Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1340
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: 186353
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:4046 original size:50 final size:50
Alignment explanation
Indices: 3964--4223 Score: 344
Period size: 50 Copynumber: 5.2 Consensus size: 50
3954 AGTTGTTGCC
* * * * *
3964 ATTGTTGACTATTCTTCACTAATCTTTTACAATCGAGAGAGGTGGCCATA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGTCATA
* * *
4014 ATTATTGACTATTCTTCACCAACCTTTAACAATAGAGAGAGAT-GTCCATA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGT-CATA
* **
4064 ATTGTTGACTATTCTTCACCAACCTTTGACAATAAATG-GAGGTGGTTGTA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATAGA-GAGAGGTGGTCATA
* * *
4114 ATTGTTGACTACTCTTCACCAACCTTTGACAATAGAAAGAGGTGGTCGTA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGTCATA
* *
4164 ATTGTTGACTATTCTTCACCAACCTTTGATAATAGAGAGAAGTGGTCATA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGTCATA
4214 ATTGTTGACT
1 ATTGTTGACT
4224 CTAAGCAACT
Statistics
Matches: 184, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
49 1 0.01
50 180 0.98
51 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (50 bp):
ATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGTCATA
Found at i:10059 original size:40 final size:39
Alignment explanation
Indices: 10011--10088 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
10001 GGTAAAAAGA
* *
10011 CATAATGTATCAATACATTGTAGAATATATCGATACATT
1 CATAATGTATCAATACATTGAAAAATATATCGATACATT
* * *
10050 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCAATACATTGAAAAATATATCGATACAT
10089 CAGGGTATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.35
Consensus pattern (39 bp):
CATAATGTATCAATACATTGAAAAATATATCGATACATT
Found at i:10061 original size:20 final size:20
Alignment explanation
Indices: 10014--10088 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
10004 AAAAAGACAT
* ** *
10014 AATGTATCAATACATTGTAG
1 AATGTATCGATACATTCAAA
* *
10034 AATATATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * *
10054 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCAAA
10074 AATGTATCGATACAT
1 AATGTATCGATACAT
10089 CAGGGTATGA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:10861 original size:28 final size:28
Alignment explanation
Indices: 10644--11787 Score: 1152
Period size: 28 Copynumber: 40.1 Consensus size: 28
10634 TTTTTTAAAA
*
10644 AAAATGTGCCACT-AGCTTGTGTAGGCTTTG
1 AAAAGGTGCCACTGA-CTTGTG--GGCTTTG
* *
10674 AAAAAAGTTGCCACTGACACATGTGGGCTTTG
1 --AAAAGGTGCCACTG--ACTTGTGGGCTTTG
**
10706 AAAAGAGTGTTACTGACTTGCGTGGGCTTT-
1 AAAAG-GTGCCACTGACTT--GTGGGCTTTG
*
10736 AAAGGGTGCCA-TGACTTGCTGTGGGCTTTG
1 AAAAGGTGCCACTGAC-T--TGTGGGCTTTG
* * *
10766 AAATGATGCCACTGACTCGTGGGC-TTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
10793 -AAAGAGTACCACTGACTTATGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
10821 -AAAGGTGCCACTGACTCGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
10848 AAAAGGTACCACTGACTCGTGGGC-TTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
10875 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
10903 -AAAGAGTGCCACTGACTCGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
10931 AAAAGGTGCCATTGACTTGCGTGGGCTTTG
1 AAAAGGTGCCACTGACTT--GTGGGCTTTG
*
10961 AAAGGAGTGCCACTGACTTGTGTGGGCTTTG
1 AAAAG-GTGCCACTGAC-T-TGTGGGCTTTG
*
10992 AAAGGGTGCCTACTGACTTGT-GGCTTTG
1 AAAAGGTGCC-ACTGACTTGTGGGCTTTG
*
11020 -AAAGGATGCCACTGACTCGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
11048 -AAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
11076 -AAAGGTGCCACTGACTCGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
11103 AAAAGGTACCACTGACTCGTGGGC--TG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
11129 AAAGGGTGCCACTGACTGGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
11157 -AAAGAGTGCCACTGACTCGTAGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
11185 AAAAGGTGCCACTAACTTGCGTGGGCTTT-
1 AAAAGGTGCCACTGACTT--GTGGGCTTTG
*
11214 AAAAGGAGTGCCACTAACTTGTGTGGGCTTTG
1 AAAA-G-GTGCCACTGAC-T-TGTGGGCTTTG
* *
11246 AAAGGGAGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
11274 -AAAGAGTGCCACTGACTTGTGGGCTTCG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* * * * *
11302 CAAGGGTGCCATTGACTTGTGTGCTTCG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
11330 -AAAGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
11357 -AAA-GTGCCACTTGACTCGTGGG-ATTG
1 AAAAGGTGCCAC-TGACTTGTGGGCTTTG
*
11383 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
11411 -AAAGAGTGCCACTGACTCGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
11439 AAAAGGTGCCATTAACTTGCGTGGGCTTT-
1 AAAAGGTGCCACTGACTT--GTGGGCTTTG
11468 AAAAGGAGTGCCACTGACTTGTGTGGGCTTTG
1 AAAA-G-GTGCCACTGAC-T-TGTGGGCTTTG
* * *
11500 AAAGGGAGCCACTAACTTGTGGGC-TTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
11527 -AAAGAGTGCCACTGACTTGTGGGCTTCG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* * *
11555 CAAGGGTGCCACTGACTTGTGGGCTTCG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
11583 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
11611 AAAAGAGTGCCACTAACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
11640 AAAAGAGTGCCACTGATTTGTGGGCTTT-
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
11668 AAAATAGTGCCACTGACTTGTGGGCTTTA
1 AAAA-GGTGCCACTGACTTGTGGGCTTTG
* *
11697 AAAAGAGTGCCACTAATTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
11726 AAAATAGTGCCACTGACTTGTGGGCTTTG
1 AAAA-GGTGCCACTGACTTGTGGGCTTTG
*
11755 AAAGGAGTGCCACTGACTTTGTGGGCTTTG
1 AAAAG-GTGCCACTGAC-TTGTGGGCTTTG
11785 AAA
1 AAA
11788 GGGATGAACA
Statistics
Matches: 954, Mismatches: 95, Indels: 128
0.81 0.08 0.11
Matches are distributed among these distances:
26 39 0.04
27 177 0.19
28 360 0.38
29 160 0.17
30 91 0.10
31 91 0.10
32 27 0.03
33 3 0.00
34 5 0.01
35 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (28 bp):
AAAAGGTGCCACTGACTTGTGGGCTTTG
Found at i:11044 original size:254 final size:255
Alignment explanation
Indices: 10696--11788 Score: 1566
Period size: 254 Copynumber: 4.3 Consensus size: 255
10686 ACTGACACAT
* ** *
10696 GTGGGCTTTGAAAAGAGTGTTACTGACTTGCGTGGGCTTT-AAAGGGTGCCA-TGACTTGCTGTG
1 GTGGGCTTTGAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGAC-T--TGTG
* * *
10759 GGCTTTGAAATGA-TGCCACTGACTCGTGGGCTT-GAAAGAGTACCACTGACTTATGGGCTTTGA
63 GGCTTTGAAA-GAGTGCCACTGACTCGTGGGCTTCGAAAGAGTGCCACTGACTTGTGGGCTTCGA
10822 AAGGTGCCACTGACTCGTGGGCTTTGAAAAGGTACCACTGACTCGTGGGCTTGAAAGGGTGCCAC
127 AAGGTGCCACTGACTCGTGGGCTTTGAAAAGGTACCACTGACTCGTGGGCTTGAAAGGGTGCCAC
* *
10887 TGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCATTGACTTGC
192 TGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTAACTTGC
10951 GTGGGCTTTGAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCTACTGACTTGT-GG
1 GTGGGCTTTGAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCC-ACTGACTTGTGGG
* *
11015 CTTTGAAAG-GATGCCACTGACTCGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAA
65 CTTTGAAAGAG-TGCCACTGACTCGTGGGCTTCGAAAGAGTGCCACTGACTTGTGGGCTTCGAAA
11079 GGTGCCACTGACTCGTGGGCTTTGAAAAGGTACCACTGACTCGTGGGC-TGAAAGGGTGCCACTG
129 GGTGCCACTGACTCGTGGGCTTTGAAAAGGTACCACTGACTCGTGGGCTTGAAAGGGTGCCACTG
* *
11143 ACTGGTGGGCTTTGAAAGAGTGCCACTGACTCGTAGGCTTTGAAAAGGTGCCACTAACTTGC
194 ACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTAACTTGC
* * *
11205 GTGGGCTTTAAAAGGAGTGCCACTAACTTGTGTGGGCTTTGAAAGGGAGCCACTGACTTGTGGGC
1 GTGGGCTTTGAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC
* * * * *
11270 TTTGAAAGAGTGCCACTGACTTGTGGGCTTCGCAAGGGTGCCATTGACTTGTGTGCTTCGAAAGG
66 TTTGAAAGAGTGCCACTGACTCGTGGGCTTCGAAAGAGTGCCACTGACTTGTGGGCTTCGAAAGG
* * *
11335 TGCCACTGACTTGTGGGCTTTG-AAA-GTGCCACTTGACTCGTGGGATTGAAAGGGTGCCACTGA
131 TGCCACTGACTCGTGGGCTTTGAAAAGGTACCAC-TGACTCGTGGGCTTGAAAGGGTGCCACTGA
*
11398 CTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCATTAACTTGC
195 CTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTAACTTGC
* * *
11459 GTGGGCTTTAAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAAGGGAGCCACTAACTTGTGGGC
1 GTGGGCTTTGAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC
* * *
11524 -TTGAAAGAGTGCCACTGACTTGTGGGCTTCGCAAGGGTGCCACTGACTTGTGGGCTTCGAAAGG
66 TTTGAAAGAGTGCCACTGACTCGTGGGCTTCGAAAGAGTGCCACTGACTTGTGGGCTTCGAAA-G
* * * * *
11588 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCAC
130 GTGCCACTGACTCGTGGGCTTTGAAAAG-GTACCACTGACTCGTGGGC-TTG-AAAGGGTGCCAC
* * * * * *
11653 TGATTTGTGGGCTTTAAAATAGTGCCACTGACTTGTGGGCTTTAAAAAGAGTGCCACTAA-TT-T
192 TGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAG-GTGCCACTAACTTGC
**
11716 GTGGGCTTTGAAAATAGTGCCACTGAC-T-TGTGGGCTTTGAAAGGAGTGCCACTGACTTTGTGG
1 GTGGGCTTTGAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAAGG-GTGCCACTGAC-TTGTGG
11779 GCTTTGAAAG
64 GCTTTGAAAG
11789 GGATGAACAT
Statistics
Matches: 772, Mismatches: 46, Indels: 37
0.90 0.05 0.04
Matches are distributed among these distances:
252 6 0.01
253 85 0.11
254 394 0.51
255 137 0.18
256 29 0.04
257 44 0.06
258 68 0.09
259 9 0.01
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.28
Consensus pattern (255 bp):
GTGGGCTTTGAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC
TTTGAAAGAGTGCCACTGACTCGTGGGCTTCGAAAGAGTGCCACTGACTTGTGGGCTTCGAAAGG
TGCCACTGACTCGTGGGCTTTGAAAAGGTACCACTGACTCGTGGGCTTGAAAGGGTGCCACTGAC
TTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTAACTTGC
Found at i:11259 original size:226 final size:225
Alignment explanation
Indices: 10682--11787 Score: 1234
Period size: 226 Copynumber: 4.9 Consensus size: 225
10672 TGAAAAAAGT
* ** *
10682 TGCCACTGACACATGTGGGCTTTGAAAAGAGTGTTACTGACTTGCGTGGGCTTT--AAAGGGTGC
1 TGCCACTGACTC--GTGGGCTTTG-AAAGAGTGCCACTGAC-T-CGTGGGCTTTGAAAAGAGTGC
* * *
10745 CA-TGACTTGCTGTGGGCTTTGAAATGA-TGCCACTGACTCGTGGGC-TTGAAAGAGTA-CCACT
61 CACTGACTTGC-GTGGGCTTT-AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAG-GGAGCCACT
* * * *
10806 GACTTATGGGCTTTGAAAG-GTGCCACTGACTCGTGGGCTTTGAAAAGGTACCACTGACTCGTGG
123 GACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGTGCCACTGACTTGTGG
* *
10870 GC-TTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAG
187 GCTTTGAAAAGGTGCCACTGACTTGTGGGC-TTGAAAGGG
* *
10909 TGCCACTGACTCGTGGGCTTTGAAA-AGGTGCCATTGACTTGCGTGGGCTTTGAAAGGAGTGCCA
1 TGCCACTGACTCGTGGGCTTTGAAAGA-GTGCCACTGAC-T-CGTGGGCTTTGAAAAGAGTGCCA
* * *
10973 CTGACTTGTGTGGGCTTTGAAAGGGTGCCTACTGACTTGT-GGCTTTGAAA-GGATGCCACTGAC
63 CTGACTTGCGTGGGCTTTAAAAGAGTGCC-ACTGACTTGTGGGCTTTGAAAGGGA-GCCACTGAC
* *
11036 TCGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGTGCCACTGACTCGTGGGCTT
126 TTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGTGCCACTGACTTGTGGGCTT
* *
11101 TGAAAAGGTACCACTGACTCGTGGGC-TGAAAGGG
191 TGAAAAGGTGCCACTGACTTGTGGGCTTGAAAGGG
