Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold50
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: 2541760
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Warning! 26494 characters in sequence are not A, C, G, or T
File 9 of 16
Found at i:1430024 original size:20 final size:20
Alignment explanation
Indices: 1430001--1430073 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1429991 ACAATTCAAA
1430001 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1430021 GTATCGATACATGAAAAAAAT
1 GTATCGATACATG-TTGCAAT
1430042 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1430062 GTATCGATACAT
1 GTATCGATACAT
1430074 AAAAAGGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1430044 original size:21 final size:21
Alignment explanation
Indices: 1430018--1430094 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
1430008 TACATGTTGC
1430018 AATGTATCGATACATGAAAAA
1 AATGTATCGATACATGAAAAA
****
1430039 AATGTATCGATACATG-TTGC
1 AATGTATCGATACATGAAAAA
1430059 AATGTATCGATACAT-AAAAA
1 AATGTATCGATACATGAAAAA
*
1430079 GGATGTATCGATACAT
1 -AATGTATCGATACAT
1430095 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAA
Found at i:1430052 original size:41 final size:41
Alignment explanation
Indices: 1430001--1430094 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
1429991 ACAATTCAAA
1430001 GTATCGATACATGTTGCAATGTATCGATACATGAAAAA-AAT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAGAAT
*
1430042 GTATCGATACATGTTGCAATGTATCGATACATAAAAAGGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAGAAT
1430083 GTATCGATACAT
1 GTATCGATACAT
1430095 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 5 0.10
41 46 0.90
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAGAAT
Found at i:1430151 original size:13 final size:13
Alignment explanation
Indices: 1430133--1430158 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1430123 TACAGCAAGT
1430133 ATGTATCGATACA
1 ATGTATCGATACA
1430146 ATGTATCGATACA
1 ATGTATCGATACA
1430159 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1430486 original size:23 final size:22
Alignment explanation
Indices: 1430460--1430502 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
1430450 TTTGTTTATA
1430460 TTGTCATTATT-TTTCTAAGCTCT
1 TTGT-ATTATTATTTC-AAGCTCT
*
1430483 TTGTATTCTTATTTCAAGCT
1 TTGTATTATTATTTCAAGCT
1430503 TAAATTCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.19, C:0.16, G:0.09, T:0.56
Consensus pattern (22 bp):
TTGTATTATTATTTCAAGCTCT
Found at i:1440646 original size:61 final size:58
Alignment explanation
Indices: 1440546--1441891 Score: 1264
Period size: 61 Copynumber: 23.3 Consensus size: 58
1440536 TCCGCTTTTT
*
1440546 AGTCCTCAAAGAGCAGGATGCATGTTCCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGATGC---TT-CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
1440607 AGTCTTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
1 AGTCCTCAAAGAGCAGGATGC---TTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
1440667 TAGTCCTCAAAGAGCATGATGCTTTTTCTTTTCAAAGCCTACACAAATTGGTGGCACCTTTC
1 -AGTCCTCAAAGAGCAGGATGC---TTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * * * *
1440729 AATCCCCAAAGAGCAGGA--C-CCCTTTCAAAGCCCATACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGATGCTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
* * * * * *
1440784 AATCCTCAAAGAGCAGGA--C-ACCTTTCGAAGCCCACATAAGTTGGTGGCA-TTTTC
1 AGTCCTCAAAGAGCAGGATGCTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
** * *
1440838 TAGTCCTCAAAGAGCAGGA--CACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTT
1 -AGTCCTCAAAGAGCAGGATGCTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* ** * *
1440894 AGTCC-CTAAAGAGCAAGA--CACCTTTT-AAACCCCATACAAGTTGGTGGCACC-TTC
1 AGTCCTC-AAAGAGCAGGATGCTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
1440948 AGTCGTCAAAGAGCAAGACGCCTT-TTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGATG-CTTCTT-T-TCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
1441008 TGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGATGC---TTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
1441069 AGTCCTCAAAGAACAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGATGC---TTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * * *
1441130 AG-CCCCCAAGAGCAGGA--C-ACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
1 AGTCCTCAAAGAGCAGGATGCTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* ** *
1441183 TAGTCCTCAAAGAGTAGGA--CACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 -AGTCCTCAAAGAGCAGGATGCTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1441239 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGATGC---TTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
1441300 AGTCCTCAAAGAGCAGGATGATTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGATG---CTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * * * *
1441361 AGTCC-CATAAAAACAGGA--C-ACCTTTCAAAGCCCACACAAGTTGGTCGCA-TTTTCC
1 AGTCCTCA-AAGAGCAGGATGCTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
* ** *
1441416 AGTCCTCAAAAAGCAGGA--CACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGATGCTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
1441471 AGTCCTCAAAGAGCATGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTT
1 AGTCCTCAAAGAGCAGGATGC---TTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1441532 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGATGC---TTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
1441593 AGTCC-CTAAAGAGCAGGA--C-ACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTC-AAAGAGCAGGATGCTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
* ** *
1441648 AATCCTCAAAGAGCAGGA--CACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGATGCTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
1441703 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAGGATGC---TTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * * *
1441764 AGTCCCCAAAGAGCAGGA--C-ACCTTTCAATGCCCAC-CAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGATGCTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
* * * *
1441818 AGTCCTCAAAGAGCAGGATG--ACTTTT-AAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGATGCTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
1441873 AGTCTTCAAAGTGCAGGAT
1 AGTCCTCAAAGAGCAGGAT
1441892 ACACTTTATT
Statistics
Matches: 1111, Mismatches: 114, Indels: 126
0.82 0.08 0.09
Matches are distributed among these distances:
53 8 0.01
54 96 0.09
55 427 0.38
56 34 0.03
57 5 0.00
58 2 0.00
59 27 0.02
60 54 0.05
61 449 0.40
62 7 0.01
63 2 0.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (58 bp):
AGTCCTCAAAGAGCAGGATGCTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:1440787 original size:55 final size:55
Alignment explanation
Indices: 1440578--1441890 Score: 1231
Period size: 55 Copynumber: 22.9 Consensus size: 55
1440568 TGTTCCTCTT
* * *
1440578 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGATGCTTTTTCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTC
* * * *
1440639 AAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCATGATGCTTTTTCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGA--C----ACCTTTC
* * * * *
1440700 AAAGCCTACACAAATTGGTGGCACCTTTCAATCCCCAAAGAGCAGGACCCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTC
* * *
1440755 AAAGCCCATACAAGTTGGTGGCA-TTTTCCAATCCTCAAAGAGCAGGACACCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACACCTTTC
* * *
1440810 GAAGCCCACATAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGACACCTCTT-
1 AAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACACCT-TTC
* * *
1440865 AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCC-CTAAAGAGCAAGACACCTTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC-AAAGAGCAGGACACCTTTC
* * * * *
1440920 AAACCCCATACAAGTTGGTGGCACC-TTCAGTCGTCAAAGAGCAAGACGCCTTTTCTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACC--TT-TC
* * *
1440977 TTAAAGCCCACACAAGTTGGTGGCACCTTTCTGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
1 --AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTC
* * *
1441040 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAACAGGATGCTTTTTCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTC
* *
1441101 AAAGCCCACACAAGTTGGTGGCACCTTTCAG-CCCCCAAGAGCAGGACACCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTC
* *
1441155 AAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGTAGGACACCTCTT-
1 AAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACACCT-TTC
* *
1441210 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTC
* *
1441271 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGATTTTTCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA-CA-----CCTTTC
* *
1441332 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC-CATAAAAACAGGACACCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA-AAGAGCAGGACACCTTTC
* * *
1441387 AAAGCCCACACAAGTTGGTCGCA-TTTTCCAGTCCTCAAAAAGCAGGACACCTCTT-
1 AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACACCT-TTC
* * *
1441442 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCATGATGCTTTTTCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTC
* * *
1441503 AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTC
1441564 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC-CTAAAGAGCAGGACACCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC-AAAGAGCAGGACACCTTTC
* *
1441619 AAAGCCCACACAAGTTGGTGGCA-TTTTCCAATCCTCAAAGAGCAGGACACCTCTT-
1 AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACACCT-TTC
* *
1441674 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTC
* * *
1441735 AAAGCCCACACGAGTTGGTGGCACTTTTCAGTCCCCAAAGAGCAGGACACCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTC
* * * *
1441790 AATGCCCAC-CAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATGA-CTTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGA-CACCTTTC
* * * * *
1441844 AAAGCCCACACGAGTTGGTGGCACTTTTTAGTCTTCAAAGTGCAGGA
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA
1441891 TACACTTTAT
Statistics
Matches: 1091, Mismatches: 96, Indels: 136
0.82 0.07 0.10
Matches are distributed among these distances:
53 8 0.01
54 105 0.10
55 436 0.40
56 30 0.03
57 4 0.00
58 1 0.00
59 26 0.02
60 44 0.04
61 427 0.39
62 5 0.00
63 2 0.00
64 2 0.00
66 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (55 bp):
AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTC
Found at i:1441501 original size:232 final size:231
Alignment explanation
Indices: 1440546--1441890 Score: 1672
Period size: 232 Copynumber: 5.8 Consensus size: 231
1440536 TCCGCTTTTT
* * *
1440546 AGTCCTCAAAGAGCAGGATGCATGTTCCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 AGTCCTCAAAGAGCAGGATGC-TTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* *
1440610 CTTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGT-CC
65 CCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCC
* * * * * * * *
1440673 TCAAAGAGCATGATGCTTTTTCTTTTCAAAGCCTACACAAATTGGTGGCACCTTT-CAATCCCCA
129 T-AAA-AGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCA
* * *
1440737 AAGAGCAGGACCCCT-TTCAAAGCCCATACAAGTTGGTGGCA-TTTTCC
185 AAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* * * * * *
1440784 AATCCTCAAAGAGCAGGA--C----ACCTTTCGAAGCCCACATAAGTTGGTGGCA-TTTTCTAGT
1 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGT
** * *
1440842 CCTCAAAGAGCAGGA--C---ACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCCT
65 CCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCT
* * * * ** * *
1440901 AAAGAGCAAGACACCTTTTAAACCCCATACAAGTTGGTGGCACCTT-CAGTCGTCAAAGAGCAAG
130 AAA-AGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGG
*
1440965 ACGCCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
194 AC-AC----CTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
1441008 TGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* * *
1441073 CTCAAAGAACAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGCCCCCA
66 CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCTA
* * *
1441138 AGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGTAGGAC
131 AAAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAC
1441203 ACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
196 ACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1441239 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
*
1441304 CTCAAAGAGCAGGATGATTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCAT
66 CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCC-T
* * *
1441369 AAAAACAGGACACCTTTCAAAGCCCACACAAGTTGGTCGCATTTTCCAGTCCTCAAAAAGCAGGA
130 AAAAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA
1441434 CACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
195 CACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
1441471 AGTCCTCAAAGAGCATGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTC
1 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1441536 CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCTA
66 CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCTA
*
1441601 AAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGA
131 AA-AGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA
1441666 CACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
195 CACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
1441703 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTCAGTC
1 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* * * * *
