Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 175 of 345
Found at i:59727857 original size:196 final size:196
Alignment explanation
Indices: 59727515--59727909 Score: 727
Period size: 196 Copynumber: 2.0 Consensus size: 196
59727505 TCTTTCCGCT
*
59727515 CTTTAGAAATCATCAATGCAACCTTCATTTTGGAAGGAAGTGAGGTGCTTGTACCCAAAATATCT
1 CTTTAGAAATCATCAATGCAACCTTCATTCTGGAAGGAAGTGAGGTGCTTGTACCCAAAATATCT
*
59727580 AGAGCCACAAGGATGGCCCTGCAAATGATGATGGGGAAAGGAGCAGTGCCAGGAAAGGGACTAGG
66 AGAGCCACAAGAATGGCCCTGCAAATGATGATGGGGAAAGGAGCAGTGCCAGGAAAGGGACTAGG
* * *
59727645 AAGATAGTTGCAAGGAGGGGTTCAAATCCCAAAACTAATTGAGAAGAAAGATCGCTTTGGTTTGG
131 AAGACAGTTGCAAGGAGAGGTTCAAATCCCAAAACTAATTAAGAAGAAAGATCGCTTTGGTTTGG
59727710 G
196 G
59727711 CTTTAGAAATCATCAATGCAACCTTCATTCTGGAAGGAAGTGAGGTGCTTGTACCCAAAATATCT
1 CTTTAGAAATCATCAATGCAACCTTCATTCTGGAAGGAAGTGAGGTGCTTGTACCCAAAATATCT
*
59727776 AGAGCCACAAGAATGGCCCTGCAAATGATGATGGGGAAGGGAGCAGTGCCAGGAAAGGGACTAGG
66 AGAGCCACAAGAATGGCCCTGCAAATGATGATGGGGAAAGGAGCAGTGCCAGGAAAGGGACTAGG
*
59727841 AAGACAGTTTCAAGGAGAGGTTCAAATCCCAAAACTAATTAAGAAGAAAGATCGCTTTGGTTTGG
131 AAGACAGTTGCAAGGAGAGGTTCAAATCCCAAAACTAATTAAGAAGAAAGATCGCTTTGGTTTGG
59727906 G
196 G
59727907 CTT
1 CTT
59727910 CTAGCCAGAC
Statistics
Matches: 192, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
196 192 1.00
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (196 bp):
CTTTAGAAATCATCAATGCAACCTTCATTCTGGAAGGAAGTGAGGTGCTTGTACCCAAAATATCT
AGAGCCACAAGAATGGCCCTGCAAATGATGATGGGGAAAGGAGCAGTGCCAGGAAAGGGACTAGG
AAGACAGTTGCAAGGAGAGGTTCAAATCCCAAAACTAATTAAGAAGAAAGATCGCTTTGGTTTGG
G
Found at i:59731976 original size:40 final size:40
Alignment explanation
Indices: 59731921--59732150 Score: 315
Period size: 40 Copynumber: 5.8 Consensus size: 40
59731911 GATGATAACG
* *
59731921 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC
*
59731961 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC
* *
59732001 GGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC
*
59732041 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCC
* *
59732081 GAGCTAAGTCCCAAAGGCATTTGTGCGA---ACTATTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA--AT-TCC
*
59732121 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
59732151 AGCTATATCC
Statistics
Matches: 174, Mismatches: 10, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
37 3 0.02
39 2 0.01
40 169 0.97
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC
Found at i:59732158 original size:40 final size:39
Alignment explanation
Indices: 59731921--59732176 Score: 306
Period size: 40 Copynumber: 6.4 Consensus size: 39
59731911 GATGATAACG
* *
59731921 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTAATTCC
*
59731961 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTAATTCC
*
59732001 GGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATTCC
59732041 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAT-TCC
* *
59732081 GAGCTAAGTCCCAAAGGCATTTGTGCGA--ACTATTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTA--AT-TCC
*
59732121 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTAAT-TCC
* *
59732161 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
59732177 TACTTGGTTT
Statistics
Matches: 197, Mismatches: 11, Indels: 17
0.88 0.05 0.08
Matches are distributed among these distances:
37 3 0.02
39 16 0.08
40 174 0.88
41 1 0.01
42 1 0.01
43 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATTCC
Found at i:59736459 original size:206 final size:206
Alignment explanation
Indices: 59736096--59736851 Score: 1127
Period size: 206 Copynumber: 3.7 Consensus size: 206
59736086 GCAGATCTGG
* * * *
59736096 CTGAAGGAAGATCCAAGATGGTTTGGAATCCTTGTGCTTACAAGGAACAAATCAAATATATAGCT
1 CTGAA-GAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
* *
59736161 AATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAA
65 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * * * **
59736226 AGAACAAATCAAAGTTTTGCATCTCCATATTCAACGGCGAGCAGATATATAGCAGATCTGGCCTT
130 AGAACAAATCAAAGTTTGGCATCTCCATATTCGACGGAGAGCAGATACATAGTAGATCTAACCTT
*
59736291 TAGATGTTTATA
195 CAGATGTTTATA
* * *
59736303 CTGAAGTAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * * * * * *
59736368 GTTTGGTTTTCGCGTGCTTACGCTGAAGCAAGTCTGAGATGATTTGGCATCTCTGTATTTTCAGA
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * * *
59736433 GAACAAATCGAAGTTTGGCGTCTCCATATTCGATGGAGGGCAGACACATAGTAGATCTAACCTTC
131 GAACAAATCAAAGTTTGGCATCTCCATATTCGACGGAGAGCAGATACATAGTAGATCTAACCTTC
* *
59736498 AGATGATTAGA
196 AGATGTTTATA
*
59736509 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
59736574 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * * *
59736639 GAACAAATCAAAGTCTGGCATCTCCAT-TTCGACTGAGAGTAGATACATAATAGACCTAACCTTC
131 GAACAAATCAAAGTTTGGCATCTCCATATTCGACGGAGAGCAGATACATAGTAGATCTAACCTTC
59736703 AGATGTTTATA
196 AGATGTTTATA
59736714 CTGAAGAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* ** *
59736779 ATTTGGTTTTTGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
59736844 GAACAAAT
131 GAACAAAT
59736852 TGAAGAAATA
Statistics
Matches: 491, Mismatches: 58, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
205 172 0.35
206 314 0.64
207 5 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (206 bp):
CTGAAGAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCAAAGTTTGGCATCTCCATATTCGACGGAGAGCAGATACATAGTAGATCTAACCTTC
AGATGTTTATA
Found at i:59744059 original size:27 final size:27
Alignment explanation
Indices: 59744029--59744171 Score: 130
Period size: 27 Copynumber: 5.3 Consensus size: 27
59744019 AAAATTATTG
*
59744029 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTTGGTTTATAAAATTACCA
* * *
59744056 AAATA-CCTTCGATCAGTAAAATTACCA
1 AAATACCCTTGGTTTA-TAAAATTACCA
* *
59744083 AAATACCCCTT-GTTTGTAAAATTACTA
1 AAATA-CCCTTGGTTTATAAAATTACCA
* * *
59744110 AAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCTTGGTTTATAAAATTACCA
* * *
59744137 AAATACCAC-TGGCTTGTAAACTTACCA
1 AAATACC-CTTGGTTTATAAAATTACCA
59744164 AAATACCC
1 AAATACCC
59744172 CTGATTTGTG
Statistics
Matches: 98, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
26 12 0.12
27 79 0.81
28 3 0.03
29 4 0.04
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATACCCTTGGTTTATAAAATTACCA
Found at i:59744087 original size:54 final size:54
Alignment explanation
Indices: 59744029--59744172 Score: 159
Period size: 54 Copynumber: 2.7 Consensus size: 54
59744019 AAAATTATTG
** *
59744029 AAATACCCTTGGTTTACAAAATTACCAAAATACCTTCGA-TCAGTAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCAAAATACC-CCGAGTCAGTAAAATTACCA
* * **
59744083 AAATACCCCTT-GTTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCA
1 AAATA-CCCTTGGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCA
* *
59744137 AAATACCAC-TGGCTTGTAAACTTACCAAAATACCCC
1 AAATACC-CTTGGTTTGTAAAATTACCAAAATACCCC
59744173 TGATTTGTGA
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
53 5 0.07
54 66 0.87
55 5 0.07
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (54 bp):
AAATACCCTTGGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCA
Found at i:59744180 original size:27 final size:27
Alignment explanation
Indices: 59744046--59744180 Score: 150
Period size: 27 Copynumber: 5.0 Consensus size: 27
59744036 CTTGGTTTAC
* **
59744046 AAAATTACCAAAATA-CCTTCGATCAGT
1 AAAATTACCAAAATACCCCT-GATTTGT
59744073 AAAATTACCAAAATACCCCTTG-TTTGT
1 AAAATTACCAAAATACCCC-TGATTTGT
*
59744100 AAAATTACTAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
* **
59744127 AAAATTACCAAAATACCACTGGCTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
*
59744154 AAACTTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
59744181 GAAAGTAACG
Statistics
Matches: 91, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
26 1 0.01
27 86 0.95
28 3 0.03
29 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:59744248 original size:27 final size:27
Alignment explanation
Indices: 59744210--59744374 Score: 231
Period size: 27 Copynumber: 6.1 Consensus size: 27
59744200 CGATTTATAG
* *
59744210 TACCATTTTACCCTCAATTTATAGAAT
1 TACCATTTTACCCTCGATTTACAGAAT
*
59744237 TACTATTTTACCCTCGATTTACAGAAT
1 TACCATTTTACCCTCGATTTACAGAAT
*
59744264 TACCATTTTACCCTCGATTTATAGAAT
1 TACCATTTTACCCTCGATTTACAGAAT
59744291 TACCATTTTACCCTCGATTTACAGAAT
1 TACCATTTTACCCTCGATTTACAGAAT
***
59744318 TATTGTTTTACCCTCGATTTACAGAAT
1 TACCATTTTACCCTCGATTTACAGAAT
* * * *
59744345 TACCGTTTTACCTTCAATTTACAAAAT
1 TACCATTTTACCCTCGATTTACAGAAT
59744372 TAC
1 TAC
59744375 TGAAATAACC
Statistics
Matches: 124, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 124 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCATTTTACCCTCGATTTACAGAAT
Found at i:59744433 original size:27 final size:26
Alignment explanation
Indices: 59744369--59744590 Score: 232
Period size: 27 Copynumber: 8.3 Consensus size: 26
59744359 CAATTTACAA
*
59744369 AATTACTGAAATAACCCTGTAGGGT-G
1 AATTACCGAAAT-ACCCTGTAGGGTAG
*
59744395 AATTACTC-AAATACCTCTATAGGGTAG
1 AATTAC-CGAAATACC-CTGTAGGGTAG
59744422 AATTACCGAAATATCCCTGTAGGGTAG
1 AATTACCGAAATA-CCCTGTAGGGTAG
**
59744449 AATTACTAAAATAACCCTGTAGGGTAG
1 AATTACCGAAAT-ACCCTGTAGGGTAG
*
59744476 AATTACTGAAATAACCCTGTAGGGTAG
1 AATTACCGAAAT-ACCCTGTAGGGTAG
59744503 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCC-TGTAGGGTAG
* ***
59744530 AAATATTAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCC-TGTAGGGTAG
* * * *
59744557 AATTATCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCC-TGTAGGGTAG
59744584 AATTACC
1 AATTACC
59744591 ATTTTGCCCC
Statistics
Matches: 171, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
25 3 0.02
26 23 0.13
27 142 0.83
28 3 0.02
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (26 bp):
AATTACCGAAATACCCTGTAGGGTAG
Found at i:59744509 original size:81 final size:81
Alignment explanation
Indices: 59744369--59744561 Score: 286
Period size: 81 Copynumber: 2.4 Consensus size: 81
59744359 CAATTTACAA
*
59744369 AATTACTGAAATAACCCTGTAGGGT-GAATTACTCAAATACCTCTATAGGGTAGAATTACCGAAA
1 AATTACTAAAATAACCCTGTAGGGTAGAATTACTCAAATACCTCTATAGGGTAGAATTACCGAAA
59744433 TATCCC-TGTAGGGTAG
66 TA-CCCTTGTAGGGTAG
* *
59744449 AATTACTAAAATAACCCTGTAGGGTAGAATTACTGAAATAACC-CTGTAGGGTAGAATTACCGAA
