Alignment explanation
Indices: 223591310--223591422 Score: 131
Period size: 56 Copynumber: 2.1 Consensus size: 54
223591300 TATGAAAAAA
223591310 AAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGG
1 AAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGG
* *** *
223591364 AAAGAAAAGAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAGGG
1 AAAGAAAA-AAAAA-ATGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
223591420 AAA
1 AAA
223591423 AGGGGGAGGA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
54 8 0.16
55 7 0.14
56 32 0.64
57 3 0.06
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (54 bp):
AAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGG
Found at i:223592693 original size:40 final size:40
Alignment explanation
Indices: 223592611--223592777 Score: 146
Period size: 40 Copynumber: 4.2 Consensus size: 40
223592601 AAATTGAATG
* * ** *
223592611 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGACT
* *
223592650 ATATCCGGG-TCAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCT-AAGACCCGAAGGCAATTGTGCGAGTGACT
* * *
223592690 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* * *
223592730 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACT
223592770 ATATCCGG
1 ATATCCGG
223592778 TTATATTCCG
Statistics
Matches: 104, Mismatches: 17, Indels: 13
0.78 0.13 0.10
Matches are distributed among these distances:
38 1 0.01
39 16 0.15
40 84 0.81
41 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:223598844 original size:96 final size:97
Alignment explanation
Indices: 223598679--223598912 Score: 282
Period size: 96 Copynumber: 2.4 Consensus size: 97
223598669 GGTAAATTGC
* * * ** *
223598679 CGATGCTATGTCCCAGACATGGTCTTACATTGGCT-TACAT-GTCGAGGCTGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATACTCGAGGCCAATGCCATGGCCCA
* * *
223598742 GACATGGTCTTACACTAGCT-CGCATTTCAATG-
65 GACATGGTCTTACACTAG-TGCACATATCAACGT
*
223598774 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACT-GTGGCCAATGCCATGGCCCA
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACTCGAGGCCAATGCCATGGCCCA
223598838 GACATGGTCTTACACTAGTGCACATATCAACGT
65 GACATGGTCTTACACTAGTGCACATATCAACGT
* *
223598871 CGAAGCCATGTCCCA-AGCATGGTCTTACACTGGATCTCATAC
1 CGATGCCATGTCCCAGA-CATGGTCTTACACTGGCTCTCATAC
223598913 CATTGTCGAC
Statistics
Matches: 121, Mismatches: 12, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
95 3 0.02
96 115 0.95
97 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.27
Consensus pattern (97 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACTCGAGGCCAATGCCATGGCCCAG
ACATGGTCTTACACTAGTGCACATATCAACGT
Found at i:223598879 original size:48 final size:47
Alignment explanation
Indices: 223598686--223598962 Score: 218
Period size: 48 Copynumber: 5.8 Consensus size: 47
223598676 TGCCGATGCT
* * * * * * *
223598686 ATGTCCCAGACATGGTCTTACATTGGCTTACATGTCGAGGCTGATGCC
1 ATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGC-GAAGCC
* * *
223598734 ATGTCCCAGACATGGTCTTACACTAGCTCGCATTTCAATGCTGATGCC
1 ATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGC-GAAGCC
* * ** *
223598782 ATGTCCCAGACATGGTCTTACACTGGCTCTCATA-CTGTGGCCAATGCC
1 ATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAT-GCGAA-GCC
* *
223598830 ATGGCCCAGACATGGTCTTACACTAG-TGCACATATCAACGTCGAAGCC
1 ATGTCCCAGACATGGTCTTACACTAGCT-CACATATCAATG-CGAAGCC
* * * * * **
223598878 ATGTCCCA-AGCATGGTCTTACACTGGATCTCATACCATTGTCGACTCC
1 ATGTCCCAGA-CATGGTCTTACACTAGCTCACATATCAATG-CGAAGCC
* * *
223598926 ATGTTCCAGGCATGGTCTTACACTAGCACACATATCA
1 ATGTCCCAGACATGGTCTTACACTAGCTCACATATCA
223598963 CTCAAATGTC
Statistics
Matches: 185, Mismatches: 36, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
47 5 0.03
48 175 0.95
49 5 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (47 bp):
ATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGCGAAGCC
Found at i:223598928 original size:96 final size:95
Alignment explanation
Indices: 223598686--223598962 Score: 269
Period size: 96 Copynumber: 2.9 Consensus size: 95
223598676 TGCCGATGCT
* * * * **
223598686 ATGTCCCAGACATGGTCTTACATTGGCT-TACAT-GTCGAGGCTGATGCCATGTCCCAGACATGG
1 ATGTCCCAGACATGGTCTTACACTGGATCT-CATACT-GTGGCCAATGCCATGTCCCAGACATGG
* * * *
223598749 TCTTACACTAGCTCGCATTTCAATGCTGATGCC
64 TCTTACACTAG-TCACATATCAACGCTGAAGCC
* *
223598782 ATGTCCCAGACATGGTCTTACACTGGCTCTCATACTGTGGCCAATGCCATGGCCCAGACATGGTC
1 ATGTCCCAGACATGGTCTTACACTGGATCTCATACTGTGGCCAATGCCATGTCCCAGACATGGTC
223598847 TTACACTAGTGCACATATCAACG-TCGAAGCC
66 TTACACTAGT-CACATATCAACGCT-GAAGCC
* * * * *
223598878 ATGTCCCA-AGCATGGTCTTACACTGGATCTCATACCAT-TGTCGACT-CCATGTTCCAGGCATG
1 ATGTCCCAGA-CATGGTCTTACACTGGATCTCATA-C-TGTGGCCAATGCCATGTCCCAGACATG
*
223598940 GTCTTACACTAGCACACATATCA
63 GTCTTACACTAG-TCACATATCA
223598963 CTCAAATGTC
Statistics
Matches: 155, Mismatches: 18, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
95 3 0.02
96 143 0.92
97 8 0.05
98 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (95 bp):
ATGTCCCAGACATGGTCTTACACTGGATCTCATACTGTGGCCAATGCCATGTCCCAGACATGGTC
TTACACTAGTCACATATCAACGCTGAAGCC
Found at i:223599950 original size:40 final size:39
Alignment explanation
Indices: 223599883--223599960 Score: 93
Period size: 40 Copynumber: 2.0 Consensus size: 39
223599873 GACTTATCGA
**
223599883 CTAAAATGACACTTAGTGTGCGGTTTGAAATAGCTTCGG
1 CTAAAATGACACTTAGTGTGCAATTTGAAATAGCTTCGG
* * * *
223599922 CTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGTTTCG
1 CTAAAA-TGACACTTAGTGTGCAATTTGAAATAGCTTCG
223599961 TCTATATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
39 6 0.19
40 26 0.81
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (39 bp):
CTAAAATGACACTTAGTGTGCAATTTGAAATAGCTTCGG
Found at i:223600039 original size:28 final size:28
Alignment explanation
Indices: 223599981--223600039 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
223599971 TATAAATGGA
** * * **
223599981 ACTTAGTGTGCAAAGTATCGAGGATGGC
1 ACTTAGTGTGCAAAACATCCAGAATAAC
223600009 ACTTAGTGTGCAAAACATCCAGAATAAC
1 ACTTAGTGTGCAAAACATCCAGAATAAC
223600037 ACT
1 ACT
223600040 CAGCGTGCGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.24
Consensus pattern (28 bp):
ACTTAGTGTGCAAAACATCCAGAATAAC
Found at i:223602745 original size:50 final size:50
Alignment explanation
Indices: 223602681--223602816 Score: 184
Period size: 50 Copynumber: 2.7 Consensus size: 50
223602671 CAATACATGT
* * *
223602681 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGAAAGAGGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAAAGAAGA
* * * * *
223602731 GATCCAGTGTAAGACCATGTCTGGGATATGGCATCAGCCTCGATATAAGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAAGAAGA
223602781 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
223602817 ACTCGATATG
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 1 0.01
50 73 0.99
ACGTcount: A:0.29, C:0.20, G:0.32, T:0.20
Consensus pattern (50 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAAGAAGA
Found at i:223602856 original size:47 final size:49
Alignment explanation
Indices: 223602686--223602856 Score: 174
Period size: 50 Copynumber: 3.5 Consensus size: 49
223602676 CATGTGAGCT
* *
223602686 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGA-A-AGAGGAGATCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG-ACTCGATATAGA-GAGA--C
* * *
223602736 AGTGTAAGACCATGTCTGGGATATGGCATCAGCCTCGATATAAGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGACTCGATAT-AGAGAGAC
* *
223602786 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGATAT-GTGATTAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGACTCGATATAGAGA-GAC
*
223602834 A-TGTAAGACCATGTTTGGGACAT
1 AGTGTAAGACCATGTCTGGGACAT
223602857 TAGCATTGTA
Statistics
Matches: 105, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
47 24 0.23
48 2 0.02
49 10 0.10
50 62 0.59
51 1 0.01
52 3 0.03
53 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGACTCGATATAGAGAGAC
Found at i:223602915 original size:43 final size:43
Alignment explanation
Indices: 223602788--223602931 Score: 139
Period size: 43 Copynumber: 3.3 Consensus size: 43
223602778 AGAGAGCCAG
* *
223602788 TGTAAGACCATGTCTGGGACATGGCATCGACTCGATATGTGATTACA
1 TGTAAGACCATGTGTGGGACAT-G-AGC-A-TCGATATGTGATTACA
* * * * *
223602835 TGTAAGACCATGTTTGGGACATTAGCATTG-TATTGTGATTTCG
1 TGTAAGACCATGTGTGGGACATGAGCATCGATA-TGTGATTACA
* *
223602878 TGTAAGACCCTGTGTGGGACAGTGA-CATCGATATGTGATAACA
1 TGTAAGACCATGTGTGGGACA-TGAGCATCGATATGTGATTACA
223602921 TGTAAGACCAT
1 TGTAAGACCAT
223602932 ATCTAGGATA
Statistics
Matches: 80, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
42 2 0.03
43 50 0.62
44 5 0.06
45 2 0.03
47 21 0.26
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTGTGGGACATGAGCATCGATATGTGATTACA
Found at i:223607631 original size:29 final size:29
Alignment explanation
Indices: 223607599--223607732 Score: 148
Period size: 29 Copynumber: 4.7 Consensus size: 29
223607589 ATACCCTTCG
** * *
223607599 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
223607628 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
223607657 AGCAT-GCACACTTAGTGCC-T-TATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
223607684 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
223607713 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
223607733 ATCTCGTCAC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
27 23 0.25
28 2 0.02
29 66 0.72
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:223607693 original size:56 final size:56