1441768 CCCAAAGAGCAGGA--C----ACCTTTCAATGCCCAC-CAAGTTGGTGGCA-TTTTCCAGT-CCT
66 CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCCT
* * * * * *
1441824 CAAAGAGCAGGATGA-CTTTTAAAGCCCACACGAGTTGGTGGCACTTTT-TAGTCTTCAAAGTGC
130 -AAA-AGCAGGA-CACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGC
1441887 AGGA
191 AGGA
1441891 TACACTTTAT
Statistics
Matches: 988, Mismatches: 88, Indels: 75
0.86 0.08 0.07
Matches are distributed among these distances:
219 19 0.02
220 25 0.03
224 48 0.05
225 74 0.07
226 55 0.06
227 10 0.01
230 45 0.05
231 173 0.18
232 429 0.43
235 41 0.04
236 52 0.05
238 17 0.02
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (231 bp):
AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCTA
AAAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAC
ACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:1443979 original size:61 final size:59
Alignment explanation
Indices: 1443884--1445025 Score: 1078
Period size: 61 Copynumber: 18.7 Consensus size: 59
1443874 AAAGATCACT
* * *
1443884 AGTTGGTGGCACTTTTTAGTCCTCAAGGAGCAGGATGCCTTCTTCTTTTAAAGCCCATACA
1 AGTTGGTGGCAC-TTCTAGTCCTCAAAGAGCAGGATGCCTT-TTCTTTTAAAGCCCACACA
* * *
1443945 AGTTGGTGGCACTTGCTAATCCTCAAAGAGCAGGACGCCTTTTCCTTCTAAAGCCCACACA
1 AGTTGGTGGCACTT-CTAGTCCTCAAAGAGCAGGATGCCTTTT-CTTTTAAAGCCCACACA
* * *
1444006 AGTTGGTGGCACTTTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTAAAGCCTACACA
1 AGTTGGTGGCAC--TTCTAGTCCTCAAAGAGCAGGATGCC-TTTTCTTTTAAAGCCCACACA
* * * * * * *
1444068 AGTTGGTGGAACTTTCCAGTCCTTAAAGAGTAGGACGCCTTTCCTTTTAAAGCCCACATA
1 AGTTGGTGGCAC-TTCTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTAAAGCCCACACA
*
1444128 AGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAACCCACACA
1 AGTTGGTGGCAC--TTCTAGTCCTCAAAGAGCAGGATGCCTTTT-CTTTTAAAGCCCACACA
* * *
1444190 AGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGACGCCATTTCCTTTTAAAGCCCACACA
1 AGTTGGTGGCA-CTTCTAGTCCTCAAAGAGCAGGATGCC-TTTTCTTTTAAAGCCCACACA
* ** *
1444251 AGTTGATGGCACTTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGTCCACACA
1 AGTTGGTGGCAC--TTCTAGTCCTCAAAGAGCAGGATGCCTTTT-CTTTTAAAGCCCACACA
* * * *
1444313 AGTTGGTGGCACCTTCTAGTCCTTAAAGAGCAGTATG-TTTTTGCCTTTCAAAGCCCACACA
1 AGTTGGTGGCA-CTTCTAGTCCTCAAAGAGCAGGATGCCTTTT--CTTTTAAAGCCCACACA
* * * * * * *
1444374 AGCTGGTGGCACCTTC-AGTCCTCAAAAAGCGGGACGCCTTTTCCTTTTAAAGCCTATATA
1 AGTTGGTGGCA-CTTCTAGTCCTCAAAGAGCAGGATGCCTTTT-CTTTTAAAGCCCACACA
* * * * ** **
1444434 AGTTGGTGGTAGTTTTGTAGTCCTCAAAGAGTAGGACACCTTTTCCTTTTAAAATCCACACA
1 AGTTGGTGGCA--CTTCTAGTCCTCAAAGAGCAGGATGCCTTTT-CTTTTAAAGCCCACACA
* * * * * * * *
1444496 AGTTGGTGACACGTTCCAGTCCTTAAAGAACAGGATG-CTTTCGCCTTTCAAAACCTACACA
1 AGTTGGTGGCAC-TTCTAGTCCTCAAAGAGCAGGATGCCTTT--TCTTTTAAAGCCCACACA
* * *
1444557 AGCTGGTGGCACCTTC-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCTACACA
1 AGTTGGTGGCA-CTTCTAGTCCTCAAAGAGCAGGATGCCTTTT-CTTTTAAAGCCCACACA
* * * * * *
1444617 AGTTGGTGGCA-TTTTCAGTCCTTAAGGTGCAGGATGCCTTCTCCTTTTAAAGCCTACACA
1 AGTTGGTGGCACTTCT-AGTCCTCAAAGAGCAGGATGCCTT-TTCTTTTAAAGCCCACACA
* *
1444677 AGTTGGTGGCACCTTGC-AGTCCTCAAAGAGCAGGAT-ACTTTCTCCTTTTAAAGACCACACA
1 AGTTGGTGGCA-CTT-CTAGTCCTCAAAGAGCAGGATGCCTTT-T-CTTTTAAAGCCCACACA
* * * *
1444738 AGTTGGTGGCACTTTTCAGTCCTCAAAGAGTAGGATGCCTTTTCCATTTAAAGACCACACA
1 AGTTGGTGGCACTTCT-AGTCCTCAAAGAGCAGGATGCCTTTT-CTTTTAAAGCCCACACA
* * * ** * *
1444799 AGTTGGTGGCACTTTTCAGTCCTCAAGGAGTAGGACACCTTCTCCTTTTAAAGCCTACACA
1 AGTTGGTGGCACTTCT-AGTCCTCAAAGAGCAGGATGCCTT-TTCTTTTAAAGCCCACACA
* *
1444860 AGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGATG-C-TTTCTTTTTGCAAAGCCCACCCA
1 AGTTGGTGGCA-CTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC-TTTT--AAAGCCCACACA
** * *
1444921 AGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCTTTTCAAAGCCTACACG
1 AGTTGGTGGCA-CTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTT-AAAGCCCACACA
* *
1444982 AGTTGGTGGCACCTTTTAGTCCTCAAAGAGCATGATGCCTTTTC
1 AGTTGGTGGCA-CTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
1445026 CTTCTCTTCT
Statistics
Matches: 903, Mismatches: 137, Indels: 82
0.80 0.12 0.07
Matches are distributed among these distances:
58 4 0.00
59 6 0.01
60 177 0.20
61 518 0.57
62 186 0.21
63 12 0.01
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (59 bp):
AGTTGGTGGCACTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTAAAGCCCACACA
Found at i:1444141 original size:122 final size:121
Alignment explanation
Indices: 1443884--1445028 Score: 1288
Period size: 122 Copynumber: 9.4 Consensus size: 121
1443874 AAAGATCACT
* * *
1443884 AGTTGGTGGCACTTTTTAGTCCTCAAGGAGCAGGATGCCTTCTT-CTTTTAAAGCCCATACAAGT
1 AGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGATGCCTT-TTCCTTTTAAAGCCTACACAAGT
* *
1443948 TGGTGGCA-CTTGCTAATCCTCAAAGAGCAGGACGCCTTTTCCTTCTAAAGCCCACACA
65 TGGTGGCACCTT-CTAGTCCTCAAAGAGCAGGACGCC-TTTCCTTTTAAAGCCCACACA
* *
1444006 AGTTGGTGGCACTTTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTAAAGCCTACACAAGT
1 AGTTGGTGGCAC-TTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCTACACAAGT
* * * * * *
1444071 TGGTGGAACTTTCCAGTCCTTAAAGAGTAGGACGCCTTTCCTTTTAAAGCCCACATA
65 TGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACA
* *
1444128 AGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAACCCACACAAGT
1 AGTTGGTGGCACTTTT-TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCTACACAAGT
*
1444193 TGGTGGCACCTTCTAGTCCTCAAAGAGTAGGACGCCATTTCCTTTTAAAGCCCACACA
65 TGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCC-TTTCCTTTTAAAGCCCACACA
* **
1444251 AGTTGATGGCACTTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGTCC-ACACAAG
1 AGTTGGTGGCACTTTT-TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAG-CCTACACAAG
* * * ** *
1444315 TTGGTGGCACCTTCTAGTCCTTAAAGAGCAGTATGTTTTTGCCTTTCAAAGCCCACACA
64 TTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTT-CCTTTTAAAGCCCACACA
* * * * * * * *
1444374 AGCTGGTGGCAC-CTTCAGTCCTCAAAAAGCGGGACGCCTTTTCCTTTTAAAGCCTATATAAGTT
1 AGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCTACACAAGTT
* ** * * * **
1444438 GGTGGTAGTTTTGTAGTCCTCAAAGAGTAGGACACCTTTTCCTTTTAAAATCCACACA
66 GGTGGCA-CCTTCTAGTCCTCAAAGAGCAGGACGCC-TTTCCTTTTAAAGCCCACACA
* * ** * * * * * *
1444496 AGTTGGTGACACGTTCCAGTCCTTAAAGAACAGGATG-CTTTCGCCTTTCAAAACCTACACAAGC
1 AGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGATGCCTTT-TCCTTTTAAAGCCTACACAAGT
*
1444560 TGGTGGCACCTTC-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCTACACA
65 TGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCC-TTTCCTTTTAAAGCCCACACA
* * * * *
1444617 AGTTGGTGGCA-TTTTCAGTCCTTAAGGTGCAGGATGCCTTCTCCTTTTAAAGCCTACACAAGTT
1 AGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCTACACAAGTT
** * *
1444681 GGTGGCACCTTGC-AGTCCTCAAAGAGCAGGATACTTTCTCCTTTTAAAGACCACACA
66 GGTGGCACCTT-CTAGTCCTCAAAGAGCAGGACGCCTT-TCCTTTTAAAGCCCACACA
* * *
1444738 AGTTGGTGGCACTTTTCAGTCCTCAAAGAGTAGGATGCCTTTTCCATTTAAAGACC-ACACAAGT
1 AGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAG-CCTACACAAGT
* * * * *
1444802 TGGTGGCA-CTTTTCAGTCCTCAAGGAGTAGGACACCTTCTCCTTTTAAAGCCTACACA
65 TGGTGGCACCTTCT-AGTCCTCAAAGAGCAGGACGCCTT-TCCTTTTAAAGCCCACACA
* * * * * *
1444860 AGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGATG-C-TTTCTTTTTGCAAAGCCCACCCAAG
1 AGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT--AAAGCCTACACAAG
* * * *
1444923 TTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCTTTTCAAAGCCTACACG
64 TTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTCCTTTT-AAAGCCCACACA
* *
1444982 AGTTGGTGGCACCTTTTAGTCCTCAAAGAGCATGATGCCTTTTCCTT
1 AGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTT
1445029 CTCTTCTTTT
Statistics
Matches: 873, Mismatches: 124, Indels: 50
0.83 0.12 0.05
Matches are distributed among these distances:
120 61 0.07
121 162 0.19
122 383 0.44
123 257 0.29
124 10 0.01
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (121 bp):
AGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCTACACAAGTT
GGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACA
Found at i:1444240 original size:183 final size:182
Alignment explanation
Indices: 1443884--1445013 Score: 1337
Period size: 183 Copynumber: 6.2 Consensus size: 182
1443874 AAAGATCACT
* * ** * *
1443884 AGTTGGTGGCACTTTTTAGTCCTCAAGGAGCAGGATGCCTTCTTCTTTTAAAGCCCATACAAGTT
1 AGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTT
* * * * *
1443949 GGTGGCACTTGCTAATCCTCAAAGAGCAGGACGCCTTTTCCTTCTAAAGCCCACACAAGTTGGTG
66 GGTGGCACTTTCTAGTCCTCAAAGAGCAGGATG-CTTTTCCTTTTAAAACCCACACAAGTTGGTG
* * * * *
1444014 GCACTTTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTAAAGCCTACACA
130 GCAC-CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCTACACA
* * * * * *
1444068 AGTTGGTGGAACTTTCCAGTCCTTAAAGAGTAGGACGCCTT-TCCTTTTAAAGCCCACATAAGTT
1 AGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTT
1444132 GGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAACCCACACAAGTTGGT
66 GGTGGCAC-TTTCTAGTCCTCAAAGAGCAGGATG-CTTTTCCTTTTAAAACCCACACAAGTTGGT
* * *
1444197 GGCACCTTCTAGTCCTCAAAGAGTAGGACGCCATTTCCTTTTAAAGCCCACACA
129 GGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCTACACA
* * *
1444251 AGTTGATGGCACTTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGTCCACACAAGT
1 AGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGT
* * * * * * *
1444316 TGGTGGCACCTTCTAGTCCTTAAAGAGCAGTATGTTTTTGCCTTTCAAAGCCCACACAAGCTGGT
65 TGGTGGCACTTTCTAGTCCTCAAAGAGCAGGATGCTTTT-CCTTTTAAAACCCACACAAGTTGGT
* * * *
1444381 GGCACCTTC-AGTCCTCAAAAAGCGGGACGCCTTTTCCTTTTAAAGCCTATATA
129 GGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCTACACA
* * * * * **
1444434 AGTTGGTGGTAGTTTTGTAGTCCTCAAAGAGTAGGACACCTTTTCCTTTTAAAATCCACACAAGT
1 AGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGT
* * * * * * * * *
1444499 TGGTGACACGTTCCAGTCCTTAAAGAACAGGATGCTTTCGCCTTTCAAAACCTACACAAGCTGGT
65 TGGTGGCACTTTCTAGTCCTCAAAGAGCAGGATGCTTT-TCCTTTTAAAACCCACACAAGTTGGT
1444564 GGCACCTTC-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCTACACA
129 GGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCTACACA
* * * ** *
1444617 AGTTGGTGGCA-TTTTCAGTCCTTAAGGTGCAGGATGCCTTCTCCTTTTAAAGCCTACACAAGTT
1 AGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTT
* *
1444681 GGTGGCACCTTGC-AGTCCTCAAAGAGCAGGATACTTTCTCCTTTTAAAGA-CCACACAAGTTGG
66 GGTGGCA-CTTTCTAGTCCTCAAAGAGCAGGATGCTTT-TCCTTTTAAA-ACCCACACAAGTTGG
* * * *
1444744 TGGCA-CTTTTCAGTCCTCAAAGAGTAGGATGCCTTTTCCATTTAAAGACC-ACACA
128 TGGCACCTTCT-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAG-CCTACACA
* * *
1444799 AGTTGGTGGCACTTTTCAGTCCTCAAGGAGTAGGACACCTTCTCCTTTTAAAGCCTACACAAGTT
1 AGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTT
* * * * *
1444864 GGTGGCACCTTCTAGTCCTCAAAGAGCAAGATGC-TTTCTTTTTGCAAAGCCCACCCAAGTTGGT
66 GGTGGCACTTTCTAGTCCTCAAAGAGCAGGATGCTTTTCCTTTT--AAAACCCACACAAGTTGGT
* *
1444928 GGCACCTTCTAGTCCTCAAAGAGCAGGACACCTTTT-CTTTTCAAAGCCTACACG
129 GGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCTACACA
1444982 AGTTGGTGGCACCTTTT-AGTCCTCAAAGAGCA
1 AGTTGGTGGCA-CTTTTCAGTCCTCAAAGAGCA
1445014 TGATGCCTTT
Statistics
Matches: 818, Mismatches: 108, Indels: 41
0.85 0.11 0.04
Matches are distributed among these distances:
180 3 0.00
181 96 0.12
182 68 0.08
183 449 0.55
184 173 0.21
185 29 0.04
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (182 bp):
AGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTT
GGTGGCACTTTCTAGTCCTCAAAGAGCAGGATGCTTTTCCTTTTAAAACCCACACAAGTTGGTGG
CACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCTACACA
Found at i:1445153 original size:86 final size:85
Alignment explanation
Indices: 1444993--1445161 Score: 207
Period size: 86 Copynumber: 2.0 Consensus size: 85
1444983 GTTGGTGGCA
* * *
1444993 CCTTTTAGTCCTCAAAGAGCATGATGCCTTTTCCTTCTCTTCTTTTGTCCTCAAAAAGCAGGACA
1 CCTTTTAGTCCTCAAAAAGCAGGATGCCTTTTCCTTCTCTTCCTTTGTCCTCAAAAAGCAGGACA
* *
1445058 TATTTCATTTCCTTCTTTTC
66 CACTTCATTTCCTTCTTTTC
* * *
1445078 CCTTTT-GTCCTCAAAAAGCAGGATGCCTATTTTTCTTTTTTTCCTTTGTCCT-AAAAGAGCAGG
1 CCTTTTAGTCCTCAAAAAGCAGGATGCC--TTTTCCTTCTCTTCCTTTGTCCTCAAAA-AGCAGG
* *
1445141 TCGCACTTCATTTCCTTCTTT
63 ACACACTTCATTTCCTTCTTT
1445162 ATCCTCCTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
84 19 0.27
85 10 0.14
86 42 0.59
ACGTcount: A:0.20, C:0.26, G:0.12, T:0.43
Consensus pattern (85 bp):
CCTTTTAGTCCTCAAAAAGCAGGATGCCTTTTCCTTCTCTTCCTTTGTCCTCAAAAAGCAGGACA
CACTTCATTTCCTTCTTTTC
Found at i:1445922 original size:20 final size:20
Alignment explanation
Indices: 1445897--1445934 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1445887 AATTTTCACA
*
1445897 ATTGTATCGATACATTATTC
1 ATTGTATCGATAAATTATTC
1445917 ATTGTATCGATAAATTAT
1 ATTGTATCGATAAATTAT
1445935 GGGTTTTACC
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:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (20 bp):
ATTGTATCGATAAATTATTC
Found at i:1446202 original size:21 final size:21
Alignment explanation
Indices: 1446176--1446233 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
1446166 TTTTTACCGA
1446176 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
1446197 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
1446218 AATGTATCGATACATT
1 AATGTATCGATACATT
1446234 CTACTAATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (21 bp):
AATGTATCGATACATTTGTGG
Found at i:1446242 original size:21 final size:20
Alignment explanation
Indices: 1446176--1446252 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 20
1446166 TTTTTACCGA
1446176 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGT-G
1446197 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGT-G
