Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000426.1 Hibiscus syriacus cultivar Beakdansim tig00000778_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3165331
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 15
Found at i:2939873 original size:80 final size:80
Alignment explanation
Indices: 2939722--2939875 Score: 191
Period size: 80 Copynumber: 1.9 Consensus size: 80
2939712 TTAACATTTC
* * * * *
2939722 CGGTAAAGTGTCCAATATTAATATTTTCGGTAGAAAAAATAATGTTCTAGGTAGTGCTTTACCGG
1 CGGTAAAGCGTCCAATAGTAATATTTTCGGTAGAAAAAATAATGTTCTAAGTAATGCTTTACCGA
*
2939787 ATATGTTAACAAACT
66 AAATGTTAACAAACT
* * * * ** *
2939802 CGGTAAAGCGTTCAATAGTAATATTTTTGGTAGAAATAATAATGTTTTAAGTAATTTTTTATCGA
1 CGGTAAAGCGTCCAATAGTAATATTTTCGGTAGAAAAAATAATGTTCTAAGTAATGCTTTACCGA
2939867 AAATGTTAA
66 AAATGTTAA
2939876 AAAAATAGTA
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 61 1.00
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (80 bp):
CGGTAAAGCGTCCAATAGTAATATTTTCGGTAGAAAAAATAATGTTCTAAGTAATGCTTTACCGA
AAATGTTAACAAACT
Found at i:2952596 original size:3 final size:3
Alignment explanation
Indices: 2952585--2952645 Score: 56
Period size: 3 Copynumber: 21.0 Consensus size: 3
2952575 TTTTTTATCG
** * *
2952585 TTA TT- TTA TTA TTA TTA TTA TTA TTA TCG TCA -TC TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2952630 TTA TTA TTTA TTA TTA
1 TTA TTA -TTA TTA TTA
2952646 CATATTTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 4 0.08
3 41 0.85
4 3 0.06
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2952640 original size:29 final size:30
Alignment explanation
Indices: 2952578--2952640 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
2952568 TCCGGGTTTT
* *
2952578 TTTATCGTTATTTTATTATTATTATTATTA
1 TTTATCGTCATCTTATTATTATTATTATTA
2952608 -TTATCGTCATCTTATTATT-TTATTATTA
1 TTTATCGTCATCTTATTATTATTATTATTA
2952636 TTTAT
1 TTTAT
2952641 TATTACATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 9 0.30
29 21 0.70
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.65
Consensus pattern (30 bp):
TTTATCGTCATCTTATTATTATTATTATTA
Found at i:2959870 original size:4 final size:4
Alignment explanation
Indices: 2959861--2959906 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
2959851 GATCGAGAAA
*
2959861 ACAT ACAT ACAT ACAT ACAT ATAT AC-- ACAT ACAT ACAT A-AT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
2959906 A
1 A
2959907 AAATTTGCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 3 0.08
4 32 0.86
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:2959892 original size:18 final size:17
Alignment explanation
Indices: 2959869--2959904 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
2959859 AAACATACAT
2959869 ACATACATACATATATAC
1 ACATACATACATA-ATAC
2959887 ACATACATACATAATAC
1 ACATACATACATAATAC
2959904 A
1 A
2959905 TAAAATTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.25
Consensus pattern (17 bp):
ACATACATACATAATAC
Found at i:2960539 original size:104 final size:102
Alignment explanation
Indices: 2960353--2960585 Score: 273
Period size: 104 Copynumber: 2.3 Consensus size: 102
2960343 TGAGAATTTT
* * *
2960353 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACT
1 AAAACAAATTTCGTCTCGCTTGAGACACTTTTCCTTTGAGATACAAATTTCGAATTTGATTCACT
*
2960418 AAAAACAAAATTAATCTCACCTT-AGATTCTTGTTTCTTTC-
66 AAAAACAAAATTAATCTCA-CTTGAGA-TC--GTTT-TCTCA
2960458 AAAACAAATTTCGTCTCGCTTGAGAC-CTTTTCCTTTGAGAT-CAAAATTTCGAATTTG-TCTCA
1 AAAACAAATTTCGTCTCGCTTGAGACACTTTTCCTTTGAGATAC-AAATTTCGAATTTGAT-TCA
* * *
2960520 C-ATTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
64 CTA-AAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
2960559 AAAACAAACTTT-GTCTCGCTTGAGACA
1 AAAACAAA-TTTCGTCTCGCTTGAGACA
2960586 ATTTCTCTAA
Statistics
Matches: 114, Mismatches: 7, Indels: 17
0.83 0.05 0.12
Matches are distributed among these distances:
100 3 0.03
101 26 0.23
102 3 0.03
103 8 0.07
104 49 0.43
105 25 0.22
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACACTTTTCCTTTGAGATACAAATTTCGAATTTGATTCACT
AAAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:2960565 original size:36 final size:36
Alignment explanation
Indices: 2960536--2960655 Score: 113
Period size: 36 Copynumber: 3.4 Consensus size: 36
2960526 ACAAAGTTGA
**
2960536 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
2960572 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
* * * *
2960608 TCTCATTTGAGACTATATCT-T-AAAGCAAA-TTTCG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTT-G
*
2960642 TCTCGCTTGAGACA
1 TCTCACTTGAGACA
2960656 TCATTTTCTC
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
33 3 0.04
34 19 0.27
35 8 0.11
36 40 0.57
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:2960905 original size:24 final size:23
Alignment explanation
Indices: 2960860--2960905 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
2960850 CAATATTTGA
* * *
2960860 ATCTTTTAAAACGATTTTTTTTT
1 ATCTCTTAAAACAATTTCTTTTT
2960883 ATCTCTTAAAGACAATTTCTTTT
1 ATCTCTTAAA-ACAATTTCTTTT
2960906 GAGAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.28, C:0.13, G:0.04, T:0.54
Consensus pattern (23 bp):
ATCTCTTAAAACAATTTCTTTTT
Found at i:2960975 original size:57 final size:58
Alignment explanation
Indices: 2960909--2961039 Score: 167
Period size: 57 Copynumber: 2.3 Consensus size: 58
2960899 TTCTTTTGAG
* * *
2960909 AAAAAATCTTTGAGTTTGCTCCTCTTG-A-AAAAGTCTTTGAGTTTGTTCCTCTTTAAA
1 AAAAAATCTTTGAGTTTGCTCCTCTTGAATAAAAATCTTGGAGTTTGTTCCT-TTGAAA
* * *
2960966 AAAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAATCTTGGAGTTTGTTCCTTTGGAA
1 AAAAAATCTTTGAGTTTGCTCCTCTTGAATAAAAATCTTGGAGTTTGTTCCTTTGAAA
* *
2961024 TAAAAATCTGTGAGTT
1 AAAAAATCTTTGAGTT
2961040 GTTTCGTTTG
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 25 0.39
58 19 0.30
59 20 0.31
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (58 bp):
AAAAAATCTTTGAGTTTGCTCCTCTTGAATAAAAATCTTGGAGTTTGTTCCTTTGAAA
Found at i:2961009 original size:29 final size:28
Alignment explanation
Indices: 2960901--2961065 Score: 181
Period size: 29 Copynumber: 5.8 Consensus size: 28
2960891 AAGACAATTT
*
2960901 CTTTTGAGAAAAAATCTTTGAGTTTGCTC
1 CTTTTGA-AAAAAATCTTTGAGTTTGTTC
* *
2960930 CTCTTG-AAAAAGTCTTTGAGTTTGTTC
1 CTTTTGAAAAAAATCTTTGAGTTTGTTC
*
2960957 CTCTTTAAAAAAAAATCTTTGAGTTTGTTC
1 CT-TTT-GAAAAAAATCTTTGAGTTTGTTC
*
2960987 CTTTTGAATAAAAATCTTGGAGTTTGTTC
1 CTTTTGAA-AAAAATCTTTGAGTTTGTTC
* * *
2961016 CTTTGGAATAAAAATCTGTGAG-TTGTTT
1 CTTTTGAA-AAAAATCTTTGAGTTTGTTC
* *
2961044 CGTTTGAAAAAAATCTTCGAGT
1 CTTTTGAAAAAAATCTTTGAGT
2961066 CTATTTACTT
Statistics
Matches: 115, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
27 32 0.28
28 15 0.13
29 46 0.40
30 22 0.19
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (28 bp):
CTTTTGAAAAAAATCTTTGAGTTTGTTC
Found at i:2961148 original size:30 final size:30
Alignment explanation
Indices: 2961114--2961177 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
2961104 AATTGTGTGA
*
2961114 AAAAATCTTTGAGATTGTTTCTTTTGAAAC
1 AAAAATCTTTGAGATTGTTTCTTTGGAAAC
*
2961144 AAAAATCTTTGAGTTTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGATTGTTTCTTTGGAAAC
2961174 AAAA
1 AAAA
2961178 TTTTGTCTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (30 bp):
AAAAATCTTTGAGATTGTTTCTTTGGAAAC
Found at i:2961225 original size:67 final size:64
Alignment explanation
Indices: 2961131--2961315 Score: 205
Period size: 67 Copynumber: 2.9 Consensus size: 64
2961121 TTTGAGATTG
* * *
2961131 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTTGAAACAT
1 TTTCTCTTGAAA-AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTTAAAACAA
* ** * *
2961196 TTTCTCTT-AAAACAAGATCATCTTTGAGTTTGTTTCTCTGGAAACAAGGTTTTATCCCTTAAAA
1 TTTCTCTTGAAAA-AA-A--ATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTTAAAA
2961260 CAA
62 CAA
* * *
2961263 TTTCTTTTGAAGAAAAATC--TGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTC
1 TTTCTCTTGAAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTC
2961316 ACTAAGATAC
Statistics
Matches: 99, Mismatches: 16, Indels: 13
0.77 0.12 0.10
Matches are distributed among these distances:
62 28 0.28
63 1 0.01
64 8 0.08
65 8 0.08
66 1 0.01
67 50 0.51
68 3 0.03
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (64 bp):
TTTCTCTTGAAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTTAAAACAA
Found at i:2961538 original size:35 final size:36
Alignment explanation
Indices: 2961472--2961546 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
2961462 TATTTCTTTG
* *
2961472 GAAACAAAATTTACCATCTTTGAATCTGTTTCCCTT
1 GAAACAAAATTAAACATCTTTGAATCTGTTTCCCTT
*
2961508 GAAACAAAA-TAAACATCTTTGAGATC-GTTTCTCTT
1 GAAACAAAATTAAACATCTTTGA-ATCTGTTTCCCTT
2961543 GAAA
1 GAAA
2961547 TGAATTTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 23 0.66
36 12 0.34
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (36 bp):
GAAACAAAATTAAACATCTTTGAATCTGTTTCCCTT
Found at i:2961869 original size:28 final size:28
Alignment explanation
Indices: 2961819--2961872 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
2961809 TCAAAATCCA
* *
2961819 ATCTTTGAGTTTGTTTCTATTGAAACAC
1 ATCTTTGAGTTGGTTCCTATTGAAACAC
2961847 ATCTTTGAGTTGGTCTCCT-TTGAAAC
1 ATCTTTGAGTTGGT-TCCTATTGAAAC
2961873 CATTATCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 20 0.87
29 3 0.13
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (28 bp):
ATCTTTGAGTTGGTTCCTATTGAAACAC
Found at i:2962078 original size:46 final size:45
Alignment explanation
Indices: 2961986--2962196 Score: 192
Period size: 46 Copynumber: 4.9 Consensus size: 45
2961976 CCAGATCTCT
* *
2961986 TCATCACGTAGGAGCCGTGTCA--ACCATAGATAACCAGCCGTCC
1 TCATCACGTAGGAACCGTGTCATCACCTTAGATAACCAGCCGTCC
* **
2962029 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGCCGTCC
1 TCATCACGTAGGAACCGTGTCATCACC-TTAGATAACCAGCCGTCC
* * * *
2962075 TCATCATGTAGGAACCGTGTCATC-CC-CAG---ACCAGATC-TCT
1 TCATCACGTAGGAACCGTGTCATCACCTTAGATAACCAG-CCGTCC
* **
2962115 TCATCACGTATGAGTCGTGTCA-C-CC-TAGATAACCAGCCGTCC
1 TCATCACGTAGGAACCGTGTCATCACCTTAGATAACCAGCCGTCC
* *
2962157 TCATCACGTAGGAACCGTGTTATCACCTTTAGATAGCCAG
1 TCATCACGTAGGAACCGTGTCATCACC-TTAGATAACCAG
2962197 AACTCTTCAT
Statistics
Matches: 133, Mismatches: 23, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
39 5 0.04
40 24 0.18
41 2 0.02
42 25 0.19
43 23 0.17
44 2 0.02
45 5 0.04
46 47 0.35
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (45 bp):
TCATCACGTAGGAACCGTGTCATCACCTTAGATAACCAGCCGTCC
Found at i:2962114 original size:129 final size:129
Alignment explanation
Indices: 2961884--2962279 Score: 600
Period size: 129 Copynumber: 3.1 Consensus size: 129
2961874 ATTATCCTAG
*
2961884 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
*** * *
2961949 TTGCGTATGAGTCGTGTCATTTCCCGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCAT
66 TCATGTATGAGTCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCAACCAT
* *
2962013 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAG-CCGTCCTC
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC-TCTTC
* ** * *
2962077 ATCATGTAGGAACCGTGTCA-TCCCCAGACCAGATCTCTTCATCACGTATGAGTCGTGTC-ACCC
65 ATCATGTATGAGTCGTGTCATTCCCC-GACCAGATCTCTTCATCACGTATGAGCCGTGTCAACCA
2962140 T
129 T
*
2962141 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATAGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
* *
2962206 TCATGTATGAGTCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCCTT
66 TCATGTATGAGTCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCAACCAT
*
2962270 AGATGACCAG
1 AGATAACCAG
2962280 ACCTCTTCAT
Statistics
Matches: 239, Mismatches: 23, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
128 117 0.49
129 122 0.51
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (129 bp):
AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
TCATGTATGAGTCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCAACCAT
Found at i:2962134 original size:40 final size:40
Alignment explanation
Indices: 2961936--2962396 Score: 184