Alignment explanation
Indices: 223607623--223607731 Score: 164
Period size: 56 Copynumber: 1.9 Consensus size: 56
223607613 GTGCCGTATT
** * * *
223607623 TTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCATGCACACTTAGTGCCTTA
1 TTTCCAGCACGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCTTA
*
223607679 TTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCACGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
223607732 AATCTCGTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (56 bp):
TTTCCAGCACGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCTTA
Found at i:223608565 original size:143 final size:141
Alignment explanation
Indices: 223608375--223608669 Score: 563
Period size: 143 Copynumber: 2.1 Consensus size: 141
223608365 AAATTCTATA
223608375 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
1 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
223608440 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
66 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
*
223608505 GAAGACAACAT
131 GAAAACAACAT
223608516 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATG--CACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
223608581 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
64 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
223608646 AGGAAAACAACAT
129 AGGAAAACAACAT
223608659 GCATGGCCGAA
1 GCATGGCCGAA
223608670 ATTTAACTCA
Statistics
Matches: 151, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
141 19 0.13
143 132 0.87
ACGTcount: A:0.39, C:0.29, G:0.11, T:0.21
Consensus pattern (141 bp):
GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
GAAAACAACAT
Found at i:223616213 original size:43 final size:43
Alignment explanation
Indices: 223616105--223616213 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 43
223616095 TAAGATTATG
* *
223616105 TGTAAGACCATATCTGGGATAT-GGAACCGATATGACACTTCG
1 TGTAAGACCATATCTGGGATATGGGAACCGATACGACACTTCA
* * * * * * * *
223616147 TGTAAGACTATAGCTAGGCTATGGGCATCGATACGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGGAACCGATACGACACTTCA
223616190 TGTAAGACCATATCTGGGATATGG
1 TGTAAGACCATATCTGGGATATGG
223616214 CATTGGTATG
Statistics
Matches: 52, Mismatches: 14, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
42 18 0.35
43 34 0.65
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGATATGGGAACCGATACGACACTTCA
Found at i:223619142 original size:31 final size:31
Alignment explanation
Indices: 223619099--223619162 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
223619089 CCTTTTCATA
223619099 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
223619130 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
223619161 TT
1 TT
223619163 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:223619429 original size:23 final size:24
Alignment explanation
Indices: 223619354--223619472 Score: 181
Period size: 24 Copynumber: 5.0 Consensus size: 24
223619344 GCTTTATCAT
*
223619354 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
223619379 ATAACTGGGGCA-AAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
223619403 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
223619426 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
223619450 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
223619473 GCACTTCCTC
Statistics
Matches: 89, Mismatches: 1, Indels: 9
0.90 0.01 0.09
Matches are distributed among these distances:
23 24 0.27
24 51 0.57
25 14 0.16
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:223619429 original size:47 final size:47
Alignment explanation
Indices: 223619375--223619471 Score: 178
Period size: 47 Copynumber: 2.1 Consensus size: 47
223619365 CCTAGCCTCT
223619375 TTTAATAACTGGGGCA-AAGCCCTTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC-TTTTAATAACTGGGGCATAAGCCC
223619422 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
223619469 TTT
1 TTT
223619472 TGCACTTCCT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 43 0.88
48 6 0.12
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:223619544 original size:9 final size:9
Alignment explanation
Indices: 223619530--223619586 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
223619520 ATCTCATGTG
223619530 CATATCATA
1 CATATCATA
*
223619539 CATATCATGTG
1 CATATCA--TA
223619550 CATATCATA
1 CATATCATA
* *
223619559 CATGTCATGTG
1 CATATCA--TA
223619570 CATATCATA
1 CATATCATA
223619579 CATATCAT
1 CATATCAT
223619587 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:223619546 original size:20 final size:20
Alignment explanation
Indices: 223619518--223619588 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
223619508 GCATTTATGA
*
223619518 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
223619538 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
223619558 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
223619578 ACATATCATGT
1 ACATATCATGT
223619589 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:223619553 original size:11 final size:11
Alignment explanation
Indices: 223619523--223619577 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
223619513 TATGAACATC
223619523 TCATGTGCATA
1 TCATGTGCATA
*
223619534 TCA--TACATA
1 TCATGTGCATA
223619543 TCATGTGCATA
1 TCATGTGCATA
* *
223619554 TCA--TACATG
1 TCATGTGCATA
223619563 TCATGTGCATA
1 TCATGTGCATA
223619574 TCAT
1 TCAT
223619578 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:223619653 original size:25 final size:25
Alignment explanation
Indices: 223619625--223619672 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
223619615 ATATATAAAC
* * *
223619625 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
223619650 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
223619673 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:223627213 original size:31 final size:31
Alignment explanation
Indices: 223627170--223627233 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
223627160 CCTTTTCATA
223627170 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
223627201 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
223627232 TT
1 TT
223627234 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:223627498 original size:23 final size:24
Alignment explanation
Indices: 223627423--223627541 Score: 181
Period size: 24 Copynumber: 5.0 Consensus size: 24
223627413 GCTTTATCAT
*
223627423 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
223627448 ATAACTGGGGCA-AAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
223627472 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
223627495 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
223627519 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
223627542 GCACTTCCTC
Statistics
Matches: 89, Mismatches: 1, Indels: 9
0.90 0.01 0.09
Matches are distributed among these distances:
23 24 0.27
24 51 0.57
25 14 0.16
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:223627498 original size:47 final size:47
Alignment explanation
Indices: 223627444--223627540 Score: 178
Period size: 47 Copynumber: 2.1 Consensus size: 47
223627434 CCTAGCCTCT
223627444 TTTAATAACTGGGGCA-AAGCCCTTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC-TTTTAATAACTGGGGCATAAGCCC
223627491 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
223627538 TTT
1 TTT
223627541 TGCACTTCCT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 43 0.88
48 6 0.12
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:223627613 original size:9 final size:9
Alignment explanation
Indices: 223627599--223627655 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
223627589 ATCTCGTGTG
223627599 CATATCATA
1 CATATCATA
*
223627608 CATATCATGTG
1 CATATCA--TA
223627619 CATATCATA
1 CATATCATA
* *
223627628 CATGTCATGTG
1 CATATCA--TA
223627639 CATATCATA
1 CATATCATA
223627648 CATATCAT
1 CATATCAT
223627656 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:223627618 original size:20 final size:20
Alignment explanation
Indices: 223627595--223627657 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
223627585 GAACATCTCG
223627595 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
223627615 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
223627635 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
223627655 TGT
1 TGT
223627658 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:223627722 original size:25 final size:25
Alignment explanation
Indices: 223627694--223627741 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
223627684 ATATATAAAC
* * *
223627694 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
223627719 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
223627742 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:223632712 original size:29 final size:29
Alignment explanation
Indices: 223632680--223632815 Score: 157
Period size: 29 Copynumber: 4.7 Consensus size: 29
223632670 ATACCCTTCG
** * *
223632680 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
223632709 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
223632738 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
223632767 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
223632796 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
223632816 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 93 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:223632807 original size:58 final size:58