*
1446218 AATGTATCGATACATTCTACT-
1 AATGTATCGATACATT-T-GTG
1446239 AATGTATCGATACA
1 AATGTATCGATACA
1446253 GGGTCCCAAC
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
21 51 0.96
22 1 0.02
23 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTTGTG
Found at i:1446313 original size:19 final size:19
Alignment explanation
Indices: 1446289--1446339 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
1446279 TTTCAGCGAT
1446289 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
1446308 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
1446327 TTGTATCGATACA
1 TTGTATCGATACA
1446340 ATGTATCGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:1446415 original size:21 final size:21
Alignment explanation
Indices: 1446370--1446427 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
1446360 TGCCAAAGAA
*
1446370 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTATTCT
1446390 ATGTATCGATACATCTATTCT
1 ATGTATCGATACATCTATTCT
*
1446411 TTGTATCGATACATCTA
1 ATGTATCGATACATCTA
1446428 GGAAGTTTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 14 0.40
21 21 0.60
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.45
Consensus pattern (21 bp):
ATGTATCGATACATCTATTCT
Found at i:1448877 original size:51 final size:51
Alignment explanation
Indices: 1448819--1448986 Score: 187
Period size: 51 Copynumber: 3.3 Consensus size: 51
1448809 TTACCTCCGA
* *
1448819 GGGGATAC-CCTAACCCCGACTTTATTTCCAAAATATTGA-TTTCTCATAATC
1 GGGGATACTCC-AACCCCGGCTTTATTTCCAAAACATTGATTTTC-CATAATC
* * * * * *
1448870 GGGGATACTCCAATCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATC
1 GGGGATACTCCAACCCCGGCTTTATTTCCAAAACATTGATTTTCCATAATC
* * * *
1448921 GGGGATACTCCAACCCTGGCTTTATTTTCAAAACATCGATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGGCTTTATTTCCAAAACATTGATTTTCC-ATAATC
1448973 GGGGATACTCCAAC
1 GGGGATACTCCAAC
1448987 TTCGATTTTA
Statistics
Matches: 96, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
51 72 0.75
52 24 0.25
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGCTTTATTTCCAAAACATTGATTTTCCATAATC
Found at i:1448997 original size:52 final size:52
Alignment explanation
Indices: 1448858--1449038 Score: 167
Period size: 52 Copynumber: 3.5 Consensus size: 52
1448848 AAAATATTGA
1448858 TTTCTCATAATCGGGGATACTCCAA-TCCCGGTTTTA-TTTCTAAAACACTAAT
1 TTTC-CATAATCGGGGATACTCCAACT-CCGGTTTTATTTTCTAAAACACTAAT
* * *
1448910 TTTCCACAATCGGGGATACTCCAAC-CCTGGCTTTATTTTC-AAAACA-TCGAT
1 TTTCCATAATCGGGGATACTCCAACTCC-GGTTTTATTTTCTAAAACACT-AAT
* * * * *
1448961 TTTCCTTTAATCGGGGATACTCCAACTTCGATTTTA-TTTCTAAAAATACCAAT
1 TTTCC-ATAATCGGGGATACTCCAACTCCGGTTTTATTTTCT-AAAACACTAAT
* * *
1449014 TTTTCACAATCGAGGATACTCCAAC
1 TTTCCATAATCGGGGATACTCCAAC
1449039 CTCATTATTT
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
50 3 0.03
51 42 0.40
52 48 0.46
53 12 0.11
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (52 bp):
TTTCCATAATCGGGGATACTCCAACTCCGGTTTTATTTTCTAAAACACTAAT
Found at i:1449058 original size:28 final size:28
Alignment explanation
Indices: 1449022--1449103 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
1449012 ATTTTTCACA
*
1449022 ATCGAGGATACTCCAACCTCATTATTTC
1 ATCGAGGATACTCCAACCCCATTATTTC
* *
1449050 ATCGGGGATACTCCAACCCCGTTATTT-
1 ATCGAGGATACTCCAACCCCATTATTTC
* *
1449077 -TCGAGGGGACACTCCAACCCCGTTATT
1 ATCGA--GGATACTCCAACCCCATTATT
1449104 ATCTCCAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 3 0.06
28 44 0.94
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.28
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCATTATTTC
Found at i:1449115 original size:262 final size:263
Alignment explanation
Indices: 1448645--1449128 Score: 728
Period size: 262 Copynumber: 1.8 Consensus size: 263
1448635 TGAGTTTCTC
* *
1448645 AATTCTCCACAATTAGGGATACTCCAACCCCGGTTTTATTTTCAAAACATCGATTTTCCTTTAAT
1 AATTCTCCACAATCAGGGATACTCCAACCCCGGCTTTATTTTCAAAACATCGATTTTCCTTTAAT
1448710 CGGGGATACTCCAACTCCGATTTTATTTCAAAAAAACACCAATTTTTCACAATCAGGGATACTCC
66 CGGGGATACTCCAACTCCGATTTTATTTCAAAAAAACACCAATTTTTCACAATCAGGGATACTCC
* *
1448775 AATCCTGTTAATCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACCCTAACCCCGACT
131 AATCCTATTAATCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGACACCCTAACCCCGACT
* *
1448840 TTATTTCCAAAATATT-GATTTCTCATAATCGGGGATACTCCAATCCCGGTTTTATTTCTAAAAC
196 TTATCTCCAAAATATTAAATTTCTCATAATCGGGGATACTCCAATCCCGGTTTTATTTCTAAAAC
1448904 ACT
261 ACT
* * *
1448907 AATTTTCCACAATCGGGGATACTCCAACCCTGGCTTTATTTTCAAAACATCGATTTTCCTTTAAT
1 AATTCTCCACAATCAGGGATACTCCAACCCCGGCTTTATTTTCAAAACATCGATTTTCCTTTAAT
* * *
1448972 CGGGGATACTCCAACTTCGATTTTATTTC-TAAAAATACCAATTTTTCACAATC-GAGGATACTC
66 CGGGGATACTCCAACTCCGATTTTATTTCAAAAAAACACCAATTTTTCACAATCAG-GGATACTC
* ** *
1449035 CAA-CCTCATTATTTCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCC-AACCCC
130 CAATCCT-ATTA-ATCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGACAC-CCTAACCCC
*
1449098 G-TTATTATCTCCAAAATATTAAATTTCTCAT
192 GACT-TTATCTCCAAAATATTAAATTTCTCAT
1449129 CGGGAAATAT
Statistics
Matches: 199, Mismatches: 17, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
260 4 0.02
261 37 0.19
262 147 0.74
263 11 0.06
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (263 bp):
AATTCTCCACAATCAGGGATACTCCAACCCCGGCTTTATTTTCAAAACATCGATTTTCCTTTAAT
CGGGGATACTCCAACTCCGATTTTATTTCAAAAAAACACCAATTTTTCACAATCAGGGATACTCC
AATCCTATTAATCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGACACCCTAACCCCGACT
TTATCTCCAAAATATTAAATTTCTCATAATCGGGGATACTCCAATCCCGGTTTTATTTCTAAAAC
ACT
Found at i:1452633 original size:80 final size:77
Alignment explanation
Indices: 1452549--1452701 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 77
1452539 TCTCACAATC
* *
1452549 GGGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATTTTTTCACAATCAGGGATACTCCAA
1 GGGGAAACTCCAACCCCAACTTTATTTCTAAAACACCAA-TTTTTCACAATCAGGGATACTCCAA
1452614 TCCCATTATTTCCGA
65 -CCC-TTATTTCCGA
** * *** **
1452629 GGGGAAACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTTTCACAATTGGGGATACTCCAAC
1 GGGGAAACTCCAACCCCAACTTTATTTCTAAAACACCAATTTTTCACAATCAGGGATACTCCAAC
1452694 CCTTATTT
66 CCTTATTT
1452702 TATTTCTAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
77 6 0.10
78 3 0.05
79 23 0.37
80 31 0.49
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (77 bp):
GGGGAAACTCCAACCCCAACTTTATTTCTAAAACACCAATTTTTCACAATCAGGGATACTCCAAC
CCTTATTTCCGA
Found at i:1452765 original size:79 final size:78
Alignment explanation
Indices: 1452682--1453058 Score: 334
Period size: 79 Copynumber: 4.8 Consensus size: 78
1452672 TCACAATTGG
** * * *
1452682 GGATACTCCAACCCTTATTTTATTTCTAAAACACCAAATTTTCATAATCG-GGTAAACTCTAACC
1 GGATACTCCAACCCCGATTTTATTTCTAAAACACC-GATTTTCATAATCGAGG-ATACTCCAACC
1452746 TCGTTATTTTTGCAA
64 TCGTTATTTTTGCAA
* *** * * * *
1452761 GGATACTCCAACCTCGGCCTTATTTCTAAAGCATCGATTTTTCACAATC-AGGGTTACTCCAACC
1 GGATACTCCAACCCCGATTTTATTTCTAAAACACCGA-TTTTCATAATCGA-GGATACTCCAACC
* *
1452825 CCGTTATTTTTG-AGG
64 TCGTTATTTTTGCA-A
* * *
1452840 GGATACTCCAACCCCCATTTTATTT-TCGAAACACCGATTTTCTATAATCGAGGATATTCCAACC
1 GGATACTCCAACCCCGATTTTATTTCT-AAAACACCGATTTTC-ATAATCGAGGATACTCCAACC
* ** **
1452904 GCGTTATTTTCACGG
64 TCGTTATTTTTGCAA
*** * * *
1452919 GGATACTCCAACCCCGGCCTTATTTCTAAAGCATCGATTTTCCACAATCGAGGATACTCCAACCT
1 GGATACTCCAACCCCGATTTTATTTCTAAAACACCGATTTT-CATAATCGAGGATACTCCAACCT
1452984 CGTTA-TTTT-CAA
65 CGTTATTTTTGCAA
* *
1452996 GGGGATACTCCAACCCCGATTTTATTTTTAAAACAGCGATTTTCTATAATCGAGGATACTCCA
1 --GGATACTCCAACCCCGATTTTATTTCTAAAACACCGATTTTC-ATAATCGAGGATACTCCA
1453059 GCCCCGTTGT
Statistics
Matches: 235, Mismatches: 50, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
77 1 0.00
78 12 0.05
79 217 0.92
80 5 0.02
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (78 bp):
GGATACTCCAACCCCGATTTTATTTCTAAAACACCGATTTTCATAATCGAGGATACTCCAACCTC
GTTATTTTTGCAA
Found at i:1452773 original size:130 final size:128
Alignment explanation
Indices: 1452425--1452826 Score: 472
Period size: 130 Copynumber: 3.1 Consensus size: 128
1452415 TTAATCTCAA
* * * **
1452425 GGATACTCTAACCCCGATTTTATTTCCAAAACA-TTAATTTTCATAATCGGGATACTCTAATTCC
1 GGATACTCCAACCCCTATTTTATTTCTAAAACACCAAATTTTCATAATCGGGATACTCTAA-TCC
* *
1452489 CTTATTTTCGAGGGGATACTCCAA-TCCGGCTTTATTTCTAAAATATTG-TTTCTCACAATCGG
65 CTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTTTCACAATCGG
* * * *
1452551 GGATACTCCAACCCCAATTTTATTTCTAAAACACCAATTTTTTCACAATCAGGGATACTCCAATC
1 GGATACTCCAACCCCTATTTTATTTCTAAAACACCAA-ATTTTCATAATC-GGGATACTCTAATC
* * *
1452616 CCATTATTTCCGAGGGGAAACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTTTCACAATTG
64 CC-TTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTTTCACAATCG
1452681 G
128 G
* *
1452682 GGATACTCCAACCCTTATTTTATTTCTAAAACACCAAATTTTCATAATCGGGTAAACTCTAA-CC
1 GGATACTCCAACCCCTATTTTATTTCTAAAACACCAAATTTTCATAATCGGG-ATACTCTAATCC
* * * * ** *
1452746 TCGTTATTTTTGCA-AGGATACTCCAACCTCGGCCTTATTTCTAAAGCATCGATTTTTCACAATC
65 -C-TTATTTTCG-AGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTTTCACAATC
*
1452810 AG
127 GG
*
1452812 GGTTACTCCAACCCC
1 GGATACTCCAACCCC
1452827 GTTATTTTTG
Statistics
Matches: 234, Mismatches: 33, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
126 30 0.13
127 1 0.00
128 14 0.06
129 37 0.16
130 104 0.44
131 48 0.21
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (128 bp):
GGATACTCCAACCCCTATTTTATTTCTAAAACACCAAATTTTCATAATCGGGATACTCTAATCCC
TTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTTTCACAATCGG
Found at i:1452909 original size:158 final size:158
Alignment explanation
Indices: 1452680--1453058 Score: 505
Period size: 158 Copynumber: 2.4 Consensus size: 158
1452670 TTTCACAATT
** * * *
1452680 GGGGATACTCCAACCCTTATTTTA-TTTCTAAAACACCAAATTTTC-ATAATCG-GGTAAACTCT
1 GGGGATACTCCAACCCCCATTTTATTTTC-AAAACACC-GATTTTCTATAATCGAGG-ATACTCC
* ** * *
1452742 AACCTCGTTATTTTTGCAAGGATACTCCAACCTCGGCCTTATTTCTAAAGCATCGATTTTTCACA
63 AACCGCGTTATTTTCACAAGGATACTCCAACCCCGGCCTTATTTCTAAAGCATCGATTTTCCACA
* **
1452807 ATC-AGGGTTACTCCAACCCCGTTATTTTTGA
128 ATCGA-GGATACTCCAACCCCGTTATTTTCAA
* *
1452838 GGGGATACTCCAACCCCCATTTTATTTTCGAAACACCGATTTTCTATAATCGAGGATATTCCAAC
1 GGGGATACTCCAACCCCCATTTTATTTTCAAAACACCGATTTTCTATAATCGAGGATACTCCAAC
**
1452903 CGCGTTATTTTCACGGGGATACTCCAACCCCGGCCTTATTTCTAAAGCATCGATTTTCCACAATC
66 CGCGTTATTTTCACAAGGATACTCCAACCCCGGCCTTATTTCTAAAGCATCGATTTTCCACAATC
*
1452968 GAGGATACTCCAACCTCGTTATTTTCAA
131 GAGGATACTCCAACCCCGTTATTTTCAA
* * *
1452996 GGGGATACTCCAACCCCGATTTTATTTTTAAAACAGCGATTTTCTATAATCGAGGATACTCCA
1 GGGGATACTCCAACCCCCATTTTATTTTCAAAACACCGATTTTCTATAATCGAGGATACTCCA
1453059 GCCCCGTTGT
Statistics
Matches: 194, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
157 6 0.03
158 181 0.93
159 7 0.04
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (158 bp):
GGGGATACTCCAACCCCCATTTTATTTTCAAAACACCGATTTTCTATAATCGAGGATACTCCAAC
CGCGTTATTTTCACAAGGATACTCCAACCCCGGCCTTATTTCTAAAGCATCGATTTTCCACAATC
GAGGATACTCCAACCCCGTTATTTTCAA
Found at i:1453698 original size:20 final size:19
Alignment explanation
Indices: 1453673--1453755 Score: 90
Period size: 19 Copynumber: 4.7 Consensus size: 19
1453663 TTTCAATGAT
*
1453673 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTA
*
1453693 TTGTATGGATACATAAGTA
1 TTGTATCGATACATAAGTA
1453712 TTGTATCGATAC---A--A
1 TTGTATCGATACATAAGTA
1453726 -TGTATCGATACATAAGT-
1 TTGTATCGATACATAAGTA
1453743 TTGTATCGATACA
1 TTGTATCGATACA
1453756 ATGTATCGCT
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
16 2 0.04
18 12 0.22
19 15 0.28
20 13 0.24
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:1453731 original size:13 final size:13
Alignment explanation
Indices: 1453713--1453763 Score: 57
Period size: 13 Copynumber: 3.5 Consensus size: 13
1453703 ACATAAGTAT
1453713 TGTATCGATACAA
1 TGTATCGATACAA
1453726 TGTATCGATACATAA
1 TGTATCGATAC--AA
1453741 GTTTGTATCGATACAA
1 ---TGTATCGATACAA
1453757 TGTATCG
1 TGTATCG
1453764 CTACGAAGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
13 18 0.55
15 2 0.06
16 2 0.06
18 11 0.33
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1453750 original size:31 final size:32
Alignment explanation
Indices: 1453694--1453763 Score: 124
Period size: 31 Copynumber: 2.2 Consensus size: 32
1453684 CATAAAGTGT
*
1453694 TGTATGGATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1453726 TGTATCGATACATAAGT-TTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1453757 TGTATCG
1 TGTATCG
1453764 CTACGAAGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 21 0.57
32 16 0.43
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1453967 original size:52 final size:52
Alignment explanation
Indices: 1453840--1453968 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
1453830 CACTGATCTT
* * *
1453840 TGTATCGATACATGCAGGCAAATCTGCCTAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
* *
1453892 TGTATCGAGACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
1453944 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1453969 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
Found at i:1458619 original size:20 final size:20
Alignment explanation
Indices: 1458524--1458620 Score: 126
Period size: 20 Copynumber: 4.8 Consensus size: 20
1458514 TTTTACCCAG
*
1458524 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTATTCA
*
1458544 ATGTATCGATACATGTA-TGA
1 ATGTATCGATACAT-TATTCA
**
1458564 ATGTATCGATACATGTA-AGA
1 ATGTATCGATACAT-TATTCA
1458584 ATGTATCGATACATTATTCA
1 ATGTATCGATACATTATTCA
1458604 ATGTATCGATACATTAT
1 ATGTATCGATACATTAT
1458621 GTTTTTTTAC
