Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 47 of 214
Found at i:12838810 original size:7 final size:7
Alignment explanation
Indices: 12838793--12838832 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
12838783 TATTATGCCT
12838793 AAAAATAA
1 AAAAAT-A
12838801 AAAAATA
1 AAAAATA
12838808 AAAAAT-
1 AAAAATA
12838814 AAAAATA
1 AAAAATA
*
12838821 AAAAACA
1 AAAAATA
12838828 AAAAA
1 AAAAA
12838833 AAGACAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
6 6 0.20
7 18 0.60
8 6 0.20
ACGTcount: A:0.88, C:0.03, G:0.00, T:0.10
Consensus pattern (7 bp):
AAAAATA
Found at i:12838817 original size:13 final size:13
Alignment explanation
Indices: 12838801--12838831 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
12838791 CTAAAAATAA
*
12838801 AAAAATAAAAAAT
1 AAAAATAAAAAAC
12838814 AAAAATAAAAAAC
1 AAAAATAAAAAAC
12838827 AAAAA
1 AAAAA
12838832 AAAGACAAAA
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:0.87, C:0.03, G:0.00, T:0.10
Consensus pattern (13 bp):
AAAAATAAAAAAC
Found at i:12838817 original size:21 final size:22
Alignment explanation
Indices: 12838792--12838834 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
12838782 ATATTATGCC
*
12838792 TAAAAATAAAAAA-ATAAAAAA
1 TAAAAATAAAAAACAAAAAAAA
12838813 TAAAAATAAAAAACAAAAAAAA
1 TAAAAATAAAAAACAAAAAAAA
12838835 GACAAAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.86, C:0.02, G:0.00, T:0.12
Consensus pattern (22 bp):
TAAAAATAAAAAACAAAAAAAA
Found at i:12839974 original size:76 final size:77
Alignment explanation
Indices: 12839717--12841097 Score: 1608
Period size: 75 Copynumber: 18.0 Consensus size: 77
12839707 TGTTTTATTT
* * * *
12839717 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACACCGAGGTATTTTTTAATTTAT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTA-TTTTCAATTTCT
12839782 GTTTTTCAAAAAA
65 GTTTTTCAAAAAA
*
12839795 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTTAATTT-T
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTA-TTTTCAATTTCT
*
12839859 AATTTTTC-AAAAA
65 -GTTTTTCAAAAAA
*
12839872 ATCAACTCATATTGC-AGGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTAATTTCT
1 ATCAACTCATATTGCGA-GAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCT
*
12839936 ATTTTTCAAAAAA
65 GTTTTTCAAAAAA
* *
12839949 ATCAACTCATA-TGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATCTTTTAATTGT-
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT-TTTCAATT-TC
12840012 TGTTTTTC--AAAA
64 TGTTTTTCAAAAAA
** * * *
12840024 ATCAACTCATATTGTTAGAGGTGAGTTGAGCCTTGGGTCGCACGCCGAGGTATTTTCAATTTTTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
12840089 TTTTTCAAAAAA
66 TTTTTCAAAAAA
* *
12840101 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAATTTCTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
12840166 TTTTTCAAAAAA
66 TTTTTCAAAAAA
* * * * *
12840178 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCTGGTCACATGCCGAGGTATCTTTTAATTTTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT-TTTCAATTTCT
12840243 GTTTTTC--AAAA
65 GTTTTTCAAAAAA
* * * * * * *
12840254 ATTAACTCATATTACAATAGGTGAGTTAAGCCTCGGGCCACACGCCGAGGTATTTTCAATTTTTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
*
12840319 TTTTTC--ATAA
66 TTTTTCAAAAAA
* * * *
12840329 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGTCGCATGCCGAGGTATTTTCAATTTCTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
12840394 TTTTTCAAAAAAAAAA
66 TTTTTC----AAAAAA
* * * * *
12840410 ATCAACTCATATTGCAAGAGGTGAGTTGAGCCACGGGCCGCACGCCGAGATATTTTCAATTTCTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
12840475 TTTTTC--AAAA
66 TTTTTCAAAAAA
* * * * * * * *
12840485 ATCAACTTATAATGCGAGAGGTGAGTTAAGCCTTGGGTCGCACACCGAGGTATTTTCAATTTTTA
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
12840550 TTTTTCAAAAAAA
66 TTTTTC-AAAAAA
* * *
12840563 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGGCCGCACGCCGAGGTATTTTCAATTTCTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
12840628 TTTTTCAAAAAAAA
66 TTTTTC--AAAAAA
* *
12840642 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATGCCGAGGTATCTTT-AATTTCT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT-TTTCAATTTCT
12840706 GTTTTTC--AAAA
65 GTTTTTCAAAAAA
* * * * * *
12840717 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGG-CTGCATGCCGAGATATTTTCAATTTTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-ACACGCCGAGGTATTTTCAATTTCT
*
12840781 G-TTTTAAAAAAA
65 GTTTTTCAAAAAA
* * *
12840793 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACATGTCGAGGTATCTTT-AATTTCT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT-TTTCAATTTCT
* *
12840857 G-TTTTC-CAAAT
65 GTTTTTCAAAAAA
* * * * *
12840868 ATCAACTCATAATGCGAGAGGTGAGTTGAGCATTGGGTCAAATGCCGAGGTACTTTT-AATTTCT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTA-TTTTCAATTTCT
*
12840932 GTTTTTC--AAGA
65 GTTTTTCAAAAAA
* ** * * *
12840943 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTTGCACGCTGGGGTATTTTTCAATTTAT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTA-TTTTCAATTTCT
*
12841008 G-TTTTAAAAAAA
65 GTTTTTCAAAAAA
** * * * * * * * *
12841020 ATCAACTCATGGCT-CGAGAGGTGAATTGAGCTTCGGGTCGCGCGTCAAGCTATTTTCAATCTCT
1 ATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCT
*
12841084 ATTTTTCAAAAAA
65 GTTTTTCAAAAAA
12841097 A
1 A
12841098 AAGTTTTTTG
Statistics
Matches: 1145, Mismatches: 122, Indels: 73
0.85 0.09 0.05
Matches are distributed among these distances:
74 9 0.01
75 347 0.30
76 225 0.20
77 272 0.24
78 152 0.13
79 70 0.06
80 3 0.00
81 67 0.06
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (77 bp):
ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
TTTTTCAAAAAA
Found at i:12840000 original size:153 final size:152
Alignment explanation
Indices: 12839696--12841095 Score: 1626
Period size: 153 Copynumber: 9.2 Consensus size: 152
12839686 CAAGAATTAT
*** *
12839696 TTTTCAATTTCTG-TTTT-ATTTATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACA
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
* *
12839759 CACCGAGGTATTTTTTAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
66 CGCCGAGGTA-TTTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
12839824 GCCTCGGGTCACACGCCGAGGTA
130 GCCTCGGGTCACACGCCGAGGTA
* *
12839847 TTTTTTAATTT-TAATTTTTCAAAAAATCAACTCATATTGC-AGGAGGTGAGTTGAGCCTCGGGT
1 -TTTTCAATTTCT-GTTTTTC-AAAAATCAACTCATATTGCGA-GAGGTGAGTTGAGCCTCGGGT
*
12839910 CACACGCCGAGGTATTTTTAATTTCTATTTTTCAAAAAAATCAACTCATA-TGCGAGAGGTGAGT
62 CACACGCCGAGGTATTTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
*
12839974 TGAGCCTCGGGTCACATGCCGAGGTA
127 TGAGCCTCGGGTCACACGCCGAGGTA
* ** * *
12840000 TCTTTTAATTGT-TGTTTTTCAAAAATCAACTCATATTGTTAGAGGTGAGTTGAGCCTTGGGTCG
1 T-TTTCAATT-TCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
* * *
12840064 CACGCCGAGGTATTTTCAATTTTTGTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTG
64 CACGCCGAGGTATTTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
*
12840129 AGCCTCGGGTCACATGCCGAGGTA
129 AGCCTCGGGTCACACGCCGAGGTA
* *
12840153 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCTGGTCA
1 TTTTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
* * * * * *
12840218 CATGCCGAGGTATCTTTTAATTTTTGTTTTTC--AAAAATTAACTCATATTACAATAGGTGAGTT
64 CACGCCGAGGTAT-TTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
* *
12840281 AAGCCTCGGGCCACACGCCGAGGTA
128 GAGCCTCGGGTCACACGCCGAGGTA
* * * * *
12840306 TTTTCAATTTTTGTTTTTCATAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGTCGCA
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
* * *
12840371 TGCCGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAAAATCAACTCATATTGCAAGAGGTGAGT
66 CGCCGAGGTATTTTTAATTTCTGTTTTTC----AAAAAAATCAACTCATATTGCGAGAGGTGAGT
* * * *
12840436 TGAGCCACGGGCCGCACGCCGAGATA
127 TGAGCCTCGGGTCACACGCCGAGGTA
* * * * *
12840462 TTTTCAATTTCTGTTTTTCAAAAATCAACTTATAATGCGAGAGGTGAGTTAAGCCTTGGGTCGCA
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
* * * *
12840527 CACCGAGGTATTTTCAATTTTTATTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
66 CGCCGAGGTATTTTTAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * *
12840592 GCCTAGGGCCGCACGCCGAGGTA
130 GCCTCGGGTCACACGCCGAGGTA
*
12840615 TTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGT
1 TTTTCAATTTCTGTTTTTC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
* * *
12840680 CACATGCCGAGGTATCTTTAATTTCTGTTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGT
62 CACACGCCGAGGTATTTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
* * * *
12840743 TGAGCCTTGGG-CTGCATGCCGAGATA
127 TGAGCCTCGGGTC-ACACGCCGAGGTA
* ** *
12840769 TTTTCAATTTTTGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCAC
1 TTTTCAATTTCTGTTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
* * * * * *
12840834 ATGTCGAGGTATCTTTAATTTCTG-TTTTC-CAAATATCAACTCATAATGCGAGAGGTGAGTTGA
65 ACGCCGAGGTATTTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * * *
12840897 GCATTGGGTCAAATGCCGAGGTA
130 GCCTCGGGTCACACGCCGAGGTA
* * **
12840920 CTTTT-AATTTCTGTTTTTCAAGAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTTGC
1 -TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
* * * * ** *
12840984 ACGCTGGGGTATTTTTCAATTTATG-TTTTAAAAAAAATCAACTCATGGCT-CGAGAGGTGAATT
65 ACGCCGAGGTATTTTT-AATTTCTGTTTTTCAAAAAAATCAACTCAT-ATTGCGAGAGGTGAGTT
* * * * * *
12841047 GAGCTTCGGGTCGCGCGTCAAGCTA
128 GAGCCTCGGGTCACACGCCGAGGTA
* *
12841072 TTTTCAATCTCTATTTTTCAAAAA
1 TTTTCAATTTCTGTTTTTCAAAAA
12841096 AAAAGTTTTT
Statistics
Matches: 1098, Mismatches: 118, Indels: 64
0.86 0.09 0.05
Matches are distributed among these distances:
150 72 0.07
151 194 0.18
152 171 0.16
153 242 0.22
154 153 0.14
155 66 0.06
156 135 0.12
157 65 0.06
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (152 bp):
TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
CGCCGAGGTATTTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CCTCGGGTCACACGCCGAGGTA
Found at i:12842067 original size:14 final size:15
Alignment explanation
Indices: 12842039--12842083 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
12842029 AGGAGAAATT
*
12842039 AAGAAAAAAAGAAAA
1 AAGAAAAGAAGAAAA
*
12842054 AAGAAATG-AG-AAA
1 AAGAAAAGAAGAAAA
12842067 AAGAAAAGAAGAAAA
1 AAGAAAAGAAGAAAA
12842082 AA
1 AA
12842084 AGGGACGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 10 0.40
14 4 0.16
