Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold160
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: 5021213
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 92036 characters in sequence are not A, C, G, or T
File 13 of 30
Found at i:1971446 original size:19 final size:19
Alignment explanation
Indices: 1971424--1971469 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
1971414 AAATGCATTA
**
1971424 ATACAATTTTAATGTATCG
1 ATACAATTGCAATGTATCG
*
1971443 ATACAAATTGCATTGTATCG
1 ATAC-AATTGCAATGTATCG
1971463 ATACAAT
1 ATACAAT
1971470 CTGGAAAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (19 bp):
ATACAATTGCAATGTATCG
Found at i:1976883 original size:20 final size:20
Alignment explanation
Indices: 1976855--1976894 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1976845 AAAAGAGAAA
*
1976855 GGATAAGAGAAAGCAAACAC
1 GGATAAGAGAAAACAAACAC
*
1976875 GGATGAGAGAAAACAAACAC
1 GGATAAGAGAAAACAAACAC
1976895 AAGATTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.15, G:0.25, T:0.05
Consensus pattern (20 bp):
GGATAAGAGAAAACAAACAC
Found at i:1978116 original size:29 final size:29
Alignment explanation
Indices: 1978074--1978131 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
1978064 TGATAGGTTG
* *
1978074 CTAGATCCAGCTCTTGATCTATAAACATA
1 CTAGATCCAGCTCTTAATCTACAAACATA
*
1978103 CTAGATCCCGCTCTTAATCTACAAACATA
1 CTAGATCCAGCTCTTAATCTACAAACATA
1978132 ATAAGATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.28, G:0.09, T:0.29
Consensus pattern (29 bp):
CTAGATCCAGCTCTTAATCTACAAACATA
Found at i:1981948 original size:19 final size:20
Alignment explanation
Indices: 1981924--1981976 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
1981914 ATCAATACAA
1981924 TGTATCGATACATGCTC-AT
1 TGTATCGATACATGCTCAAT
*
1981943 TGTATCGATACATACTCAAT
1 TGTATCGATACATGCTCAAT
* *
1981963 TTTATCAATACATG
1 TGTATCGATACATG
1981977 AAACTGGCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATGCTCAAT
Found at i:1982039 original size:13 final size:13
Alignment explanation
Indices: 1982021--1982050 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1982011 AATACATGGG
1982021 ACATTGTATCGAT
1 ACATTGTATCGAT
1982034 ACATTGTATCGAT
1 ACATTGTATCGAT
1982047 ACAT
1 ACAT
1982051 GAAGAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:1982069 original size:33 final size:33
Alignment explanation
Indices: 1982005--1982071 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
1981995 CTAAGTGAAA
* *
1982005 TGTATCAATACATGGGACATTGTATCGATACAT
1 TGTATCAATACATGAGACATTGTATCCATACAT
* *
1982038 TGTATCGATACATGAAGA-ATTTTATCCATACAT
1 TGTATCAATACATG-AGACATTGTATCCATACAT
1982071 T
1 T
1982072 ATGCCCAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (33 bp):
TGTATCAATACATGAGACATTGTATCCATACAT
Found at i:1984797 original size:21 final size:21
Alignment explanation
Indices: 1984773--1984813 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1984763 AGAAAATAAA
* *
1984773 GAATTAACTAATAAAAACAAT
1 GAATTAACAAAGAAAAACAAT
1984794 GAATTAACAAAGAAAAACAA
1 GAATTAACAAAGAAAAACAA
1984814 AAACTTGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.66, C:0.10, G:0.07, T:0.17
Consensus pattern (21 bp):
GAATTAACAAAGAAAAACAAT
Found at i:1991915 original size:25 final size:25
Alignment explanation
Indices: 1991871--1991921 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
1991861 TAAACTCGGG
* *
1991871 AGAAATGTTATATTGGAGAAATAAA
1 AGAAATGTTATATTGAAGAAACAAA
1991896 AGAAATGTTATAATT-AAGAAACAAA
1 AGAAATGTTAT-ATTGAAGAAACAAA
1991921 A
1 A
1991922 AAGGAGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.57, C:0.02, G:0.16, T:0.25
Consensus pattern (25 bp):
AGAAATGTTATATTGAAGAAACAAA
Found at i:1998312 original size:15 final size:15
Alignment explanation
Indices: 1998292--1998322 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1998282 ATTTCGTTTG
1998292 GAGCTTCTTCATTTT
1 GAGCTTCTTCATTTT
1998307 GAGCTTCTTCATTTT
1 GAGCTTCTTCATTTT
1998322 G
1 G
1998323 GACATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.19, G:0.16, T:0.52
Consensus pattern (15 bp):
GAGCTTCTTCATTTT
Found at i:2002430 original size:19 final size:19
Alignment explanation
Indices: 2002369--2002433 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
2002359 TACAAGCCAA
2002369 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
2002390 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
*
2002403 TGCATCGATACATATTTTG
1 TGTATCGATACATATTTTG
2002422 TGTATCGATACA
1 TGTATCGATACA
2002434 AGTTTGGCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
13 10 0.28
14 1 0.03
15 1 0.03
18 1 0.03
19 12 0.33
21 11 0.31
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:2005591 original size:28 final size:28
Alignment explanation
Indices: 2005515--2005704 Score: 157
Period size: 29 Copynumber: 6.6 Consensus size: 28
2005505 GCATCCTCTT
* * *
2005515 CTTTTCAAAGTCCATAACTCTGTGGCAC
1 CTTTTTAAAGTCCACAACTCCGTGGCAC
*
2005543 CTCTTTTAAAGTCCATAACTCCGTGGCAC
1 CT-TTTTAAAGTCCACAACTCCGTGGCAC
2005572 CATTTTTAAAGTCC-CAACTCCGTGGCACC
1 C-TTTTTAAAGTCCACAACTCCGTGGCA-C
* *
2005601 CTTTTTAAAGTCAACAACTCTGTGGCAC
1 CTTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
2005629 CTTTTTTTTAAAGTCTATAATTTCGTGGCAC
1 C---TTTTTAAAGTCCACAACTCCGTGGCAC
* * * **
2005660 CCTTTCAAAGTCCACAAGTTGGTGGCAAC
1 CTTTTTAAAGTCCACAACTCCGTGGC-AC
* *
2005689 CCTTTTAAAGCCCACA
1 CTTTTTAAAGTCCACA
2005705 CAAGTCGGTG
Statistics
Matches: 136, Mismatches: 18, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
28 46 0.34
29 66 0.49
30 1 0.01
31 23 0.17
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (28 bp):
CTTTTTAAAGTCCACAACTCCGTGGCAC
Found at i:2005610 original size:57 final size:58
Alignment explanation
Indices: 2005516--2005676 Score: 157
Period size: 57 Copynumber: 2.8 Consensus size: 58
2005506 CATCCTCTTC
* * * * *
2005516 TTTTCAAAGTCCATAACTCTGTGGCACCTCTTTTAAAGTCCATAACTCCGTGGCACCA
1 TTTTTAAAGTCCACAACTCCGTGGCACCTCTTTTAAAGTCAACAACTCCGTGGCACCA
* *
2005574 TTTTTAAAGTCC-CAACTCCGTGGCACC-CTTTTTAAAGTCAACAACTCTGTGGCACCTTT
1 TTTTTAAAGTCCACAACTCCGTGGCACCTC-TTTTAAAGTCAACAACTCCGTGGCACC--A
* * * * * *
2005633 TTTTTAAAGTCTATAATTTCGTGGCACC-CTTTCAAAGTCCACAA
1 TTTTTAAAGTCCACAACTCCGTGGCACCTCTTTTAAAGTCAACAA
2005677 GTTGGTGGCA
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
56 1 0.01
57 37 0.43
58 11 0.13
59 24 0.28
60 13 0.15
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.34
Consensus pattern (58 bp):
TTTTTAAAGTCCACAACTCCGTGGCACCTCTTTTAAAGTCAACAACTCCGTGGCACCA
Found at i:2005731 original size:32 final size:31
Alignment explanation
Indices: 2005653--2005988 Score: 354
Period size: 32 Copynumber: 10.7 Consensus size: 31
2005643 CTATAATTTC
* *
2005653 GTGGC-ACCCTTTCAAAG-TC-CACAAGTTG
1 GTGGCAACCCTTTCAAAGCCCACACAAGTCG
*
2005681 GTGGCAACCCTTTTAAAGCCCACACAAGTCG
1 GTGGCAACCCTTTCAAAGCCCACACAAGTCG
*
2005712 GTGGCAACCCCTTTCAAAGCCCACACAAGTTG
1 GTGGCAA-CCCTTTCAAAGCCCACACAAGTCG
* * * *
2005744 ATGGCAACCCCTTTCAAAGCCTACACAAATTG
1 GTGGCAA-CCCTTTCAAAGCCCACACAAGTCG
* *
2005776 GTGGCAACCCCTTTCAAAGCCCATACATGTCG
1 GTGGCAA-CCCTTTCAAAGCCCACACAAGTCG
* *
2005808 GTGGCAACCCCTTTTAAAGCCCACACAAGTCA
1 GTGGCAA-CCCTTTCAAAGCCCACACAAGTCG
* * * **
2005840 GTGGTAACCTTTTTCAAAGCCTACACAAGTTA
1 GTGGCAACC-CTTTCAAAGCCCACACAAGTCG
* *
2005872 GTGGTAACCCTTTCAAAAGCCCACATAAGTCG
1 GTGGCAACCCTTTC-AAAGCCCACACAAGTCG
* * * *
2005904 GTGGTAACCTTTTCAAAGCCTAAACAAGTCG
1 GTGGCAACCCTTTCAAAGCCCACACAAGTCG
* *
2005935 GTGACAACCCTTTCAAAGCCCACACAAGTTG
1 GTGGCAACCCTTTCAAAGCCCACACAAGTCG
*
2005966 GTGGCAACCCTCTTAAAAGCCCA
1 GTGGCAACCCT-TTCAAAGCCCA
2005989 TGCAAGTTGG
Statistics
Matches: 261, Mismatches: 40, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
28 5 0.02
29 11 0.04
30 1 0.00
31 70 0.27
32 174 0.67
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (31 bp):
GTGGCAACCCTTTCAAAGCCCACACAAGTCG
Found at i:2005771 original size:64 final size:63
Alignment explanation
Indices: 2005659--2006090 Score: 369
Period size: 64 Copynumber: 6.9 Consensus size: 63
2005649 TTTCGTGGCA
* *
2005659 CCCTTTCAAAG-TC-CACAAGTTGGTGGCAACCCTTTTAAAGCCCACACAAGTCGGTGGCAAC
1 CCCTTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * *
2005720 CCCTTTCAAAGCCCACACAAGTTGATGGCAACCCCTTTCAAAGCCTACACAAATTGGTGGCAAC
1 CCCTTTCAAAGCCCACACAAGTTGGTGGCAA-CCCTTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * * * *
2005784 CCCTTTCAAAGCCCATACATGTCGGTGGCAACCCCTTTTAAAGCCCACACAAGTCAGTGGTAAC
1 CCCTTTCAAAGCCCACACAAGTTGGTGGCAA-CCCTTTCAAAGCCCACACAAGTCGGTGGCAAC
** * * * * *
2005848 CTTTTTCAAAGCCTACACAAGTTAGTGGTAACCCTTTCAAAAGCCCACATAAGTCGGTGGTAA-
1 CCCTTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTC-AAAGCCCACACAAGTCGGTGGCAAC
* * * * * *
2005911 CCTTTTCAAAGCCTAAACAAGTCGGTGACAACCCTTTCAAAGCCCACACAAGTTGGTGGCAA-
1 CCCTTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTCAAAGCCCACACAAGTCGGTGGCAAC
* ** ** * * * * * *
2005973 CCCTCTTAAAAGCCCATGCAAGTTGGTGATAACCTTTTTAAAG---ACATAACTCGATGACAA-
1 CCCT-TTCAAAGCCCACACAAGTTGGTGGCAACCCTTTCAAAGCCCACACAAGTCGGTGGCAAC
* ** * *
2006033 -CCTTCTCAAAAGCCAACACAAGTTGGTGATAACCCTCTCAAAAGCCTACACAAGTCGG
1 CCCTT-TC-AAAGCCCACACAAGTTGGTGGCAACCCTTTC-AAAGCCCACACAAGTCGG
2006091 CAACATCTTT
Statistics
Matches: 300, Mismatches: 60, Indels: 19
0.79 0.16 0.05
Matches are distributed among these distances:
58 1 0.00
59 4 0.01
60 37 0.12
61 15 0.05
62 25 0.08
63 83 0.28
64 135 0.45
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.22
Consensus pattern (63 bp):
CCCTTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTCAAAGCCCACACAAGTCGGTGGCAAC
Found at i:2005808 original size:96 final size:95
Alignment explanation
Indices: 2005659--2005988 Score: 391
Period size: 96 Copynumber: 3.5 Consensus size: 95
2005649 TTTCGTGGCA
* *
2005659 CCCTTTCAAAG--TCCACAAGTTGGTGGCAACCCTTTTAAAGCCCACACAAGTCGGTGGCAACCC
1 CCCTTTCAAAGCCTACACAAGTTGGTGGCAACCCTTTCAAAGCCCACACAAGTCGGTGGCAACCC
2005722 CTTTCAAAGCCCACACAAGTTGATGGCAAC
66 CTTTCAAAGCCCACACAAGTTGATGGCAAC
* * *
2005752 CCCTTTCAAAGCCTACACAAATTGGTGGCAACCCCTTTCAAAGCCCATACATGTCGGTGGCAACC
1 CCCTTTCAAAGCCTACACAAGTTGGTGGCAA-CCCTTTCAAAGCCCACACAAGTCGGTGGCAACC
* * *
2005817 CCTTTTAAAGCCCACACAAG-TCAGTGGTAAC
65 CCTTTCAAAGCCCACACAAGTTGA-TGGCAAC
** * * * *
2005848 CTTTTTCAAAGCCTACACAAGTTAGTGGTAACCCTTTCAAAAGCCCACATAAGTCGGTGGTAA-C
1 CCCTTTCAAAGCCTACACAAGTTGGTGGCAACCCTTTC-AAAGCCCACACAAGTCGGTGGCAACC
* * * * * *
2005912 CTTTTCAAAGCCTAAACAAGTCGGTGACAA-
65 CCTTTCAAAGCCCACACAAGTTGATGGCAAC
* *
2005942 CCCTTTCAAAGCCCACACAAGTTGGTGGCAACCCTCTTAAAAGCCCA
1 CCCTTTCAAAGCCTACACAAGTTGGTGGCAACCCT-TTCAAAGCCCA
2005989 TGCAAGTTGG
Statistics
Matches: 198, Mismatches: 32, Indels: 13
0.81 0.13 0.05
Matches are distributed among these distances:
93 11 0.06
94 38 0.19
95 48 0.24
96 101 0.51
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (95 bp):
CCCTTTCAAAGCCTACACAAGTTGGTGGCAACCCTTTCAAAGCCCACACAAGTCGGTGGCAACCC
CTTTCAAAGCCCACACAAGTTGATGGCAAC
Found at i:2006072 original size:32 final size:32
Alignment explanation
Indices: 2005672--2006087 Score: 239
Period size: 32 Copynumber: 13.2 Consensus size: 32
2005662 TTTCAAAGTC
** *
2005672 CACAAGTTGGTGGCAACCCTTT-TAAAGCCCA
1 CACAAGTTGGTGATAACCCTTTCAAAAGCCCA
* **
2005703 CACAAGTCGGTGGCAACCCCTTTC-AAAGCCCA
1 CACAAGTTGGTGATAA-CCCTTTCAAAAGCCCA
* ** *
2005735 CACAAGTTGATGGCAACCCCTTTC-AAAGCCTA
1 CACAAGTTGGTGATAA-CCCTTTCAAAAGCCCA
* **
2005767 CACAAATTGGTGGCAACCCCTTTC-AAAGCCCA
1 CACAAGTTGGTGATAA-CCCTTTCAAAAGCCCA
* * * ** *
2005799 TACATGTCGGTGGCAACCCCTTT-TAAAGCCCA
1 CACAAGTTGGTGATAA-CCCTTTCAAAAGCCCA
** * * *
2005831 CACAAGTCAGTGGTAACCTTTTTC-AAAGCCTA
1 CACAAGTTGGTGATAACC-CTTTCAAAAGCCCA
* *
2005863 CACAAGTTAGTGGTAACCCTTTCAAAAGCCCA
1 CACAAGTTGGTGATAACCCTTTCAAAAGCCCA
* * * * *
2005895 CATAAGTCGGTGGTAACCTTTTC-AAAGCCTA
1 CACAAGTTGGTGATAACCCTTTCAAAAGCCCA
* * *
2005926 AACAAGTCGGTGACAACCCTTTC-AAAGCCCA
1 CACAAGTTGGTGATAACCCTTTCAAAAGCCCA
**
2005957 CACAAGTTGGTGGCAACCCTCTT-AAAAGCCCA
1 CACAAGTTGGTGATAACCCT-TTCAAAAGCCCA
** **
2005989 TGCAAGTTGGTGATAA-CCTTTTTAAAG---A
1 CACAAGTTGGTGATAACCCTTTCAAAAGCCCA
* * * * * *
2006017 CATAACTCGATGACAA-CCTTCTCAAAAGCCAA
1 CACAAGTTGGTGATAACCCTT-TCAAAAGCCCA
* *
2006049 CACAAGTTGGTGATAACCCTCTCAAAAGCCTA
1 CACAAGTTGGTGATAACCCTTTCAAAAGCCCA
2006081 CACAAGT
1 CACAAGT
2006088 CGGCAACATC
Statistics
Matches: 316, Mismatches: 55, Indels: 27
0.79 0.14 0.07
Matches are distributed among these distances:
28 14 0.04
29 5 0.02
30 2 0.01
31 77 0.24
32 215 0.68
33 3 0.01
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (32 bp):
CACAAGTTGGTGATAACCCTTTCAAAAGCCCA
Found at i:2006316 original size:58 final size:58
Alignment explanation
Indices: 2006098--2006307 Score: 266
Period size: 58 Copynumber: 3.7 Consensus size: 58