Alignment explanation
Indices: 223632655--223632814 Score: 176
Period size: 58 Copynumber: 2.8 Consensus size: 58
223632645 AATTTAAGCC
* *** * * ** * *
223632655 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* * * * *
223632713 TGCACACATAGTGTCATATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
223632771 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
223632815 AATCTCGTCA
Statistics
Matches: 83, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 83 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:223640514 original size:29 final size:29
Alignment explanation
Indices: 223640482--223640617 Score: 157
Period size: 29 Copynumber: 4.7 Consensus size: 29
223640472 ATACCCTTCG
** * *
223640482 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
223640511 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
223640540 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
223640569 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
223640598 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
223640618 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 93 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:223640609 original size:58 final size:58
Alignment explanation
Indices: 223640457--223640616 Score: 176
Period size: 58 Copynumber: 2.8 Consensus size: 58
223640447 AATTTAAGCC
* *** * * ** * *
223640457 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* * * * *
223640515 TGCACACATAGTGTCATATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
223640573 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
223640617 AATCTCGTCA
Statistics
Matches: 83, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 83 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:223643807 original size:29 final size:27
Alignment explanation
Indices: 223643773--223643875 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
223643763 TACTCGATCA
*
223643773 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* ** *
223643802 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
*
223643831 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
223643860 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
223643876 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:223650541 original size:80 final size:80
Alignment explanation
Indices: 223650457--223650605 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
223650447 TATGGTAACC
* * * *
223650457 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
223650521 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
223650537 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
223650602 CCGG
66 CCGG
223650606 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:223650547 original size:40 final size:38
Alignment explanation
Indices: 223650498--223650605 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
223650488 ATCACGATTT
*
223650498 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
223650538 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
223650578 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
223650606 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:223655414 original size:40 final size:40
Alignment explanation
Indices: 223655348--223655514 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
223655338 AAATTGAATG
* * *
223655348 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
223655387 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
223655427 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
223655467 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
223655507 ATATCCGG
1 ATATCCGG
223655515 TTATATTCCG
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
39 16 0.15
40 89 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:223662462 original size:17 final size:18
Alignment explanation
Indices: 223662420--223662468 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
223662410 AGTTGAAAAG
223662420 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
223662439 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
223662456 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
223662469 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:223663355 original size:40 final size:40
Alignment explanation
Indices: 223663289--223663455 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
223663279 AAATTGAATG
* * *
223663289 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
223663328 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
223663368 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
223663408 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
223663448 ATATCCGG
1 ATATCCGG
223663456 TTATATTCCG
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
39 16 0.15
40 89 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:223665597 original size:25 final size:25
Alignment explanation
Indices: 223665568--223665615 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
223665558 TTATAATATG
* * *
223665568 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
223665593 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
223665616 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:223665682 original size:20 final size:20
Alignment explanation
Indices: 223665659--223665717 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
223665649 TAAACATGGT
223665659 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
* *
223665679 ATGTATGATATGCACATTAT
1 ATGTATGATATGCACATGAC
223665699 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
223665718 TGTATTCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.34
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:223665800 original size:23 final size:23
Alignment explanation
Indices: 223665770--223665907 Score: 197
Period size: 23 Copynumber: 6.0 Consensus size: 23
223665760 AGGAAGTGAA
223665770 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
223665793 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
223665816 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
* *
223665840 AAAGGGCTTACG-CCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
223665863 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
223665886 GAAGGGCTTATGCCCCAGTTAT
1 AAAGGGCTTATGCCCCAGTTAT
223665908 ATGATAAAGC
Statistics
Matches: 106, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
23 86 0.81
24 20 0.19
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:223665867 original size:47 final size:45
Alignment explanation
Indices: 223665769--223665908 Score: 199
Period size: 47 Copynumber: 3.0 Consensus size: 45
223665759 GAGGAAGTGA
223665769 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCTAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCC-AGTTAT
* * *
223665815 TAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCAGTTAT
* *
223665861 CAAAAGGGCTTACGCCCCAGTTATTGAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATG-CCCAGTTAT
223665908 A
1 A
223665909 TGATAAAGCA
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
46 39 0.47
47 44 0.53
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (45 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCAGTTAT
Found at i:223665883 original size:70 final size:70
Alignment explanation
Indices: 223665769--223665907 Score: 217
Period size: 70 Copynumber: 2.0 Consensus size: 70
223665759 GAGGAAGTGA
* * * *
223665769 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAG
1 AAAAGGGCTTACGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAG
223665834 TTATC
66 TTATC
*
223665839 AAAAGGGCTTACG-CCCAGTTATCAAAAGGGCTTACGCCCCAGTTATTGAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTAT-AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCA
223665903 GTTAT
65 GTTAT
223665908 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
69 9 0.14
70 54 0.86
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (70 bp):
AAAAGGGCTTACGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAG
TTATC
Found at i:223667489 original size:40 final size:40
Alignment explanation
Indices: 223667277--223667482 Score: 333
Period size: 40 Copynumber: 5.2 Consensus size: 40
223667267 AACCCAAGTA
* *
223667277 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
223667316 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
223667356 CCTTTGGGACTTAGTCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
223667396 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
223667436 CCTTCGGAACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
223667476 CCTTCGG
1 CCTTCGG
223667483 ATCTTAGTCC
Statistics
Matches: 156, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.08
40 143 0.92
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:223669806 original size:29 final size:29
Alignment explanation
Indices: 223669773--223669875 Score: 161
Period size: 29 Copynumber: 3.6 Consensus size: 29
223669763 CCTTCAAGCT
* * *
223669773 CGCACACCTAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
223669802 TGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
223669831 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
223669860 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
223669876 ATCTCGTCAC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 68 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:223669807 original size:58 final size:58
Alignment explanation