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
19 2 0.03
20 67 0.96
21 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTATTCA
Found at i:1458646 original size:51 final size:51
Alignment explanation
Indices: 1458587--1458719 Score: 196
Period size: 51 Copynumber: 2.6 Consensus size: 51
1458577 TGTAAGAATG
* *
1458587 TATCGATACATTATTCAATGTATCGATACATTATGT-TTTTTTACCCAAATA
1 TATCGATACATTTTTCAATGTATCGATACATTATATCTTTTTT-CCCAAATA
* * *
1458638 TATCGATACATTTTTCAATGTATCGATACATTCTATCTTTTTTCCCAGATG
1 TATCGATACATTTTTCAATGTATCGATACATTATATCTTTTTTCCCAAATA
*
1458689 TATCGATACATTTTTCAATGTATCAATACAT
1 TATCGATACATTTTTCAATGTATCGATACAT
1458720 CTATTTAAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
51 69 0.92
52 6 0.08
ACGTcount: A:0.31, C:0.17, G:0.08, T:0.44
Consensus pattern (51 bp):
TATCGATACATTTTTCAATGTATCGATACATTATATCTTTTTTCCCAAATA
Found at i:1466009 original size:12 final size:12
Alignment explanation
Indices: 1465977--1466010 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1465967 TCCGAGTCAC
*
1465977 CATCATCATCAT
1 CATCATTATCAT
1465989 CATCATTATCAT
1 CATCATTATCAT
*
1466001 CATCTTTATC
1 CATCATTATC
1466011 GTCTTTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.41
Consensus pattern (12 bp):
CATCATTATCAT
Found at i:1467624 original size:20 final size:20
Alignment explanation
Indices: 1467601--1467654 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
1467591 GTTTAAAGCA
1467601 ATGTATCGATACAAT-T-CATC
1 ATGTATCGATACAATGTGC--C
*
1467621 ATGTATCGATATAATGTGCC
1 ATGTATCGATACAATGTGCC
1467641 ATGTATCGATACAA
1 ATGTATCGATACAA
1467655 ATAATAGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 28 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:1467707 original size:19 final size:19
Alignment explanation
Indices: 1467683--1467737 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 19
1467673 CTGCGAGTTT
1467683 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
1467702 CATGTATCGATGCAATGAA
1 CATGTATCGATACAATGAA
*
1467721 CATTTATCGATACAATG
1 CATGTATCGATACAATG
1467738 TATCAATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1470620 original size:13 final size:13
Alignment explanation
Indices: 1470602--1470628 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1470592 ACATGCTGCT
1470602 TTGTATCGATACA
1 TTGTATCGATACA
1470615 TTGTATCGATACA
1 TTGTATCGATACA
1470628 T
1 T
1470629 GTTCAATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1470640 original size:19 final size:21
Alignment explanation
Indices: 1470614--1470669 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 21
1470604 GTATCGATAC
**
1470614 ATTGTATCGATACATGTTC-A
1 ATTGTATCGATACATGGACAA
*
1470634 A-TGTATCAATACATGGACAA
1 ATTGTATCGATACATGGACAA
1470654 ATTGTATCGATACATG
1 ATTGTATCGATACATG
1470670 AAATTGGCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 14 0.47
20 3 0.10
21 13 0.43
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (21 bp):
ATTGTATCGATACATGGACAA
Found at i:1470740 original size:20 final size:19
Alignment explanation
Indices: 1470699--1470751 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
1470689 TATCACTATT
* *
1470699 TGTATCGATACATTGTACAA
1 TGTATCGATACA-TGAAAAA
1470719 TGTATCGATACATGAAGAAA
1 TGTATCGATACATGAA-AAA
*
1470739 TGTATTGATACAT
1 TGTATCGATACAT
1470752 AGCTTGTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 3 0.10
20 26 0.90
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (19 bp):
TGTATCGATACATGAAAAA
Found at i:1473216 original size:133 final size:133
Alignment explanation
Indices: 1473040--1473305 Score: 532
Period size: 133 Copynumber: 2.0 Consensus size: 133
1473030 ATGTCATAAA
1473040 AATGGCCATACATTTCACACATGTAATACAAAAATAAATAAATTTAGAGGCAAAATCATTAAACA
1 AATGGCCATACATTTCACACATGTAATACAAAAATAAATAAATTTAGAGGCAAAATCATTAAACA
1473105 AGTATGGATGCCTAAAGGAATCGGAACTTCCGAAAAAGAAATAAAATGGGTTCCGAAAGGATCAA
66 AGTATGGATGCCTAAAGGAATCGGAACTTCCGAAAAAGAAATAAAATGGGTTCCGAAAGGATCAA
1473170 AAT
131 AAT
1473173 AATGGCCATACATTTCACACATGTAATACAAAAATAAATAAATTTAGAGGCAAAATCATTAAACA
1 AATGGCCATACATTTCACACATGTAATACAAAAATAAATAAATTTAGAGGCAAAATCATTAAACA
1473238 AGTATGGATGCCTAAAGGAATCGGAACTTCCGAAAAAGAAATAAAATGGGTTCCGAAAGGATCAA
66 AGTATGGATGCCTAAAGGAATCGGAACTTCCGAAAAAGAAATAAAATGGGTTCCGAAAGGATCAA
1473303 AAT
131 AAT
1473306 TGTTAAACAC
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
133 133 1.00
ACGTcount: A:0.47, C:0.14, G:0.17, T:0.22
Consensus pattern (133 bp):
AATGGCCATACATTTCACACATGTAATACAAAAATAAATAAATTTAGAGGCAAAATCATTAAACA
AGTATGGATGCCTAAAGGAATCGGAACTTCCGAAAAAGAAATAAAATGGGTTCCGAAAGGATCAA
AAT
Found at i:1476890 original size:13 final size:13
Alignment explanation
Indices: 1476872--1476900 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1476862 ACAACATTCC
1476872 TTGTATCGATACA
1 TTGTATCGATACA
1476885 TTGTATCGATACA
1 TTGTATCGATACA
1476898 TTG
1 TTG
1476901 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1479416 original size:21 final size:20
Alignment explanation
Indices: 1479365--1479420 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
1479355 GTATTGATAC
**
1479365 ATTGTATCGATACATGTTCA
1 ATTGTATCGATACATGGACA
*
1479385 A-TGTATTGATACATGGACAA
1 ATTGTATCGATACATGGAC-A
1479405 ATTGTATCGATACATG
1 ATTGTATCGATACATG
1479421 AAATTGGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 14 0.47
20 3 0.10
21 13 0.43
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:1479486 original size:13 final size:13
Alignment explanation
Indices: 1479465--1479495 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1479455 CGATACATGG
*
1479465 TACAATGTATCGA
1 TACATTGTATCGA
1479478 TACATTGTATCGA
1 TACATTGTATCGA
1479491 TACAT
1 TACAT
1479496 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1479491 original size:33 final size:32
Alignment explanation
Indices: 1479449--1479515 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
1479439 CTATCACTAT
1479449 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
1479482 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
1479515 T
1 T
1479516 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:1486840 original size:68 final size:68
Alignment explanation
Indices: 1486717--1486943 Score: 251
Period size: 68 Copynumber: 3.3 Consensus size: 68
1486707 GCTACTGGAG
** * * * * *
1486717 TTGCGGTCATTGCTGAGCTGTTGTTGGCTACTG-TGGGAGCTATGGGAGCTGCTAGAAGTTGCTA
1 TTGCGGTGGTTGCTGAGTTGCTGCTGGCTGCTGCT-GGAGCTATGGGAGCTTCTAGAAGTTGCTA
1486781 GAGA
65 GAGA
* * * *
1486785 TTACGGTGCTTGCTGAGTTGCTGCTGGCTGTTGCTGGAGTTATGGGAGCTTCTAGAAGTTGCTAG
1 TTGCGGTGGTTGCTGAGTTGCTGCTGGCTGCTGCTGGAGCTATGGGAGCTTCTAGAAGTTGCTAG
*
1486850 CGA
66 AGA
* ** * * *
1486853 TTGCGGTGGTTGCTAAGTTGCTATTGGCTGCTGCTAGAACTGTGGGAG-TTGCTAGAAGTTGCTA
1 TTGCGGTGGTTGCTGAGTTGCTGCTGGCTGCTGCTGGAGCTATGGGAGCTT-CTAGAAGTTGCTA
1486917 GAGA
65 GAGA
*
1486921 TTGCGGTGGTTGCTGAGCTGCTG
1 TTGCGGTGGTTGCTGAGTTGCTG
1486944 GAAGCTACTG
Statistics
Matches: 132, Mismatches: 25, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
67 2 0.02
68 129 0.98
69 1 0.01
ACGTcount: A:0.16, C:0.15, G:0.37, T:0.33
Consensus pattern (68 bp):
TTGCGGTGGTTGCTGAGTTGCTGCTGGCTGCTGCTGGAGCTATGGGAGCTTCTAGAAGTTGCTAG
AGA
Found at i:1487507 original size:14 final size:14
Alignment explanation
Indices: 1487482--1487530 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
1487472 TTTCACACTT
1487482 TTTTTAAATTTTTTA
1 TTTTT-AATTTTTTA
*
1487497 TTTTT-ATTTTTTG
1 TTTTTAATTTTTTA
**
1487510 GATTTAATTTTTTA
1 TTTTTAATTTTTTA
1487524 TTTTTAA
1 TTTTTAA
1487531 ATACTTTTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
13 10 0.37
14 12 0.44
15 5 0.19
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (14 bp):
TTTTTAATTTTTTA
Found at i:1488073 original size:149 final size:145
Alignment explanation
Indices: 1487884--1488297 Score: 533
Period size: 146 Copynumber: 2.8 Consensus size: 145
1487874 ATCCTAGAGA
* * * * *
1487884 ACTTAAAAAGGAAAAGCAAACCAACACCTAATACGTACCCTTGGCATAGAAGCGACTCGGTGACA
1 ACTTAAAAAGAAAAAGCAAACCTACACTTAATATGTACCCTTGGCATAGAAGTGACTCGGTGACA
*
1487949 AATTAGGACTCGATTCTAGAAAAATTATGAAAATGCCGCTAAAGGTATACCTTTGACATGA-AAG
66 AATTAGGACTCGATTCT--AAAAATTATGAAAATGCCTCT-AAGG-ATACCTTTGAC-TGAGAAG
* *
1488013 TATGCCGGTAACCCTAAAGG
126 AATCCCGGTAACCCTAAAGG
* * * *
1488033 ACTTAAAAAGAAAAAGCGAACCTACACTTAATATGTACCCTTAGCATAGAAGTAACTTGGTGACA
1 ACTTAAAAAGAAAAAGCAAACCTACACTTAATATGTACCCTTGGCATAGAAGTGACTCGGTGACA
* ** * * *
1488098 AATTAGGACCCGATTCTAAAAATTATGAAAATATCTCTATGAGATACCTTCGACTTAGAAGAATC
66 AATTAGGACTCGATTCTAAAAATTATGAAAATGCCTCTAAG-GATACCTTTGACTGAGAAGAATC
1488163 CCGGTAACCCTAAAGG
130 CCGGTAACCCTAAAGG
* * *
1488179 ACTAAAAAAGAAAAAGCAAACCTACACTTGATATGTACCCTTGGCATAGAAGTGACTCGGTTACA
1 ACTTAAAAAGAAAAAGCAAACCTACACTTAATATGTACCCTTGGCATAGAAGTGACTCGGTGACA
* * * *
1488244 TATTAGGACTCGGTTCTAAAAGTTACGAAAATGCCTCTAAGGGATACCTTTGAC
66 AATTAGGACTCGATTCTAAAAATTATGAAAATGCCTCTAA-GGATACCTTTGAC
1488298 GTAGAAGTGC
Statistics
Matches: 228, Mismatches: 34, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
145 2 0.01
146 134 0.59
147 20 0.09
149 72 0.32
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (145 bp):
ACTTAAAAAGAAAAAGCAAACCTACACTTAATATGTACCCTTGGCATAGAAGTGACTCGGTGACA
AATTAGGACTCGATTCTAAAAATTATGAAAATGCCTCTAAGGATACCTTTGACTGAGAAGAATCC
CGGTAACCCTAAAGG
Found at i:1490412 original size:167 final size:166
Alignment explanation
Indices: 1490211--1490593 Score: 385
Period size: 167 Copynumber: 2.3 Consensus size: 166
1490201 TAGTGTATAC
** * * * ** *
1490211 AAAAAAATTCAAAACTTATAAAATAAATTGAATTTTTCAAAATTGATTTGA-TAGGAGTCTAATG
1 AAAAAAATGAAAAACTTAGAAAATAAA-TGAATTTTTCAAAACTAATTT-ACTAGGAAACAAATG
* * * * *
1490275 ACAATGTTAGACGAATTTTAAAAATTTTATACTGAGAAAAATCCCCCCAAAAACTTTTACAGAGT
64 ACAATATTAGACGAATTTTAAAAATTATAAACTAAGAAAAATCCCCCCAAAAACATTTACAGAGT
*** *** ** *
1490340 AAAAAACTTTTTATTTTTGAAACAAGGGAATTTTAAAG
129 AAAAAACTCCGTATTTCAAAAACAAAAGAATTCTAAAG
* *
1490378 AAAAAAATGAAAAACTTACGAAAATAAATGAATTTTTTAAAACTAATTTACTATGAAACAAATGA
1 AAAAAAATGAAAAACTTA-GAAAATAAATGAATTTTTCAAAACTAATTTACTAGGAAACAAATGA
** * * ** *
1490443 TGATATTTGATGAATTTTAAAAATTATAAACTAAGAAAAATCCCCCTGAAAACATTTACGGAGTA
65 CAATATTAGACGAATTTTAAAAATTATAAACTAAGAAAAATCCCCCCAAAAACATTTACAGAGTA
*
1490508 GAAAACTCCGTATTTCAAAAACAAAAGAATTCTAAAG
130 AAAAACTCCGTATTTCAAAAACAAAAGAATTCTAAAG
* * *
1490545 -AAAAAAGGAAAAACTTATGAAAATAAATAAAATTTTTC-AAACTGATTTA
1 AAAAAAATGAAAAACTTA-GAAAATAAAT-GAATTTTTCAAAACTAATTTA
1490594 ATATGAATTA
Statistics
Matches: 176, Mismatches: 37, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
166 37 0.21
167 131 0.74
168 8 0.05
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.30
Consensus pattern (166 bp):
AAAAAAATGAAAAACTTAGAAAATAAATGAATTTTTCAAAACTAATTTACTAGGAAACAAATGAC
AATATTAGACGAATTTTAAAAATTATAAACTAAGAAAAATCCCCCCAAAAACATTTACAGAGTAA
AAAACTCCGTATTTCAAAAACAAAAGAATTCTAAAG
Found at i:1491704 original size:42 final size:42
Alignment explanation
Indices: 1491574--1491933 Score: 179
Period size: 42 Copynumber: 8.5 Consensus size: 42
1491564 CAACAGGGCG
* * * * *
1491574 AACAAAAGATACAAAAG-TTGACCGGGATTGAACCAACATGTT
1 AACAAAGGATA-AAAAGATTGACCGAGATTAAACCAACAAGTA
* * * * ** * *
1491616 AACAAAGGATAAAAAAATTTACCTGA-ACTAAGCTGATAGGTA
1 AACAAAGGATAAAAAGATTGACC-GAGATTAAACCAACAAGTA
* * * *
1491658 AACAAAGGATAAAAAGGTTGATCGAGATTAAACCAACAAATC
1 AACAAAGGATAAAAAGATTGACCGAGATTAAACCAACAAGTA
* * * * * *
1491700 AACAAAGGATGAAAAGATTTACCTAGGACTAAGCCGACAAGTA
1 AACAAAGGATAAAAAGATTGACCGA-GATTAAACCAACAAGTA
* * * * ** *
1491743 AACAAAGGATAAAGAGGTTGACTGGGATCT-AACTGACAAGTT
1 AACAAAGGATAAAAAGATTGACCGAGAT-TAAACCAACAAGTA
* * * * *
1491785 AATAAAGGATAAAAAGATTTACCTAGGACTAAGCCAACAAGTA
1 AACAAAGGATAAAAAGATTGACCGA-GATTAAACCAACAAGTA
* * ** *
1491828 AACAAAGGGTAAAAAGATTGATCGAGATTAAATTGAA-AAGTC
1 AACAAAGGATAAAAAGATTGACCGAGATTAAA-CCAACAAGTA
** * * * ** * *
1491870 AACAAAGGATAAATGGATTTACCCAAGACTAAGTCGACAGGTA
1 AACAAAGGATAAAAAGATTGA-CCGAGATTAAACCAACAAGTA
*
1491913 AACAAAGGATAAAAAGGTTGA
1 AACAAAGGATAAAAAGATTGA
1491934 TCGGGATTGA
Statistics
Matches: 225, Mismatches: 83, Indels: 19
0.69 0.25 0.06
Matches are distributed among these distances:
41 6 0.03
42 128 0.57
43 91 0.40
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.19
Consensus pattern (42 bp):
AACAAAGGATAAAAAGATTGACCGAGATTAAACCAACAAGTA
Found at i:1491762 original size:85 final size:85
Alignment explanation
Indices: 1491574--1491958 Score: 393
Period size: 85 Copynumber: 4.5 Consensus size: 85
1491564 CAACAGGGCG
* * * * * * *
1491574 AACAAAAGATACAAAA-GTTGACCGGGATTGAACCAACATGTTAACAAAGGATAAAAAAATTTAC
1 AACAAAGGATA-AAAAGGTTGATCGAGATTAAACCAACAAGTCAACAAAGGATAAAAAGATTTAC
* * * *
1491638 CT-GAACTAAGCTGATAGGTA
65 CTAGGACTAAGCCGACAAGTA
* *
1491658 AACAAAGGATAAAAAGGTTGATCGAGATTAAACCAACAAATCAACAAAGGATGAAAAGATTTACC
1 AACAAAGGATAAAAAGGTTGATCGAGATTAAACCAACAAGTCAACAAAGGATAAAAAGATTTACC
1491723 TAGGACTAAGCCGACAAGTA
66 TAGGACTAAGCCGACAAGTA
* * ** * *
1491743 AACAAAGGATAAAGAGGTTGA-CTGGGATCT-AACTGACAAGTTAATAAAGGATAAAAAGATTTA
1 AACAAAGGATAAAAAGGTTGATC-GAGAT-TAAACCAACAAGTCAACAAAGGATAAAAAGATTTA
*
1491806 CCTAGGACTAAGCCAACAAGTA
64 CCTAGGACTAAGCCGACAAGTA
* * ** **
1491828 AACAAAGGGTAAAAAGATTGATCGAGATTAAATTGAA-AAGTCAACAAAGGATAAATGGATTTAC
1 AACAAAGGATAAAAAGGTTGATCGAGATTAAA-CCAACAAGTCAACAAAGGATAAAAAGATTTAC
* * * *
1491892 CCAAGACTAAGTCGACAGGTA
65 CTAGGACTAAGCCGACAAGTA
* * **
1491913 AACAAAGGATAAAAAGGTTGATCGGGATTGAACTGACAAGTCAACA
1 AACAAAGGATAAAAAGGTTGATCGAGATTAAACCAACAAGTCAACA
1491959 CAAAATAAAA
Statistics
Matches: 248, Mismatches: 45, Indels: 15
0.81 0.15 0.05
Matches are distributed among these distances:
83 4 0.02
84 55 0.22
85 186 0.75
86 3 0.01
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19
Consensus pattern (85 bp):
AACAAAGGATAAAAAGGTTGATCGAGATTAAACCAACAAGTCAACAAAGGATAAAAAGATTTACC
TAGGACTAAGCCGACAAGTA
Found at i:1491902 original size:170 final size:169
Alignment explanation
Indices: 1491574--1491958 Score: 465
Period size: 170 Copynumber: 2.3 Consensus size: 169
1491564 CAACAGGGCG
* * ** *
1491574 AACAAAAGATACAAAA-GTTGACCGGGATTGAACCAACATGTTAACAAAGGATAAAAAAATTTAC
1 AACAAAGGATA-AAAAGGTTGATCGGGATTGAACTGACAAGTTAACAAAGGATAAAAAAATTTAC
** * * *
1491638 CTGAACTAAGCTGATAGGTAAACAAAGGATAAAAAGGTTGATCGAGATTAAACCAACAAATCAAC
65 CTGAACTAAGCCAACAAGTAAACAAAGGATAAAAAGATTGATCGAGATTAAACCAACAAATCAAC
* *
1491703 AAAGGATGAAAAGATTTACCTAGGACTAAGCCGACAAGTA
130 AAAGGATGAAAAGATTTACCCAAGACTAAGCCGACAAGTA
* * *
1491743 AACAAAGGATAAAGAGGTTGA-CTGGGATCT-AACTGACAAGTTAATAAAGGATAAAAAGATTTA
1 AACAAAGGATAAAAAGGTTGATC-GGGAT-TGAACTGACAAGTTAACAAAGGATAAAAAAATTTA
* * ** *
1491806 CCTAGGACTAAGCCAACAAGTAAACAAAGGGTAAAAAGATTGATCGAGATTAAATTGAA-AAGTC
64 CCT-GAACTAAGCCAACAAGTAAACAAAGGATAAAAAGATTGATCGAGATTAAA-CCAACAAATC
* * *
1491870 AACAAAGGAT-AAATGGATTTACCCAAGACTAAGTCGACAGGTA
127 AACAAAGGATGAAA-AGATTTACCCAAGACTAAGCCGACAAGTA
*
1491913 AACAAAGGATAAAAAGGTTGATCGGGATTGAACTGACAAGTCAACA
1 AACAAAGGATAAAAAGGTTGATCGGGATTGAACTGACAAGTTAACA
1491959 CAAAATAAAA
Statistics
Matches: 183, Mismatches: 25, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
168 4 0.02
169 55 0.30
170 121 0.66
171 3 0.02
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19
Consensus pattern (169 bp):
AACAAAGGATAAAAAGGTTGATCGGGATTGAACTGACAAGTTAACAAAGGATAAAAAAATTTACC
TGAACTAAGCCAACAAGTAAACAAAGGATAAAAAGATTGATCGAGATTAAACCAACAAATCAACA
AAGGATGAAAAGATTTACCCAAGACTAAGCCGACAAGTA
Found at i:1491967 original size:85 final size:84
Alignment explanation
Indices: 1491616--1491958 Score: 395
Period size: 85 Copynumber: 4.0 Consensus size: 84
1491606 CCAACATGTT
* * * * *
1491616 AACAAAGGATAAAAAAATTTACCT-GAACTAAGCTGATAGGTAAACAAAGGATAAAAAGGTTGAT
1 AACAAAGGAT-AAAAGATTTACCTAGGACTAAGCCGACAAGTAAACAAAGGATAAAAAGGTTGAT
** *
1491680 CGAGATTAAACCAACAAATC
65 CGAGATTAAACTGACAAGTC
*
1491700 AACAAAGGATGAAAAGATTTACCTAGGACTAAGCCGACAAGTAAACAAAGGATAAAGAGGTTGA-
1 AACAAAGGAT-AAAAGATTTACCTAGGACTAAGCCGACAAGTAAACAAAGGATAAAAAGGTTGAT
* *
1491764 CTGGGATCT-AACTGACAAGTT
65 C-GAGAT-TAAACTGACAAGTC
* * * *
1491785 AATAAAGGATAAAAAGATTTACCTAGGACTAAGCCAACAAGTAAACAAAGGGTAAAAAGATTGAT
1 AACAAAGGAT-AAAAGATTTACCTAGGACTAAGCCGACAAGTAAACAAAGGATAAAAAGGTTGAT
* *
1491850 CGAGATTAAATTGAAAAGTC
65 CGAGATTAAACTGACAAGTC
* * * * *
1491870 AACAAAGGATAAATGGATTTACCCAAGACTAAGTCGACAGGTAAACAAAGGATAAAAAGGTTGAT
1 AACAAAGGATAAA-AGATTTACCTAGGACTAAGCCGACAAGTAAACAAAGGATAAAAAGGTTGAT
* *
1491935 CGGGATTGAACTGACAAGTC
65 CGAGATTAAACTGACAAGTC
1491955 AACA
1 AACA
1491959 CAAAATAAAA
Statistics
Matches: 218, Mismatches: 35, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
84 27 0.12
85 189 0.87
86 2 0.01
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.19
Consensus pattern (84 bp):
AACAAAGGATAAAAGATTTACCTAGGACTAAGCCGACAAGTAAACAAAGGATAAAAAGGTTGATC
GAGATTAAACTGACAAGTC
Found at i:1492166 original size:81 final size:81
Alignment explanation
Indices: 1492025--1492233 Score: 242
Period size: 81 Copynumber: 2.6 Consensus size: 81
1492015 CGTCAACCAG
* * * * * * * *
1492025 GTTTGACCAGATACAATCAAACGATAAT-GAAAAGATGTTTAACTAGGGTGAGAATCGTTACATC
1 GTTTGACAAGATATAGTCAAATGATAATAG-AAAGATGTTTGACCAGAGCGAGAATCGTTACATC
* *
1492089 AAAATAGTAGTAAAAAA
65 AAAACAGTAATAAAAAA
* * *
1492106 GTTTGACTAGATATAGTCAATTGATAATAGAAAGATGTTTGACCAGAGCGAGAA-CTGTTACGTC
1 GTTTGACAAGATATAGTCAAATGATAATAGAAAGATGTTTGACCAGAGCGAGAATC-GTTACATC
*
1492170 AAAACAGTAATGAAAAA
65 AAAACAGTAATAAAAAA
* *
1492187 GTTTGACAAGATTTAGTCAAATGATAATAGAAAGATGTTAGACCAGA
1 GTTTGACAAGATATAGTCAAATGATAATAGAAAGATGTTTGACCAGA
1492234 TACAGTTAAA
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 1 0.01
81 107 0.98
82 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.26
Consensus pattern (81 bp):
GTTTGACAAGATATAGTCAAATGATAATAGAAAGATGTTTGACCAGAGCGAGAATCGTTACATCA
AAACAGTAATAAAAAA
Found at i:1492441 original size:35 final size:35
Alignment explanation
Indices: 1492340--1492468 Score: 125
Period size: 35 Copynumber: 3.7 Consensus size: 35
1492330 TAGTCATGGG
* * *
1492340 AAGAGTTTGACTAGATA-AGTTAAACAAAGATGAA
1 AAGAGTTTGACCAGATACAATTAAACAATGATGAA
* * * * *
1492374 AAGGGTTTGACCAGACACAGTCAAACATTGATGAA
1 AAGAGTTTGACCAGATACAATTAAACAATGATGAA
* * *
1492409 AAGAGTTTGACCTGATACAATTAAATAATGATGGA
1 AAGAGTTTGACCAGATACAATTAAACAATGATGAA
* * *
1492444 AAGAGTTCGACCAAATACAACTAAA
1 AAGAGTTTGACCAGATACAATTAAA
1492469 TAAAGAAAAA
Statistics
Matches: 76, Mismatches: 18, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
34 14 0.18
35 62 0.82
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.22
Consensus pattern (35 bp):
AAGAGTTTGACCAGATACAATTAAACAATGATGAA
Found at i:1494887 original size:22 final size:21
Alignment explanation
Indices: 1494860--1494960 Score: 73
Period size: 21 Copynumber: 4.8 Consensus size: 21
1494850 TGTTTCTTCA
1494860 TTTTCTCATCTTTTTTTTCTTT
1 TTTTCTC-TCTTTTTTTTCTTT
* * *
1494882 TTTTCT-TACTATTTGTAC-TT
1 TTTTCTCT-CTTTTTTTTCTTT
* *
1494902 TTTTCATTTCATTTTTTTCATTT
1 TTTTC-TCTCTTTTTTTTC-TTT
* **
1494925 TTTTCTCT-TTCTTTTTCTCA
1 TTTTCTCTCTTTTTTTTCTTT
1494945 TTTTCTCTCTTTTTTT
1 TTTTCTCTCTTTTTTT
1494961 GTTTTTCTTA
Statistics
Matches: 60, Mismatches: 13, Indels: 13
0.70 0.15 0.15
Matches are distributed among these distances:
20 17 0.28
21 27 0.45
22 9 0.15
23 7 0.12
ACGTcount: A:0.08, C:0.18, G:0.01, T:0.73
Consensus pattern (21 bp):
TTTTCTCTCTTTTTTTTCTTT
Found at i:1494926 original size:23 final size:23
Alignment explanation
Indices: 1494900--1494948 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
1494890 CTATTTGTAC
*
1494900 TTTTTTC-ATTTCATTTTTTTCAT
1 TTTTTTCTATTTC-TTTTTCTCAT
*
1494923 TTTTTTCTCTTTCTTTTTCTCAT
1 TTTTTTCTATTTCTTTTTCTCAT
1494946 TTT
1 TTT
1494949 CTCTCTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTTTCTATTTCTTTTTCTCAT
Found at i:1497589 original size:166 final size:163
Alignment explanation
Indices: 1497397--1497958 Score: 503
Period size: 166 Copynumber: 3.4 Consensus size: 163
1497387 TCTCTCAAGC
* * * * *
1497397 TTTTAA-TTCTAAAATTCCTTAAATATTATCATTTAA-TCACCATTAAA-CTAGTTTTGAAAAAT
1 TTTTAATTTTTAAAATTCATCAAATATTATCATTTAATTCA-CACTAAATC-AATTTTGAAAAAT
* * *
1497459 TCCTTTTATTTT-ATGAGTCATTGATTTTCTTTTAGAATTTTCTCTATTTTTGAAAAACGGAGTT
64 T-CTTTTATTTTCATGAGTCTTTCATTTTCTTTTA-AATTCTCTCTATTTTTGAAAAACGGAGTT
* * * *
1497523 TTTTTCTCCGTAAATATTTTTGGGGAGATTTTTCTTAGT
127 TTCTACTCCGTAAATGTTTTAGGGG-GATTTTTCTT-GT
* * * * *
1497562 TTTTAATTTTTAAAATTCATCAAATATTATCATTTAATTCATACTAGATTAGTTTTCAAAAATTC
1 TTTTAATTTTTAAAATTCATCAAATATTATCATTTAATTCACACTAAATCAATTTTGAAAAATTC
* * *** * *
1497627 ATTCATTTTCATGAG-CTTTTCATTTT-TTCCTTAAAATTCTCT-TATTTCCAAAAAATGAAGTT
66 TTTTATTTTCATGAGTC-TTTCATTTTCTT--TT-AAATTCTCTCTATTTTTGAAAAACGGAGTT
*
1497689 TTCTACTCCGTAAATGTTTTCAGGGGGAATTTTTCTTGG
127 TTCTACTCCGTAAATGTTTT-AGGGGG-ATTTTTCTTGT
* * * * * *
1497728 TTTTATTTTTTAAAATTCATCAAATATTATTATTTAGTTTATACTAAATCAATTTT-AAAAATTA
1 TTTTAATTTTTAAAATTCATCAAATATTATCATTTAATTCACACTAAATCAATTTTGAAAAATTC
* * * * *
1497792 TTTTATTTTCACGAGTGTTTCATATTTTCTTTGAAATCCTC-CTATTTTTGAAAAACTGAGTTTT
66 TTTTATTTTCATGAGTCTTTC--ATTTTCTTTTAAATTCTCTCTATTTTTGAAAAACGGAGTTTT
* *
1497856 CTACTCTGTAAATGTTTTCGGGGGGATTTTTCCTTGGT
129 CTACTCCGTAAATGTTTT-AGGGGGATTTTT-CTT-GT
** * * * * *
1497894 TTAAAATTTTTAAAATTCATCTAATATTGTTATTAAATTCACATTAAATCAATTTTGAAAAATTC
1 TTTTAATTTTTAAAATTCATCAAATATTATCATTTAATTCACACTAAATCAATTTTGAAAAATTC
1497959 AAATAATATC
Statistics
Matches: 322, Mismatches: 57, Indels: 34
0.78 0.14 0.08
Matches are distributed among these distances:
164 6 0.02
165 89 0.28
166 187 0.58
167 37 0.11
168 3 0.01
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.48
Consensus pattern (163 bp):
TTTTAATTTTTAAAATTCATCAAATATTATCATTTAATTCACACTAAATCAATTTTGAAAAATTC
TTTTATTTTCATGAGTCTTTCATTTTCTTTTAAATTCTCTCTATTTTTGAAAAACGGAGTTTTCT
ACTCCGTAAATGTTTTAGGGGGATTTTTCTTGT
Found at i:1497869 original size:165 final size:165
Alignment explanation
Indices: 1497502--1497959 Score: 521
Period size: 166 Copynumber: 2.8 Consensus size: 165
1497492 AGAATTTTCT
* * * * * *
1497502 CTATTTTTGAAAAACGGAGTTTTTTTCTCCGTAAATATTTT-TGGGGAGATTTTTCTTAGTTTTT
1 CTATTTTTGAAAAACTGAGTTTTCTACTCCGTAAATGTTTTCGGGGGA-ATTTTTCTT-GGTTTT
* * * *
1497566 AATTTTTAAAATTCATCAAATATTATCATTTAATTCATACTAGATTAGTTTTCAAAAATTCATTC
64 AATTTTTAAAATTCATCAAATATTATTATTTAATTCATACTAAATCAATTTTCAAAAATTCATTC
* * *
1497631 ATTTTCATGAGCTTTTCATTTTTTCCTTAAAATTCTC
129 ATTTTCACGAGCTTTTCATATTTTCCTTAAAATCCTC
* ** *
1497668 TTA-TTTCCAAAAAATGAAGTTTTCTACTCCGTAAATGTTTTCAGGGGGAATTTTTCTTGGTTTT
1 CTATTTTTGAAAAACTG-AGTTTTCTACTCCGTAAATGTTTTC-GGGGGAATTTTTCTTGGTTTT
* * *
1497732 ATTTTTTAAAATTCATCAAATATTATTATTTAGTTTATACTAAATCAATTTT-AAAAATT-ATTT
64 AATTTTTAAAATTCATCAAATATTATTATTTAATTCATACTAAATCAATTTTCAAAAATTCA-TT
* * *
1497795 TATTTTCACGAG-TGTTTCATATTTTCTTTGAAATCCTC
128 CATTTTCACGAGCT-TTTCATATTTTCCTTAAAATCCTC
* * *
1497833 CTATTTTTGAAAAACTGAGTTTTCTACTCTGTAAATGTTTTCGGGGGGATTTTTCCTTGGTTTAA
1 CTATTTTTGAAAAACTGAGTTTTCTACTCCGTAAATGTTTTCGGGGGAATTTTT-CTTGGTTT-T
* * * * * *
1497898 AATTTTTAAAATTCATCTAATATTGTTATTAAATTCACATTAAATCAATTTTGAAAAATTCA
64 AATTTTTAAAATTCATCAAATATTATTATTTAATTCATACTAAATCAATTTTCAAAAATTCA
1497960 AATAATATCA
Statistics
Matches: 244, Mismatches: 38, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
164 13 0.05
165 82 0.34
166 127 0.52
167 16 0.07
168 6 0.02
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (165 bp):
CTATTTTTGAAAAACTGAGTTTTCTACTCCGTAAATGTTTTCGGGGGAATTTTTCTTGGTTTTAA
TTTTTAAAATTCATCAAATATTATTATTTAATTCATACTAAATCAATTTTCAAAAATTCATTCAT
TTTCACGAGCTTTTCATATTTTCCTTAAAATCCTC
Found at i:1503131 original size:11 final size:11
Alignment explanation
Indices: 1503115--1503149 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
1503105 ATGGAATTTC
1503115 AAAAAAACAAA
1 AAAAAAACAAA
1503126 AAAAAAACAAA
1 AAAAAAACAAA
*
1503137 AAACAAAAGAAA
1 AAA-AAAACAAA
1503149 A
1 A
1503150 TCAAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.64
12 8 0.36
ACGTcount: A:0.89, C:0.09, G:0.03, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:1503139 original size:18 final size:18
Alignment explanation
Indices: 1503116--1503156 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
1503106 TGGAATTTCA
1503116 AAAAAACAAAAAAAAAAC
1 AAAAAACAAAAAAAAAAC
* *
1503134 AAAAAACAAAAGAAAATC
1 AAAAAACAAAAAAAAAAC
1503152 AAAAA
1 AAAAA
1503157 TTTAGTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.85, C:0.10, G:0.02, T:0.02
Consensus pattern (18 bp):
AAAAAACAAAAAAAAAAC
Found at i:1503503 original size:10 final size:10
Alignment explanation
Indices: 1503488--1503526 Score: 64
Period size: 9 Copynumber: 4.1 Consensus size: 10
1503478 AAAATAAATT
1503488 AGAGAAAAAA
1 AGAGAAAAAA
1503498 AGAGAAAAAA
1 AGAGAAAAAA
1503508 AG-GAAAAAA
1 AGAGAAAAAA
1503517 A-AGAAAAAA
1 AGAGAAAAAA
1503526 A
1 A
1503527 CCAGGAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 16 0.57
10 12 0.43
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
AGAGAAAAAA
Found at i:1503869 original size:19 final size:21
Alignment explanation
Indices: 1503828--1503872 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1503818 CAGCATGATG
1503828 AAAT-AAAAAAAAGAAGAAGA
1 AAATGAAAAAAAAGAAGAAGA
*
1503848 AAATGAAAAAATAGAA-AA-A
1 AAATGAAAAAAAAGAAGAAGA
1503867 AAATGA
1 AAATGA
1503873 GGCTCTAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 7 0.30
20 6 0.26
21 10 0.43
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (21 bp):
AAATGAAAAAAAAGAAGAAGA
Found at i:1505803 original size:34 final size:34
Alignment explanation
Indices: 1505762--1505861 Score: 128
Period size: 34 Copynumber: 2.9 Consensus size: 34
1505752 ACCCTACAAT
* * *
1505762 ACTATCTTTTCAAAGGCTAAGATAGAACCTTTTC
1 ACTATCTTTTCGAAGGCTAAGATAGAACCTCTAC
* *
1505796 CCTATCTTTTTGAAGGCTAAGATAGAACCTCTAC
1 ACTATCTTTTCGAAGGCTAAGATAGAACCTCTAC
* * *
1505830 ACTATATTTTCGAAGACTAAGACAGAACCTCT
1 ACTATCTTTTCGAAGGCTAAGATAGAACCTCT
1505862 CAATCACTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (34 bp):
ACTATCTTTTCGAAGGCTAAGATAGAACCTCTAC
Found at i:1506342 original size:21 final size:21
Alignment explanation
Indices: 1506289--1506348 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
1506279 CCATCGGACT
*
1506289 AATTGTATCGATACAATTATAG
1 AATTGTATCGATAC-ATTCTAG
*
1506311 -A-TGTATTGATACATTCTAG
1 AATTGTATCGATACATTCTAG
1506330 AATTGTATCGATACATTCT
1 AATTGTATCGATACATTCT
1506349 TATATGTGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 6 0.18
20 11 0.33
21 16 0.48
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (21 bp):
AATTGTATCGATACATTCTAG
Found at i:1509349 original size:17 final size:17
Alignment explanation
Indices: 1509327--1509360 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1509317 TGGTTTTTAC
* *
1509327 CAAAAATTTGATCAAAA
1 CAAAAATATGAACAAAA
1509344 CAAAAATATGAACAAAA
1 CAAAAATATGAACAAAA
1509361 TTTCATAAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.12, G:0.06, T:0.18
Consensus pattern (17 bp):
CAAAAATATGAACAAAA
Found at i:1511360 original size:34 final size:34
Alignment explanation
Indices: 1511317--1511381 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
1511307 AACCTTTTCC
* * *
1511317 CTATTTTTTCAAAGGCTAAGGTAGAACCTCTACA
1 CTATCTTTTCAAAGGCTAAGATAAAACCTCTACA
*