1 AATTACTAAAATAACCCTGTAGGGTAGAATTACTCAAAT-ACCTCTATAGGGTAGAATTACCGAA
59744513 ATACCCTTGTAGGGTAG
65 ATACCCTTGTAGGGTAG
* *
59744530 AAATATTAAAAT-ACCCTTGTAGGGTAGAATTA
1 AATTACTAAAATAACCC-TGTAGGGTAGAATTA
59744562 TCGAGATACC
Statistics
Matches: 104, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
80 31 0.30
81 70 0.67
82 3 0.03
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (81 bp):
AATTACTAAAATAACCCTGTAGGGTAGAATTACTCAAATACCTCTATAGGGTAGAATTACCGAAA
TACCCTTGTAGGGTAG
Found at i:59744831 original size:25 final size:25
Alignment explanation
Indices: 59744795--59744864 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
59744785 AGGAAGTGCT
*
59744795 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
59744820 AAAAGGGTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
59744845 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
59744865 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:59744877 original size:24 final size:24
Alignment explanation
Indices: 59744794--59744877 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
59744784 GAGGAAGTGC
*
59744794 TAAAAGGGCTTTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
* *
59744819 GAAAAGGGTTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
59744843 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
59744867 TAAAAGAGGCT
1 TAAAAG-GGCT
59744878 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 5 0.10
24 8 0.16
25 38 0.75
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:59744888 original size:50 final size:50
Alignment explanation
Indices: 59744795--59744889 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
59744785 AGGAAGTGCT
* **
59744795 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
**
59744845 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
59744890 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 9 0.24
50 24 0.63
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:59749188 original size:29 final size:29
Alignment explanation
Indices: 59749075--59749209 Score: 117
Period size: 29 Copynumber: 4.7 Consensus size: 29
59749065 GGCTACCGAT
* ** *
59749075 TATGAAAAGGGATAGTGACGACCATCAAC
1 TATGAAAAGGGATGGTTTCGACCATCAAA
* ** *
59749104 TATGAAAAAGGATGGTGACGACCATCGAA
1 TATGAAAAGGGATGGTTTCGACCATCAAA
* * * * *
59749133 TATGAAAAGGGATAGCTTGGGCTATCAAA
1 TATGAAAAGGGATGGTTTCGACCATCAAA
59749162 TATGAAAAGGGATGGTTTCGACCATCAAA
1 TATGAAAAGGGATGGTTTCGACCATCAAA
* * * *
59749191 TGTTAAAAAGAATGGTTTC
1 TATGAAAAGGGATGGTTTC
59749210 AACCGTCGTT
Statistics
Matches: 84, Mismatches: 22, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 84 1.00
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.23
Consensus pattern (29 bp):
TATGAAAAGGGATGGTTTCGACCATCAAA
Found at i:59749199 original size:87 final size:87
Alignment explanation
Indices: 59749047--59749206 Score: 221
Period size: 87 Copynumber: 1.8 Consensus size: 87
59749037 CCCTCAGATA
* * *
59749047 ATGAAAAGGGATAGCTTCGGCTACCGATTATGAAAAGGGATAGTGACGACCATCAACTATGAAAA
1 ATGAAAAGGGATAGCTTCGGCTACCAAATATGAAAAGGGATAGTGACGACCATCAAATATGAAAA
*
59749112 AGGATGGTGACGACCATCGAAT
66 AGAATGGTGACGACCATCGAAT
* * * ** * *
59749134 ATGAAAAGGGATAGCTTGGGCTATCAAATATGAAAAGGGATGGTTTCGACCATCAAATGTTAAAA
1 ATGAAAAGGGATAGCTTCGGCTACCAAATATGAAAAGGGATAGTGACGACCATCAAATATGAAAA
59749199 AGAATGGT
66 AGAATGGT
59749207 TTCAACCGTC
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
87 62 1.00
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (87 bp):
ATGAAAAGGGATAGCTTCGGCTACCAAATATGAAAAGGGATAGTGACGACCATCAAATATGAAAA
AGAATGGTGACGACCATCGAAT
Found at i:59749227 original size:87 final size:87
Alignment explanation
Indices: 59749031--59749232 Score: 201
Period size: 87 Copynumber: 2.3 Consensus size: 87
59749021 AATGATATAT
* * *
59749031 TGACAACCCTC-AGATAATGAAAAGGGATAGCTTCGGCTACCGATTATGAAAAGGGATAGTGACG
1 TGACAACCATCGA-ATAA-GAAAAGGGATAGCTTCGGCTACCAAATATGAAAAGGGATAGTGACG
* *
59749095 ACCATCAACTATGAAAAAGGATGG
64 ACCATCAAATATGAAAAAGAATGG
* * * * * **
59749119 TGACGACCATCGAATATGAAAAGGGATAGCTTGGGCTATCAAATATGAAAAGGGATGGTTTCGAC
1 TGACAACCATCGAATAAGAAAAGGGATAGCTTCGGCTACCAAATATGAAAAGGGATAGTGACGAC
* *
59749184 CATCAAATGTTAAAAAGAATGG
66 CATCAAATATGAAAAAGAATGG
** * *
59749206 TTTCAACCGTCG-TTGAAGAAAAGGGAT
1 TGACAACCATCGAAT-AAGAAAAGGGAT
59749233 GGTTATGACC
Statistics
Matches: 92, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
86 1 0.01
87 78 0.85
88 12 0.13
89 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (87 bp):
TGACAACCATCGAATAAGAAAAGGGATAGCTTCGGCTACCAAATATGAAAAGGGATAGTGACGAC
CATCAAATATGAAAAAGAATGG
Found at i:59752932 original size:17 final size:17
Alignment explanation
Indices: 59752910--59752955 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
59752900 TGCCCGTGTG
59752910 GGCCCACACGCCCATGT
1 GGCCCACACGCCCATGT
*
59752927 GGCCCACACACCCATGT
1 GGCCCACACGCCCATGT
*
59752944 GGCCCATACGCC
1 GGCCCACACGCC
59752956 TAGATTGGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.20, C:0.48, G:0.22, T:0.11
Consensus pattern (17 bp):
GGCCCACACGCCCATGT
Found at i:59761540 original size:27 final size:27
Alignment explanation
Indices: 59761506--59761581 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
59761496 CCTCCAGTTG
*
59761506 TAAAATTA-CCAAAGTACCCCCGGTTTA
1 TAAAATTACCCAAA-TACCCCCGATTTA
* * *
59761533 TAAAATTACCCAAATATCCTCGATTTG
1 TAAAATTACCCAAATACCCCCGATTTA
* *
59761560 TAAAATTATCGAAATACCCCCG
1 TAAAATTACCCAAATACCCCCG
59761582 TAAGGTAGAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 35 0.88
28 5 0.12
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (27 bp):
TAAAATTACCCAAATACCCCCGATTTA
Found at i:59761593 original size:27 final size:27
Alignment explanation
Indices: 59761563--59762062 Score: 637
Period size: 27 Copynumber: 18.6 Consensus size: 27
59761553 CGATTTGTAA
* *
59761563 AATTATCGAAATACCCCCGTAAGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
* *
59761590 AATTACTGAAATACCCCTGTAAGGTAA
1 AATTACCGAAATACCCCTGTAAGGTAG
59761617 AATTACCGAAATACCCCTGT-AGAGTAG
1 AATTACCGAAATACCCCTGTAAG-GTAG
* *
59761644 AATTACTGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
*
59761671 AATTACCGAAATACCCCTGTAAGGTAC
1 AATTACCGAAATACCCCTGTAAGGTAG
**
59761698 AATTATTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
* * *
59761725 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
** *
59761752 AATTACTAAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
* *
59761779 AATTACTG-AATACCCCTAT-AGTGTAG
1 AATTACCGAAATACCCCTGTAAG-GTAG
**
59761805 AATTACTAAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
* *
59761832 AATTACCGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAAGGTAG
** *
59761859 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
*
59761886 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
*
59761913 AATTACCAAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
*
59761940 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
*
59761967 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
** *
59761994 AATTATAGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
** * *
59762021 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAAGGTAG
*
59762048 AATTACCGAGATACC
1 AATTACCGAAATACC
59762063 TTGTGGGGTA
Statistics
Matches: 420, Mismatches: 48, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
25 2 0.00
26 22 0.05
27 392 0.93
28 4 0.01
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAAGGTAG
Found at i:59762038 original size:54 final size:54
Alignment explanation
Indices: 59761563--59762080 Score: 725
Period size: 54 Copynumber: 9.6 Consensus size: 54
59761553 CGATTTGTAA
* * * *
59761563 AATTATCGAAATACCCCCGTAAGGTAGAATTACTGAAATACCCCTGTAAGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* *
59761617 AATTACCGAAATACCCCTGTAGAGTAGAATTACTGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * *
59761671 AATTACCGAAATACCCCTGTAAGGTACAATTATTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * * *
59761725 AATTACCAAAATACCCTTGTAGGGTAGAATTACTAAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * * *
59761779 AATTACTG-AATACCCCTATAGTGTAGAATTACTAAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * *
59761832 AATTACCGAAATACCCCTGTAGGGTAAAATTATTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
**
59761886 AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* *
59761940 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
** * * *
59761994 AATTATAGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * * *
59762048 AATTACCGAGATA-CCTTGTGGGGTAAAATTACT
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACT
59762081 ATTTTACCCC
Statistics
Matches: 414, Mismatches: 49, Indels: 3
0.89 0.11 0.01
Matches are distributed among these distances:
53 65 0.16
54 349 0.84
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (54 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
Found at i:59762369 original size:27 final size:26
Alignment explanation
Indices: 59762325--59762376 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
59762315 CTCGCTGCAA
*
59762325 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
59762352 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
59762377 ACAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:59762608 original size:6 final size:6
Alignment explanation
Indices: 59762597--59762785 Score: 138
Period size: 6 Copynumber: 30.7 Consensus size: 6
59762587 ATTCACATTT
* *
59762597 TGATTC TGATTC TG-TTACC TGATAC TGATTC TGATTC TG-TTACC TAATTC
1 TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATT--C TGATTC
* *
59762647 TGATTC TGGTTC TGATTC TGATTC TG-TTACC TGATAC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC
* * * * *
59762696 TG-TTACC TAATTC TGATTC TAATTT TGATTT TGATTC TG-TCACC TGATTC
1 TGATT--C TGATTC TGATTC TGATTC TGATTC TGATTC TGAT--TC TGATTC
* *
59762746 TGATTC TGATTC TGATTC TCATTT TGATTC T-AGTTC TGAT
1 TGATTC TGATTC TGATTC TGATTC TGATTC TGA-TTC TGAT
59762786 AATGTTTCTT
Statistics
Matches: 146, Mismatches: 20, Indels: 34
0.73 0.10 0.17
Matches are distributed among these distances:
5 10 0.07
6 115 0.79
7 14 0.10
8 7 0.05