Indices: 223669744--223669875 Score: 156
Period size: 58 Copynumber: 2.3 Consensus size: 58
223669734 AATTTAAGCC
** * * * *
223669744 CGCACACACAGTGCCATACCCTTCAAGCTCGCACACCTAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCAAGCACGCACACCTAGTGCCATATATTTCCAGCA
* * * * * *
223669802 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCAAGCACGCACACCTAGTGCCATATATTTCCAGCA
223669860 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
223669876 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.25, C:0.34, G:0.15, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCAAGCACGCACACCTAGTGCCATATATTTCCAGCA
Found at i:223671404 original size:28 final size:28
Alignment explanation
Indices: 223671339--223671410 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
223671329 ATAGTGAATC
* *
223671339 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAGA-TATCAGCT
223671368 CGCACACTTAGTGCTATAGA-ATCAAGCT
1 CGCACACTTAGTGCTATAGATATC-AGCT
223671396 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
223671411 GTACAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.47
29 19 0.47
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGATATCAGCT
Found at i:223673875 original size:143 final size:143
Alignment explanation
Indices: 223673617--223673913 Score: 585
Period size: 143 Copynumber: 2.1 Consensus size: 143
223673607 AAATTCTATA
223673617 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
223673682 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
66 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
*
223673747 AGGAAGACAACAT
131 AGGAAAACAACAT
223673760 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
223673825 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
66 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
223673890 AGGAAAACAACAT
131 AGGAAAACAACAT
223673903 GCATGGCCGAA
1 GCATGGCCGAA
223673914 ATTTAACTCA
Statistics
Matches: 153, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 153 1.00
ACGTcount: A:0.39, C:0.29, G:0.10, T:0.21
Consensus pattern (143 bp):
GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
AGGAAAACAACAT
Found at i:223685386 original size:40 final size:40
Alignment explanation
Indices: 223685341--223685508 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
223685331 CGGAATATAA
223685341 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
223685381 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
223685421 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
223685461 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
223685501 CCGGATAT
1 CCGGATAT
223685509 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:223693384 original size:68 final size:70
Alignment explanation
Indices: 223693312--223693509 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
223693302 ACACCCTGTA
* * * *
223693312 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
223693374 ATAAAT
65 ATAAAT
*
223693380 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
223693445 ATAAAT
65 ATAAAT
*
223693451 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
223693510 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:223693423 original size:41 final size:41
Alignment explanation
Indices: 223693378--223693495 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
223693368 TGAAAGATAA
223693378 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
223693419 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
223693449 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
223693490 ATGTAG
1 ATGTAG
223693496 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:223693435 original size:71 final size:71
Alignment explanation
Indices: 223693346--223693509 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
223693336 GAGATGTATC
223693346 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
223693411 AGGACA
66 AGGACA
223693417 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
223693482 AGGACA
66 AGGACA
223693488 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
223693510 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:223700948 original size:68 final size:70
Alignment explanation
Indices: 223700876--223701073 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
223700866 ACACCCTGTA
* * * *
223700876 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
223700938 ATAAAT
65 ATAAAT
*
223700944 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
223701009 ATAAAT
65 ATAAAT
*
223701015 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
223701074 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:223700987 original size:41 final size:41
Alignment explanation
Indices: 223700942--223701059 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
223700932 TGAAAGATAA
223700942 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
223700983 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
223701013 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
223701054 ATGTAG
1 ATGTAG
223701060 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:223700999 original size:71 final size:71
Alignment explanation
Indices: 223700910--223701073 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
223700900 GAGATGTATC
223700910 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
223700975 AGGACA
66 AGGACA
223700981 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
223701046 AGGACA
66 AGGACA
223701052 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
223701074 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:223711660 original size:40 final size:40
Alignment explanation
Indices: 223711605--223711890 Score: 461
Period size: 40 Copynumber: 7.2 Consensus size: 40
223711595 TGAATGATAC
*
223711605 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
223711645 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
223711685 CCGGGCTAAG-CCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
223711724 -CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
223711763 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
223711803 CTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
223711843 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
223711883 CC-GGCTAA
1 CCGGGCTAA
223711891 ATTCCGAAGA
Statistics
Matches: 229, Mismatches: 15, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
38 9 0.04
39 61 0.27
40 159 0.69
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:223719049 original size:29 final size:29
Alignment explanation
Indices: 223719016--223719089 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
223719006 CCTTCGAGCT
223719016 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
223719045 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
223719074 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
223719090 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:223719050 original size:58 final size:58
Alignment explanation
Indices: 223718957--223719089 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
223718947 ATACTCGATT
* * * * *
223718957 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
223719015 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
223719073 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
223719090 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:223726931 original size:29 final size:29
Alignment explanation
Indices: 223726898--223726971 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
223726888 CCTTCGAGCT
223726898 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
223726927 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
223726956 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
223726972 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:223726932 original size:58 final size:58
Alignment explanation
Indices: 223726839--223726971 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
223726829 ATACTCGATT
* * * * *
223726839 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
223726897 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
223726955 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
223726972 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:223730510 original size:46 final size:46
Alignment explanation
Indices: 223730361--223730534 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
223730351 TGTAACCCGC
* * *
223730361 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGG-CGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
223730406 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GATGCCTAGTTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG-CAT
*** * *
223730453 --ATCTCTCGAACTCGGACTCAACTTAACGAGTTCGGACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
*
223730498 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
223730535 TGCCCAAATA
Statistics
Matches: 104, Mismatches: 18, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
44 1 0.01
45 39 0.38
46 56 0.54
47 8 0.08
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:223730525 original size:92 final size:92
Alignment explanation
Indices: 223730369--223730538 Score: 270
Period size: 92 Copynumber: 1.8 Consensus size: 92
223730359 GCCCATAAGT
*
223730369 GAACTCGGACTCAACTCAACAAGCTCGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACAAGCTCGGCGCTCACATCCATAAGTGAACTCGGACTCAACTCAAC
223730434 GAGCTC-GATGCCTAGTTATATCTCTC