15 11 0.44
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (15 bp):
AAGAAAAGAAGAAAA
Found at i:12842069 original size:13 final size:14
Alignment explanation
Indices: 12842039--12842082 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
12842029 AGGAGAAATT
*
12842039 AAGAAAAAAAGAAAA
1 AAGAAAAGAAG-AAA
*
12842054 AAGAAATG-AGAAA
1 AAGAAAAGAAGAAA
12842067 AAGAAAAGAAGAAA
1 AAGAAAAGAAGAAA
12842081 AA
1 AA
12842083 AAGGGACGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 10 0.40
14 9 0.36
15 6 0.24
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (14 bp):
AAGAAAAGAAGAAA
Found at i:12842271 original size:6 final size:6
Alignment explanation
Indices: 12842251--12842304 Score: 62
Period size: 6 Copynumber: 9.5 Consensus size: 6
12842241 AGGTTTTTCG
*
12842251 AAAGAA GAA-AA AAAGAA AAAGAA AAAGAA AAAG-- AAAG-A AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
12842295 AAGAGAA AAA
1 AA-AGAA AAA
12842305 AATTTAAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
4 4 0.10
5 8 0.19
6 24 0.57
7 6 0.14
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:12842290 original size:22 final size:21
Alignment explanation
Indices: 12842251--12842306 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 21
12842241 AGGTTTTTCG
12842251 AAAGAAGAAAAAAAGAAAAAGAA
1 AAAGAA-AAAAAAAG-AAAAGAA
*
12842274 AAAGAAAAAGAAAGAAAAGAA
1 AAAGAAAAAAAAAGAAAAGAA
12842295 AAGAGAAAAAAA
1 AA-AGAAAAAAA
12842307 TTTAAAACAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 9 0.30
22 15 0.50
23 6 0.20
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (21 bp):
AAAGAAAAAAAAAGAAAAGAA
Found at i:12842651 original size:22 final size:20
Alignment explanation
Indices: 12842625--12842686 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
12842615 GAAGGGAAGG
12842625 GGAAAAAAAGAAAAAAGAAAA
1 GGAAAAAAAGAAAAAA-AAAA
**
12842646 GAGAAAAAAAGAGGAAAAAAA
1 G-GAAAAAAAGAAAAAAAAAA
12842667 GGAAAAAAA-AAAAGAAAAAA
1 GGAAAAAAAGAAAA-AAAAAA
12842687 CCCGGTCGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 2 0.06
20 14 0.40
21 6 0.17
22 13 0.37
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (20 bp):
GGAAAAAAAGAAAAAAAAAA
Found at i:12842663 original size:33 final size:32
Alignment explanation
Indices: 12842607--12842686 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 32
12842597 GCCCAGCCAG
*** *
12842607 AAAAAAAAGAAGGGAAGGGGAAAAAAA-GAAA
1 AAAAAAAAGAAAAAAAGAGGAAAAAAAGGAAA
12842638 AAAGAAAAGAGAAAAAAAGAGGAAAAAAAGGAAA
1 AAA-AAAA-AGAAAAAAAGAGGAAAAAAAGGAAA
12842672 AAAAAAAAGAAAAAA
1 AAAAAAAAGAAAAAA
12842687 CCCGGTCGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 3 0.07
32 12 0.29
33 20 0.48
34 7 0.17
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (32 bp):
AAAAAAAAGAAAAAAAGAGGAAAAAAAGGAAA
Found at i:12842685 original size:12 final size:12
Alignment explanation
Indices: 12842627--12842686 Score: 61
Period size: 12 Copynumber: 5.2 Consensus size: 12
12842617 AGGGAAGGGG
12842627 AAAAAAAGAAAA
1 AAAAAAAGAAAA
* *
12842639 AAGAAAAG--AG
1 AAAAAAAGAAAA
**
12842649 AAAAAAAGAGGA
1 AAAAAAAGAAAA
*
12842661 AAAAAAGGAAAA
1 AAAAAAAGAAAA
12842673 AAAAAAAGAAAA
1 AAAAAAAGAAAA
12842685 AA
1 AA
12842687 CCCGGTCGTG
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
10 8 0.22
12 29 0.78
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:12843064 original size:17 final size:17
Alignment explanation
Indices: 12843042--12843097 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
12843032 GTAATTTACC
12843042 AAAATTTTCGTGTTTCA
1 AAAATTTTCGTGTTTCA
*
12843059 AAAATTTTAGTGTTTTCAA
1 AAAATTTTCGTG-TTTC-A
* *
12843078 AAAATTCTCGTGTTTTA
1 AAAATTTTCGTGTTTCA
12843095 AAA
1 AAA
12843098 TAAAATGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 15 0.45
18 7 0.21
19 11 0.33
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.45
Consensus pattern (17 bp):
AAAATTTTCGTGTTTCA
Found at i:12843082 original size:19 final size:19
Alignment explanation
Indices: 12843042--12843097 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
12843032 GTAATTTACC
12843042 AAAATTTTCGTG-TTTC-A
1 AAAATTTTCGTGTTTTCAA
*
12843059 AAAATTTTAGTGTTTTCAA
1 AAAATTTTCGTGTTTTCAA
*
12843078 AAAATTCTCGTGTTTT-AA
1 AAAATTTTCGTGTTTTCAA
12843096 AA
1 AA
12843098 TAAAATGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 11 0.32
18 8 0.24
19 15 0.44
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.45
Consensus pattern (19 bp):
AAAATTTTCGTGTTTTCAA
Found at i:12844821 original size:21 final size:20
Alignment explanation
Indices: 12844797--12844838 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
12844787 CAAAACAAAA
12844797 ACAAATTT-CAAGAGTTATATG
1 ACAAATTTACAA-AGTTA-ATG
12844818 ACAAATTTACAAAGTTAATG
1 ACAAATTTACAAAGTTAATG
12844838 A
1 A
12844839 AATTACACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 13 0.65
22 3 0.15
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.31
Consensus pattern (20 bp):
ACAAATTTACAAAGTTAATG
Found at i:12844922 original size:200 final size:200
Alignment explanation
Indices: 12844634--12845233 Score: 1191
Period size: 200 Copynumber: 3.0 Consensus size: 200
12844624 ACTACAAGAG
12844634 AATGAAATTACACTTTCATTCAATTACTCTATGCTGTTTAAACACGCTCTCGAAAAAATTGATTG
1 AATGAAATTACACTTTCATTCAATTACTCTATGCTGTTTAAACACGCTCTCGAAAAAATTGATTG
12844699 GAAATTACTGATTTTTCTAAAGTTACCAATCAACCGCGATACATTATCATTTTTGTGGAGAAATG
66 GAAATTACTGATTTTTCTAAAGTTACCAATCAACCGCGATACATTATCATTTTTGTGGAGAAATG
12844764 CGAAGTCCAATTGCGATAATTATCAAAACAAAAACAAATTTCAAGAGTTATATGACAAATTTACA
131 CGAAGTCCAATTGCGATAATTATCAAAACAAAAACAAATTTCAAGAGTTATATGACAAATTTACA
12844829 AAGTT
196 AAGTT
12844834 AATGAAATTACACTTTCATTCAATTACTCTATGCTGTTTAAACACGCTCTCGAAAAAATTGATTG
1 AATGAAATTACACTTTCATTCAATTACTCTATGCTGTTTAAACACGCTCTCGAAAAAATTGATTG
12844899 GAAATTACTGATTTTTCTAAAGTTACCAATCAACCGCGATACATTATCATTTTTGTGGAGAAATG
66 GAAATTACTGATTTTTCTAAAGTTACCAATCAACCGCGATACATTATCATTTTTGTGGAGAAATG
12844964 CGAAGTCCAATTGCGATAATTATCAAAACAAAAACAAATTTCAAGAGTTATATGACAAATTTACA
131 CGAAGTCCAATTGCGATAATTATCAAAACAAAAACAAATTTCAAGAGTTATATGACAAATTTACA
12845029 AAGTT
196 AAGTT
*
12845034 AATGAAATTACACTTTTATTCAATTACTCTATGCTGTTTAAACACGCTCTCGAAAAAATTGATTG
1 AATGAAATTACACTTTCATTCAATTACTCTATGCTGTTTAAACACGCTCTCGAAAAAATTGATTG
12845099 GAAATTACTGATTTTTCTAAAGTTACCAATCAACCGCGATACATTATCATTTTTGTGGAGAAATG
66 GAAATTACTGATTTTTCTAAAGTTACCAATCAACCGCGATACATTATCATTTTTGTGGAGAAATG
12845164 CGAAGTCCAATTGCGATAATTATCAAAACAAAAACAAATTTCAAGAGTTATATGACAAATTTACA
131 CGAAGTCCAATTGCGATAATTATCAAAACAAAAACAAATTTCAAGAGTTATATGACAAATTTACA
12845229 AAGTT
196 AAGTT
12845234 TCACCCAAAA
Statistics
Matches: 399, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 399 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (200 bp):
AATGAAATTACACTTTCATTCAATTACTCTATGCTGTTTAAACACGCTCTCGAAAAAATTGATTG
GAAATTACTGATTTTTCTAAAGTTACCAATCAACCGCGATACATTATCATTTTTGTGGAGAAATG
CGAAGTCCAATTGCGATAATTATCAAAACAAAAACAAATTTCAAGAGTTATATGACAAATTTACA
AAGTT
Found at i:12845021 original size:21 final size:20
Alignment explanation
Indices: 12844997--12845038 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
12844987 CAAAACAAAA
12844997 ACAAATTT-CAAGAGTTATATG
1 ACAAATTTACAA-AGTTA-ATG
12845018 ACAAATTTACAAAGTTAATG
1 ACAAATTTACAAAGTTAATG
12845038 A
1 A
12845039 AATTACACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 13 0.65
22 3 0.15
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.31
Consensus pattern (20 bp):
ACAAATTTACAAAGTTAATG
Found at i:12849128 original size:25 final size:26
Alignment explanation
Indices: 12849095--12849146 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
12849085 TTGTTTGTGG
*
12849095 TTTATGGGTTTAATG-TTTATGGTTAA
1 TTTATGGGTTTAA-GATCTATGGTTAA
12849121 TTTA-GGGTTTAAGATCTATGGTTAA
1 TTTATGGGTTTAAGATCTATGGTTAA
12849146 T
1 T
12849147 GTCTACGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 1 0.04
25 19 0.79
26 4 0.17
ACGTcount: A:0.25, C:0.02, G:0.23, T:0.50
Consensus pattern (26 bp):
TTTATGGGTTTAAGATCTATGGTTAA
Found at i:12851800 original size:16 final size:16
Alignment explanation
Indices: 12851739--12852052 Score: 77
Period size: 16 Copynumber: 19.0 Consensus size: 16
12851729 ACACATAGCC
* *
12851739 TACATGACTTACTTAA
1 TACATAACTTACATAA
* *
12851755 TACACAACTTAAATAA
1 TACATAACTTACATAA
*
12851771 TTTAAATAACTTACATAA
1 --TACATAACTTACATAA
12851789 TACATAACTTACAT--
1 TACATAACTTACATAA
12851803 T-CATAACTTACATAA
1 TACATAACTTACATAA
12851818 -ACTTATATGTTACCTTACATAA
1 TAC--ATA----A-CTTACATAA
* *
12851840 TACATAACTTATAT-T
1 TACATAACTTACATAA
* ** *
12851855 TATGAT-TTTTATATAAA
1 TA-CATAACTTACAT-AA
12851872 CTTACATAA--TACATAGCA
1 --TACATAACTTACATA--A
12851890 TACATAACTTACATAA
1 TACATAACTTACATAA
*
12851906 TACATAATAACTTACA-ACT
1 TAC---ATAACTTACATA-A
12851925 TACATAACTTACATAA
1 TACATAACTTACATAA
*
12851941 TACATAA-TAAC-T--
1 TACATAACTTACATAA
12851953 TAC--AACTTACATAACA
1 TACATAACTTACAT-A-A
**
12851969 TACATTAA-TTTGATAA
1 TACA-TAACTTACATAA
* * *
12851985 CTTATAGAAGTTACATAA
1 --TACATAACTTACATAA
*
12852003 TACATAACTTACA-ACT
1 TACATAACTTACATA-A
*
12852019 TACATAACATACATTAA
1 TACATAACTTACA-TAA
*
12852036 TATGATAACTTACATAA
1 TA-CATAACTTACATAA
12852053 GTTACATAAT
Statistics
Matches: 219, Mismatches: 35, Indels: 87
0.64 0.10 0.26
Matches are distributed among these distances:
10 2 0.01
11 3 0.01
12 4 0.02
13 12 0.05
14 2 0.01
15 13 0.06
16 88 0.40
17 17 0.08
18 46 0.21
19 17 0.08
21 4 0.02
22 9 0.04
23 2 0.01
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.35
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:12851809 original size:13 final size:15
Alignment explanation
Indices: 12851776--12851816 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
12851766 AATAATTTAA
12851776 ATAACTTACATAATAC
1 ATAACTTACAT-ATAC
12851792 ATAACTTACAT-T-C
1 ATAACTTACATATAC
12851805 ATAACTTACATA
1 ATAACTTACATA
12851817 AACTTATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAACTTACATATAC
Found at i:12851902 original size:9 final size:9
Alignment explanation
Indices: 12851870--12852073 Score: 109
Period size: 9 Copynumber: 23.8 Consensus size: 9
12851860 TTTTTATATA
12851870 AACTTACAT
1 AACTTACAT
12851879 AA--TACAT
1 AACTTACAT
* *
12851886 AGCATACAT
1 AACTTACAT
12851895 AACTTACAT
1 AACTTACAT
*
12851904 AATACATA-AT
1 -A-ACTTACAT
12851914 AACTTAC--
1 AACTTACAT