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.49
Consensus pattern (6 bp):
TGATTC
Found at i:59762624 original size:19 final size:19
Alignment explanation
Indices: 59762621--59762753 Score: 112
Period size: 19 Copynumber: 6.8 Consensus size: 19
59762611 TTACCTGATA
59762621 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTTAC
*
59762640 CTAATTCTGATTCTGGTT--
1 CTGATTCTGATTCT-GTTAC
59762658 CTGATTCTGATTCTGTTACC
1 CTGATTCTGATTCTGTTA-C
59762678 TGATACTGATTCTGATTCTGTTAC
1 -----CTGATTCTGATTCTGTTAC
* *
59762702 CTAATTCTGATTCTAATT--
1 CTGATTCTGATTCT-GTTAC
* * *
59762720 TTGATTTTGATTCTGTCAC
1 CTGATTCTGATTCTGTTAC
59762739 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
59762754 ATTCTGATTC
Statistics
Matches: 91, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
17 4 0.04
18 24 0.26
19 39 0.43
20 5 0.05
24 1 0.01
25 18 0.20
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (19 bp):
CTGATTCTGATTCTGTTAC
Found at i:59762625 original size:25 final size:25
Alignment explanation
Indices: 59762597--59762660 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
59762587 ATTCACATTT
*
59762597 TGATTCTGATTCTGTTACCTGATAC
1 TGATTCTGATTCTGTTACCTAATAC
*
59762622 TGATTCTGATTCTGTTACCTAATTC
1 TGATTCTGATTCTGTTACCTAATAC
*
59762647 TGATTCTGGTTCTG
1 TGATTCTGATTCTG
59762661 ATTCTGATTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (25 bp):
TGATTCTGATTCTGTTACCTAATAC
Found at i:59762663 original size:37 final size:37
Alignment explanation
Indices: 59762615--59762697 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
59762605 ATTCTGTTAC
* *
59762615 CTGATACTGATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
* *
59762652 CTGGTTCTGATTCTGATTCTGTTACCTGATACTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
59762689 CTGATTCTG
1 CTGATTCTG
59762698 TTACCTAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.18, C:0.19, G:0.17, T:0.46
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
Found at i:59762688 original size:25 final size:25
Alignment explanation
Indices: 59762658--59762715 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
59762648 GATTCTGGTT
*
59762658 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTAATA
*
59762683 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTAATA
59762708 CTGATTCT
1 CTGATTCT
59762716 AATTTTGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:59762694 original size:62 final size:62
Alignment explanation
Indices: 59762597--59762785 Score: 283
Period size: 62 Copynumber: 3.1 Consensus size: 62
59762587 ATTCACATTT
*
59762597 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGGTTC
1 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTAGTTC
* *
59762659 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTAATTT
1 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTAGTTC
* * * * *
59762721 TGATTTTGATTCTGTCACCTGATTCTGATTCTGATTCTGATT--CTCATTTTGATTCTAGTTC
1 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTG-TTACCTAATTCTGATTCTAGTTC
59762782 TGAT
1 TGAT
59762786 AATGTTTCTT
Statistics
Matches: 116, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
61 19 0.16
62 95 0.82
63 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.49
Consensus pattern (62 bp):
TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTAGTTC
Found at i:59762725 original size:37 final size:37
Alignment explanation
Indices: 59762683--59762764 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
59762673 TTACCTGATA
*
59762683 CTGATTCTGATTCTGTTACCTAATTCTGATTCTAATT
1 CTGATTCTGATTCTGTCACCTAATTCTGATTCTAATT
* * * *
59762720 TTGATTTTGATTCTGTCACCTGATTCTGATTCTGATT
1 CTGATTCTGATTCTGTCACCTAATTCTGATTCTAATT
59762757 CTGATTCT
1 CTGATTCT
59762765 CATTTTGATT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.18, C:0.18, G:0.13, T:0.50
Consensus pattern (37 bp):
CTGATTCTGATTCTGTCACCTAATTCTGATTCTAATT
Found at i:59762776 original size:18 final size:18
Alignment explanation
Indices: 59762597--59762764 Score: 76
Period size: 19 Copynumber: 9.1 Consensus size: 18
59762587 ATTCACATTT
*
59762597 TGATTCTGATTCTG-TTACC
1 TGATTCTCATTCTGATT--C
* *
59762616 TGATACTGATTCTGATTC
1 TGATTCTCATTCTGATTC
*
59762634 TG-TTACCTAATTCTGATTC
1 TGATT--CTCATTCTGATTC
* *
59762653 TGGTTCTGATTCTGATTC
1 TGATTCTCATTCTGATTC
* *
59762671 TG-TTACCTGATACTGATTC
1 TGATT--CTCATTCTGATTC
* *
59762690 TGATTCT-GTTACCTAATTC
1 TGATTCTCATT--CTGATTC
* * *
59762709 TGATTCTAATTTTGATTT
1 TGATTCTCATTCTGATTC
*
59762727 TGATTCTGTCA-CCTGATTC
1 TGATTC--TCATTCTGATTC
*
59762746 TGATTCTGATTCTGATTC
1 TGATTCTCATTCTGATTC
59762764 T
1 T
59762765 CATTTTGATT
Statistics
Matches: 118, Mismatches: 18, Indels: 27
0.72 0.11 0.17
Matches are distributed among these distances:
17 6 0.05
18 37 0.31
19 65 0.55
20 10 0.08
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (18 bp):
TGATTCTCATTCTGATTC
Found at i:59763856 original size:42 final size:42
Alignment explanation
Indices: 59763797--59763885 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
59763787 AGCATGAGAC
59763797 TTGAACCCAAGACCTCACACACACACCTAGAACACTTAACCA
1 TTGAACCCAAGACCTCACACACACACCTAGAACACTTAACCA
*
59763839 TTGAACCTAAGACCTCACACACACACCTAGAACACTTAACCA
1 TTGAACCCAAGACCTCACACACACACCTAGAACACTTAACCA
*
59763881 CTGAA
1 TTGAA
59763886 GCAGATATGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (42 bp):
TTGAACCCAAGACCTCACACACACACCTAGAACACTTAACCA
Found at i:59765042 original size:25 final size:25
Alignment explanation
Indices: 59764994--59765042 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
59764984 CGTAATTGAA
* *
59764994 ATGAAATAAATTGATTTTGTATATT
1 ATGAAATAAATTGATTATGAATATT
*
59765019 ATGAAATATATTGATTATGAATAT
1 ATGAAATAAATTGATTATGAATAT
59765043 ATGTGTATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (25 bp):
ATGAAATAAATTGATTATGAATATT
Found at i:59765378 original size:43 final size:43
Alignment explanation
Indices: 59765317--59765399 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
59765307 GTGATTGATA
* *
59765317 TTGAAATAACAAAGATGAGAAATGAATATGAGATGAGAAAATG
1 TTGAAATAACAAAGATGAGAAATGAATACGAAATGAGAAAATG
** *
59765360 TTGAAATGGCAAAGATGAGAAATGATTACGAAATGAGAAA
1 TTGAAATAACAAAGATGAGAAATGAATACGAAATGAGAAA
59765400 TGAAATATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.52, C:0.04, G:0.24, T:0.20
Consensus pattern (43 bp):
TTGAAATAACAAAGATGAGAAATGAATACGAAATGAGAAAATG
Found at i:59770445 original size:28 final size:28
Alignment explanation
Indices: 59770414--59770513 Score: 105
Period size: 28 Copynumber: 3.6 Consensus size: 28
59770404 AGTATCGGGG
59770414 ATGGCACTTAGTGTGCGATACATCCAGA
1 ATGGCACTTAGTGTGCGATACATCCAGA
* * *
59770442 ATGGCACTTAGTGTGTGAAGTA-A-CGAGG
1 ATGGCACTTAGTGTGCG-A-TACATCCAGA
* *
59770470 ATGGCACTTAGTTTGCGAAACATCCAGA
1 ATGGCACTTAGTGTGCGATACATCCAGA
* *
59770498 ACGGCAATTAGTGTGC
1 ATGGCACTTAGTGTGC
59770514 AAGGCATCGG
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
26 1 0.02
27 2 0.04
28 50 0.88
29 2 0.04
30 2 0.04
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGATACATCCAGA
Found at i:59770475 original size:56 final size:56
Alignment explanation
Indices: 59770389--59770512 Score: 176
Period size: 56 Copynumber: 2.2 Consensus size: 56
59770379 ATTATATGTA
** * * * *
59770389 GCACTTAACGTGTGAAGTATCGGGGATGGCACTTAGTGTGCGATACATCCAGAATG
1 GCACTTAGTGTGTGAAGTAACGAGGATGGCACTTAGTGTGCGAAACATCCAGAACG
*
59770445 GCACTTAGTGTGTGAAGTAACGAGGATGGCACTTAGTTTGCGAAACATCCAGAACG
1 GCACTTAGTGTGTGAAGTAACGAGGATGGCACTTAGTGTGCGAAACATCCAGAACG
*
59770501 GCAATTAGTGTG
1 GCACTTAGTGTG
59770513 CAAGGCATCG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (56 bp):
GCACTTAGTGTGTGAAGTAACGAGGATGGCACTTAGTGTGCGAAACATCCAGAACG
Found at i:59770543 original size:56 final size:56
Alignment explanation
Indices: 59770412--59770548 Score: 145
Period size: 56 Copynumber: 2.4 Consensus size: 56
59770402 GAAGTATCGG
* * * * *
59770412 GGATGGCACTTAGTGTGCGATACATCCAGAATGGCACTTAGTGTGTGAAGTAACGA
1 GGATGACACTTAGTGTGCGATACATCCAGAACGGCAATTAGTGTGTCAAGCAACGA
* * * *
59770468 GGATGGCACTTAGTTTGCGAAACATCCAGAACGGCAATTAGTGTG-CAAGGCATCG-
1 GGATGACACTTAGTGTGCGATACATCCAGAACGGCAATTAGTGTGTCAA-GCAACGA
59770523 GGTATGACA-TCTAGTGTGCGATACAT
1 GG-ATGACACT-TAGTGTGCGATACAT
59770549 TGAATATTCA
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
55 5 0.07
56 63 0.93
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (56 bp):
GGATGACACTTAGTGTGCGATACATCCAGAACGGCAATTAGTGTGTCAAGCAACGA
Found at i:59770657 original size:32 final size:32
Alignment explanation
Indices: 59770621--59770689 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
59770611 GTATCTGTGG
* *
59770621 AAATTGGTATAATATGGTACATGTATGTACGA
1 AAATTGGTACAATATGGTACAGGTATGTACGA
*
59770653 AAATTGGTACAATATGGTACAGGTATGTACGG
1 AAATTGGTACAATATGGTACAGGTATGTACGA
59770685 AAATT
1 AAATT
59770690 CAATTGAGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (32 bp):
AAATTGGTACAATATGGTACAGGTATGTACGA
Found at i:59776708 original size:28 final size:28
Alignment explanation
Indices: 59776677--59776767 Score: 103
Period size: 28 Copynumber: 3.2 Consensus size: 28
59776667 GGCACTTCAC
*
59776677 GTGCGAAGTATCGGGGATGGCACTTAGT
1 GTGCGAAGTATCGAGGATGGCACTTAGT
* * **
59776705 GTGCGATA-CATCCAAAATGGCACTTAGT
1 GTGCGA-AGTATCGAGGATGGCACTTAGT
*
59776733 GTGCGAAGTAACGAGGATGGCACTTAGT
1 GTGCGAAGTATCGAGGATGGCACTTAGT
*
59776761 TTGCGAA
1 GTGCGAA
59776768 ACATCCAGAA
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
27 1 0.02
28 48 0.96
29 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.24
Consensus pattern (28 bp):
GTGCGAAGTATCGAGGATGGCACTTAGT
Found at i:59776752 original size:56 final size:56
Alignment explanation
Indices: 59776677--59776792 Score: 169
Period size: 56 Copynumber: 2.1 Consensus size: 56
59776667 GGCACTTCAC
* * * * *
59776677 GTGCGAAGTATCGGGGATGGCACTTAGTGTGCGATACATCCAAAATGGCACTTAGT
1 GTGCGAAGTAACGAGGATGGCACTTAGTGTGCGAAACATCCAAAACGACACTTAGT
* *
59776733 GTGCGAAGTAACGAGGATGGCACTTAGTTTGCGAAACATCCAGAACGACACTTAGT
1 GTGCGAAGTAACGAGGATGGCACTTAGTGTGCGAAACATCCAAAACGACACTTAGT
59776789 GTGC
1 GTGC
59776793 AAGGCATCGG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (56 bp):
GTGCGAAGTAACGAGGATGGCACTTAGTGTGCGAAACATCCAAAACGACACTTAGT