* * *
11135 TGCCACTGACTGGTGGGCTTTGAAAGAGTGCCACTGACTCGTAGGCTTTGAAAAG-GTGCCACTA
1 TGCCACTGACTCGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGAGTGCCACTG
*
11199 ACTTGCGTGGGCTTTAAAAGGAGTGCCACTAACTTGTGTGGGCTTTGAAAGGGAGCCACTGACTT
66 ACTTGCGTGGGCTTTAAAA-GAGTGCCACTGAC-T-TGTGGGCTTTGAAAGGGAGCCACTGACTT
* * * * *
11264 GTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTCGCAAGGGTGCCATTGACTTGTGTGCTTC
128 GTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGTGCCACTGACTTGTGGGCTTT
11329 G-AAAGGTGCCACTGACTTGTGGGCTTTGAAA--G
192 GAAAAGGTGCCACTGACTTGTGGGC-TTGAAAGGG
* * *
11361 TGCCACTTGACTCGTGGG-ATTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACT
1 TGCCAC-TGACTCGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGAGTGCCACT
* * * *
11424 GAC-T-CGTGGGCTTTGAAAAG-GTGCCATTAACTTGCGTGGGCTTTAAAAGGAGTGCCACTGAC
65 GACTTGCGTGGGCTTT-AAAAGAGTGCCACTGACTT--GTGGGCTTTGAAAGG-GAGCCACTGAC
* * *
11486 TTGTGTGGGCTTTGAAAGGGAGCCACTAACTTGTGGGC-TTGAAAGAGTGCCACTGACTTGTGGG
126 -T-TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAG-GTGCCACTGACTTGTGGG
* * *
11550 CTTCGCAAGGGTGCCACTGACTTGTGGGCTTCGAAAGGG
188 CTTTGAAAAGGTGCCACTGACTTGTGGGCTT-GAAAGGG
* * *
11589 TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACT
1 TGCCACTGACTCGTGGGCTTTG-AAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGAGTGCCACT
* * * * * * *
11654 GA-TT-TGTGGGCTTTAAAATAGTGCCACTGACTTGTGGGCTTTAAAAAGAGTGCCACTAATTTG
65 GACTTGCGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCTTT-GAAAGGGAGCCACTGACTTG
*
11717 TGGGCTTTGAAAATAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTTGTGGGCT
129 TGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAA-G-GTGCCACTGAC-TTGTGGGCT
11782 TTGAAA
190 TTGAAA
11788 GGGATGAACA
Statistics
Matches: 764, Mismatches: 72, Indels: 83
0.83 0.08 0.09
Matches are distributed among these distances:
221 1 0.00
222 1 0.00
223 55 0.07
224 69 0.09
225 54 0.07
226 258 0.34
227 144 0.19
228 85 0.11
229 48 0.06
230 49 0.06
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.28
Consensus pattern (225 bp):
TGCCACTGACTCGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGAGTGCCACTG
ACTTGCGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGAGCCACTGACTTGTG
GGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGTGCCACTGACTTGTGGGCTTTGAAA
AGGTGCCACTGACTTGTGGGCTTGAAAGGG
Found at i:13024 original size:1 final size:1
Alignment explanation
Indices: 13020--13072 Score: 61
Period size: 1 Copynumber: 53.0 Consensus size: 1
13010 TTTTTTGCTA
* * * * *
13020 TTTTTCTTTTTTTTTTGTTTTTTTTTGTTTTGTTTTTTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
13073 GGTGTAAAGG
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.91
Consensus pattern (1 bp):
T
Found at i:13044 original size:15 final size:15
Alignment explanation
Indices: 13026--13072 Score: 80
Period size: 15 Copynumber: 3.3 Consensus size: 15
13016 GCTATTTTTC
13026 TTTTTT-TTTTGTTT
1 TTTTTTGTTTTGTTT
13040 TTTTTTGTTTTGTTT
1 TTTTTTGTTTTGTTT
13055 TTTTTTGTTTT-TTT
1 TTTTTTGTTTTGTTT
13069 TTTT
1 TTTT
13073 GGTGTAAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.41
15 19 0.59
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (15 bp):
TTTTTTGTTTTGTTT
Found at i:17881 original size:52 final size:52
Alignment explanation
Indices: 17796--17920 Score: 216
Period size: 52 Copynumber: 2.4 Consensus size: 52
17786 ATATGAAAAG
* *
17796 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
17848 TTGCCTGCATGTATCGATACATTATAA-AATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATT-TAATAATGTATCGATACATCTGGGCAAAT
17900 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
17921 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
52 67 0.96
53 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:17933 original size:52 final size:50
Alignment explanation
Indices: 17796--17940 Score: 193
Period size: 52 Copynumber: 2.8 Consensus size: 50
17786 ATATGAAAAG
* *
17796 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGCAAAT
*
17848 TTGCCTGCATGTATCGATACATTATAA-AATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA--A-AATAGTGTATCGATACATCTGGGCAAAT
17900 TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
17941 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
49 1 0.01
50 2 0.02
52 80 0.94
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (50 bp):
TTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGCAAAT
Found at i:17947 original size:13 final size:13
Alignment explanation
Indices: 17929--17953 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17919 CAAAGATCAG
17929 TGTATCGATACAA
1 TGTATCGATACAA
17942 TGTATCGATACA
1 TGTATCGATACA
17954 TGTGAGTAAT
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:18037 original size:13 final size:13
Alignment explanation
Indices: 18019--18043 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18009 CAAAAAAATA
18019 TGTATCGATACAT
1 TGTATCGATACAT
18032 TGTATCGATACA
1 TGTATCGATACA
18044 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:18039 original size:33 final size:33
Alignment explanation
Indices: 17997--18063 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
17987 AGTAGCTTAA
17997 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
18030 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
18063 A
1 A
18064 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:28601 original size:20 final size:20
Alignment explanation
Indices: 28572--28646 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
28562 AAAAAGACAT
*
28572 AATGTATCGATACATTGTAG
1 AATGTATCGATACATTGTAA
*
28592 AATATATCGATACATT-TATA
1 AATGTATCGATACATTGTA-A
* * *
28612 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGTAA
28632 AATGTATCGATACAT
1 AATGTATCGATACAT
28647 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.04
20 42 0.93
21 1 0.02
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTGTAA
Found at i:29450 original size:15 final size:16
Alignment explanation
Indices: 29430--29459 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
29420 TAAATCACTT
29430 GAAAAAA-ATTAAATA
1 GAAAAAATATTAAATA
29445 GAAAAAATATTAAAT
1 GAAAAAATATTAAAT
29460 CTTTATTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (16 bp):
GAAAAAATATTAAATA
Found at i:30046 original size:2 final size:2
Alignment explanation
Indices: 30039--30078 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
30029 TTGAAGTTGT
* * *
30039 TA TA TA TA TA TG TA TA TA TG TT TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30079 CTCGCTCTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (2 bp):
TA
Found at i:31472 original size:2 final size:2
Alignment explanation
Indices: 31465--31491 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
31455 TACATCATGT
31465 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
31492 TATATATGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:35717 original size:18 final size:17
Alignment explanation
Indices: 35694--35727 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
35684 CTGACATAAA
35694 TATATAAATATTAAAAAT
1 TATATAAA-ATTAAAAAT
*
35712 TATATATAATTAAAAA
1 TATATAAAATTAAAAA
35728 AATTAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TATATAAAATTAAAAAT
Found at i:36149 original size:24 final size:25
Alignment explanation
Indices: 36122--36175 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
36112 TAATGATACT
*
36122 ATATATTAT-ATTATT-AAAATATAA
1 ATAT-TTATGATTATTCAAAATAGAA
*
36146 ATATTTATGCTTATTCAAAATAGAA
1 ATATTTATGATTATTCAAAATAGAA
36171 ATATT
1 ATATT
36176 AAAAATGACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 4 0.15
24 9 0.35
25 13 0.50
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (25 bp):
ATATTTATGATTATTCAAAATAGAA
Found at i:38419 original size:22 final size:22
Alignment explanation
Indices: 38378--38419 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
38368 CATTTTATTA
**
38378 TAATTTAAATTATTTTTAAAAT
1 TAATTTAAATTATTAATAAAAT
38400 TAATTTAAATTATTAATAAA
1 TAATTTAAATTATTAATAAA
38420 TTATTATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TAATTTAAATTATTAATAAAAT
Found at i:38831 original size:50 final size:50
Alignment explanation
Indices: 38729--38840 Score: 129
Period size: 50 Copynumber: 2.2 Consensus size: 50
38719 TCACCAAAAT
* * * * * *
38729 TAATTGTTGATTATTTTTCATCAACCTTTTACAATCGAGAAAGGTGATCG
1 TAATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAAAGGTGACCG
*
38779 TAATTGTTGACTATTCTTCACCAACCTTTGACAATAGATAGAA-GT-AGCCG
1 TAATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGA-AAGGTGA-CCG
38829 TAATTGTTGACT
1 TAATTGTTGACT
38841 CTAAACAACT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
49 1 0.02
50 50 0.94
51 2 0.04
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (50 bp):
TAATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAAAGGTGACCG
Found at i:40104 original size:11 final size:12
Alignment explanation
Indices: 40057--40111 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
40047 CAATTTAAAA
*
40057 ATTTATTTTATT
1 ATTTATATTATT
*
40069 ATTTATAATATT
1 ATTTATATTATT
*
40081 ATTAAAATATTATT
1 ATT--TATATTATT
40095 ATTTAT-TTATT
1 ATTTATATTATT
40106 -TTTATA
1 ATTTATA
40112 ATTAAATTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 5 0.14
11 5 0.14
12 15 0.43
14 10 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTTATATTATT
Found at i:41220 original size:219 final size:219
Alignment explanation
Indices: 40798--41632 Score: 1141
Period size: 219 Copynumber: 3.9 Consensus size: 219
40788 TTCAAATAAA
* *
40798 ATCAGACACTAAATAATCCTAGTAAATAGAGTTTTCTTTTCTCAATTTGAGTTTGATTATTTATA
1 ATCAGACACTAGATAATCCTAGTAAATAGAGTTTTCTTTTCTCAATTTGGGTTTGATTATTTATA
40863 AGGTATATATATTTCAAAAATAAAATTATTAATATATGATAAGTGAATGTAAAGAAACTATCTTC
66 AGGTATATATATTTCAAAAATAAAATTATTAATATATGATAAGTGAATGTAAAGAAAC-ATCTTC
* * * * *
40928 ATAAAATTATATGAAAAAAAGATTTAAGTTTTTCAAACAAAATCTAAAAAGTAATCTTAAACATA
130 ATAAAATCATATGAGAAAAAGATTTAAGTTATTCAAACAAAATCTAAAAAATAATCTTAAATATA
40993 TA-TTTTTTATAAGATTTAAGTTAT
195 TATTTTTTTATAAGATTTAAGTTAT
* *
41017 ATCATACACTAGATAATCCTAGTAAATA-AGGTTTTCTTTTCTCAATTTGGGTTTGATTTTTTAT
1 ATCAGACACTAGATAATCCTAGTAAATAGA-GTTTTCTTTTCTCAATTTGGGTTTGATTATTTAT
* *
41081 AAGGTATATATATTTCAAAAATAAAATTATTAATATATGATAAGTGAATTTAAGGAAACATCTTC
65 AAGGTATATATATTTCAAAAATAAAATTATTAATATATGATAAGTGAATGTAAAGAAACATCTTC
*
41146 ATAAAATCATATGAGAAAAAGATTTAAGTTATTCAAACAAAATCTAAAAAATAATCTTAAATGTA
130 ATAAAATCATATGAGAAAAAGATTTAAGTTATTCAAACAAAATCTAAAAAATAATCTTAAATATA
*
41211 TATTTTTTTATAAGATTTCAGTTAT
195 TATTTTTTTATAAGATTTAAGTTAT
* * * *
41236 ATTAAACATTAGATAATCCTAGTAAATAAAGTTTTCTTTTCTCAATTTGGGTTTGATTATTTATA
1 ATCAGACACTAGATAATCCTAGTAAATAGAGTTTTCTTTTCTCAATTTGGGTTTGATTATTTATA
* * *