12851921 AACTTACAT
1 AACTTACAT
12851930 AACTTACAT
1 AACTTACAT
*
12851939 AATACATA-AT
1 -A-ACTTACAT
12851949 AACTTAC--
1 AACTTACAT
12851956 AACTTACAT
1 AACTTACAT
*
12851965 AACATACATT
1 AACTTACA-T
**
12851975 AA-TTTGAT
1 AACTTACAT
* *
12851983 AACTTATAG
1 AACTTACAT
*
12851992 AAGTTACAT
1 AACTTACAT
12852001 AA--TACAT
1 AACTTACAT
12852008 AACTTAC--
1 AACTTACAT
12852015 AACTTACAT
1 AACTTACAT
*
12852024 AACATACATT
1 AACTTACA-T
*
12852034 AA--TATGAT
1 AACTTA-CAT
12852042 AACTTACAT
1 AACTTACAT
*
12852051 AAGTTACAT
1 AACTTACAT
12852060 AA--TACAT
1 AACTTACAT
12852067 AACTTAC
1 AACTTAC
12852074 CACTGAACAA
Statistics
Matches: 150, Mismatches: 21, Indels: 48
0.68 0.10 0.22
Matches are distributed among these distances:
7 41 0.27
8 16 0.11
9 71 0.47
10 14 0.09
11 8 0.05
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:12851917 original size:19 final size:20
Alignment explanation
Indices: 12851888--12851956 Score: 87
Period size: 19 Copynumber: 3.8 Consensus size: 20
12851878 TAATACATAG
12851888 CATACATAACTTACATAATA
1 CATACATAACTTACATAATA
12851908 CATA-ATAACTTAC---A-A
1 CATACATAACTTACATAATA
*
12851923 CTTACATAACTTACATAATA
1 CATACATAACTTACATAATA
12851943 CATA-ATAACTTACA
1 CATACATAACTTACA
12851957 ACTTACATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
15 4 0.10
16 10 0.24
19 20 0.48
20 8 0.19
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.30
Consensus pattern (20 bp):
CATACATAACTTACATAATA
Found at i:12851933 original size:35 final size:35
Alignment explanation
Indices: 12851890--12851973 Score: 159
Period size: 35 Copynumber: 2.4 Consensus size: 35
12851880 ATACATAGCA
12851890 TACATAACTTACATAATACATAATAACTTACAACT
1 TACATAACTTACATAATACATAATAACTTACAACT
12851925 TACATAACTTACATAATACATAATAACTTACAACT
1 TACATAACTTACATAATACATAATAACTTACAACT
*
12851960 TACATAACATACAT
1 TACATAACTTACAT
12851974 TAATTTGATA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (35 bp):
TACATAACTTACATAATACATAATAACTTACAACT
Found at i:12852019 original size:59 final size:59
Alignment explanation
Indices: 12851873--12852073 Score: 246
Period size: 59 Copynumber: 3.3 Consensus size: 59
12851863 TTATATAAAC
* * * * *
12851873 TTACATAATACATAGCATACATAACTTACAT-A-ATACATAATAACTT-ACAACTTACATAAC
1 TTACATAATACATAACTTAC--AACTTACATAACATACAT--TAATTTGATAACTTACATAAG
* *
12851933 TTACATAATACATAATAACTTACAACTTACATAACATACATTAATTTGATAACTTATAGAAG
1 TTACATAATAC---ATAACTTACAACTTACATAACATACATTAATTTGATAACTTACATAAG
*
12851995 TTACATAATACATAACTTACAACTTACATAACATACATTAATATGATAACTTACATAAG
1 TTACATAATACATAACTTACAACTTACATAACATACATTAATTTGATAACTTACATAAG
12852054 TTACATAATACATAACTTAC
1 TTACATAATACATAACTTAC
12852074 CACTGAACAA
Statistics
Matches: 125, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
59 65 0.52
60 11 0.09
61 14 0.11
62 22 0.18
63 13 0.10
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.32
Consensus pattern (59 bp):
TTACATAATACATAACTTACAACTTACATAACATACATTAATTTGATAACTTACATAAG
Found at i:12857574 original size:21 final size:21
Alignment explanation
Indices: 12857550--12857600 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
12857540 CTACAACTTA
* *
12857550 AAGCAGATGCGGCAACGAGAG
1 AAGCAGAGGCAGCAACGAGAG
*
12857571 AAGCAGAGGCAGCAGCGAGAG
1 AAGCAGAGGCAGCAACGAGAG
*
12857592 AAGCTGAGG
1 AAGCAGAGG
12857601 TTCAACGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.37, C:0.18, G:0.41, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCAGCAACGAGAG
Found at i:12857595 original size:87 final size:87
Alignment explanation
Indices: 12857484--12857676 Score: 282
Period size: 87 Copynumber: 2.2 Consensus size: 87
12857474 ACACAACTAA
* * *
12857484 AAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAGCTA-CAAC
1 AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCAGC-AGCAAC
*
12857547 TTAAAGCAGATGCGGCAACGAGAG
64 TTAAAGCAGATGCAGCAACGAGAG
* *
12857571 AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCAGCAGCAGCTT
1 AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAGCAACTT
*
12857636 AAAGCAGATGCAGCAGCGAGAG
66 AAAGCAGATGCAGCAACGAGAG
*
12857658 AAGCAGAGGCTGCAGCGAG
1 AAGCAGAGGCAGCAGCGAG
12857677 GGAATCAAAG
Statistics
Matches: 96, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
86 1 0.01
87 91 0.95
88 4 0.04
ACGTcount: A:0.39, C:0.19, G:0.31, T:0.11
Consensus pattern (87 bp):
AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAGCAACTT
AAAGCAGATGCAGCAACGAGAG
Found at i:12857663 original size:21 final size:21
Alignment explanation
Indices: 12857637--12857676 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12857627 CAGCAGCTTA
*
12857637 AAGCAGATGCAGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
*
12857658 AAGCAGAGGCTGCAGCGAG
1 AAGCAGAGGCAGCAGCGAG
12857677 GGAATCAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.20, G:0.40, T:0.05
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:12857688 original size:21 final size:21
Alignment explanation
Indices: 12857648--12857689 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
12857638 AGCAGATGCA
*
12857648 GCAGCGAGAGAAGCAGAGGCT
1 GCAGCGAGAGAAGCAAAGGCT
* *
12857669 GCAGCGAGGGAATCAAAGGCT
1 GCAGCGAGAGAAGCAAAGGCT
12857690 AAAATGAGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.19, G:0.40, T:0.07
Consensus pattern (21 bp):
GCAGCGAGAGAAGCAAAGGCT
Found at i:12857708 original size:87 final size:87
Alignment explanation
Indices: 12857528--12857693 Score: 199
Period size: 87 Copynumber: 1.9 Consensus size: 87
12857518 AAAAAGATAT
*
12857528 GAAGAACTCCAGCTACAACTTAAAGCAGATGCGGCAACGAGAGAAGCAGAGGCAGCAGCGAGAGA
1 GAAGAACTCCAGCTACAACTTAAAGCAGATGCAGCAACGAGAGAAGCAGAGGCAGCAGCGAGAGA
** ** * *
12857593 AGCTGAGGTTCAACGAAAGTAT
66 AGCAAAGGTAAAACGAAAGGAA
* * * *
12857615 GAAGAACTCCAGC-AGCAGCTTAAAGCAGATGCAGCAGCGAGAGAAGCAGAGGCTGCAGCGAGGG
1 GAAGAACTCCAGCTA-CAACTTAAAGCAGATGCAGCAACGAGAGAAGCAGAGGCAGCAGCGAGAG
*
12857679 AATCAAAGGCTAAAA
65 AAGCAAAGG-TAAAA
12857694 TGAGGGAAGC
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
86 1 0.01
87 63 0.94
88 3 0.04
ACGTcount: A:0.39, C:0.20, G:0.31, T:0.10
Consensus pattern (87 bp):
GAAGAACTCCAGCTACAACTTAAAGCAGATGCAGCAACGAGAGAAGCAGAGGCAGCAGCGAGAGA
AGCAAAGGTAAAACGAAAGGAA
Found at i:12858158 original size:43 final size:43
Alignment explanation
Indices: 12858049--12858425 Score: 257
Period size: 43 Copynumber: 8.9 Consensus size: 43
12858039 AGAACCCCGC
* * ** * * *
12858049 CTATAGTGGCGTTTTCTGTCCAAGCGCCGCAAAAAACTCCAAT
1 CTATAGTGGCATTTTTTGTATAAGCGCCGCGAAAGACGCCAAT
** *
12858092 CTATAGTGGCATTTTTTCAATAAGCTCCGCGAAAGACGCCAAT
1 CTATAGTGGCATTTTTTGTATAAGCGCCGCGAAAGACGCCAAT
* ** * * *
12858135 CTATAGTGGCGTTTCCTGTATAAGCGTCGCTAAAGA-GCCATCT
1 CTATAGTGGCATTTTTTGTATAAGCGCCGCGAAAGACGCCA-AT
* * * * * *
12858178 CTCTCGTGGCATTTCTT-TATAAGCGCCGCTATAGAC-CC-GT
1 CTATAGTGGCATTTTTTGTATAAGCGCCGCGAAAGACGCCAAT
* ** * * *
12858218 GCTATCGTGGCATTTTTTGTATAAGTTCCGGGAAAGCCG-CTAT
1 -CTATAGTGGCATTTTTTGTATAAGCGCCGCGAAAGACGCCAAT
* * * * * *
12858261 CTATAGTGGCATTTTCTGTACAAACACCGGGAAAGATC-CCTAT
1 CTATAGTGGCATTTTTTGTATAAGCGCCGCGAAAGA-CGCCAAT
* * *
12858304 CTATAGTGGCATTTTTTGTATAAGCGCCGCTAGAGAAC-CCGAT
1 CTATAGTGGCATTTTTTGTATAAGCGCCGCGAAAG-ACGCCAAT
* * * * *
12858347 CTATAGTGGCGTTTTTTGTATAAGCGCCGAGAAAGACTCCCAC
1 CTATAGTGGCATTTTTTGTATAAGCGCCGCGAAAGACGCCAAT
* * *
12858390 CTATAGTGGC-GTTTTTGTGTAAGCGCCGCTAAAGAC
1 CTATAGTGGCATTTTTTGTATAAGCGCCGCGAAAGAC
12858426 AGTAGTCTAT
Statistics
Matches: 264, Mismatches: 60, Indels: 21
0.77 0.17 0.06
Matches are distributed among these distances:
40 1 0.00
41 15 0.06
42 89 0.34
43 158 0.60
44 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (43 bp):
CTATAGTGGCATTTTTTGTATAAGCGCCGCGAAAGACGCCAAT
Found at i:12858381 original size:86 final size:85
Alignment explanation
Indices: 12858025--12858441 Score: 290
Period size: 86 Copynumber: 4.9 Consensus size: 85
12858015 CGTTTCTTGG
* ** * * ** *
12858025 ATAAGCGCCGCTAAAGAACCCCGCCTATAGTGGCGTTTTCTGTCCAAGCGCCGC-AAAAAACTCC
1 ATAAGCGCCGCGAAAG-ACCCTACCTATAGTGGCATTTTTTGTATAAGCGCCGCTAAAGAAC-CC
* **
12858089 AATCTATAGTGGCATTTTTTCA
64 TATCTATAGTGGCATTTTTTGT
* * * * ** * * *
12858111 ATAAGCTCCGCGAAAGACGCCAATCTATAGTGGCGTTTCCTGTATAAGCGTCGCTAAAGAGCCAT
1 ATAAGCGCCGCGAAAGAC-CCTACCTATAGTGGCATTTTTTGTATAAGCGCCGCTAAAGAACCCT
* * * *
12858176 CTCTCTCGTGGCATTTCTT-T
65 ATCTATAGTGGCATTTTTTGT
* * * * ** **
12858196 ATAAGCGCCGCTATAGACCCGT-GCTATCGTGGCATTTTTTGTATAAGTTCCGGGAAAG--CCGC
1 ATAAGCGCCGCGAAAGACCC-TACCTATAGTGGCATTTTTTGTATAAGCGCCGCTAAAGAACC-C
*
12858258 TATCTATAGTGGCATTTTCTGT
64 TATCTATAGTGGCATTTTTTGT
* * * * * * *
12858280 ACAAACACCGGGAAAGATCCCTATCTATAGTGGCATTTTTTGTATAAGCGCCGCTAGAGAACCCG
1 ATAAGCGCCGCGAAAGA-CCCTACCTATAGTGGCATTTTTTGTATAAGCGCCGCTAAAGAACCCT
*
12858345 ATCTATAGTGGCGTTTTTTGT
65 ATCTATAGTGGCATTTTTTGT
* * * * **
12858366 ATAAGCGCCGAGAAAGACTCCCACCTATAGTGGC-GTTTTTGTGTAAGCGCCGCTAAAG-ACAGT
1 ATAAGCGCCGCGAAAGAC-CCTACCTATAGTGGCATTTTTTGTATAAGCGCCGCTAAAGAACCCT
12858429 AGTCTATAGTGGC
65 A-TCTATAGTGGC
12858442 GCGGTAAAAG
Statistics
Matches: 254, Mismatches: 66, Indels: 23
0.74 0.19 0.07
Matches are distributed among these distances:
82 2 0.01
83 15 0.06
84 44 0.17
85 82 0.32
86 104 0.41
87 7 0.03
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (85 bp):
ATAAGCGCCGCGAAAGACCCTACCTATAGTGGCATTTTTTGTATAAGCGCCGCTAAAGAACCCTA
TCTATAGTGGCATTTTTTGT
Found at i:12871275 original size:44 final size:43
Alignment explanation
Indices: 12871183--12871304 Score: 120
Period size: 44 Copynumber: 2.8 Consensus size: 43
12871173 CATCTAGTCT
* * *
12871183 TATCTTCCTGAAGTTGCAATGGAGCAGACTAAGTAGGAAAATCT
1 TATCTTCCTGAAGTTGTAGTGGAGCAGACTAAG-AGGAAAATCC
* * *
12871227 TATCTTTCTGAAGTTGTAGTGGAGCAGATTAA-AGCCGATAATCC
1 TATCTTCCTGAAGTTGTAGTGGAGCAGACTAAGAG--GAAAATCC
* * **
12871271 TATCTCCCTGAAGTCGTAGTGGAATAGACTAAGA
1 TATCTTCCTGAAGTTGTAGTGGAGCAGACTAAGA
12871305 TAGCAAATAT
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
42 2 0.03
44 60 0.95
45 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (43 bp):
TATCTTCCTGAAGTTGTAGTGGAGCAGACTAAGAGGAAAATCC
Found at i:12873158 original size:15 final size:15
Alignment explanation
Indices: 12873138--12873176 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
12873128 ATCGTTAAAA
12873138 TTATTATCATTGTAT
1 TTATTATCATTGTAT
12873153 TTATTA-CTATTGTAT
1 TTATTATC-ATTGTAT
*
12873168 TTGTTATCA