2006088 CGGCAACATC
* *
2006098 TTTTTCT-AAGCC-AATGTCGTTGGCCTTGAATCAACACATTGGCACTTGTCAAACCT
1 TTTTTCTCAAGCCTAATGTCATTAGCCTTGAATCAACACATTGGCACTTGTCAAACCT
* *
2006154 TTTTTCTCAAG-CTCGATGTCATT-GTCCTTGAATCAACACATTGGCACTTGTCAAATCT
1 TTTTTCTCAAGCCT-AATGTCATTAG-CCTTGAATCAACACATTGGCACTTGTCAAACCT
* * *
2006212 TTTTTCTCAAGCCTAATGTCACTAGCCTTGAATTAGCACATTGGCACTTGTCAAACCT
1 TTTTTCTCAAGCCTAATGTCATTAGCCTTGAATCAACACATTGGCACTTGTCAAACCT
* * ** *
2006270 TATTTCTAAAGCCTAATGTTGTTAGCCTTGAACCAACA
1 TTTTTCTCAAGCCTAATGTCATTAGCCTTGAATCAACA
2006308 TGCTGGCACA
Statistics
Matches: 132, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
56 8 0.06
57 4 0.03
58 117 0.89
59 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.35
Consensus pattern (58 bp):
TTTTTCTCAAGCCTAATGTCATTAGCCTTGAATCAACACATTGGCACTTGTCAAACCT
Found at i:2007104 original size:20 final size:21
Alignment explanation
Indices: 2007063--2007115 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
2007053 ATAAGAGGGT
*
2007063 AATGTATCGATACATAAGTG-
1 AATGTATCGATACATAACTGA
**
2007083 AATGTATCGATACATGTCTGA
1 AATGTATCGATACATAACTGA
2007104 AATGTATCGATA
1 AATGTATCGATA
2007116 TAGGACCATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (21 bp):
AATGTATCGATACATAACTGA
Found at i:2007922 original size:108 final size:108
Alignment explanation
Indices: 2007726--2007945 Score: 318
Period size: 108 Copynumber: 2.0 Consensus size: 108
2007716 CCATACCCTT
* * * * *
2007726 CAAAGAAACACCTTCAAACACTTCTTCCTTAGGCCATACACAGCTCCAAACTATTTCCCCTTATA
1 CAAAAAAACACCTTCAAACACTTCCTCATTAGCCCATACACAGCTCCAAACTATTTCCCCTCATA
*
2007791 CTAGAACCCAAATAGCCCATTTTCCAGCTTGATTACAACCTCA
66 CTAGAACCCAAATAGCCCATTTTCCACCTTGATTACAACCTCA
* *
2007834 CAAAAAAACACCTTCAAACACTTCCTCATTTGCCCATACACAGCTCTAAA-TCATTTCCCCTCAT
1 CAAAAAAACACCTTCAAACACTTCCTCATTAGCCCATACACAGCTCCAAACT-ATTTCCCCTCAT
* *
2007898 ACTATAACCCAAATAGCCTC-TTTTCTACCTTGATTACAACCTCA
65 ACTAGAACCCAAATAGCC-CATTTTCCACCTTGATTACAACCTCA
2007942 CAAA
1 CAAA
2007946 GGAGGTAAAC
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 98 0.98
109 1 0.01
ACGTcount: A:0.34, C:0.34, G:0.05, T:0.27
Consensus pattern (108 bp):
CAAAAAAACACCTTCAAACACTTCCTCATTAGCCCATACACAGCTCCAAACTATTTCCCCTCATA
CTAGAACCCAAATAGCCCATTTTCCACCTTGATTACAACCTCA
Found at i:2015781 original size:167 final size:163
Alignment explanation
Indices: 2015520--2016095 Score: 518
Period size: 167 Copynumber: 3.5 Consensus size: 163
2015510 AAAATTTTTT
* * * *
2015520 AAATATCATTATTTAATTACCATTAAATTAGTTTTTAAAAATTTCTTTTA-TTTAATGAGTTTTC
1 AAATATCATCATTTAATTACCATTAAATTAG-TTTT-AAAATTTCATTTAGTTTCATGAGTTTTT
*
2015584 CATTTTTCCTT-AAATCTCTCTATTTTTTCAAAATATGGAATTTGCTATTCCATAAATGTTTTTT
64 CATTTTTCCTTAAAATCTC-CTA--TTTTCAAAATATGGAATTTACTATTCCATAAATG-TTTTT
2015648 GAAGGGATTTTTCTCAGTTTAAAATTTTTAAAATTCATC
125 GAAGGGATTTTTCTCAGTTTAAAATTTTTAAAATTCATC
* *
2015687 AAATATCATCATTTAATT-CATATTAAATTAGTTGTTCAAAATTTCTTTTA-TTTCATGAGTTTT
1 AAATATCATCATTTAATTAC-CATTAAATTAGTT-TT-AAAATTTCATTTAGTTTCATGAGTTTT
* * *
2015750 TCATTTTTTCCTTAAAATCTACCTATTTTCAAAATATGGAGTCTACTACTCCATAAATGTTTTTG
63 TCA-TTTTTCCTTAAAATCT-CCTATTTTCAAAATATGGAATTTACTATTCCATAAATGTTTTTG
** * *
2015815 --GGGAGATTT-TCACGATTTAAAATTTTTAAAATTGATA
126 AAGGGATTTTTCTCA-G-TTTAAAATTTTTAAAATTCATC
* * * * * *
2015852 AAATATCAGT-ATTTAATTACCATTAAATCAGTTATGAAATATTCATTAATTTTCCTGAGTTTTT
1 AAATATCA-TCATTTAATTACCATTAAATTAGTTTTAAAAT-TTCATTTAGTTTCATGAGTTTTT
* * * * *
2015916 CATTTTTTTCTTGAAA--TCC-ATGTTTCTAAAA-A-GCATAGTTTTCTACTT-CATAAATATTT
64 CA-TTTTTCCTTAAAATCTCCTAT-TTTC-AAAATATGGA-A-TTTACTA-TTCCATAAATGTTT
** * ** *
2015975 TTGAAGAAATTTTTCTCGGTTTAAAATTTTTAAGCTTTATC
123 TTGAAGGGATTTTTCTCAGTTTAAAATTTTTAAAATTCATC
* *
2016016 AAATATCATCATTTAATT--CATAGGAAAATAGTTTTGAAAATTTCATTTAGTTTCATGAGTTTT
1 AAATATCATCATTTAATTACCAT--TAAATTAGTTTT-AAAATTTCATTTAGTTTCATGAGTTTT
*
2016079 TTATTTTTCCTTAAAAT
63 TCATTTTTCCTTAAAAT
2016096 TCTCTTACTT
Statistics
Matches: 337, Mismatches: 48, Indels: 51
0.77 0.11 0.12
Matches are distributed among these distances:
161 4 0.01
162 10 0.03
163 42 0.12
164 79 0.23
165 84 0.25
166 13 0.04
167 86 0.26
168 9 0.03
169 9 0.03
170 1 0.00
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.48
Consensus pattern (163 bp):
AAATATCATCATTTAATTACCATTAAATTAGTTTTAAAATTTCATTTAGTTTCATGAGTTTTTCA
TTTTTCCTTAAAATCTCCTATTTTCAAAATATGGAATTTACTATTCCATAAATGTTTTTGAAGGG
ATTTTTCTCAGTTTAAAATTTTTAAAATTCATC
Found at i:2015913 original size:165 final size:164
Alignment explanation
Indices: 2015520--2016093 Score: 473
Period size: 165 Copynumber: 3.5 Consensus size: 164
2015510 AAAATTTTTT
* * *
2015520 AAATATCATTATTTAATTACCATTAAATTAGTTTTTAAAAATTTCTTTTATTTAATGAGTTTTCC
1 AAATATCA-TATTTAATTACCATTAAATTAG-TTTTCAAAATTTCTTTTATTTCATGAGTTTTTC
* * *
2015585 A-TTTTTCCTTAAATCTCTCTATTTTTTCAAAATATGGAATTTGCTATTCCATAAATGTTTTTTG
64 ATTTTTTCCTTAAATCTCTCTA-TTTTTCAAAATATGGAATCTACTACTCCATAAATGTTTTTTG
* * *
2015649 AAGGGATTTTTCTCAGTTTAAAATTTTTAAAATTCATC
128 -AGGGAATTTTCACAGTTTAAAATTTTTAAAATTCATA
*
2015687 AAATATCATCATTTAATT-CATATTAAATTAGTTGTTCAAAATTTCTTTTATTTCATGAGTTTTT
1 AAATATCAT-ATTTAATTAC-CATTAAATTAGTT-TTCAAAATTTCTTTTATTTCATGAGTTTTT
*
2015751 CATTTTTTCCTTAAAATCTAC-CTA-TTTTCAAAATATGGAGTCTACTACTCCATAAATG-TTTT
63 CATTTTTTCCTT-AAATCT-CTCTATTTTTCAAAATATGGAATCTACTACTCCATAAATGTTTTT
*
2015813 TG-GGGAGATTTTCAC-GATTTAAAATTTTTAAAATTGATA
126 TGAGGGA-ATTTTCACAG-TTTAAAATTTTTAAAATTCATA
* * * * * *
2015852 AAATATCAGTATTTAATTACCATTAAATCAGTTAT-GAAATATTCATTAATTTTCCTGAGTTTTT
1 AAATATCA-TATTTAATTACCATTAAATTAGTTTTCAAAAT-TTCTTTTA-TTTCATGAGTTTTT
* * * * * * *
2015916 CATTTTTTTCTTGAAA--TC-C-ATGTTTCTAAAA-A-GCATAGTTTTCTACTTCATAAAT-ATT
63 CATTTTTTCCTT-AAATCTCTCTATTTTTC-AAAATATGGA-A-TCTACTACTCCATAAATGTTT
* * * * ** * *
2015974 TTTGAAGAAATTTTTCTCGGTTTAAAATTTTTAAGCTTTATC
124 TTTGAGGGAA-TTTTCACAGTTTAAAATTTTTAAAATTCATA
* * * *
2016016 AAATATCATCATTTAATT--CATAGGAAAATAGTTTTGAAAATTTCATTTAGTTTCATGAGTTTT
1 AAATATCAT-ATTTAATTACCAT--TAAATTAGTTTTCAAAATTTCTTTTA-TTTCATGAGTTTT
*
2016079 TTA-TTTTTCCTTAAA
62 TCATTTTTTCCTTAAA
2016094 ATTCTCTTAC
Statistics
Matches: 339, Mismatches: 44, Indels: 53
0.78 0.10 0.12
Matches are distributed among these distances:
161 3 0.01
162 13 0.04
163 39 0.12
164 83 0.24
165 85 0.25
166 12 0.04
167 85 0.25
168 9 0.03
169 9 0.03
170 1 0.00
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.48
Consensus pattern (164 bp):
AAATATCATATTTAATTACCATTAAATTAGTTTTCAAAATTTCTTTTATTTCATGAGTTTTTCAT
TTTTTCCTTAAATCTCTCTATTTTTCAAAATATGGAATCTACTACTCCATAAATGTTTTTTGAGG
GAATTTTCACAGTTTAAAATTTTTAAAATTCATA
Found at i:2016969 original size:15 final size:16
Alignment explanation
Indices: 2016936--2016969 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
2016926 ATTTTGATGA
*
2016936 TTTACTTTATTTTGAT
1 TTTACTTTATGTTGAT
2016952 TTTA-TTTATGTTGAT
1 TTTACTTTATGTTGAT
2016967 TTT
1 TTT
2016970 TCATTATGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.18, C:0.03, G:0.09, T:0.71
Consensus pattern (16 bp):
TTTACTTTATGTTGAT
Found at i:2018327 original size:154 final size:155
Alignment explanation
Indices: 2018093--2018669 Score: 526
Period size: 154 Copynumber: 3.7 Consensus size: 155
2018083 TCTATGTGTA
* * * *
2018093 CACCTTTGGCATAGAAGT-GAC-CAGGTGACAAACTAGGACTCGATCCTAAAAAAATTACAAAAA
1 CACCTTTGGCATAAAAGTGGACTCA-GTGACAACCTAGGACTCGATTCTAAAAAAATTACTAAAA
* * * * * * * *
2018156 TGCCCCTA-GAGAATACCTTCAACTTAAAAGTGCTCGATACCTTTAAAAGACTTAAAAATGACTA
65 TGCCCCTATGGGTATACCTTCGACATAAAAGTACTCGATACC-CTAAAAGACTTAAAAAAGATTA
*
2018220 TAGATGGGATGAACCTATCATAAATACC
129 TAGATGGG-TGAACCTATCCTAAATACC
* * * * * *
2018248 CACCTTT-ACATAAAAGTGGACTCAGTAACAACTTAGGACTCGATTCT-AGAAAATTACGAGAAT
1 CACCTTTGGCATAAAAGTGGACTCAGTGACAACCTAGGACTCGATTCTAAAAAAATTACTAAAAT
* * * * *
2018311 ACCCCTATGGG-ATACCTTCGACATAAAAGTAC-CTGATATCCCTAAAGGGCTTAGAAAGGATTA
66 GCCCCTATGGGTATACCTTCGACATAAAAGTACTC-GATA-CCCTAAAAGACTTAAAAAAGATTA
* * *
2018374 TAGATGGGTTAAACCTACCCTAAATACA
129 TAGATGGG-TGAACCTATCCTAAATACC
** * * * *
2018402 CACCTTTGGCATAAAAGCAGAGCT-GGTGACAACCTAAGAGTCGATTCTAAAAAAAATACTAAAA
1 CACCTTTGGCATAAAAGTGGA-CTCAGTGACAACCTAGGACTCGATTCTAAAAAAATTACTAAAA
** * * * *
2018466 TGCCTTTGTGGGTATACCTTTGACATGAAAGTATCTCGGTAACCCTAAAAGACTTAAAAAAGATT
65 TGCCCCTATGGGTATACCTTCGACATAAAAGTA-CTCGAT-ACCCTAAAAGACTTAAAAAAGATT
* * *
2018531 AGAGATAGGGTGAACCCATCCTAAATGCC
128 ATAGAT-GGGTGAACCTATCCTAAATACC
* * *
2018560 CACCTTTGGCATAAAAGTGGAC-CCGATGACAACCTAGGAGTCGATTCT-AGAAAATTACTAAAA
1 CACCTTTGGCATAAAAGTGGACTCAG-TGACAACCTAGGACTCGATTCTAAAAAAATTACTAAAA
* ** *
2018623 TGCCCTTATGGGTATACCTTCGATGTGAAAGTATCTCGATAACCCTA
65 TGCCCCTATGGGTATACCTTCGACATAAAAGTA-CTCGAT-ACCCTA
2018670 GTGGGCACTA
Statistics
Matches: 341, Mismatches: 66, Indels: 28
0.78 0.15 0.06
Matches are distributed among these distances:
153 1 0.00
154 95 0.28
155 62 0.18
156 23 0.07
157 74 0.22
158 81 0.24
159 5 0.01
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (155 bp):
CACCTTTGGCATAAAAGTGGACTCAGTGACAACCTAGGACTCGATTCTAAAAAAATTACTAAAAT
GCCCCTATGGGTATACCTTCGACATAAAAGTACTCGATACCCTAAAAGACTTAAAAAAGATTATA
GATGGGTGAACCTATCCTAAATACC
Found at i:2020076 original size:16 final size:17
Alignment explanation
Indices: 2020057--2020089 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2020047 TTTTTCCTAT
2020057 TTTTTCT-TTTTCTTTC
1 TTTTTCTCTTTTCTTTC
*
2020073 TTTTTCTCTTTTTTTTC
1 TTTTTCTCTTTTCTTTC
2020090 AAGTTTCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTCTCTTTTCTTTC
Found at i:2025138 original size:13 final size:13
Alignment explanation
Indices: 2025120--2025145 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2025110 CAATTTTTTG
2025120 TGTATCGATACAT
1 TGTATCGATACAT
2025133 TGTATCGATACAT
1 TGTATCGATACAT
2025146 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2025160 original size:32 final size:33
Alignment explanation
Indices: 2025100--2025164 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
2025090 TACAAGACAA
** *
2025100 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
2025133 TGTATCGATAC-ATACTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
2025165 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:2027256 original size:21 final size:20
Alignment explanation
Indices: 2027227--2027269 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
2027217 GGCTAGTGTG
* *
2027227 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGAGACCT
*
2027248 GGGAGTGCCGGTCGAGACCT
1 GGGACTGCCGGTCGAGACCT
2027268 GG
1 GG
2027270 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.12, C:0.26, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGAGACCT
Found at i:2027720 original size:13 final size:13
Alignment explanation
Indices: 2027702--2027739 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2027692 ATAATCCCCC
2027702 TGTATCGATACAG
1 TGTATCGATACAG
*
2027715 TGTATCGATACAT
1 TGTATCGATACAG
2027728 TGTATCGATACA
1 TGTATCGATACA
2027740 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2029842 original size:15 final size:15
Alignment explanation
Indices: 2029822--2029852 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2029812 ATTTCGTTTG
*
2029822 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2029837 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2029852 G
1 G
2029853 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2033929 original size:13 final size:13
Alignment explanation
Indices: 2033911--2033936 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2033901 CAATTTTTTG
2033911 TGTATCGATACAT
1 TGTATCGATACAT
2033924 TGTATCGATACAT
1 TGTATCGATACAT
2033937 GTTTGGCTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2034403 original size:15 final size:12
Alignment explanation
Indices: 2034372--2034420 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
2034362 GTTATTAGTG
2034372 AGAAAAAAAAGA
1 AGAAAAAAAAGA
2034384 AGAAAAAAGAAGGAA
1 AGAAAAAA-AA-G-A
2034399 AGAAAAAAAAGA
1 AGAAAAAAAAGA
**
2034411 TTAAAAAAAA
1 AGAAAAAAAA
2034421 CCAAAATAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 17 0.53
13 3 0.09
14 3 0.09
15 9 0.28
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (12 bp):
AGAAAAAAAAGA
Found at i:2040405 original size:17 final size:18
Alignment explanation
Indices: 2040383--2040421 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
2040373 ATCAATACAA
2040383 ACATAA-ATTGTATCGAT
1 ACATAAGATTGTATCGAT
*
2040400 ACATAAGTGTTGTATCGAT
1 ACATAAG-ATTGTATCGAT
2040419 ACA
1 ACA
2040422 ATGTATCGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
19 13 0.68
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (18 bp):
ACATAAGATTGTATCGAT
Found at i:2040492 original size:13 final size:13
Alignment explanation