41301 AGGTACATATATTTCAAAAATAAAATTATTAATATATGACAAGTGAA--T--ATAAA-A-----A
66 AGGTATATATATTTCAAAAATAAAATTATTAATATATGATAAGTGAATGTAAAGAAACATCTTCA
* * *
41356 -AAAGTC-T-TGAGAAAAATATTTAAGTTATTCAAATAAAATCT-AAAAATAATCTTAAATATAT
131 TAAAATCATATGAGAAAAAGATTTAAGTTATTCAAACAAAATCTAAAAAATAATCTTAAATATAT
*
41417 ATATATATATTTATAAAATTTAAGTTAT
196 AT-T-T-T-TTTATAAGATTTAAGTTAT
* * * * * *
41445 ACCAGATATTAGAGAATCCTAATAAATAGAGTTTTCTTTTCTCAATTTAGGTTTGATT-TTTATA
1 ATCAGACACTAGATAATCCTAGTAAATAGAGTTTTCTTTTCTCAATTTGGGTTTGATTATTTATA
* * *
41509 AGGTCATATA-A-TTCAAAAATAAAATTATTAATTTATAATAAGTGAATGTAAAGAAGCATCTTC
66 AGGT-ATATATATTTCAAAAATAAAATTATTAATATATGATAAGTGAATGTAAAGAAACATCTTC
* * * *
41572 ATAAAATTATCTGAGAAAAAAATTTAAGTTATTTAAACAAAATCTAAAAAATAATCTTAAA
130 ATAAAATCATATGAGAAAAAGATTTAAGTTATTCAAACAAAATCTAAAAAATAATCTTAAA
41633 CCTATTGCCA
Statistics
Matches: 548, Mismatches: 46, Indels: 42
0.86 0.07 0.07
Matches are distributed among these distances:
205 21 0.04
206 33 0.06
207 34 0.06
208 17 0.03
209 73 0.13
211 3 0.01
212 1 0.00
214 1 0.00
215 3 0.01
217 2 0.00
218 72 0.13
219 241 0.44
220 32 0.06
221 15 0.03
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.39
Consensus pattern (219 bp):
ATCAGACACTAGATAATCCTAGTAAATAGAGTTTTCTTTTCTCAATTTGGGTTTGATTATTTATA
AGGTATATATATTTCAAAAATAAAATTATTAATATATGATAAGTGAATGTAAAGAAACATCTTCA
TAAAATCATATGAGAAAAAGATTTAAGTTATTCAAACAAAATCTAAAAAATAATCTTAAATATAT
ATTTTTTTATAAGATTTAAGTTAT
Found at i:42064 original size:26 final size:26
Alignment explanation
Indices: 42002--42064 Score: 60
Period size: 25 Copynumber: 2.5 Consensus size: 26
41992 ACTTTTGGCT
*
42002 TATTTAATGAA-TGTAATGTAAAAAA
1 TATTTAATAAATTGTAATGTAAAAAA
* *
42027 TATTT-TTAAATTAGTAAT-TAAATAA
1 TATTTAATAAATT-GTAATGTAAAAAA
*
42052 TATTTAATCAATT
1 TATTTAATAAATT
42065 CAATGTTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
24 3 0.10
25 17 0.57
26 10 0.33
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (26 bp):
TATTTAATAAATTGTAATGTAAAAAA
Found at i:42621 original size:26 final size:27
Alignment explanation
Indices: 42577--42628 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
42567 TTAAATATAA
* **
42577 AATATTTCAATATTTTAT-AATTTTAT
1 AATATTTAAATATGCTATAAATTTTAT
42603 AATATTTAAATATGCTATAAATTTTA
1 AATATTTAAATATGCTATAAATTTTA
42629 ATTTAATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (27 bp):
AATATTTAAATATGCTATAAATTTTAT
Found at i:43963 original size:4 final size:4
Alignment explanation
Indices: 43954--44014 Score: 59
Period size: 4 Copynumber: 14.2 Consensus size: 4
43944 TGAATTATTG
* * *
43954 TTTC TTTC TTTC TTTC TTTC TTTC TTTTCC TTTC ATTC TCTCC TTTC TATC
1 TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC TTTC T-TTC TTTC TTTC
44005 TTTTC TTTC T
1 -TTTC TTTC T
44015 CTTTTCCATT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
4 34 0.72
5 12 0.26
6 1 0.02
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (4 bp):
TTTC
Found at i:44012 original size:13 final size:13
Alignment explanation
Indices: 43954--44014 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 13
43944 TGAATTATTG
*
43954 TTTCTTTCTTTC-
1 TTTCTTTCTATCT
*
43966 TTTCTTTCTTTCT
1 TTTCTTTCTATCT
43979 TTTCCTTTC-ATTCT
1 TTT-CTTTCTA-TCT
* *
43993 CTCCTTTCTATCT
1 TTTCTTTCTATCT
44006 TTTCTTTCT
1 TTTCTTTCT
44015 CTTTTCCATT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
12 12 0.30
13 18 0.45
14 10 0.25
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTCTTTCTATCT
Found at i:45485 original size:17 final size:18
Alignment explanation
Indices: 45450--45489 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
45440 AGGATACTTT
* *
45450 ATTAATATTTTTGATAAA
1 ATTAAAATTTTTGAAAAA
45468 ATTAAAATTTTT-AAAAA
1 ATTAAAATTTTTGAAAAA
45485 ATTAA
1 ATTAA
45490 GATAATGTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (18 bp):
ATTAAAATTTTTGAAAAA
Found at i:48806 original size:51 final size:49
Alignment explanation
Indices: 48744--48914 Score: 189
Period size: 51 Copynumber: 3.6 Consensus size: 49
48734 TTAACTAGAC
* *
48744 GTATCGATACATTGAAAAATGTATCGATATATCCTGGTAAAAAGACAGAAT
1 GTATCGATACATTGAAGAATGTATCGATA-AT-ATGGTAAAAAGACAGAAT
* * *
48795 GTATTGATACATTGAAGAATGTATCGATAA-AT--T---CATAC---AT
1 GTATCGATACATTGAAGAATGTATCGATAATATGGTAAAAAGACAGAAT
*
48835 GTATCGATACATTGAAGAATGTATCGATACATTTGGGTAAAAAGACAGAAT
1 GTATCGATACATTGAAGAATGTATCGATA-ATAT-GGTAAAAAGACAGAAT
48886 GTATCGATACATTGAAGAATGTATCGATA
1 GTATCGATACATTGAAGAATGTATCGATA
48915 CATTCATACA
Statistics
Matches: 100, Mismatches: 9, Indels: 22
0.76 0.07 0.17
Matches are distributed among these distances:
40 30 0.30
41 1 0.01
42 1 0.01
43 3 0.03
45 1 0.01
46 1 0.01
48 4 0.04
50 1 0.01
51 58 0.58
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.30
Consensus pattern (49 bp):
GTATCGATACATTGAAGAATGTATCGATAATATGGTAAAAAGACAGAAT
Found at i:48815 original size:20 final size:20
Alignment explanation
Indices: 48790--48957 Score: 151
Period size: 20 Copynumber: 7.8 Consensus size: 20
48780 GTAAAAAGAC
*
48790 AGAATGTATTGATACATTGA
1 AGAATGTATCGATACATTGA
* *
48810 AGAATGTATCGATAAATTCA
1 AGAATGTATCGATACATTGA
*
48830 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
48850 AGAATGTATCGATACATTTGGGTAAAAAGA
1 AGAATGTATCGATACA--T---T-----GA
48880 CAGAATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
48901 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
*
48921 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
48941 AGAATGTATCGATACAT
1 AGAATGTATCGATACAT
48958 CTGGGTACTT
Statistics
Matches: 122, Mismatches: 11, Indels: 30
0.75 0.07 0.18
Matches are distributed among these distances:
19 2 0.02
20 94 0.77
21 4 0.03
22 1 0.01
25 1 0.01
26 1 0.01
29 1 0.01
30 2 0.02
31 16 0.13
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:48850 original size:91 final size:91
Alignment explanation
Indices: 48744--48964 Score: 381
Period size: 91 Copynumber: 2.4 Consensus size: 91
48734 TTAACTAGAC
* * *
48744 GTATCGATACATTGAAAAATGTATCGATATATCCT-GGTAAAAAGACAGAATGTATTGATACATT
1 GTATCGATACATTGAAGAATGTATCGATACAT-CTGGGTAAAAAGACAGAATGTATCGATACATT
48808 GAAGAATGTATCGATAAATTCATACAT
65 GAAGAATGTATCGATAAATTCATACAT
*
48835 GTATCGATACATTGAAGAATGTATCGATACATTTGGGTAAAAAGACAGAATGTATCGATACATTG
1 GTATCGATACATTGAAGAATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACATTG
*
48900 AAGAATGTATCGATACATTCATACAT
66 AAGAATGTATCGATAAATTCATACAT
48926 GTATCGATACATTGAAGAATGTATCGATACATCTGGGTA
1 GTATCGATACATTGAAGAATGTATCGATACATCTGGGTA
48965 CTTTTCCATA
Statistics
Matches: 123, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
90 1 0.01
91 122 0.99
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (91 bp):
GTATCGATACATTGAAGAATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACATTG
AAGAATGTATCGATAAATTCATACAT
Found at i:49980 original size:57 final size:57
Alignment explanation
Indices: 49839--50757 Score: 995
Period size: 57 Copynumber: 16.0 Consensus size: 57
49829 ATTTTTTTTA
* * *
49839 AAAAAAGTGCCATTAACTTGTGCGGGCTTTGAAAAGAGTTGCCA-TCGACTCGTGTGGGCTTT
1 AAAAAGGTGCCACTGACTTGT--GGGCTTTGAAAAGAG-TGCCACT-GACT--TGTGGGCTTT
* *
49901 GAAAAAAGTTACCACT-AGCTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
1 --AAAAAGGTGCCACTGA-CTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
* * * **
49960 AAAAAGGTGCCACTGACTTGTGAGCTTTAAAAAG-GTGCCATTGACTTGTGCACTTT
1 AAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
* * * *
50016 -GAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCATTGACTTGTGGGATTT
1 AAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
* * * *
50073 -GAAAGAGTGCCACTAATTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTT
1 AAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
* * * *
50130 GAAAGAA--TGTCACTGACTTGTGAGCTTTGAAAAAAGTGCCACTGACTTGTGGGTTTT
1 -AAA-AAGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
* * * *
50187 GAAAGGGTGCCACTGATTTGTGGGCTTTG-AAAGGGTGCCACT-AGCTTGTGGGCTTT
1 AAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGA-CTTGTGGGCTTT
** * *
50243 AAAAAGAGTGCCACTGGTTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTAGGCTTT
1 AAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
* * * *
50300 GAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCATTGATTTGTGGGCTTT
1 AAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
* * * *
50357 -GAAAGGATACCACTAACTTGTGGGTTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
1 AAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
* * * *
50414 GAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAATGCCACTGATTTGTGGGCTTT
1 AAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
* * *
50471 GAAAGGGTGCCACTGACTTGCATGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTT
1 AAAAAGGTGCCACTGACTTG--TGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
* * * *
50529 -GAAAGGATGCCACTGATTTGTGGGTTTTGAAAAAAGTGCCACTGACTTGTGGGCTTT
1 AAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
* * *
50586 GAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTT
1 AAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
* * *
50643 GAAAGGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTT
1 AAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
* * * * *
50700 GAAAAGAGTTGCCACTGACTCGTGGGCTTTGAAAGGA-TGCCACTAACTTATGGGCTTT
1 -AAAA-AGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
50758 GAAGAGATGA
Statistics
Matches: 740, Mismatches: 89, Indels: 58
0.83 0.10 0.07
Matches are distributed among these distances:
55 7 0.01
56 104 0.14
57 449 0.61
58 113 0.15
59 24 0.03
60 2 0.00
61 9 0.01
62 16 0.02
63 1 0.00
64 15 0.02
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (57 bp):
AAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
Found at i:50016 original size:85 final size:85
Alignment explanation
Indices: 49839--50760 Score: 1065
Period size: 85 Copynumber: 10.7 Consensus size: 85
49829 ATTTTTTTTA
* * *
49839 AAAAAAGTGCCATTAACTTGTGCGGGCTTTGAAAAGAGTTGCCA-TCGACTCGTGTGGGCTTTGA
1 AAAAGAGTGCCACTGACTTGT--GGGCTTTGAAAAG-G-TGCCACT-GACT--TGTGGGCTTTG-
* *
49903 AAAAAGTTACCACT-AGCTTGTGGGCTTTG
58 -AAAAGGTGCCACTGA-CTTGTGGGCTTTG
* * *
49932 AAAAGAGTGCCACTGACTTGTGGGCTTTAAAAAGGTGCCACTGACTTGTGAGCTTTAAAAAGGTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTG
* **
49997 CCATTGACTTGTGCACTTTG
66 CCACTGACTTGTGGGCTTTG
* * * *
50017 AAAGGA-TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCATTGACTTGTGGGATTTG-AAAGAG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAAG-G
* *
50080 TGCCACTAATTTGTGGGCTTTG
64 TGCCACTGACTTGTGGGCTTTG
* * * * *
50102 AAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGAATGTCACTGACTTGTGAGCTTTGAAAAAAG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTG-AAAAGG
*
50166 TGCCACTGACTTGTGGGTTTTG
64 TGCCACTGACTTGTGGGCTTTG