1 TTATTATCA
12873177 CAATATTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 19 0.90
16 1 0.05
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.59
Consensus pattern (15 bp):
TTATTATCATTGTAT
Found at i:12875781 original size:23 final size:18
Alignment explanation
Indices: 12875731--12875779 Score: 98
Period size: 18 Copynumber: 2.7 Consensus size: 18
12875721 TTCTTGTCGA
12875731 AAAATAATTAAATATTAT
1 AAAATAATTAAATATTAT
12875749 AAAATAATTAAATATTAT
1 AAAATAATTAAATATTAT
12875767 AAAATAATTAAAT
1 AAAATAATTAAAT
12875780 TATGTTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAATAATTAAATATTAT
Found at i:12879524 original size:28 final size:28
Alignment explanation
Indices: 12879491--12879548 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
12879481 CAGAGGAGAA
12879491 GATAATTTTATTATAATGGCAAGAAAAC
1 GATAATTTTATTATAATGGCAAGAAAAC
12879519 GATAATTTTATTATAATGGCAAGAAAAC
1 GATAATTTTATTATAATGGCAAGAAAAC
12879547 GA
1 GA
12879549 AGAGTACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.31
Consensus pattern (28 bp):
GATAATTTTATTATAATGGCAAGAAAAC
Found at i:12886980 original size:50 final size:50
Alignment explanation
Indices: 12886917--12887296 Score: 521
Period size: 50 Copynumber: 7.6 Consensus size: 50
12886907 CAATGTCATA
* ** * * * *
12886917 TCCCAGATATGGTCTTACATGGGAATTCTCATATCGTTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
**
12886967 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* *
12887017 TCCCAGACATGATCTTACATGGGACCTCTCATCTCAGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* *
12887067 TCCCAGACATGGTATTACATGGGACCTCTCATCTCGGTGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* *
12887117 TCCCAGACTTGATCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* * *
12887167 T-CCAGACATTGCCTTACAT-GGACCTCTCATCTCGGTGCCAACGTCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* * * * *
12887215 TCCCAAACATGGTCTTACATGGGACCTCTCATCTCGATGTCAATGCCATA
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* *
12887265 TCCTAGACATGGTCTTACATGGGACTTCTCAT
1 TCCCAGACATGGTCTTACATGGGACCTCTCAT
12887297 AATTTCAATA
Statistics
Matches: 291, Mismatches: 37, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
48 29 0.10
49 29 0.10
50 233 0.80
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
Found at i:12887312 original size:198 final size:198
Alignment explanation
Indices: 12886904--12887297 Score: 517
Period size: 198 Copynumber: 2.0 Consensus size: 198
12886894 TTTCCTGTAC
* * * * * * *
12886904 TGCCAATGTCATATCCCAGA-TATGGTCTTACATGGGAATTCTCATATCGTTGCCCATGCCATGT
1 TGCCAATGCCATGTCCCAGACT-TGATCTTACATGGGAACTCTCATATCGGTGCCAACGCCATGT
* * *
12886968 CCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGATCTT
65 CCCAGACATGGCCTTACGAGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAACATGATCTT
*
12887033 ACATGGGACCTCTCATCTCAGTGCCAACGCCATGTCCCAGACATGGTATTACATGGGACCTCTCA
130 ACATGGGACCTCTCATCTCAGTGCCAACGCCATATCCCAGACATGGTATTACATGGGACCTCTCA
*
12887098 TCTCGG
195 TAT--G
* *
12887104 TGCCAATGCCATGTCCCAGACTTGATCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGT-
1 TGCCAATGCCATGTCCCAGACTTGATCTTACATGGGAACTCTCATATCGGTGCCAACGCCATGTC
* * * *
12887168 CCAGACATTGCCTTAC-ATGGACCTCTCATCTCGGTGCCAACGTCATGTCCCAAACATGGTCTTA
66 CCAGACATGGCCTTACGAGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAACATGATCTTA
* * * * *
12887232 CATGGGACCTCTCATCTC-GATGTCAATGCCATATCCTAGACATGGTCTTACATGGGACTTCTCA
131 CATGGGACCTCTCATCTCAG-TGCCAACGCCATATCCCAGACATGGTATTACATGGGACCTCTCA
12887296 TA
195 TA
12887298 ATTTCAATAA
Statistics
Matches: 169, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
197 1 0.01
198 100 0.59
199 14 0.08
200 53 0.31
201 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (198 bp):
TGCCAATGCCATGTCCCAGACTTGATCTTACATGGGAACTCTCATATCGGTGCCAACGCCATGTC
CCAGACATGGCCTTACGAGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAACATGATCTTA
CATGGGACCTCTCATCTCAGTGCCAACGCCATATCCCAGACATGGTATTACATGGGACCTCTCAT
ATG
Found at i:12887404 original size:48 final size:48
Alignment explanation
Indices: 12887313--12887406 Score: 116
Period size: 48 Copynumber: 2.0 Consensus size: 48
12887303 AATAATGCCA
* * * *
12887313 ATGCCATGTCTCAGACATGGTCTTACACTAGCTCACATATCGATGTAG
1 ATGCCATGTCCCAGACATGGTCTTACACGAGATCACACATCGATGTAG
* * * *
12887361 ATGCCATGTCCCAGACATGGTCTTATACGATATCGCACGTCGATGT
1 ATGCCATGTCCCAGACATGGTCTTACACGAGATCACACATCGATGT
12887407 CATATCCCAG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAGATCACACATCGATGTAG
Found at i:12890713 original size:70 final size:70
Alignment explanation
Indices: 12890626--12890766 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
12890616 GATCACGAGC
12890626 TTTGATCCGCGACTCATGACATAAAGTGGAAGATCTAACCTTCCTTTAATATATAAGTATATAAA
1 TTTGATCCGCGACTCATGACATAAAGTGGAAGATCTAACCTTCCTTTAATATATAAGTATATAAA
12890691 TTATA
66 TTATA
12890696 TTTGATCCGCGACTCATGACATAAAGTGGAAGATCTAACCTTCCTTTAATATATAAGTATATAAA
1 TTTGATCCGCGACTCATGACATAAAGTGGAAGATCTAACCTTCCTTTAATATATAAGTATATAAA
12890761 TTATA
66 TTATA
12890766 T
1 T
12890767 ATATACTCAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (70 bp):
TTTGATCCGCGACTCATGACATAAAGTGGAAGATCTAACCTTCCTTTAATATATAAGTATATAAA
TTATA
Found at i:12895816 original size:326 final size:326
Alignment explanation
Indices: 12895201--12895848 Score: 1010
Period size: 326 Copynumber: 2.0 Consensus size: 326
12895191 ATTCAAATAT
* *
12895201 ATATAAATCATGCCTAAAACATTTACTTATCAAATTGATCAAAAACATTTATAATACTATATAAA
1 ATATAAATCATGCATAAAACATTTACTTATCAAATTGATCAAAAACATTCATAATACTATATAAA
* *
12895266 GGTTAACTAATAAACTTCGTTCATTTCATTTCAATTTTAGTACCAAATTAACCCAAAAGTATATT
66 GGTTAACTAATAAACTTCGTTCATTTCATTTCAATTTTAGTACCAAACTAACCCAAAAGTATATC
*
12895331 AATTTAACTTACTATAACCATCAATTCATCTTAAGTTCAAACATGCATTTTCTCTACACTTAAAC
131 AATTTAACTTACTATAACCATCAATTCATCTTAAGTTCAAACATGCATTTTCTCAACACTTAAAC
* * * * *
12895396 AACTAATTCATACGGCCAAATACATACCAACCTTTAAAAGCTAAATCTCATGGCTAATATTATAA
196 AACCAATTCATACGGCCAAATACACACCAACATTTAAAAGCCAAATCTCATGGCTAATATCATAA
* * * * * *
12895461 TTCAAAATATGCTAAGATGACACTAGCCTATACATGCCATT-TATCATAAATATACAATTCAATC
261 CTCAAAACATACCAAGATGACACTAGCCTATACATGCC-TTATACCATAAACATACAATTCAATC
12895525 AC
325 AC
*
12895527 ATATAAATCATGCATAAAACATTTACTTATCAAATTGATCAACAACATTCATAATACTATATAAA
1 ATATAAATCATGCATAAAACATTTACTTATCAAATTGATCAAAAACATTCATAATACTATATAAA
* *
12895592 TGTTAACTAATAAACTTCGTTCATTTCATTTCAATTTTAGTACCAAACTAACTCAAAAGTATATC
66 GGTTAACTAATAAACTTCGTTCATTTCATTTCAATTTTAGTACCAAACTAACCCAAAAGTATATC
* *
12895657 AATTTAACTTACTATGACCATCAATTCATCTTAAGTTCAAACATGCATTTTCTCAACACTTAAAT
131 AATTTAACTTACTATAACCATCAATTCATCTTAAGTTCAAACATGCATTTTCTCAACACTTAAAC
* * * ** * *
12895722 AGCCAATTCATATGGCTAAATACACATTAGCATTTAAAAGCCAAATCTCATGGTTAATATCATAA
196 AACCAATTCATACGGCCAAATACACACCAACATTTAAAAGCCAAATCTCATGGCTAATATCATAA
* *
12895787 CTCAAAACATACCAATATGACATTAGCCTATACATGCCTTATACCATAAACATACAATTCAA
261 CTCAAAACATACCAAGATGACACTAGCCTATACATGCCTTATACCATAAACATACAATTCAA
12895849 AAGTACCAAC
Statistics
Matches: 291, Mismatches: 30, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
325 2 0.01
326 289 0.99
ACGTcount: A:0.42, C:0.20, G:0.06, T:0.33
Consensus pattern (326 bp):
ATATAAATCATGCATAAAACATTTACTTATCAAATTGATCAAAAACATTCATAATACTATATAAA
GGTTAACTAATAAACTTCGTTCATTTCATTTCAATTTTAGTACCAAACTAACCCAAAAGTATATC
AATTTAACTTACTATAACCATCAATTCATCTTAAGTTCAAACATGCATTTTCTCAACACTTAAAC
AACCAATTCATACGGCCAAATACACACCAACATTTAAAAGCCAAATCTCATGGCTAATATCATAA
CTCAAAACATACCAAGATGACACTAGCCTATACATGCCTTATACCATAAACATACAATTCAATCA
C
Found at i:12896804 original size:31 final size:31
Alignment explanation
Indices: 12896664--12896797 Score: 191
Period size: 31 Copynumber: 4.4 Consensus size: 31
12896654 ATGCAATGCT
12896664 CAAATC-AATTCGACAATATATATCCATATA
1 CAAATCAAATTCGACAATATATATCCATATA
* * **
12896694 CGAATCAAATTCGACAATGTATATCTTTATA
1 CAAATCAAATTCGACAATATATATCCATATA
12896725 CAAATCAAATTCGACAATGA-ATATCCATATA
1 CAAATCAAATTCGACAAT-ATATATCCATATA
* *
12896756 CAAATCAAATTCGGCAATATATATCTATATA
1 CAAATCAAATTCGACAATATATATCCATATA
12896787 CAAATCAAATT
1 CAAATCAAATT
12896798 GGGCAATGTA
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
30 6 0.07
31 85 0.93
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.31
Consensus pattern (31 bp):
CAAATCAAATTCGACAATATATATCCATATA
Found at i:12896828 original size:62 final size:62
Alignment explanation
Indices: 12896664--12896820 Score: 183
Period size: 62 Copynumber: 2.5 Consensus size: 62
12896654 ATGCAATGCT
** * * *
12896664 CAAATC-AATTCGACAAT-ATATATCCATATACGAATCAAATTCGACAATGTATATCTTTATA
1 CAAATCAAATTCGACAATGA-ATAAACATATACAAATCAAATTCGACAATATATATCTATATA
** *
12896725 CAAATCAAATTCGACAATGAATATCCATATACAAATCAAATTCGGCAATATATATCTATATA
1 CAAATCAAATTCGACAATGAATAAACATATACAAATCAAATTCGACAATATATATCTATATA
* * *
12896787 CAAATCAAATTGGGCAATGTATAAAACATATACA
1 CAAATCAAATTCGACAATGAAT-AAACATATACA
12896821 TTTAAATTAA
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
61 6 0.07
62 68 0.81
63 10 0.12
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.29
Consensus pattern (62 bp):
CAAATCAAATTCGACAATGAATAAACATATACAAATCAAATTCGACAATATATATCTATATA
Found at i:12897398 original size:10 final size:11
Alignment explanation
Indices: 12897383--12897411 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
12897373 CACAAAAACA
12897383 TAAAAATA-AT
1 TAAAAATAGAT
12897393 TAAAAATAGAT
1 TAAAAATAGAT
12897404 TAAAAATA
1 TAAAAATA
12897412 CATACCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.44
11 10 0.56
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
TAAAAATAGAT
Found at i:12897673 original size:18 final size:17
Alignment explanation
Indices: 12897650--12897691 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
12897640 AGGACTTCCA
12897650 ATTTAAAACCCTATAGCT
1 ATTTAAAA-CCTATAGCT
* *
12897668 ATTTAATACCTTTAGCT
1 ATTTAAAACCTATAGCT
12897685 A-TTAAAA
1 ATTTAAAA
12897692 TTCAACTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 5 0.24
17 9 0.43
18 7 0.33
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (17 bp):
ATTTAAAACCTATAGCT
Found at i:12901892 original size:11 final size:11
Alignment explanation
Indices: 12901878--12901957 Score: 60
Period size: 11 Copynumber: 7.4 Consensus size: 11
12901868 ATGTTTTTAA
12901878 TTTTAAAATAT
1 TTTTAAAATAT
12901889 TTTTAAAATACT
1 TTTTAAAATA-T
****
12901901 TTTTTTTTTAAT