Period size: 40 Copynumber: 10.9 Consensus size: 40
2961926 CTTTAGATGG
* ** * *
2961936 CCAGAACTCTTCATTGCGTATGAGTCGTGTCATTTCCC-GA
1 CCAGACCTCTTCATCACGTATGAGCCGTGTCA-TCCCCAGA
* * * **
2961976 CCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAA
1 CCAGACCTCTTCATCACGTATGAGCCGTGTCATCCCCAG---A
* * * * *
2962019 CCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGA
1 CCAGACC-TCTTCATCACGTATGAGCCGTGTCATC-CC--CAGA
* * * *
2962062 TGGCCAG-CCGTCCTCATCATGTAGGAACCGTGTCATCCCCAGA
1 ---CCAGACC-TCTTCATCACGTATGAGCCGTGTCATCCCCAGA
* * *
2962105 CCAGATCTCTTCATCACGTATGAGTCGTGTCA-CCCTAGATAA
1 CCAGACCTCTTCATCACGTATGAGCCGTGTCATCCCCAG---A
* * * * *
2962147 CCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATA
1 CCAGACC-TCTTCATCACGTATGAGCCGTGTCATC-CC--CAG--A
* * *
2962192 GCCAGAACTCTTCATCATGTATGAGTCGTGTCATTCCCC-GA
1 -CCAGACCTCTTCATCACGTATGAGCCGTGTCA-TCCCCAGA
* *
2962233 CCAGATCTCTTCATCACGTATGAGCCGTGTCA-CCCTTAGATGA
1 CCAGACCTCTTCATCACGTATGAGCCGTGTCATCCC---CA-GA
** * *
2962276 CCAGACCTCTTCATTGCGTATGAGTCGTGTCATTTCCC-GA
1 CCAGACCTCTTCATCACGTATGAGCCGTGTCA-TCCCCAGA
** *
2962316 CCAGACCTCTTCATTGCGTATGAGCCGTGTCA-CCCTTAGATGA
1 CCAGACCTCTTCATCACGTATGAGCCGTGTCATCCC---CA-GA
** * *
2962359 CCAGACCTCTTCATTGCGTATGAGCAGTGTCGTCCCCA
1 CCAGACCTCTTCATCACGTATGAGCCGTGTCATCCCCA
2962397 CCAACAGAAC
Statistics
Matches: 328, Mismatches: 57, Indels: 71
0.72 0.12 0.16
Matches are distributed among these distances:
38 5 0.02
39 6 0.02
40 114 0.35
41 4 0.01
42 26 0.08
43 96 0.29
44 6 0.02
45 5 0.02
46 63 0.19
47 3 0.01
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (40 bp):
CCAGACCTCTTCATCACGTATGAGCCGTGTCATCCCCAGA
Found at i:2962161 original size:82 final size:86
Alignment explanation
Indices: 2961884--2962224 Score: 242
Period size: 86 Copynumber: 4.0 Consensus size: 86
2961874 ATTATCCTAG
* * * *
2961884 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTCATCACC-TCAGA-AGCCAGAACTCTTCA
**
2961949 TTGCGTATGAGTCGTGTCATTTCCC-
64 TCACGTATGAGTCGTGTCA---CCCT
* * * * * *
2961974 -G---ACCAGATC-TCTTCATCACGTAGGAGCCGTGTCA--ACCAT-AGATAACCAG-CCGTCCT
1 AGATAACCAG-CCGTCCTCATCACGTAGGAACCGTGTCATCACC-TCAGA-AGCCAGAAC-TCTT
* ** *
2962030 CATCACGTAGGAACCGTGTTATCACCTTT
62 CATCACGTATGAGTCGTG---TCACC-CT
** * *
2962059 AGATGGCCAGCCGTCCTCATCATGTAGGAACCGTGTCATC-CC-CAG-A-CCAGATCTCTTCATC
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTCATCACCTCAGAAGCCAGAACTCTTCATC
2962120 ACGTATGAGTCGTGTCACCCT
66 ACGTATGAGTCGTGTCACCCT
* *
2962141 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATAGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTCATCACC-TCAGA-AGCCAGAACTCTTCA
*
2962206 TCATGTATGAGTCGTGTCA
64 TCACGTATGAGTCGTGTCA
2962225 TTCCCCGACC
Statistics
Matches: 195, Mismatches: 34, Indels: 46
0.71 0.12 0.17
Matches are distributed among these distances:
82 38 0.19
83 33 0.17
84 4 0.02
85 2 0.01
86 52 0.27
87 4 0.02
88 31 0.16
89 29 0.15
90 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.26
Consensus pattern (86 bp):
AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTCATCACCTCAGAAGCCAGAACTCTTCATC
ACGTATGAGTCGTGTCACCCT
Found at i:2962207 original size:128 final size:128
Alignment explanation
Indices: 2961884--2962279 Score: 607
Period size: 128 Copynumber: 3.1 Consensus size: 128
2961874 ATTATCCTAG
*
2961884 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
*** * * *
2961949 TTGCGTATGAGTCGTGTCATTTCCCGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCAT
66 TCATGTATGAGTCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTC-ACCCT
* *
2962013 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAG-CCGTCCTC
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC-TCTTC
* ** *
2962077 ATCATGTAGGAACCGTGTCA-TCCCCAGACCAGATCTCTTCATCACGTATGAGTCGTGTCACCCT
65 ATCATGTATGAGTCGTGTCATTCCCC-GACCAGATCTCTTCATCACGTATGAGCCGTGTCACCCT
*
2962141 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATAGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
2962206 TCATGTATGAGTCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCCTT
66 TCATGTATGAGTCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCC-T
*
2962270 AGATGACCAG
1 AGATAACCAG
2962280 ACCTCTTCAT
Statistics
Matches: 241, Mismatches: 21, Indels: 10
0.89 0.08 0.04
Matches are distributed among these distances:
128 121 0.50
129 120 0.50
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (128 bp):
AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
TCATGTATGAGTCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCCT
Found at i:2962208 original size:46 final size:46
Alignment explanation
Indices: 2961903--2962208 Score: 161
Period size: 46 Copynumber: 7.1 Consensus size: 46
2961893 GCCGTCCTCG
* *
2961903 TCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 TCACGTAGGAACCGTGTTATCACCTTTAGATAGCCAGACCTCTTCA
** * ** **** *
2961949 TTGCGTATGAGTCGTG---TCA--TTTCCCGA-CCAGATCTCTTCA
1 TCACGTAGGAACCGTGTTATCACCTTTAGATAGCCAGACCTCTTCA
* * * * *
2961989 TCACGTAGGAGCCGTGTCA--ACC-ATAGATAACCAG-CCGTCCTCA
1 TCACGTAGGAACCGTGTTATCACCTTTAGATAGCCAGACC-TCTTCA
* *
2962032 TCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAG-CCGTCCTCA
1 TCACGTAGGAACCGTGTTATCACCTTTAGATAGCCAGACC-TCTTCA
* * * *
2962078 TCATGTAGGAACCGTGTCATC-CC--CAG--A-CCAGATCTCTTCA
1 TCACGTAGGAACCGTGTTATCACCTTTAGATAGCCAGACCTCTTCA
* ** * * *
2962118 TCACGTATGAGTCGTG---TCACC-CTAGATAACCAG-CCGTCCTCA
1 TCACGTAGGAACCGTGTTATCACCTTTAGATAGCCAGACC-TCTTCA
*
2962160 TCACGTAGGAACCGTGTTATCACCTTTAGATAGCCAGAACTCTTCA
1 TCACGTAGGAACCGTGTTATCACCTTTAGATAGCCAGACCTCTTCA
2962206 TCA
1 TCA
2962209 TGTATGAGTC
Statistics
Matches: 191, Mismatches: 47, Indels: 44
0.68 0.17 0.16
Matches are distributed among these distances:
37 2 0.01
38 2 0.01
39 2 0.01
40 45 0.24
41 7 0.04
42 25 0.13
43 31 0.16
45 10 0.05
46 66 0.35
47 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (46 bp):
TCACGTAGGAACCGTGTTATCACCTTTAGATAGCCAGACCTCTTCA
Found at i:2962288 original size:43 final size:43
Alignment explanation
Indices: 2961974--2962389 Score: 250
Period size: 43 Copynumber: 9.8 Consensus size: 43
2961964 GTCATTTCCC
* * * *
2961974 GACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGAT
1 GACCAGACCTCTTCATCACGTATGAGCCGTGTCACCCTTAGAT
* * * * *
2962017 AACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGAT
1 GACCAGACC-TCTTCATCACGTATGAGCCGTG---TCACCCTTAGAT
* * * * * *
2962063 GGCCAG-CCGTCCTCATCATGTAGGAACCGTGTCATCCC---CA-
1 GACCAGACC-TCTTCATCACGTATGAGCCGTGTCA-CCCTTAGAT
* *
2962103 GACCAGATCTCTTCATCACGTATGAGTCGTGTCACCC-TAGAT
1 GACCAGACCTCTTCATCACGTATGAGCCGTGTCACCCTTAGAT
* * * * *
2962145 AACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGAT
1 GACCAGACC-TCTTCATCACGTATGAGCCGTG---TCACCCTTAGAT
* * * ****
2962191 -AGCCAGAACTCTTCATCATGTATGAGTCGTGTCA---TTCCCC
1 GA-CCAGACCTCTTCATCACGTATGAGCCGTGTCACCCTTAGAT
*
2962231 GACCAGATCTCTTCATCACGTATGAGCCGTGTCACCCTTAGAT
1 GACCAGACCTCTTCATCACGTATGAGCCGTGTCACCCTTAGAT
** * ****
2962274 GACCAGACCTCTTCATTGCGTATGAGTCGTGTCA---TTTCCC
1 GACCAGACCTCTTCATCACGTATGAGCCGTGTCACCCTTAGAT
**
2962314 GACCAGACCTCTTCATTGCGTATGAGCCGTGTCACCCTTAGAT
1 GACCAGACCTCTTCATCACGTATGAGCCGTGTCACCCTTAGAT
** *
2962357 GACCAGACCTCTTCATTGCGTATGAGCAGTGTC
1 GACCAGACCTCTTCATCACGTATGAGCCGTGTC
2962390 GTCCCCACCA
Statistics
Matches: 292, Mismatches: 58, Indels: 46
0.74 0.15 0.12
Matches are distributed among these distances:
39 3 0.01
40 91 0.31
41 5 0.02
42 24 0.08
43 97 0.33
44 2 0.01
45 6 0.02
46 63 0.22
47 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (43 bp):
GACCAGACCTCTTCATCACGTATGAGCCGTGTCACCCTTAGAT
Found at i:2962297 original size:83 final size:83
Alignment explanation
Indices: 2961903--2962382 Score: 343
Period size: 83 Copynumber: 5.7 Consensus size: 83
2961893 GCCGTCCTCG
* * * * **
2961903 TCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATTGCGTATGAGTCGTGTCA
1 TCACGTAGGAGCCGTG---TCACCCTTAGATGACCAGACCTCTTCATCACGTATGAGTCGTGTCA
* *
2961968 TTTCCCGACCAGATCTCTTCA
63 TTCCCCGACCAGACCTCTTCA
* * * * * ** *
2961989 TCACGTAGGAGCCGTGTCAACCATAGATAACCAG-CCGTCCTCATCACGTAGGAACCGTGTTA-T
1 TCACGTAGGAGCCGTGTCACCCTTAGATGACCAGACC-TCTTCATCACGTATGAGTCGTGTCATT
* *
2962052 CACCTTTAGATGGCCAG-CCGTCCTCA
65 C-CC---CGA---CCAGACC-TCTTCA
* * * *
2962078 TCATGTAGGAACCGTGTCATCCC---CA-GACCAGATCTCTTCATCACGTATGAGTCGTGTCA--
1 TCACGTAGGAGCCGTGTCA-CCCTTAGATGACCAGACCTCTTCATCACGTATGAGTCGTGTCATT
* *
2962137 CCCTAGATAACCAG-CCGTCCTCA
65 CCC-CG---ACCAGACC-TCTTCA
* * * *
2962160 TCACGTAGGAACCGTGTTATCACCTTTAGAT-AGCCAGAACTCTTCATCATGTATGAGTCGTGTC
1 TCACGTAGGAGCCGTG---TCACCCTTAGATGA-CCAGACCTCTTCATCACGTATGAGTCGTGTC
*
2962224 ATTCCCCGACCAGATCTCTTCA
62 ATTCCCCGACCAGACCTCTTCA
* ** *
2962246 TCACGTATGAGCCGTGTCACCCTTAGATGACCAGACCTCTTCATTGCGTATGAGTCGTGTCATTT
1 TCACGTAGGAGCCGTGTCACCCTTAGATGACCAGACCTCTTCATCACGTATGAGTCGTGTCATTC
2962311 CCCGACCAGACCTCTTCA
66 CCCGACCAGACCTCTTCA
** * **
2962329 TTGCGTATGAGCCGTGTCACCCTTAGATGACCAGACCTCTTCATTGCGTATGAG
1 TCACGTAGGAGCCGTGTCACCCTTAGATGACCAGACCTCTTCATCACGTATGAG
2962383 CAGTGTCGTC
Statistics
Matches: 320, Mismatches: 48, Indels: 55
0.76 0.11 0.13
Matches are distributed among these distances:
82 33 0.10
83 143 0.45
84 5 0.02
85 5 0.02
86 66 0.21
87 5 0.02
88 31 0.10
89 27 0.08
90 5 0.02
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (83 bp):
TCACGTAGGAGCCGTGTCACCCTTAGATGACCAGACCTCTTCATCACGTATGAGTCGTGTCATTC
CCCGACCAGACCTCTTCA
Found at i:2962559 original size:3 final size:3
Alignment explanation
Indices: 2962548--2962608 Score: 56
Period size: 3 Copynumber: 21.0 Consensus size: 3
2962538 TTTTTTATCG
** * *
2962548 TTA TT- TTA TTA TTA TTA TTA TTA TTA TCG TCA -TC TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2962593 TTA TTA TTTA TTA TTA
1 TTA TTA -TTA TTA TTA
2962609 CATATTTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 4 0.08
3 41 0.85
4 3 0.06
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2962603 original size:29 final size:30
Alignment explanation
Indices: 2962541--2962603 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
2962531 TCCGGGTTTT
* *
2962541 TTTATCGTTATTTTATTATTATTATTATTA
1 TTTATCGTCATCTTATTATTATTATTATTA
2962571 -TTATCGTCATCTTATTATT-TTATTATTA
1 TTTATCGTCATCTTATTATTATTATTATTA
2962599 TTTAT
1 TTTAT
2962604 TATTACATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 9 0.30
29 21 0.70
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.65
Consensus pattern (30 bp):
TTTATCGTCATCTTATTATTATTATTATTA
Found at i:2971359 original size:65 final size:64
Alignment explanation
Indices: 2971214--2971525 Score: 292
Period size: 64 Copynumber: 4.9 Consensus size: 64
2971204 TAGAGTTCCA
* * * * * *
2971214 ATAAAATGAGATAGAAGTTCTAAGTTCGTTGTAAATGGTTCCATCTCGTTTTTTCTGGAA-TCTG
1 ATAAAATGAGATAGAAGTCCTAA-ATCGGTGTAAATGATCCCATCTCGTTTGTTCTGGAATTCTG
* * * *
2971278 ATAAAATGAGATTGAAGTCCTGAAATTGGTGTGAATGATCCCATCTCATTTGTTCTGGAATTCTG
1 ATAAAATGAGATAGAAGTCCT-AAATCGGTGTAAATGATCCCATCTCGTTTGTTCTGGAATTCTG
* * * * *
2971343 ATAAAATGAGATTGAAGTCCTAAGATCGATGTAAATGATTCCATCCCGTTT-TTAC-GG-ATTCC
1 ATAAAATGAGATAGAAGTCCTAA-ATCGGTGTAAATGATCCCATCTCGTTTGTT-CTGGAATTCT
*
2971405 A
64 G
* * * * * *
2971406 ATAAAATGAGATAGAAGTCCTAAAATCAGTGTAAACGATCCTATCTCGTTTGTTCTAGAACTC-A
1 ATAAAATGAGATAGAAGTCCT-AAATCGGTGTAAATGATCCCATCTCGTTTGTTCTGGAATTCTG
* * * * *
2971470 ATAGAATGACATAGAAGTCCTAAACTCAGTGTAAATGCTCCCATCTTGTTTGTTCT
1 ATAAAATGAGATAGAAGTCCTAAA-TCGGTGTAAATGATCCCATCTCGTTTGTTCT
2971526 ATAATAGACA
Statistics
Matches: 206, Mismatches: 33, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
63 49 0.24
64 105 0.51
65 52 0.25
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (64 bp):
ATAAAATGAGATAGAAGTCCTAAATCGGTGTAAATGATCCCATCTCGTTTGTTCTGGAATTCTG
Found at i:2986995 original size:20 final size:20
Alignment explanation
Indices: 2986967--2987014 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
2986957 AGAGTTGACT
*
2986967 TTTGTTTTATTTTTCCTCAA
1 TTTGCTTTATTTTTCCTCAA
2986987 TTTGCTTTATTTTTCCTCAA
1 TTTGCTTTATTTTTCCTCAA
*
2987007 TTTACTTT
1 TTTGCTTT