1511351 CTATCTTTTCGAAGGCTAAGATAAAACCTCT
1 CTATCTTTTCAAAGGCTAAGATAAAACCTCT
1511382 CAATCACTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (34 bp):
CTATCTTTTCAAAGGCTAAGATAAAACCTCTACA
Found at i:1512558 original size:22 final size:22
Alignment explanation
Indices: 1512523--1512577 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
1512513 GGCTATAATT
1512523 TCACTGTTTC-TGTATCAATACA
1 TCACTG-TTCATGTATCAATACA
* *
1512545 TTACTGTTCATGTATCGATACA
1 TCACTGTTCATGTATCAATACA
1512567 TCACTGTTCAT
1 TCACTGTTCAT
1512578 CACTATACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 3 0.10
22 26 0.90
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.42
Consensus pattern (22 bp):
TCACTGTTCATGTATCAATACA
Found at i:1514698 original size:21 final size:21
Alignment explanation
Indices: 1514674--1514730 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
1514664 GAATTAAAAG
*
1514674 AGAAAATGAATGAGTTGGAAA
1 AGAAAATGAATGAGTTGCAAA
1514695 AGAAAA-GAAATGAGTTGCAAA
1 AGAAAATG-AATGAGTTGCAAA
1514716 ATGAAAATG-ATGAGT
1 A-GAAAATGAATGAGT
1514731 CGGCTAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 1 0.03
21 25 0.78
22 5 0.16
23 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.26, T:0.19
Consensus pattern (21 bp):
AGAAAATGAATGAGTTGCAAA
Found at i:1516226 original size:13 final size:13
Alignment explanation
Indices: 1516193--1516228 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1516183 AAAGTTATAC
* *
1516193 CGATACACTATAT
1 CGATACATTGTAT
1516206 CGATACATTGTAT
1 CGATACATTGTAT
1516219 CGATACATTG
1 CGATACATTG
1516229 CTTTGGTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:1517903 original size:22 final size:22
Alignment explanation
Indices: 1517878--1517926 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
1517868 TTCATCATTG
1517878 TTCATGTATCGATACATCACTA
1 TTCATGTATCGATACATCACTA
* *
1517900 TTCATGTATCGATACATGACTC
1 TTCATGTATCGATACATCACTA
1517922 TTCAT
1 TTCAT
1517927 CACTATACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (22 bp):
TTCATGTATCGATACATCACTA
Found at i:1517979 original size:63 final size:63
Alignment explanation
Indices: 1517900--1518020 Score: 170
Period size: 63 Copynumber: 1.9 Consensus size: 63
1517890 TACATCACTA
* * * *
1517900 TTCATGTATCGATACATGACTCTTCATCACTATACATTAATCCTAATGGCTATAATTTTACTG
1 TTCATGTATCGATACATCACTCTTCATCACTATACATTAAGCCCAACGGCTATAATTTTACTG
* * * *
1517963 TTCATGTATCGGTACATCACTGTTTATCACTATGCATTAAGCCCAACGGCTATAATTT
1 TTCATGTATCGATACATCACTCTTCATCACTATACATTAAGCCCAACGGCTATAATTT
1518021 CAAATGCATT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 50 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (63 bp):
TTCATGTATCGATACATCACTCTTCATCACTATACATTAAGCCCAACGGCTATAATTTTACTG
Found at i:1519278 original size:13 final size:13
Alignment explanation
Indices: 1519260--1519284 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1519250 TGTCAGTTTT
1519260 ATGTATCGATACA
1 ATGTATCGATACA
1519273 ATGTATCGATAC
1 ATGTATCGATAC
1519285 TAAGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1521754 original size:23 final size:24
Alignment explanation
Indices: 1521710--1521756 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
1521700 CAAAAGATTG
1521710 AACACAAATTCAATTAAGAACAAA
1 AACACAAATTCAATTAAGAACAAA
1521734 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
1521757 TTTTCAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.64, C:0.17, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:1522566 original size:21 final size:21
Alignment explanation
Indices: 1522527--1522584 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
1522517 TTTATTAGTT
* *
1522527 AACTCA-TGATTTTCATTTTGC
1 AACTCATTCATTTTC-TTTTCC
1522548 AACTCATTTC-TTTTCTTTTCC
1 AACTCA-TTCATTTTCTTTTCC
1522569 AACTCATTCATTTTCT
1 AACTCATTCATTTTCT
1522585 CTTCTAGTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 3 0.09
21 23 0.72
22 5 0.16
23 1 0.03
ACGTcount: A:0.21, C:0.24, G:0.03, T:0.52
Consensus pattern (21 bp):
AACTCATTCATTTTCTTTTCC
Found at i:1525296 original size:26 final size:25
Alignment explanation
Indices: 1525237--1525298 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
1525227 TGGAGGTTAC
* *
1525237 GGAGCTGCTAGAGTGCCTGTAGGCT
1 GGAGCTGCTGGAGTGCCTGAAGGCT
*
1525262 GGAAACTGCTGGAGTG-CTCGAAGGCT
1 GG-AGCTGCTGGAGTGCCT-GAAGGCT
1525288 AGGAGCTGCTG
1 -GGAGCTGCTG
1525299 CTACTGTTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
25 4 0.13
26 24 0.80
27 2 0.07
ACGTcount: A:0.19, C:0.19, G:0.40, T:0.21
Consensus pattern (25 bp):
GGAGCTGCTGGAGTGCCTGAAGGCT
Found at i:1525584 original size:46 final size:46
Alignment explanation
Indices: 1525494--1525737 Score: 287
Period size: 46 Copynumber: 5.3 Consensus size: 46
1525484 GGCTGGGAGC
* * * *
1525494 TGCTGGAAGCTATCTTTTGATCGTGGA-TGGAAGGTTGCTGGAATGGA
1 TGCTGGAAGCTA-CTTCTGATCATGGATTGG-AGGCTGCTAGAATGGA
1525541 TGCTGGAAGCTACTTCTGATCATGGATTGGAGGCTGCTAGAATGGA
1 TGCTGGAAGCTACTTCTGATCATGGATTGGAGGCTGCTAGAATGGA
* * * * *
1525587 TGCTGGAAGTTGCTACTAATCATGGATTGGAGGCTGATAGAATGGA
1 TGCTGGAAGCTACTTCTGATCATGGATTGGAGGCTGCTAGAATGGA
*
1525633 TGCTGGAAGCTATCCTT-TGATCATGGATGGGAGGCTG-TCAGAATGGA
1 TGCTGGAAGCTA--CTTCTGATCATGGATTGGAGGCTGCT-AGAATGGA
* * * *
1525680 TGCTGGAAGCTGCTTCTAATCATGGATTGGAGGCTGTTGGAATGGA
1 TGCTGGAAGCTACTTCTGATCATGGATTGGAGGCTGCTAGAATGGA
*
1525726 TGCTAGAAGCTA
1 TGCTGGAAGCTA
1525738 TCCTTGCTGA
Statistics
Matches: 171, Mismatches: 20, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
45 3 0.02
46 113 0.66
47 53 0.31
48 2 0.01
ACGTcount: A:0.24, C:0.13, G:0.34, T:0.29
Consensus pattern (46 bp):
TGCTGGAAGCTACTTCTGATCATGGATTGGAGGCTGCTAGAATGGA
Found at i:1525587 original size:20 final size:20
Alignment explanation
Indices: 1525562--1525633 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 20
1525552 ACTTCTGATC
1525562 ATGGATTGGAGGCTGCTAGA
1 ATGGATTGGAGGCTGCTAGA
*
1525582 ATGGATGCTGGAAGTTGCTACTA-A
1 ATGGAT--TGG-AG--GCTGCTAGA
*
1525606 TCATGGATTGGAGGCTGATAGA
1 --ATGGATTGGAGGCTGCTAGA
1525628 ATGGAT
1 ATGGAT
1525634 GCTGGAAGCT
Statistics
Matches: 41, Mismatches: 3, Indels: 16
0.68 0.05 0.27
Matches are distributed among these distances:
20 12 0.29
21 5 0.12
22 4 0.10
23 4 0.10
24 4 0.10
25 6 0.15
26 6 0.15
ACGTcount: A:0.28, C:0.10, G:0.35, T:0.28
Consensus pattern (20 bp):
ATGGATTGGAGGCTGCTAGA
Found at i:1525666 original size:93 final size:94
Alignment explanation
Indices: 1525534--1525747 Score: 328
Period size: 93 Copynumber: 2.3 Consensus size: 94
1525524 AAGGTTGCTG
*
1525534 GAATGGATGCTGGAAGCTA--CTTCTGATCATGGATTGGAGGCTG-CTAGAATGGATGCTGGAAG
1 GAATGGATGCTGGAAGCTATCCTTCTGATCATGGATGGGAGGCTGTC-AGAATGGATGCTGGAAG
*
1525596 TTGCTACTAATCATGGATTGGAGGCTGATA
65 CTGCTACTAATCATGGATTGGAGGCTGATA
1525626 GAATGGATGCTGGAAGCTATCCTT-TGATCATGGATGGGAGGCTGTCAGAATGGATGCTGGAAGC
1 GAATGGATGCTGGAAGCTATCCTTCTGATCATGGATGGGAGGCTGTCAGAATGGATGCTGGAAGC
* * *
1525690 TGCTTCTAATCATGGATTGGAGGCTGTTG
66 TGCTACTAATCATGGATTGGAGGCTGATA
*
1525719 GAATGGATGCTAGAAGCTATCCTTGCTGA
1 GAATGGATGCTGGAAGCTATCCTT-CTGA
1525748 AGTGGATGCT
Statistics
Matches: 111, Mismatches: 6, Indels: 7
0.90 0.05 0.06
Matches are distributed among these distances:
92 19 0.17
93 85 0.77
94 4 0.04
95 3 0.03
ACGTcount: A:0.25, C:0.14, G:0.33, T:0.29
Consensus pattern (94 bp):
GAATGGATGCTGGAAGCTATCCTTCTGATCATGGATGGGAGGCTGTCAGAATGGATGCTGGAAGC
TGCTACTAATCATGGATTGGAGGCTGATA
Found at i:1525797 original size:74 final size:74
Alignment explanation
Indices: 1525676--1525820 Score: 245
Period size: 74 Copynumber: 2.0 Consensus size: 74
1525666 GCTGTCAGAA
* *
1525676 TGGATGCTGGAAGCTGCTTCTAATCATGGATTGGAGGCTGTTGGAATGGATGCTAGAAGCTATCC
1 TGGATGCTGGAAGCTGCTTCTAATCATGGATTCGAGGCTCTTGGAATGGATGCTAGAAGCTATCC
1525741 TTGCTGAAG
66 TTGCTGAAG
* * *
1525750 TGGATGCTGGAAGCTGCTTCTGATCGTGGATTCGAGGCTCTTGGAATGGATGCTGGAAGCTATCC
1 TGGATGCTGGAAGCTGCTTCTAATCATGGATTCGAGGCTCTTGGAATGGATGCTAGAAGCTATCC
1525815 TTGCTG
66 TTGCTG
1525821 GAGTAGATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 66 1.00
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (74 bp):
TGGATGCTGGAAGCTGCTTCTAATCATGGATTCGAGGCTCTTGGAATGGATGCTAGAAGCTATCC
TTGCTGAAG
Found at i:1525901 original size:35 final size:35
Alignment explanation
Indices: 1525862--1525930 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
1525852 TGGGAGCTAC
* * *
1525862 TGGAAGCTATCCTTTGATCGTGGATGGGAGGCTGT
1 TGGAAGCTATACTTTGATCGTGGATCGAAGGCTGT
* *
1525897 TGGAAGCTATATTTTGATTGTGGATCGAAGGCTG
1 TGGAAGCTATACTTTGATCGTGGATCGAAGGCTG
1525931 CTAGAATGGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.20, C:0.12, G:0.35, T:0.33
Consensus pattern (35 bp):
TGGAAGCTATACTTTGATCGTGGATCGAAGGCTGT
Found at i:1526562 original size:20 final size:20
Alignment explanation
Indices: 1526537--1526578 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
1526527 CATGATTTTT
1526537 TTTACTTTTATTTTTATTTG
1 TTTACTTTTATTTTTATTTG
1526557 TTTACTTTTATTTTTATTTG
1 TTTACTTTTATTTTTATTTG
1526577 TT
1 TT
1526579 AATTTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTACTTTTATTTTTATTTG
Found at i:1526585 original size:20 final size:20
Alignment explanation
Indices: 1526540--1526590 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
1526530 GATTTTTTTT
*
1526540 ACTTTTATTTTTATTTGTTT
1 ACTTTTATTTTTATTTGTTA
1526560 ACTTTTATTTTTATTTGTTA
1 ACTTTTATTTTTATTTGTTA
*
1526580 ATTTTTGATTT
1 ACTTTT-ATTT
1526591 CTACTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 24 0.86
21 4 0.14
ACGTcount: A:0.18, C:0.04, G:0.06, T:0.73
Consensus pattern (20 bp):
ACTTTTATTTTTATTTGTTA
Found at i:1527194 original size:42 final size:42
Alignment explanation
Indices: 1527106--1527901 Score: 777
Period size: 42 Copynumber: 18.9 Consensus size: 42
1527096 TCTTCAGGGA
* * *
1527106 CAAAGCCGATAGGCAGATTGAGGGATAGAAAAGTCTCCAAGGT
1 CAAAGCCGACAGGCAGACTGAGGGAAAG-AAAGTCTCCAAGGT
* * * * *
1527149 CAAAGCCAATAAGCAGACTGAGGGTAGGAAAGTCTCCAAGGT
1 CAAAGCCGACAGGCAGACTGAGGGAAAGAAAGTCTCCAAGGT
* * * *
1527191 CAAAACCGACAGGCAGACCGAGGG-AAGAAAAATCTCCAGGGT
1 CAAAGCCGACAGGCAGACTGAGGGAAAG-AAAGTCTCCAAGGT
*
1527233 CAAAGTCGACAGGCAGACTGAGGGAAAGAAAGTCTCCAAGGT
1 CAAAGCCGACAGGCAGACTGAGGGAAAGAAAGTCTCCAAGGT
* * * * * * *
1527275 CAAAGCTGATAGGTAAACTAAGGGTAAGAAAGTCTCCAGGGT
1 CAAAGCCGACAGGCAGACTGAGGGAAAGAAAGTCTCCAAGGT
* * * * * *
1527317 CAAAGCTGACAGGCAAACTGAGGGTAGGAAAGTCTCTAGGGT
1 CAAAGCCGACAGGCAGACTGAGGGAAAGAAAGTCTCCAAGGT
* * * * * *
1527359 CAAAGCTGACAAGTAGACTGAGGGTAGGAAAGTCTCCAGGGT
1 CAAAGCCGACAGGCAGACTGAGGGAAAGAAAGTCTCCAAGGT
* * * * *
1527401 CAAAACCAATAGGCAAACTGAGGGAAAGCAAGTCTCCAAGGT
1 CAAAGCCGACAGGCAGACTGAGGGAAAGAAAGTCTCCAAGGT
* * * * *
1527443 TAAAGCTGACATGCAGACTAAGGGAAGGAAAGTCTCCAAGGT
1 CAAAGCCGACAGGCAGACTGAGGGAAAGAAAGTCTCCAAGGT
** * * *
1527485 CAAAGTTGACAGGCAAATTGAGGGAAAGAAAGTCTCCACGGT
1 CAAAGCCGACAGGCAGACTGAGGGAAAGAAAGTCTCCAAGGT
* * * * * * * * *
1527527 GAAAGCTGACAGGTAAACTAAGCGTAGGAAAGTCTCCAGGGT
1 CAAAGCCGACAGGCAGACTGAGGGAAAGAAAGTCTCCAAGGT
* * * * * *
1527569 TAAAGCTGATAGGCAAACTAAGGGAAAGCAAGTCTCCAAGGT
1 CAAAGCCGACAGGCAGACTGAGGGAAAGAAAGTCTCCAAGGT
** *
1527611 CAAAGTTGACAGGCAGACTAAGGGAATA-AAAGTCTCCAAGGT
1 CAAAGCCGACAGGCAGACTGAGGGAA-AGAAAGTCTCCAAGGT
* * * *
1527653 CAAAGCCAACAGGTAGATTAAGGGAAAGAAAGTCTCCAAGGT
1 CAAAGCCGACAGGCAGACTGAGGGAAAGAAAGTCTCCAAGGT
* *
1527695 CAAAGCCGATAGGCAGACTGAGGGTAAGAAAGTCTCCAAGGT
1 CAAAGCCGACAGGCAGACTGAGGGAAAGAAAGTCTCCAAGGT
* * * * *
1527737 CAAAGCCAATAGGCAGACTAAGGGAAAGCAAGTCTCCAGGGT
1 CAAAGCCGACAGGCAGACTGAGGGAAAGAAAGTCTCCAAGGT
* *
1527779 CAAAGCTGACAGGCAGACTGAGGGAAAGAAAGTCTCCAGGGT
1 CAAAGCCGACAGGCAGACTGAGGGAAAGAAAGTCTCCAAGGT
* *
1527821 CAAAGCCGATAGGCAGACTGAGGGAAAGAAAGTCTCTAAGGT
1 CAAAGCCGACAGGCAGACTGAGGGAAAGAAAGTCTCCAAGGT
* * * * * *
1527863 CAAAGCCAATAGGCAAACTAAGGGAAGGAAAGTGTCCAA
1 CAAAGCCGACAGGCAGACTGAGGGAAAGAAAGTCTCCAA
1527902 AAGTTTAATG
Statistics
Matches: 631, Mismatches: 118, Indels: 9
0.83 0.16 0.01
Matches are distributed among these distances:
41 3 0.00
42 602 0.95
43 26 0.04
ACGTcount: A:0.38, C:0.18, G:0.29, T:0.14
Consensus pattern (42 bp):
CAAAGCCGACAGGCAGACTGAGGGAAAGAAAGTCTCCAAGGT
Found at i:1534159 original size:19 final size:18
Alignment explanation
Indices: 1534135--1534197 Score: 55
Period size: 19 Copynumber: 3.7 Consensus size: 18
1534125 CTTAACTATT
1534135 TGTATCGATACACACAAGA
1 TGTATCGATACACACAA-A
*
1534154 TGTATCAATACA-AC---
1 TGTATCGATACACACAAA
*
1534168 -GTATCGATACACCCAAAA
1 TGTATCGATACACAC-AAA
1534186 TGTATCGATACA
1 TGTATCGATACA
1534198 TTGGCTTGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
13 10 0.29
14 1 0.03
18 2 0.06
19 22 0.63
ACGTcount: A:0.41, C:0.22, G:0.13, T:0.24
Consensus pattern (18 bp):
TGTATCGATACACACAAA
Found at i:1534177 original size:32 final size:32
Alignment explanation
Indices: 1534136--1534197 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
1534126 TTAACTATTT
*
1534136 GTATCGATACACACAAGATGTATCAATACAAC
1 GTATCGATACACACAAAATGTATCAATACAAC
* *
1534168 GTATCGATACACCCAAAATGTATCGATACA
1 GTATCGATACACACAAAATGTATCAATACA
1534198 TTGGCTTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.42, C:0.23, G:0.13, T:0.23
Consensus pattern (32 bp):
GTATCGATACACACAAAATGTATCAATACAAC
Found at i:1539860 original size:21 final size:21
Alignment explanation
Indices: 1539827--1539871 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1539817 TTGCAAGTTG
*
1539827 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1539849 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1539869 AAA
1 AAA
1539872 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1543800 original size:13 final size:13