1 TTTTAAAAT-AT
*
12901913 TTTT-TAAT--
1 TTTTAAAATAT
12901921 TTT-AAAATAT
1 TTTTAAAATAT
12901931 TTTTAAAATAT
1 TTTTAAAATAT
12901942 TTTTAAAATACT
1 TTTTAAAATA-T
12901954 TTTT
1 TTTT
12901958 TTAATTTTTA
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
8 6 0.11
10 3 0.05
11 29 0.53
12 16 0.29
13 1 0.02
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:12901917 original size:42 final size:42
Alignment explanation
Indices: 12901848--12901945 Score: 153
Period size: 42 Copynumber: 2.3 Consensus size: 42
12901838 CCCGATATAA
12901848 TAAATATATTTATTTTTTAAATGTTTTTAATTTTAAAATATTTT
1 TAAA-ATATTT-TTTTTTAAATGTTTTTAATTTTAAAATATTTT
*
12901892 TAAAATACTTTTTTTTTTAAT-TTTTTAATTTTAAAATATTTT
1 TAAAATA-TTTTTTTTTAAATGTTTTTAATTTTAAAATATTTT
12901934 TAAAATATTTTT
1 TAAAATATTTTT
12901946 AAAATACTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 5
0.90 0.02 0.09
Matches are distributed among these distances:
41 5 0.10
42 28 0.54
43 12 0.23
44 7 0.13
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (42 bp):
TAAAATATTTTTTTTTAAATGTTTTTAATTTTAAAATATTTT
Found at i:12901936 original size:17 final size:17
Alignment explanation
Indices: 12901849--12901894 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
12901839 CCGATATAAT
* * *
12901849 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
*
12901866 AAATGTTTTTAATTTTA
1 AAATATTTTTAATTTTA
12901883 AAATATTTTTAA
1 AAATATTTTTAA
12901895 AATACTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:12901958 original size:42 final size:42
Alignment explanation
Indices: 12901871--12901972 Score: 134
Period size: 42 Copynumber: 2.4 Consensus size: 42
12901861 TTTTTAAATG
****
12901871 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTTTAAT
1 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTAAAATAAT
*
12901913 TTTTTAATTTTAAAATATTTTTAAAATA-TTTTTAAAATACTT
1 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTAAAATA-AT
12901955 TTTTTAATTTTTAAAATA
1 TTTTTAA-TTTTAAAATA
12901973 AATTTTTCTT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
41 7 0.13
42 36 0.68
43 10 0.19
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (42 bp):
TTTTTAATTTTAAAATATTTTTAAAATACTTTTTAAAATAAT
Found at i:12901964 original size:21 final size:20
Alignment explanation
Indices: 12901912--12901972 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
12901902 TTTTTTTTAA
12901912 TTTTTTAA-TTTTAAAATAT
1 TTTTTTAATTTTTAAAATAT
**
12901931 TTTTAAAATATTTTTAAAATACT
1 TTTT-TTA-ATTTTTAAAATA-T
12901954 TTTTTTAATTTTTAAAATA
1 TTTTTTAATTTTTAAAATA
12901973 AATTTTTCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 4 0.12
20 1 0.03
21 13 0.38
22 11 0.32
23 5 0.15
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTTAATTTTTAAAATAT
Found at i:12901978 original size:21 final size:22
Alignment explanation
Indices: 12901910--12901997 Score: 62
Period size: 22 Copynumber: 4.1 Consensus size: 22
12901900 TTTTTTTTTT
12901910 AATTTTT-TAA-TTTTAAAAT-
1 AATTTTTATAATTTTTAAAATA
*
12901929 -ATTTTTAAAATATTTTTAAAAT-
1 AATTTTT-ATA-ATTTTTAAAATA
* *
12901951 ACTTTTTTTAATTTTTAAAATA
1 AATTTTTATAATTTTTAAAATA
* *
12901973 AATTTTTCTTATTTATTAAAA-A
1 AATTTTTATAATTT-TTAAAATA
12901995 AAT
1 AAT
12901998 GGGCCGGGCC
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
18 6 0.11
20 1 0.02
21 12 0.22
22 25 0.45
23 11 0.20
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
AATTTTTATAATTTTTAAAATA
Found at i:12901978 original size:22 final size:22
Alignment explanation
Indices: 12901939--12901997 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
12901929 ATTTTTAAAA
*
12901939 TATTTTTAAAAT-ACTTTTT-T
1 TATTTTTAAAATAAATTTTTCT
12901959 TAATTTTTAAAATAAATTTTTCT
1 T-ATTTTTAAAATAAATTTTTCT
12901982 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
12901998 GGGCCGGGCC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.32
22 14 0.41
23 8 0.24
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (22 bp):
TATTTTTAAAATAAATTTTTCT
Found at i:12902587 original size:13 final size:13
Alignment explanation
Indices: 12902569--12902594 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12902559 AGCTAATAGG
12902569 TTAAAAATATTAA
1 TTAAAAATATTAA
12902582 TTAAAAATATTAA
1 TTAAAAATATTAA
12902595 AAGTTTAAAA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAAAAATATTAA
Found at i:12904084 original size:8 final size:8
Alignment explanation
Indices: 12904071--12904098 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
12904061 ATGATATAAA
12904071 AAAATTTT
1 AAAATTTT
12904079 AAAATTTT
1 AAAATTTT
12904087 AAAATTTT
1 AAAATTTT
12904095 AAAA
1 AAAA
12904099 AATAGCCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
AAAATTTT
Found at i:12918048 original size:25 final size:25
Alignment explanation
Indices: 12918019--12918140 Score: 108
Period size: 25 Copynumber: 5.0 Consensus size: 25
12918009 GAAGCTTTTC
*
12918019 CGAGCCATATAATGGGAAGCTCATG
1 CGAGCCATATAATGGGAAGCTCATA
* * *
12918044 TGAGCCATATAACGGGAAGCTCTTA
1 CGAGCCATATAATGGGAAGCTCATA
* *
12918069 CGAGCCAAATATTGGGAAGCTCA-A
1 CGAGCCATATAATGGGAAGCTCATA
* ** *
12918093 CGAGCTATA-AACAGAAAGCTCAATA
1 CGAGCCATATAATGGGAAGCTC-ATA
12918118 -GAGCCAT-TAATCGGGAAGCTCAT
1 CGAGCCATATAAT-GGGAAGCTCAT
12918141 GAGAGTCAAA
Statistics
Matches: 74, Mismatches: 19, Indels: 9
0.73 0.19 0.09
Matches are distributed among these distances:
23 8 0.11
24 19 0.26
25 47 0.64
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (25 bp):
CGAGCCATATAATGGGAAGCTCATA
Found at i:12922578 original size:18 final size:20
Alignment explanation
Indices: 12922541--12922578 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
12922531 TTACACATAC
12922541 AAAAAAATTATAATTATAAT
1 AAAAAAATTATAATTATAAT
12922561 AAAAAAATTA-AATT-TAAT
1 AAAAAAATTATAATTATAAT
12922579 GTTATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAAAATTATAATTATAAT
Found at i:12926084 original size:7 final size:7
Alignment explanation
Indices: 12926072--12926102 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
12926062 AAAACTTACG
12926072 ATAATAT
1 ATAATAT
12926079 ATAATAT
1 ATAATAT
12926086 ATAATAT
1 ATAATAT
12926093 ATAATAT
1 ATAATAT
12926100 ATA
1 ATA
12926103 TGCTTCAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
ATAATAT
Found at i:12929660 original size:17 final size:16
Alignment explanation
Indices: 12929638--12929669 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
12929628 GAGAAAAGAA
12929638 AAGAAAATAATAGAAAG
1 AAGAAAATAA-AGAAAG
12929655 AAGAAAATAAAGAAA
1 AAGAAAATAAAGAAA
12929670 AGGGGAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (16 bp):
AAGAAAATAAAGAAAG
Found at i:12932584 original size:27 final size:27
Alignment explanation
Indices: 12932554--12932605 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
12932544 AAATATAAGC
12932554 TCTTTAATGGAGAATTTATTTTTCTGT
1 TCTTTAATGGAGAATTTATTTTTCTGT
*
12932581 TCTTTAATGGGGAATTTATTTTTCT
1 TCTTTAATGGAGAATTTATTTTTCT
12932606 TACAATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.08, G:0.15, T:0.56
Consensus pattern (27 bp):
TCTTTAATGGAGAATTTATTTTTCTGT
Found at i:12938704 original size:12 final size:12
Alignment explanation
Indices: 12938689--12938723 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
12938679 TAGGTTTGAA
12938689 AAAATAGAAATG
1 AAAATAGAAATG
*
12938701 AAAATAAAAATG
1 AAAATAGAAATG
*
12938713 AAAATGGAAAT
1 AAAATAGAAAT
12938724 TTGCAATCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (12 bp):
AAAATAGAAATG
Found at i:12938910 original size:26 final size:26
Alignment explanation
Indices: 12938881--12938937 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
12938871 TACCAGGGGC
12938881 AAAATCGTCAAAATTTTACTAAGGGT
1 AAAATCGTCAAAATTTTACTAAGGGT
* *
12938907 AAAATCGTCAAAATTTTGCTAGGGGT
1 AAAATCGTCAAAATTTTACTAAGGGT
12938933 AAAAT
1 AAAAT
12938938 AAGGATGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.30
Consensus pattern (26 bp):
AAAATCGTCAAAATTTTACTAAGGGT
Found at i:12941547 original size:12 final size:12
Alignment explanation
Indices: 12941530--12941554 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12941520 CATCAAATTT
12941530 TTTGTTCTAACA
1 TTTGTTCTAACA
12941542 TTTGTTCTAACA
1 TTTGTTCTAACA
12941554 T
1 T
12941555 AATGTAACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (12 bp):
TTTGTTCTAACA
Found at i:12948452 original size:28 final size:28
Alignment explanation
Indices: 12948420--12948482 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
12948410 GGAAAGAGTA
12948420 AACTTTAATTCAATTCATCAACCTTTCG
1 AACTTTAATTCAATTCATCAACCTTTCG
* *
12948448 AACTTTAATTCAGTTCATCAGCCTTTCG
1 AACTTTAATTCAATTCATCAACCTTTCG
12948476 AATCTTT
1 AA-CTTT
12948483 CTGACTGAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 28 0.88
29 4 0.12
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (28 bp):
AACTTTAATTCAATTCATCAACCTTTCG
Found at i:12950489 original size:14 final size:14
Alignment explanation
Indices: 12950470--12950499 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
12950460 ACTAAGAATA
12950470 TACAAATAAATACT
1 TACAAATAAATACT
12950484 TACAAATAAATACT
1 TACAAATAAATACT
12950498 TA
1 TA
12950500 AGAAAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (14 bp):
TACAAATAAATACT
Found at i:12954147 original size:169 final size:170
Alignment explanation
Indices: 12953867--12954199 Score: 435
Period size: 169 Copynumber: 2.0 Consensus size: 170
12953857 CGCCACAAAA
** *
12953867 AACCTAAGCCCAACGACACCGTTTTCCTAGCTTTCAGGGATTTAGCGGTGTTTCTAAAAAAGCGC
1 AACCTAAGCCCAACGACACCGTTTTCCTAGCTTTCAGGGATTTAGCGGAATTTCTAAAAAAGCAC
* *** * *
12953932 CGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGTAAAGTTCCGC-AAAAAACCTAAGCCGAATGA
66 CGCTAATGCTCAGGGATTTAGCGGCGTTTTTGGTAAACCGCCGCAAAAAAACCTAAGCCCAACGA
* *
12953996 CT-CCGTTTTCTGAACTTTAGGGGATTTAGCGGCGCTTTAC
131 -TGCCGTTTTCTGAACTTTAGGAGATTTAACGGCGCTTTAC
* * *
12954036 AACCTAAGCCCAACGACGCCGTTTT-TTGAGCTTT-AGGGGATTTAGCGGCAATTT-TAAGAAAG
1 AACCTAAGCCCAACGACACCGTTTTCCT-AGCTTTCA-GGGATTTAGCGG-AATTTCTAAAAAAG
12954098 CACCGCTAATGCTCAGGGATTTAGCGGCGTTTTTGAG-AAACCGCCGCAAAAAAACCTAAGCCCA
63 CACCGCTAATGCTCAGGGATTTAGCGGCGTTTTTG-GTAAACCGCCGCAAAAAAACCTAAGCCCA
* *
12954162 ACGATGCCGTTTTCTGAGCTTTTGGAGATTTAACGGCG
127 ACGATGCCGTTTTCTGAACTTTAGGAGATTTAACGGCG
12954200 TTTTTAAGAA
Statistics
Matches: 142, Mismatches: 16, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