2987015 GGTGATAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.17, G:0.04, T:0.65
Consensus pattern (20 bp):
TTTGCTTTATTTTTCCTCAA
Found at i:2989041 original size:24 final size:24
Alignment explanation
Indices: 2988991--2989060 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
2988981 CCCAACTAAT
* * ** *
2988991 TTTATGTATGTTCGTTTACGTTTA
1 TTTATGTTTGTTCATTTGTGTTCA
2989015 TTTATGTTTGTTCATTTGTGTTCA
1 TTTATGTTTGTTCATTTGTGTTCA
* * *
2989039 TTTACGTTCGTTCAATTGTGTT
1 TTTATGTTTGTTCATTTGTGTT
2989061 AGTTTATCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.14, C:0.10, G:0.17, T:0.59
Consensus pattern (24 bp):
TTTATGTTTGTTCATTTGTGTTCA
Found at i:2989113 original size:39 final size:39
Alignment explanation
Indices: 2989069--2989151 Score: 116
Period size: 39 Copynumber: 2.1 Consensus size: 39
2989059 TTAGTTTATC
2989069 AATTTAAGAAATTA-ATAAATTAGAATGTTA-GAGTGAAAT
1 AATTTAAGAAATTAGA-AAATTAGAATGTTAGGA-TGAAAT
* *
2989108 AATTTAAGAAATTAGAAACTTAGAGTGTTAGGATGAAAT
1 AATTTAAGAAATTAGAAAATTAGAATGTTAGGATGAAAT
2989147 AATTT
1 AATTT
2989152 GGTAATTAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
39 37 0.93
40 3 0.08
ACGTcount: A:0.48, C:0.01, G:0.17, T:0.34
Consensus pattern (39 bp):
AATTTAAGAAATTAGAAAATTAGAATGTTAGGATGAAAT
Found at i:2994474 original size:15 final size:15
Alignment explanation
Indices: 2994454--2994484 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2994444 ATTTGAGGTA
2994454 ATTCCTATGGTTATG
1 ATTCCTATGGTTATG
2994469 ATTCCTATGGTTATG
1 ATTCCTATGGTTATG
2994484 A
1 A
2994485 GTTACTAGAT
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:0.23, C:0.13, G:0.19, T:0.45
Consensus pattern (15 bp):
ATTCCTATGGTTATG
Found at i:2994957 original size:16 final size:16
Alignment explanation
Indices: 2994936--2994970 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
2994926 AACCTTTTCA
2994936 ATTATAGGTTAATAAC
1 ATTATAGGTTAATAAC
2994952 ATTATAGGTTAATAAC
1 ATTATAGGTTAATAAC
2994968 ATT
1 ATT
2994971 CTTTCTTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (16 bp):
ATTATAGGTTAATAAC
Found at i:2995485 original size:42 final size:42
Alignment explanation
Indices: 2995439--2995526 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
2995429 AAAACGCTGT
*
2995439 TATAGATAT-GACCTTTTACGGCGTTTGTTCAAAAAACACCGC
1 TATAGATATAGACCTTTTACGGCATTTGTTC-AAAAACACCGC
* * * * *
2995481 TATAGGTGTAGATCTTTTGCGGCATTTGTTCAAAAACGCCGC
1 TATAGATATAGACCTTTTACGGCATTTGTTCAAAAACACCGC
2995523 TATA
1 TATA
2995527 AATCTCCACC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 21 0.54
43 18 0.46
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (42 bp):
TATAGATATAGACCTTTTACGGCATTTGTTCAAAAACACCGC
Found at i:2995540 original size:42 final size:42
Alignment explanation
Indices: 2995449--2995574 Score: 117
Period size: 43 Copynumber: 3.0 Consensus size: 42
2995439 TATAGATATG
* * * * * *
2995449 ACCTTTTACGGCGTTTGTTCAAAAAACACCGCTATAGGTGTAG
1 ACCTTTTGCGGCATTTGTTC-AAAAACGCCGCTATAGATCTAC
* * *
2995492 ATCTTTTGCGGCATTTGTTCAAAAACGCCGCTATAAATCTCC
1 ACCTTTTGCGGCATTTGTTCAAAAACGCCGCTATAGATCTAC
** * *
2995534 ACCTTTTGCAACATTTGTTCCAAAAATGCCACTATAGATCT
1 ACCTTTTGCGGCATTTGTT-CAAAAACGCCGCTATAGATCT
2995575 GACCGATCAT
Statistics
Matches: 67, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
42 32 0.48
43 35 0.52
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.33
Consensus pattern (42 bp):
ACCTTTTGCGGCATTTGTTCAAAAACGCCGCTATAGATCTAC
Found at i:2996866 original size:20 final size:20
Alignment explanation
Indices: 2996838--2996888 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
2996828 TGTACATGAC
2996838 GTTTCGAAACTAT-AAGAAAA
1 GTTTCGAAACTATCAAG-AAA
* *
2996858 GTTTTGAAACTATCATGAAA
1 GTTTCGAAACTATCAAGAAA
2996878 GTTTCGAAACT
1 GTTTCGAAACT
2996889 CCAAAGTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 25 0.93
21 2 0.07
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (20 bp):
GTTTCGAAACTATCAAGAAA
Found at i:2997527 original size:9 final size:9
Alignment explanation
Indices: 2997515--2997549 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
2997505 ATGAAATAAG
2997515 CAAAATATC
1 CAAAATATC
*
2997524 CAAAATAAC
1 CAAAATATC
*
2997533 CAAAACATC
1 CAAAATATC
2997542 CAAAATAT
1 CAAAATAT
2997550 GAAGTCCTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.60, C:0.23, G:0.00, T:0.17
Consensus pattern (9 bp):
CAAAATATC
Found at i:2997529 original size:18 final size:18
Alignment explanation
Indices: 2997508--2997548 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
2997498 AAAACATATG
* *
2997508 AAATAAGCAAAATATCCA
1 AAATAACCAAAACATCCA
2997526 AAATAACCAAAACATCCA
1 AAATAACCAAAACATCCA
2997544 AAATA
1 AAATA
2997549 TGAAGTCCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.63, C:0.20, G:0.02, T:0.15
Consensus pattern (18 bp):
AAATAACCAAAACATCCA
Found at i:3000521 original size:30 final size:30
Alignment explanation
Indices: 3000485--3000555 Score: 133
Period size: 30 Copynumber: 2.4 Consensus size: 30
3000475 GTACAACAAA
3000485 ATACAAATTTAGAAATGCATCGAAATACAC
1 ATACAAATTTAGAAATGCATCGAAATACAC
3000515 ATACAAATTTAGAAATGCATCGAAATACAC
1 ATACAAATTTAGAAATGCATCGAAATACAC
*
3000545 ATAAAAATTTA
1 ATACAAATTTA
3000556 ATTAATATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.52, C:0.14, G:0.08, T:0.25
Consensus pattern (30 bp):
ATACAAATTTAGAAATGCATCGAAATACAC
Found at i:3004138 original size:9 final size:9
Alignment explanation
Indices: 3004120--3004151 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
3004110 CTATGGGCTG
*
3004120 GTTGAACAA
1 GTTGATCAA
3004129 GTTGATCAA
1 GTTGATCAA
3004138 GTTGATCAA
1 GTTGATCAA
3004147 GTTGA
1 GTTGA
3004152 CAGCCCGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.31
Consensus pattern (9 bp):
GTTGATCAA
Found at i:3006914 original size:35 final size:37
Alignment explanation
Indices: 3006860--3006943 Score: 102
Period size: 38 Copynumber: 2.2 Consensus size: 37
3006850 AATATAAATT
*
3006860 TAAATACAACAAACTTACAATAA-G-TATTAAATGGTAA
1 TAAATA-AA-AAAATTACAATAATGATATTAAATGGTAA
3006897 -ATAATAAAAAAATTACAATAATTGATATTAAATGGTAA
1 TA-AATAAAAAAATTACAATAA-TGATATTAAATGGTAA
3006935 TAAATAAAA
1 TAAATAAAA
3006944 TTAACAAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
35 12 0.29
36 3 0.07
37 5 0.12
38 20 0.49
39 1 0.02
ACGTcount: A:0.58, C:0.06, G:0.07, T:0.29
Consensus pattern (37 bp):
TAAATAAAAAAATTACAATAATGATATTAAATGGTAA
Found at i:3006966 original size:14 final size:14
Alignment explanation
Indices: 3006936--3006965 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
3006926 AAATGGTAAT
3006936 AAATAAAATTAACA
1 AAATAAAATTAACA
3006950 AAAT-AAATTAACA
1 AAATAAAATTAACA
3006963 AAA
1 AAA
3006966 AGTCCAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATAAAATTAACA
Found at i:3009201 original size:15 final size:15
Alignment explanation
Indices: 3009178--3009226 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
3009168 TAACTGCACA
*
3009178 AAAAAATTATTAAAT
1 AAAATATTATTAAAT
*
3009193 AAAATATTA-AAAATT
1 AAAATATTATTAAA-T
3009208 AAAATA--ATTAAAT
1 AAAATATTATTAAAT
3009221 AAAATA
1 AAAATA
3009227 CTAACAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 8 0.28
14 6 0.21
15 15 0.52
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAATATTATTAAAT
Found at i:3009225 original size:13 final size:13
Alignment explanation
Indices: 3009180--3009226 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
3009170 ACTGCACAAA
*
3009180 AAAATTATTAAAT
1 AAAATAATTAAAT
3009193 AAAAT-ATTAAAAATT
1 AAAATAATT--AAA-T
3009208 AAAATAATTAAAT
1 AAAATAATTAAAT
3009221 AAAATA
1 AAAATA
3009227 CTAACAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 3 0.10
13 12 0.40
14 6 0.20
15 6 0.20
16 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATAATTAAAT
Found at i:3010544 original size:175 final size:175
Alignment explanation
Indices: 3010253--3010605 Score: 706
Period size: 175 Copynumber: 2.0 Consensus size: 175
3010243 TTATAGTAAA
3010253 AAGGGTGTCACTAAGTATAGCTGTGTGTAATGATATAAACAATGAAAGAAATTCTAGCAATGGTA
1 AAGGGTGTCACTAAGTATAGCTGTGTGTAATGATATAAACAATGAAAGAAATTCTAGCAATGGTA
3010318 GAAATTGTATGAACAAATGAAAAATATTGTTGTGGCAGAATTTTTTTGAAGTGTGAATGTAACAA
66 GAAATTGTATGAACAAATGAAAAATATTGTTGTGGCAGAATTTTTTTGAAGTGTGAATGTAACAA
3010383 AAAAATTAAGTTGTAGCAAGAGTTTTAATGAATGTTGAAGTGAAC
131 AAAAATTAAGTTGTAGCAAGAGTTTTAATGAATGTTGAAGTGAAC
3010428 AAGGGTGTCACTAAGTATAGCTGTGTGTAATGATATAAACAATGAAAGAAATTCTAGCAATGGTA
1 AAGGGTGTCACTAAGTATAGCTGTGTGTAATGATATAAACAATGAAAGAAATTCTAGCAATGGTA
3010493 GAAATTGTATGAACAAATGAAAAATATTGTTGTGGCAGAATTTTTTTGAAGTGTGAATGTAACAA
66 GAAATTGTATGAACAAATGAAAAATATTGTTGTGGCAGAATTTTTTTGAAGTGTGAATGTAACAA
3010558 AAAAATTAAGTTGTAGCAAGAGTTTTAATGAATGTTGAAGTGAAC
131 AAAAATTAAGTTGTAGCAAGAGTTTTAATGAATGTTGAAGTGAAC
3010603 AAG
1 AAG
3010606 AAAATTTGTG
Statistics
Matches: 178, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
175 178 1.00
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (175 bp):
AAGGGTGTCACTAAGTATAGCTGTGTGTAATGATATAAACAATGAAAGAAATTCTAGCAATGGTA
GAAATTGTATGAACAAATGAAAAATATTGTTGTGGCAGAATTTTTTTGAAGTGTGAATGTAACAA
AAAAATTAAGTTGTAGCAAGAGTTTTAATGAATGTTGAAGTGAAC
Found at i:3021704 original size:40 final size:39
Alignment explanation
Indices: 3021568--3021706 Score: 197
Period size: 40 Copynumber: 3.5 Consensus size: 39
3021558 AAAATTATAC
*
3021568 ATATATGCATAGGATTCATGGATTTAAAATAAAATATTATAT
1 ATATATGCATAGGATCCATGG-TTTAAAATAAAATA-T-TAT
* * *
3021610 ATATATGCATAGGATCAAGGGTTTAAAATAAGATATTAT
1 ATATATGCATAGGATCCATGGTTTAAAATAAAATATTAT
*
3021649 ATATATGCATAGGATCCATGAGTTTATAATAAAATATTAT
1 ATATATGCATAGGATCCATG-GTTTAAAATAAAATATTAT
3021689 ATATATGCATAGGATCCA
1 ATATATGCATAGGATCCA
3021707 AGTGTTTAGA
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 21 0.24
40 36 0.41
41 13 0.15
42 18 0.20
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.35
Consensus pattern (39 bp):
ATATATGCATAGGATCCATGGTTTAAAATAAAATATTAT
Found at i:3021725 original size:42 final size:39
Alignment explanation
Indices: 3021568--3021723 Score: 188
Period size: 40 Copynumber: 3.8 Consensus size: 39
3021558 AAAATTATAC
* *
3021568 ATATATGCATAGGATTCATGGATTTAAAATAAAATATTATAT
1 ATATATGCATAGGATCCAAGG-TTTAAAATAAAATA-T-TAT
*
3021610 ATATATGCATAGGAT-CAAGGGTTTAAAATAAGATATTAT
1 ATATATGCATAGGATCCAA-GGTTTAAAATAAAATATTAT
* *
3021649 ATATATGCATAGGATCCATGAGTTTATAATAAAATATTAT
1 ATATATGCATAGGATCCAAG-GTTTAAAATAAAATATTAT
*
3021689 ATATATGCATAGGATCCAAGTGTTTAGAAAAAAAA
1 ATATATGCATAGGATCCAAG-GTTTA-AAATAAAA
3021724 ATCATTTATT
Statistics
Matches: 101, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
39 19 0.19
40 44 0.44
41 21 0.21
42 17 0.17
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.34
Consensus pattern (39 bp):
ATATATGCATAGGATCCAAGGTTTAAAATAAAATATTAT
Found at i:3023759 original size:19 final size:19
Alignment explanation
Indices: 3023735--3023780 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
3023725 ACTTAGACAT
3023735 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTGTTATTTTC
3023754 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTGTTATTTTC
3023773 TTTGCATT
1 TTTGCATT
3023781 CACATTAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.67
Consensus pattern (19 bp):
TTTGCATTTTGTTATTTTC
Found at i:3027314 original size:84 final size:83
Alignment explanation
Indices: 3027173--3028804 Score: 1574
Period size: 84 Copynumber: 19.7 Consensus size: 83
3027163 CAAACAAACT
*
3027173 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA-CAAAGACCTTTGAGTTCGACTACG
*
3027238 CTCAGCTCCAAGGCATATC
65 CTCAGCTCCAAGGCACATC
* * *
3027257 ATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC-AAAGACCTTTGAGTTCGACTACG
3027322 CTCAGCT-CAACGGCACATC
65 CTCAGCTCCAA-GGCACATC
* * * * *** * *
3027341 ATTTACAGTATAGCTTAAGTCGAGAAGGGCTATCTG-C--CAAAGACCCCCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACTACGC
* *
3027403 TCAGCTTCGAGGGCACATC
66 TCAGC-TCCAAGGCACATC
* * * * * ** * * *
3027422 ATTTACGGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC-AAAGACCTTTGAGTTCGACTACG
*