Found at i:59776809 original size:56 final size:55
Alignment explanation
Indices: 59776677--59776826 Score: 153
Period size: 56 Copynumber: 2.7 Consensus size: 55
59776667 GGCACTTCAC
* * * *
59776677 GTGCGAAGTATCGGGGATGGCACTTAGTGTGCGATACATCCAAAATGGCACTTAGT
1 GTGCGAAGCATC-GGGATGGCACTTAGTGTGCGAAACATCCAAAACGACACTTAGT
* * * *
59776733 GTGCGAAGTAACGAGGATGGCACTTAGTTTGCGAAACATCCAGAACGACACTTAGT
1 GTGCGAAGCATCG-GGATGGCACTTAGTGTGCGAAACATCCAAAACGACACTTAGT
*
59776789 GTGC-AAGGCATCGGGTATGGCA-TCTAGTGT-CGATACAT
1 GTGCGAA-GCATCGGG-ATGGCACT-TAGTGTGCGAAACAT
59776827 TGAATATTCA
Statistics
Matches: 80, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
55 13 0.16
56 67 0.84
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (55 bp):
GTGCGAAGCATCGGGATGGCACTTAGTGTGCGAAACATCCAAAACGACACTTAGT
Found at i:59776905 original size:32 final size:32
Alignment explanation
Indices: 59776869--59776967 Score: 153
Period size: 32 Copynumber: 3.1 Consensus size: 32
59776859 TGAGTATGAG
* * * *
59776869 ATTGGTACGAGATGATACAGGTATCTACGAAA
1 ATTGGTACAATATGGTACAGGTATGTACGAAA
*
59776901 ATTGGTACAATATGGTATAGGTATGTACGAAA
1 ATTGGTACAATATGGTACAGGTATGTACGAAA
59776933 ATTGGTACAATATGGTACAGGTATGTACGAAA
1 ATTGGTACAATATGGTACAGGTATGTACGAAA
59776965 ATT
1 ATT
59776968 CAATTGAGTA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.29
Consensus pattern (32 bp):
ATTGGTACAATATGGTACAGGTATGTACGAAA
Found at i:59785443 original size:30 final size:30
Alignment explanation
Indices: 59785409--59785470 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
59785399 TCCTTAACTC
*
59785409 AAACTTTGGCAAAATTACAATTTTTCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
59785439 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
59785469 AA
1 AA
59785471 GCTTAGGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:59787120 original size:22 final size:21
Alignment explanation
Indices: 59787095--59787140 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
59787085 TCAAATAACT
*
59787095 CAACATTCATATTCATTTTACA
1 CAACATTCATA-TCATCTTACA
* *
59787117 CAACCTTCCTATCATCTTACA
1 CAACATTCATATCATCTTACA
59787138 CAA
1 CAA
59787141 ACAAATACAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.35, C:0.30, G:0.00, T:0.35
Consensus pattern (21 bp):
CAACATTCATATCATCTTACA
Found at i:59790489 original size:29 final size:29
Alignment explanation
Indices: 59790430--59790503 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
59790420 GTTGTGAGAT
* *
59790430 TGGCACTAGGTGTGCGAACTTGAAATGCA
1 TGGCACTAAGTGTGCGAACTTGAAATACA
* *
59790459 TGGCACTAAGTGTGCG-AGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAACTTGAAA-TACA
*
59790488 TGGCACTAAGTATGCG
1 TGGCACTAAGTGTGCG
59790504 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 6 0.15
29 33 0.85
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAACTTGAAATACA
Found at i:59792163 original size:104 final size:104
Alignment explanation
Indices: 59792041--59792264 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
59792031 AATGGATATC
59792041 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
59792106 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
59792145 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
59792210 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
59792249 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
59792265 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:59792626 original size:29 final size:29
Alignment explanation
Indices: 59792593--59792656 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
59792583 TAATCCACCA
59792593 CCCAACTTTT-TGAAAATTACAATTTTGCC
1 CCCAACTTTTGT-AAAATTACAATTTTGCC
* * *
59792622 CCCAAACTTTTGTATAATTACACTTTTGTC
1 CCC-AACTTTTGTAAAATTACAATTTTGCC
59792652 CCCAA
1 CCCAA
59792657 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 5 0.17
30 24 0.80
31 1 0.03
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.38
Consensus pattern (29 bp):
CCCAACTTTTGTAAAATTACAATTTTGCC
Found at i:59792630 original size:30 final size:30
Alignment explanation
Indices: 59792600--59792656 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
59792590 CCACCCAACT
59792600 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGTAAAATTACAATTTTGCCCCCAAAC
* * *
59792629 TTTTGTATAATTACACTTTTGTCCCCAA
1 TTTTGTAAAATTACAATTTTGCCCCCAA
59792657 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (30 bp):
TTTTGTAAAATTACAATTTTGCCCCCAAAC
Found at i:59796145 original size:30 final size:30
Alignment explanation
Indices: 59796111--59796171 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
59796101 TCCTTAACTC
59796111 AAACTTTGGAAAAATTACAATTTTTCCCCT
1 AAACTTTGGAAAAATTACAATTTTTCCCCT
* * * * *
59796141 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTGGAAAAATTACAATTTTTCCCCT
59796171 A
1 A
59796172 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTTCCCCT
Found at i:59798282 original size:3 final size:3
Alignment explanation
Indices: 59798274--59798310 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
59798264 ATATTAAGTT
* *
59798274 ATA ATA ATA ATA ATA ATA ATA ATA GTT ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
59798311 AATCAAAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:59799513 original size:27 final size:27
Alignment explanation
Indices: 59799483--59799535 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
59799473 GTGATTGATA
59799483 ATGAAATGACAAAGATG-AGAAATGAAT
1 ATGAAATGACAAA-ATGTAGAAATGAAT
* * *
59799510 ATGAGATGAGAAAATGTTGAAATGAA
1 ATGAAATGACAAAATGTAGAAATGAA
59799536 AAAGATGAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.53, C:0.02, G:0.25, T:0.21
Consensus pattern (27 bp):
ATGAAATGACAAAATGTAGAAATGAAT
Found at i:59799545 original size:43 final size:43
Alignment explanation
Indices: 59799484--59799565 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
59799474 TGATTGATAA
* *
59799484 TGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAAATGT
1 TGAAATGAAAAAGATGAGAAATGAATATGAAATGAGAAAATGT
*
59799527 TGAAATGAAAAAGATGAGAAATGATTATGAAATGAGAAA
1 TGAAATGAAAAAGATGAGAAATGAATATGAAATGAGAAA
59799566 TGAAATACGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.54, C:0.01, G:0.24, T:0.21
Consensus pattern (43 bp):
TGAAATGAAAAAGATGAGAAATGAATATGAAATGAGAAAATGT
Found at i:59801522 original size:20 final size:20
Alignment explanation
Indices: 59801499--59801536 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
59801489 AAATGGTAAT
*
59801499 CCATTTCATTTACTTATTTA
1 CCATTTCATTTACCTATTTA
59801519 CCATTTCATTTACCTATT
1 CCATTTCATTTACCTATT
59801537 CTCAACCGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.53
Consensus pattern (20 bp):
CCATTTCATTTACCTATTTA
Found at i:59819179 original size:11 final size:11
Alignment explanation
Indices: 59819163--59819189 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
59819153 TTAATTAATA
59819163 ACCTTTAAAAC
1 ACCTTTAAAAC
59819174 ACCTTTAAAAC
1 ACCTTTAAAAC
59819185 ACCTT
1 ACCTT
59819190 AATTAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.30, G:0.00, T:0.30
Consensus pattern (11 bp):
ACCTTTAAAAC
Found at i:59824500 original size:93 final size:93
Alignment explanation
Indices: 59824388--59824559 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59824378 CGCCCATAAG
* *
59824388 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59824453 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
59824481 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59824546 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
59824560 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:59824556 original size:46 final size:46
Alignment explanation
Indices: 59824381--59824556 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
59824371 TGTAACCCGC
* * *
59824381 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
59824427 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
59824477 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
59824520 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
59824557 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:59829310 original size:26 final size:26
Alignment explanation
Indices: 59829274--59829326 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
59829264 TCTGCACCAC
59829274 TAGCTTTTACATTCTGAAATTTTTCT
1 TAGCTTTTACATTCTGAAATTTTTCT
59829300 TAGCTTTTACATTCTGAAATTTTTCT
1 TAGCTTTTACATTCTGAAATTTTTCT
59829326 T
1 T
59829327 TCTCAGCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.55
Consensus pattern (26 bp):
TAGCTTTTACATTCTGAAATTTTTCT
Found at i:59833940 original size:22 final size:22
Alignment explanation
Indices: 59833890--59833940 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
59833880 CCTCGTCTTT
* *
59833890 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTCTCTTTTTCTAAC
59833912 -TCATTTTCTCTCTTCTTTC-AAC
1 TTC-TTTTCTCTCTT-TTTCTAAC
59833934 TTCTTTT
1 TTCTTTT
59833941 TCAATTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
21 2 0.08
22 16 0.67
23 6 0.25
ACGTcount: A:0.10, C:0.24, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTCTCTTTTTCTAAC
Found at i:59833954 original size:17 final size:18
Alignment explanation
Indices: 59833934--59833971 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
59833924 TTCTTTCAAC
* *
59833934 TTCTTTTTCA-ATTTCTT
1 TTCTGTTTCACATTCCTT
59833951 TTCTGTTTCACATTCCTT
1 TTCTGTTTCACATTCCTT
59833969 TTC
1 TTC
59833972 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.24, G:0.03, T:0.63
Consensus pattern (18 bp):
TTCTGTTTCACATTCCTT
Found at i:59836775 original size:93 final size:93
Alignment explanation
Indices: 59836663--59836834 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
59836653 CGCCCATAAG
* *
59836663 CGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59836728 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
59836756 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59836821 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
59836835 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:59836831 original size:46 final size:46
Alignment explanation
Indices: 59836656--59836831 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
59836646 ATGTAACCGC