Indices: 2040474--2040498 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2040464 ATTACTCAAA
2040474 TGTATCGATACAT
1 TGTATCGATACAT
2040487 TGTATCGATACA
1 TGTATCGATACA
2040499 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2041209 original size:27 final size:27
Alignment explanation
Indices: 2041167--2041500 Score: 364
Period size: 27 Copynumber: 12.2 Consensus size: 27
2041157 CATGATTTAA
* *
2041167 TGGCATCCCTTTTTAAATCAACAACTCCG
1 TGGCAT-CC-TTTTAAGTCCACAACTCCG
* *
2041196 CGGCAACCTTTTAAGTCCACAACTCCG
1 TGGCATCCTTTTAAGTCCACAACTCCG
* * **
2041223 TGGTAACCTTTTAAGTCCACAACTTTG
1 TGGCATCCTTTTAAGTCCACAACTCCG
* *
2041250 TGGCATCCTTTTAAGTCCACCACTCTG
1 TGGCATCCTTTTAAGTCCACAACTCCG
*
2041277 TGGCATCCTTTTAAGTCCACAACTCCA
1 TGGCATCCTTTTAAGTCCACAACTCCG
* * * *
2041304 TGGCACCCTTTTAAGTCCATAATTCTG
1 TGGCATCCTTTTAAGTCCACAACTCCG
*
2041331 TGGCATCCTTTTAAAGTCCATAACTCCG
1 TGGCATCCTTTT-AAGTCCACAACTCCG
* *
2041359 TGGCA-CCTTTTAAAGTACACAACTGCG
1 TGGCATCCTTTT-AAGTCCACAACTCCG
* *
2041386 TGGCACCCTTTTAAAGTCCACAACTCTG
1 TGGCATCCTTTT-AAGTCCACAACTCCG
*
2041414 TGGCATCCTTTTAAGTCCACAACTTCG
1 TGGCATCCTTTTAAGTCCACAACTCCG
* * * **
2041441 TGGCACCCTTTTAAGTCCATAATTCTA
1 TGGCATCCTTTTAAGTCCACAACTCCG
*
2041468 TGGCATCCTTTTAAAGTCCATAACTCCG
1 TGGCATCCTTTT-AAGTCCACAACTCCG
2041496 TGGCA
1 TGGCA
2041501 CTTGAAAGCT
Statistics
Matches: 260, Mismatches: 42, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
27 189 0.73
28 67 0.26
29 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.31
Consensus pattern (27 bp):
TGGCATCCTTTTAAGTCCACAACTCCG
Found at i:2042265 original size:13 final size:13
Alignment explanation
Indices: 2042224--2042266 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
2042214 CTATTACAAG
2042224 CAATGTATCGATA
1 CAATGTATCGATA
2042237 CAAT-T-TC-AT-
1 CAATGTATCGATA
2042246 C-ATGTATCGATA
1 CAATGTATCGATA
2042258 CAATGTATC
1 CAATGTATC
2042267 AATAGATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
8 2 0.08
9 2 0.08
10 4 0.16
11 4 0.16
12 2 0.08
13 11 0.44
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2042367 original size:19 final size:19
Alignment explanation
Indices: 2042322--2042375 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
2042312 CTTCCAATCT
*
2042322 CATGTATCGATACAATTGT
1 CATGTATCGATACAATTGG
2042341 CTATGTATCGATACAA-TGAG
1 C-ATGTATCGATACAATTG-G
2042361 CATGTATCGATACAA
1 CATGTATCGATACAA
2042376 AGCATAATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (19 bp):
CATGTATCGATACAATTGG
Found at i:2042387 original size:20 final size:19
Alignment explanation
Indices: 2042343--2042394 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
2042333 ACAATTGTCT
* *
2042343 ATGTATCGATACAATGAGC
1 ATGTATCGATACAAAGAGA
*
2042362 ATGTATCGATACAAAGCATA
1 ATGTATCGATACAAAG-AGA
*
2042382 ATGTATGGATACA
1 ATGTATCGATACA
2042395 TCTGGGAGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.27
Consensus pattern (19 bp):
ATGTATCGATACAAAGAGA
Found at i:2045377 original size:32 final size:32
Alignment explanation
Indices: 2045336--2045411 Score: 125
Period size: 32 Copynumber: 2.4 Consensus size: 32
2045326 AATCTTATTT
* *
2045336 TCACTGTTCATCACTGTTCATGTATCGATACG
1 TCACTGTTCATCACTATTCATGTATCGATACA
*
2045368 TCACTGTTCATTACTATTCATGTATCGATACA
1 TCACTGTTCATCACTATTCATGTATCGATACA
2045400 TCACTGTTCATC
1 TCACTGTTCATC
2045412 CTTATTAGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (32 bp):
TCACTGTTCATCACTATTCATGTATCGATACA
Found at i:2051926 original size:34 final size:33
Alignment explanation
Indices: 2051885--2051954 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
2051875 CCGTTACAAG
*
2051885 CAATGTATCGATACAATT-TCATCATGAATCGATA
1 CAATGTATCGATAC-ATTGTC-CCATGAATCGATA
*
2051919 CAATGTATCGATACATTGTCCCATGTATCGATA
1 CAATGTATCGATACATTGTCCCATGAATCGATA
2051952 CAA
1 CAA
2051955 ATAGTGATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 17 0.52
34 16 0.48
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (33 bp):
CAATGTATCGATACATTGTCCCATGAATCGATA
Found at i:2051930 original size:13 final size:13
Alignment explanation
Indices: 2051885--2051933 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
2051875 CCGTTACAAG
2051885 CAATGTATCGATA
1 CAATGTATCGATA
2051898 CAAT-T-TC-AT-
1 CAATGTATCGATA
*
2051907 C-ATGAATCGATA
1 CAATGTATCGATA
2051919 CAATGTATCGATA
1 CAATGTATCGATA
2051932 CA
1 CA
2051934 TTGTCCCATG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
8 2 0.07
9 1 0.03
10 4 0.14
11 4 0.14
12 2 0.07
13 16 0.55
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2052028 original size:19 final size:19
Alignment explanation
Indices: 2051983--2052056 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
2051973 TTGCCAATCT
*
2051983 CATGTATCGATACAAT-TG
1 CATGTATCGATACAATAAG
2052001 TCTATGTATCGATACAATAAG
1 -C-ATGTATCGATACAATAAG
2052022 CATGTATCGATACAATAAG
1 CATGTATCGATACAATAAG
2052041 CATGTATCGATACAAT
1 CATGTATCGATACAAT
2052057 GTATCGATAC
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 35 0.67
20 16 0.31
21 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (19 bp):
CATGTATCGATACAATAAG
Found at i:2052036 original size:39 final size:38
Alignment explanation
Indices: 2051983--2052056 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 38
2051973 TTGCCAATCT
*
2051983 CATGTATCGATACAAT-TGTCTATGTATCGATACAATAAG
1 CATGTATCGATACAATAAG-C-ATGTATCGATACAATAAG
2052022 CATGTATCGATACAATAAGCATGTATCGATACAAT
1 CATGTATCGATACAATAAGCATGTATCGATACAAT
2052057 GTATCGATAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
38 15 0.45
39 17 0.52
40 1 0.03
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (38 bp):
CATGTATCGATACAATAAGCATGTATCGATACAATAAG
Found at i:2052060 original size:13 final size:13
Alignment explanation
Indices: 2052042--2052068 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2052032 TACAATAAGC
2052042 ATGTATCGATACA
1 ATGTATCGATACA
2052055 ATGTATCGATACA
1 ATGTATCGATACA
2052068 A
1 A
2052069 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2052384 original size:27 final size:27
Alignment explanation
Indices: 2052354--2053560 Score: 1060
Period size: 27 Copynumber: 44.1 Consensus size: 27
2052344 GATCCTAACA
* *
2052354 GCACCCTTTAAACTACACAACTCCGTG
1 GCACCCTTTAAAGTCCACAACTCCGTG
*
2052381 GCACCATTTTAAAGTCCACAACTCCGTG
1 GCACC-CTTTAAAGTCCACAACTCCGTG
* *
2052409 GCATCCTTTTAAGTCCACAACTCCGTG
1 GCACCCTTTAAAGTCCACAACTCCGTG
* *
2052436 GTA-CCTTTCTAAGTCCACAACTCCGTG
1 GCACCCTTT-AAAGTCCACAACTCCGTG
* * *
2052463 GCATCCTTTTAAAGTCCATAACTCTGTG
1 GCA-CCCTTTAAAGTCCACAACTCCGTG
* ** * **
2052491 GTACCCTTTTCAGTCCAGAACTTTGTG
1 GCACCCTTTAAAGTCCACAACTCCGTG
*
2052518 ACACCCTTTTAAAGTCCATC-ACTCCGTG
1 GCACCC-TTTAAAGTCCA-CAACTCCGTG
**
2052546 GCACCCTTTTAAA-TGCCACAACTCTATG
1 GCACCC-TTTAAAGT-CCACAACTCCGTG
* * *
2052574 GCATCCTTTTAAGTCCACAACTTCGTG
1 GCACCCTTTAAAGTCCACAACTCCGTG
** *
2052601 GTGCCCTTTTAAAGTCCACAACTCTGTG
1 GCACCC-TTTAAAGTCCACAACTCCGTG
2052629 GCACCCTTTTAAAGTCCACAACTCCGTG
1 GCACCC-TTTAAAGTCCACAACTCCGTG
*
2052657 GCACCCTTTTAAGTCCACAACTCCGTG
1 GCACCCTTTAAAGTCCACAACTCCGTG
* *
2052684 GCACCCTTTTAAGTCCATAACTCCGTG
1 GCACCCTTTAAAGTCCACAACTCCGTG
* * * *
2052711 GCATCCTTTTAAGTCCACATCTCTGTG
1 GCACCCTTTAAAGTCCACAACTCCGTG
2052738 GCACCCTTTAAAGTCCACAACTCCGTG
1 GCACCCTTTAAAGTCCACAACTCCGTG
* * * *
2052765 GCATCCTTTTAAGTCCATAACTCTGTG
1 GCACCCTTTAAAGTCCACAACTCCGTG
* * *
2052792 GCATCCTTTTAAAGTCCACAATTCTGTG
1 GCA-CCCTTTAAAGTCCACAACTCCGTG
* *
2052820 GCACCCTTTTAAGTCCACAACTCTGTG
1 GCACCCTTTAAAGTCCACAACTCCGTG
*
2052847 GCATCCTTATAAAGTCCACAACTCCGTG
1 GCACCCTT-TAAAGTCCACAACTCCGTG
***
2052875 GCACCCCTTT-AAGTCCACAACTTTATG
1 GCA-CCCTTTAAAGTCCACAACTCCGTG
*
2052902 GCACCCTTTTAAGTCCACAACTCCGTG
1 GCACCCTTTAAAGTCCACAACTCCGTG
*
2052929 GCACCCTTTAAAGTCCACAACTCCGTA
1 GCACCCTTTAAAGTCCACAACTCCGTG
* *
2052956 GTACTCTTTTAAAGTCCACAACTCCGTG
1 GCAC-CCTTTAAAGTCCACAACTCCGTG
* * * * *
2052984 ACATCCTTTTAAGTTCACATCTCCGTG
1 GCACCCTTTAAAGTCCACAACTCCGTG
* * *
2053011 GTACCTTTTTAAAGTCCACAACTTCGTG
1 GCACC-CTTTAAAGTCCACAACTCCGTG
* *
2053039 GCACCCTTTTAAGTCCACAACTCTGTG
1 GCACCCTTTAAAGTCCACAACTCCGTG
* * * *
2053066 GCACTCTTTTAAAGTCTACCATTCCGTG
1 GCAC-CCTTTAAAGTCCACAACTCCGTG
* * * *
2053094 TCACCTTTTTAGGTCCACAACTCCGTG
1 GCACCCTTTAAAGTCCACAACTCCGTG
* * *
2053121 GCA-CCTATTTAAGTCCATAACTTCGTG
1 GCACCCT-TTAAAGTCCACAACTCCGTG
2053148 GCACCCTTTTAAAGTCCAC-ACTCCGTG
1 GCACCC-TTTAAAGTCCACAACTCCGTG
* * *** *
2053175 GCATCCTTTTAAGTCTTTAACTCTGTG
1 GCACCCTTTAAAGTCCACAACTCCGTG
* * *
2053202 GTACCCTTTAAAGTCCACTACTCTGTG
1 GCACCCTTTAAAGTCCACAACTCCGTG
* * * *
2053229 GCATCCTTTTAAGCCCATAACTCCGTG
1 GCACCCTTTAAAGTCCACAACTCCGTG
* * **
2053256 GCACCCTTTTAAGTCCACAGCTCTATG
1 GCACCCTTTAAAGTCCACAACTCCGTG
* * *
2053283 GCACCCTTTTAGGTCCACAACTCTGTG
1 GCACCCTTTAAAGTCCACAACTCCGTG
* **
2053310 GCACCCTTTTAAAGTCTACAACTCTATG
1 GCACCC-TTTAAAGTCCACAACTCCGTG
* *
2053338 ACACCCTTTTAAAGTCCACCACTCCGTG
1 GCACCC-TTTAAAGTCCACAACTCCGTG
* * * *
2053366 GCACCCTTTTAGGTCCATAACTCCATG
1 GCACCCTTTAAAGTCCACAACTCCGTG
* * *
2053393 GCA-CCTATTTAAGTCCACAACTTCATG
1 GCACCCT-TTAAAGTCCACAACTCCGTG
* * * **
2053420 GTACCGTTTTAAGTCCACAACTTTGTG
1 GCACCCTTTAAAGTCCACAACTCCGTG
* *
2053447 GCACCCTTTAAAGTCCACAAGTCCATG
1 GCACCCTTTAAAGTCCACAACTCCGTG
* * *
2053474 GCATCCTTTCAAAGCCCACAAGTCCGTG
1 GCACCCTTT-AAAGTCCACAACTCCGTG
* * * ** *
2053502 GCATCATTTGAAAGCCCACAAGACAGTG
1 GCACCCTTT-AAAGTCCACAACTCCGTG
* * * *
2053530 GCACCATTTCAAAGCCCACAAGTCAGTG
1 GCACCCTTT-AAAGTCCACAACTCCGTG
2053558 GCA
1 GCA
2053561 TCATTTCAAA
Statistics
Matches: 968, Mismatches: 187, Indels: 49
0.80 0.16 0.04
Matches are distributed among these distances:
26 24 0.02
27 572 0.59
28 363 0.38
29 9 0.01
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (27 bp):
GCACCCTTTAAAGTCCACAACTCCGTG
Found at i:2052463 original size:54 final size:54
Alignment explanation
Indices: 2052354--2053482 Score: 1224
Period size: 55 Copynumber: 20.7 Consensus size: 54
2052344 GATCCTAACA
* * * * *
2052354 GCACCCTTTAAACTACACAACTCCGTGGCACCATTTTAAAGTCCACAACTCCGTG
1 GCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCTGTG
* * *
2052409 GCATCCTTTTAAGTCCACAACTCCGTGGTA-CCTTTCTAAGTCCACAACTCCGTG
1 GCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCTGTG
* * * * * * *
2052463 GCATCCTTTTAAAGTCCATAACTCTGTGGTACCCTTTTCAGTCCAGAACTTTGTG
1 GCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTG
* * *
2052518 ACACCCTTTTAAAGTCCATC-ACTCCGTGGCACCCTTTTAAATGCCACAACTCTATG
1 GCACCCTTTT-AAGTCCA-CAACTCCGTGGCACCCTTTTAAGT-CCACAACTCTGTG
* * **
2052574 GCATCCTTTTAAGTCCACAACTTCGTGGTGCCCTTTTAAAGTCCACAACTCTGTG
1 GCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCTGTG
*
2052629 GCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTG
1 GCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTG
* * *
2052684 GCACCCTTTTAAGTCCATAACTCCGTGGCATCCTTTTAAGTCCACATCTCTGTG
1 GCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTG
* * *
2052738 GCACCCTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCATAACTCTGTG
1 GCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTG
* * *
2052792 GCATCCTTTTAAAGTCCACAATTCTGTGGCACCCTTTTAAGTCCACAACTCTGTG
1 GCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTG
* * * * *
2052847 GCATCCTTATAAAGTCCACAACTCCGTGGCACCCCTTTAAGTCCACAACTTTATG
1 GCACCCTT-TTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTG
* * *
2052902 GCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTA
1 GCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTG
* * * * * * *
2052956 GTACTCTTTTAAAGTCCACAACTCCGTGACATCCTTTTAAGTTCACATCTCCGTG
1 GCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTG
* * *
2053011 GTACCTTTTTAAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCTGTG
1 GCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTG
* * * * * * * *
2053066 GCACTCTTTTAAAGTCTACCATTCCGTGTCACCTTTTTAGGTCCACAACTCCGTG
1 GCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTG
* * *
2053121 GCA-CCTATTTAAGTCCATAACTTCGTGGCACCCTTTTAAAGTCCAC-ACTCCGTG
1 GCACCCT-TTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCTGTG
* *** * * * *
2053175 GCATCCTTTTAAGTCTTTAACTCTGTGGTACCCTTTAAAGTCCACTACTCTGTG
1 GCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTG
* * * * *
2053229 GCATCCTTTTAAGCCCATAACTCCGTGGCACCCTTTTAAGTCCACAGCTCTATG
1 GCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTG
* * * *
2053283 GCACCCTTTTAGGTCCACAACTCTGTGGCACCCTTTTAAAGTCTACAACTCTATG
1 GCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCTGTG
* * * * **
2053338 ACACCCTTTTAAAGTCCACCACTCCGTGGCACCCTTTTAGGTCCATAACTCCATG
1 GCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTG
* * * * *
2053393 GCA-CCTATTTAAGTCCACAACTTCATGGTACCGTTTTAAGTCCACAACTTTGTG
1 GCACCCT-TTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTG
* * * *
2053447 GCACCCTTTAAAGTCCACAAGTCCATGGCATCCTTT
1 GCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
2053483 CAAAGCCCAC
Statistics
Matches: 909, Mismatches: 146, Indels: 39
0.83 0.13 0.04
Matches are distributed among these distances:
53 8 0.01
54 381 0.42
55 445 0.49
56 75 0.08
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (54 bp):
GCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTG
Found at i:2053494 original size:28 final size:28
Alignment explanation
Indices: 2053444--2054364 Score: 846
Period size: 28 Copynumber: 32.4 Consensus size: 28
2053434 CCACAACTTT
* *
2053444 GTGGCACCCTTT-AAAGTCCACAAGTCCA
1 GTGGCATCCTTTCAAAGCCCACAAGT-CA
*
2053472 -TGGCATCCTTTCAAAGCCCACAAGTCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * *
2053499 GTGGCATCATTTGAAAGCCCACAAGACA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
2053527 GTGGCA-CCATTTCAAAGCCCACAAGTCA
1 GTGGCATCC-TTTCAAAGCCCACAAGTCA
* *
2053555 GTGGCATCATTTCAAAGCCCATAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* *
2053583 GTGGCAACTCATTTTAAAGTCCACACAAGTCA
1 GTGGC-A-TCCTTTCAAAG-CC-CACAAGTCA
* * * * *
2053615 GTAGCAACTCATTTGATAGCCCACACAAGTTA
1 GTGGC-A-TCCTTTCAAAG-CC-CACAAGTCA
* * *
2053647 GTGGCAACCCATTTCAAA-CCCTACAACTCT
1 GTGGC-ATCC-TTTCAAAGCCC-ACAAGTCA
**
2053677 GTGGCAT-CTTTTTAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
2053704 GTGGCATCCTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* *
2053732 GTGGCA-CCATTTCAAAGCTCACAAGTTA
1 GTGGCATCC-TTTCAAAGCCCACAAGTCA
* *
2053760 GTGGCACCCTTTCAAAGCCCACAAGTTA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * *
2053788 GTGGCACCCTTTCAAAGCTCACAAGTTA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* *
2053816 GTAGCA-CCTTTTCCAAGCCCACAAGTCA
1 GTGGCATCC-TTTCAAAGCCCACAAGTCA
* *
2053844 ATGGCA-CCTTTTCAAAGCCCACAAGTTA
1 GTGGCATCC-TTTCAAAGCCCACAAGTCA
* * *
2053872 ATGGCATCTTTTCCAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * *
2053900 GTGG-AACCTTTTCAAAGCCCCCAAGTCT
1 GTGGCATCC-TTTCAAAGCCCACAAGTCA
** * *
2053928 GTGGCATTTTTTC-AAGCCCATAAGTTA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * *
2053955 GTGGCATCTTTTCCAAGCCTAAAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
2053983 GTGGCATCCTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* *
2054011 GTGGCATCATTTCAAAGCCCACAAGTTA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * *
2054039 ATGGCA-CTATTTCAAAGCCCATAAGTCA
1 GTGGCATC-CTTTCAAAGCCCACAAGTCA
*
2054067 GTGGCATCATTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* *
2054095 GTGGCATCTTTTCAAAGCCCATAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* *
2054123 GTGGCA-CTATTTCAAAACCCACAAGTCA
1 GTGGCATC-CTTTCAAAGCCCACAAGTCA
* *
2054151 ATGGCAT-CTTTCAAAGCCCATAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* *
2054178 GTGGCATCTTTTTAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
*
2054206 GTGGCATCCTTTCAAAGCCCACAAGTTA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * *
2054234 GTGGCATCATTTCAAAACCCACAAGTTA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
*
2054262 GTGGCA-CCATTTCAAAACCCACAAGTCA
1 GTGGCATCC-TTTCAAAGCCCACAAGTCA
* * * *
2054290 ATGGCATACCATTTTAAACCCCACACGAGTCG
1 GTGGCAT-CC-TTTCAAAGCCCACA--AGTCA
* * *
2054322 GTGGTAACTCTTTTCAAAGCCCACACAAGTTA
1 GTGG-CA-TCCTTTCAAAG-CC-CACAAGTCA
2054354 GTGGCA-CCTTT
1 GTGGCATCCTTT
2054365 TTTTAAAACC
Statistics
Matches: 750, Mismatches: 110, Indels: 65
0.81 0.12 0.07
Matches are distributed among these distances:
27 84 0.11
28 537 0.72
29 13 0.02
30 37 0.05
31 4 0.01
32 66 0.09
33 4 0.01
34 5 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (28 bp):
GTGGCATCCTTTCAAAGCCCACAAGTCA
Found at i:2053534 original size:164 final size:162
Alignment explanation
Indices: 2052354--2053522 Score: 1187
Period size: 164 Copynumber: 7.1 Consensus size: 162
2052344 GATCCTAACA
* * * ** *
2052354 GCACCCTTTAAACTACACAACTCCGTGGCACCATTTTAAAGTCCACAACTCCGTGGCATCCTTTT
1 GCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCTATGGCACCCTTTT
* * * *
2052419 AAGTCCACAACTCCGTGGTA-CCTTTCTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCATA
65 AAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCTGTGGCA-CCCTTTAAAGTCCACA
* * ** * **
2052483 ACTCTGTGGTACCCTTTTCAGTCCAGAACTTTGTG
128 ACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTG
* * *
2052518 ACACCCTTTTAAAGTCCATC-ACTCCGTGGCACCCTTTTAAATGCCACAACTCTATGGCATCCTT
1 GCACCC-TTTAAAGTCCA-CAACTCCGTGGCACCCTTTTAAGT-CCACAACTCTATGGCACCCTT
* **
2052582 TTAAGTCCACAACTTCGTGGTGCCCTTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCA
63 TTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCTGTGGCACCC-TTTAAAGTCCA
*
2052647 CAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTG
126 CAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTG
* * * * * *
2052684 GCACCCTTTTAAGTCCATAACTCCGTGGCATCCTTTTAAGTCCACATCTCTGTGGCACCCTTTAA
1 GCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTATGGCACCCTTTTA
* * * *
2052749 AGTCCACAACTCCGTGGCATCCTTTTAAGTCCATAACTCTGTGGCATCCTTTTAAAGTCCACAAT
66 AGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCA-CCCTTTAAAGTCCACAAC
* * *
2052814 TCTGTGGCACCCTTTTAAGTCCACAACTCTGTG
130 TCCGTGGCACCCTTTAAAGTCCACAACTCCGTG
* * *
2052847 GCATCCTTATAAAGTCCACAACTCCGTGGCACCCCTTTAAGTCCACAACTTTATGGCACCCTTTT
1 GCACCCTT-TAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTATGGCACCCTTTT
* * * * *
2052912 AAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTAGTACTCTTTTAAAGTCCACAA
65 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCAC-CCTTTAAAGTCCACAA
* * * * *
2052977 CTCCGTGACATCCTTTTAAGTTCACATCTCCGTG
129 CTCCGTGGCACCCTTTAAAGTCCACAACTCCGTG
* * * * *
2053011 GTACCTTTTTAAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACTCTTTT
1 GCACC-CTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTATGGCACCCTTTT
* * * * * * * * *
2053076 AAAGTCTACCATTCCGTGTCACCTTTTTAGGTCCACAACTCCGTGGCA-CCTATTTAAGTCCATA
65 -AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCCT-TTAAAGTCCACA
*
2053140 ACTTCGTGGCACCCTTTTAAAGTCCAC-ACTCCGTG
128 ACTCCGTGGCACCC-TTTAAAGTCCACAACTCCGTG
* * *** * * * * * *
2053175 GCATCCTTTTAAGTCTTTAACTCTGTGGTACCCTTTAAAGTCCACTACTCTGTGGCATCCTTTTA
1 GCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTATGGCACCCTTTTA
* * * * * *
2053240 AGCCCATAACTCCGTGGCACCCTTTTAAGTCCACAGCTCTATGGCACCCTTTTAGGTCCACAACT
66 AGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCCTTTAAAGTCCACAACT
* * **
2053305 CTGTGGCACCCTTTTAAAGTCTACAACTCTATG
131 CCGTGGCACCC-TTTAAAGTCCACAACTCCGTG
* * * * *
2053338 ACACCCTTTTAAAGTCCACCACTCCGTGGCACCCTTTTAGGTCCATAACTCCATGGCA-CCTATT
1 GCACCC-TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTATGGCACCCT-TT
* * * * *
2053402 TAAGTCCACAACTTCATGGTACCGTTTTAAGTCCACAACTTTGTGGCACCCTTTAAAGTCCACAA
64 TAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCCTTTAAAGTCCACAA
* * * * *
2053467 GTCCATGGCATCCTTTCAAAGCCCACAAGTCCGTG
129 CTCCGTGGCACCCTTT-AAAGTCCACAACTCCGTG
* * *
2053502 GCATCATTTGAAAGCCCACAA
1 GCACCCTTT-AAAGTCCACAA
2053523 GACAGTGGCA
Statistics
Matches: 829, Mismatches: 156, Indels: 40
0.81 0.15 0.04
Matches are distributed among these distances:
162 70 0.08
163 143 0.17
164 397 0.48
165 148 0.18
166 71 0.09
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.30
Consensus pattern (162 bp):
GCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTATGGCACCCTTTTA
AGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCCTTTAAAGTCCACAACT
CCGTGGCACCCTTTAAAGTCCACAACTCCGTG
Found at i:2054539 original size:49 final size:45
Alignment explanation
Indices: 2054434--2054556 Score: 120
Period size: 49 Copynumber: 2.6 Consensus size: 45
2054424 AAGTCCGATA
*
2054434 TCGCTGGCATTGAATCAGCATATTGGCACCTTTATTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTATTAGCCCAATG
* * * * *
2054479 TTGCCGACCTTGAATCAGCATATTGGTCCACTTTTCCTTTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCATATTGG--CACCTTT--ATTAGCCCAATG
* ** *
2054528 TCGTTGGCCTTGAATTGGCACATTGGCAC
1 TCGCTGGCCTTGAATCAGCATATTGGCAC
2054557 TCTTCTCATC
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
45 22 0.36
47 9 0.15
49 30 0.49
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (45 bp):
TCGCTGGCCTTGAATCAGCATATTGGCACCTTTATTAGCCCAATG
Found at i:2061541 original size:20 final size:20
Alignment explanation
Indices: 2061516--2061557 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
2061506 AAGTAGAAGA
*
2061516 GTTGGCTCGGACAAAATGAG
1 GTTGGCTCAGACAAAATGAG
2061536 GTTGGCTCAGACAAAATGAG
1 GTTGGCTCAGACAAAATGAG
2061556 GT
1 GT
2061558 GTCTACAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.21
Consensus pattern (20 bp):
GTTGGCTCAGACAAAATGAG
Found at i:2061951 original size:156 final size:155
Alignment explanation
Indices: 2061636--2061973 Score: 371
Period size: 156 Copynumber: 2.2 Consensus size: 155
2061626 CCTTTTATTT
*
2061636 ATCATTTTAGTGTCCATTAAGGTTACCGAGATACTTTCAAGTCGAAGGTATACCTTAAGGGCATT
1 ATCATTTTAGTGTCCATTAAGGTTACCGAGATACTTTCAAGTCGAAAGTATACCTTAAGGGCATT
** * * ** ** *
2061701 TTTTGTATTTTTCTAGAATCGAGTCTTAAGCTATCACTGGATACTTTTATGCCGAATATGTGCAT
66 TTTCATAATTTTCTAAAATCGAGTCTTAAGCTATCAAGGGATACTTTTACACCGAAAATGTGCAT
* *
2061766 TTAGGATAGGTTCGTACCATTTACTA
131 TTAAGATAGGTTC-TACCATTTACAA
** * *
2061792 ATCATTTTAGTGTCCATTAAGGTTATTGAGATACTTTCAAGTTGAAAGTATACCTTAAGGGTA-T
1 ATCATTTTAGTGTCCATTAAGGTTACCGAGATACTTTCAAGTCGAAAGTATACCTTAAGGGCATT
* * * * *
2061856 TTTCATAATTTTCTTAAAATTGAGTCTTAGGTTGTCAAAGGGATGCTTTTACACC-AAAACTGTG
66 TTTCATAATTTTC-TAAAATCGAGTCTTAAGCTATC-AAGGGATACTTTTACACCGAAAA-TGTG
2061920 CATTTAAGATAGGTT-TATCTCATTTA-AA
128 CATTTAAGATAGGTTCTA-C-CATTTACAA
* * *
2061948 ATCATTTTA-AGTCCTTTAAGGGTACC
1 ATCATTTTAGTGTCCATTAAGGTTACC
2061974 AAATGCTTCT
Statistics
Matches: 151, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
155 25 0.17
156 89 0.59
157 37 0.25
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.39
Consensus pattern (155 bp):
ATCATTTTAGTGTCCATTAAGGTTACCGAGATACTTTCAAGTCGAAAGTATACCTTAAGGGCATT
TTTCATAATTTTCTAAAATCGAGTCTTAAGCTATCAAGGGATACTTTTACACCGAAAATGTGCAT
TTAAGATAGGTTCTACCATTTACAA
Found at i:2062276 original size:148 final size:148
Alignment explanation
Indices: 2062093--2062360 Score: 389
Period size: 148 Copynumber: 1.8 Consensus size: 148
2062083 TTTGCAACCC
* * *
2062093 TTTTGAAGTCCCTTAGGATCACCAGACACTTCTAAGTAGATGGTAAACTTTAAGGATATTTTAGC
1 TTTTGAAGTCCCTTAGGATCACCAGACACTTCTAAGTAGATGGTAAACCTTAAGGACATTTTACC
* * * *
2062158 ATT-TTCCCGAAACCTAGTCCTATAAAACTATCGGGTTTGCTTCTATGCCGAAGGTTTGATTTAA
66 ATTCTT-CCGAAACCTAGTCCTATAAAAATATCAGATCTGCTTCTATGCCGAAGGTTTGATTTAA
2062222 CAATAGGTTCGCTTTTACT
130 CAATAGGTTCGCTTTTACT
* * *
2062241 TTTTGAAGT-CCTCTAGGATCACC-GAGCACTTCTAAGTTGATGGTAGACCTTAGGGACATTTTA
1 TTTTGAAGTCCCT-TAGGATCACCAGA-CACTTCTAAGTAGATGGTAAACCTTAAGGACATTTTA
*
2062304 CCATTCTTCCGAAACCTAGTCCTATAAAAATATCAGATCTGCTTCTATGTCGAAGGT
64 CCATTCTTCCGAAACCTAGTCCTATAAAAATATCAGATCTGCTTCTATGCCGAAGGT
2062361 ACGAATTAGG
Statistics
Matches: 106, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
147 5 0.05
148 99 0.93
149 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (148 bp):
TTTTGAAGTCCCTTAGGATCACCAGACACTTCTAAGTAGATGGTAAACCTTAAGGACATTTTACC
ATTCTTCCGAAACCTAGTCCTATAAAAATATCAGATCTGCTTCTATGCCGAAGGTTTGATTTAAC
AATAGGTTCGCTTTTACT
Found at i:2062377 original size:148 final size:149
Alignment explanation
Indices: 2062093--2062444 Score: 376
Period size: 148 Copynumber: 2.4 Consensus size: 149
2062083 TTTGCAACCC
* * * * *
2062093 TTTTGAAGTCC-CTTAGGATCACC-AGACACTTCTAAGTAGATGGTAAACTTTAAGGATATTTTA
1 TTTTGAAGTCCTC-TAGGATCACCGAG-CACTTCTAAGTTGATGGTAGACCTTAGGGACATTTTA
* * * * * ** *
2062156 GCATTTTCCCGAAACCTAGTCCTATAAAACTATCGGGTTTGCTTCTATGCCGAAGGTTTGATTTA
64 CCATTTTCCCGAAACCTAGTCCTATAAAAATATCAGATCTGCTTCTATGCCGAAGGTACGAATTA
2062221 ACAATAGGTTCGCTTTTA-CT
129 ACAATAGGTTCGCTTTTATCT
2062241 TTTTGAAGTCCTCTAGGATCACCGAGCACTTCTAAGTTGATGGTAGACCTTAGGGACATTTTACC
1 TTTTGAAGTCCTCTAGGATCACCGAGCACTTCTAAGTTGATGGTAGACCTTAGGGACATTTTACC
* *
2062306 ATTCTT-CCGAAACCTAGTCCTATAAAAATATCAGATCTGCTTCTATGTCGAAGGTACGAATTAG
66 ATT-TTCCCGAAACCTAGTCCTATAAAAATATCAGATCTGCTTCTATGCCGAAGGTACGAATTAA
* * * *
2062370 GAGTAGGTTTGTTTTTATCT
130 CAATAGGTTCGCTTTTATCT
* * ** * * *
2062390 GTTT-AAGTCCTTTAAAATCTCTGAGCACTTCTCTA-TTGATGGTAG-CTCTTAGGGA
1 TTTTGAAGTCCTCTAGGATCACCGAGCACTTCT-AAGTTGATGGTAGAC-CTTAGGGA
2062445 TAGTCTAGTA
Statistics
Matches: 172, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
147 1 0.01
148 160 0.93
149 11 0.06
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (149 bp):
TTTTGAAGTCCTCTAGGATCACCGAGCACTTCTAAGTTGATGGTAGACCTTAGGGACATTTTACC
ATTTTCCCGAAACCTAGTCCTATAAAAATATCAGATCTGCTTCTATGCCGAAGGTACGAATTAAC
AATAGGTTCGCTTTTATCT