66 GAGCTCGGATGCCTAGTTATATCTCTC
* * * *
223730460 GAACTCGGACTCAACTTAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGG-CGCTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
223730525 CGAGTTCGGATGCC
65 CGAGCTCGGATGCC
223730539 CAAATATCCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
91 25 0.35
92 40 0.56
93 6 0.08
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACAAGCTCGGCGCTCACATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTATATCTCTC
Found at i:223730553 original size:46 final size:45
Alignment explanation
Indices: 223730411--223730553 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 45
223730401 CACATCCATA
* * *
223730411 AGTGAACTCGGACTCAACTCAACGAGCTC-GATGCCTAGTTATATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ATATCCC
* * * ** *
223730458 --TCGAACTCGGACTCAACTTAACGAGTTCGGACGCTC-GCATCCATA
1 AGT-GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATATCC--C
223730503 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AATATCCC
223730549 AGTGA
1 AGTGA
223730554 CATGTCACTT
Statistics
Matches: 73, Mismatches: 15, Indels: 17
0.70 0.14 0.16
Matches are distributed among these distances:
43 3 0.04
45 1 0.01
46 60 0.82
47 5 0.07
48 4 0.05
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATATCCC
Found at i:223733643 original size:40 final size:39
Alignment explanation
Indices: 223733599--223733817 Score: 235
Period size: 40 Copynumber: 5.5 Consensus size: 39
223733589 GCTCGATTGT
* * *
223733599 CTTCGGGACATT-GCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGAC-TTAGCCCGGTT-TAGTAACTCGCACAAATGC
* *
223733639 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* *
223733679 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* *
223733719 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
223733759 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
223733800 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
223733818 ACACCATTCG
Statistics
Matches: 156, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.01
40 126 0.81
41 27 0.17
42 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CTTCGGGACTTAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:223741750 original size:40 final size:39
Alignment explanation
Indices: 223741706--223741919 Score: 215
Period size: 40 Copynumber: 5.5 Consensus size: 39
223741696 GCTCGATTGT
* *
223741706 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
223741746 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
223741786 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* *
223741826 CTTC-GGACTTAACCC-GTTT-GTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
* * * *
223741862 CTTC-GGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
223741902 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAGCCCGG
223741920 ACATCATTCG
Statistics
Matches: 150, Mismatches: 14, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
35 1 0.01
36 27 0.18
37 4 0.03
38 4 0.03
39 16 0.11
40 86 0.57
41 10 0.07
42 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:223741896 original size:76 final size:79
Alignment explanation
Indices: 223741706--223741918 Score: 231
Period size: 76 Copynumber: 2.7 Consensus size: 79
223741696 GCTCGATTGT
* * * * *
223741706 CTTCGGGACA-TAGCCCGG-TTATAGTAATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTA
1 CTTCGGGA-ATTAACCCGGATT-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCC-GATTTA
223741769 GTAACTCGCACAAATGC
63 GTAACTCGCACAAATGC
* * * * *
223741786 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTC-GGACTTAACCCG-TTT-GTA
1 CTTCGGGAATTAACCCGGATTTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGATTTAGTA
223741848 ACTCGCACAAATGC
66 ACTCGCACAAATGC
* * *
223741862 CTTC-GGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCG
1 CTTCGGGAATTAACCCGGATTTAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCG
223741919 GACATCATTC
Statistics
Matches: 114, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
75 18 0.16
76 35 0.31
77 14 0.12
78 1 0.01
79 9 0.08
80 35 0.31
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CTTCGGGAATTAACCCGGATTTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGATTTAGTA
ACTCGCACAAATGC
Found at i:223745971 original size:40 final size:40
Alignment explanation
Indices: 223745926--223746173 Score: 289
Period size: 40 Copynumber: 6.2 Consensus size: 40
223745916 CGGAATACAA
* *
223745926 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* *
223745966 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
223746006 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
223746046 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* ** * * * *
223746086 CCGGATGTAGTCGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
** * * * *
223746126 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
223746166 CCGGATAT
1 CCGGATAT
223746174 CATTCAATTG
Statistics
Matches: 180, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 180 1.00
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:223746150 original size:120 final size:120
Alignment explanation
Indices: 223745926--223746173 Score: 331
Period size: 120 Copynumber: 2.1 Consensus size: 120
223745916 CGGAATACAA
* *
223745926 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
* *
223745991 CCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATGCCTTCGGGTA-TTAGC
66 CCTTCGGGTCTTAACCCGGATAGAACGACTAGCACAAATGCCTTCGGG-ACTTAGC
* * * *
223746046 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGTCG-CTAGCACAAT
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAG-A-ACGACTAGCACAAA
* ** * *
223746109 TGCCTTCGGGTCTTAACCCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
64 TGCCTTCGGGTCTTAACCCGGATAGAACGACTAGCACAAATGCCTTCGGGACTTAGC
223746166 CCGGATAT
1 CCGGATAT
223746174 CATTCAATTG
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
119 2 0.02
120 107 0.96
121 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (120 bp):
CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
CCTTCGGGTCTTAACCCGGATAGAACGACTAGCACAAATGCCTTCGGGACTTAGC
Found at i:223762174 original size:80 final size:80
Alignment explanation
Indices: 223762090--223762238 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
223762080 TATGGTAACC
* * * *
223762090 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
223762154 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
223762170 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
223762235 CCGG
66 CCGG
223762239 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:223762180 original size:40 final size:38
Alignment explanation
Indices: 223762131--223762238 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
223762121 ATCACGATTT
*
223762131 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
223762171 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
223762211 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
223762239 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:223772226 original size:40 final size:39
Alignment explanation
Indices: 223772061--223772244 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
223772051 AAATTGAATG
* * *
223772061 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
223772101 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
223772141 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
223772181 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
223772220 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
223772245 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:223772269 original size:80 final size:81
Alignment explanation
Indices: 223772101--223772289 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
223772091 GCTGGAAATT
* * * *
223772101 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
223772166 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
223772182 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
223772245 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
223772261 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
223772290 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:223789164 original size:40 final size:40
Alignment explanation
Indices: 223789097--223789248 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
223789087 AAATTGAATG
* * * * *
223789097 ATATCCGGGCTAAGCCCCAAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
223789137 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
223789177 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
223789217 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
223789249 ACATGCTTAT
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 87 0.95
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:223789262 original size:40 final size:39
Alignment explanation
Indices: 223789135--223789264 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
223789125 ATGCTGGAAA
* * *
223789135 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAT-GC
* *
223789176 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATG-C
*
223789214 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGC
223789255 TTATATCCGG
1 TTATATCCGG
223789265 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGC
Found at i:223793375 original size:60 final size:58
Alignment explanation
Indices: 223793301--223793433 Score: 151
Period size: 60 Copynumber: 2.3 Consensus size: 58
223793291 ATTTAAGCCC
* * * * *