* * * *
59836656 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
59836702 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
59836752 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
59836795 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
59836832 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:59836850 original size:46 final size:46
Alignment explanation
Indices: 59836705--59836843 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 46
59836695 TTCGCATCCA
59836705 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
59836753 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
59836798 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
59836844 CTAGTGACAT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.37
47 30 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:59838255 original size:50 final size:49
Alignment explanation
Indices: 59838144--59838319 Score: 217
Period size: 50 Copynumber: 3.5 Consensus size: 49
59838134 CTGGTACGCA
* * *
59838144 TAGTAGCTTGCACTTAGTACTACACATGTCACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* * * *
59838193 TAGTAGCCTGCACTTAGTACTACACACATGACCTAACTATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * *
59838243 CAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG
*
59838294 TAATAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
59838320 TGCGACCTAG
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
49 29 0.27
50 44 0.41
51 35 0.32
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:59838327 original size:101 final size:99
Alignment explanation
Indices: 59838145--59838328 Score: 260
Period size: 101 Copynumber: 1.8 Consensus size: 99
59838135 TGGTACGCAT
* * * *
59838145 AGTAGCTTGCACTTAGTACTACACATGTCACCAATTATCCGGTACACGTAGTAGCCTGCACTTAG
1 AGTAGCCTGCACTTAGTACTACACACGTCACCAATTATCCGGTACACATAATAGCCTGCACTTAG
*
59838210 TACTACACACATGACCTAACTATCTGATACACGC
66 TACTACACACACGACCTAACTATCTGATACACGC
* * *
59838244 AGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACACATAATAGCCTGCACTT
1 AGTAGCCTGCACTTAGTACTACACACGTCA-CCAA-TTATCCGGTACACATAATAGCCTGCACTT
**
59838309 AGTACTACACATGCGACCTA
64 AGTACTACACACACGACCTA
59838329 GCTACATATA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 27 0.37
100 3 0.04
101 43 0.59
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (99 bp):
AGTAGCCTGCACTTAGTACTACACACGTCACCAATTATCCGGTACACATAATAGCCTGCACTTAG
TACTACACACACGACCTAACTATCTGATACACGC
Found at i:59839170 original size:30 final size:30
Alignment explanation
Indices: 59839134--59839190 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
59839124 TCATTAACTC
59839134 AAACTTTGGAAAATTTACAATTTTGCCACT
1 AAACTTTGGAAAATTTACAATTTTGCCACT
* * * *
59839164 AAACTTTTGCATATTTACACTTTTGCC
1 AAACTTTGGAAAATTTACAATTTTGCC
59839191 CCTAGGCTCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (30 bp):
AAACTTTGGAAAATTTACAATTTTGCCACT
Found at i:59849691 original size:29 final size:29
Alignment explanation
Indices: 59849651--59849803 Score: 132
Period size: 29 Copynumber: 5.3 Consensus size: 29
59849641 TAGATAATGG
*
59849651 AAAGGGATAGCTTCGGCTATTGAATATGA
1 AAAGGGATAGCTTCGGCTATCGAATATGA
* *
59849680 AAAGAGATAGCTTCGGCTATCGATTATGA
1 AAAGGGATAGCTTCGGCTATCGAATATGA
* * *
59849709 AAAGGGATAG-TGACGACCATC-AACTATGA
1 AAAGGGATAGCT-TCGGCTATCGAA-TATGA
* * * * *
59849738 AAAAGGAT-GGTGACGACCATCGAATATGA
1 AAAGGGATAGCT-TCGGCTATCGAATATGA
* * *
59849767 AAAAGGATAGCTTTGGCTATCAAATATGA
1 AAAGGGATAGCTTCGGCTATCGAATATGA
59849796 AAAGGGAT
1 AAAGGGAT
59849804 GGTTTCGACC
Statistics
Matches: 103, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
28 3 0.03
29 96 0.93
30 4 0.04
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.23
Consensus pattern (29 bp):
AAAGGGATAGCTTCGGCTATCGAATATGA
Found at i:59849817 original size:29 final size:29
Alignment explanation
Indices: 59849704--59849842 Score: 127
Period size: 29 Copynumber: 4.8 Consensus size: 29
59849694 GGCTATCGAT
* ** *
59849704 TATGAAAAGGGATAGTGACGACCATCAAC
1 TATGAAAAGGGATGGTTTCGACCATCAAA
* ** *
59849733 TATGAAAAAGGATGGTGACGACCATCGAA
1 TATGAAAAGGGATGGTTTCGACCATCAAA
* * * *
59849762 TATGAAAAAGGATAGCTTT-GGCTATCAAA
1 TATGAAAAGGGAT-GGTTTCGACCATCAAA
59849791 TATGAAAAGGGATGGTTTCGACCATCAAA
1 TATGAAAAGGGATGGTTTCGACCATCAAA
* * *
59849820 TATTAAAAGGAATGGTTTTGACC
1 TATGAAAAGGGATGGTTTCGACC
59849843 GTCGTTAAAG
Statistics
Matches: 91, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
28 4 0.04
29 85 0.93
30 2 0.02
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.24
Consensus pattern (29 bp):
TATGAAAAGGGATGGTTTCGACCATCAAA
Found at i:59849856 original size:87 final size:87
Alignment explanation
Indices: 59849672--59849835 Score: 224
Period size: 87 Copynumber: 1.9 Consensus size: 87
59849662 TTCGGCTATT
* * *
59849672 GAATATG-AAAAGAGATAGCTTCGGCTATCGATTATGAAAAGGGATAGTGACGACCATCAACTAT
1 GAATATGAAAAAG-GATAGCTTCGGCTATCAAATATGAAAAGGGATAGTGACGACCATCAAATAT
59849736 GAAAAAGGATGGTGACGACCATC
65 GAAAAAGGATGGTGACGACCATC
* * **
59849759 GAATATGAAAAAGGATAGCTTTGGCTATCAAATATGAAAAGGGATGGTTTCGACCATCAAATAT-
1 GAATATGAAAAAGGATAGCTTCGGCTATCAAATATGAAAAGGGATAGTGACGACCATCAAATATG
*
59849823 TAAAAGGAATGGT
66 AAAAAGG-ATGGT
59849836 TTTGACCGTC
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
86 6 0.09
87 56 0.84
88 5 0.07
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.23
Consensus pattern (87 bp):
GAATATGAAAAAGGATAGCTTCGGCTATCAAATATGAAAAGGGATAGTGACGACCATCAAATATG
AAAAAGGATGGTGACGACCATC
Found at i:59853710 original size:44 final size:42
Alignment explanation
Indices: 59853643--59853745 Score: 118
Period size: 44 Copynumber: 2.4 Consensus size: 42
59853633 ATCGAAGATA
* * * *
59853643 TCGTGTAAGACCGTGTCTGGGACATAGGCCTC-TATTTGAGATT
1 TCGTGTAAGACCATGTCTAGGACATAGACATCGTATTT--GATT
*
59853686 TACGTGTAAGACCATGTCTAGGACATCGACATCGTATTTGATT
1 T-CGTGTAAGACCATGTCTAGGACATAGACATCGTATTTGATT
*
59853729 TCGTGTAAGACCCTGTC
1 TCGTGTAAGACCATGTC
59853746 AGGGACAGAG
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
42 15 0.29
43 6 0.12
44 26 0.50
45 5 0.10
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.32
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTAGGACATAGACATCGTATTTGATT
Found at i:59853752 original size:42 final size:42
Alignment explanation
Indices: 59853638--59853752 Score: 117
Period size: 44 Copynumber: 2.7 Consensus size: 42
59853628 CATCAATCGA
* * * * *
59853638 AGATATCGTGTAAGACCGTGTCTGGGACATAGGCCTCTATTT
1 AGATTTCGTGTAAGACCATGTCAGGGACATAGACATCTATTT
*
59853680 GAGATTTACGTGTAAGACCATGTCTA-GGACATCGACATCGTATTT
1 -AGATTT-CGTGTAAGACCATGTC-AGGGACATAGACATC-TATTT
*
59853725 -GATTTCGTGTAAGACCCTGTCAGGGACA
1 AGATTTCGTGTAAGACCATGTCAGGGACA
59853753 GAGGCATCGA
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.02
42 20 0.33
43 10 0.16
44 25 0.41
45 5 0.08
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
AGATTTCGTGTAAGACCATGTCAGGGACATAGACATCTATTT
Found at i:59853761 original size:42 final size:43
Alignment explanation
Indices: 59853638--59853761 Score: 128
Period size: 42 Copynumber: 2.9 Consensus size: 43
59853628 CATCAATCGA
* * * *
59853638 AGATATCGTGTAAGACCGTGTCTGGGACATAGGCCTC-TATTT
1 AGATTTCGTGTAAGACCATGTCAGGGACATAGGCATCGTATTT
* *
59853680 GAGATTTACGTGTAAGACCATGTCTA-GGACATCGACATCGTATTT
1 -AGATTT-CGTGTAAGACCATGTC-AGGGACATAGGCATCGTATTT
* *
59853725 -GATTTCGTGTAAGACCCTGTCAGGGACAGAGGCATCG
1 AGATTTCGTGTAAGACCATGTCAGGGACATAGGCATCG
59853762 ATACTGAATT
Statistics
Matches: 67, Mismatches: 10, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
41 1 0.01
42 26 0.39
43 10 0.15
44 25 0.37
45 5 0.07
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (43 bp):
AGATTTCGTGTAAGACCATGTCAGGGACATAGGCATCGTATTT
Found at i:59860932 original size:42 final size:43
Alignment explanation
Indices: 59860831--59860933 Score: 129
Period size: 44 Copynumber: 2.4 Consensus size: 43
59860821 GTATCATGTG
* *
59860831 AGACCGTGTCTGGGACATAGGCCTCGATTTGAGATTTACGTGTA
1 AGACCATGTCTGGGACATAGGCATCGATTT-AGATTTACGTGTA
*
59860875 AGACCATGTCTGGGACATCGGCATCGTATTT-GATTT-CGTGTA
1 AGACCATGTCTGGGACATAGGCATCG-ATTTAGATTTACGTGTA
* *
59860917 AGACCCTGTCAGGGACA
1 AGACCATGTCTGGGACA
59860934 GAGGTATTGT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
42 21 0.40
43 5 0.09
44 23 0.43
45 4 0.08
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (43 bp):
AGACCATGTCTGGGACATAGGCATCGATTTAGATTTACGTGTA
Found at i:59862366 original size:40 final size:40
Alignment explanation
Indices: 59862322--59862502 Score: 201
Period size: 40 Copynumber: 4.5 Consensus size: 40
59862312 TCTACTCGTT
*
59862322 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
59862362 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
59862402 CCAATGCCTTCGGG-CTTAGCTCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * *
59862441 CAAATGCCTTC-GGATCTTAGACCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
59862482 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
59862503 TGGACATCAT
Statistics
Matches: 118, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
38 2 0.02
39 29 0.25
40 73 0.62
41 14 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:59862438 original size:79 final size:80
Alignment explanation
Indices: 59862324--59862502 Score: 224
Period size: 79 Copynumber: 2.2 Consensus size: 80
59862314 TACTCGTTCA
* *
59862324 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTA-ACCCGG
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAGA-CCGG
* * *
59862387 ATTTAGTGAC-TCGCACC
64 ATATAGTCACTTAGCA-C
*
59862404 AATGCCTTCGGG-CTTAGCTCGGA-ATTAGTAACTCGCACAAATGCCTTCGGATCTTAGACCGGA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAGACCGGA
59862467 TATAGTCACTTAGCAC
65 TATAGTCACTTAGCAC
*
59862483 AAAGCCTTCGGGACTTAGCC
1 AATGCCTTCGGGACTTAGCC
59862503 TGGACATCAT
Statistics
Matches: 86, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
78 4 0.05
79 59 0.69
80 23 0.27
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAGACCGGAT
ATAGTCACTTAGCAC
Found at i:59871489 original size:42 final size:42
Alignment explanation
Indices: 59871375--59871489 Score: 124
Period size: 44 Copynumber: 2.7 Consensus size: 42
59871365 CATCAATCGA
* * * *
59871375 AGATATCGTGTAAGACCGTGTCTGGGACATAGGCCTCTATTT