Found at i:2067316 original size:20 final size:20
Alignment explanation
Indices: 2067291--2067347 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
2067281 TACCCAGATG
*
2067291 TATCGATACATTTTTCAATA
1 TATCGATACATTTATCAATA
* * *
2067311 TATCGATACATGTATGAATG
1 TATCGATACATTTATCAATA
2067331 TATCGATACATTCTATC
1 TATCGATACATT-TATC
2067348 TTTTTACCTA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 27 0.90
21 3 0.10
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (20 bp):
TATCGATACATTTATCAATA
Found at i:2068921 original size:13 final size:13
Alignment explanation
Indices: 2068903--2068928 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2068893 TACAGCAAGT
2068903 ATGTATCGATACA
1 ATGTATCGATACA
2068916 ATGTATCGATACA
1 ATGTATCGATACA
2068929 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2070307 original size:13 final size:13
Alignment explanation
Indices: 2070289--2070314 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2070279 TACAGCAAGT
2070289 ATGTATCGATACA
1 ATGTATCGATACA
2070302 ATGTATCGATACA
1 ATGTATCGATACA
2070315 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2072346 original size:22 final size:21
Alignment explanation
Indices: 2072319--2072368 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
2072309 TTGCAAGTTG
*
2072319 AAATAAAGAAGTTGGCTAA-AGA
1 AAATAAAG-AGTTAGCTAAGA-A
*
2072341 AAATAATGAGTTAGCTAAGAA
1 AAATAAAGAGTTAGCTAAGAA
2072362 AAATAAA
1 AAATAAA
2072369 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.58, C:0.04, G:0.18, T:0.20
Consensus pattern (21 bp):
AAATAAAGAGTTAGCTAAGAA
Found at i:2076063 original size:8 final size:8
Alignment explanation
Indices: 2076050--2076081 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
2076040 ATTTGATTAA
2076050 ATTTTGTG
1 ATTTTGTG
2076058 ATTTTGTG
1 ATTTTGTG
2076066 ATTTTGTG
1 ATTTTGTG
2076074 ATTTTGTG
1 ATTTTGTG
2076082 TTGAATGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.12, C:0.00, G:0.25, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:2076302 original size:13 final size:13
Alignment explanation
Indices: 2076284--2076309 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2076274 CATTTTTTCT
2076284 TTGTATCGATACA
1 TTGTATCGATACA
2076297 TTGTATCGATACA
1 TTGTATCGATACA
2076310 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2078861 original size:13 final size:13
Alignment explanation
Indices: 2078843--2078868 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2078833 TACAGCAAGT
2078843 ATGTATCGATACA
1 ATGTATCGATACA
2078856 ATGTATCGATACA
1 ATGTATCGATACA
2078869 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2086138 original size:20 final size:21
Alignment explanation
Indices: 2086103--2086147 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
2086093 CTATAATTTG
2086103 TATCGATACAACAAGTGAATA
1 TATCGATACAACAAGTGAATA
*
2086124 TATCGATAC-ACAAGTGAATG
1 TATCGATACAACAAGTGAATA
2086144 TATC
1 TATC
2086148 AAACATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (21 bp):
TATCGATACAACAAGTGAATA
Found at i:2086288 original size:51 final size:52
Alignment explanation
Indices: 2086209--2086346 Score: 163
Period size: 52 Copynumber: 2.7 Consensus size: 52
2086199 TTCGGAAAGA
* * * *
2086209 AAATGCATCGATACATT-TTCATTGTATCGATACATTAT-GGGTTTTAATCT
1 AAATGTATCAATACATTCTTCATTGTATCGATACATTATAGGGTTTTAACCC
* * *
2086259 AAATGTATCAATACATTCTTCATTGTATCGATACATTCTAGGTTTTTGACCC
1 AAATGTATCAATACATTCTTCATTGTATCGATACATTATAGGGTTTTAACCC
* * * *
2086311 AAATGTATTAATACATTCCTCAATGTATTGATACAT
1 AAATGTATCAATACATTCTTCATTGTATCGATACAT
2086347 CTAGTTAAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
50 15 0.20
51 20 0.27
52 40 0.53
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.41
Consensus pattern (52 bp):
AAATGTATCAATACATTCTTCATTGTATCGATACATTATAGGGTTTTAACCC
Found at i:2089239 original size:20 final size:21
Alignment explanation
Indices: 2089211--2089249 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2089201 CATATGAGAT
2089211 TAAAATTTTTTAT-CAAAACC
1 TAAAATTTTTTATACAAAACC
*
2089231 TAAATTTTTTTATACAAAA
1 TAAAATTTTTTATACAAAA
2089250 TTCATGCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAAATTTTTTATACAAAACC
Found at i:2089990 original size:14 final size:14
Alignment explanation
Indices: 2089953--2089982 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2089943 ATCGTTCATC
2089953 AAGAGCA-TATCAA
1 AAGAGCATTATCAA
2089966 AAGAGCATTATCAA
1 AAGAGCATTATCAA
2089980 AAG
1 AAG
2089983 CACCTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.53, C:0.13, G:0.17, T:0.17
Consensus pattern (14 bp):
AAGAGCATTATCAA
Found at i:2092571 original size:33 final size:32
Alignment explanation
Indices: 2092516--2092580 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
2092506 TTAGAAGCAA
*
2092516 TGTATCGATACAATTCATCATGTATTGATACAT
1 TGTATCGATACAATTCA-CATGTATCGATACAT
2092549 TGTATCGATACAATATGC-CATGTATCGATACA
1 TGTATCGATACAAT-T-CACATGTATCGATACA
2092581 AACAGTGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAATTCACATGTATCGATACAT
Found at i:2092652 original size:19 final size:19
Alignment explanation
Indices: 2092611--2092714 Score: 58
Period size: 19 Copynumber: 5.7 Consensus size: 19
2092601 TGCCAGTTTC
* ***
2092611 ATGTATCGATACATTGTCC
1 ATGTATCGATACAATGAAT
2092630 ATGTATCGATACAATGAAT
1 ATGTATCGATACAATGAAT
*
2092649 ATGTATCAATAC-AT---T
1 ATGTATCGATACAATGAAT
* *
2092664 A--TATCGATACAAAGCAT
1 ATGTATCGATACAATGAAT
* *
2092681 AATGTATCGATACATTTGAGT
1 -ATGTATCGATACA-ATGAAT
*
2092702 GTGTATCGATACA
1 ATGTATCGATACA
2092715 TTCAAGGGTT
Statistics
Matches: 65, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
13 8 0.12
14 1 0.02
15 2 0.03
17 1 0.02
18 3 0.05
19 26 0.40
20 22 0.34
21 2 0.03
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (19 bp):
ATGTATCGATACAATGAAT
Found at i:2092674 original size:32 final size:33
Alignment explanation
Indices: 2092633--2092696 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
2092623 ATTGTCCATG
*
2092633 TATCGATACAATGAAT-ATGTATCAATACATTA
1 TATCGATACAAAGAATAATGTATCAATACATTA
* *
2092665 TATCGATACAAAGCATAATGTATCGATACATT
1 TATCGATACAAAGAATAATGTATCAATACATT
2092697 TGAGTGTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (33 bp):
TATCGATACAAAGAATAATGTATCAATACATTA
Found at i:2101513 original size:19 final size:20
Alignment explanation
Indices: 2101469--2101521 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
2101459 CTGCCAGTTT
* **
2101469 CATGTATCAATACAATTGTC
1 CATGTATCGATACAATTGAA
2101489 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
2101508 CATGTATCGATACA
1 CATGTATCGATACA
2101522 TCTAGGTGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:2103188 original size:28 final size:28
Alignment explanation
Indices: 2103157--2103211 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
2103147 TCATCAGATT
2103157 AAACTTATATTTTAGCTTACCTAAGTTC
1 AAACTTATATTTTAGCTTACCTAAGTTC
* *
2103185 AAACTTGTATTTTAGCTTACTTAAGTT
1 AAACTTATATTTTAGCTTACCTAAGTT
2103212 AAATTCAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (28 bp):
AAACTTATATTTTAGCTTACCTAAGTTC
Found at i:2103770 original size:28 final size:28
Alignment explanation
Indices: 2103730--2103785 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
2103720 ATTAGATTAG
2103730 ACTTATATTTCAGCTTACCTAAGTTCAA
1 ACTTATATTTCAGCTTACCTAAGTTCAA
2103758 ACTTATATTTCAGCTTACCTAAGTTCAA
1 ACTTATATTTCAGCTTACCTAAGTTCAA
2103786 TTCAAATTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.39
Consensus pattern (28 bp):
ACTTATATTTCAGCTTACCTAAGTTCAA
Found at i:2104490 original size:99 final size:99
Alignment explanation
Indices: 2104317--2104515 Score: 335
Period size: 99 Copynumber: 2.0 Consensus size: 99
2104307 AAGAAAAAAT
* *
2104317 GATGGCAATTGAGGAATCCAAGGATCCCTACACACTTTCCTTGGATGAACTTATAAGTTCTCTCC
1 GATGGCAATTGAGGAATCCAAGGATCCCTACACACTCTCCTTGCATGAACTTATAAGTTCTCTCC
* *
2104382 TAACTTATAAAATGAAGATCAAACATGGTCAAGA
66 TAACCTATAAAATGAAGACCAAACATGGTCAAGA
* * *
2104416 GATGGCAATTGAGGAATCCAAGGATCCCTATACACTCTCCTTGCATTAACTTATAAGTTCTTTCC
1 GATGGCAATTGAGGAATCCAAGGATCCCTACACACTCTCCTTGCATGAACTTATAAGTTCTCTCC
2104481 TAACCTATAAAATGAAGACCAAACATGGTCAAGA
66 TAACCTATAAAATGAAGACCAAACATGGTCAAGA
2104515 G
1 G
2104516 CCACCAAAGA
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 93 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (99 bp):
GATGGCAATTGAGGAATCCAAGGATCCCTACACACTCTCCTTGCATGAACTTATAAGTTCTCTCC
TAACCTATAAAATGAAGACCAAACATGGTCAAGA
Found at i:2109350 original size:13 final size:13
Alignment explanation
Indices: 2109332--2109356 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2109322 CAAAGATTAG
2109332 TGTATCGATACAA
1 TGTATCGATACAA
2109345 TGTATCGATACA
1 TGTATCGATACA
2109357 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2109437 original size:13 final size:13
Alignment explanation
Indices: 2109419--2109443 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2109409 CAAAAAAATA
2109419 TGTATCGATACAT
1 TGTATCGATACAT
2109432 TGTATCGATACA
1 TGTATCGATACA
2109444 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2110268 original size:49 final size:49
Alignment explanation
Indices: 2110108--2110658 Score: 654
Period size: 49 Copynumber: 11.8 Consensus size: 49
2110098 AAAATGATGT
* * *
2110108 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGC
*
2110160 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----A-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
* *
2110203 CAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGAAGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
*
2110252 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----A-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
* *
2110295 CAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGAAGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
* * *
2110344 CAATATGCTGATCCAAGGCCAGCTATATTGGGCTT-----AG-AGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
*
2110387 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
*
2110436 CAATATGCTGATTCAAGGCCAGCGACATTGGACTT-----A-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
* * *
2110479 CAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
*
2110528 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT--AGAAG--GGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
* * * * *
2110573 CAATGTGCAGATTCAAGGCCAGTTATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
* *
2110622 CAATATGCTGATTCAAGGCTAGCTATATTGGACTTAA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAA
2110659 TGGAAGATGC
Statistics
Matches: 432, Mismatches: 39, Indels: 59
0.82 0.07 0.11
Matches are distributed among these distances:
43 154 0.36
44 5 0.01
45 37 0.09
47 8 0.02
48 4 0.01
49 192 0.44
52 32 0.07
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
Found at i:2110282 original size:92 final size:92
Alignment explanation
Indices: 2110108--2110658 Score: 913
Period size: 92 Copynumber: 5.9 Consensus size: 92
2110098 AAAATGATGT
* *
2110108 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGCCAATATGCTGATT
2110173 CAAGGCCAGCTATATTGGACTTAAAGGTGC
63 CAAGGCCAGCTATATTGGACTTAAAGGTGC
*
2110203 CAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
2110268 GGCCAGCTATATTGGACTTAAAGGTGC
66 GGCCAGCTATATTGGACTTAAAGGTGC
* *
2110295 CAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATCCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
* *
2110360 GGCCAGCTATATTGGGCTTAGAGGTGC
66 GGCCAGCTATATTGGACTTAAAGGTGC
2110387 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
* *
2110452 GGCCAGCGACATTGGACTTAAAGGTGC
66 GGCCAGCTATATTGGACTTAAAGGTGC
* *
2110479 CAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
2110544 GGCCAGCTATATTGGACTTAGAAGGGTGC
66 GGCCAGCTATATTGGACTTA-AA-GGTGC
* * * *
2110573 CAATGTGCAGATTCAAGGCCAGTTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
*
2110638 GGCTAGCTATATTGGACTTAA
66 GGCCAGCTATATTGGACTTAA
2110659 TGGAAGATGC
Statistics
Matches: 433, Mismatches: 21, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
92 307 0.71
93 3 0.01
94 85 0.20
95 38 0.09
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (92 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAAAGGTGC
Found at i:2110703 original size:33 final size:32
Alignment explanation
Indices: 2110666--2110729 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
2110656 TAATGGAAGA
*
2110666 TGCCACCAACTTGTGTGGGCTTTTGAAGAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAG-AGAAGGT
*
2110699 TGCCACCGACTTGTGTGGGCTTTAGAGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAGAGAAGG
2110730 GTGAAAGATG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 6 0.21
33 23 0.79
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (32 bp):