223793301 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATTTTTTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCC--ATATATTTCCAGCAT
* * **
223793361 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
223793419 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
223793434 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
58 28 0.44
60 34 0.54
61 1 0.02
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.28
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:223793391 original size:29 final size:29
Alignment explanation
Indices: 223793351--223793433 Score: 166
Period size: 29 Copynumber: 2.9 Consensus size: 29
223793341 GCCGTATTTT
223793351 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
223793380 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
223793409 TTTCCAGCATGCACACTTAGTGCCA
1 TTTCCAGCATGCACACTTAGTGCCA
223793434 ATCTCGTCAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:223794634 original size:32 final size:27
Alignment explanation
Indices: 223794593--223794660 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 27
223794583 TGAACACTTT
223794593 TTTTTTCTTTTCTTTGTTTTTCTTCATATTC
1 TTTTTTCTTTT-TTT-TTTTT-TTCAT-TTC
223794624 TCTTTTTCTTTTTTTTTTTTTTCATTTC
1 T-TTTTTCTTTTTTTTTTTTTTCATTTC
*
223794652 TTTATTCTT
1 TTTTTTCTT
223794661 CCTACATAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
27 7 0.20
28 4 0.11
29 5 0.14
30 5 0.14
31 4 0.11
32 10 0.29
ACGTcount: A:0.06, C:0.15, G:0.01, T:0.78
Consensus pattern (27 bp):
TTTTTTCTTTTTTTTTTTTTTCATTTC
Found at i:223794659 original size:27 final size:32
Alignment explanation
Indices: 223794597--223794660 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 32
223794587 CACTTTTTTT
*
223794597 TTCTTTTCTTTGTTTTTCTTCATATTCTCTTT
1 TTCTTTTCTTTGTTTTTCTTCATATTCTCTTA
223794629 TTCTTTT-TTT-TTTTT-TTCAT-TTCT-TTA
1 TTCTTTTCTTTGTTTTTCTTCATATTCTCTTA
223794656 TTCTT
1 TTCTT
223794661 CCTACATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
27 7 0.23
28 4 0.13
29 5 0.16
30 5 0.16
31 3 0.10
32 7 0.23
ACGTcount: A:0.06, C:0.16, G:0.02, T:0.77
Consensus pattern (32 bp):
TTCTTTTCTTTGTTTTTCTTCATATTCTCTTA
Found at i:223797476 original size:180 final size:179
Alignment explanation
Indices: 223797174--223797533 Score: 702
Period size: 180 Copynumber: 2.0 Consensus size: 179
223797164 ACCCGATGCG
223797174 GACACCACGTGCCCCAAAAAGCTAACCTCTTTCAACCAAAATTCACATTTACTGAACTTTGCGTA
1 GACACCACGTGCCCCAAAAAGCTAACCTCTTTCAACCAAAATTCACATTTACTGAACTTTGCGTA
223797239 TAACTGCTTATCTCGTAAGATTTGCAACACTAGCCTCAGGTGTTCAGCATGTTCAGTTTCATCTC
66 TAACTGCTTATCTCGTAAGATTTGCAACACTAGCCTCAGGTGTTCAGCATGTTCAGTTTCATCTC
223797304 TCAAATAGACCAAAATGTCATCGATAAATACAACTACGAACCGACTCCAA
131 TCAAATAGACCAAAATGTCATCGATAAATACAACTACGAACCGA-TCCAA
223797354 GACACCACGTGCCCCAAAAAGCTAACCTCTTTCAACCAAAATTCACATTTACTGAACTTTGCGTA
1 GACACCACGTGCCCCAAAAAGCTAACCTCTTTCAACCAAAATTCACATTTACTGAACTTTGCGTA
223797419 TAACTGCTTATCTCGTAAGATTTGCAACACTAGCCTCAGGTGTTCAGCATGTTCAGTTTCATCTC
66 TAACTGCTTATCTCGTAAGATTTGCAACACTAGCCTCAGGTGTTCAGCATGTTCAGTTTCATCTC
*
223797484 TCGAATAGACCAAAATGTCATCGATAAATACAACTACGAACCGATCCAA
131 TCAAATAGACCAAAATGTCATCGATAAATACAACTACGAACCGATCCAA
223797533 G
1 G
223797534 TATGGCCTGA
Statistics
Matches: 179, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
179 6 0.03
180 173 0.97
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (179 bp):
GACACCACGTGCCCCAAAAAGCTAACCTCTTTCAACCAAAATTCACATTTACTGAACTTTGCGTA
TAACTGCTTATCTCGTAAGATTTGCAACACTAGCCTCAGGTGTTCAGCATGTTCAGTTTCATCTC
TCAAATAGACCAAAATGTCATCGATAAATACAACTACGAACCGATCCAA
Found at i:223801445 original size:29 final size:29
Alignment explanation
Indices: 223801421--223801514 Score: 161
Period size: 29 Copynumber: 3.2 Consensus size: 29
223801411 TCGCACACCC
* * *
223801421 AGTGCCGTATTTTTTCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
223801450 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
223801479 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
223801508 AGTGCCA
1 AGTGCCA
223801515 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:223801456 original size:58 final size:58
Alignment explanation
Indices: 223801384--223801514 Score: 156
Period size: 58 Copynumber: 2.3 Consensus size: 58
223801374 AATTTAAGCC
* * * * * *
223801384 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATTTTTTCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCAT
* * **
223801442 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
223801500 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
223801515 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
58 61 0.98
59 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:223802730 original size:26 final size:31
Alignment explanation
Indices: 223802675--223802738 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 31
223802665 ACACTTTTTT
223802675 TTTTCTTTTCTTTGTTTTTCTTCATATTCTC
1 TTTTCTTTTCTTTGTTTTTCTTCATATTCTC
223802706 TTTT-TTTT-TTT-TTTTT-TTCAT-TTCT-
1 TTTTCTTTTCTTTGTTTTTCTTCATATTCTC
223802731 TTATTCTT
1 TT-TTCTT
223802739 CCTACATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
25 2 0.06
26 6 0.19
27 7 0.23
28 5 0.16
29 3 0.10
30 4 0.13
31 4 0.13
ACGTcount: A:0.06, C:0.14, G:0.02, T:0.78
Consensus pattern (31 bp):
TTTTCTTTTCTTTGTTTTTCTTCATATTCTC
Found at i:223809011 original size:40 final size:40
Alignment explanation
Indices: 223808942--223809137 Score: 252
Period size: 40 Copynumber: 5.2 Consensus size: 40
223808932 AACCCAAGTA
* * **
223808942 CCTTCGGGA-TTTAGCCGGATATAACAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
*
223808981 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
223809021 CCTTCGGG-----A--C--ATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
223809052 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
* *
223809092 CCTTCGGGACTTAACCC-GATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
223809131 CCTTCGG
1 CCTTCGG
223809138 ATCTTAGTCC
Statistics
Matches: 139, Mismatches: 8, Indels: 20
0.83 0.05 0.12
Matches are distributed among these distances:
31 29 0.21
33 1 0.01
36 1 0.01
38 1 0.01
39 36 0.26
40 71 0.51
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
Found at i:223809038 original size:31 final size:31
Alignment explanation
Indices: 223809000--223809061 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
223808990 CTTAGCCCGG
223809000 ATATAGTAACTCGCACAAATGCCTTCGGGAC
1 ATATAGTAACTCGCACAAATGCCTTCGGGAC
223809031 ATATAGTAACTCGCACAAATGCCTTCGGGAC
1 ATATAGTAACTCGCACAAATGCCTTCGGGAC
223809062 TTAACCCGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (31 bp):
ATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:223809076 original size:71 final size:71
Alignment explanation
Indices: 223808967--223809101 Score: 261
Period size: 71 Copynumber: 1.9 Consensus size: 71
223808957 CGGATATAAC
*
223808967 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACA
1 AACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACA
223809032 TATAGT
66 TATAGT
223809038 AACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
1 AACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
223809102 TTAACCCGAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (71 bp):
AACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACA
TATAGT
Found at i:223811125 original size:27 final size:27
Alignment explanation
Indices: 223811078--223811269 Score: 190
Period size: 27 Copynumber: 7.1 Consensus size: 27
223811068 GTAAAATGGA
* * * *
223811078 AATTTTACCCCACAAGGGTATCTCAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
* * *
223811105 AATTCTACCTTACAGGAGTATTTTAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
* *
223811132 AATTCTACCAC-ATAGGGATATTTC-GT
1 AATTCTACC-CTACAGGGGTATTTCAGT
* * *
223811158 ATTTCTACCTTACAGGGGTATTTTAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
*
223811185 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCAGT
*
223811212 ATTTCTACCCTACAGGGGTATTTCAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
* * * * *
223811239 ATTTCTACCCTGCAAGGATATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCAGT
223811266 AATT
1 AATT
223811270 TCACAAATCA
Statistics
Matches: 134, Mismatches: 28, Indels: 6
0.80 0.17 0.04
Matches are distributed among these distances:
26 20 0.15
27 114 0.85
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTCAGT
Found at i:223811170 original size:53 final size:54
Alignment explanation
Indices: 223811107--223811271 Score: 226
Period size: 54 Copynumber: 3.1 Consensus size: 54
223811097 ATCTCAGTAA
* *
223811107 TTCTACCTTACAGGAGTATTTTAGTAATTCTACCAC-ATAGGGATATTTC-GTAT
1 TTCTACCTTACAGGGGTATTTTAGTAATTCTACC-CTACAGGGATATTTCGGTAT
*
223811160 TTCTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAT
1 TTCTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGATATTTCGGTAT
* * * * *
223811214 TTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTGCAAGGATATTTCGGTAAT
1 TTCTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGATATTTCGGT-AT
223811269 TTC
1 TTC
223811272 ACAAATCAAG
Statistics
Matches: 100, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 44 0.44
54 50 0.50
55 5 0.05
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (54 bp):
TTCTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGATATTTCGGTAT
Found at i:223811234 original size:80 final size:81
Alignment explanation
Indices: 223811093--223811247 Score: 206
Period size: 80 Copynumber: 1.9 Consensus size: 81