* * * *
50188 -AAAGGGTGCCACTGATTTGTGGGCTTTGAAAGGGTGCCACT-AGCTTGTGGGCTTTAAAAAGAG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGA-CTTGTGGGCTTTGAAAAG-G
**
50251 TGCCACTGGTTTGTGGGCTTTG
64 TGCCACTGACTTGTGGGCTTTG
* * *
50273 -AAAGGGTGCCACTGACTTGTAGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGT
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAG-GT
* *
50337 GCCATTGATTTGTGGGCTTTG
65 GCCACTGACTTGTGGGCTTTG
* * * * *
50358 AAAGGA-TACCACTAACTTGTGGGTTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGT
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAAGGT
50422 GCCACTGACTTGTGGGCTTTG
65 GCCACTGACTTGTGGGCTTTG
* * * *
50443 AAAAGAATGCCACTGATTTGTGGGCTTTGAAAGGGTGCCACTGACTTGCATGGGCTTTGAAAGGG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTG--TGGGCTTTGAAAAGG
50508 TGCCACTGACTTGTGGGCTTTG
64 TGCCACTGACTTGTGGGCTTTG
* * * * *
50530 AAAGGA-TGCCACTGATTTGTGGGTTTTGAAAAAAGTGCCACTGACTTGTGGGCTTTGAAAGGGT
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGT
50594 GCCACTGACTTGTGGGCTTTG
65 GCCACTGACTTGTGGGCTTTG
* * *
50615 AAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGGT
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAAGGT
50680 GCCACTGACTTGTGGGCTTTG
65 GCCACTGACTTGTGGGCTTTG
* * *
50701 AAAAGAGTTGCCACTGACTCGTGGGCTTTG-AAAGGATGCCACTAACTTATGGGCTTTGAA
1 AAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAA
50761 GAGATGAACG
Statistics
Matches: 729, Mismatches: 79, Indels: 49
0.85 0.09 0.06
Matches are distributed among these distances:
84 34 0.05
85 341 0.47
86 221 0.30
87 92 0.13
89 9 0.01
90 2 0.00
91 12 0.02
93 18 0.02
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (85 bp):
AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTG
CCACTGACTTGTGGGCTTTG
Found at i:50766 original size:28 final size:28
Alignment explanation
Indices: 49919--50760 Score: 1017
Period size: 28 Copynumber: 29.5 Consensus size: 28
49909 TTACCACTAG
*
49919 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGA-TGCCACTGA
*
49948 CTTGTGGGCTTTAAAAAGG-TGCCACTGA
1 CTTGTGGGCTTT-GAAAGGATGCCACTGA
* * *
49976 CTTGTGAGCTTTAAAAAGG-TGCCATTGA
1 CTTGTGGGCTTT-GAAAGGATGCCACTGA
** *
50004 CTTGTGCACTTTGAAAGGATGCCACTAA
1 CTTGTGGGCTTTGAAAGGATGCCACTGA
* *
50032 CTTGTGGGCTTTGAAAAGAGTGCCATTGA
1 CTTGTGGGCTTTGAAAGGA-TGCCACTGA
* *
50061 CTTGTGGGATTTGAAA-GAGTGCCACTAA
1 CTTGTGGGCTTTGAAAGGA-TGCCACTGA
* *
50089 TTTGTGGGCTTTGAAAAGGGTGCCACTGA
1 CTTGTGGGCTTTG-AAAGGATGCCACTGA
* *
50118 CTTGTGGGCTTTGAAAGAATGTCACTGA
1 CTTGTGGGCTTTGAAAGGATGCCACTGA
* **
50146 CTTGTGAGCTTTGAAAAAAGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGA-TGCCACTGA
* *
50175 CTTGTGGGTTTTGAAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGATGCCACTGA
* *
50203 TTTGTGGGCTTTGAAAGGGTGCCACT-A
1 CTTGTGGGCTTTGAAAGGATGCCACTGA
* * *
50230 GCTTGTGGGCTTTAAAAAGAGTGCCACTGG
1 -CTTGTGGGCTTTGAAAGGA-TGCCACTGA
* *
50260 TTTGTGGGCTTTGAAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGATGCCACTGA
* *
50288 CTTGTAGGCTTTGAAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGATGCCACTGA
* *
50316 CTTGTGGGCTTTGAAAAGAGTGCCATTGA
1 CTTGTGGGCTTTGAAAGGA-TGCCACTGA
* * *
50345 TTTGTGGGCTTTGAAAGGATACCACTAA
1 CTTGTGGGCTTTGAAAGGATGCCACTGA
* *
50373 CTTGTGGGTTTTGAAAAGAGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGA-TGCCACTGA
*
50402 CTTGTGGGCTTTGAAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGATGCCACTGA
*
50430 CTTGTGGGCTTTGAAAAGAATGCCACTGA
1 CTTGTGGGCTTTG-AAAGGATGCCACTGA
* *
50459 TTTGTGGGCTTTGAAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGATGCCACTGA
*
50487 CTTGCATGGGCTTTGAAAGGGTGCCACTGA
1 CTTG--TGGGCTTTGAAAGGATGCCACTGA
50517 CTTGTGGGCTTTGAAAGGATGCCACTGA
1 CTTGTGGGCTTTGAAAGGATGCCACTGA
* * **
50545 TTTGTGGGTTTTGAAAAAAGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGA-TGCCACTGA
*
50574 CTTGTGGGCTTTGAAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGATGCCACTGA
50602 CTTGTGGGCTTTGAAAGGAGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGA-TGCCACTGA
50631 CTTGTGGGCTTTGAAAGGAGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGA-TGCCACTGA
*
50660 CTTGTGGGCTTTGAAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGATGCCACTGA
*
50688 CTTGTGGGCTTTGAAAAGAGTTGCCACTGA
1 CTTGTGGGCTTTG-AAAG-GATGCCACTGA
* *
50718 CTCGTGGGCTTTGAAAGGATGCCACTAA
1 CTTGTGGGCTTTGAAAGGATGCCACTGA
*
50746 CTTATGGGCTTTGAA
1 CTTGTGGGCTTTGAA
50761 GAGATGAACG
Statistics
Matches: 707, Mismatches: 88, Indels: 37
0.85 0.11 0.04
Matches are distributed among these distances:
27 6 0.01
28 385 0.54
29 261 0.37
30 55 0.08
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (28 bp):
CTTGTGGGCTTTGAAAGGATGCCACTGA
Found at i:52042 original size:1 final size:1
Alignment explanation
Indices: 52038--52091 Score: 63
Period size: 1 Copynumber: 54.0 Consensus size: 1
52028 TTTTTCTTGG
* * * * *
52038 TTTTTTTGTTTTTTTTGTTTTTTTTTTGTTTTTTGTTTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
52092 GGTGCAAAAG
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (1 bp):
T
Found at i:52050 original size:9 final size:9
Alignment explanation
Indices: 52027--52090 Score: 85
Period size: 9 Copynumber: 6.9 Consensus size: 9
52017 TTTTTGCTAT
52027 TTTTTTCTTG
1 TTTTTT-TTG
*
52037 GTTTTTTTG
1 TTTTTTTTG
52046 TTTTTTTTG
1 TTTTTTTTG
52055 TTTTTTTT-
1 TTTTTTTTG
52063 TTGTTTTTTG
1 TT-TTTTTTG
52073 TTTTTTTTTG
1 -TTTTTTTTG
52083 TTTTTTTT
1 TTTTTTTT
52091 TGGTGCAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
8 2 0.04
9 33 0.67
10 12 0.24
11 2 0.04
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:52059 original size:18 final size:18
Alignment explanation
Indices: 52027--52090 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 18
52017 TTTTTGCTAT
*
52027 TTTTTTCTTGGTTTTTTTG
1 TTTTTT-TTGTTTTTTTTG
52046 TTTTTTTTGTTTTTTTT-
1 TTTTTTTTGTTTTTTTTG
52063 TTGTTTTTTGTTTTTTTTTG
1 TT-TTTTTTG-TTTTTTTTG
52083 TTTTTTTT
1 TTTTTTTT
52091 TGGTGCAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
17 2 0.05
18 17 0.41
19 20 0.49
20 2 0.05
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (18 bp):
TTTTTTTTGTTTTTTTTG
Found at i:52059 original size:28 final size:29
Alignment explanation
Indices: 52008--52094 Score: 106
Period size: 28 Copynumber: 3.0 Consensus size: 29
51998 ATCTAGACAC
* * *
52008 TTTTATGTTTTTTTGCTATTTTTTTCTTGGT
1 TTTTTTGTTTTTTT-TTGTTTTTTT-TTGGT
*
52039 TTTTTTG-TTTTTTTTGTTTTTTTTTTG-
1 TTTTTTGTTTTTTTTTGTTTTTTTTTGGT
52066 TTTTTTGTTTTTTTTTGTTTTTTTTTGGT
1 TTTTTTGTTTTTTTTTGTTTTTTTTTGGT
52095 GCAAAAGACA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
27 7 0.14
28 22 0.45
29 8 0.16
30 6 0.12
31 6 0.12
ACGTcount: A:0.02, C:0.02, G:0.13, T:0.83
Consensus pattern (29 bp):
TTTTTTGTTTTTTTTTGTTTTTTTTTGGT
Found at i:52071 original size:10 final size:10
Alignment explanation
Indices: 52015--52092 Score: 81
Period size: 9 Copynumber: 7.8 Consensus size: 10
52005 CACTTTTATG
*
52015 TTTTTTTGCTA
1 TTTTTTTG-TT
*
52026 TTTTTTTCTT
1 TTTTTTTGTT
52036 GGTTTTTTTG-T
1 --TTTTTTTGTT
52047 TTTTTTTG-T
1 TTTTTTTGTT
52056 TTTTTTT-TT
1 TTTTTTTGTT
*
52065 GTTTTTTGTT
1 TTTTTTTGTT
52075 TTTTTTTGTT
1 TTTTTTTGTT
52085 TTTTTTTG
1 TTTTTTTG
52093 GTGCAAAAGA
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
9 23 0.40
10 20 0.34
11 8 0.14
12 7 0.12
ACGTcount: A:0.01, C:0.03, G:0.12, T:0.85
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:52091 original size:11 final size:11
Alignment explanation
Indices: 52015--52091 Score: 68
Period size: 11 Copynumber: 6.5 Consensus size: 11
52005 CACTTTTATG
52015 TTTTTTTGCTATT
1 TTTTTTTG-T-TT
52028 TTTTTCTTGGTTT
1 TTTTT-TT-GTTT
52041 TTTTGTTT-TTT
1 TTTT-TTTGTTT
*
52052 TTGTTTTTTTTT
1 TT-TTTTTGTTT
52064 TGTTTTTTG-TT
1 T-TTTTTTGTTT
52075 TTTTTTTGTTT
1 TTTTTTTGTTT
52086 TTTTTT
1 TTTTTT
52092 GGTGCAAAAG
Statistics
Matches: 56, Mismatches: 1, Indels: 16
0.77 0.01 0.22
Matches are distributed among these distances:
10 7 0.12
11 19 0.34
12 11 0.20
13 14 0.25
14 4 0.07
15 1 0.02
ACGTcount: A:0.01, C:0.03, G:0.10, T:0.86
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:61534 original size:19 final size:19
Alignment explanation
Indices: 61510--61549 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
61500 AAATAATGAG
*
61510 AATGAATAGCAAGAAAAAA
1 AATGAACAGCAAGAAAAAA
* *
61529 AATGAACATCAATAAAAAA
1 AATGAACAGCAAGAAAAAA
61548 AA
1 AA
61550 GTGGCTCCTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.70, C:0.07, G:0.10, T:0.12
Consensus pattern (19 bp):
AATGAACAGCAAGAAAAAA
Found at i:65768 original size:51 final size:51
Alignment explanation
Indices: 65711--65886 Score: 203
Period size: 51 Copynumber: 3.7 Consensus size: 51
65701 TTTTAACTAG
* **
65711 ATGTATCGATACATTGAAAAAAATATCGATACATCCGAGTAAAAAGACAGA
1 ATGTATCGATACATTGAAGAATGTATCGATACATCCGAGTAAAAAGACAGA
* *
65762 ATGTATCGATACATTGAAGAACGTATCGATACATTC-A-T------AC---
1 ATGTATCGATACATTGAAGAATGTATCGATACATCCGAGTAAAAAGACAGA
* * *
65802 ATGTATCGATATATTGAAGAATGTATCGATACATCTGGGTAAAAAGACAGA
1 ATGTATCGATACATTGAAGAATGTATCGATACATCCGAGTAAAAAGACAGA
65853 ATGTATCGATACATTGAAGAATGTATCGATACAT
1 ATGTATCGATACATTGAAGAATGTATCGATACAT
65887 TCATACATGT
Statistics
Matches: 104, Mismatches: 10, Indels: 22
0.76 0.07 0.16
Matches are distributed among these distances:
40 32 0.31
42 1 0.01
43 2 0.02
48 2 0.02
49 1 0.01
50 1 0.01
51 65 0.62
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (51 bp):
ATGTATCGATACATTGAAGAATGTATCGATACATCCGAGTAAAAAGACAGA
Found at i:65787 original size:20 final size:20
Alignment explanation
Indices: 65759--65926 Score: 133
Period size: 20 Copynumber: 7.8 Consensus size: 20
65749 GTAAAAAGAC
65759 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
65779 AGAACGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
65799 TA-CATGTATCGATATATTGA
1 -AGAATGTATCGATACATTGA
65819 AGAATGTATCGATACATCTGGGTAAAAAGA
1 AGAATGTATCGATACA--T---T-----GA
65849 CAGAATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
65870 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
65890 TA-CATGTATCGATATATTGA
1 -AGAATGTATCGATACATTGA
*
65910 AGAAGGTATCGATACAT
1 AGAATGTATCGATACAT
65927 CTGGGTACTT
Statistics
Matches: 118, Mismatches: 15, Indels: 30
0.72 0.09 0.18
Matches are distributed among these distances:
19 2 0.02
20 90 0.76
21 4 0.03
22 1 0.01
25 1 0.01
26 1 0.01
29 1 0.01
30 2 0.02
31 16 0.14
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:65866 original size:91 final size:91
Alignment explanation
Indices: 65711--65933 Score: 374
Period size: 91 Copynumber: 2.5 Consensus size: 91
65701 TTTTAACTAG
* * * * *
65711 ATGTATCGATACATTGAAAAAAATATCGATACATCCGAGTAAAAAGACAGAATGTATCGATACAT
1 ATGTATCGATATATTGAAGAAAGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACAT
65776 TGAAGAACGTATCGATACATTCATAC