TGCCACCAACTTGTGTGGGCTTTAGAGAAGGT
Found at i:2110857 original size:100 final size:98
Alignment explanation
Indices: 2110746--2111389 Score: 495
Period size: 100 Copynumber: 6.7 Consensus size: 98
2110736 GATGCCACAA
2110746 AGTTGTGGACTTAAAAGGAACAAGGTGCCACGAAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCC
1 AGTTGTGGACTTAAAA-GAA-AAGGTGCCACGAAGTTGTGGACTTTAAAA-GGAAAAAGAGTGCC
* **
2110811 ACGGAGTTGTGGGCTTTGAA-AAGAAGGTGCCACGG
63 ACGGAGTTGTGGACTTAAAAGAAGAAGGTGCCACGG
* * * *
2110846 AGTCGTAGACTTAAAAGGAACAAGGTGCCACG-GGATTGTGGACTTTAAAAGGGGAAAAGAGTGC
1 AGTTGTGGACTTAAAA-GAA-AAGGTGCCACGAAG-TTGTGGACTTTAAAA-GGAAAAAGAGTGC
* *
2110910 CACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGG
62 CACGGAGTTGTGGACTTA-AAAGAAGAAG-GTGCCACGG
* *
2110949 AGTTGTAGACTT---A-AAAAGGTGCCACGAAATTGTGGAC-TTAAAA-G-----G-GTGCCACG
1 AGTTGTGGACTTAAAAGAAAAGGTGCCACGAAGTTGTGGACTTTAAAAGGAAAAAGAGTGCCACG
* * *
2111002 GAATTGTGGACTTAAAAGGGAAAAAGAGTGCCACAG
66 GAGTTGTGGACTTAAAA--GAAGAAG-GTGCCACGG
** * * * * * *
2111038 AGTTGTGGGTTTTGAAA-AAAAGATGCCACGGAGTTGTGGACTTTGAAAGGAACAAG-GTGCCAT
1 AGTTGT-GGACTTAAAAGAAAAGGTGCCACGAAGTTGTGGACTTTAAAAGGAAAAAGAGTGCCAC
* *
2111101 GGGGTCGTGGACTTAAAAAGAA-AAGGTGCCACGG
65 GGAGTTGTGGACTT-AAAAGAAGAAGGTGCCACGG
* * * * * *
2111135 AGTGGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA-TGTGCC
1 AGTTGTGGAC-TT-AAAAG-AAAAGGTGCCACGAAGTTGTGGACTTTAAAAGGAAAAAGAGTGCC
* * *
2111199 ATGGAGTTGTGGACTTAAAAGGAACAAGATGCCAC-G
63 ACGGAGTTGTGGACTTAAAA-GAAGAAGGTGCCACGG
* *
2111235 AGGTCGTGGACTT---A-AAAAGGTGCCACGAAGTTGTGGGCTTT-AAAGGAAAAAAGAGTGCCA
1 A-GTTGTGGACTTAAAAGAAAAGGTGCCACGAAGTTGTGGACTTTAAAAGG-AAAAAGAGTGCCA
* *
2111295 CGGAGTTGTGGGCTT-TAA-AAG--GGTGCCACGG
64 CGGAGTTGTGGACTTAAAAGAAGAAGGTGCCACGG
* * * *
2111326 AGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-GAA-GAAAAAGA-TGCC
1 AGTTGTGGACTTA-AAAG-AAAAG-GTGCCACGAAGTTGTGGACTTTAAAAGGAAAAAGAGTGCC
2111388 AC
63 AC
2111390 TAAGTCGTGC
Statistics
Matches: 454, Mismatches: 53, Indels: 80
0.77 0.09 0.14
Matches are distributed among these distances:
87 2 0.00
88 21 0.05
89 23 0.05
90 20 0.04
91 2 0.00
92 2 0.00
93 26 0.06
94 45 0.10
95 27 0.06
96 15 0.03
97 57 0.13
98 8 0.02
99 8 0.02
100 152 0.33
101 21 0.05
102 5 0.01
103 20 0.04
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (98 bp):
AGTTGTGGACTTAAAAGAAAAGGTGCCACGAAGTTGTGGACTTTAAAAGGAAAAAGAGTGCCACG
GAGTTGTGGACTTAAAAGAAGAAGGTGCCACGG
Found at i:2110943 original size:34 final size:33
Alignment explanation
Indices: 2110733--2111506 Score: 400
Period size: 34 Copynumber: 24.0 Consensus size: 33
2110723 GAGAAGGGTG
** *
2110733 AAAGA-TGCCACAAAGTTGTGGACTTAAAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAA-GAA
* * *
2110766 CAAG-GTGCCACGAAGTTGTGGACTTTAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGAC-TTAGAA--GAA
* *
2110801 AAAGAGTGCCACGGAGTTGTGGGCTTTGAA-AA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGAA
* * * *
2110833 GAAG-GTGCCACGGAGTCGTAGACTTAAAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAA-GAA
* * *
2110866 CAAG-GTGCCACGG-GATTGTGGACTTTAAAAGGGGA
1 AAAGAGTGCCACGGAG-TTGTGGAC-TTAGAA--GAA
2110901 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAA-GAA
*
2110935 AAAGAGTGCCACGGAGTTGTAGACTT-----AA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGAA
* *
2110963 AAAG-GTGCCACGAAATTGTGGACTT------A
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGAA
* * *
2110989 AAAGGGTGCCACGGAATTGTGGACTTAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAA--GAA
* ** *
2111024 AAAGAGTGCCACAGAGTTGTGGGTTTTGAA-AA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGAA
*
2111056 AAAGA-TGCCACGGAGTTGTGGACTTTGAAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAG-AA-GAA
* * * * *
2111090 CAAG-GTGCCATGGGGTCGTGGACTTA-AAAAGA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGA-A
* * *
2111122 AAAG-GTGCCACGGAGTGGTGGGCTTTGAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGAC-TT-AGAAGAA
* *
2111156 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGAC-TT-AGAAGAA
* * *
2111190 AAA-TGTGCCATGGAGTTGTGGACTTAAAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAA-GAA
* *
2111223 CAAGA-TGCCAC-GAGGTCGTGGACTT-----AA
1 AAAGAGTGCCACGGA-GTTGTGGACTTAGAAGAA
* *
2111250 AAAG-GTGCCACGAAGTTGTGGGCTTTA-AAGGAAA
1 AAAGAGTGCCACGGAGTTGTGGAC-TTAGAA-G-AA
* *
2111284 AAAGAGTGCCACGGAGTTGTGGGCTT-----TA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGAA
*
2111312 AAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAA-GAA
* *
2111346 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGAA
** * * *
2111379 AAAGA-TGCCACTAAGTCGTGCACTTTGAAGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGAA
** * * *
2111411 AAA-A-TGCCACTCAGTCGTGGACTTTG-AGAC
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGAA
* *
2111441 AAA-A-TGCCACTGAGTCGTGGACTTTA-AAGAA
1 AAAGAGTGCCACGGAGTTGTGGAC-TTAGAAGAA
* * *
2111472 AAGGA-TGCCACTGAGTCGTGGACTTTGAGAAGAA
1 AAAGAGTGCCACGGAGTTGTGGAC-TT-AGAAGAA
2111506 A
1 A
2111507 TTGCCACTAA
Statistics
Matches: 609, Mismatches: 79, Indels: 105
0.77 0.10 0.13
Matches are distributed among these distances:
26 5 0.01
27 56 0.09
28 34 0.06
30 24 0.04
31 68 0.11
32 89 0.15
33 73 0.12
34 158 0.26
35 67 0.11
36 34 0.06
37 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.20
Consensus pattern (33 bp):
AAAGAGTGCCACGGAGTTGTGGACTTAGAAGAA
Found at i:2111020 original size:27 final size:27
Alignment explanation
Indices: 2110934--2111021 Score: 131
Period size: 27 Copynumber: 3.3 Consensus size: 27
2110924 CTTAGAAGGA
* * *
2110934 AAAAGAGTGCCACGGAGTTGTAGACTT
1 AAAAGGGTGCCACGGAATTGTGGACTT
* *
2110961 AAAAAGGTGCCACGAAATTGTGGACTT
1 AAAAGGGTGCCACGGAATTGTGGACTT
2110988 AAAAGGGTGCCACGGAATTGTGGACTT
1 AAAAGGGTGCCACGGAATTGTGGACTT
2111015 AAAAGGG
1 AAAAGGG
2111022 AAAAAGAGTG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.35, C:0.14, G:0.31, T:0.20
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAATTGTGGACTT
Found at i:2111075 original size:66 final size:64
Alignment explanation
Indices: 2110733--2111389 Score: 428
Period size: 66 Copynumber: 10.2 Consensus size: 64
2110723 GAGAAGGGTG
** * * *
2110733 AAAGATGCCACAAAGTTGTGGACTTAAAAGGAACAAG-GTGCCACGAAGTTGTGGACTTTAAAAG
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT--AA-
2110797 GGAA
63 --AA
* ** * * * * *
2110801 AAAGAGTGCCACGGAGTTGTGGGCTTTGAA--AAGAAG-GTGCCACGGAGTCGTAGACTTAAAAG
1 AAAGA-TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-
2110863 GA
64 -A
* * * *
2110865 ACAAGGTGCCACGG-GATTGTGGACTTTAAAAGGGGAAAAGAGTGCCACGGAGTTGTGGACTTAG
1 A-AAGATGCCACGGAG-TTGTGGAC-TTAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTT-T
2110929 AAGGAA
61 AA--AA
* * * *
2110935 AAAGAGTGCCACGGAGTTGTAGACTT------AAAAAG-GTGCCACGAAATTGTGGAC-TT--AA
1 AAAGA-TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
* * * * *
2110990 AAGGGTGCCACGGAATTGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGTTTTGAAA
1 AAAGATGCCACGGAGTTGTGGACTTAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAA
2111055 A
64 A
* * * * * * *
2111056 AAAGATGCCACGGAGTTGTGGACTTTGAAAGGAACAAG-GTGCCATGGGGTCGTGGACTTAAAAA
1 AAAGATGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT-TAAA
2111120 GA
64 -A
* * *
2111122 AAAGGTGCCACGGAGTGGTGGGCTTTGAAAA-GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAA
1 AAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
2111185 AA
63 AA
* * * * *
2111187 GAAAAATGTGCCATGGAGTTGTGGACTTAAAAGGAACAAGA-TGCCAC-GAGGTCGTGGAC-TT-
1 -AAAGA--TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGA-GTTGTGGGCTTTA
2111248 -AA
62 AAA
* * * *
2111250 AAAGGTGCCACGAAGTTGTGGGCTTTAAAGGAAAAAAGAGTGCCACGGAGTTGTGGGCTTT--AA
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGG-AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
* * *
2111313 AAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAGA
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA-A
2111378 A
64 A
2111379 AAAGATGCCAC
1 AAAGATGCCAC
2111390 TAAGTCGTGC
Statistics
Matches: 463, Mismatches: 80, Indels: 94
0.73 0.13 0.15
Matches are distributed among these distances:
54 18 0.04
55 5 0.01
60 23 0.05
61 29 0.06
62 65 0.14
63 37 0.08
64 17 0.04
65 28 0.06
66 101 0.22
67 52 0.11
68 24 0.05
69 43 0.09
70 19 0.04
71 1 0.00
72 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (64 bp):
AAAGATGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
Found at i:2111321 original size:323 final size:318
Alignment explanation
Indices: 2110733--2111407 Score: 782
Period size: 323 Copynumber: 2.1 Consensus size: 318
2110723 GAGAAGGGTG
* *
2110733 AAAGATGCCACAAAGTTGTGGAC-TTAAAAGGAACAAGGTGCCACGAAGTTGTGGACTTTAAAAG
1 AAAGATGCCACAAAGTTGTGGACTTTGAAAGGAACAAGGTGCCACGAAGTCGTGGACTTTAAAAG
* *
2110797 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTAGACTTAAAA
66 AGAAAAAGAGTGCCACGGAGTGGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTAGACTTAAAA
* * *
2110862 GGAACAAGGTGCCACGGGATTGTGGACTTTAAAAGGGGAAAAGAGTGCCACGGAGTTGTGGACTT
131 AGAAAAAGGTGCCACGGGATTGTGGACTTTAAAA-GGGAAAAGAGTGCCACGGAGTCGTGGACTT
*
2110927 AGAAGGAAAAAGAGTGCCACGGAGTTGTAGACTTAAAAAGGTGCCACGAAATTGTGGACTTAAAA
195 ---A--AAAAAGAGTGCCACGAAGTTGTAGACTTAAAAAGGTGCCACGAAATTGTGGACTTAAAA
*
2110992 GGGTGCCACGGAATTGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGTTTTGAA-AA
255 GGGTGCCACGGAATTGTGGACTTAAAA-GGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAGAA
** * **
2111056 AAAGATGCCACGGAGTTGTGGACTTTGAAAGGAACAAGGTGCCATGGGGTCGTGGAC-TTAAAA-
1 AAAGATGCCACAAAGTTGTGGACTTTGAAAGGAACAAGGTGCCACGAAGTCGTGGACTTTAAAAG
* * *
2111119 AG-AAAAG-GTGCCACGGAGTGGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
66 AGAAAAAGAGTGCCACGGAGTGGTGGGCTTTGAAAAG---AAGGTGCCACGGAGTCGTAGAC-TT
* *
2111182 AAAAAGAAAAATGTGCCA-TGGAGTTGTGGAC-TTAAAA-GGAACAAGA-TGCCAC-GAGGTCGT
127 AAAAAGAAAAAGGTGCCACGGGA-TTGTGGACTTTAAAAGGGAA-AAGAGTGCCACGGA-GTCGT
* * * *
2111242 GGACTT-AAAAAG-GTGCCACGAAGTTGTGGGCTTTAAAGGAAAAAAGAGTGCCACGGAGTTGTG
189 GGACTTAAAAAAGAGTGCCACGAAGTTGTAGAC-TT------AAAAAG-GTGCCACGAAATTGTG
* * * *
2111305 GGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC
246 GAC-TTAAAAGGGTGCCACGGAATTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGC
2111370 TTTGAAGAA
310 TTTGAAGAA
* * *
2111379 AAAGATGCCACTAAGTCGTGCACTTTGAA
1 AAAGATGCCACAAAGTTGTGGACTTTGAA
2111408 GAAAAAATGC
Statistics
Matches: 303, Mismatches: 31, Indels: 36
0.82 0.08 0.10
Matches are distributed among these distances:
314 16 0.05
315 8 0.03
320 29 0.10
321 31 0.10
322 53 0.17
323 113 0.37
324 53 0.17
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.20
Consensus pattern (318 bp):
AAAGATGCCACAAAGTTGTGGACTTTGAAAGGAACAAGGTGCCACGAAGTCGTGGACTTTAAAAG
AGAAAAAGAGTGCCACGGAGTGGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTAGACTTAAAA
AGAAAAAGGTGCCACGGGATTGTGGACTTTAAAAGGGAAAAGAGTGCCACGGAGTCGTGGACTTA
AAAAAGAGTGCCACGAAGTTGTAGACTTAAAAAGGTGCCACGAAATTGTGGACTTAAAAGGGTGC
CACGGAATTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAGAA
Found at i:2111421 original size:31 final size:30
Alignment explanation
Indices: 2111318--2111559 Score: 241
Period size: 31 Copynumber: 7.7 Consensus size: 30
2111308 TTTAAAAGGG
* * *
2111318 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-A-GAAAAA-A
* * *
2111351 GTGCCACGGAGTTGTGGGCTTTGAAGAAAAAGA
1 -TGCCACTGAGTCGTGGACTTTG-AGAAAAA-A
* *
2111384 TGCCACTAAGTCGTGCACTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTG-AGAAAAAA
* *
2111415 TGCCACTCAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAAA
* *
2111445 TGCCACTGAGTCGTGGACTTTAAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTT-GAGAAAA-AA
*
2111477 TGCCACTGAGTCGTGGACTTTGAGAAGAAAT
1 TGCCACTGAGTCGTGGACTTTGAGAA-AAAA
* * *
2111508 TGCCACTAAGTCGTGGATTTTGAGAAGAAAT
1 TGCCACTGAGTCGTGGACTTTGAGAA-AAAA
2111539 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
2111560 AAAAAGGTAT
Statistics
Matches: 184, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
30 27 0.15
31 78 0.42
32 49 0.27
33 8 0.04
34 22 0.12
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAGAAAAAA
Found at i:2111479 original size:93 final size:94
Alignment explanation
Indices: 2111352--2111562 Score: 293
Period size: 93 Copynumber: 2.3 Consensus size: 94
2111342 GGAAAAAGAG
* * * *
2111352 TGCCACGGAGTTGTGGGCTTTGAAGAAAAAGATGCCACTAAGTCGTGCACTTTGAAGAA-AAAAT
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTAAGTCGTGCACTTTG-AGAAGAAAAT
*
2111416 GCCACTCAGTCGTGGACTTTGAGACA-AAA-
65 GCCACTAAGTCGTGGACTTTGAGA-AGAAAT
* * * *
2111445 TGCCACTGAGTCGTGGACTTTAAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGAAGAAATTG
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTAAGTCGTGCACTTTGAGAAGAAAATG