3027487 CTCAGCTCCAAGGCATATC
65 CTCAGCTCCAAGGCACATC
* * * *
3027506 ATTTGCAGCACAACTTGAA-TCTAGGAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTAC
1 ATTTGCAGCATAACTT-AAGTCGAGAAGGGTTATCTGCCAA-CAAAGACCTTTGAGTTCGACTAC
3027570 GCTCAGCT-CAACGGCACATC
64 GCTCAGCTCCAA-GGCACATC
* * * * *** * *
3027590 ATTTACAGTATAGCTTAAGTCGAGAAGGGCTATCTG-C--CAAAGACCCCCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACTACGC
* *
3027652 TCAGCTTCGAGGGCACATC
66 TCAGC-TCCAAGGCACATC
* * * * ** * * *
3027671 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC-AAAGACCTTTGAGTTCGACTACG
*
3027736 CTCAGCTCCAAGGCATATC
65 CTCAGCTCCAAGGCACATC
* * * *
3027755 AATTGCAGCACAACTTGAA-T-GTAGGAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTA
1 ATTTGCAGCATAACTT-AAGTCG-AGAAGGGTTATCTGCCAA-CAAAGACCTTTGAGTTCGACTA
*
3027818 CGCTCAGCT-CAACGACACATC
63 CGCTCAGCTCCAA-GGCACATC
* * * ** * *
3027839 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG-C--CAAAGACCCCTGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACTACGC
* *
3027901 TCAGCTTCGAGGGCACATC
66 TCAGC-TCCAAGGCACATC
* * * * ** *
3027920 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC-AAAGACCTTTGAGTTCGACTACG
*
3027985 CTCAGCTCTAAGGCACATC
65 CTCAGCTCCAAGGCACATC
* * *** * *
3028004 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--CAAAGACCCCCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACTACGC
* *
3028066 TCAGCTTCGAGGGCACATC
66 TCAGC-TCCAAGGCACATC
3028085 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA-CAAAGACCTTTGAGTTCGACTACG
3028150 CTCAGCTCCAAGGCACATC
65 CTCAGCTCCAAGGCACATC
* * * * * * * * *
3028169 ATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATATG-C--CAAAGACCCTTAAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACTACGC
* * *
3028231 TCAGCTTCAAGGGCATAAC
66 TCAGCTCCAA-GGCACATC
* * * * * *
3028250 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAGCAAAGACCTTTGAGTTCGACTACGC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACTACGC
3028315 TCAGCTCCAAGGCACATC
66 TCAGCTCCAAGGCACATC
* * * * * *
3028333 ATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTG-C--CAAAGACCCTCGAGTTCGACTACGT
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACTACGC
* * *
3028395 TCAGCTTCGAGGGCATATC
66 TCAGC-TCCAAGGCACATC
* * * * * * * * *
3028414 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATTTGTCACCAAAGACCTTCGAGTTTGACTACGC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACTACGC
*
3028479 TCAGCTCCAAGGCATATC
66 TCAGCTCCAAGGCACATC
* * * *
3028497 ATTTGCATCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACACAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACA-AAGACCTTTGAGTTCGACTACG
*
3028562 CTCAACT-CAACGG--CA-C
65 CTCAGCTCCAA-GGCACATC
* * *
3028578 ATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTATG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA-CAAAGACCTTTGAGTTCGACTACG
3028643 CTCAGCTCCAAGGCACATC
65 CTCAGCTCCAAGGCACATC
* * * * * * *
3028662 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTGGAGTTCGACTACGC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACTACGC
*
3028727 TCAGCTCCAAGGCATATC
66 TCAGCTCCAAGGCACATC
* * ** * *
3028745 ATTTGCAACACAACTTAAGTCGAGAAAAGCTATCTGTCAACAAAGACCTTTCGAGTTCGA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGACCTTT-GAGTTCGA
3028805 GTTCGTTCAG
Statistics
Matches: 1257, Mismatches: 240, Indels: 102
0.79 0.15 0.06
Matches are distributed among these distances:
80 156 0.12
81 296 0.24
82 13 0.01
83 182 0.14
84 505 0.40
85 105 0.08
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (83 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACTACGC
TCAGCTCCAAGGCACATC
Found at i:3027480 original size:165 final size:164
Alignment explanation
Indices: 3027173--3028804 Score: 1606
Period size: 165 Copynumber: 9.9 Consensus size: 164
3027163 CAAACAAACT
* * *
3027173 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCTCGAGTTCGACTACG
* * * * * * * * * *
3027238 CTCAGC-TCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAA
62 CTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TAACCAAA
3027302 GACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATC
126 GACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATC
* * * * *
3027341 ATTTACAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGCTCA
* * *
3027406 GCTTCGAGGGCACATCATTTACGGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGATC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACC-AAAGACC
* *
3027471 TTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
130 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * * * * * *
3027506 ATTTGCAGCACAACTTGAA-TCTAGGAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTAC
1 ATTTGCAGCATAGCTT-AAGTCGAGAAGGGCTATCTG----CCAAAGACCCTCGAGTTCGACTAC
* * * * * * * *
3027570 GCTCAGC-TCAACGGCACATCATTTACAGTATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAA
61 GCTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAA
*** * * * *
3027631 GACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
126 GACCTTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
* * * * * * * *
3027671 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CC-AAAGACCCTCGAGTTCGACTACG
* * * * * * * * * * *
3027736 CTCAGC-TCCAAGGCATATCAATTGCAGCACAACTTGAATG-TAGGAGGGTTGTCTGCCAACCAA
62 CTCAGCTTCGAGGGCACATCATTTACAGCATAAC-TCAAGGCTAGAAGGGTTATCTG-TAACCAA
*
3027799 AGACCTTTGAGTTCGACTACGCTCAGCT-CAACGACACATC
125 AGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATC
* * *
3027839 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC-CTGAGTTCGATTACACTC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTC-GAGTTCGACTACGCTC
*
3027903 AGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGAC
65 AGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACC-AAAGAC
*
3027968 CTTTGAGTTCGACTACGCTCAGCTCTAAGGCACATC
129 CTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * *
3028004 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGCTCA
* * * * *
3028069 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TAACCAAAGACC
3028134 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
130 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * ** * *
3028169 ATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATATGCCAAAGACCCTTAAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGCTCA
* * * * *
3028234 GCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAGCAAAGACCT
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCT
3028299 TTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
131 TTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* *
3028333 ATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGCTCA
* * *
3028398 GCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATTTGTCACCAAAGACCT
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCT
* * *
3028463 TCGAGTTTGACTACGCTCAGCTCCAAGGCATATC
131 TTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * * * * * *
3028497 ATTTGCATCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACACAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--CA-AAGACCCTCGAGTTCGACTACG
* * * * * * * * *
3028562 CTCAAC-TCAACGG--CA-CATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAA
62 CTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TAACCAAA
* *
3028623 GACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCACATC
126 GACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * * * * * *
3028662 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTGGAGTTCGACTACGC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTCGAGTTCGACTACGC
* * * * * * * * * ** *
3028727 TCAGC-TCCAAGGCATATCATTTGCAACACAACTTAAGTCGAGAAAAGCTATCTGTCAA-CAAAG
63 TCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGT-AACCAAAG
3028790 ACCTTTCGAGTTCGA
127 ACCTTT-GAGTTCGA
3028805 GTTCGTTCAG
Statistics
Matches: 1233, Mismatches: 193, Indels: 77
0.82 0.13 0.05
Matches are distributed among these distances:
163 1 0.00
164 372 0.30
165 598 0.48
166 27 0.02
167 52 0.04
168 131 0.11
169 52 0.04
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (164 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGCTCA
GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCT
TTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:3027618 original size:249 final size:248
Alignment explanation
Indices: 3027173--3028804 Score: 2114
Period size: 249 Copynumber: 6.6 Consensus size: 248
3027163 CAAACAAACT
* * * * **
3027173 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAAGACCTTCGAGTTCGACTACG
*
3027238 CTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAG
65 CTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACCAAAG
*
3027303 ACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTACAGTATAGCTTAAGTCGAGAAG
130 ACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAG
*
3027368 GGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
195 GGCTATCTGCCAAAGACCCCCGAGTTCGACTACACTCAGCTTCGAGGGCACATC
* *
3027422 ATTTACGGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAGTTCGACTACG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACC-AAAGACCTTCGAGTTCGACTACG
*
3027487 CTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAA-TCTAGGAGGGTTGTCTGCCAACCAAA
65 CTCAGCTCCAAGGCATATCATTTGCAGCACAACTT-AAGTCTAGAAGGGTTGTCTGCCAACCAAA
*
3027551 GACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTACAGTATAGCTTAAGTCGAGAA
129 GACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAA
*
3027616 GGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
194 GGGCTATCTGCCAAAGACCCCCGAGTTCGACTACACTCAGCTTCGAGGGCACATC
*
3027671 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAGTTCGACTACG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACC-AAAGACCTTCGAGTTCGACTACG
* * *
3027736 CTCAGCTCCAAGGCATATCAATTGCAGCACAACTTGAA-TGTAGGAGGGTTGTCTGCCAACCAAA
65 CTCAGCTCCAAGGCATATCATTTGCAGCACAACTT-AAGTCTAGAAGGGTTGTCTGCCAACCAAA
*
3027800 GACCTTTGAGTTCGACTACGCTCAGCTCAACGACACATCATTTGCAGTATAGCTTAAGTCGAGAA
129 GACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAA
* *
3027865 GGGCTATCTGCCAAAGACCCCTGAGTTCGATTACACTCAGCTTCGAGGGCACATC
194 GGGCTATCTGCCAAAGACCCCCGAGTTCGACTACACTCAGCTTCGAGGGCACATC
*
3027920 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTACG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACC-AAAGACCTTCGAGTTCGACTACG
* * * * * * *
3027985 CTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAG
65 CTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACCAAAG
*** * * * * * *
3028046 ACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAA
130 ACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAA
* *** * * *
3028111 GGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
194 GGGCTATCTG----CCAAAGACCCCCGAGTTCGACTACACTCAGCTTCGAGGGCACATC
* * * * * * * * * * * *
3028169 ATTTGCAGTATAGCTTAAGTCGAGAAGAGCTA--TATG-CCAAAGACCCTT-AAGTTCGATTACA
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAGA-CCTTCGAGTTCGACTACG
* * * * * * * * *
3028230 CTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-AGCAAA
65 CTCAGCTCCAA-GGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACCAAA
*
3028294 GACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGAATAGCTTAAGTCGAGA
129 GACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGA
* ** *
3028358 AGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAGGGCATATC
193 AGGGCTATCTGCCAAAGACCCCCGAGTTCGACTACACTCAGCTTCGAGGGCACATC
* * *
3028414 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATTTGTCACCAAAGACCTTCGAGTTTGACTACGC
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACGC
*
3028479 TCAGCTCCAAGGCATATCATTTGCATCACAACTTAAGTCTAGAAGGGTTGTCTGCCAA-CACAAG
66 TCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACCA-AAG
* *
3028543 ACCTTTGAGTTCGACTACGCTCAACTCAACGG--CA-CATTTGCAGTATAACTTAAGTCGAGAAG
130 ACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAG
* ** ** * *
3028605 GGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTATGCTCAGC-TCCAAGGCACATC