168 2 0.01
169 90 0.63
170 50 0.35
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (170 bp):
AACCTAAGCCCAACGACACCGTTTTCCTAGCTTTCAGGGATTTAGCGGAATTTCTAAAAAAGCAC
CGCTAATGCTCAGGGATTTAGCGGCGTTTTTGGTAAACCGCCGCAAAAAAACCTAAGCCCAACGA
TGCCGTTTTCTGAACTTTAGGAGATTTAACGGCGCTTTAC
Found at i:12954236 original size:114 final size:113
Alignment explanation
Indices: 12954036--12954881 Score: 1025
Period size: 114 Copynumber: 7.6 Consensus size: 113
12954026 GGCGCTTTAC
* * ** *
12954036 AACCTAAGCCCAACGACGCCGTTTTTTGAGCTTTAGGGGATTTAGCGGCAATTTTAAGAAAGCAC
1 AACCTAAGCCCAACGACGTCGTTTTCTGAGCTTT-GGGGATTTAGCGGCGTTTTTAAGAAAGCGC
* * *
12954101 CGCTAATGCTCAGGGATTTAGCGGCGTTTTTGAGAAACCGCCGCAAAAA
65 CGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAA
* * * *
12954150 AACCTAAGCCCAACGATGCCGTTTTCTGAGCTTTTGGAGATTTAACGGCGTTTTTAAGAAAGCGC
1 AACCTAAGCCCAACGACGTCGTTTTCTGAGC-TTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGC
* * *
12954215 CGCTAATGCTCAAGGCTTTAGCGGTGTTTTTGGGAAAGCGCCGTAAAAA
65 CGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAA
* * *
12954264 AATCAAAGCCCAACTGA-G-C--TTTC--A-----GGGGATTTAGTGGCGTTTTTAAGAAAGCGC
1 AACCTAAGCCCAAC-GACGTCGTTTTCTGAGCTTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGC
* * * *
12954318 CGCTAATGCTCAGGGATTTAGCGACATTTTTGAGAAAGCGCCGCAAAAA
65 CGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAA
* *
12954367 AACCTAAGCCCAACGACGTCATTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAATAAAGCGC
1 AACCTAAGCCCAACGACGTCGTTTTCTGAGCTTT-GGGGATTTAGCGGCGTTTTTAAGAAAGCGC
* * * * * *
12954432 GGCTAATGCTCAAGACTTTAGCGACATTTTTGGGAAAGCGCCGTAAAAA
65 CGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAA
* * *
12954481 AACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTCGGGGATTTAGTGGTGTTTTTAAGAAAGCAC
1 AACCTAAGCCCAACGACGTCGTTTTCTGAGCTTT-GGGGATTTAGCGGCGTTTTTAAGAAAGCGC
* * *
12954546 CACTAATGCTGAGGGCTTTAGCGGCGTTTTTGGGAAAGCTCCGCAAAAA
65 CGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAA
* * *
12954595 AATCAAAGCCCAACTGA-G-C--TTTC---G----GGGGATTTAGCGGCTTTTTTAAGAAAGCGC
1 AACCTAAGCCCAAC-GACGTCGTTTTCTGAGCTTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGC
* * *
12954649 CGCTAATGCTCAGGGATTTAGCGGCGTTTTTGAGAAAGCACCGCAAAAAA
65 CGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGC-AAAAA
* * *
12954699 AACCTAAGCCCAACGACATCGTTTTCTAAGCTTTCAGGGATTTAGCGGCGTTTTTAAGAAAGCGC
1 AACCTAAGCCCAACGACGTCGTTTTCTGAGCTTT-GGGGATTTAGCGGCGTTTTTAAGAAAGCGC
*
12954764 CGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGGAAAGCGCCGCAAAAA
65 CGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAA
*
12954813 AACCTAAGCCCAATGACGTCGTTTTCTGAGCTTTTGGGGGATTTAGCGGCGTTTTTAAGAAAGCG
1 AACCTAAGCCCAACGACGTCGTTTTCTGAGC-TTT-GGGGATTTAGCGGCGTTTTTAAGAAAGCG
12954878 CCGC
64 CCGC
12954882 AAAATAACCT
Statistics
Matches: 629, Mismatches: 74, Indels: 57
0.83 0.10 0.08
Matches are distributed among these distances:
102 2 0.00
103 149 0.24
104 18 0.03
105 1 0.00
106 4 0.01
107 4 0.01
108 2 0.00
109 1 0.00
110 1 0.00
111 8 0.01
113 2 0.00
114 327 0.52
115 110 0.17
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (113 bp):
AACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCC
GCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAA
Found at i:12954326 original size:217 final size:217
Alignment explanation
Indices: 12954062--12954881 Score: 923
Period size: 217 Copynumber: 3.7 Consensus size: 217
12954052 CGCCGTTTTT
**
12954062 TGAGCTTT-AGGGGATTTAGCGGCAATTTTAAGAAAGCACCGCTAATGCTCAGGGATTTAGCGGC
1 TGAGCTTTCAGGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGGATTTAGCGGC
* * * * *
12954126 GTTTTTGAGAAACCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTCTGAGCTTTTGGAGAT
66 ATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTTGGGGAT
* *
12954191 TTAACGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGTGTTTTTGGGAAAGCGC
131 TTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTTTGGGAAAGCGC
* *
12954256 CGTAAAAAAATCAAAGCCCAAC
196 CGTAAAAAAACCTAAGCCCAAC
* * *
12954278 TGAGCTTTCAGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGAC
1 TGAGCTTTCAGGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGGATTTAGCGGC
* *
12954343 ATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCATTTTCTGAGCTTTCGGGGAT
66 ATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTTGGGGAT
* * * * *
12954408 TTAGCGGCGTTTTTAATAAAGCGCGGCTAATGCTCAAGACTTTAGCGACATTTTTGGGAAAGCGC
131 TTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTTTGGGAAAGCGC
12954473 CGTAAAAAAACCTAAGCCCAAC
196 CGTAAAAAAACCTAAGCCCAAC
* * * *
12954495 -GACGTCGTTTTCTGAGCTTTCGGGGATTTAGTGGTGTTTTTAAGAAAGCACCACTAATGCTGAG
1 TGA-G-C--TTTC--A------GGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAG
* * * * * *
12954559 GGCTTTAGCGGCGTTTTTGGGAAAGCTCCGCAAAAAAATCAAAGCCCAACTGA-G-C--TTTC--
54 GGATTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAAC-GACGTCGTTTTCTG
* * *
12954618 -G-----GGGGATTTAGCGGCTTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTT
118 AGCTTTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTT
* * *
12954677 TTTGAGAAAGCACCGCAAAAAAAACCTAAGCCCAACGAC
183 TTTGGGAAAGCGCCG-TAAAAAAACCTAAGCCC-A--AC
* *
12954716 ATCGTTTTCTAAGCTTTCA-GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
1 -T-G-------AGCTTTCAGGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGGA
* *
12954780 TTTAGCGGCATTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAATGACGTCGTTTTCTGAGCT
57 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCT
12954845 TTTGGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGC
122 TTT-GGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGC
12954882 AAAATAACCT
Statistics
Matches: 509, Mismatches: 54, Indels: 68
0.81 0.09 0.11
Matches are distributed among these distances:
216 10 0.02
217 253 0.50
218 100 0.20
219 2 0.00
220 4 0.01
221 6 0.01
222 2 0.00
224 2 0.00
225 5 0.01
227 5 0.01
228 83 0.16
229 3 0.01
230 33 0.06
231 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (217 bp):
TGAGCTTTCAGGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGGATTTAGCGGC
ATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTTGGGGAT
TTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTTTGGGAAAGCGC
CGTAAAAAAACCTAAGCCCAAC
Found at i:12954640 original size:331 final size:332
Alignment explanation
Indices: 12954036--12954876 Score: 1281
Period size: 331 Copynumber: 2.5 Consensus size: 332
12954026 GGCGCTTTAC
* * * ** *
12954036 AACCTAAGCCCAACGACGCCGTTTTTTGAGCTTTAGGGGATTTAGCGGCAATTTTAAGAAAGCAC
1 AACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGC
* * *
12954101 CGCTAATGCTCAGGGA-TTTAGCGGCGTTTTTGAGAAACCGCCGCAAAAAAACCTAAGCCCAACG
66 CGCTAATGCTCA-GGACTTTAGCGGCATTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACG
* * * * * * *
12954165 ATGCCGTTTTCTGAGCTTTTGGAGATTTAACGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGG
130 ACGTCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACCACTAATGCTCAAGG
* *
12954230 CTTTAGCGGTGTTTTTGGGAAAGCGCCGTAAAAAAATCAAAGCCCAACTGAGCTTTCAGGGGATT
195 CTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAATCAAAGCCCAACTGAGCTTTCAGGGGATT
* *
12954295 TAGTGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGACATTTTTGAGAAAGCGCC
260 TAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGACATTTTTGAGAAAGCACC
12954360 GC-AAAAA
325 GCAAAAAA
* *
12954367 AACCTAAGCCCAACGACGTCATTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAATAAAGCGC
1 AACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGC
* * * *
12954432 GGCTAATGCTCAAGACTTTAGCGACATTTTTGGGAAAGCGCCGTAAAAAAACCTAAGCCCAACGA
66 CGCTAATGCTCAGGACTTTAGCGGCATTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGA
* * * *
12954497 CGTCGTTTTCTGAGCTTTCGGGGATTTAGTGGTGTTTTTAAGAAAGCACCACTAATGCTGAGGGC
131 CGTCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACCACTAATGCTCAAGGC
* *
12954562 TTTAGCGGCGTTTTTGGGAAAGCTCCGCAAAAAAATCAAAGCCCAACTGAGCTTTCGGGGGATTT
196 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAATCAAAGCCCAACTGAGCTTTCAGGGGATTT
* * *
12954627 AGCGGCTTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTGAGAAAGCACCG
261 AGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGACATTTTTGAGAAAGCACCG
12954692 CAAAAAA
326 CAAAAAA
* * *
12954699 AACCTAAGCCCAACGACATCGTTTTCTAAGCTTTCAGGGATTTAGCGGCGTTTTTAAGAAAGCGC
1 AACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGC
* *
12954764 CGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAATGA
66 CGCTAATGCTCAGGACTTTAGCGGCATTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGA
*
12954829 CGTCGTTTTCTGAGCTTTTGGGGGATTTAGCGGCGTTTTTAAGAAAGC
131 CGTCGTTTTCTGAGC-TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGC
12954877 GCCGCAAAAT
Statistics
Matches: 458, Mismatches: 49, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
330 2 0.00
331 288 0.63
332 139 0.30
333 29 0.06
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (332 bp):
AACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGC
CGCTAATGCTCAGGACTTTAGCGGCATTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGA
CGTCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACCACTAATGCTCAAGGC
TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAATCAAAGCCCAACTGAGCTTTCAGGGGATTT
AGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGACATTTTTGAGAAAGCACCG
CAAAAAA
Found at i:12954756 original size:218 final size:216
Alignment explanation
Indices: 12954280--12954825 Score: 689
Period size: 218 Copynumber: 2.5 Consensus size: 216
12954270 AGCCCAACTG
* * * * *
12954280 AGCTTTCAGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGACAT
1 AGCTTTCA-GGGATTTAGCGGCGTTTTTAAGAAAGCACCACTAATGCTCAGGGCTTTAGCGGCAT
* *
12954345 TTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCATTTTCTGAGCTTTCGGGGATTT
65 TTTTGGGAAAGCGCCGCAAAAAAACCAAAG-CC--C-A----A----CTGAGCTTTCGGGGATTT
* * * *
12954410 AGCGGCGTTTTTAATAAAGCGCGGCTAATGCTCAAGACTTTAGCGACATTTTTGGGAAAGCGCCG
118 AGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGACTTTAGCGACATTTTTGAGAAAGCACCG
* * *
12954475 TAAAAAAACCTAAGCCCAACGACGTCGTTTTCTG
183 AAAAAAAACCTAAGCCCAACGACATCGTTTTCTA
* * * * *
12954509 AGCTTTCGGGGATTTAGTGGTGTTTTTAAGAAAGCACCACTAATGCTGAGGGCTTTAGCGGCGTT
1 AGCTTTCAGGGATTTAGCGGCGTTTTTAAGAAAGCACCACTAATGCTCAGGGCTTTAGCGGCATT