Alignment explanation
Indices: 1543782--1543807 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1543772 ACATTTTTCT
1543782 TTGTATCGATACA
1 TTGTATCGATACA
1543795 TTGTATCGATACA
1 TTGTATCGATACA
1543808 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1550030 original size:8 final size:8
Alignment explanation
Indices: 1550017--1550042 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
1550007 ATTTGATTAA
1550017 ATTTTGTG
1 ATTTTGTG
1550025 ATTTTGTG
1 ATTTTGTG
1550033 ATTTTGTG
1 ATTTTGTG
1550041 AT
1 AT
1550043 GAATGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:1550263 original size:13 final size:13
Alignment explanation
Indices: 1550245--1550282 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1550235 CAGCATTCTC
*
1550245 TGTATCGATACAT
1 TGTATCGATACAG
1550258 TGTATCGATACAG
1 TGTATCGATACAG
1550271 TGTATCGATACA
1 TGTATCGATACA
1550283 AAGGGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1552881 original size:13 final size:13
Alignment explanation
Indices: 1552863--1552888 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1552853 TGCACACAAG
1552863 ATGTATCGATACA
1 ATGTATCGATACA
1552876 ATGTATCGATACA
1 ATGTATCGATACA
1552889 TCCCAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1553817 original size:19 final size:21
Alignment explanation
Indices: 1553774--1553823 Score: 77
Period size: 19 Copynumber: 2.5 Consensus size: 21
1553764 TTCAATAATT
*
1553774 TGTATCGATACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
1553795 TGTATCGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
1553814 TGTATCGATA
1 TGTATCGATA
1553824 TAGTGTATCG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 12 0.43
20 4 0.14
21 12 0.43
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:1556406 original size:79 final size:79
Alignment explanation
Indices: 1556260--1556557 Score: 329
Period size: 79 Copynumber: 3.8 Consensus size: 79
1556250 TTTTCATCTC
* * * ** * * *
1556260 GGGGATACTCCAGCCCCGATTCCATTTCCAAAACATCAATTT-T--TCATCGGGGATACTCTAAC
1 GGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAAC
1556322 CCCGTTATTTCTGA
66 CCCGTTATTTCTGA
* * * * *
1556336 AGGGATACTCCAACCTCGGCTTTATTTCTAAAATATTAATTTCTCATAATCGGGAATACTCCAAC
1 GGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAAC
*
1556401 CCCGTTATTTTTGA
66 CCCGTTATTTCTGA
* * * *
1556415 GGGGATACTCCAACGC-CAGTTTTATTTCTAAAGCATCAATTTTTCATAATCGGGGATACTCCCA
1 GGGGATACTCCAAC-CTCGGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAA
* *
1556479 TCCCGTTATTTCCGA
65 CCCCGTTATTTCTGA
* * *
1556494 GGGGATACTCCAACCTCGATTTTATTTCTAAAACACCAA-TTCTCCACAATC-GGGATACTCCAA
1 GGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTCT-CATAATCGGGGATACTCCAA
1556557 C
65 C
1556558 TCCGATTTTA
Statistics
Matches: 182, Mismatches: 34, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
76 32 0.18
77 1 0.01
78 15 0.08
79 133 0.73
80 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAAC
CCCGTTATTTCTGA
Found at i:1556570 original size:50 final size:51
Alignment explanation
Indices: 1556494--1556609 Score: 157
Period size: 50 Copynumber: 2.3 Consensus size: 51
1556484 TTATTTCCGA
*
1556494 GGGGATACTCCAACCTCGATTTTATTTCTAAAACACCAA-TTCTCCACAATC
1 GGGGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTCT-CACAATC
* **
1556545 -GGGATACTCCAA-CTCCGATTTTATTTCCACAACACTGATTTCTCACAATC
1 GGGGATACTCCAACCT-CGATTTTATTTCCAAAACACCAATTTCTCACAATC
1556595 GGGGATACTCCAACC
1 GGGGATACTCCAACC
1556610 CCGTTATTTC
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
49 2 0.04
50 38 0.67
51 16 0.28
52 1 0.02
ACGTcount: A:0.29, C:0.30, G:0.12, T:0.28
Consensus pattern (51 bp):
GGGGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTCTCACAATC
Found at i:1556680 original size:51 final size:51
Alignment explanation
Indices: 1556620--1556741 Score: 172
Period size: 51 Copynumber: 2.4 Consensus size: 51
1556610 CCGTTATTTC
* **
1556620 ATCGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCACA
1 ATCGGGGATACTCCAACCCCGACCGTATTTCCAAAATATTGATTTCTCACA
* * * *
1556671 ATCGGGGATACTTCAACCCTGACCGTATTTCTAAAATATTGATTTCTCATA
1 ATCGGGGATACTCCAACCCCGACCGTATTTCCAAAATATTGATTTCTCACA
*
1556722 ATCGGGGACACTCCAACCCC
1 ATCGGGGATACTCCAACCCC
1556742 ATTATTTTCA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (51 bp):
ATCGGGGATACTCCAACCCCGACCGTATTTCCAAAATATTGATTTCTCACA
Found at i:1556837 original size:130 final size:129
Alignment explanation
Indices: 1556453--1556840 Score: 376
Period size: 130 Copynumber: 3.0 Consensus size: 129
1556443 TAAAGCATCA
* * * *
1556453 ATTTTTCATAATCGGGGATACTCCCATCCCGTTATTTCCGA-GGGGATACTCCAACCTCGATTT-
1 ATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTTC-ACGGGGATACTCCAACC-CGATTTA
* * * * *
1556516 TATTTCTAAAACACCAATTCTCCACAATC-GGGATACTCCAACTCCGATT-TTATTTCCACAACA
64 T-TTTC-AAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGATTGTTATTTCCAAAATA
*
1556579 CTG
127 TTG
* *
1556582 ATTTCTCACAATCGGGGATACTCCAACCCCGTTA-TTTCATCGGGGATACTCCAACCCCGGCTTT
1 ATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTTCA-CGGGGATACTCCAA-CCC-GATTT
* * *** * * * ** *
1556646 ATTTCCAAAATATTGATTTCTCACAATCGGGGATACTTCAACCCTGACCG-TATTTCTAAAATAT
63 ATTTTCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGATTGTTATTTCCAAAATAT
1556710 TG
128 TG
* * * *
1556712 ATTTCTCATAATCGGGGACACTCCAACCCCATTATTTTCACGGGGATACCCCAATCCCGATTAAA
1 ATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTTCACGGGGATACTCCAA-CCCGATT-TA
* * *
1556777 TTTTCAGAACACCAATTTTTCATAATCGGGGATACTCCAACCCCG-TTGTTATCTCCAAAATATT
64 TTTTCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGATTGTTATTTCCAAAATATT
1556841 AAATTTTTCA
Statistics
Matches: 205, Mismatches: 44, Indels: 19
0.76 0.16 0.07
Matches are distributed among these distances:
127 1 0.00
128 3 0.01
129 63 0.31
130 132 0.64
131 6 0.03
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (129 bp):
ATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTTCACGGGGATACTCCAACCCGATTTATT
TTCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGATTGTTATTTCCAAAATATTG
Found at i:1559927 original size:22 final size:23
Alignment explanation
Indices: 1559902--1559946 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
1559892 ATTCTTAATA
*
1559902 ATTAAGCAAATATTG-ATGAATG
1 ATTAAGAAAATATTGAATGAATG
* *
1559924 ATTATGAAAATGTTGAATGAATG
1 ATTAAGAAAATATTGAATGAATG
1559947 CCAAGAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.44, C:0.02, G:0.20, T:0.33
Consensus pattern (23 bp):
ATTAAGAAAATATTGAATGAATG
Found at i:1564099 original size:13 final size:13
Alignment explanation
Indices: 1564081--1564105 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1564071 CATGCTGCTT
1564081 TGTATCGATACAA
1 TGTATCGATACAA
1564094 TGTATCGATACA
1 TGTATCGATACA
1564106 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1564121 original size:32 final size:33
Alignment explanation
Indices: 1564060--1564124 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
1564050 ACACACCCAG
*
1564060 ATGTATCAATACATGCTGCTTTGTATCGATACA
1 ATGTATCAATACATGCTGCATTGTATCGATACA
* *
1564093 ATGTATCGATACATG-TTCATTGTATCGATACA
1 ATGTATCAATACATGCTGCATTGTATCGATACA
1564125 TGAAACTGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (33 bp):
ATGTATCAATACATGCTGCATTGTATCGATACA
Found at i:1572768 original size:19 final size:20
Alignment explanation
Indices: 1572725--1572775 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
1572715 ACACACCAGA
*
1572725 TGTATCGATACATGCTGCTT
1 TGTATCGATACATGCTGCAT
*
1572745 TGTATCGATACATG-TTCAT
1 TGTATCGATACATGCTGCAT
1572764 TGTATCGATACA
1 TGTATCGATACA
1572776 AGGACCAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATGCTGCAT
Found at i:1572864 original size:13 final size:13
Alignment explanation
Indices: 1572843--1572873 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1572833 CGATACATGG
*
1572843 TACAATGTATCGA
1 TACATTGTATCGA
1572856 TACATTGTATCGA
1 TACATTGTATCGA
1572869 TACAT
1 TACAT
1572874 GAAAAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1572872 original size:33 final size:33
Alignment explanation
Indices: 1572830--1572893 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
1572820 TCACTATTTA
** *
1572830 TATCGATACATGGTACAATGTATCGATACATTG
1 TATCGATACATGAAAAAATGTATCGATACATTG
1572863 TATCGATACATGAAAAAATGTATCGATACAT
1 TATCGATACATGAAAAAATGTATCGATACAT
1572894 AGCTTGTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (33 bp):
TATCGATACATGAAAAAATGTATCGATACATTG
Found at i:1573155 original size:18 final size:19
Alignment explanation
Indices: 1573128--1573167 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
1573118 AAATCAAAGC
1573128 TTTCAAATTTCAAAGAG-T
1 TTTCAAATTTCAAAGAGCT
* *
1573146 TTTCACATTTCCAAGAGCT
1 TTTCAAATTTCAAAGAGCT
1573165 TTT
1 TTT
1573168 GTTATAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (19 bp):
TTTCAAATTTCAAAGAGCT
Found at i:1575073 original size:26 final size:26
Alignment explanation
Indices: 1575044--1575093 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
1575034 GCAGAGCTGT
*
1575044 TGGAGTGCCCGTAGGCTAGGAGCTAC
1 TGGAGTGCCCGAAGGCTAGGAGCTAC
* *
1575070 TGGAGTGCTCGAAGGCTGGGAGCT
1 TGGAGTGCCCGAAGGCTAGGAGCT
1575094 GCTGCAGCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.18, C:0.20, G:0.42, T:0.20
Consensus pattern (26 bp):
TGGAGTGCCCGAAGGCTAGGAGCTAC
Found at i:1579174 original size:19 final size:19
Alignment explanation
Indices: 1579129--1579185 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1579119 CTGCCAGTTT
**
1579129 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA--TGAA
1579150 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1579169 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1579186 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 19 0.56
21 15 0.44
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1579188 original size:13 final size:13
Alignment explanation
Indices: 1579170--1579196 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1579160 TACAATGAAC
1579170 ATGTATCGATACA
1 ATGTATCGATACA
1579183 ATGTATCGATACA
1 ATGTATCGATACA
1579196 A
1 A
1579197 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1579211 original size:33 final size:32
Alignment explanation
Indices: 1579151--1579215 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
1579141 CAATTTGTCC
*
1579151 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
1579183 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
1579216 TCTGGATGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:1584908 original size:22 final size:23
Alignment explanation
Indices: 1584880--1584935 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
1584870 TGGACATGTT
1584880 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
1584902 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
1584925 AAAAATGCATG
1 AAAAATGCATG
1584936 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:1585893 original size:20 final size:20
Alignment explanation
Indices: 1585846--1585920 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
1585836 AAAAAGACAT
*
1585846 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
1585865 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
1585886 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
1585906 AATGTATCGATACAT
1 AATGTATCGATACAT
1585921 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:1585914 original size:40 final size:39
Alignment explanation
Indices: 1585843--1585920 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1585833 GGTAAAAAGA
* *
1585843 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1585882 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1585921 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1586497 original size:32 final size:32
Alignment explanation
Indices: 1586448--1587561 Score: 1942
Period size: 32 Copynumber: 34.8 Consensus size: 32
1586438 AAAATGGTGA
* * **
1586448 TTTGAAAAGGGTTGCCACTGACTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1586480 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
**
1586512 TTTGAAATGAATTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1586544 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1586576 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1586608 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1586640 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1586672 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1586704 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1586736 TTTGGAATGGGTTGCCACCAACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1586768 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1586800 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1586832 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1586864 TTTGCAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1586896 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1586928 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1586960 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1586992 TTTGAAATGGGTTGCCACCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1587024 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1587056 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1587088 TTTGGAATGGGTTGCCACCGACTGGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1587120 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1587152 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1587184 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1587216 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1587248 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1587280 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1587312 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1587344 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1587376 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1587408 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1587440 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1587472 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1587504 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1587536 TTTGAAATGGG-TGCCACGGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