195 GGCTATCTG----CCAAAGACCCCCGAGTTCGACTACACTCAGCTTCGAGGGCACATC
* *
3028662 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTGGAGTTCGACTACGC
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACGC
* * ** * * *
3028727 TCAGCTCCAAGGCATATCATTTGCAACACAACTTAAGTCGAGAAAAGCTATCTGTCAA-CAAAGA
66 TCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACCAAAGA
3028791 CCTTTCGAGTTCGA
131 CCTTT-GAGTTCGA
3028805 GTTCGTTCAG
Statistics
Matches: 1230, Mismatches: 126, Indels: 55
0.87 0.09 0.04
Matches are distributed among these distances:
244 28 0.02
245 118 0.10
246 87 0.07
247 61 0.05
248 237 0.19
249 670 0.54
250 29 0.02
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (248 bp):
ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACGC
TCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACCAAAGA
CCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGG
GCTATCTGCCAAAGACCCCCGAGTTCGACTACACTCAGCTTCGAGGGCACATC
Found at i:3030278 original size:40 final size:39
Alignment explanation
Indices: 3030142--3030280 Score: 197
Period size: 40 Copynumber: 3.5 Consensus size: 39
3030132 AAAATTATAC
*
3030142 ATATATGCATAGGATTCATGGATTTAAAATAAAATATTATAT
1 ATATATGCATAGGATCCATGG-TTTAAAATAAAATA-T-TAT
* * *
3030184 ATATATGCATAGGATCAAGGGTTTAAAATAAGATATTAT
1 ATATATGCATAGGATCCATGGTTTAAAATAAAATATTAT
*
3030223 ATATATGCATAGGATCCATGAGTTTATAATAAAATATTAT
1 ATATATGCATAGGATCCATG-GTTTAAAATAAAATATTAT
3030263 ATATATGCATAGGATCCA
1 ATATATGCATAGGATCCA
3030281 AGTGTTTAGA
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 21 0.24
40 36 0.41
41 13 0.15
42 18 0.20
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.35
Consensus pattern (39 bp):
ATATATGCATAGGATCCATGGTTTAAAATAAAATATTAT
Found at i:3030299 original size:42 final size:39
Alignment explanation
Indices: 3030142--3030297 Score: 188
Period size: 40 Copynumber: 3.8 Consensus size: 39
3030132 AAAATTATAC
* *
3030142 ATATATGCATAGGATTCATGGATTTAAAATAAAATATTATAT
1 ATATATGCATAGGATCCAAGG-TTTAAAATAAAATA-T-TAT
*
3030184 ATATATGCATAGGAT-CAAGGGTTTAAAATAAGATATTAT
1 ATATATGCATAGGATCCAA-GGTTTAAAATAAAATATTAT
* *
3030223 ATATATGCATAGGATCCATGAGTTTATAATAAAATATTAT
1 ATATATGCATAGGATCCAAG-GTTTAAAATAAAATATTAT
*
3030263 ATATATGCATAGGATCCAAGTGTTTAGAAAAAAAA
1 ATATATGCATAGGATCCAAG-GTTTA-AAATAAAA
3030298 ATCATTTATT
Statistics
Matches: 101, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
39 19 0.19
40 44 0.44
41 21 0.21
42 17 0.17
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.34
Consensus pattern (39 bp):
ATATATGCATAGGATCCAAGGTTTAAAATAAAATATTAT
Found at i:3030989 original size:12 final size:12
Alignment explanation
Indices: 3030972--3030996 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3030962 GGTTACGACA
3030972 CTTAGTAAATTC
1 CTTAGTAAATTC
3030984 CTTAGTAAATTC
1 CTTAGTAAATTC
3030996 C
1 C
3030997 CTATTCATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (12 bp):
CTTAGTAAATTC
Found at i:3034761 original size:30 final size:29
Alignment explanation
Indices: 3034702--3034792 Score: 111
Period size: 30 Copynumber: 3.3 Consensus size: 29
3034692 TTCTTGTGTG
*
3034702 GTTCGTGTTCGTCTA-TT-TTTTT-A-GT
1 GTTCGTGTTCGTTTATTTATTTTTAAGGT
*
3034727 -TTCGTGTTCGTTTATTTATTTTTGAATGT
1 GTTCGTGTTCGTTTATTTATTTTT-AAGGT
3034756 GTTCGTGTTCGTTTATTTATTTTTAAGGT
1 GTTCGTGTTCGTTTATTTATTTTTAAGGT
*
3034785 GTTTGTGT
1 GTTCGTGT
3034793 CCATTGATTT
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
24 13 0.23
25 2 0.04
26 5 0.09
28 1 0.02
29 13 0.23
30 23 0.40
ACGTcount: A:0.11, C:0.08, G:0.21, T:0.60
Consensus pattern (29 bp):
GTTCGTGTTCGTTTATTTATTTTTAAGGT
Found at i:3034802 original size:29 final size:30
Alignment explanation
Indices: 3034740--3034803 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
3034730 GTGTTCGTTT
* * * *
3034740 ATTTATTTTTGAATGTGTTCGTGTTCGTTT
1 ATTTATTTTTGAAGGTGTTCGTGTCCATTG
*
3034770 ATTTATTTTT-AAGGTGTTTGTGTCCATTG
1 ATTTATTTTTGAAGGTGTTCGTGTCCATTG
3034799 ATTTA
1 ATTTA
3034804 ACATTCGCGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.17, C:0.06, G:0.19, T:0.58
Consensus pattern (30 bp):
ATTTATTTTTGAAGGTGTTCGTGTCCATTG
Found at i:3034854 original size:12 final size:12
Alignment explanation
Indices: 3034839--3034885 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
3034829 GTTCGGAAAC
3034839 ATGTTCGTTTAA
1 ATGTTCGTTTAA
*
3034851 ATGTTCG-TGAA
1 ATGTTCGTTTAA
* *
3034862 CATGTTCATTTAT
1 -ATGTTCGTTTAA
3034875 ATGTTCGTTTA
1 ATGTTCGTTTA
3034886 GCGTTCATGA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
11 3 0.11
12 23 0.82
13 2 0.07
ACGTcount: A:0.23, C:0.11, G:0.17, T:0.49
Consensus pattern (12 bp):
ATGTTCGTTTAA
Found at i:3034863 original size:24 final size:25
Alignment explanation
Indices: 3034817--3034882 Score: 93
Period size: 24 Copynumber: 2.8 Consensus size: 25
3034807 TTCGCGAATG
3034817 TGTTCATTT-AATGTTCG-GAAACA
1 TGTTCATTTAAATGTTCGTGAAACA
*
3034840 TGTTCGTTTAAATGTTCGTG-AACA
1 TGTTCATTTAAATGTTCGTGAAACA
*
3034864 TGTTCATTTATATGTTCGT
1 TGTTCATTTAAATGTTCGT
3034883 TTAGCGTTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
23 8 0.21
24 29 0.76
25 1 0.03
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.45
Consensus pattern (25 bp):
TGTTCATTTAAATGTTCGTGAAACA
Found at i:3034907 original size:23 final size:23
Alignment explanation
Indices: 3034881--3034982 Score: 150
Period size: 23 Copynumber: 4.4 Consensus size: 23
3034871 TTATATGTTC
*
3034881 GTTTAGCGTTCATGAGCATATTT
1 GTTTAGCGTTCATGAACATATTT
* *
3034904 GTTTAGCGTTCGTGAACATGTTT
1 GTTTAGCGTTCATGAACATATTT
*
3034927 GTTTAGCGTTCATGAGCATATTT
1 GTTTAGCGTTCATGAACATATTT
* *
3034950 GTTTAGCGTTCGTGAACATGTTT
1 GTTTAGCGTTCATGAACATATTT
3034973 GTTTAGCGTT
1 GTTTAGCGTT
3034983 ACTTTATCGT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.19, C:0.13, G:0.25, T:0.44
Consensus pattern (23 bp):
GTTTAGCGTTCATGAACATATTT
Found at i:3034942 original size:46 final size:46
Alignment explanation
Indices: 3034875--3034982 Score: 207
Period size: 46 Copynumber: 2.3 Consensus size: 46
3034865 GTTCATTTAT
*
3034875 ATGTTCGTTTAGCGTTCATGAGCATATTTGTTTAGCGTTCGTGAAC
1 ATGTTTGTTTAGCGTTCATGAGCATATTTGTTTAGCGTTCGTGAAC
3034921 ATGTTTGTTTAGCGTTCATGAGCATATTTGTTTAGCGTTCGTGAAC
1 ATGTTTGTTTAGCGTTCATGAGCATATTTGTTTAGCGTTCGTGAAC
3034967 ATGTTTGTTTAGCGTT
1 ATGTTTGTTTAGCGTT
3034983 ACTTTATCGT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 61 1.00
ACGTcount: A:0.19, C:0.13, G:0.24, T:0.44
Consensus pattern (46 bp):
ATGTTTGTTTAGCGTTCATGAGCATATTTGTTTAGCGTTCGTGAAC
Found at i:3038660 original size:16 final size:16
Alignment explanation
Indices: 3038639--3038686 Score: 96
Period size: 16 Copynumber: 3.0 Consensus size: 16
3038629 TGAGACCAAA
3038639 CATTTTCTTATTCATG
1 CATTTTCTTATTCATG
3038655 CATTTTCTTATTCATG
1 CATTTTCTTATTCATG
3038671 CATTTTCTTATTCATG
1 CATTTTCTTATTCATG
3038687 TATTACCTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.56
Consensus pattern (16 bp):
CATTTTCTTATTCATG
Found at i:3040066 original size:42 final size:42
Alignment explanation
Indices: 3040007--3040341 Score: 413
Period size: 42 Copynumber: 7.9 Consensus size: 42
3039997 TCAACTCCGG
* *
3040007 TTCTGCTGTTTCCGTCGAAGGCTTCTCTACCGATTGTTTGGA
1 TTCTGCGGTTCCCGTCGAAGGCTTCTCTACCGATTGTTTGGA
*
3040049 TTCTGCGGTTTCCGTCGAAGGCTTCTTCTCCACCGATTGTTTGGA
1 TTCTGCGGTTCCCGTCGAAGGCTTC-TCT--ACCGATTGTTTGGA
* * * * *
3040094 TTCTGAGCTTTCCGTCGAAGGCTTCTCCACCGAGTGTTTGGA
1 TTCTGCGGTTCCCGTCGAAGGCTTCTCTACCGATTGTTTGGA
* * *
3040136 TTCTGCGGCTCCCGTCAAAGGCTTCTCCACCGATTGTTTGGA
1 TTCTGCGGTTCCCGTCGAAGGCTTCTCTACCGATTGTTTGGA
* *
3040178 TTCAGCGGTTCCCGTCAAAGGCTTCTCCT-CCGATTGTTTGGA
1 TTCTGCGGTTCCCGTCGAAGGCTTCT-CTACCGATTGTTTGGA
3040220 TTCTGCGGTTCCCGTCGAAGGCTTCTCCT-CCGATTGTTTGGA
1 TTCTGCGGTTCCCGTCGAAGGCTTCT-CTACCGATTGTTTGGA
* ** * *
3040262 TTCTGCGGTTCTCGTATAAGGCTTCGCTGCCGATTGTTTGGA
1 TTCTGCGGTTCCCGTCGAAGGCTTCTCTACCGATTGTTTGGA
* * * *
3040304 TTCTGAGGTTCCCGTCAAAGGCTTCGCTGCCGATTGTT
1 TTCTGCGGTTCCCGTCGAAGGCTTCTCTACCGATTGTT
3040342 GTGACTCTGT
Statistics
Matches: 264, Mismatches: 24, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
41 2 0.01
42 219 0.83
43 4 0.02
44 2 0.01
45 37 0.14
ACGTcount: A:0.13, C:0.27, G:0.25, T:0.36
Consensus pattern (42 bp):
TTCTGCGGTTCCCGTCGAAGGCTTCTCTACCGATTGTTTGGA
Found at i:3043708 original size:92 final size:93
Alignment explanation
Indices: 3043564--3043741 Score: 241
Period size: 92 Copynumber: 1.9 Consensus size: 93
3043554 GCTAAAGCAC
* ** * *
3043564 ATCTTATCATTAAACAACTATAATGGGGCTATATTAGTTAGACTAAGGTGTTAGTGTCGTATACT
1 ATCTTATCATTAAACAACTACAATGGGGCTATATTAGTTAGACTAAGGTGTTAGCATAGTACACT
3043629 AGTATGTTTCGCACGCAATTTATTAAGT
66 AGTATGTTTCGCACGCAATTTATTAAGT
** * * **
3043657 ATCTTATCATTAAACGGCTACAAT-GGGCTATGTTAGTTAGACTCATTTGTTAGCATAGTACACT
1 ATCTTATCATTAAACAACTACAATGGGGCTATATTAGTTAGACTAAGGTGTTAGCATAGTACACT
*
3043721 AGTATGTTTCGCATGCAATTT
66 AGTATGTTTCGCACGCAATTT
3043742 TCAAGGTCAT
Statistics
Matches: 73, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
92 52 0.71
93 21 0.29
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.38
Consensus pattern (93 bp):
ATCTTATCATTAAACAACTACAATGGGGCTATATTAGTTAGACTAAGGTGTTAGCATAGTACACT
AGTATGTTTCGCACGCAATTTATTAAGT
Found at i:3046797 original size:32 final size:32
Alignment explanation
Indices: 3046761--3046840 Score: 106
Period size: 32 Copynumber: 2.5 Consensus size: 32
3046751 AATAAGTTAA
* * *
3046761 TTAACCGAACCGTTAATATTAAATGGTTTCGG
1 TTAACCGAACCGCTAATACTAAACGGTTTCGG
*
3046793 TTAACCAAACCGCTAATACTAAACGGTTTCGG
1 TTAACCGAACCGCTAATACTAAACGGTTTCGG
* *
3046825 TTAATCGAACCACTAA
1 TTAACCGAACCGCTAA
3046841 AAATAATAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (32 bp):
TTAACCGAACCGCTAATACTAAACGGTTTCGG
Found at i:3046871 original size:51 final size:51
Alignment explanation
Indices: 3046812--3046914 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
3046802 CCGCTAATAC
*
3046812 TAAACGGTTTCGGTTAATCGAACCACTAAAAATAATAGTTAACGGTTAAGA
1 TAAACGGTTTCGGTTAATCGAACCACTAAAAAGAATAGTTAACGGTTAAGA
*
3046863 TAAACGGTTTCGGTTAATCGAACCACTAAAAAGGATAGTTAACGGTTAAGA
1 TAAACGGTTTCGGTTAATCGAACCACTAAAAAGAATAGTTAACGGTTAAGA
3046914 T
1 T
3046915 TAATGTTATA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (51 bp):
TAAACGGTTTCGGTTAATCGAACCACTAAAAAGAATAGTTAACGGTTAAGA
Found at i:3047240 original size:51 final size:51
Alignment explanation
Indices: 3047175--3047362 Score: 274
Period size: 51 Copynumber: 3.7 Consensus size: 51
3047165 ACTTACATTA
* *
3047175 GTGTAAGTATGTGTTAAGTGTTACACTTTTTTATTTTATTTACTTACACCG
1 GTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACCG
*
3047226 GTGTAAGTATGTGTTAAGTGCTACAATTTTTATTTTATTTTATTCACTTACACCG
1 GTGTAAGTATGTGTTAAGTGCTAC-A--CTT-TTTTATTTTATTCACTTACACCG
* *
3047281 GTGT-AGTATGTGTTAAGTGCTACACTTATTTATTTTATTCACTTACACTG
1 GTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACCG
3047331 GTGTAAGTATGTGTTAAGTGCT--ACTTTTTTAT
1 GTGTAAGTATGTGTTAAGTGCTACACTTTTTTAT
3047363 AATATGAATT
Statistics
Matches: 125, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
49 9 0.07
50 25 0.20
51 42 0.34
52 1 0.01
53 1 0.01
54 21 0.17
55 26 0.21
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.48
Consensus pattern (51 bp):
GTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACCG
Found at i:3048150 original size:21 final size:21
Alignment explanation
Indices: 3048035--3048150 Score: 60
Period size: 21 Copynumber: 5.6 Consensus size: 21
3048025 GCGAAATAAA
**
3048035 AATCGCAACGCGA-TCCCCAG
1 AATCGCAACGCGATTTTCCAG
** * *
3048055 AATCGCAAATC-AGTTTCCAA
1 AATCGCAACGCGATTTTCCAG
* *
3048075 AATCGCAACGCGATTCTT-GAC
1 AATCGCAACGCGATT-TTCCAG
* ** *
3048096 AATCGCAATGCGATAGTACA-
1 AATCGCAACGCGATTTTCCAG
**
3048116 AATTCGCATTGCGATTTTCCAG
1 AA-TCGCAACGCGATTTTCCAG
3048138 AATCGCAACGCGA
1 AATCGCAACGCGA
3048151 ATATGAAAAT
Statistics
Matches: 70, Mismatches: 20, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
19 1 0.01
20 25 0.36
21 40 0.57
22 4 0.06
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.22
Consensus pattern (21 bp):