66 TGAAGAACGTATCGATACATTCATAC
*
65802 ATGTATCGATATATTGAAGAATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACAT
1 ATGTATCGATATATTGAAGAAAGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACAT
*
65867 TGAAGAATGTATCGATACATTCATAC
66 TGAAGAACGTATCGATACATTCATAC
*
65893 ATGTATCGATATATTGAAGAAGGTATCGATACATCTGGGTA
1 ATGTATCGATATATTGAAGAAAGTATCGATACATCTGGGTA
65934 CTTTTCCATA
Statistics
Matches: 124, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 124 1.00
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (91 bp):
ATGTATCGATATATTGAAGAAAGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACAT
TGAAGAACGTATCGATACATTCATAC
Found at i:73236 original size:33 final size:32
Alignment explanation
Indices: 73157--73248 Score: 96
Period size: 33 Copynumber: 2.8 Consensus size: 32
73147 GCAAAGTATT
*
73157 TGAAGAAGCAAGAGAAGAAGAAAGAAGAAGAA
1 TGAAGAAACAAGAGAAGAAGAAAGAAGAAGAA
** * *
73189 ACAGGGAAAAAAGAGAAGAAGATAA-AAGAAGATA
1 TGA-AGAAACAAGAGAAGAAGA-AAGAAGAAGA-A
*
73223 TGAAGAAACAAGAGAAGAAAAAAGAA
1 TGAAGAAACAAGAGAAGAAGAAAGAA
73249 AATATAAGCA
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
32 3 0.07
33 39 0.85
34 4 0.09
ACGTcount: A:0.65, C:0.03, G:0.27, T:0.04
Consensus pattern (32 bp):
TGAAGAAACAAGAGAAGAAGAAAGAAGAAGAA
Found at i:74889 original size:20 final size:20
Alignment explanation
Indices: 74864--74929 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
74854 GTTACAAGCT
74864 ATGTATCGATACATTTCTTC
1 ATGTATCGATACATTTCTTC
74884 ATGTATCGATACA-------
1 ATGTATCGATACATTTCTTC
74897 ATGTATCGATACATTTCTTC
1 ATGTATCGATACATTTCTTC
74917 ATGTATCGATACA
1 ATGTATCGATACA
74930 ATGTATCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 13 0.33
20 26 0.67
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTCTTC
Found at i:74902 original size:13 final size:12
Alignment explanation
Indices: 74864--74940 Score: 62
Period size: 13 Copynumber: 6.9 Consensus size: 12
74854 GTTACAAGCT
74864 ATGTATCGATAC
1 ATGTATCGATAC
*
74876 AT-T-TC--TTC
1 ATGTATCGATAC
74884 ATGTATCGATAC
1 ATGTATCGATAC
74896 AATGTATCGATAC
1 -ATGTATCGATAC
*
74909 AT-T-TC--TTC
1 ATGTATCGATAC
74917 ATGTATCGATAC
1 ATGTATCGATAC
74929 AATGTATCGATA
1 -ATGTATCGATA
74941 TATTGTACCA
Statistics
Matches: 51, Mismatches: 4, Indels: 19
0.69 0.05 0.26
Matches are distributed among these distances:
8 8 0.16
9 2 0.04
10 8 0.16
11 2 0.04
12 8 0.16
13 23 0.45
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:74902 original size:33 final size:33
Alignment explanation
Indices: 74864--74963 Score: 159
Period size: 33 Copynumber: 3.0 Consensus size: 33
74854 GTTACAAGCT
74864 ATGTATCGATACATTTCTTCATGTATCGATACA
1 ATGTATCGATACATTTCTTCATGTATCGATACA
74897 ATGTATCGATACATTTCTTCATGTATCGATACA
1 ATGTATCGATACATTTCTTCATGTATCGATACA
*
74930 ATGTATCGATATATTGTAC--CATGTATCGATACA
1 ATGTATCGATACATT-T-CTTCATGTATCGATACA
74963 A
1 A
74964 ATAGTAATAG
Statistics
Matches: 64, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
33 62 0.97
34 1 0.02
35 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (33 bp):
ATGTATCGATACATTTCTTCATGTATCGATACA
Found at i:74947 original size:13 final size:13
Alignment explanation
Indices: 74884--74940 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
74874 ACATTTCTTC
74884 ATGTATCGATACA
1 ATGTATCGATACA
74897 ATGTATCGATAC-
1 ATGTATCGATACA
*
74909 AT-T-TC--TTC-
1 ATGTATCGATACA
74917 ATGTATCGATACA
1 ATGTATCGATACA
74930 ATGTATCGATA
1 ATGTATCGATA
74941 TATTGTACCA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 4 0.11
9 1 0.03
10 4 0.11
11 1 0.03
12 4 0.11
13 23 0.62
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:75877 original size:254 final size:254
Alignment explanation
Indices: 75428--75940 Score: 965
Period size: 254 Copynumber: 2.0 Consensus size: 254
75418 AGGAAATTTC
75428 AAATTTTCAGTTTCGGGCAGCATATATGATCTTACCGAATTGTTCAAGCTTATAATCGATCATTC
1 AAATTTTCAGTTTCGGGCAGCATATATGATCTTACCGAATTGTTCAAGCTTATAATCGATCATTC
* *
75493 TCTTGTATCAACATTGTTCAAAACCTGTAATCTGATATACATCTTCAAGAAACACATTAGAAAGT
66 TCTTGTATCAACATAGTTCAAAACCTGTAATCTGATACACATCTTCAAGAAACACATTAGAAAGT
*
75558 TCAAATATCAAAGTTTCGGTTTTTCTCCCCCTTAAACGATTATTTCCTCCTTTATAAAAAATTTT
131 TCAAATATCAAAGTTTCGATTTTTCTCCCCCTTAAACGATTATTTCCTCCTTTATAAAAAATTTT
*
75623 CCCTTTTAACAATTACCTTAAAATTTTCCCCCTTTAATAATTATCTTCTCCCCCTTAAA
196 CCCTTTTAACAATTACCTTAAAATTTTCCCCATTTAATAATTATCTTCTCCCCCTTAAA
*
75682 AAATTTTCA-TTTCCGGGTAGCATATATGATCTTACCGAATTGTTCAAGCTTATAATCGATCATT
1 AAATTTTCAGTTT-CGGGCAGCATATATGATCTTACCGAATTGTTCAAGCTTATAATCGATCATT
75746 CTCTTGTATCAACATAGTTCAAAACCTGTAATCTGATACACATCTTCAAGAAACACATTAGAAAG
65 CTCTTGTATCAACATAGTTCAAAACCTGTAATCTGATACACATCTTCAAGAAACACATTAGAAAG
75811 TTCAAATATCAAAGTTTCGATTTTTCTCCCCCTTAAACGATTATTTCCTCCTTTATAAAAAATTT
130 TTCAAATATCAAAGTTTCGATTTTTCTCCCCCTTAAACGATTATTTCCTCCTTTATAAAAAATTT
75876 TCCCTTTTAACAATTACCTTAAAATTTTCCCCATTTAATAATTATCTTCTCCCCCTTAAA
195 TCCCTTTTAACAATTACCTTAAAATTTTCCCCATTTAATAATTATCTTCTCCCCCTTAAA
75936 AAATT
1 AAATT
75941 CTCCCCCTTT
Statistics
Matches: 253, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
253 3 0.01
254 250 0.99
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (254 bp):
AAATTTTCAGTTTCGGGCAGCATATATGATCTTACCGAATTGTTCAAGCTTATAATCGATCATTC
TCTTGTATCAACATAGTTCAAAACCTGTAATCTGATACACATCTTCAAGAAACACATTAGAAAGT
TCAAATATCAAAGTTTCGATTTTTCTCCCCCTTAAACGATTATTTCCTCCTTTATAAAAAATTTT
CCCTTTTAACAATTACCTTAAAATTTTCCCCATTTAATAATTATCTTCTCCCCCTTAAA
Found at i:77203 original size:13 final size:13
Alignment explanation
Indices: 77162--77210 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
77152 CGTTACAAGC
77162 CAATGTATCGATA
1 CAATGTATCGATA
*
77175 CAAT-T-T-GGT-
1 CAATGTATCGATA
77184 C-ATGTATCGATA
1 CAATGTATCGATA
77196 CAATGTATCGATA
1 CAATGTATCGATA
77209 CA
1 CA
77211 TCTTGTATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
8 2 0.07
9 2 0.07
10 3 0.10
11 3 0.10
12 2 0.07
13 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:77205 original size:34 final size:32
Alignment explanation
Indices: 77162--77230 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
77152 CGTTACAAGC
77162 CAATGTATCGATACAAT-TTGGTCATGTATCGATA
1 CAATGTATCGATAC-ATCTT-GT-ATGTATCGATA
77196 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGTATCGATA
77228 CAA
1 CAA
77231 ACAGTTAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 14 0.41
33 4 0.12
34 16 0.47
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTATCGATA
Found at i:79806 original size:13 final size:13
Alignment explanation
Indices: 79788--79826 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
79778 ATAATTGCCA
*
79788 TGTATCAATACAG
1 TGTATCGATACAG
*
79801 TGTATCGATACAA
1 TGTATCGATACAG
79814 TGTATCGATACAG
1 TGTATCGATACAG
79827 AGAATGCTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:84258 original size:79 final size:77
Alignment explanation
Indices: 84167--84532 Score: 275
Period size: 79 Copynumber: 4.6 Consensus size: 77
84157 AGTACCCTTG
*
84167 ATTATGAAAAATTGGTGTTCTAGAAATAAAATTGAGGTTGGAGTATCCCCTTGGAAATAACAGGG
1 ATTATG-AAAATTGGTGTT-TAGAAATAAAATTGAGGTTGGAGTATCCCCTCGGAAATAACAGGG
* *
84232 TTGGATTATCCCTA
64 TTGGAGTATCCCCA
* * * *
84246 ATTATAGAAAATTGGTGTTTTGAAAATAAAA-TCAGGGTTGGAGTATCCCCGCGAAAATAACAGG
1 ATTAT-GAAAATTGGTGTTTAG-AAATAAAATTGA-GGTTGGAGTATCCCCTCGGAAATAACAGG
* *
84310 GTTGTAGTATCCCCG
63 GTTGGAGTATCCCCA
* *** * * * *
84325 ATTGTGAGAAATCAATATTTTAGGAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACAGGG
1 ATTATGA-AAATTGGT-GTTTAGAAATAAAATTGAGGTTGGAGTATCCCCTCGGAAATAACAGGG
* *
84390 TTGGAGTATCTCCG
64 TTGGAGTATCCCCA
* *** * * * * * ** *
84404 ATTGTGAGAAATCAATATTTTAGGAATAAAATCGGGGTTGGAGTATCCCTTCAAAAATAACGGGG
1 ATTATGA-AAATTGGT-GTTTAGAAATAAAATTGAGGTTGGAGTATCCCCTCGGAAATAACAGGG
84469 TTGGAGTATCCCCA
64 TTGGAGTATCCCCA
* *** * ** *
84483 ATTGTGAGAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 ATTATGA-AAATTGGT-GTTTAGAAATAAAATTGAGGTTGGAGTATCCCC
84533 GATTATGAGA
Statistics
Matches: 249, Mismatches: 32, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
78 6 0.02
79 238 0.96
80 5 0.02
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (77 bp):
ATTATGAAAATTGGTGTTTAGAAATAAAATTGAGGTTGGAGTATCCCCTCGGAAATAACAGGGTT
GGAGTATCCCCA
Found at i:84302 original size:26 final size:27
Alignment explanation
Indices: 84273--84324 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
84263 TTTTGAAAAT
84273 AAAAT-CAGGGTTGGAGTATCCCCGCG
1 AAAATACAGGGTTGGAGTATCCCCGCG
*
84299 AAAATAACAGGGTTGTAGTATCCCCG
1 AAAAT-ACAGGGTTGGAGTATCCCCG
84325 ATTGTGAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 5 0.22
28 18 0.78
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (27 bp):
AAAATACAGGGTTGGAGTATCCCCGCG
Found at i:84479 original size:158 final size:158
Alignment explanation
Indices: 84187--84532 Score: 464
Period size: 158 Copynumber: 2.2 Consensus size: 158
84177 ATTGGTGTTC
* * * *
84187 TAGAAATAAAATTGAGGTTGGAGTATCCCCTTGGAAATAACAGGGTTGGATTATCCCTAATTATA
1 TAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCTAATTATA
*** * * *
84252 GAAAATTGGTGTTTTGAAAATAAAATCAGGGTTGGAGTATCCCCGCGAAAATAACAGGGTTGTAG
66 GAAAATCAATATTTTGAAAATAAAATCAGGGTTGGAGTATCCCCGCAAAAATAACAGGGTTGGAG
*
84317 TATCCCCGATTGTGAGAAATCAATATTT
131 TATCCCCAATTGTGAGAAATCAATATTT
* * *
84345 TAGGAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCTCC-GATTGT
1 TAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATC-CCTAATTAT
* * ** *
84409 -GAGAAATCAATATTTT-AGGAATAAAATCGGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTG
65 AGA-AAATCAATATTTTGA-AAATAAAATCAGGGTTGGAGTATCCCCGCAAAAATAACAGGGTTG
84472 GAGTATCCCCAATTGTGAGAAATCAATATTT
128 GAGTATCCCCAATTGTGAGAAATCAATATTT
*
84503 TAGAAATAAAACCGGGGTTGGAGTATCCCC
1 TAGAAATAAAATCGGGGTTGGAGTATCCCC
84533 GATTATGAGA
Statistics
Matches: 164, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
157 3 0.02
158 159 0.97
159 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (158 bp):
TAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCTAATTATA
GAAAATCAATATTTTGAAAATAAAATCAGGGTTGGAGTATCCCCGCAAAAATAACAGGGTTGGAG
TATCCCCAATTGTGAGAAATCAATATTT
Found at i:84531 original size:51 final size:51
Alignment explanation
Indices: 84464--84583 Score: 195
Period size: 51 Copynumber: 2.4 Consensus size: 51
84454 TCAAAAATAA
*
84464 CGGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAAC
* * *
84515 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAGC
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAAC
*
84566 CGGGGTTGAAGTATCCCC
1 CGGGGTTGGAGTATCCCC
84584 TCGAAAATAA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.27
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAAC
Found at i:84542 original size:130 final size:131
Alignment explanation
Indices: 84387--84714 Score: 455