1 AGATTTCGTGTAAGACCATGTCTGGGACATAGACATCTATTT
* *
59871417 GAGATTTACGTGTAAGACCATGTCTTGGACATCGACATCGTATTT
1 -AGATTT-CGTGTAAGACCATGTCTGGGACATAGACATC-TATTT
* *
59871462 -GATTTCGTGTAAGACCCTGTCAGGGACA
1 AGATTTCGTGTAAGACCATGTCTGGGACA
59871490 GAGGCATCGA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 20 0.33
43 10 0.16
44 26 0.43
45 5 0.08
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
AGATTTCGTGTAAGACCATGTCTGGGACATAGACATCTATTT
Found at i:59871498 original size:42 final size:43
Alignment explanation
Indices: 59871375--59871498 Score: 135
Period size: 42 Copynumber: 2.9 Consensus size: 43
59871365 CATCAATCGA
* * *
59871375 AGATATCGTGTAAGACCGTGTCTGGGACATAGGCCTC-TATTT
1 AGATTTCGTGTAAGACCATGTCTGGGACATAGGCATCGTATTT
* * *
59871417 GAGATTTACGTGTAAGACCATGTCTTGGACATCGACATCGTATTT
1 -AGATTT-CGTGTAAGACCATGTCTGGGACATAGGCATCGTATTT
* * *
59871462 -GATTTCGTGTAAGACCCTGTCAGGGACAGAGGCATCG
1 AGATTTCGTGTAAGACCATGTCTGGGACATAGGCATCG
59871499 ATACTGAATT
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 26 0.39
43 10 0.15
44 26 0.39
45 5 0.07
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
AGATTTCGTGTAAGACCATGTCTGGGACATAGGCATCGTATTT
Found at i:59873716 original size:18 final size:17
Alignment explanation
Indices: 59873690--59873744 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
59873680 TGTATAGATT
59873690 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
* *
59873708 GCCCCTGTGGCCCACAT
1 GCCCATGTGGCCCACAC
* *
59873725 GCCCATATGGCCGACAC
1 GCCCATGTGGCCCACAC
59873742 GCC
1 GCC
59873745 TAGATTGGCC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
17 24 0.77
18 7 0.23
ACGTcount: A:0.16, C:0.45, G:0.25, T:0.13
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:59876153 original size:40 final size:40
Alignment explanation
Indices: 59876055--59876317 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
59876045 TCCTCGTTCA
* * * * *
59876055 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
59876094 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
59876134 ACTGCCTTCGGGACTTAACCCGGGTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
59876174 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
59876214 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
59876254 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
59876294 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
59876318 CAGCATTCAA
Statistics
Matches: 196, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
39 37 0.19
40 151 0.77
41 8 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:59884095 original size:79 final size:79
Alignment explanation
Indices: 59883968--59884176 Score: 303
Period size: 79 Copynumber: 2.6 Consensus size: 79
59883958 TCCTCGTTCA
* * * *
59883968 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACATAACCCGGATT
59884033 TAACAACTCGCACG
66 TAACAACTCGCACG
* * *
59884047 ACTGCCTTC-GGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGGGACATAACCCGGAT
*
59884111 TTAATAACTCGCACG
65 TTAACAACTCGCACG
* *
59884126 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGG
59884177 ATCTTAATCC
Statistics
Matches: 115, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
78 24 0.21
79 54 0.47
80 37 0.32
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACATAACCCGGATT
TAACAACTCGCACG
Found at i:59884111 original size:40 final size:40
Alignment explanation
Indices: 59883968--59884229 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
59883958 TCCTCGTTCA
* * * * *
59883968 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
59884007 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
59884047 ACTGCCTTC-GGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
59884086 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
59884126 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
59884166 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
59884206 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
59884230 CAGCATTCAA
Statistics
Matches: 196, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
39 73 0.37
40 115 0.59
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:59890652 original size:22 final size:21
Alignment explanation
Indices: 59890627--59890690 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 21
59890617 ACTATTTCAA
59890627 TATAGTTTCAGAAAGTACTATC
1 TATAGTTTCAGAAA-TACTATC
*
59890649 TATAGTGTTTTCCGAATATACTATC
1 TATA--G-TTTCAGAA-ATACTATC
59890674 TA-AGTTTCAGAAATACT
1 TATAGTTTCAGAAATACT
59890691 TATAGGATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
20 5 0.14
21 7 0.19
22 5 0.14
24 2 0.06
25 16 0.44
26 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (21 bp):
TATAGTTTCAGAAATACTATC
Found at i:59891648 original size:6 final size:6
Alignment explanation
Indices: 59891624--59891664 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
59891614 CACCCCAAAA
* *
59891624 ATAGAT ATAGTAT ACAGAT TTAGAT ATAGAT ATAGAT ATAG
1 ATAGAT ATAG-AT ATAGAT ATAGAT ATAGAT ATAGAT ATAG
59891665 CATGCTTATC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.17, T:0.34
Consensus pattern (6 bp):
ATAGAT
Found at i:59893994 original size:40 final size:40
Alignment explanation
Indices: 59893915--59894091 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
59893905 CGGATGATAA
* *
59893915 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * *
59893955 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
59893995 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
59894035 CCGGGCTAAGACCCGAGGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
59894075 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
59894092 ATACTTGGGT
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 102 0.86
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:59896796 original size:15 final size:15
Alignment explanation
Indices: 59896776--59896804 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
59896766 TTATATATTA
59896776 AGTTATAATAATAAT
1 AGTTATAATAATAAT
59896791 AGTTATAATAATAA
1 AGTTATAATAATAA
59896805 AAACAAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (15 bp):
AGTTATAATAATAAT
Found at i:59897617 original size:25 final size:25
Alignment explanation
Indices: 59897569--59897617 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
59897559 CATAATTGAA
* *
59897569 ATGAAATAAATTGATTTTGTATATT
1 ATGAAATAAATTGATTATGAATATT
*
59897594 ATGAAATATATTGATTATGAATAT
1 ATGAAATAAATTGATTATGAATAT
59897618 ATGTGTATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (25 bp):
ATGAAATAAATTGATTATGAATATT
Found at i:59908809 original size:39 final size:39
Alignment explanation
Indices: 59908710--59908892 Score: 183
Period size: 40 Copynumber: 4.6 Consensus size: 39
59908700 GAATGATATC
* * *
59908710 CGGGCTAAGTCCCGAAGGC-TTCGTGCTAAGTGACTATATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-ATT
*
59908750 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATT
* * *
59908789 CTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACAAAATC
1 C-GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC-TAATT
* **
59908829 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATT
* *
59908869 CGGGATATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
59908893 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
39 34 0.28
40 81 0.66
41 7 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:59913713 original size:93 final size:93
Alignment explanation
Indices: 59913603--59913774 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
59913593 CGCCCATAAG
* *
59913603 CGAACTCGAACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59913668 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* * * *
59913696 CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59913761 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
59913775 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:59913764 original size:46 final size:46
Alignment explanation
Indices: 59913596--59913771 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
59913586 TGTAACCCGC
* * * * *
59913596 CCATAAGCGAACTCGAACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
59913642 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
59913692 --TTCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
59913735 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
59913772 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.57
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:59920791 original size:91 final size:92
Alignment explanation
Indices: 59920682--59920851 Score: 306
Period size: 91 Copynumber: 1.9 Consensus size: 92
59920672 CGCCCATAAG
* *
59920682 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGG-CTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59920746 ACGAGTTCGGATGCCTAGTTACATTCA
66 ACGAGTTCGGATGCCTAGTTACATTCA
*
59920773 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59920838 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
59920852 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 52 0.69
92 23 0.31
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTCA
Found at i:59920824 original size:46 final size:46
Alignment explanation
Indices: 59920675--59920848 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
59920665 TGTAACCCGC
* * *
59920675 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
59920721 CCATAAGTGAACTCGG-CTCAACTCAACGAGTTCGG--ATGC-CTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* *
59920766 ACATTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA-TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
59920812 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
59920849 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
45 31 0.29
46 68 0.63
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:59920867 original size:46 final size:46
Alignment explanation
Indices: 59920683--59920867 Score: 136
Period size: 46 Copynumber: 4.0 Consensus size: 46
59920673 GCCCATAAGC
* ** * *
59920683 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T-AGT
* *