AATCGCAACGCGATTTTCCAG
Found at i:3048163 original size:20 final size:20
Alignment explanation
Indices: 3048138--3048330 Score: 246
Period size: 20 Copynumber: 9.6 Consensus size: 20
3048128 GATTTTCCAG
* ** *
3048138 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
3048158 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
3048178 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
3048198 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
3048218 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
3048238 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
3048258 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
3048278 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGTATCCGT-A
3048299 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
3048319 AATCGCAACGCG
1 AATCGCAACGCG
3048331 ATTTTTAAAG
Statistics
Matches: 151, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
19 1 0.01
20 131 0.87
21 19 0.13
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:3048749 original size:33 final size:33
Alignment explanation
Indices: 3048710--3048780 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
3048700 TTCACTTAGA
3048710 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
3048743 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
3048776 TTTCA
1 TTTCA
3048781 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:3048934 original size:21 final size:21
Alignment explanation
Indices: 3048860--3048936 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
3048850 TGCAGAAGAG
*
3048860 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
* **
3048881 TCGCAACGTGA-AAATGACTA
1 TCGCAACGAGAGAAATGAAAA
3048901 TCTGCAACGAGAGAAATGAAAA
1 TC-GCAACGAGAGAAATGAAAA
3048923 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
3048937 TCGCAACGCG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.19
21 30 0.62
22 9 0.19
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:3048983 original size:19 final size:19
Alignment explanation
Indices: 3048956--3049006 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
3048946 GAAACCAAAA
*
3048956 TCGCATTGCGATTTTAATT
1 TCGCGTTGCGATTTTAATT
* *
3048975 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTAATT
3048994 TCGCGTTGCGATT
1 TCGCGTTGCGATT
3049007 CTCTCGTTGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTAATT
Found at i:3049014 original size:33 final size:37
Alignment explanation
Indices: 3048975--3049069 Score: 117
Period size: 41 Copynumber: 2.6 Consensus size: 37
3048965 GATTTTAATT
3048975 TCTCGTTGCGATTTTCATTTCGCGTT-G-C-G-ATTC
1 TCTCGTTGCGATTTTCATTTCGCGTTCGTCAGCATTC
*
3049008 TCTCGTTGCGATTTTCATTTCTCTCGTTGCGTCAGTCATTC
1 TCTCGTTGCGATTTTCA-TT-TCGCGTT-CGTCAG-CATTC
3049049 TCTCGTTGCGATTTTCATTTC
1 TCTCGTTGCGATTTTCATTTC
3049070 AACCAAAAGA
Statistics
Matches: 53, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
33 17 0.32
34 2 0.04
35 6 0.11
37 1 0.02
38 1 0.02
39 3 0.06
40 2 0.04
41 21 0.40
ACGTcount: A:0.09, C:0.25, G:0.18, T:0.47
Consensus pattern (37 bp):
TCTCGTTGCGATTTTCATTTCGCGTTCGTCAGCATTC
Found at i:3049031 original size:21 final size:21
Alignment explanation
Indices: 3049005--3049069 Score: 89
Period size: 21 Copynumber: 3.1 Consensus size: 21
3048995 CGCGTTGCGA
3049005 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
3049026 TTCTCTCGTTGCG-TCAGTCA-
1 TTCTCTCGTTGCGAT-TTTCAT
3049046 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
3049067 TTC
1 TTC
3049070 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.09, C:0.26, G:0.15, T:0.49
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:3050913 original size:93 final size:93
Alignment explanation
Indices: 3050754--3051069 Score: 614
Period size: 93 Copynumber: 3.4 Consensus size: 93
3050744 TAGATTGCTT
*
3050754 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
3050819 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
3050847 AGTAAATTTGTTCGGCTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
3050912 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
3050940 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
3051005 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
3051033 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
3051070 AATACCCTGA
Statistics
Matches: 220, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 220 1.00
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:3051204 original size:14 final size:14
Alignment explanation
Indices: 3051185--3051241 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
3051175 CGAAACTTAA
3051185 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
3051199 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
3051218 AATCGCAACGACAG
1 AATCGCAACGAGAG
3051232 AATCGCAACG
1 AATCGCAACG
3051242 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:3051223 original size:19 final size:18
Alignment explanation
Indices: 3051199--3051290 Score: 65
Period size: 19 Copynumber: 5.4 Consensus size: 18
3051189 GCAACGAGAG
3051199 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAA-GAA
*
3051218 AATCGCAA--CGACAG--
1 AATCGCAACGCGAAAGAA
*
3051232 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
*
3051251 AATCGCAA--CG--ACAA
1 AATCGCAACGCGAAAGAA
*
3051265 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
3051284 AATCGCA
1 AATCGCA
3051291 TTGCGATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 19 0.32
15 1 0.02
16 7 0.12
17 6 0.10
18 1 0.02
19 26 0.43
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (18 bp):
AATCGCAACGCGAAAGAA
Found at i:3051225 original size:33 final size:33
Alignment explanation
Indices: 3051167--3051290 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
3051157 TAGTTTACTT
* * *
3051167 TCGCAACACGAAACTTAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGACAGAA
**
3051201 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
*
3051234 TCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
3051267 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
3051291 TTGCGATTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.46, C:0.27, G:0.18, T:0.09
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGACAGAA
Found at i:3051267 original size:14 final size:14
Alignment explanation
Indices: 3051216--3051274 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
3051206 ACGCGAAATG
3051216 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
3051230 AGAATCGCAACGCGAAACC
1 AAAATCGCAA--CG--A-C
3051249 AAAATCGCAACGAC
1 AAAATCGCAACGAC
3051263 AAAATCGCAACG
1 AAAATCGCAACG
3051275 CGAAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.47, C:0.29, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:3051308 original size:19 final size:19
Alignment explanation
Indices: 3051286--3051458 Score: 159
Period size: 19 Copynumber: 9.6 Consensus size: 19
3051276 GAAACCAAAA
*
3051286 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
3051305 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
3051319 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
3051338 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
3051354 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
3051371 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
3051390 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
3051409 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
3051428 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
3051448 TCGTGTTGCGA
1 TCGCGTTGCGA
3051459 AAGTAAACTA
Statistics
Matches: 126, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 17 0.13
16 8 0.06
17 8 0.06
19 81 0.64
20 12 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:3051327 original size:14 final size:14
Alignment explanation
Indices: 3051308--3051364 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
3051298 TTTCATTTCG
3051308 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
3051322 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
3051339 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
3051355 CGTTGCGATT
1 CGTTGCGATT
3051365 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:3051416 original size:38 final size:38
Alignment explanation
Indices: 3051286--3051458 Score: 168
Period size: 33 Copynumber: 4.8 Consensus size: 38
3051276 GAAACCAAAA
*
3051286 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
3051321 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* **
3051354 T--CGTTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
** *
3051390 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
3051428 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
3051459 AAGTAAACTA
Statistics
Matches: 115, Mismatches: 15, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
31 2 0.02
32 1 0.01
33 52 0.45
34 1 0.01
35 2 0.02
36 2 0.02
38 44 0.38
39 11 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
Found at i:3053401 original size:14 final size:14
Alignment explanation
Indices: 3053382--3053431 Score: 91
Period size: 14 Copynumber: 3.6 Consensus size: 14
3053372 ATTGTTTAAT
3053382 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
3053396 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
3053410 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
3053424 TGATTTGT
1 TGATTTGT
3053432 GTAATTGATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.36, C:0.00, G:0.22, T:0.42
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:3053614 original size:20 final size:19
Alignment explanation
Indices: 3053538--3053636 Score: 136
Period size: 20 Copynumber: 5.4 Consensus size: 19
3053528 AAAAATGACT
3053538 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
3053557 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
3053576 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
3053590 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
3053610 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
3053630 ATCGCAA
1 ATCGCAA
3053637 CGAGAGAATC
Statistics
Matches: 72, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 1 0.01
17 3 0.04
19 27 0.38
20 30 0.42
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:3053640 original size:54 final size:53
Alignment explanation
Indices: 3053538--3053654 Score: 218
Period size: 54 Copynumber: 2.2 Consensus size: 53
3053528 AAAAATGACT
3053538 ATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
3053590 ATCGCAATGCGGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
3053644 ATCGCAATGCG
1 ATCGCAATGCG
3053655 ATTTTCATTT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
52 10 0.16
53 19 0.30
54 34 0.54
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:3053673 original size:19 final size:19
Alignment explanation
Indices: 3053645--3053853 Score: 259
Period size: 19 Copynumber: 11.7 Consensus size: 19
3053635 AACGAGAGAA
*
3053645 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3053664 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
3053683 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
3053700 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3053717 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
3053736 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
3053752 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3053769 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3053788 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3053807 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
3053825 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
3053841 TCGCATTGCGATT
1 TCGCATTGCGATT
3053854 CTCTCGTTGC
Statistics
Matches: 166, Mismatches: 7, Indels: 34
0.80 0.03 0.16
Matches are distributed among these distances:
14 23 0.14
16 14 0.08
17 14 0.08
18 4 0.02
19 85 0.51
20 26 0.16
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:3053875 original size:33 final size:33
Alignment explanation
Indices: 3053722--3053867 Score: 195
Period size: 33 Copynumber: 4.2 Consensus size: 33