Period size: 130 Copynumber: 2.5 Consensus size: 131
84377 GGAAATAACA
* *
84387 GGGTTGGAGTATCTCCGATTGTGAGAAATCAATATTTTAGGAATAAAATCGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAATCGGGGTTGGAGTATCC
* * *
84452 CTTCAAAAATAACGGGGTTGGAGTATCCCCAATTGTGAGAAATCAAT-ATTTTAGAAATAAAACC
66 CCTCAAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTTTAGAAATAAAACC
84516 G
131 G
** *
84517 GGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGAAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAATCGGGGTTGGAGTATCC
* * * * *
84582 CCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTTAGAAATAAAATC
66 CCTCAAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTTTAGAAATAAAACC
84647 G
131 G
** ** *
84648 AAGTTGGAGTATCCCCGATTAT-AGAAAATTGATATTTT-GAAAATAAAATCGGGGTTGGAGTAT
1 GGGTTGGAGTATCCCCGATTATGAG-AAATCAATATTTTAG-GAATAAAATCGGGGTTGGAGTAT
84711 CCCC
64 CCCC
84715 GATTTTGGAA
Statistics
Matches: 174, Mismatches: 21, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
130 104 0.60
131 70 0.40
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.29
Consensus pattern (131 bp):
GGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAATCGGGGTTGGAGTATCC
CCTCAAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTTTAGAAATAAAACC
G
Found at i:84713 original size:51 final size:51
Alignment explanation
Indices: 84594--84832 Score: 265
Period size: 51 Copynumber: 4.6 Consensus size: 51
84584 TCGAAAATAA
* *
84594 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATG-AAAATTGATGTTTTGAGAAATAAAAT
** *
84646 CGAAGTTGGAGTATCCCCGATTATAGAAAATTGATATTTTGA-AAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTAT-GAAAATTGATGTTTTGAGAAATAAAAT
* * *
84697 CGGGGTTGGAGTATCCCCGATTTTGGAAAATTGGTGTTTCGA-AAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTAT-GAAAATTGATGTTTTGAGAAATAAAAT
* * *
84748 CGGAGTTGGAATATCCCCGATTGTGGAAAATT-AGTGTTTT-AGAAATAAAA-
1 CGGGGTTGGAGTATCCCCGATTAT-GAAAATTGA-TGTTTTGAGAAATAAAAT
84798 CAGGGGTTGGAGTA-CCCTCGATTATGAAAAATTGA
1 C-GGGGTTGGAGTATCCC-CGATTATG-AAAATTGA
84833 GAAACTTAAC
Statistics
Matches: 160, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
50 6 0.04
51 117 0.73
52 36 0.22
53 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAATTGATGTTTTGAGAAATAAAAT
Found at i:84777 original size:102 final size:102
Alignment explanation
Indices: 84592--84832 Score: 310
Period size: 102 Copynumber: 2.4 Consensus size: 102
84582 CCTCGAAAAT
* ** *
84592 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTTAGAAATAAAATCGAAGTTGGAG
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTCGAGAAATAAAATCGAAGTTGGAA
84657 TATCCCCGATTATAGAAAATT-GATATTTT-GAAAATAA
66 TATCCCCGATTATAGAAAATTAG-TATTTTAG-AAATAA
* * * *
84694 AATCGGGGTTGGAGTATCCCCGATTTTGGAAAATTGGTGTTTCGA-AAATAAAATCGGAGTTGGA
1 AA-CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTCGAGAAATAAAATCGAAGTTGGA
* * *
84758 ATATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAA
65 ATATCCCCGATTATAGAAAATTAGTATTTTAGAAATAA
84796 AACAGGGGTTGGAGTA-CCCTCGATTATGAAAAATTGA
1 AAC-GGGGTTGGAGTATCCC-CGATTATGAAAAATTGA
84833 GAAACTTAAC
Statistics
Matches: 120, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
101 4 0.03
102 78 0.65
103 38 0.32
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (102 bp):
AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTCGAGAAATAAAATCGAAGTTGGAA
TATCCCCGATTATAGAAAATTAGTATTTTAGAAATAA
Found at i:87170 original size:13 final size:13
Alignment explanation
Indices: 87154--87184 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
87144 ATACAATGAG
*
87154 CAATTTATCGATA
1 CAATGTATCGATA
87167 CAATGTATCGATA
1 CAATGTATCGATA
87180 CAATG
1 CAATG
87185 AGCAATGTAT
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:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:87180 original size:33 final size:33
Alignment explanation
Indices: 87132--87206 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
87122 CGATACCTTG
* *
87132 TAAAATGTATTGATACAATGAGCAATTTATCGA
1 TAAAATGTATCGATACAATGAGCAATGTATCGA
*
87165 TACAATGTATCGATACAATGAGCAATGTATCGA
1 TAAAATGTATCGATACAATGAGCAATGTATCGA
87198 TAAAATGTA
1 TAAAATGTA
87207 AAATGTATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.31
Consensus pattern (33 bp):
TAAAATGTATCGATACAATGAGCAATGTATCGA
Found at i:87190 original size:20 final size:20
Alignment explanation
Indices: 87165--87221 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
87155 AATTTATCGA
87165 TACAATGTATCGATACAATG
1 TACAATGTATCGATACAATG
*
87185 -AGCAATGTATCGATAAAATG
1 TA-CAATGTATCGATACAATG
*
87205 TAAAATGTATCGATACA
1 TACAATGTATCGATACA
87222 TCTGGGTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (20 bp):
TACAATGTATCGATACAATG
Found at i:87278 original size:13 final size:13
Alignment explanation
Indices: 87260--87285 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
87250 ACAAAGATCG
87260 ATGTATCGATACA
1 ATGTATCGATACA
87273 ATGTATCGATACA
1 ATGTATCGATACA
87286 TTTAATAATG
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:88075 original size:13 final size:13
Alignment explanation
Indices: 88057--88082 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88047 CAATTTTTTG
88057 TGTATCGATACAT
1 TGTATCGATACAT
88070 TGTATCGATACAT
1 TGTATCGATACAT
88083 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:90458 original size:21 final size:21
Alignment explanation
Indices: 90434--90480 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
90424 TTTAATGCTG
90434 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
90454 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
90475 ATTTTG
1 ATTTTG
90481 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:90619 original size:13 final size:13
Alignment explanation
Indices: 90601--90639 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
90591 ATAATCACCC
*
90601 TGTATCGATACAG
1 TGTATCGATACAA
90614 TGTATCGATACAA
1 TGTATCGATACAA
90627 TGTATCGATACAA
1 TGTATCGATACAA
90640 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:90650 original size:20 final size:20
Alignment explanation
Indices: 90625--90663 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
90615 GTATCGATAC
90625 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
90645 AATGTATCGATACATAGAA
1 AATGTATCGATACAAAGAA
90664 TTTCCAGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.10, G:0.15, T:0.23
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:92738 original size:15 final size:15
Alignment explanation
Indices: 92718--92748 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
92708 ATTTCGTTTG
*
92718 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
92733 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
92748 G
1 G
92749 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:94581 original size:21 final size:21
Alignment explanation
Indices: 94552--94596 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
94542 AAGTTTTCAT
*
94552 TTTTCTTAGCTAA-TTCATTA
1 TTTTCTTAGCCAACTTCATTA
*
94572 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
94594 TTT
1 TTT
94597 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 7 0.33
22 9 0.43
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:96833 original size:13 final size:13
Alignment explanation
Indices: 96815--96840 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
96805 CAATTTTTTG
96815 TGTATCGATACAT
1 TGTATCGATACAT
96828 TGTATCGATACAT
1 TGTATCGATACAT
96841 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:98496 original size:24 final size:25
Alignment explanation
Indices: 98464--98510 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
98454 ATGTGGCTAC
* *
98464 CATGGCTTTCTTCTTT-GGTTTACT
1 CATGCCTTTCTTATTTAGGTTTACT
98488 CATGCCTTTCTTATTTAGGTTTA
1 CATGCCTTTCTTATTTAGGTTTA
98511 GACAATCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.13, C:0.19, G:0.15, T:0.53
Consensus pattern (25 bp):
CATGCCTTTCTTATTTAGGTTTACT
Found at i:100337 original size:13 final size:13
Alignment explanation
Indices: 100296--100376 Score: 64
Period size: 13 Copynumber: 6.2 Consensus size: 13
100286 CGTTACAAGC
100296 CAATGTATCGATA
1 CAATGTATCGATA
*
100309 CAAT-T-T-GGT-
1 CAATGTATCGATA
100318 C-ATGTATCGATA
1 CAATGTATCGATA
100330 CAATGTATCGATA
1 CAATGTATCGATA
100343 CATCTTGTATGTATCGATA
1 CA------ATGTATCGATA
100362 CAATGTATCGATA
1 CAATGTATCGATA
100375 CA
1 CA
100377 TCTTGTATGT
Statistics
Matches: 55, Mismatches: 2, Indels: 22
0.70 0.03 0.28
Matches are distributed among these distances:
8 2 0.04
9 2 0.04
10 3 0.05
11 3 0.05
12 2 0.04
13 30 0.55
19 13 0.24
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:100356 original size:19 final size:19
Alignment explanation
Indices: 100332--100395 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
100322 TATCGATACA
100332 ATGTATCGATACATCTTGT
1 ATGTATCGATACATCTTGT
100351 ATGTATCGATACA------
1 ATGTATCGATACATCTTGT
100364 ATGTATCGATACATCTTGT
1 ATGTATCGATACATCTTGT
100383 ATGTATCGATACA
1 ATGTATCGATACA
100396 AACAGTTAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 13 0.33
19 26 0.67
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (19 bp):
ATGTATCGATACATCTTGT
Found at i:100360 original size:32 final size:32
Alignment explanation
Indices: 100296--100396 Score: 168
Period size: 32 Copynumber: 3.1 Consensus size: 32
100286 CGTTACAAGC
100296 CAATGTATCGATACAAT-TTGGTCATGTATCGATA
1 CAATGTATCGATAC-ATCTT-GT-ATGTATCGATA
100330 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGTATCGATA
100362 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGTATCGATA
100394 CAA
1 CAA
100397 ACAGTTAAGG
Statistics
Matches: 66, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
32 46 0.70
33 4 0.06
34 16 0.24
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTATCGATA
Found at i:100494 original size:13 final size:13
Alignment explanation
Indices: 100476--100500 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100466 TACAGTGGTC
100476 ATGTATCGATACA
1 ATGTATCGATACA
100489 ATGTATCGATAC
1 ATGTATCGATAC
100501 TGTGCATTAT
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:100518 original size:33 final size:32
Alignment explanation
Indices: 100459--100521 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
100449 ATCTTTGCAA
*
100459 GTATCGATACAGTGGTCATGTATCGATACAAT
1 GTATCGATACAGTGATCATGTATCGATACAAT
* *
100491 GTATCGATACTGTGCATTATGTATCGATACA
1 GTATCGATACAGTG-ATCATGTATCGATACA
100522 TCTGAAGATG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (32 bp):
GTATCGATACAGTGATCATGTATCGATACAAT
Found at i:102505 original size:13 final size:13
Alignment explanation
Indices: 102487--102514 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
102477 AATAGTACCT
102487 AATGTATCGATAC
1 AATGTATCGATAC
102500 AATGTATCGATAC