59920729 GAACTCGG-CTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-A-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCTAGT
* * * *
59920774 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCTAGT
59920820 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
59920866 GA
1 GA
59920868 CATGTCACTT
Statistics
Matches: 111, Mismatches: 13, Indels: 30
0.72 0.08 0.19
Matches are distributed among these distances:
44 10 0.09
45 28 0.25
46 64 0.58
48 4 0.04
49 5 0.05
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
Found at i:59926365 original size:39 final size:40
Alignment explanation
Indices: 59926264--59926448 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
59926254 TCGAATGATG
* * * *
59926264 TCCGGGCTAAGTCCCGAAGGC-TTCGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
59926304 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
59926344 TCTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACAAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59926383 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
59926424 -CCGGGATATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59926449 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 33 0.27
40 81 0.66
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59926470 original size:79 final size:77
Alignment explanation
Indices: 59926298--59926481 Score: 183
Period size: 79 Copynumber: 2.3 Consensus size: 77
59926288 GTGCTAAGTG
* * * *
59926298 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCTGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATACCGGGATAAGCCCGAAGG
**
59926363 CATTGGTGCGAGTT
64 CATTGGAACGAGTT
* * *
59926377 ACAAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGATATGTCCCGAA
1 ACTATATCC-GGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGATAAG-CCCGAA
*
59926441 GGCATTTGAACGAG-T
62 GGCATTGGAACGAGTT
*
59926456 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGTT-AAGTCCGAAGG
59926482 TACGTGATTT
Statistics
Matches: 86, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
78 3 0.03
79 55 0.64
80 28 0.33
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (77 bp):
ACTATATCCGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGATAAGCCCGAAGGCA
TTGGAACGAGTT
Found at i:59934767 original size:43 final size:43
Alignment explanation
Indices: 59934719--59934801 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
59934709 GTGATTTATA
* *
59934719 TTGAAATGACAAAGATGAAAAATGAATATGAGATGAGAAAATG
1 TTGAAATGAAAAAGATGAAAAATGAATATGAAATGAGAAAATG
* * *
59934762 TTGAAATTAAAAAGATGAGAAATGATTATGAAATGAGAAA
1 TTGAAATGAAAAAGATGAAAAATGAATATGAAATGAGAAA
59934802 TGAAATATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.54, C:0.01, G:0.22, T:0.23
Consensus pattern (43 bp):
TTGAAATGAAAAAGATGAAAAATGAATATGAAATGAGAAAATG
Found at i:59940423 original size:45 final size:45
Alignment explanation
Indices: 59940354--59940481 Score: 188
Period size: 45 Copynumber: 2.9 Consensus size: 45
59940344 TGTACACTAC
* *
59940354 TATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
* *
59940399 TATTCGGGCCTTTGAGCTTAGCAGGCTATAATGCTGGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
* *
59940444 TATTCGGGCC-TCGAGCCTAGCAGGCGA-AATGCCGGTGA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
59940482 ATGAATTTGG
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
43 10 0.13
44 14 0.19
45 51 0.68
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
Found at i:59942206 original size:104 final size:105
Alignment explanation
Indices: 59942026--59942293 Score: 427
Period size: 104 Copynumber: 2.6 Consensus size: 105
59942016 TAACCGTTAT
* **
59942026 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTAAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTAAGCAACCCCTCGGGGG
59942091 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
* *
59942130 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCT-GGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTAAGCAACCCCTCGGGG-
59942194 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
59942235 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCAC-ACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTA-AGCAACCCCT
59942294 TAATATACAA
Statistics
Matches: 152, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
103 4 0.03
104 76 0.50
105 71 0.47
106 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.21, T:0.18
Consensus pattern (105 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTAAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
Found at i:59942654 original size:29 final size:29
Alignment explanation
Indices: 59942621--59942684 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
59942611 TAATCCACCA
59942621 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
59942650 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
59942680 CCCAA
1 CCCAA
59942685 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:59942658 original size:30 final size:30
Alignment explanation
Indices: 59942628--59942684 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
59942618 CCACCCAACT
59942628 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
59942657 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
59942685 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:59952997 original size:21 final size:21
Alignment explanation
Indices: 59952971--59953015 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
59952961 TCATGCCGAG
59952971 TCAACCAATCCATGCCCAAGA
1 TCAACCAATCCATGCCCAAGA
59952992 TCAACCAATCCATGCCCAAGA
1 TCAACCAATCCATGCCCAAGA
59953013 TCA
1 TCA
59953016 CATCAAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.38, G:0.09, T:0.16
Consensus pattern (21 bp):
TCAACCAATCCATGCCCAAGA
Found at i:59958466 original size:25 final size:25
Alignment explanation
Indices: 59958421--59958469 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
59958411 GAAAATAAAG
59958421 AAAATAAAAGAAAAAGCAAAAGAAGA
1 AAAATAAAAGAAAAA-CAAAAGAAGA
*
59958447 AAAATAAAATGAAATA-AAAAGAA
1 AAAATAAAA-GAAAAACAAAAGAA
59958470 AAGAGAGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 9 0.43
27 5 0.24
ACGTcount: A:0.78, C:0.02, G:0.12, T:0.08
Consensus pattern (25 bp):
AAAATAAAAGAAAAACAAAAGAAGA
Found at i:59958606 original size:30 final size:31
Alignment explanation
Indices: 59958542--59958613 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 31
59958532 TTTGAAAAAT
* *
59958542 GAAAAAG-AATATGAGATTGAAAAAGAGAAC
1 GAAAAAGAAATTTGAGAGTGAAAAAGAGAAC
*
59958572 G-AAAAGAAATTTGAGAGTGAAAAAGA-AGAT
1 GAAAAAGAAATTTGAGAGTGAAAAAGAGA-AC
59958602 GAAAAAGAAATT
1 GAAAAAGAAATT
59958614 GAAACAAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 6 0.17
30 20 0.56
31 10 0.28
ACGTcount: A:0.60, C:0.01, G:0.24, T:0.15
Consensus pattern (31 bp):
GAAAAAGAAATTTGAGAGTGAAAAAGAGAAC
Found at i:59960830 original size:20 final size:21
Alignment explanation
Indices: 59960788--59960832 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
59960778 AGCTCCGTCC
*
59960788 AGCTCAAATCCAGCTTATTTG
1 AGCTCAAATCCAGCTTATCTG
* *
59960809 AGCTC-AATCCATCTTGTCTG
1 AGCTCAAATCCAGCTTATCTG
59960829 AGCT
1 AGCT
59960833 AAACCGAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (21 bp):
AGCTCAAATCCAGCTTATCTG
Found at i:59960883 original size:30 final size:31
Alignment explanation
Indices: 59960849--59960945 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
59960839 AGCTCACTCC
*
59960849 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
59960879 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
59960909 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
59960939 TAGCTCA
1 TAGCTCA
59960946 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:59962788 original size:18 final size:17
Alignment explanation
Indices: 59962755--59962788 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
59962745 ACAACTTGAA
*
59962755 TTTTTTTTAATTCGAAT
1 TTTTTTTTAATACGAAT
59962772 TTTTTTTTAACTACGAA
1 TTTTTTTTAA-TACGAA
59962789 CCTATTTCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTTTTTTAATACGAAT
Found at i:59965301 original size:30 final size:31
Alignment explanation
Indices: 59965230--59965312 Score: 100
Period size: 30 Copynumber: 2.7 Consensus size: 31
59965220 CTTTTGTTTC
*
59965230 AATTTCTTTTTCA-TCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCATTC-TCTTTTTCAATCTCA
59965261 AATTTC-TTTTCATTCTCTTTTTCAATCTC-
1 AATTTCTTTTTCATTCTCTTTTTCAATCTCA
* * *
59965290 ATTTTCTTTTTCTTTTTCTTTTT
1 AATTTCTTTTTCATTCTCTTTTT
59965313 ACTTTTCAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
29 5 0.11
30 33 0.72
31 8 0.17
ACGTcount: A:0.13, C:0.22, G:0.00, T:0.65
Consensus pattern (31 bp):
AATTTCTTTTTCATTCTCTTTTTCAATCTCA
Found at i:59965330 original size:12 final size:12
Alignment explanation
Indices: 59965315--59965345 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
59965305 TTCTTTTTAC
59965315 TTTTCAAAGGCT
1 TTTTCAAAGGCT
59965327 TTTTCAAAGGCT
1 TTTTCAAAGGCT
59965339 TTTTCAA
1 TTTTCAA
59965346 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:59965425 original size:15 final size:15
Alignment explanation
Indices: 59965395--59965438 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
59965385 CTTGCCTCTC
*
59965395 TTTTCTTTTTATTTCA
1 TTTTCTTTTT-CTTCA
59965411 TTTTCTTTTTCTTCA
1 TTTTCTTTTTCTTCA
*
59965426 TTTGCTTTTTCTT
1 TTTTCTTTTTCTT
59965439 TTCTTTTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 16 0.62
16 10 0.38
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTTCTTTTTCTTCA
Found at i:59965459 original size:21 final size:22
Alignment explanation
Indices: 59965391--59965460 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 22
59965381 GCCTCTTGCC
*
59965391 TCTCTTTTCTTTTTATTTCATTT
1 TCTCTTTTC-TTTTCTTTCATTT
59965414 TCT-TTTTC--TTCATTTGC-TTT
1 TCTCTTTTCTTTTC-TTT-CATTT
59965434 T-TCTTTTCTTTTCTTT-ATTT
1 TCTCTTTTCTTTTCTTTCATTT
59965454 TCTCTTT
1 TCTCTTT
59965461 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 1, Indels: 16
0.70 0.02 0.29
Matches are distributed among these distances:
19 3 0.08
20 16 0.41
21 9 0.23
22 8 0.21
23 3 0.08
ACGTcount: A:0.06, C:0.19, G:0.01, T:0.74
Consensus pattern (22 bp):
TCTCTTTTCTTTTCTTTCATTT