3053712 TCATTTCGCA
3053722 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
3053755 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
*
3053791 CATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 --TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
3053827 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
3053860 TTGCGATT
1 TTGCGATT
3053868 GTAATTTCCG
Statistics
Matches: 99, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
32 1 0.01
33 47 0.47
34 14 0.14
35 3 0.03
36 6 0.06
37 3 0.03
38 15 0.15
39 10 0.10
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:3053875 original size:105 final size:103
Alignment explanation
Indices: 3053651--3053867 Score: 316
Period size: 105 Copynumber: 2.1 Consensus size: 103
3053641 AGAATCGCAA
3053651 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCA-
3053716 TTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
65 TTCG-ATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
3053756 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTTTCATTTCCGCATTGCGAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGA--TTC-TCT-CG--TTGCGAT
*
3053820 TTTCA-T-G-TTGGGATTTTCATTTCGCATTGCGATTCTCTCGT
60 TTTCATTCGATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
3053861 TGCGATT
1 TGCGATT
3053868 GTAATTTCCG
Statistics
Matches: 104, Mismatches: 2, Indels: 12
0.88 0.02 0.10
Matches are distributed among these distances:
104 10 0.10
105 73 0.70
106 3 0.03
107 3 0.03
108 3 0.03
110 12 0.12
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (103 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
TCGATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:3056169 original size:12 final size:12
Alignment explanation
Indices: 3056152--3056176 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3056142 TCTTCGGGGA
3056152 CTTTTTCTTCTT
1 CTTTTTCTTCTT
3056164 CTTTTTCTTCTT
1 CTTTTTCTTCTT
3056176 C
1 C
3056177 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:3056385 original size:24 final size:24
Alignment explanation
Indices: 3056351--3056397 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
3056341 CTGAAACATC
3056351 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
3056375 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
3056398 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:3057118 original size:20 final size:20
Alignment explanation
Indices: 3057090--3057298 Score: 206
Period size: 20 Copynumber: 10.4 Consensus size: 20
3057080 AAATTTCAGT
* * * *
3057090 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
* * *
3057110 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
3057130 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
*
3057150 GTTGCGATTTACGAATACGC
1 GTTGCGATTTACGGATACGC
*
3057170 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
*
3057190 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
3057210 GTTGCTATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
3057230 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
3057250 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
3057270 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
3057290 GTTGCGATT
1 GTTGCGATT
3057299 CTTGAAAATC
Statistics
Matches: 163, Mismatches: 22, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
19 2 0.01
20 159 0.98
21 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:3058137 original size:30 final size:30
Alignment explanation
Indices: 3058076--3058137 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
3058066 CTCCGGCCAG
* * *
3058076 CTTCTCAAAGACGTCAGATGTTTCGGTCGA
1 CTTCTCAAAGACGTCAGATGTTCCAGCCGA
*
3058106 CTTCTCAAAGACGTCGGATGTTCCAGCCGA
1 CTTCTCAAAGACGTCAGATGTTCCAGCCGA
3058136 CT
1 CT
3058138 CCCTCCTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (30 bp):
CTTCTCAAAGACGTCAGATGTTCCAGCCGA
Found at i:3065086 original size:2 final size:2
Alignment explanation
Indices: 3065079--3065114 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
3065069 GTAAAGTTAT
3065079 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3065115 AAATCATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3065682 original size:28 final size:28
Alignment explanation
Indices: 3065649--3065706 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
3065639 CGGATAAAAG
3065649 TTTATAGAATTTA-AGGATT-ATGATATAA
1 TTTATAGAATTTAGA-G-TTAATGATATAA
*
3065677 TTTATAGGATTTAGAGTTAATGATATAA
1 TTTATAGAATTTAGAGTTAATGATATAA
3065705 TT
1 TT
3065707 ATCGAGTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 2 0.07
28 24 0.89
29 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.45
Consensus pattern (28 bp):
TTTATAGAATTTAGAGTTAATGATATAA
Found at i:3068817 original size:20 final size:20
Alignment explanation
Indices: 3068771--3068896 Score: 114
Period size: 20 Copynumber: 6.5 Consensus size: 20
3068761 TCTGAAACTT
* *
3068771 AAAATCACAACACGAAAATA
1 AAAATCGCAACACGAAAATG
3068791 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** **
3068811 ACTATCGCAACACGAATTTG
1 AAAATCGCAACACGAAAATG
** *
3068831 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
* *
3068850 AAAATCGCAACGCG-AAATT
1 AAAATCGCAACACGAAAATG
* *
3068869 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACACGAAAATG
3068888 AAAATCGCA
1 AAAATCGCA
3068897 TTGCGATTCT
Statistics
Matches: 92, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
19 42 0.46
20 50 0.54
ACGTcount: A:0.48, C:0.23, G:0.14, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:3068885 original size:38 final size:38
Alignment explanation
Indices: 3068771--3068896 Score: 128
Period size: 38 Copynumber: 3.2 Consensus size: 38
3068761 TCTGAAACTT
* * *
3068771 AAAATCACAACACGAAAATAAAAATCGCAACACGAAAATG
1 AAAATCGCAACACG-AAATTAAAATCGCAACGCG-AAATG
** * **
3068811 ACTATCGCAACACGAATTTGACTATCGCAACGCGAAATG
1 AAAATCGCAACACGAAATT-AAAATCGCAACGCGAAATG
*
3068850 AAAATCGCAACGCGAAATTAAAATCGCAACGCGAAACT-
1 AAAATCGCAACACGAAATTAAAATCGCAACGCGAAA-TG
3068888 AAAATCGCA
1 AAAATCGCA
3068897 TTGCGATTCT
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
38 24 0.34
39 24 0.34
40 22 0.31
ACGTcount: A:0.48, C:0.23, G:0.14, T:0.14
Consensus pattern (38 bp):
AAAATCGCAACACGAAATTAAAATCGCAACGCGAAATG
Found at i:3068902 original size:19 final size:19
Alignment explanation
Indices: 3068834--3068896 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
3068824 GAATTTGACT
3068834 ATCGCAACGCGAAA-TGAAA
1 ATCGCAACGCGAAACT-AAA
*
3068853 ATCGCAACGCGAAATTAAA
1 ATCGCAACGCGAAACTAAA
3068872 ATCGCAACGCGAAACTAAA
1 ATCGCAACGCGAAACTAAA
3068891 ATCGCA
1 ATCGCA
3068897 TTGCGATTCT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
19 41 0.98
20 1 0.02
ACGTcount: A:0.46, C:0.24, G:0.17, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAACTAAA
Found at i:3069309 original size:22 final size:22
Alignment explanation
Indices: 3069282--3069324 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
3069272 GAGATAGACG
3069282 GATTTC-TCCGGAGATGGGGACT
1 GATTTCGT-CGGAGATGGGGACT
3069304 GATTTCGTCGGAGATGGGGAC
1 GATTTCGTCGGAGATGGGGAC
3069325 GGATGTTGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.19, C:0.16, G:0.40, T:0.26
Consensus pattern (22 bp):
GATTTCGTCGGAGATGGGGACT
Found at i:3069624 original size:20 final size:20
Alignment explanation
Indices: 3069499--3069617 Score: 184
Period size: 20 Copynumber: 6.0 Consensus size: 20
3069489 GCGCTTTGAA
*
3069499 AATCGCATTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
* * *
3069519 CATCGTGTTGCGACAGTCAG
1 AATCGCGTTGCGATAGTCAG
3069539 AATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
3069559 AATCTCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
3069579 AATCTCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
3069599 AATCGCGTTGCGATAGTCA
1 AATCGCGTTGCGATAGTCA
3069618 TACTCGCATT
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 90 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAG
Found at i:3069650 original size:60 final size:60
Alignment explanation
Indices: 3069499--3069656 Score: 165
Period size: 60 Copynumber: 2.6 Consensus size: 60
3069489 GCGCTTTGAA
* * ** *
3069499 AATCGCATTGCGATAGTCAGCATCGTGTTGCGACAGTCAGAATCGCGTTGCGATAGTCAG
1 AATCGCATTGAGATAGTCAGAATCGCATTGCGATAGTCAGAATCGCGTTGCGATAGTCAG
* * * * * *
3069559 AATCTCGTTGCGATAGTCAGAATCTCGTTGCGATAGTCAGAATCGCGTTGCGATAGTCAT
1 AATCGCATTGAGATAGTCAGAATCGCATTGCGATAGTCAGAATCGCGTTGCGATAGTCAG
* * * *
3069619 ACTCGCATTGAGAT-TTACATATTCGCATTGCGATAGTC
1 AATCGCATTGAGATAGT-CAGAATCGCATTGCGATAGTC
3069657 GGAAAATCAC
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
59 1 0.01
60 80 0.99
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (60 bp):
AATCGCATTGAGATAGTCAGAATCGCATTGCGATAGTCAGAATCGCGTTGCGATAGTCAG
Found at i:3082491 original size:25 final size:25
Alignment explanation
Indices: 3082458--3082514 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
3082448 GAGACTAATA
3082458 AAAATGTTTTGAAGATTAGGTGACT
1 AAAATGTTTTGAAGATTAGGTGACT
3082483 AAAATGTTTTGAAGATTAGGTGACT
1 AAAATGTTTTGAAGATTAGGTGACT
3082508 AAAATGT
1 AAAATGT
3082515 CCATAAGAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.35
Consensus pattern (25 bp):
AAAATGTTTTGAAGATTAGGTGACT
Found at i:3083167 original size:2 final size:2
Alignment explanation
Indices: 3083160--3083185 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3083150 CAATGTCCTA
3083160 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
3083186 CTATGATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3084711 original size:33 final size:32
Alignment explanation
Indices: 3084653--3084735 Score: 107
Period size: 33 Copynumber: 2.6 Consensus size: 32
3084643 CCCCACCCCG
* *
3084653 ATTATATATAT-ATATATAATATTTTATATT-
1 ATTATATATATAATATTTTATATTTTATATTA
*
3084683 TTATATATATATAATATTTTATATTTTTATATTA
1 AT-TATATATATAATATTTTATA-TTTTATATTA
3084717 ATTATATATATAATATTTT
1 ATTATATATATAATATTTT
3084736 TAGGTTCGGG
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
30 1 0.02
31 9 0.20
32 8 0.18
33 26 0.58
34 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (32 bp):
ATTATATATATAATATTTTATATTTTATATTA
Found at i:3084725 original size:26 final size:26
Alignment explanation
Indices: 3084659--3084714 Score: 105
Period size: 25 Copynumber: 2.2 Consensus size: 26
3084649 CCCGATTATA
3084659 TATATATATATAATATTTTATA-TTT
1 TATATATATATAATATTTTATATTTT
3084684 TATATATATATAATATTTTATATTTT
1 TATATATATATAATATTTTATATTTT
3084710 TATAT
1 TATAT
3084715 TAATTATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 22 0.73
26 8 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
TATATATATATAATATTTTATATTTT
Found at i:3086815 original size:29 final size:29
Alignment explanation
Indices: 3086761--3086836 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
3086751 AATATAAAAA
3086761 TAAGTGTTAAATTATATTATTTTTCAAGT-
1 TAAGTGTTAAATTATATTATTTTTCAA-TC
3086790 TAAGTGCTTAAATTAT-TT-TTTATTCAATC
1 TAAGTG-TTAAATTATATTATTT-TTCAATC
3086819 TAAGTGTTTAATATTATA
1 TAAGTG-TTAA-ATTATA
3086837 AATATTACTA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
28 4 0.10
29 23 0.56
30 14 0.34
ACGTcount: A:0.34, C:0.05, G:0.09, T:0.51
Consensus pattern (29 bp):
TAAGTGTTAAATTATATTATTTTTCAATC
Found at i:3090053 original size:17 final size:17
Alignment explanation
Indices: 3090031--3090065 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
3090021 CCCCTACTAT
3090031 GGTAAAGTACACAAAAG
1 GGTAAAGTACACAAAAG
3090048 GGTAAAGTACACAAAAG
1 GGTAAAGTACACAAAAG
3090065 G
1 G
3090066 TCCCTCAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.11, G:0.26, T:0.11
Consensus pattern (17 bp):
GGTAAAGTACACAAAAG
Found at i:3092173 original size:83 final size:83
Alignment explanation
Indices: 3092079--3092432 Score: 569
Period size: 83 Copynumber: 4.3 Consensus size: 83
3092069 ACGTATTTCC
*
3092079 TTTCTTCTTTTTAGTTTTATTGATAGGGTTTAGGGTTTAAAATTTAAAAGAAAATTGAAAATGTG
1 TTTCTTCTTTTTAGTTTTATTGATAGGGTTTAGGGTTTAAGATTTAAAAGAAAATTGAAAATGTG
*