1 AATGTATCGATAC
102513 AA
1 AA
102515 GGAATGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:107163 original size:35 final size:35
Alignment explanation
Indices: 107122--107226 Score: 201
Period size: 35 Copynumber: 3.0 Consensus size: 35
107112 GACACTTGCC
107122 TTCTTCGGAGGTTCTTGTACGTGTGCATATTTAAT
1 TTCTTCGGAGGTTCTTGTACGTGTGCATATTTAAT
*
107157 TTCTTCGGAGGTTCTTGTACGTGTGTATATTTAAT
1 TTCTTCGGAGGTTCTTGTACGTGTGCATATTTAAT
107192 TTCTTCGGAGGTTCTTGTACGTGTGCATATTTAAT
1 TTCTTCGGAGGTTCTTGTACGTGTGCATATTTAAT
107227 CTTCATTTCA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.17, C:0.13, G:0.23, T:0.47
Consensus pattern (35 bp):
TTCTTCGGAGGTTCTTGTACGTGTGCATATTTAAT
Found at i:108772 original size:13 final size:13
Alignment explanation
Indices: 108754--108784 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
108744 ACATTTCTTC
108754 ATGTATCGATACA
1 ATGTATCGATACA
108767 ATGTATCGATACA
1 ATGTATCGATACA
*
108780 TTGTA
1 ATGTA
108785 CCATGTATCG
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:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:108772 original size:33 final size:33
Alignment explanation
Indices: 108734--108800 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
108724 ATTACAAACT
108734 ATGTATCAATACATT-T-CTTCATGTATCGATACA
1 ATGTATCAATACATTGTAC--CATGTATCGATACA
*
108767 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCAATACATTGTACCATGTATCGATACA
108800 A
1 A
108801 ATAGTGATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (33 bp):
ATGTATCAATACATTGTACCATGTATCGATACA
Found at i:108889 original size:13 final size:13
Alignment explanation
Indices: 108871--108897 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
108861 TACAATCAAC
108871 ATGTATCGATACA
1 ATGTATCGATACA
108884 ATGTATCGATACA
1 ATGTATCGATACA
108897 A
1 A
108898 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:108912 original size:33 final size:32
Alignment explanation
Indices: 108852--108916 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
108842 TAATTTGTCC
*
108852 ATGTATCGATACAATCAACATGTATCGATACA
1 ATGTATCGATACAAGCAACATGTATCGATACA
*
108884 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATAC-AAGCAACATGTATCGATACA
108917 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.40
33 18 0.60
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAGCAACATGTATCGATACA
Found at i:110592 original size:13 final size:13
Alignment explanation
Indices: 110574--110604 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
110564 ACATTTCTTC
110574 ATGTATCGATACA
1 ATGTATCGATACA
110587 ATGTATCGATACA
1 ATGTATCGATACA
*
110600 TTGTA
1 ATGTA
110605 CCATGTATCA
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:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:110694 original size:19 final size:20
Alignment explanation
Indices: 110670--110722 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
110660 ATAATTTGTC
*
110670 CATGTATCGATACAATG-AA
1 CATGTATCGATACAAAGCAA
*
110689 CATGTATCGATACAAAGCAG
1 CATGTATCGATACAAAGCAA
110709 CATGTATCGATACA
1 CATGTATCGATACA
110723 TCTGGGTGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.25
Consensus pattern (20 bp):
CATGTATCGATACAAAGCAA
Found at i:112400 original size:13 final size:13
Alignment explanation
Indices: 112382--112411 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
112372 CATTTCTTCA
112382 TGTATCGATACAT
1 TGTATCGATACAT
112395 TGTATCGATACAT
1 TGTATCGATACAT
112408 TGTA
1 TGTA
112412 CCATGTATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:112501 original size:19 final size:20
Alignment explanation
Indices: 112477--112529 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
112467 ATAATTTGTC
*
112477 CATGTATCGATACAATG-AA
1 CATGTATCGATACAAAGCAA
*
112496 CATGTATCGATACAAAGCAG
1 CATGTATCGATACAAAGCAA
112516 CATGTATCGATACA
1 CATGTATCGATACA
112530 TCTGGGTGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.25
Consensus pattern (20 bp):
CATGTATCGATACAAAGCAA
Found at i:116530 original size:17 final size:17
Alignment explanation
Indices: 116508--116540 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
116498 AAAGTGTTTG
116508 AAAAAAAAAAATTAAAA
1 AAAAAAAAAAATTAAAA
*
116525 AAAAAAAAAATTTAAA
1 AAAAAAAAAAATTAAA
116541 TGTATCGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAAAAAAAATTAAAA
Found at i:116563 original size:21 final size:21
Alignment explanation
Indices: 116539--116595 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
116529 AAAAAATTTA
116539 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
116560 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
116581 AATGTATCGATACAT
1 AATGTATCGATACAT
116596 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:116675 original size:19 final size:19
Alignment explanation
Indices: 116651--116718 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
116641 AATTCAACAA
116651 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
116670 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
116685 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
116702 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
116719 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:116690 original size:13 final size:13
Alignment explanation
Indices: 116672--116696 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
116662 ACATAAGTTT
116672 TGTATCGATACAA
1 TGTATCGATACAA
116685 TGTATCGATACA
1 TGTATCGATACA
116697 TAAGTATTGT
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:116694 original size:32 final size:32
Alignment explanation
Indices: 116653--116715 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
116643 TTCAACAATT
*
116653 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
116685 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
116716 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:116776 original size:13 final size:13
Alignment explanation
Indices: 116758--116783 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
116748 CATTTTTCTG
116758 TGTATCGATACAT
1 TGTATCGATACAT
116771 TGTATCGATACAT
1 TGTATCGATACAT
116784 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:116780 original size:33 final size:33
Alignment explanation
Indices: 116738--116804 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
116728 GCCAAGGAAA
***
116738 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
116771 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
116804 T
1 T
116805 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:119283 original size:27 final size:28
Alignment explanation
Indices: 119253--119328 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
119243 TTTCTTCACA
119253 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
119280 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
119308 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
119329 GTTTTATCGC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 24 0.55
28 20 0.45
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:119344 original size:107 final size:103
Alignment explanation
Indices: 119233--119594 Score: 277
Period size: 107 Copynumber: 3.4 Consensus size: 103
119223 ATTTCCAAAA
*
119233 AAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAACC
1 AAAACACCAATTT-TTCACAATCGGGGATACTCCAACCCCGTTAATCATC-GGGATACTCCAATC
*
119298 CCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATCGCT
64 CCGTTA-TTCCGAGGGGATACTCCAACCCCGATTTTATC-CT
* ** * ** * * *
119340 AAAACACTAATTTTTCCACAATCGGGGATACTCCAATCCTGGTTTTATTTTC--AAAACGCCAAT
1 AAAACACCAATTTTT-CACAATCGGGGATACTCCAA-CCCCG-TTAATCATCGGGATACTCCAA-
* * * * *
119403 TTTCCTTTAAT-C--GGGGATACTCCAACTCCGATTTTATTTCCA
62 -TCCCGTTATTCCGAGGGGATACTCCAACCCCGATTTTA--TCCT
* * * *
119445 AAAATACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGAGGATACTCCAATC
1 AAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTA-ATCATCG-GGATACTCCAATC
* * *
119510 CCGTTACTTCCGAGGGGATACTCCAATCCCGATTTTTTTTTCT
64 CCGTTA-TTCCGAGGGGATACTCCAACCCCGA--TTTTATCCT
* * * * * *
119553 -AATCATCGATTTCTCACAACCGGGGATACTCCAGCCCCGTTA
1 AAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTA
119595 TTTTCAAGGG
Statistics
Matches: 194, Mismatches: 44, Indels: 34
0.71 0.16 0.12
Matches are distributed among these distances:
102 2 0.01
103 7 0.04
104 47 0.24
105 15 0.08
106 20 0.10
107 66 0.34
108 27 0.14
109 6 0.03
110 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.30
Consensus pattern (103 bp):
AAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTAATCATCGGGATACTCCAATCCC
GTTATTCCGAGGGGATACTCCAACCCCGATTTTATCCT
Found at i:119480 original size:52 final size:51
Alignment explanation
Indices: 119142--119480 Score: 190
Period size: 52 Copynumber: 6.4 Consensus size: 51
119132 ATCAATTCTC
* * * *
119142 CACAATCGAGGG-TATTCCAACTCCGATTTTATTTTCAAAACACTAA-TTTT
1 CACAATCG-GGGATACTCCAACTCCGGTTTTATTTCCAAAACACCAATTTTT
* * *
119192 CTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAAAACACCAATTTCTT
1 C-ACAATCGGGGATACTCCAACTCCGGTTTTATTTCC----AAAACACCAATTT-TT
* * * ** * *
119249 CACAATCGGGGATACTCCAAC-CCCG-TTAATCATCGGGGATACTCCAACCCCGTTATTT
1 CACAATCGGGGATACTCCAACTCCGGTTTTAT-TTC--CAAAACACCAA-----TT-TTT
* * ** * *
119307 C-CGA--GGGGATACTCCAACCCCGGTTTTATCGCTAAAACACTAATTTTT
1 CACAATCGGGGATACTCCAACTCCGGTTTTATTTCCAAAACACCAATTTTT
* * *
119355 CCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTC
1 -CACAATCGGGGATACTCCAACTCC-GGTTTTATTTCCAAAACACCAATTTTT
** * *
119407 CTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
1 C-ACAATCGGGGATACTCCAACTCCGGTTTTATTTCC-AAAACACCAATTTTT
*
119460 CACAATCGAGGATACTCCAAC
1 CACAATCGGGGATACTCCAAC
119481 CTCGTTATTT
Statistics
Matches: 218, Mismatches: 44, Indels: 52
0.69 0.14 0.17
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 6 0.03
51 30 0.14
52 77 0.35
53 23 0.11
54 10 0.05
55 27 0.12
56 24 0.11
57 9 0.04
58 5 0.02
59 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (51 bp):
CACAATCGGGGATACTCCAACTCCGGTTTTATTTCCAAAACACCAATTTTT
Found at i:119492 original size:31 final size:28
Alignment explanation
Indices: 119464--119540 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
119454 ATTTTTCACA
119464 ATCGAGGATACTCCAA-CCTCGTTATTTC
1 ATCGAGGATACTCCAATCC-CGTTATTTC
*
119492 ATCGAGGATACTCCAATCCCGTTACTTC
1 ATCGAGGATACTCCAATCCCGTTATTTC
119520 --CGAGGGGATACTCCAATCCCG
1 ATCGA--GGATACTCCAATCCCG
119541 ATTTTTTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
26 3 0.07
28 40 0.89
29 2 0.04
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (28 bp):
ATCGAGGATACTCCAATCCCGTTATTTC
Found at i:119528 original size:212 final size:212
Alignment explanation
Indices: 119140--119545 Score: 595
Period size: 212 Copynumber: 1.9 Consensus size: 212