* * *
12954574 TTTGGGAAAGCTCCGCAAAAAAATCAAAGCCCAACTGAGCTTTCGGGGGATTTAGCGGCTTTTTT
66 TTTGGGAAAGCGCCGCAAAAAAACCAAAGCCCAACTGAGCTTTC-GGGGATTTAGCGGCGTTTTT
* * *
12954639 AAGAAAGCGCCGCTAATGCTCAGGGA-TTTAGCGGCGTTTTTGAGAAAGCACCGCAAAAAAAACC
130 AAGAAAGCGCCGCTAATGCTCA-AGACTTTAGCGACATTTTTGAGAAAGCACCG-AAAAAAAACC
12954703 TAAGCCCAACGACATCGTTTTCTA
193 TAAGCCCAACGACATCGTTTTCTA
* *
12954727 AGCTTTCAGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATT
1 AGCTTTCAGGGATTTAGCGGCGTTTTTAAGAAAGCACCACTAATGCTCAGGGCTTTAGCGGCATT
*
12954792 TTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAA
66 TTTGGGAAAGCGCCGCAAAAAAACCAAAGCCCAA
12954826 TGACGTCGTT
Statistics
Matches: 281, Mismatches: 33, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
216 10 0.04
217 62 0.22
218 122 0.43
220 1 0.00
224 1 0.00
225 1 0.00
227 2 0.01
228 75 0.27
229 7 0.02
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (216 bp):
AGCTTTCAGGGATTTAGCGGCGTTTTTAAGAAAGCACCACTAATGCTCAGGGCTTTAGCGGCATT
TTTGGGAAAGCGCCGCAAAAAAACCAAAGCCCAACTGAGCTTTCGGGGATTTAGCGGCGTTTTTA
AGAAAGCGCCGCTAATGCTCAAGACTTTAGCGACATTTTTGAGAAAGCACCGAAAAAAAACCTAA
GCCCAACGACATCGTTTTCTA
Found at i:12954814 original size:115 final size:114
Alignment explanation
Indices: 12954611--12954881 Score: 425
Period size: 115 Copynumber: 2.4 Consensus size: 114
12954601 AGCCCAACTG
* *
12954611 AGCTTTCGGGGGATTTAGCGGCTTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGT
1 AGCTTTC-GGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCAT
12954676 TTTTGAGAAAGCACCGCAAAAAAAACCTAAGCCCAACGACATCGTTTTCTA
65 TTTTGAGAAAGCACCGC-AAAAAAACCTAAGCCCAACGACATCGTTTTCTA
* *
12954727 AGCTTTCAGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATT
1 AGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCATT
* * * * *
12954792 TTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAATGACGTCGTTTTCTG
66 TTTGAGAAAGCACCGCAAAAAAACCTAAGCCCAACGACATCGTTTTCTA
*
12954841 AGCTTTTGGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGC
1 AGC-TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGC
12954882 AAAATAACCT
Statistics
Matches: 143, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
114 33 0.23
115 103 0.72
116 7 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (114 bp):
AGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCATT
TTTGAGAAAGCACCGCAAAAAAACCTAAGCCCAACGACATCGTTTTCTA
Found at i:12954911 original size:74 final size:73
Alignment explanation
Indices: 12954780--12954943 Score: 231
Period size: 74 Copynumber: 2.2 Consensus size: 73
12954770 TGCTCAGGGC
* ** * *
12954780 TTTAGCGGCATTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAATGACGTCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAACCCAACGACGTCGTTTTCTGAGC-
*
12954845 TTTGGGGGA
65 TTTCGGGGA
* *
12954854 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAATAACCTAAACCCAACGACG-CTGTTTTTTGAGC
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAACCCAACGACGTC-GTTTTCTGAGC
12954918 TTTCGGGGA
65 TTTCGGGGA
12954927 TTTAGCGGCGTTTTTAA
1 TTTAGCGGCGTTTTTAA
12954944 TAATTTGTCT
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
73 26 0.32
74 55 0.68
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAACCCAACGACGTCGTTTTCTGAGCT
TTCGGGGA
Found at i:12954967 original size:9 final size:9
Alignment explanation
Indices: 12954953--12954988 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
12954943 ATAATTTGTC
12954953 TATTTAATT
1 TATTTAATT
12954962 TATTTAATT
1 TATTTAATT
12954971 TATTT-ATT
1 TATTTAATT
12954979 TATATTAATT
1 TAT-TTAATT
12954989 ACAATTCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 6 0.24
9 16 0.64
10 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TATTTAATT
Found at i:12956140 original size:17 final size:17
Alignment explanation
Indices: 12956118--12956155 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
12956108 CGATTGCATG
12956118 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
12956135 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
12956152 TTTC
1 TTTC
12956156 CTTTGAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.11, C:0.13, G:0.11, T:0.66
Consensus pattern (17 bp):
TTTCTATTGCTGTTTAT
Found at i:12956944 original size:29 final size:23
Alignment explanation
Indices: 12956863--12956935 Score: 114
Period size: 23 Copynumber: 3.2 Consensus size: 23
12956853 TTGTTTTGAT
12956863 ATTGTTCTTGATTTGT-T-CTGGAA
1 ATTGTT-TTGA-TTGTCTGCTGGAA
12956886 ATTGTTTTGATTGTCTGCTGGAA
1 ATTGTTTTGATTGTCTGCTGGAA
12956909 ATTGTTTTGATTGTCTGCTGGAA
1 ATTGTTTTGATTGTCTGCTGGAA
12956932 ATTG
1 ATTG
12956936 AATTTGTTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.08
22 5 0.10
23 39 0.81
ACGTcount: A:0.18, C:0.08, G:0.25, T:0.49
Consensus pattern (23 bp):
ATTGTTTTGATTGTCTGCTGGAA
Found at i:12958164 original size:25 final size:25
Alignment explanation
Indices: 12958130--12958235 Score: 121
Period size: 25 Copynumber: 4.2 Consensus size: 25
12958120 TACATCAATA
12958130 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
12958155 ATTAAAATAAGGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
12958178 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
12958203 ATTAAAAATCAA-GACATTTAATATTTT
1 ATT-AAAAT-AAGGAC-TTTAATATTTT
*
12958230 AATAAA
1 ATTAAA
12958236 GAAATTTAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
23 19 0.28
24 2 0.03
25 22 0.32
26 11 0.16
27 15 0.22
ACGTcount: A:0.50, C:0.06, G:0.07, T:0.38
Consensus pattern (25 bp):
ATTAAAATAAGGACTTTAATATTTT
Found at i:12958181 original size:23 final size:23
Alignment explanation
Indices: 12958123--12958192 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
12958113 AAAAAATTAC
12958123 ATCAATAATTAAAATAAGGACTTTA
1 ATCAATAATTAAAATAAGGAC--TA
* *
12958148 AT-ATTTTATTAAAATAAGGACTA
1 ATCA-ATAATTAAAATAAGGACTA
12958171 ATCAATAATTAAAATAAGGACT
1 ATCAATAATTAAAATAAGGACT
12958193 TTAATATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
23 20 0.51
24 2 0.05
25 17 0.44
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (23 bp):
ATCAATAATTAAAATAAGGACTA
Found at i:12961930 original size:47 final size:45
Alignment explanation
Indices: 12961879--12962046 Score: 132
Period size: 47 Copynumber: 3.6 Consensus size: 45
12961869 TATTTAATAT
*
12961879 TAATTATTTTAAATTGTATAAATTCATATAAGAAAAATTATTATCAA
1 TAATTATTTTAAATT-TATAAATTCATATAAGAAAATTTATTAT-AA
* * **
12961926 TAATT-TTATGAAA-TTATATATT-AT-T-ATTAAATTATATGTAATAA
1 TAATTATT-TTAAATTTATAAATTCATATAAGAAAATT-TAT-T-ATAA
* * *
12961970 TAATTATTTTAAATTATACAAATTCATATAAGATAATTTATTAGTTA
1 TAATTATTTTAAATT-TATAAATTCATATAAGAAAATTTATTA-TAA
12962017 TAATTATTTTAAATTTTATTAAA-TCATATA
1 TAATTATTTTAAA-TTTA-TAAATTCATATA
12962047 TTTTAATTAA
Statistics
Matches: 95, Mismatches: 13, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
42 5 0.05
43 4 0.04
44 14 0.15
45 12 0.13
46 10 0.11
47 36 0.38
48 9 0.09
49 5 0.05
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.48
Consensus pattern (45 bp):
TAATTATTTTAAATTTATAAATTCATATAAGAAAATTTATTATAA
Found at i:12961952 original size:91 final size:91
Alignment explanation
Indices: 12961805--12962012 Score: 308
Period size: 91 Copynumber: 2.3 Consensus size: 91
12961795 TTGATTTTAG
* * *
12961805 TAAATTCATATAAGAACATTTTATTGTTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
12961870 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
* * *
12961897 TAAATTCATATAAGAAAAATTATTATCAATAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
12961962 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
12961988 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
12962013 GTTATAATTA
Statistics
Matches: 104, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
91 88 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:12961973 original size:44 final size:43
Alignment explanation
Indices: 12961843--12961987 Score: 116
Period size: 44 Copynumber: 3.2 Consensus size: 43
12961833 AAGAATTTTA
* *
12961843 TGAAATTATATATCATTATTAAATTATATTTAATATTAATTATT
1 TGAAATTATATATAATTATTAAATTATA-TTAATAATAATTATT
* * * *
12961887 TTAAATTGTATA-AATTCATATAAGA-AAAATTATTATCAATAATT-TT
1 TGAAATTATATATAATT-AT-TAA-ATTATATTA--AT-AATAATTATT
*
12961933 ATGAAATTATATATTATTATTAAATTATATGTAATAATAATTATT
1 -TGAAATTATATATAATTATTAAATTATAT-TAATAATAATTATT
*
12961978 TTAAATTATA
1 TGAAATTATA
12961988 CAAATTCATA
Statistics
Matches: 78, Mismatches: 12, Indels: 22
0.70 0.11 0.20
Matches are distributed among these distances:
43 3 0.04
44 31 0.40
45 10 0.13
46 11 0.14
47 20 0.26
48 3 0.04
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
TGAAATTATATATAATTATTAAATTATATTAATAATAATTATT
Found at i:12961981 original size:26 final size:28
Alignment explanation
Indices: 12961927--12961987 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
12961917 TATTATCAAT
* *
12961927 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
12961955 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
12961981 AATTATA
1 AATTATA
12961988 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:12962211 original size:25 final size:24
Alignment explanation
Indices: 12962162--12962216 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
12962152 TTATTAAATT
12962162 ATATATTTTAATTATAATATATTTA
1 ATATATTTTAATTAT-ATATATTTA
*
12962187 ATATATTTAATAATTAT-TATGTTTA
1 ATATATTT--TAATTATATATATTTA
12962212 A-ATAT
1 ATATAT
12962217 GATTAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 4 0.15
25 16 0.59
27 7 0.26
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
ATATATTTTAATTATATATATTTA
Found at i:12962413 original size:44 final size:45
Alignment explanation
Indices: 12962350--12962447 Score: 117
Period size: 45 Copynumber: 2.2 Consensus size: 45
12962340 CTATTACACC
* * *
12962350 TCTATTCCATTTAACCAAACACAAGA-TTACTATTACGCCTCTAT
1 TCTATTACATTCAACCAAACACAAGATTTACTATTACACCTCTAT
*** *
12962394 TCTATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTAT
1 TCTATTACATTCAACCAAACACAAGATTTACTATTACACCTCTAT
*
12962439 TCCATTACA
1 TCTATTACA
12962448 CCTCTAATCG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 21 0.47
45 24 0.53
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.36
Consensus pattern (45 bp):
TCTATTACATTCAACCAAACACAAGATTTACTATTACACCTCTAT
Found at i:12962447 original size:16 final size:16
Alignment explanation