*
2111510 CCACTAAGTCGTGGATTTTGAGAAGAAAT
66 CCACTAAGTCGTGGACTTTGAGAAGAAAT
2111539 TGCCACTGAGTCGTGGACTTTAAA
1 TGCCACTGAGTCGTGGACTTTAAA
2111563 AAGGTATTTG
Statistics
Matches: 105, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
92 5 0.05
93 76 0.72
94 24 0.23
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.25
Consensus pattern (94 bp):
TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTAAGTCGTGCACTTTGAGAAGAAAATG
CCACTAAGTCGTGGACTTTGAGAAGAAAT
Found at i:2111695 original size:16 final size:17
Alignment explanation
Indices: 2111664--2111701 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
2111654 GATGCAAATA
* *
2111664 ATGATGTTATTGATGTT
1 ATGATGTCATTGATGTC
2111681 ATGATGTCA-TGATGTC
1 ATGATGTCATTGATGTC
2111697 ATGAT
1 ATGAT
2111702 TACAGCACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (17 bp):
ATGATGTCATTGATGTC
Found at i:2113863 original size:17 final size:18
Alignment explanation
Indices: 2113837--2113875 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
2113827 GATAAAAAAA
2113837 TTTTATTTATTTATTTAT
1 TTTTATTTATTTATTTAT
*
2113855 TTTTA-TTATTTTTTTAT
1 TTTTATTTATTTATTTAT
2113872 TTTT
1 TTTT
2113876 GAACATTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTATTTATTTATTTAT
Found at i:2113874 original size:8 final size:8
Alignment explanation
Indices: 2113836--2113875 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
2113826 GGATAAAAAA
2113836 ATTTTATTT
1 ATTTT-TTT
*
2113845 ATTTATTT
1 ATTTTTTT
2113853 ATTTTTATT
1 ATTTTT-TT
2113862 ATTTTTTT
1 ATTTTTTT
2113870 ATTTTT
1 ATTTTT
2113876 GAACATTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 16 0.57
9 12 0.43
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (8 bp):
ATTTTTTT
Found at i:2114725 original size:22 final size:20
Alignment explanation
Indices: 2114680--2114727 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
2114670 GTTTGCTTTG
*
2114680 TTTTTTCCTTTTTTCTCTCG
1 TTTTTTCCTTTTTTCTCTCC
*
2114700 TTTTCTTCCTTTTTTTGTCTCC
1 TTTT-TTCC-TTTTTTCTCTCC
2114722 TTTTTT
1 TTTTTT
2114728 TTTCACTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 4 0.17
21 6 0.25
22 14 0.58
ACGTcount: A:0.00, C:0.23, G:0.04, T:0.73
Consensus pattern (20 bp):
TTTTTTCCTTTTTTCTCTCC
Found at i:2116111 original size:166 final size:162
Alignment explanation
Indices: 2115233--2116080 Score: 783
Period size: 162 Copynumber: 5.1 Consensus size: 162
2115223 GTTTAATGAG
* * * *
2115233 AATATTAGATGAATTTTAAAAATTAAAAACCAAGAAAAATTTCCC-CAAAAACATTTACGGAGTA
1 AATATTTGATGAATTTTAAAAATT-AAAACCGAGAAAAA-TCCCCTCAAAAA-ATTTACAGAGTA
* * * * *
2115297 GAAAAATCTGTATTTCGAAAATAG-GACACTTT--A--AAAAAATGAAAAA-TGAATGAAAATGA
63 GAAAATTTTATATTTTGAAAATAGAGA-A-TTTCAAGGAAAAAATGAAAAACT-CATGAAAATGA
*
2115356 ATGAATTTTTAAAAATTGATTTAATATGAAATAAATAAT
125 ATGAATTTTTAAAAATT-ATTTAATATGAATTAAATAAT
* * * *
2115395 AATATTTGATGAACTTTAAAAATTAAAAACCAAGAAAAATCCCCGT-AAAAACATTTACGGAATA
1 AATATTTGATGAATTTTAAAAATT-AAAACCGAGAAAAATCCCC-TCAAAAA-ATTTACAGAGTA
* * *
2115459 GAAAACTTTATATTTTGAAAATAAAGAAATTTCAAGGAAAAAATGAAAAACTCATGAATTTCATG
63 GAAAATTTTATATTTTGAAAATAGAG-AATTTCAAGGAAAAAATGAAAAACTCATGAA---AATG
** *
2115524 AATGAATTTTTGAAAAAAGATTTAATATGAATTAATTAAT
124 AATGAATTTTT-AAAAATTATTTAATATGAATTAAATAAT
* ** * *
2115564 AATATTTGATGAATTTTAAAAACTAAAAATTGAGAAAAATCCCCCTGAAAACATTTAC-GAAGTA
1 AATATTTGATGAATTTTAAAAA-TTAAAACCGAGAAAAAT-CCCCTCAAAAAATTTACAG-AGTA
* * *** * *
2115628 GAGAACTCCGTATTTTGGAAATTAGAGAATTTCAAGGAAAAAAATGAAAAA-TGAATGAAAATGA
63 GAAAATTTTATATTTT-GAAAATAGAGAATTTCAAGG-AAAAAATGAAAAACT-CATGAAAATGA
* *
2115692 ATGAATTCTTT---AA--ATTTAATAAGAATTAAATGAT
125 ATGAATT-TTTAAAAATTATTTAATATGAATTAAATAAT
* * *
2115726 AATATTTGATGAATTTTAAAAATTAAAACCGAGAAAAATCTCCTCGAAAACATTTACAAAGTAGA
1 AATATTTGATGAATTTTAAAAATTAAAACCGAGAAAAATCCCCTC-AAAAAATTTACAGAGTAGA
* * *** *
2115791 AAACTCTGAT-TTCAAAAAATAGGAGAATTTCAAGGAAAAAATGAAAAACTCATGAAAATGAATT
65 AAA-TTTTATATTTTGAAAATA-GAGAATTTCAAGGAAAAAATGAAAAACTCATGAAAATGAATG
* * * *
2115855 AATTTTTCAAGACTAATTTAATATGAATAAAATAAT
128 AATTTTT-AAAAATTATTTAATATGAATTAAATAAT
* * *
2115891 AATATTTGATAAATTTTAAAAATTAAAAACCGAAAAAAATCCCCTCAAAAAAATTACAGAGTAGA
1 AATATTTGATGAATTTTAAAAATT-AAAACCGAGAAAAATCCCCTCAAAAAATTTACAGAGTAGA
* * * * * * *
2115956 AAATTTTATGTTTTGGAAATAGGGAATTTTCAAGGAAAAAATTGAAACATTTATGAAAATAAATG
65 AAATTTTATATTTTGAAAATAGAGAA-TTTCAAGGAAAAAA-TGAAAAACTCATGAAAATGAATG
**
2116021 AATTTTTGAAAAATTATTTACCATGAATTAAATAAT
128 AATTTTT-AAAAATTATTTAATATGAATTAAATAAT
2116057 AATATTTGATGAATTTTAAAAATT
1 AATATTTGATGAATTTTAAAAATT
2116081 TTGGATCGAT
Statistics
Matches: 569, Mismatches: 81, Indels: 68
0.79 0.11 0.09
Matches are distributed among these distances:
159 3 0.01
160 38 0.07
161 53 0.09
162 117 0.21
163 3 0.01
164 12 0.02
165 81 0.14
166 107 0.19
167 12 0.02
168 4 0.01
169 99 0.17
170 40 0.07
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.30
Consensus pattern (162 bp):
AATATTTGATGAATTTTAAAAATTAAAACCGAGAAAAATCCCCTCAAAAAATTTACAGAGTAGAA
AATTTTATATTTTGAAAATAGAGAATTTCAAGGAAAAAATGAAAAACTCATGAAAATGAATGAAT
TTTTAAAAATTATTTAATATGAATTAAATAAT
Found at i:2117868 original size:13 final size:13
Alignment explanation
Indices: 2117850--2117875 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2117840 TACAGCAAGT
2117850 ATGTATCGATACA
1 ATGTATCGATACA
2117863 ATGTATCGATACA
1 ATGTATCGATACA
2117876 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2120125 original size:21 final size:21
Alignment explanation
Indices: 2120092--2120136 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2120082 TTGCAAGTTG
*
2120092 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2120114 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2120134 AAA
1 AAA
2120137 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2121959 original size:15 final size:15
Alignment explanation
Indices: 2121939--2121969 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2121929 TAAAAATGTC
*
2121939 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2121954 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2121969 C
1 C
2121970 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2123390 original size:308 final size:308
Alignment explanation
Indices: 2122832--2123435 Score: 1181
Period size: 308 Copynumber: 2.0 Consensus size: 308
2122822 TCTTTTTGGG
2122832 ACTACAAGTAAGGCAAACCAAAGACGGGATCTTCATCAATCAAGCCAAGTACACAAAAGAACTAC
1 ACTACAAGTAAGGCAAACCAAAGACGGGATCTTCATCAATCAAGCCAAGTACACAAAAGAACTAC
*
2122897 TCAAAAGATTTCAAATGGATCAAGTCAAACCATGTGAAACTCCGATGAGAACTTCAACGAAGCTT
66 TCAAAAGATTTCAAATAGATCAAGTCAAACCATGTGAAACTCCGATGAGAACTTCAACGAAGCTT
2122962 GAAAAAGATGAAGGAGGTAACATTATCGACACTAAACTTTATAGGTCTATGATTGGATCATTATT
131 GAAAAAGATGAAGGAGGTAACATTATCGACACTAAACTTTATAGGTCTATGATTGGATCATTATT
2123027 ATATCTTACTGCTAGTAGACCGGATATTATGTTTAGTGTATGTTTGTGTGCCCGTTTTCAATCTG
196 ATATCTTACTGCTAGTAGACCGGATATTATGTTTAGTGTATGTTTGTGTGCCCGTTTTCAATCTG
2123092 CACCTAGGGAGTCTCATTTGCATGCCGTAAAAAGAACTACTCAAAAGA
261 CACCTAGGGAGTCTCATTTGCATGCCGTAAAAAGAACTACTCAAAAGA
2123140 ACTACAAGTAAGGCAAACCAAAGACGGGATCTTCATCAATCAAGCCAAGTACACAAAAGAACTAC
1 ACTACAAGTAAGGCAAACCAAAGACGGGATCTTCATCAATCAAGCCAAGTACACAAAAGAACTAC
* *
2123205 TCAAAAGATTTCAAATAGATCAAGTCAAACCATGTGAAACTTCGATGAGTACTTCAACGAAGCTT
66 TCAAAAGATTTCAAATAGATCAAGTCAAACCATGTGAAACTCCGATGAGAACTTCAACGAAGCTT
2123270 GAAAAAGATGAAGGAGGTAACATTATCGACACTAAACTTTATAGGTCTATGATTGGATCATTATT
131 GAAAAAGATGAAGGAGGTAACATTATCGACACTAAACTTTATAGGTCTATGATTGGATCATTATT
2123335 ATATCTTACTGCTAGTAGACCGGATATTATGTTTAGTGTATGTTTGTGTGCCCGTTTTCAATCTG
196 ATATCTTACTGCTAGTAGACCGGATATTATGTTTAGTGTATGTTTGTGTGCCCGTTTTCAATCTG
2123400 CACCTAGGGAGTCTCATTTGCATGCCGTAAAAAGAA
261 CACCTAGGGAGTCTCATTTGCATGCCGTAAAAAGAA
2123436 TTTTTAGGTA
Statistics
Matches: 293, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
308 293 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (308 bp):
ACTACAAGTAAGGCAAACCAAAGACGGGATCTTCATCAATCAAGCCAAGTACACAAAAGAACTAC
TCAAAAGATTTCAAATAGATCAAGTCAAACCATGTGAAACTCCGATGAGAACTTCAACGAAGCTT
GAAAAAGATGAAGGAGGTAACATTATCGACACTAAACTTTATAGGTCTATGATTGGATCATTATT
ATATCTTACTGCTAGTAGACCGGATATTATGTTTAGTGTATGTTTGTGTGCCCGTTTTCAATCTG
CACCTAGGGAGTCTCATTTGCATGCCGTAAAAAGAACTACTCAAAAGA
Found at i:2126185 original size:19 final size:19
Alignment explanation
Indices: 2126161--2126198 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2126151 GTGCAAATAA
2126161 ATTTTTGATATGAATTACT
1 ATTTTTGATATGAATTACT
2126180 ATTTTTGATATGAATTACT
1 ATTTTTGATATGAATTACT
2126199 TGATTAAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.53
Consensus pattern (19 bp):
ATTTTTGATATGAATTACT
Found at i:2126959 original size:13 final size:13
Alignment explanation
Indices: 2126941--2126966 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2126931 TACACCAAGT
2126941 ATGTATCGATACA
1 ATGTATCGATACA
2126954 ATGTATCGATACA
1 ATGTATCGATACA
2126967 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2126964 original size:32 final size:33
Alignment explanation
Indices: 2126923--2126986 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
2126913 TAGCCAAACT
* **
2126923 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
2126955 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2126987 TTAGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2130665 original size:20 final size:20
Alignment explanation
Indices: 2130640--2130693 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
2130630 TCACAATTTG
2130640 TATCGATACATTGTTCATTA
1 TATCGATACATTGTTCATTA
*
2130660 TATCGATACATTGTTCATTG
1 TATCGATACATTGTTCATTA
*
2130680 TATCAATACATTGT
1 TATCGATACATTGT
2130694 ATCGATACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (20 bp):
TATCGATACATTGTTCATTA
Found at i:2130693 original size:13 final size:13
Alignment explanation
Indices: 2130675--2130707 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
2130665 ATACATTGTT
2130675 CATTGTATCAATA
1 CATTGTATCAATA
*
2130688 CATTGTATCGATA
1 CATTGTATCAATA
2130701 CATTGTA
1 CATTGTA
2130708 GGTTTGCCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (13 bp):
CATTGTATCAATA
Found at i:2133173 original size:79 final size:79
Alignment explanation
Indices: 2133088--2133236 Score: 199
Period size: 79 Copynumber: 1.9 Consensus size: 79
2133078 TCATTCATGT
* * * * *
2133088 TTTTATTTCCAAAACACCAATTTTTTACAATCGGGGATACTCCAATCCCGTTATTTTCGAGGAGA
1 TTTTATTTCCAAAACACCAATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTCCAAGGAGA
2133153 TACTCTAATCCCAG
66 TACTCTAATCCCAG
* * * * * *
2133167 TTTTATTTTCAAAATACCAATTTTTCATAATTAGGGATACTCTAACCCCGTTATTTCCAAGGGGA
1 TTTTATTTCCAAAACACCAATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTCCAAGGAGA
2133232 TACTC
66 TACTC
2133237 CAACCCTGTT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
79 59 1.00
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (79 bp):
TTTTATTTCCAAAACACCAATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTCCAAGGAGA
TACTCTAATCCCAG
Found at i:2133241 original size:28 final size:28
Alignment explanation
Indices: 2133200--2133269 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
2133190 TTCATAATTA
*
2133200 GGGATACTCTAACCCCGTTATTTCCAAG
1 GGGATACTCCAACCCCGTTATTTCCAAG
* *
2133228 GGGATACTCCAACCCTGTTATTTCCGAG
1 GGGATACTCCAACCCCGTTATTTCCAAG
2133256 GGGATACTCCAACC
1 GGGATACTCCAACC
2133270 TCGATTTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (28 bp):
GGGATACTCCAACCCCGTTATTTCCAAG
Found at i:2140310 original size:23 final size:24
Alignment explanation
Indices: 2140284--2140341 Score: 100
Period size: 23 Copynumber: 2.5 Consensus size: 24
2140274 TGGACATGTT
*
2140284 AAAAATGCATGAAACATAAT-AAA
1 AAAAATGCATGAAACAAAATAAAA
2140307 AAAAATGCATGAAACAAAATAAAA
1 AAAAATGCATGAAACAAAATAAAA
2140331 AAAAATGCATG
1 AAAAATGCATG
2140342 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 19 0.58
24 14 0.42
ACGTcount: A:0.66, C:0.09, G:0.10, T:0.16
Consensus pattern (24 bp):
AAAAATGCATGAAACAAAATAAAA
Found at i:2141301 original size:20 final size:20
Alignment explanation
Indices: 2141258--2141328 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
2141248 AGACATAATT
** * *
2141258 TATCGATACATTGTAGAATA
1 TATCGATACATTCAAAAATG
* *
2141278 TATCGATACATTCATACATG
1 TATCGATACATTCAAAAATG
* *
2141298 TATCGATATATTGAAAAATG
1 TATCGATACATTCAAAAATG
2141318 TATCGATACAT
1 TATCGATACAT
2141329 CAAGGTAAAA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (20 bp):
TATCGATACATTCAAAAATG
Found at i:2144855 original size:23 final size:24
Alignment explanation
Indices: 2144829--2144886 Score: 109
Period size: 23 Copynumber: 2.5 Consensus size: 24
2144819 TGGACATGTT
2144829 AAAAATGCATGAAACATAAT-AAA
1 AAAAATGCATGAAACATAATAAAA
2144852 AAAAATGCATGAAACATAATAAAA