119130 TTATCAATTC
* *
119140 TCCACAATCGAGGGTATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGGTACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
119205 TACTCTAACTCCGATTTTATTTCCAAAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAAC
66 TACTCCAACTCCGATTTTATTTCC--AAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* * *
119270 CCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTA
129 CCCGTTAATCATCGAGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGATTTTA
119335 TCGCTAAAACACTAATTTT
194 TCGCTAAAACACTAATTTT
* * *
119354 TCCACAATCG-GGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGG
1 TCCACAATCGAGGG-TACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGG
*
119417 GGATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAA
63 GGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAA
* * * *
119480 CCTCGTTATTTCATCGAGGATACTCCAATCCCGTTACTTCCGAGGGGATACTCCAATCCCGATTT
128 CCCCGTTA-ATCATCGAGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGATTT
119545 T
192 T
119546 TTTTTCTAAT
Statistics
Matches: 173, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
211 28 0.16
212 64 0.37
213 6 0.03
214 40 0.23
215 35 0.20
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (212 bp):
TCCACAATCGAGGGTACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGAGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGATTTTATC
GCTAAAACACTAATTTT
Found at i:125467 original size:13 final size:13
Alignment explanation
Indices: 125449--125473 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
125439 ATAATGCACA
125449 GTATCGATACATT
1 GTATCGATACATT
125462 GTATCGATACAT
1 GTATCGATACAT
125474 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:125486 original size:20 final size:21
Alignment explanation
Indices: 125461--125513 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
125451 ATCGATACAT
*
125461 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
*
125481 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
125502 TGTATCGATACA
1 TGTATCGATACA
125514 GGTGAGTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:125591 original size:13 final size:13
Alignment explanation
Indices: 125573--125598 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
125563 TACACACAAG
125573 ATGTATCGATACA
1 ATGTATCGATACA
125586 ATGTATCGATACA
1 ATGTATCGATACA
125599 TCCCAAAATG
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:125615 original size:33 final size:32
Alignment explanation
Indices: 125555--125618 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
125545 CTTAACTGTT
*
125555 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
125587 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
125619 TTGTCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:131768 original size:13 final size:13
Alignment explanation
Indices: 131750--131774 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
131740 CAGCATTCTC
131750 TGTATCGATACAG
1 TGTATCGATACAG
131763 TGTATCGATACA
1 TGTATCGATACA
131775 AAGGGTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:134246 original size:20 final size:20
Alignment explanation
Indices: 134199--134274 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
134189 CAAAACCCTT
* *
134199 AAATGTATCGATACATAATGC
1 AAATGTATCGATACATGA-CC
*
134220 ACA-GTATCGATACATGACC
1 AAATGTATCGATACATGACC
* *
134239 AAATGTATCGATACTTG-CAA
1 AAATGTATCGATACATGAC-C
134259 AGAATGTATCGATACA
1 A-AATGTATCGATACA
134275 GGTGATTGGC
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 4 0.09
20 26 0.58
21 15 0.33
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (20 bp):
AAATGTATCGATACATGACC
Found at i:134368 original size:33 final size:32
Alignment explanation
Indices: 134305--134368 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
134295 CTTAACTGTT
*
134305 TGTATCGATACACACAAGATGTATCAATACAA
1 TGTATCGATACACACAAAATGTATCAATACAA
* *
134337 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCAATACA
134369 TTGACCTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCAATACAA
Found at i:135455 original size:13 final size:13
Alignment explanation
Indices: 135437--135467 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
135427 ACAATTCTTC
135437 ATGTATCGATACA
1 ATGTATCGATACA
135450 ATGTATCGATACA
1 ATGTATCGATACA
*
135463 TTGTA
1 ATGTA
135468 CCATGTATCG
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:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:135455 original size:33 final size:33
Alignment explanation
Indices: 135417--135487 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
135407 GTTACAAGCT
*
135417 ATGTATCGATACAATTCT-TCATGTATCGATACA
1 ATGTATCGATAC-ATTCTACCATGTATCGATACA
*
135450 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTCTACCATGTATCGATACA
*
135483 TTGTA
1 ATGTA
135488 CCATGTATCG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 4 0.12
33 30 0.88
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (33 bp):
ATGTATCGATACATTCTACCATGTATCGATACA
Found at i:135475 original size:20 final size:20
Alignment explanation
Indices: 135450--135502 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
135440 TATCGATACA
135450 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
135470 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
135490 ATGTATCGATACA
1 ATGTATCGATACA
135503 AATATTGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:135558 original size:21 final size:19
Alignment explanation
Indices: 135532--135605 Score: 85
Period size: 19 Copynumber: 3.7 Consensus size: 19
135522 CTGCCAGTTT
**
135532 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA--TGAA
135553 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
* *
135572 CATGTATCGATACAAAGCAG
1 CATGTATCGATACAATG-AA
135592 CATGTATCGATACA
1 CATGTATCGATACA
135606 TTTGGGTGTG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
19 18 0.38
20 15 0.31
21 15 0.31
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:137656 original size:20 final size:21
Alignment explanation
Indices: 137627--137693 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 21
137617 TGCATTTTTG
137627 TCCAACAAGTACATCTTTTCA
1 TCCAACAAGTACATCTTTTCA
**
137648 TCCAA-AAGTATGTCTTTTCA
1 TCCAACAAGTACATCTTTTCA
* * *
137668 TCTAACGAGTGCATCTATTT-A
1 TCCAACAAGTACATCT-TTTCA
137689 TCCAA
1 TCCAA
137694 AAAATATATC
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 17 0.47
21 16 0.44
22 3 0.08
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (21 bp):
TCCAACAAGTACATCTTTTCA
Found at i:139014 original size:14 final size:14
Alignment explanation
Indices: 138992--139041 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
138982 CTAAATGTAT
*
138992 AAAAGAATTCTTAA
1 AAAAAAATTCTTAA
* * *
139006 AATAAAATTATCAA
1 AAAAAAATTCTTAA
139020 AAAAAAATTCTTAA
1 AAAAAAATTCTTAA
*
139034 AAGAAAAT
1 AAAAAAAT
139042 AAAATTTTTC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.64, C:0.06, G:0.04, T:0.26
Consensus pattern (14 bp):
AAAAAAATTCTTAA
Found at i:139825 original size:19 final size:19
Alignment explanation
Indices: 139801--139851 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
139791 TTTCAACGAT
139801 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
139820 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
139839 TTGTATCGATACA
1 TTGTATCGATACA
139852 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:139922 original size:13 final size:13
Alignment explanation
Indices: 139904--139928 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
139894 ATTACTCAAA
139904 TGTATCGATACAT
1 TGTATCGATACAT
139917 TGTATCGATACA
1 TGTATCGATACA
139929 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:144595 original size:20 final size:21
Alignment explanation
Indices: 144570--144615 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
144560 TCACTTGTCA
*
144570 TTTTAAATTATTATT-T-TATT
1 TTTTAAAATATT-TTATATATT
144590 TTTTAAAATATTTTATATATT
1 TTTTAAAATATTTTATATATT
144611 TTTTA
1 TTTTA
144616 GTATTATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 2 0.09
20 12 0.52
21 9 0.39
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTAAAATATTTTATATATT
Found at i:144712 original size:28 final size:29
Alignment explanation
Indices: 144674--144728 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
144664 ATAAAATTTT
*
144674 AATATATATTTATATAATATA-TATAAGTA
1 AATATATATTTATA-AATAAATTATAAGTA
144703 AATATA-ATTTATAAATAAATTATAAG
1 AATATATATTTATAAATAAATTATAAG
144729 ATTTTTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 5 0.21
28 13 0.54
29 6 0.25
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (29 bp):
AATATATATTTATAAATAAATTATAAGTA
Found at i:144715 original size:17 final size:19
Alignment explanation
Indices: 144685--144727 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 19
144675 ATATATATTT
*
144685 ATATAATATATATAAGTAA
1 ATATAATATATATAAATAA
144704 ATATAAT-T-TATAAATAA
1 ATATAATATATATAAATAA
144721 ATTATAA
1 A-TATAA
144728 GATTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 9 0.41
18 6 0.27
19 7 0.32
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
ATATAATATATATAAATAA
Found at i:145924 original size:24 final size:21
Alignment explanation
Indices: 145866--145916 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 21
145856 AATTTAGGTC
145866 ATTTTTTATATAAAATTTAAA
1 ATTTTTTATATAAAATTTAAA
145887 ATTTTTTATCATATAAAATGTTAAA
1 A-TTTTT-T-ATATAAAAT-TTAAA
145912 ATTTT
1 ATTTT
145917 ATTGATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 1 0.04
22 5 0.19
23 1 0.04
24 13 0.50
25 6 0.23
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
ATTTTTTATATAAAATTTAAA
Found at i:148802 original size:21 final size:21
Alignment explanation
Indices: 148776--148831 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
148766 AGGGTGGTTT
*
148776 TGTATCGATACATTTCAGGCA
1 TGTATCGATACATTTCACGCA
**
148797 TGTATCGATACA-TTCACTTA
1 TGTATCGATACATTTCACGCA
148817 TGTATCGATACATTT
1 TGTATCGATACATTT
148832 ACTGTTTGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 17 0.55
21 14 0.45
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (21 bp):
TGTATCGATACATTTCACGCA
Found at i:153861 original size:29 final size:30
Alignment explanation
Indices: 153818--153893 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 30
153808 CTTATTAAAG
** *
153818 TTTTTCTTCATTTGACTGTATTCGATCAAA
1 TTTTTCTTCGCTTGACTGCATTCGATCAAA
* *
153848 TTTTTCTT-GCTTGACTGCATTCGTTCAAG
1 TTTTTCTTCGCTTGACTGCATTCGATCAAA
*
153877 TTTTTCTTCGTTTGACT
1 TTTTTCTTCGCTTGACT
153894 ATGAGCATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 24 0.62
30 15 0.38
ACGTcount: A:0.16, C:0.18, G:0.13, T:0.53
Consensus pattern (30 bp):
TTTTTCTTCGCTTGACTGCATTCGATCAAA
Done.