3092144 AACTATAATTATTAGGGT
66 AATTATAATTATTAGGGT
* * *
3092162 TTTCTTCTTTTTAGTTTGATTGATAGGGTTTA--G-----GATTTAAAATAAATTTGAAAATGTG
1 TTTCTTCTTTTTAGTTTTATTGATAGGGTTTAGGGTTTAAGATTTAAAAGAAAATTGAAAATGTG
3092220 AATTATAATTATTAGGGT
66 AATTATAATTATTAGGGT
3092238 TTTCTTCTTTTTAGTTTTATTGATAGGGTTTAGGGTTTAAGATTTAAAAGAAAATTGAAAATGTG
1 TTTCTTCTTTTTAGTTTTATTGATAGGGTTTAGGGTTTAAGATTTAAAAGAAAATTGAAAATGTG
3092303 AATTATAATTATTAGGGT
66 AATTATAATTATTAGGGT
* * *
3092321 TTTCTTCTTTTTTAGTTTGATTGATAGGGTTTAAGGTTTAAGATTTAAAAGAAATTTGAAAATGT
1 TTTCTTC-TTTTTAGTTTTATTGATAGGGTTTAGGGTTTAAGATTTAAAAGAAAATTGAAAATGT
3092386 GAATTATAATTATTAGGGT
65 GAATTATAATTATTAGGGT
*
3092405 TTTTTTCTTTTTAGTTTTATTGATAGGG
1 TTTCTTCTTTTTAGTTTTATTGATAGGG
3092433 AGTAACGTCA
Statistics
Matches: 250, Mismatches: 13, Indels: 16
0.90 0.05 0.06
Matches are distributed among these distances:
76 70 0.28
78 1 0.00
81 1 0.00
83 99 0.40
84 79 0.32
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (83 bp):
TTTCTTCTTTTTAGTTTTATTGATAGGGTTTAGGGTTTAAGATTTAAAAGAAAATTGAAAATGTG
AATTATAATTATTAGGGT
Found at i:3092191 original size:76 final size:78
Alignment explanation
Indices: 3092109--3092432 Score: 449
Period size: 84 Copynumber: 4.1 Consensus size: 78
3092099 TGATAGGGTT
*
3092109 TAGGGTTTA-AA-ATTTAAAAGAAAATTGAAAATGTGAACTATAATTATTAGGGTTTTCTTCTTT
1 TAGGGTTTATAAGATTTAAAAGAAAATTGAAAATGTGAATTATAATTATTAGGGTTTTCTTCTTT
3092172 TTAGTTTGATTGA
66 TTAGTTTGATTGA
* * *
3092185 TAGGG-TT-TAGGATTTAAAATAAATTTGAAAATGTGAATTATAATTATTAGGGTTTTCTTCTTT
1 TAGGGTTTATAAGATTTAAAAGAAAATTGAAAATGTGAATTATAATTATTAGGGTTTTCTTCTTT
*
3092248 TTAGTTTTATTGA
66 TTAGTTTGATTGA
3092261 TAGGGTTTAGGGTTTAAGATTTAAAAGAAAATTGAAAATGTGAATTATAATTATTAGGGTTTTCT
1 TAGGGTTTA-----TAAGATTTAAAAGAAAATTGAAAATGTGAATTATAATTATTAGGGTTTTCT
3092326 TCTTTTTTAGTTTGATTGA
61 TC-TTTTTAGTTTGATTGA
* *
3092345 TAGGGTTTAAGGTTTAAGATTTAAAAGAAATTTGAAAATGTGAATTATAATTATTAGGGTTTTTT
1 TAGGGTTT-A----TAAGATTTAAAAGAAAATTGAAAATGTGAATTATAATTATTAGGGTTTTCT
*
3092410 TCTTTTTAGTTTTATTGA
61 TCTTTTTAGTTTGATTGA
3092428 TAGGG
1 TAGGG
3092433 AGTAACGTCA
Statistics
Matches: 225, Mismatches: 12, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
75 3 0.01
76 71 0.32
77 2 0.01
83 70 0.31
84 78 0.35
85 1 0.00
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (78 bp):
TAGGGTTTATAAGATTTAAAAGAAAATTGAAAATGTGAATTATAATTATTAGGGTTTTCTTCTTT
TTAGTTTGATTGA
Found at i:3092408 original size:159 final size:152
Alignment explanation
Indices: 3092086--3092409 Score: 486
Period size: 159 Copynumber: 2.0 Consensus size: 152
3092076 TCCTTTCTTC
3092086 TTTTTAGTTTTATTGATAGGGTTTAGGGTTTAAAATTTAAAAGAAAATTGAAAATGTGAACTATA
1 TTTTTAGTTTTATTGATAGGGTTTAGGGTTTAAAATTTAAAAGAAAATTGAAAATGTGAACTATA
*
3092151 ATTATTAGGGTTTTCTTCTTTTTAGTTTGATTGATAGGGTTTAGGATTTAAAATAAATTTGAAAA
66 ATTATTAGGGTTTTCTTCTTTTTAGTTTGATTGATAGGGTTTAGGATTTAAAAGAAATTTGAAAA
3092216 TGTGAATTATAATTATTAGGGTTTTCTT
131 TGTGAATTATAATTATTAGGG------T
* *
3092244 CTTTTTAGTTTTATTGATAGGGTTTAGGGTTTAAGATTTAAAAGAAAATTGAAAATGTGAATTAT
1 -TTTTTAGTTTTATTGATAGGGTTTAGGGTTTAAAATTTAAAAGAAAATTGAAAATGTGAACTAT
3092309 AATTATTAGGGTTTTCTTCTTTTTTAGTTTGATTGATAGGGTTTAAGGTTTAAGATTTAAAAGAA
65 AATTATTAGGGTTTTCTTC-TTTTTAGTTTGATTGATAGGGTTT-A-G-----GATTTAAAAGAA
3092374 ATTTGAAAATGTGAATTATAATTATTAGGGT
122 ATTTGAAAATGTGAATTATAATTATTAGGGT
3092405 TTTTT
1 TTTTT
3092410 TCTTTTTAGT
Statistics
Matches: 154, Mismatches: 3, Indels: 15
0.90 0.02 0.09
Matches are distributed among these distances:
159 81 0.53
160 29 0.19
161 2 0.01
162 1 0.01
167 41 0.27
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (152 bp):
TTTTTAGTTTTATTGATAGGGTTTAGGGTTTAAAATTTAAAAGAAAATTGAAAATGTGAACTATA
ATTATTAGGGTTTTCTTCTTTTTAGTTTGATTGATAGGGTTTAGGATTTAAAAGAAATTTGAAAA
TGTGAATTATAATTATTAGGGT
Found at i:3092586 original size:21 final size:21
Alignment explanation
Indices: 3092540--3092585 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
3092530 TCATGGCATG
3092540 ATTTTCTCTGCTTTATAGCAC
1 ATTTTCTCTGCTTTATAGCAC
*
3092561 ATTTTCTGTGTCTTT-TA-CAC
1 ATTTTCTCTG-CTTTATAGCAC
3092581 ATTTT
1 ATTTT
3092586 TTTATCTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 11 0.48
22 4 0.17
ACGTcount: A:0.17, C:0.20, G:0.09, T:0.54
Consensus pattern (21 bp):
ATTTTCTCTGCTTTATAGCAC
Found at i:3093465 original size:2 final size:2
Alignment explanation
Indices: 3093458--3093502 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
3093448 TTGGTCATAG
3093458 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3093500 TA T
1 TA T
3093503 GCTACGTGTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3093631 original size:16 final size:16
Alignment explanation
Indices: 3093610--3093641 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
3093600 TACAAGACAG
3093610 AAAATGGATCACCAAA
1 AAAATGGATCACCAAA
3093626 AAAATGGATCACCAAA
1 AAAATGGATCACCAAA
3093642 CGTAAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.19, G:0.12, T:0.12
Consensus pattern (16 bp):
AAAATGGATCACCAAA
Found at i:3094579 original size:2 final size:2
Alignment explanation
Indices: 3094570--3094616 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
3094560 TGAAAAAAAT
* *
3094570 TA TA -A TA TA TA TA TA TA CA TA CA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3094611 TA TA TA
1 TA TA TA
3094617 AAATATGGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:3104061 original size:18 final size:18
Alignment explanation
Indices: 3104038--3104072 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3104028 AGGGGGAGTA
3104038 ATTTC-AAATTTGATTTTG
1 ATTTCAAAATTT-ATTTTG
3104056 ATTTCAAAATTTATTTT
1 ATTTCAAAATTTATTTT
3104073 CAAAGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (18 bp):
ATTTCAAAATTTATTTTG
Found at i:3104507 original size:65 final size:65
Alignment explanation
Indices: 3104403--3104562 Score: 218
Period size: 65 Copynumber: 2.5 Consensus size: 65
3104393 GAATAAATTG
*
3104403 AACATCGAATGCATTTCATGCATCGACGCA-CATACCATGCATCGACGCACTCATGAT-TTTATG
1 AACATCGAATGCATTTCATGCATCGATGCACCATACCATGCATCGACGCACTCATGATATTT-TG
3104466 AA
65 -A
* * * *
3104468 AACATCGAATGCATTTGATGCATCGATGCACCA-GCCATGCATCGATGCACTCATGCTATTTTGA
1 AACATCGAATGCATTTCATGCATCGATGCACCATACCATGCATCGACGCACTCATGATATTTTGA
* *
3104532 AACATCGAATGCATTTTATGCATCTATGCAC
1 AACATCGAATGCATTTCATGCATCGATGCAC
3104563 TCTTAGTACA
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
64 30 0.35
65 51 0.59
66 5 0.06
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACCATACCATGCATCGACGCACTCATGATATTTTGA
Found at i:3104578 original size:64 final size:63
Alignment explanation
Indices: 3104403--3104582 Score: 159
Period size: 65 Copynumber: 2.8 Consensus size: 63
3104393 GAATAAATTG
* * * * * * *
3104403 AACATCGAATGCATTTCATGCATCGACGCACATACCATGCATCGACGCACTCATGATTTTATGAA
1 AACATCGAATGCATTTGATGCATCGATGCAC-CAGC-TACACCGATGCACTCATGATTTTATGAA
* * *
3104468 AACATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCATGCTATTT-TG-
1 AACATCGAATGCATTTGATGCATCGATGCACCAG-C-TACACCGATGCACTCATGAT-TTTATGA
3104531 A
63 A
* *
3104532 AACATCGAATGCATTTTATGCATCTATGCACTCTTAG-TACACCGATGCACT
1 AACATCGAATGCATTTGATGCATCGATGCAC-C--AGCTACACCGATGCACT
3104583 AAGGGTCCAA
Statistics
Matches: 100, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
64 43 0.43
65 52 0.52
66 3 0.03
67 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACCAGCTACACCGATGCACTCATGATTTTATGAA
Found at i:3104645 original size:21 final size:21
Alignment explanation
Indices: 3104628--3104676 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
3104618 TTGATGCACT
3104628 GATGCACCTTGTGTATGCATC
1 GATGCACCTTGTGTATGCATC
3104649 GATGCACCTTGTGTATGCATC
1 GATGCACCTTGTGTATGCATC
3104670 GATGCAC
1 GATGCAC
3104677 TGACGCTCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.31
Consensus pattern (21 bp):
GATGCACCTTGTGTATGCATC
Found at i:3104827 original size:13 final size:13
Alignment explanation
Indices: 3104811--3104844 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
3104801 AATAAGAGAA
3104811 AACAAGAAGAAAC
1 AACAAGAAGAAAC
3104824 AACAAGAAGAAAC
1 AACAAGAAGAAAC
3104837 AACAAGAA
1 AACAAGAA
3104845 TCAAGAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.71, C:0.15, G:0.15, T:0.00
Consensus pattern (13 bp):
AACAAGAAGAAAC
Found at i:3106304 original size:31 final size:31
Alignment explanation
Indices: 3106266--3106361 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
3106256 GAGTCGAGGG
3106266 TTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
*
3106297 TTACCTATGTTCTTCGGGATATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
*
3106328 TTACCTGTGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
3106359 TTA
1 TTA
3106362 TGTTAATTAT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGA
Found at i:3107025 original size:18 final size:19
Alignment explanation
Indices: 3106993--3107028 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
3106983 CAATATAAAT
3106993 TTATATATAAACTATATAA
1 TTATATATAAACTATATAA
*
3107012 TTAT-TATAAGCTATATA
1 TTATATATAAACTATATA
3107029 TATAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (19 bp):
TTATATATAAACTATATAA
Found at i:3107058 original size:13 final size:13
Alignment explanation
Indices: 3106985--3107095 Score: 89
Period size: 13 Copynumber: 7.9 Consensus size: 13
3106975 GGGTGTTACA
*
3106985 ATATAAA-TTTAT
1 ATATAAACTATAT
3106997 ATATAAACTATAT
1 ATATAAACTATAT
3107010 AATTATTATAAGCTATAT
1 -A-TA-TA-AA-CTATAT
* *
3107028 ATATAAATTATGTTT
1 ATATAAACTA--TAT
*
3107043 ATATGAACTATAT
1 ATATAAACTATAT
*
3107056 ATATAAACTATGT
1 ATATAAACTATAT
3107069 ATATAAACTATAT
1 ATATAAACTATAT
3107082 ATTTATAAACTATA
1 A--TATAAACTATA
3107096 AAAAGTATAT
Statistics
Matches: 80, Mismatches: 9, Indels: 17
0.75 0.08 0.16
Matches are distributed among these distances:
12 7 0.09
13 32 0.40
14 3 0.04
15 25 0.31
16 4 0.05
17 3 0.04
18 6 0.08
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (13 bp):
ATATAAACTATAT
Found at i:3107062 original size:28 final size:26
Alignment explanation
Indices: 3106985--3107094 Score: 96
Period size: 28 Copynumber: 3.9 Consensus size: 26
3106975 GGGTGTTACA
* *
3106985 ATATAAA-TTTATATATAAACTATAT
1 ATATAAACTATATATATAAACTATGT
*
3107010 AATTATTATAAGCTATATATATAAATTATGTTT
1 -A-TA-TA-AA-CTATATATATAAACTATG--T
*
3107043 ATATGAACTATATATATAAACTATGT
1 ATATAAACTATATATATAAACTATGT
3107069 ATATAAACTATATATTTATAAACTAT
1 ATATAAACTATATA--TATAAACTAT
3107095 AAAAAGTATA
Statistics
Matches: 69, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
26 15 0.22
27 2 0.03
28 29 0.42
29 4 0.06
30 1 0.01
31 16 0.23
32 1 0.01
33 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (26 bp):
ATATAAACTATATATATAAACTATGT
Found at i:3107093 original size:41 final size:40
Alignment explanation
Indices: 3106985--3107095 Score: 102
Period size: 43 Copynumber: 2.6 Consensus size: 40
3106975 GGGTGTTACA
*
3106985 ATATAAATT-TATATATA-AACTATATAATTATTATAAGCTATAT
1 ATATAAATTATATTTATAGAACTATAT-A-TA-TA-AA-CTATAT
* *
3107028 ATATAAATTATGTTTATATGAACTATATATATAAACTATGT
1 ATATAAATTATATTTATA-GAACTATATATATAAACTATAT
3107069 ATATAAACTATATATTTATA-AACTATA
1 ATATAAA-T-TATATTTATAGAACTATA
3107096 AAAAGTATAT
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
41 19 0.32
42 3 0.05
43 20 0.34
44 8 0.14
45 1 0.02
46 8 0.14
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (40 bp):
ATATAAATTATATTTATAGAACTATATATATAAACTATAT
Found at i:3107408 original size:17 final size:17
Alignment explanation
Indices: 3107382--3107461 Score: 53
Period size: 17 Copynumber: 4.9 Consensus size: 17
3107372 ATAAGTAACC
*
3107382 TATAGATTATATATATA
1 TATAGATTATATAAATA
*
3107399 TATAGTTTATATAAATA
1 TATAGATTATATAAATA
*
3107416 T-T--A-TACATAAACTA
1 TATAGATTATATAAA-TA
* *
3107430 TATAAAATA-ATAAAGTA
1 TATAGATTATATAAA-TA
*
3107447 TATAGTTTATATAAA
1 TATAGATTATATAAA
3107462 CCTAAACTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
13 7 0.14
14 3 0.06
15 1 0.02
16 1 0.02
17 30 0.61
18 7 0.14
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (17 bp):
TATAGATTATATAAATA
Done.