223811083 TACCCCACAA
* * *
223811093 GGGTATCTCAGTAATTCTACCTTACAGGAGTATTTTAGTAATTCTACCACATAGGGATATTTC-G
1 GGGTATCTCAGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCACACAGGGATATTTCAG
223811157 TATTTCTACCTTACAG
66 TATTTCTACCTTACAG
* * * * * *
223811173 GGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC-CTACAGGGGTATTTCA
1 GGGTATCTCAGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCAC-ACAGGGATATTTCA
223811237 GTATTTCTACC
65 GTATTTCTACC
223811248 CTGCAAGGAT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.02
80 52 0.81
81 11 0.17
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (81 bp):
GGGTATCTCAGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCACACAGGGATATTTCAG
TATTTCTACCTTACAG
Found at i:223811245 original size:54 final size:54
Alignment explanation
Indices: 223811078--223811271 Score: 223
Period size: 54 Copynumber: 3.6 Consensus size: 54
223811068 GTAAAATGGA
* * * * * * *
223811078 AATTTTACCCCACAAGGGTATCTCAGTAATTCTACCTTACAGGAGTATTTTAGT
1 AATTCTACCCTACAAGGATATTTCGGTATTTCTACCTTACAGGGGTATTTTAGT
223811132 AATTCTA-CC-ACATAGGGATATTTC-GTATTTCTACCTTACAGGGGTATTTTAGT
1 AATTCTACCCTACA-A-GGATATTTCGGTATTTCTACCTTACAGGGGTATTTTAGT
* * * *
223811185 AATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCAGT
1 AATTCTACCCTACAAGGATATTTCGGTATTTCTACCTTACAGGGGTATTTTAGT
* *
223811239 ATTTCTACCCTGCAAGGATATTTCGGTAATTTC
1 AATTCTACCCTACAAGGATATTTCGGT-ATTTC
223811272 ACAAATCAAG
Statistics
Matches: 121, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
52 3 0.02
53 45 0.37
54 65 0.54
55 8 0.07
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (54 bp):
AATTCTACCCTACAAGGATATTTCGGTATTTCTACCTTACAGGGGTATTTTAGT
Found at i:223811373 original size:26 final size:27
Alignment explanation
Indices: 223811315--223811429 Score: 171
Period size: 27 Copynumber: 4.3 Consensus size: 27
223811305 CGAGGGTATT
223811315 ATGGTAATTCTGTAAATCAAGGGTAAA
1 ATGGTAATTCTGTAAATCAAGGGTAAA
*
223811342 ACGGTAATTCTGTAAATCAA-GGTAAA
1 ATGGTAATTCTGTAAATCAAGGGTAAA
*
223811368 ATGGTAATTTTGTAAATCAAGGGTAAA
1 ATGGTAATTCTGTAAATCAAGGGTAAA
* *
223811395 ATGGTAATTCTATAAATCGAGGGT-AA
1 ATGGTAATTCTGTAAATCAAGGGTAAA
*
223811421 ACGGTAATT
1 ATGGTAATT
223811430 GTGACAACCC
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
26 34 0.43
27 46 0.57
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
ATGGTAATTCTGTAAATCAAGGGTAAA
Found at i:223811387 original size:53 final size:53
Alignment explanation
Indices: 223811315--223811429 Score: 169
Period size: 53 Copynumber: 2.2 Consensus size: 53
223811305 CGAGGGTATT
*
223811315 ATGGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTGTAAATC-AAGGTAAA
1 ATGGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTATAAATCGAAGGT-AA
* * *
223811368 ATGGTAATTTTGTAAATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAA
1 ATGGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTATAAATCGAAGGTAA
*
223811421 ACGGTAATT
1 ATGGTAATT
223811430 GTGACAACCC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
53 52 0.93
54 4 0.07
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (53 bp):
ATGGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTATAAATCGAAGGTAA
Found at i:223812756 original size:68 final size:70
Alignment explanation
Indices: 223812684--223812881 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
223812674 ACACCCTGTA
* * * *
223812684 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
223812746 ATAAAT
65 ATAAAT
*
223812752 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
223812817 ATAAAT
65 ATAAAT
*
223812823 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
223812882 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:223812795 original size:41 final size:41
Alignment explanation
Indices: 223812750--223812867 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
223812740 TGAAAGATAA
223812750 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
223812791 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
223812821 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
223812862 ATGTAG
1 ATGTAG
223812868 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:223812807 original size:71 final size:71
Alignment explanation
Indices: 223812718--223812881 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
223812708 GAGATGTATC
223812718 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
223812783 AGGACA
66 AGGACA
223812789 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
223812854 AGGACA
66 AGGACA
223812860 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
223812882 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:223820324 original size:68 final size:70
Alignment explanation
Indices: 223820252--223820449 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
223820242 ACACCCTGTA
* * * *
223820252 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
223820314 ATAAAT
65 ATAAAT
*
223820320 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
223820385 ATAAAT
65 ATAAAT
*
223820391 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
223820450 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:223820363 original size:41 final size:41
Alignment explanation
Indices: 223820318--223820435 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
223820308 TGAAAGATAA
223820318 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
223820359 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
223820389 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
223820430 ATGTAG
1 ATGTAG
223820436 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:223820375 original size:71 final size:71
Alignment explanation
Indices: 223820286--223820449 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
223820276 GAGATGTATC
223820286 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
223820351 AGGACA
66 AGGACA
223820357 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
223820422 AGGACA
66 AGGACA
223820428 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
223820450 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:223826261 original size:40 final size:40
Alignment explanation
Indices: 223826136--223826286 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
223826126 ATTTGAATGA
* * * *
223826136 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTC
1 TATCCGGGCTAAGA-CCCGAAGGC-ATTGTGCAGAGACATTC
* * * *
223826176 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGC-ATTGTGC-AGAGACATTC
223826217 -ATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCATT-GTGCAGAGACATTC
223826256 TATCCGGGCTAAGA-CCGAAGGCATTTGTGCA
1 TATCCGGGCTAAGACCCGAAGGCA-TTGTGCA
223826287 CATGGTTATA
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 18 0.20
40 66 0.72
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTGTGCAGAGACATTC
Found at i:223826299 original size:39 final size:40
Alignment explanation
Indices: 223826176--223826301 Score: 123
Period size: 40 Copynumber: 3.2 Consensus size: 40
223826166 CTGGAAATTC
* * * * *
223826176 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
* * ** *
223826216 CATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CATTC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
223826256 TATCCGGGCTAAGA-CCGAAGGCATTTGTGC-ACATGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
223826295 TATCCGG
1 TATCCGG
223826302 TTATGTTCCG
Statistics
Matches: 68, Mismatches: 16, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
38 2 0.03
39 24 0.35
40 42 0.62
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
Found at i:223829216 original size:29 final size:29
Alignment explanation
Indices: 223829177--223829255 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
223829167 CTTAATAATC
*
223829177 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
223829207 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
223829236 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
223829256 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:223837339 original size:29 final size:29
Alignment explanation
Indices: 223837300--223837378 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
223837290 CTTAATAATC
*
223837300 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
223837330 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
223837359 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
223837379 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:223846501 original size:40 final size:39
Alignment explanation
Indices: 223846336--223846519 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
223846326 AAATTGAATG
* * *
223846336 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
223846376 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
223846416 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
223846456 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
223846495 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
223846520 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:223846544 original size:80 final size:81
Alignment explanation
Indices: 223846376--223846564 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
223846366 GCTGGAAATT
* * * *
223846376 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
223846441 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
223846457 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
223846520 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