1 AAAAATGCATGAAACATAATAAAA
2144876 AAAAATGCATG
1 AAAAATGCATG
2144887 GTCAAAGGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 20 0.59
24 14 0.41
ACGTcount: A:0.64, C:0.09, G:0.10, T:0.17
Consensus pattern (24 bp):
AAAAATGCATGAAACATAATAAAA
Found at i:2145840 original size:20 final size:20
Alignment explanation
Indices: 2145793--2145867 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
2145783 AAAAAGACAT
*
2145793 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
2145812 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
2145833 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
2145853 AATGTATCGATACAT
1 AATGTATCGATACAT
2145868 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:2145861 original size:40 final size:39
Alignment explanation
Indices: 2145790--2145867 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2145780 GGTAAAAAGA
* *
2145790 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
2145829 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
2145868 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:2149444 original size:6 final size:6
Alignment explanation
Indices: 2149435--2149470 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
2149425 TTTATGATTA
*
2149435 TTAATT TTAATT TTAATT TTAATT TT-CTT TTAATT T
1 TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT T
2149471 AAGATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (6 bp):
TTAATT
Found at i:2149679 original size:7 final size:8
Alignment explanation
Indices: 2149663--2149694 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
2149653 AACAAATGTC
2149663 AAGAAAAA
1 AAGAAAAA
2149671 AAGAAAAAA
1 AAG-AAAAA
2149680 AAGAAAAA
1 AAGAAAAA
2149688 AAGAAAA
1 AAGAAAA
2149695 GGCTAGAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:2149680 original size:9 final size:9
Alignment explanation
Indices: 2149666--2149694 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
2149656 AAATGTCAAG
2149666 AAAAAAAGA
1 AAAAAAAGA
2149675 AAAAAAAG-
1 AAAAAAAGA
2149683 AAAAAAAGA
1 AAAAAAAGA
2149692 AAA
1 AAA
2149695 GGCTAGAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:2149751 original size:8 final size:8
Alignment explanation
Indices: 2149734--2149763 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
2149724 TACAAACGTC
2149734 AAGAAAAA
1 AAGAAAAA
2149742 AAGGAAAAA
1 AA-GAAAAA
2149751 AAGAAAAA
1 AAGAAAAA
2149759 AAGAA
1 AAGAA
2149764 CAGGCTAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:2149770 original size:71 final size:71
Alignment explanation
Indices: 2149654--2149795 Score: 257
Period size: 71 Copynumber: 2.0 Consensus size: 71
2149644 TCTTTAATTA
*
2149654 ACAAATGTCAAGAAAAAAAGAAAAAAAAGAAAAAAAGAAAAGGCTAGAACCATTTGGCCAAGGCT
1 ACAAACGTCAAGAAAAAAAGAAAAAAAAGAAAAAAAGAAAAGGCTAGAACCATTTGGCCAAGGCT
2149719 TTTGTT
66 TTTGTT
* *
2149725 ACAAACGTCAAGAAAAAAAGGAAAAAAAGAAAAAAAGAACAGGCTAGAACCATTTGGCCAAGGCT
1 ACAAACGTCAAGAAAAAAAGAAAAAAAAGAAAAAAAGAAAAGGCTAGAACCATTTGGCCAAGGCT
2149790 TTTGTT
66 TTTGTT
2149796 TCAACTTTGG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.52, C:0.13, G:0.19, T:0.16
Consensus pattern (71 bp):
ACAAACGTCAAGAAAAAAAGAAAAAAAAGAAAAAAAGAAAAGGCTAGAACCATTTGGCCAAGGCT
TTTGTT
Found at i:2151602 original size:17 final size:18
Alignment explanation
Indices: 2151567--2151606 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
2151557 TTAGATTTTT
*
2151567 ATTAATATTTTTAATAAA
1 ATTAAAATTTTTAATAAA
2151585 ATTAAAATTTTTAA-AAA
1 ATTAAAATTTTTAATAAA
2151602 ATTAA
1 ATTAA
2151607 GGCAATGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTAAAATTTTTAATAAA
Found at i:2153134 original size:169 final size:169
Alignment explanation
Indices: 2152811--2153222 Score: 425
Period size: 169 Copynumber: 2.4 Consensus size: 169
2152801 TAACATGCCT
* * * * * * *
2152811 ACTTCACTGATCTTCTACATAACCATATAAAGCAAACTAACATGCCTACTTTATTAATCTTCCAT
1 ACTTTACTAATCTTCTGCCTAACCAAATAAAGCAAACTAACATGCCTACTTCACTAATCTTCCAT
* * * *
2152876 ATAACCAAATGAAGAGAACTTAATTGAAAACTAAACTACCAACTTTACCAGTTTTCCACCTAACC
66 ATAACCAAATAAAGAAAACTTAATTGAAAACTAAACTACCAACTCTACCAGTCTTCCACCTAACC
* ** * * * *
2152941 AACTATAGTGGACTTAAAAAGAAAAATTAAAGGGTATTG
131 AACTAGAGTCAACTTAAAAAGAAAAACTAAAAGGTACTA
* * * * * *
2152980 ACTTTACTAGTCTTCTGCCTAACCCAATAAAGCAAATTAACATGCCTACTTCACTGATTTTCTAC
1 ACTTTACTAATCTTCTGCCTAACCAAATAAAGCAAACTAACATGCCTACTTCACTAATCTTCCA-
* * ***
2153045 T-TAACCATATAAAGAAAACTTAATTGAAAACTAAACTGCCAACTCTATTGGTCTTCCACCTAAC
65 TATAACCAAATAAAGAAAACTTAATTGAAAACTAAACTACCAACTCTACCAGTCTTCCACCTAAC
* *
2153109 CAACTAGAGTCAACTTTACAAGAAAAACTAAAAGGTACTA
130 CAACTAGAGTCAACTTAAAAAGAAAAACTAAAAGGTACTA
* * * *** * * *
2153149 ATTTTATTAATCTTTTGCCTAACCAAATAAAGTGGAGTAACA-ACTTACTTCACTGAA-CTTCCA
1 ACTTTACTAATCTTCTGCCTAACCAAATAAAGCAAACTAACATGCCTACTTCACT-AATCTTCCA
2153212 TATAACCAAAT
65 TATAACCAAAT
2153223 GAAGCTGACA
Statistics
Matches: 194, Mismatches: 46, Indels: 7
0.79 0.19 0.03
Matches are distributed among these distances:
167 1 0.01
168 22 0.11
169 170 0.88
170 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (169 bp):
ACTTTACTAATCTTCTGCCTAACCAAATAAAGCAAACTAACATGCCTACTTCACTAATCTTCCAT
ATAACCAAATAAAGAAAACTTAATTGAAAACTAAACTACCAACTCTACCAGTCTTCCACCTAACC
AACTAGAGTCAACTTAAAAAGAAAAACTAAAAGGTACTA
Found at i:2159777 original size:20 final size:20
Alignment explanation
Indices: 2159749--2159805 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
2159739 TCGATACACA
*
2159749 TGCAGATGTATCAATACAAGT
1 TGCA-ATGTATCGATACAAGT
*
2159770 TGCAATGTATCGAGACAAGT
1 TGCAATGTATCGATACAAGT
2159790 TGCAATGTATCGATAC
1 TGCAATGTATCGATAC
2159806 TTTATATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 29 0.88
21 4 0.12
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (20 bp):
TGCAATGTATCGATACAAGT
Found at i:2160399 original size:33 final size:34
Alignment explanation
Indices: 2160362--2160426 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
2160352 ATTGATTGAG
2160362 AGGTTCTATCTTAG-CTTCGAAAAAATAGTGTAA
1 AGGTTCTATCTTAGCCTTCGAAAAAATAGTGTAA
* *
2160395 AGGTTCTATCTTAGCCTTTGAAAATATAGTGT
1 AGGTTCTATCTTAGCCTTCGAAAAAATAGTGT
2160427 TGTAAGGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 14 0.48
34 15 0.52
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.37
Consensus pattern (34 bp):
AGGTTCTATCTTAGCCTTCGAAAAAATAGTGTAA
Found at i:2169898 original size:52 final size:52
Alignment explanation
Indices: 2169853--2169981 Score: 197
Period size: 52 Copynumber: 2.5 Consensus size: 52
2169843 CACTAATCTT
2169853 TGTATCGATACATGCAGGCAAATTTGCCCAAATATATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATATATCGATACACTATGAAA
* * * * *
2169905 TGTATCGATACATACAGGAAAATTTGCCTAGATGTA-CTGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATATATC-GATACACTATGAAA
2169957 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2169982 TCATATTTCG
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 1 0.01
52 68 0.99
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAAATATATCGATACACTATGAAA
Found at i:2176034 original size:12 final size:12
Alignment explanation
Indices: 2176015--2176046 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
2176005 ACAAAAAACA
2176015 AAACAAATAAAT
1 AAACAAATAAAT
*
2176027 AAATAAATAAAT
1 AAACAAATAAAT
2176039 AAACAAAT
1 AAACAAAT
2176047 CAAAATAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (12 bp):
AAACAAATAAAT
Found at i:2180577 original size:52 final size:51
Alignment explanation
Indices: 2180436--2180622 Score: 284
Period size: 51 Copynumber: 3.6 Consensus size: 51
2180426 GTTAAGTTCT
*
2180436 CAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
* * *
2180487 TAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTTTAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
*** * *
2180538 CAATTTTCTTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
1 CAATTTT-TCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
2180590 CAATTTTTCACAATCGGGGATACTCCAACCCCG
1 CAATTTTTCACAATCGGGGATACTCCAACCCCG
2180623 TTAATCATCG
Statistics
Matches: 119, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
51 75 0.63
52 44 0.37
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.33
Consensus pattern (51 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
Found at i:2180674 original size:28 final size:27
Alignment explanation
Indices: 2180602--2180676 Score: 89
Period size: 27 Copynumber: 2.7 Consensus size: 27
2180592 ATTTTTCACA
*
2180602 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGAGGATACTCCAACCCCGTTAATC
* *
2180629 ATCGAGGATACTCCAACCCTGTT-ATT
1 ATCGAGGATACTCCAACCCCGTTAATC
*
2180655 TTCGAAGGCATACTCCAACCCC
1 ATCG-AGG-ATACTCCAACCCC
2180677 CGGTTTTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.12
27 24 0.59
28 12 0.29
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (27 bp):
ATCGAGGATACTCCAACCCCGTTAATC
Found at i:2180814 original size:79 final size:79
Alignment explanation
Indices: 2180629--2180846 Score: 258
Period size: 79 Copynumber: 2.7 Consensus size: 79
2180619 CCCGTTAATC
* * * * *
2180629 ATCGAGGATACTCCAACCCTGTTATTTTCGAAGGCATACTCCAACCCCCGGTTTTTATTTCGAAA
1 ATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAA-CCCCGG-CTTTATTTCCAAA
*
2180694 ACATCAATTTGTCATA
64 ACATCAATTTCTCATA
* *
2180710 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAT
1 ATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAC
**
2180775 ATTGATTTCTCATA
66 ATCAATTTCTCATA
* * * * * *
2180789 ATTGGGGATACTCCAACCCTATTATTTTC-ACGGAGATACTCCAATCTCGACTTTATTT
1 ATCGGGGATACTCCAACCCTGTTATTTTCGA-GGGGATACTCCAACCCCGGCTTTATTT
2180847 TTGAAACACC
Statistics
Matches: 119, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
78 1 0.01
79 72 0.61
80 6 0.05
81 40 0.34
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAC
ATCAATTTCTCATA
Found at i:2186169 original size:28 final size:27
Alignment explanation
Indices: 2186095--2186169 Score: 89
Period size: 27 Copynumber: 2.7 Consensus size: 27
2186085 ATTTTTCACA
*
2186095 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGAGGATACTCCAACCCCGTTAATC
* *
2186122 ATCGAGGATACCCCAACCCCGTT-ATT
1 ATCGAGGATACTCCAACCCCGTTAATC
*
2186148 TTCGAGGGCATACTCCAACCCC
1 ATCGA-GG-ATACTCCAACCCC
2186170 CGGTTTTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 6 0.15
27 23 0.56
28 12 0.29
ACGTcount: A:0.25, C:0.36, G:0.17, T:0.21
Consensus pattern (27 bp):
ATCGAGGATACTCCAACCCCGTTAATC
Found at i:2186221 original size:52 final size:51
Alignment explanation
Indices: 2185928--2186271 Score: 255
Period size: 51 Copynumber: 6.6 Consensus size: 51
2185918 GTTAAGTTCT
*
2185928 CAATTTTTCATAATCGGGGATACTCAAACCCCGGTTTTATTTCTAAAACAC
1 CAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC
* * * * *
2185979 TAATTTTTCACAATCGGTGATACTCTAACCCCAGTTTTATTT-TCAAAACAC
1 CAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACAC
* * * * * * *
2186030 CAATTTTCCTTTAATCGGGGATACTCTAACTCCGATTTTCTTTCAAATAACAC
1 CAATTTTTC-ATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAA-AACAC
* * * * * *
2186083 CAATTTTTCACAATCGGGGATACTCCAACCCC-G-TTAATCATCGAGGATACCC
1 CAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTAT-TTCTA--AAACAC
*** ** *
2186135 CAACCCCGTT-ATTTTCGAGGGCATACTCCAACCCCCGGTTTTATTTCTAAAACAT
1 CAA--TTTTTCATAATCG-GGG-ATACTCCAA-CCCCGGTTTTATTTCTAAAACAC
* * * *
2186190 CAATTTTTCATAATCGGGGATACTCCAACCCCGGCTTTATTTCCAAAATAT
1 CAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC
** * **
2186241 TGATTTCTCATAATTAGGGATACTCCAACCC
1 CAATTTTTCATAATCGGGGATACTCCAACCC
2186272 TATTATTTTC
Statistics
Matches: 226, Mismatches: 52, Indels: 30
0.73 0.17 0.10
Matches are distributed among these distances:
50 4 0.02
51 100 0.44
52 62 0.27
53 23 0.10
54 10 0.04
55 15 0.07
56 4 0.02
57 4 0.02
58 4 0.02
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
CAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC
Found at i:2186349 original size:79 final size:79
Alignment explanation
Indices: 2186204--2186351 Score: 174
Period size: 79 Copynumber: 1.9 Consensus size: 79
2186194 TTTTCATAAT
* * * *
2186204 CGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATTAGGGATACTCCAA
1 CGGGGATACTCCAACCCCGACTTTATTTCCAAAACATTGATTTCTCATAATCAGGGACACTCCAA
2186269 CCCTATTATTTTCA
66 CCCTATTATTTTCA
* *** * *
2186283 CGGGGATACTCCAATCCCGACTTTATTTTTGAAACATCT-ATTT-TCTATAATCGGGGACACTTC
1 CGGGGATACTCCAACCCCGACTTTATTTCCAAAACAT-TGATTTCTC-ATAATCAGGGACACTCC
2186346 AACCCT
64 AACCCT
2186352 TGTCTTACTT
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
78 2 0.04
79 54 0.95
80 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.34
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGACTTTATTTCCAAAACATTGATTTCTCATAATCAGGGACACTCCAA
CCCTATTATTTTCA
Done.