Found at i:59966203 original size:13 final size:13
Alignment explanation
Indices: 59966185--59966209 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59966175 TTGGGGTCGA
59966185 TTTCAAAAATCAG
1 TTTCAAAAATCAG
59966198 TTTCAAAAATCA
1 TTTCAAAAATCA
59966210 CTCTGATACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (13 bp):
TTTCAAAAATCAG
Found at i:59967668 original size:30 final size:30
Alignment explanation
Indices: 59967634--59967730 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
59967624 TAAACTAAAA
59967634 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
59967664 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
59967694 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
59967724 TGAGCTA
1 TGAGCTA
59967731 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:59967772 original size:20 final size:21
Alignment explanation
Indices: 59967747--59967791 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
59967737 AGCTCGGTTT
*
59967747 AGCTCAGACAAGATGGA-TTG
1 AGCTCAAACAAGATGGATTTG
* *
59967767 AGCTCAAATAAGCTGGATTTG
1 AGCTCAAACAAGATGGATTTG
59967788 AGCT
1 AGCT
59967792 GGACGGAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (21 bp):
AGCTCAAACAAGATGGATTTG
Found at i:59969214 original size:6 final size:6
Alignment explanation
Indices: 59969203--59969422 Score: 186
Period size: 6 Copynumber: 36.2 Consensus size: 6
59969193 AACCAAAATG
* *
59969203 AGAATC AGAATC AGAATC AGTAA-C AGGATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
59969251 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
59969300 AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* * * *
59969348 AGAATT AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
*
59969397 AGGTAA-C AGAATC AAAATC AGAATC A
1 A-G-AATC AGAATC AGAATC AGAATC A
59969423 ATATCAGGTA
Statistics
Matches: 173, Mismatches: 22, Indels: 38
0.74 0.09 0.16
Matches are distributed among these distances:
5 12 0.07
6 144 0.83
7 13 0.08
8 4 0.02
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:59969218 original size:30 final size:29
Alignment explanation
Indices: 59969182--59969422 Score: 174
Period size: 31 Copynumber: 8.1 Consensus size: 29
59969172 AAGAAACATT
* * *
59969182 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
* *
59969212 ATCAGAATCAGTAACAGGATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
59969242 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
*
59969272 ATCAGAATTAGGTGACAGAATCAGAATCAGTA
1 ATCAGAATT--GTAACAGAATCAGAATCAG-A
*
59969304 A-CAGAA---T--CAGAATCAGAATCAGT
1 ATCAGAATTGTAACAGAATCAGAATCAGA
* ** *
59969327 ATTAGTAACAG-AATCAGAATCAGAATTAGA
1 ATCAG-AATTGTAA-CAGAATCAGAATCAGA
*
59969357 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
* * *
59969388 ATCAGTATCAGGTAACAGAATCAAAATCAGA
1 ATCAGAAT--TGTAACAGAATCAGAATCAGA
59969419 ATCA
1 ATCA
59969423 ATATCAGGTA
Statistics
Matches: 170, Mismatches: 22, Indels: 37
0.74 0.10 0.16
Matches are distributed among these distances:
23 1 0.01
24 17 0.10
25 2 0.01
26 1 0.01
29 3 0.02
30 71 0.42
31 72 0.42
32 3 0.02
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:59969294 original size:79 final size:80
Alignment explanation
Indices: 59969208--59969411 Score: 288
Period size: 79 Copynumber: 2.5 Consensus size: 80
59969198 AAATGAGAAT
*
59969208 CAGAATCAGAATCAGTAACAGGATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATC-AGA
1 CAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAAGA
59969272 ATCAGAATTAGGTGA
66 ATCAGAATTAGGTGA
*
59969287 CAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAA
1 CAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATC---A
59969352 TTAGAATCAGAATTAGGTGA
63 --AGAATCAGAATTAGGTGA
*
59969372 CAGAATCAGAATCAG-AATCAGTATCAGGTAA-CAGAATCAA
1 CAGAATCAGAATCAGTAA-CAGAATCA-G-AATCAGAATCAA
59969412 AATCAGAATC
Statistics
Matches: 112, Mismatches: 4, Indels: 11
0.88 0.03 0.09
Matches are distributed among these distances:
79 59 0.53
84 2 0.02
85 40 0.36
86 9 0.08
87 2 0.02
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (80 bp):
CAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAAGA
ATCAGAATTAGGTGA
Found at i:59969445 original size:31 final size:31
Alignment explanation
Indices: 59969287--59969441 Score: 163
Period size: 31 Copynumber: 4.9 Consensus size: 31
59969277 AATTAGGTGA
59969287 CAGAATCAGA-ATCA-GTAACAGAATCAGAAT
1 CAGAATCA-ATATCAGGTAACAGAATCAGAAT
* *
59969317 CAGAATCAGTATTA-GTAACAGAATCAGAAT
1 CAGAATCAATATCAGGTAACAGAATCAGAAT
* * *
59969347 CAGAATTAGAATCAGAATTAGGTGACAGAATCAGAAT
1 CAGAA-T-CAAT----ATCAGGTAACAGAATCAGAAT
* *
59969384 CAGAATCAGTATCAGGTAACAGAATCAAAAT
1 CAGAATCAATATCAGGTAACAGAATCAGAAT
59969415 CAGAATCAATATCAGGTAACAGAATCA
1 CAGAATCAATATCAGGTAACAGAATCA
59969442 AAATGTGAAT
Statistics
Matches: 106, Mismatches: 11, Indels: 15
0.80 0.08 0.11
Matches are distributed among these distances:
30 32 0.30
31 45 0.42
32 2 0.02
35 2 0.02
36 5 0.05
37 20 0.19
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (31 bp):
CAGAATCAATATCAGGTAACAGAATCAGAAT
Found at i:59969645 original size:26 final size:27
Alignment explanation
Indices: 59969582--59969655 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
59969572 GCTCAGTTAT
* * *
59969582 CAGATATTGTGACAGAGTCACTAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
59969609 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
59969635 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
59969656 TTAACAGAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 20 0.48
27 22 0.52
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:59969858 original size:22 final size:21
Alignment explanation
Indices: 59969814--59969873 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
59969804 GCAAATACGT
*
59969814 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCAT-ATCAGG
* *
59969836 TTGGCACAGAGCCATATGTAGG
1 TTGGCACAAAGCCATAT-CAGG
**
59969858 TTAACACAAAGCCATA
1 TTGGCACAAAGCCATA
59969874 ATTAGAAGGC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (21 bp):
TTGGCACAAAGCCATATCAGG
Found at i:59970482 original size:27 final size:27
Alignment explanation
Indices: 59970305--59970480 Score: 246
Period size: 27 Copynumber: 6.6 Consensus size: 27
59970295 GGGGCAAAAT
* * * *
59970305 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
59970331 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
59970358 GGCAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
59970385 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
59970412 GGTAATTCTACCCTAAAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
59970439 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
59970466 GGTAATTCTACCCTA
1 GGTAATTCTACCCTA
59970481 TATTTTAGTA
Statistics
Matches: 133, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
26 14 0.11
27 119 0.89
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:59970548 original size:27 final size:27
Alignment explanation
Indices: 59970481--59970603 Score: 113
Period size: 27 Copynumber: 4.6 Consensus size: 27
59970471 TTCTACCCTA
* ** *
59970481 TATTTTAGTAATTCCACAAATCAGGGG
1 TATTTTGGTAATTTTACAAACCAGGGG
59970508 TATTTTGGTAATTTTACAAACCAGGGG
1 TATTTTGGTAATTTTACAAACCAGGGG
*** *
59970535 TATTTTGGTAATTTTATTGATC-GAGGG
1 TATTTTGGTAATTTTACAAACCAG-GGG
** *
59970562 TATTTTGGTAATTTTGTAAACCAAGGG
1 TATTTTGGTAATTTTACAAACCAGGGG
**
59970589 TATTTCAGTAATTTT
1 TATTTTGGTAATTTT
59970604 GTAAATCAAG
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 1 0.01
27 78 0.99
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.42
Consensus pattern (27 bp):
TATTTTGGTAATTTTACAAACCAGGGG
Found at i:59970604 original size:27 final size:27
Alignment explanation
Indices: 59970558--59970617 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
59970548 TTATTGATCG
**
59970558 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTCAGTAATTTTGTAAACCA
*
59970585 AGGGTATTTCAGTAATTTTGTAAATCA
1 AGGGTATTTCAGTAATTTTGTAAACCA
59970612 AGGGTA
1 AGGGTA
59970618 AAATGGTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTGTAAACCA
Found at i:59970616 original size:54 final size:54
Alignment explanation
Indices: 59970498--59970872 Score: 234
Period size: 54 Copynumber: 6.9 Consensus size: 54
59970488 GTAATTCCAC
* * **
59970498 AAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTAT
1 AAATCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTAT
** * ** *
59970552 TGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGT
1 AAATCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTAT
*** * * * * *** *
59970606 AAATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTAT
1 AAATCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTAT
* *** * ** *
59970660 AAATCGAGGGTAAAATGGTAATTCTATCTTA-C-AGGAGTATTTCAGTAATTTTAA
1 AAATCAAGGGTATTTTGGTAATTTTA-CAAACCAAGG-GTATTTCAGTAATTTTAT
* *** *** * * * *
59970714 AAATCGAGGGTATTTCAATAATTTTACAGTTCGAGGGTATTTCAGTCATTTCAC
1 AAATCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTAT
* * * * * *
59970768 AAATTAAGGATATTTTGGTAATTTTACAAACTAGGGGTATTT-TGATAATTTTAC
1 AAATCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAG-TAATTTTAT
* * * * **
59970822 AAACCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTT
1 AAATCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTT
59970873 GGTAAATTAA
Statistics
Matches: 248, Mismatches: 67, Indels: 12
0.76 0.20 0.04
Matches are distributed among these distances:
53 5 0.02
54 238 0.96
55 5 0.02
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (54 bp):
AAATCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTAT
Found at i:59970626 original size:27 final size:27
Alignment explanation
Indices: 59970596--59970686 Score: 128
Period size: 27 Copynumber: 3.4 Consensus size: 27
59970586 GGGTATTTCA
* *
59970596 GTAATTTTGTAAATCAAGGGTAAAATG
1 GTAATTCTATAAATCAAGGGTAAAATG
* **
59970623 GTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCAAGGGTAAAATG
*
59970650 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCAAGGGTAAAATG
59970677 GTAATTCTAT
1 GTAATTCTAT
59970687 CTTACAGGAG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.32
Consensus pattern (27 bp):
GTAATTCTATAAATCAAGGGTAAAATG
Done.