223846536 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
223846565 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:223855009 original size:46 final size:46
Alignment explanation
Indices: 223854959--223855134 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
223854949 ATGGTTGGCA
223854959 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
223855005 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
223855050 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
223855098 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
223855135 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:223855114 original size:93 final size:93
Alignment explanation
Indices: 223854955--223855126 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
223854945 TAGGATGGTT
* *
223854955 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
223855020 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
223855048 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
223855113 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
223855127 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:223858089 original size:15 final size:15
Alignment explanation
Indices: 223858069--223858137 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
223858059 GTATCTTGGG
223858069 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
223858084 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
223858099 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
223858114 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
223858129 TTTCTTTAT
1 TTTCTTTAT
223858138 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:223858138 original size:30 final size:30
Alignment explanation
Indices: 223858060--223858147 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
223858050 CATAGTATCG
* * * *
223858060 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
223858090 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
223858120 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
223858148 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:223860687 original size:46 final size:46
Alignment explanation
Indices: 223860524--223860696 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
223860514 ATTTGGGCAT
*
223860524 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A-GT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
223860568 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
223860613 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
223860661 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
223860697 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
41 5 0.05
43 2 0.02
44 28 0.25
45 1 0.01
46 35 0.32
47 28 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:223863673 original size:15 final size:15
Alignment explanation
Indices: 223863653--223863721 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
223863643 GTATCTTGGG
223863653 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
223863668 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
223863683 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
223863698 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
223863713 TTTCTTTAT
1 TTTCTTTAT
223863722 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:223863722 original size:30 final size:30
Alignment explanation
Indices: 223863644--223863731 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
223863634 CATAGTATCG
* * * *
223863644 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
223863674 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
223863704 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
223863732 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:223866171 original size:46 final size:46
Alignment explanation
Indices: 223866118--223866293 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
223866108 TATTTGGGCA
223866118 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
223866164 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* *
223866211 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
223866257 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
223866294 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.60
47 32 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:223866273 original size:93 final size:93
Alignment explanation
Indices: 223866114--223866285 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
223866104 GGGATATTTG
* *
223866114 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
223866179 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
223866207 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
223866272 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
223866286 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:223868235 original size:25 final size:25
Alignment explanation
Indices: 223868207--223868309 Score: 107
Period size: 25 Copynumber: 4.1 Consensus size: 25
223868197 ACGAACTGTG
* *
223868207 AATCGGTATGGTCTCTCAAGCTATA
1 AATCGGTATGCTCTCACAAGCTATA
** *
223868232 AATCGGTATGCTCTCATGAGCTGTA
1 AATCGGTATGCTCTCACAAGCTATA
* * * * *
223868257 AATTGGTATACTTTCACGAGCTGTA
1 AATCGGTATGCTCTCACAAGCTATA
*
223868282 AATCGGTATGCTCTCACAAACTATA
1 AATCGGTATGCTCTCACAAGCTATA
223868307 AAT
1 AAT
223868310 TAGTAATCTC
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32
Consensus pattern (25 bp):
AATCGGTATGCTCTCACAAGCTATA
Found at i:223868265 original size:50 final size:50
Alignment explanation
Indices: 223868202--223868297 Score: 120
Period size: 50 Copynumber: 1.9 Consensus size: 50
223868192 CTCATACGAA
* ** *
223868202 CTGTGAATCGGTATGGTCTCTCAAGCTATAAATCGGTATGCTCTCATGAG
1 CTGTAAATCGGTATACTCTCACAAGCTATAAATCGGTATGCTCTCATGAG
* * * *
223868252 CTGTAAATTGGTATACTTTCACGAGCTGTAAATCGGTATGCTCTCA
1 CTGTAAATCGGTATACTCTCACAAGCTATAAATCGGTATGCTCTCA
223868298 CAAACTATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 38 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (50 bp):
CTGTAAATCGGTATACTCTCACAAGCTATAAATCGGTATGCTCTCATGAG
Found at i:223868328 original size:50 final size:48
Alignment explanation
Indices: 223868218--223868330 Score: 120
Period size: 50 Copynumber: 2.3 Consensus size: 48
223868208 ATCGGTATGG
* ** * * *
223868218 TCTCTCA-AGCTATAAATCGGTATGCTCTCATGAGCTGTAAATTGGTA
1 TCTCTCAGAGCTGTAAATCGGTATGCTCTCACAAACTATAAATTAGTA
*
223868265 TACTTTCACGAGCTGTAAATCGGTATGCTCTCACAAACTATAAATTAGTAA
1 T-CTCTCA-GAGCTGTAAATCGGTATGCTCTCACAAACTATAAATTAGT-A
223868316 TCTCTCATGAGCTGT
1 TCTCTCA-GAGCTGT
223868331 GGTATGTCCA
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
47 1 0.02
48 5 0.09
50 45 0.85
51 2 0.04
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (48 bp):
TCTCTCAGAGCTGTAAATCGGTATGCTCTCACAAACTATAAATTAGTA
Found at i:223868734 original size:47 final size:47
Alignment explanation
Indices: 223868660--223868755 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
223868650 GCACATAATT
* *
223868660 CAACTAATTTAATCCAAAACATATTTTTGCAAAATTACCATTTTTTC
1 CAACCAATTTAATCCAAAACATATTTTTGCAAAATTACCATTTTCTC
223868707 CAACCAATTTAATCCAAAACATATTTTTGCAAAATTACCATTTTCTC
1 CAACCAATTTAATCCAAAACATATTTTTGCAAAATTACCATTTTCTC
223868754 CA
1 CA
223868756 TACTTTTAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.38
Consensus pattern (47 bp):
CAACCAATTTAATCCAAAACATATTTTTGCAAAATTACCATTTTCTC
Found at i:223869146 original size:24 final size:24
Alignment explanation
Indices: 223869114--223869163 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
223869104 GATTAAGCTA
223869114 CAGTGATCCCGAAAACATAAAAAT
1 CAGTGATCCCGAAAACATAAAAAT
223869138 CAGTGATCCCGAAAACATAAAAAT
1 CAGTGATCCCGAAAACATAAAAAT
223869162 CA
1 CA
223869164 TCAAAAACAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.22, G:0.12, T:0.16
Consensus pattern (24 bp):
CAGTGATCCCGAAAACATAAAAAT
Found at i:223872473 original size:48 final size:48
Alignment explanation
Indices: 223872413--223872507 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
223872403 TATATATGTA
*
223872413 TGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
*
223872461 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGTATAT
1 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
223872508 ATTGTGGCCG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
Found at i:223874568 original size:85 final size:84
Alignment explanation
Indices: 223874402--223874605 Score: 349
Period size: 85 Copynumber: 2.4 Consensus size: 84
223874392 ATGAAACTCA
* *
223874402 GTGATGTGTATTC-GGCCTTCGTGCCTAGCAGGCTTCGTGCCTGATATGTATTCGGGCCTTCGTG
1 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCTGATATGCATTCGGGCCTTCGTG
223874466 CCTAGCAGGCTTCGTGCCG
66 CCTAGCAGGCTTCGTGCCG
223874485 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATGCATTC-GGCCTTCG
1 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCC--TGATATGCATTCGGGCCTTCG
223874549 TGCCTAGCAGGCTTCGTGCCG
64 TGCCTAGCAGGCTTCGTGCCG
*
223874570 GTGATATGTATTCGGGTCTTCGTGCCTAGCAGGCTT
1 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTT
223874606 AATGCGGTGA
Statistics
Matches: 115, Mismatches: 3, Indels: 4
0.94 0.02 0.03
Matches are distributed among these distances:
83 12 0.10
84 28 0.24
85 64 0.56
86 11 0.10
ACGTcount: A:0.12, C:0.25, G:0.31, T:0.31
Consensus pattern (84 bp):
GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCTGATATGCATTCGGGCCTTCGTG
CCTAGCAGGCTTCGTGCCG
Done.