1587562 GATTTAAAAG
Statistics
Matches: 1045, Mismatches: 37, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
31 13 0.01
32 1032 0.99
ACGTcount: A:0.15, C:0.19, G:0.35, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:1587586 original size:27 final size:27
Alignment explanation
Indices: 1587544--1588199 Score: 965
Period size: 27 Copynumber: 24.0 Consensus size: 27
1587534 GCTTTGAAAT
*
1587544 GGGTGCCACGGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * **
1587571 GGATGGCACTTAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1587598 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1587625 GGGTGCCACAGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1587652 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
1587680 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1587707 GAGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1587734 AGGTGCTACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1587761 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1587788 GGGTGCCACGGAGTTGTAGACATAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1587815 GAGATGCCACGGAGTTGTGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
1587843 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1587870 GGGTGCCACGGAGTTGTGGACTTAAAGA
1 GGGTGCCACGGAGTTGTGGACTTAAA-A
1587898 GGGTGCC-CTGGAGTTGTGGACTTTAAAA
1 GGGTGCCAC-GGAGTTGTGGAC-TTAAAA
* * *
1587926 GAGCGCTACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1587953 GGGTGCCACGGAGTTGTGGACTTTGAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
1587981 -GGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1588007 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* **
1588035 GAGTGCCACGGAGTTGTGGACTTTGAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1588062 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1588089 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
1588117 GAGTGCCACGGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1588144 GGGTGCCACAGAGTTATGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
1588172 GGATGCCACGGAGTTGTGGACTTCAAAA
1 GGGTGCCACGGAGTTGTGGACTT-AAAA
1588200 AGAAATGCCA
Statistics
Matches: 565, Mismatches: 52, Indels: 23
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.01
27 384 0.68
28 170 0.30
29 6 0.01
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.24
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:1587684 original size:82 final size:81
Alignment explanation
Indices: 1587544--1588199 Score: 965
Period size: 82 Copynumber: 8.0 Consensus size: 81
1587534 GCTTTGAAAT
* * * **
1587544 GGGTGCCACGGAGTTGTGGATTTAAAAGGATGGCACTTAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1587609 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* *
1587625 GGGTGCCACAGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1587690 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* * * *
1587707 GAGTGCCACGGAGTTGTGGACTTAAAAAGGTGCTACGGAGTTGTGGACTTAAAAGGGTGCCACAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1587772 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* * *
1587788 GGGTGCCACGGAGTTGTAGACATAAAAGAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1587853 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* * *
1587870 GGGTGCCACGGAGTTGTGGACTTAAAGAGGGTGCC-CTGGAGTTGTGGACTTTAAAAGAGCGCTA
1 GGGTGCCACGGAGTTGTGGACTTAAA-AGGGTGCCAC-GGAGTTGTGGAC-TTAAAAGGGTGCCA
1587934 CGGAGTTGTGGACTTAAAA
63 CGGAGTTGTGGACTTAAAA
* *
1587953 GGGTGCCACGGAGTTGTGGACTTTGAAA-GGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1588017 GAGTTGTGGACTTTAAAA
65 GAGTTGTGGAC-TTAAAA
* **
1588035 GAGTGCCACGGAGTTGTGGACTTTGAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1588100 AGTTGTGGACTTTAAAA
66 AGTTGTGGAC-TTAAAA
* * * * *
1588117 GAGTGCCACGGAGTTGTGGATTTAAAAGGGTGCCACAGAGTTATGGACTTTAAAAGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
1588182 GAGTTGTGGACTTCAAAA
65 GAGTTGTGGACTT-AAAA
1588200 AGAAATGCCA
Statistics
Matches: 523, Mismatches: 41, Indels: 20
0.90 0.07 0.03
Matches are distributed among these distances:
81 128 0.24
82 306 0.59
83 85 0.16
84 4 0.01
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.24
Consensus pattern (81 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAA
Found at i:1587739 original size:109 final size:108
Alignment explanation
Indices: 1587544--1588199 Score: 983
Period size: 109 Copynumber: 6.0 Consensus size: 108
1587534 GCTTTGAAAT
* * * ** *
1587544 GGGTGCCACGGAGTTGTGGATTTAAAAGGATGGCACTTAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGTGCCACGG
* *
1587609 AGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGTCTTAAAA
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1587652 GGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGTGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGTGCCACG
* *
1587717 GAGTTGTGGACTTAAAAAGGTGCTACGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * *
1587761 GGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTAGACATAAAAGAGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAG-TGCCACG
1587826 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
1587870 GGGTGCCACGGAGTTGTGGACTTAAAGAGGGTGCC-CTGGAGTTGTGGACTTTAAAAGAGCGCTA
1 GGGTGCCACGGAGTTGTGGACTTAAA-AGGGTGCCAC-GGAGTTGTGGAC-TTAAAAGAGTGCCA
*
1587934 CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTGAAA
63 CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAA
*
1587981 -GGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGAGTGCCACG
**
1588045 GAGTTGTGGACTTTGAAGGGTGCCACGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * * *
1588089 GGGTGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGATTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGTGCCACG
* *
1588154 GAGTTATGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTCAAAA
65 GAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAA
1588200 AGAAATGCCA
Statistics
Matches: 501, Mismatches: 36, Indels: 19
0.90 0.06 0.03
Matches are distributed among these distances:
108 59 0.12
109 287 0.57
110 138 0.28
111 17 0.03
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.24
Consensus pattern (108 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGTGCCACGG
AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:1595760 original size:23 final size:21
Alignment explanation
Indices: 1595706--1595752 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
1595696 TGGACATGTT
1595706 AAAAATGCATGAAACATAATA
1 AAAAATGCATGAAACATAATA
1595727 AAAAATGCATGAAACATAATA
1 AAAAATGCATGAAACATAATA
1595748 AAAAA
1 AAAAA
1595753 AATGCATGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.66, C:0.09, G:0.09, T:0.17
Consensus pattern (21 bp):
AAAAATGCATGAAACATAATA
Found at i:1596718 original size:20 final size:20
Alignment explanation
Indices: 1596671--1596745 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
1596661 AAAAAGACAT
*
1596671 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
1596690 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
1596711 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
1596731 AATGTATCGATACAT
1 AATGTATCGATACAT
1596746 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:1596739 original size:40 final size:39
Alignment explanation
Indices: 1596668--1596745 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1596658 GGTAAAAAGA
* *
1596668 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1596707 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1596746 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1605646 original size:129 final size:125
Alignment explanation
Indices: 1605347--1605668 Score: 355
Period size: 129 Copynumber: 2.5 Consensus size: 125
1605337 AAGATAACGT
* * * *
1605347 GGTTGGAGTATCCTCGATTGTGAAAAA-TCGATGATTTAGAAATAAAATCGGGATTGGATTATCC
1 GGTT-GAGTATCCTCGATTGTGAAAAATTAG-TGTTTTAGAAATAAAACCGGG-TTGGAGTATCC
* * *
1605411 CCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTAATGTTCTAGAAATAAAATCAG
63 CTTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAAAATCAATGTTCTAAAAATAAAATCAG
* * * *
1605474 GGTTGAAGTATCCTCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGAGGTTGGAGTGTCCC
1 GGTTG-AGTATCCTCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCG-GGTTGGAGTATCCC
* * ** *
1605539 TTCGAAAATAACGGGGTTGGAGTGT-CCCGATTGTGAAAAGTCGGTGTTTTAAAAATAAAATC-G
64 TTCGAAAATAACGGGGTTGGAGTATCCCCGA---TGAAAAATCAATGTTCTAAAAATAAAATCAG
*
1605602 GAGTTAGAGTATCCTCGATTGTGAAAAATTAGTGTTTT-GAAAATACAACCGGAGTTGGAGTATC
1 G-GTT-GAGTATCCTCGATTGTGAAAAATTAGTGTTTTAG-AAATAAAACCGG-GTTGGAGTATC
1605666 CCT
62 CCT
1605669 GATTGTGAAA
Statistics
Matches: 165, Mismatches: 20, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
126 6 0.04
127 73 0.44
128 8 0.05
129 77 0.47
130 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (125 bp):
GGTTGAGTATCCTCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGGTTGGAGTATCCCTT
CGAAAATAACGGGGTTGGAGTATCCCCGATGAAAAATCAATGTTCTAAAAATAAAATCAG
Found at i:1605791 original size:51 final size:51
Alignment explanation
Indices: 1605554--1605821 Score: 247
Period size: 51 Copynumber: 5.3 Consensus size: 51
1605544 AAATAACGGG
* * * ** *
1605554 GTTGGAGTGT-CCCGATTGTGAAAAGTCGGTGTTTTAAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAATCGGA
* * * * *
1605604 GTTAGAGTATCCTCGATTGTGAAAAATTAGTGTTTT-GAAAATACAACCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAG-AAATAAAATCGGA
* * * *
1605655 GTTGGAGTATCCCTGATTGTGAAAAATTAGTGTTTTGGGAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAATCGGA
* * **
1605706 GTTGGAGTATCCCCAATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAATCGGA
* * * * * *
1605757 GTTCGAGTATCCCCGATTAAGAGAAATT-GATGTTTTGGAAATGAAACCGG-
1 GTTGGAGTATCCCCGATTATGAAAAATTAG-TGTTTTAGAAATAAAATCGGA
*
1605807 GATTTGAGTATCCCC
1 G-TTGGAGTATCCCC
1605822 AAGATGAAAA
Statistics
Matches: 180, Mismatches: 33, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
50 10 0.06
51 169 0.94
52 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAATCGGA
Found at i:1608279 original size:21 final size:22
Alignment explanation
Indices: 1608253--1608295 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
1608243 AGCGATACAT
1608253 TGTATCGATAC-ATTTACTGAA
1 TGTATCGATACAATTTACTGAA
*
1608274 TGTATCGATACAATTTATTGAA
1 TGTATCGATACAATTTACTGAA
1608296 ATTCAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.40
Consensus pattern (22 bp):
TGTATCGATACAATTTACTGAA
Found at i:1613050 original size:94 final size:94
Alignment explanation
Indices: 1612889--1613078 Score: 362
Period size: 94 Copynumber: 2.0 Consensus size: 94
1612879 CAAATGGATC
* *
1612889 GAGTCAAACCATGTGAAAGTTCGATGAGTACTTCAACAAAGCTTGAAAAGGATGAAGGAGGTAAC
1 GAGTCAAACCATGTGAAACTTCGATGAGTACTTCAACAAAGCCTGAAAAGGATGAAGGAGGTAAC
1612954 CTTATCGACACTAAACTCTATAGGTCTAT
66 CTTATCGACACTAAACTCTATAGGTCTAT
1612983 GAGTCAAACCATGTGAAACTTCGATGAGTACTTCAACAAAGCCTGAAAAGGATGAAGGAGGTAAC
1 GAGTCAAACCATGTGAAACTTCGATGAGTACTTCAACAAAGCCTGAAAAGGATGAAGGAGGTAAC
1613048 CTTATCGACACTAAACTCTATAGGTCTAT
66 CTTATCGACACTAAACTCTATAGGTCTAT
1613077 GA
1 GA
1613079 TTGGCTCATT
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 94 1.00
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (94 bp):
GAGTCAAACCATGTGAAACTTCGATGAGTACTTCAACAAAGCCTGAAAAGGATGAAGGAGGTAAC
CTTATCGACACTAAACTCTATAGGTCTAT
Found at i:1617867 original size:94 final size:94
Alignment explanation
Indices: 1617706--1617895 Score: 362
Period size: 94 Copynumber: 2.0 Consensus size: 94
1617696 CAAATGGATC
*
1617706 GAGTCAAACCATGTGAAAGTTCGATAAGTACTTCAACAAAGCTTGAAAAGGATGAAGGAGGTAAC
1 GAGTCAAACCATGTGAAACTTCGATAAGTACTTCAACAAAGCTTGAAAAGGATGAAGGAGGTAAC
1617771 CTTATCGACACTAAACTCTATAGGTCTAT
66 CTTATCGACACTAAACTCTATAGGTCTAT
*
1617800 GAGTCAAACCATGTGAAACTTCGATGAGTACTTCAACAAAGCTTGAAAAGGATGAAGGAGGTAAC
1 GAGTCAAACCATGTGAAACTTCGATAAGTACTTCAACAAAGCTTGAAAAGGATGAAGGAGGTAAC
1617865 CTTATCGACACTAAACTCTATAGGTCTAT
66 CTTATCGACACTAAACTCTATAGGTCTAT
1617894 GA
1 GA
1617896 TTGGCTCATT
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 94 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (94 bp):
GAGTCAAACCATGTGAAACTTCGATAAGTACTTCAACAAAGCTTGAAAAGGATGAAGGAGGTAAC
CTTATCGACACTAAACTCTATAGGTCTAT
Found at i:1619051 original size:42 final size:42
Alignment explanation
Indices: 1619004--1619083 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
1618994 CGTTTTTTGG
* *
1619004 GGACAAAGGAAAAAGAGAAACGAAA-TACGTCCTGCTCTCTAA
1 GGACAAAAGAAAAAG-GAAAAGAAAGTACGTCCTGCTCTCTAA
* *
1619046 GGACAAAAGAAAAAGGAAAATAAAGTGCGTCCTGCTCT
1 GGACAAAAGAAAAAGGAAAAGAAAGTACGTCCTGCTCT
1619084 TTTTTTTTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 7 0.21
42 26 0.79
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (42 bp):
GGACAAAAGAAAAAGGAAAAGAAAGTACGTCCTGCTCTCTAA
Done.