Indices: 12962428--12962479 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
12962418 GATTTGCTAT
* *
12962428 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
*
12962444 TACACCTCTAATCGAA
1 TACACCTCTAATCCAA
12962460 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
12962476 TACA
1 TACA
12962480 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.35, C:0.35, G:0.02, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:12962577 original size:45 final size:44
Alignment explanation
Indices: 12962518--12962608 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 44
12962508 TTTGGTTCGC
* * *
12962518 TGTATTGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
12962563 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
12962607 TG
1 TG
12962609 GAATAGAGGT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 18 0.46
45 21 0.54
ACGTcount: A:0.30, C:0.05, G:0.29, T:0.36
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:12973931 original size:34 final size:38
Alignment explanation
Indices: 12973888--12974025 Score: 185
Period size: 39 Copynumber: 3.7 Consensus size: 38
12973878 GCTCCTCGTT
12973888 CAAATGCCTTCGGACTTAGCCC-G-A-TAG-TCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGAATTAGATCTCGCA
*
12973922 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGAATTAG-ATCTCGCA
*
12973961 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGAATTAG-ATCTCGCA
* *
12974000 CAAATGCCTTTGGATCTTAGTCCGGA
1 CAAATGCCTTCGGA-CTTAGCCCGGA
12974026 TATTGTCACT
Statistics
Matches: 94, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
34 21 0.22
35 1 0.01
36 1 0.01
37 3 0.03
39 58 0.62
40 10 0.11
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.26
Consensus pattern (38 bp):
CAAATGCCTTCGGACTTAGCCCGGAATTAGATCTCGCA
Found at i:12973969 original size:39 final size:39
Alignment explanation
Indices: 12973888--12974009 Score: 200
Period size: 39 Copynumber: 3.3 Consensus size: 39
12973878 GCTCCTCGTT
*
12973888 CAAATGCCTTCGGACTTAGCCC-G-A-TAG--TCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
12973922 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
12973961 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
12974000 CAAATGCCTT
1 CAAATGCCTT
12974010 TGGATCTTAG
Statistics
Matches: 82, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
34 21 0.26
35 1 0.01
36 1 0.01
37 3 0.04
39 56 0.68
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:12974048 original size:78 final size:73
Alignment explanation
Indices: 12973888--12974061 Score: 185
Period size: 78 Copynumber: 2.3 Consensus size: 73
12973878 GCTCCTCGTT
*
12973888 CAAATGCCTTCGGACTTAGCCCGATAGTCTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGT
1 CAAATGCCTTCGGGCTTAGCCCGATAGTCTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGT
*
12973953 ATCTCGCA
66 ATCTAGCA
* * *
12973961 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTTGGATCTTAGTCCGGA
1 CAAATGCCTTCGGGCTTAGCCC-G-A-TAG--TCTCGCACAAATGCCTTCGG-GCTTAGCCCGGA
12974026 TATT-GTCA-CTTAGCA
60 -ATTAGT-ATC-TAGCA
12974041 C-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGG-CTTAGCCC
12974062 AGACATCATT
Statistics
Matches: 86, Mismatches: 5, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
73 21 0.24
74 1 0.01
75 1 0.01
76 3 0.03
78 28 0.33
79 23 0.27
80 9 0.10
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (73 bp):
CAAATGCCTTCGGGCTTAGCCCGATAGTCTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGT
ATCTAGCA
Found at i:12982078 original size:40 final size:39
Alignment explanation
Indices: 12982034--12982216 Score: 189
Period size: 39 Copynumber: 4.6 Consensus size: 39
12982024 GCTCCTCGTT
* * *
12982034 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
*
12982074 CAAATGCCTTCGGGCTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
12982113 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
12982152 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
12982193 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
12982217 CATCATTCAA
Statistics
Matches: 126, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
38 2 0.02
39 86 0.68
40 29 0.23
41 9 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:12990249 original size:11 final size:11
Alignment explanation
Indices: 12990233--12990257 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12990223 TTGATGAGTG
12990233 ATTATAATTGA
1 ATTATAATTGA
12990244 ATTATAATTGA
1 ATTATAATTGA
12990255 ATT
1 ATT
12990258 TGATAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (11 bp):
ATTATAATTGA
Found at i:12993989 original size:27 final size:25
Alignment explanation
Indices: 12993942--12994011 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 25
12993932 ATTTAAATTT
* *
12993942 AAACATAA-AAATATT-ATTAAATTA
1 AAAC-TAATAAATATTGAATAAATGA
12993966 AAACTAAATAAATATTTGAATAAATGA
1 AAACT-AATAAATA-TTGAATAAATGA
**
12993993 AGTCTAATAAATATTGAAT
1 AAACTAATAAATATTGAAT
12994012 TCCACTTCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 1 0.03
24 6 0.16
25 11 0.29
26 10 0.26
27 10 0.26
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (25 bp):
AAACTAATAAATATTGAATAAATGA
Found at i:12995964 original size:37 final size:37
Alignment explanation
Indices: 12995923--12995996 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
12995913 TATAAGTAGC
*
12995923 ATGGATGTTCACCCTTATATACATACAATTGATTTAT
1 ATGGATGTTCACCCTTATACACATACAATTGATTTAT
12995960 ATGGATGTTCACCCTTATACACATACAATTGATTTAT
1 ATGGATGTTCACCCTTATACACATACAATTGATTTAT
12995997 GTTTTTTTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (37 bp):
ATGGATGTTCACCCTTATACACATACAATTGATTTAT
Found at i:12999334 original size:27 final size:27
Alignment explanation
Indices: 12999303--12999534 Score: 207
Period size: 27 Copynumber: 8.6 Consensus size: 27
12999293 ATATTGAGTC
* *
12999303 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
12999330 TGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
12999357 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
12999385 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
12999412 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
12999439 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
12999466 CGCACACTTAGTTC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
12999493 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
12999520 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
12999535 GTACAATTTA
Statistics
Matches: 171, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.01
27 145 0.85
28 25 0.15
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:12999463 original size:54 final size:54
Alignment explanation
Indices: 12999331--12999533 Score: 282
Period size: 54 Copynumber: 3.7 Consensus size: 54
12999321 TAATCAACTT
* * * * **
12999331 GCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGC-TACATAGTCAAACTC
1 GCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCAT-CATATTC-ATTTC
** * *
12999386 GCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGCATCATATTCATTTC
1 GCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCATCATATTCATTTC
*
12999440 GCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTTCATCATATTCATTTC
1 GCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCATCATATTCATTTC
12999494 GCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGC
1 GCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGC
12999534 TGTACAATTT
Statistics
Matches: 132, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
54 91 0.69
55 40 0.30
56 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (54 bp):
GCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCATCATATTCATTTC
Found at i:12999507 original size:81 final size:82
Alignment explanation
Indices: 12999331--12999533 Score: 273
Period size: 81 Copynumber: 2.5 Consensus size: 82
12999321 TAATCAACTT
* * * *
12999331 GCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAG
1 GCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCAACATAGTCAAACTCGCACACTTAG
* *
12999396 TGCCGCATGGTCAATTC
66 TGCAGCATAGTCAATTC
* * **
12999413 GCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTTAG
1 GCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCAACATAGTCAAACTCGCACACTTAG
* * * *
12999477 TTCATCATATTCATTTC
66 TGCAGCATAGTCAATTC
12999494 GCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGC
1 GCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGC
12999534 TGTACAATTT
Statistics
Matches: 104, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
81 59 0.57
82 45 0.43
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (82 bp):
GCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCAACATAGTCAAACTCGCACACTTAG
TGCAGCATAGTCAATTC
Found at i:13006929 original size:13 final size:13
Alignment explanation
Indices: 13006911--13006956 Score: 83
Period size: 13 Copynumber: 3.5 Consensus size: 13
13006901 CCGGTCAGAC
13006911 ATGAAGGGAAGAG
1 ATGAAGGGAAGAG
*
13006924 ATGAAGGGAAGAC
1 ATGAAGGGAAGAG
13006937 ATGAAGGGAAGAG
1 ATGAAGGGAAGAG
13006950 ATGAAGG
1 ATGAAGG
13006957 TAACGAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.46, C:0.02, G:0.43, T:0.09
Consensus pattern (13 bp):
ATGAAGGGAAGAG
Found at i:13006943 original size:26 final size:26
Alignment explanation
Indices: 13006907--13006956 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
13006897 AACACCGGTC
13006907 AGACATGAAGGGAAGAGATGAAGGGA
1 AGACATGAAGGGAAGAGATGAAGGGA
13006933 AGACATGAAGGGAAGAGATGAAGG
1 AGACATGAAGGGAAGAGATGAAGG
13006957 TAACGAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.42, T:0.08
Consensus pattern (26 bp):
AGACATGAAGGGAAGAGATGAAGGGA
Found at i:13012034 original size:50 final size:50
Alignment explanation
Indices: 13011930--13012168 Score: 180
Period size: 50 Copynumber: 4.7 Consensus size: 50
13011920 AATGAAATCC
**
13011930 CATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGA-G--ATGAGAGGTCT
* *
13011986 CATGTAAGATCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGT-CT
* * * * ** *
13012037 C-CGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
* * * * * * * **
13012086 CATGTAAGACCATATTTGTGATATGGCATTGGCA--GTACAGGAAACATAC-
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGT-CT
*
13012135 CATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
13012169 TGTTATTATC
Statistics
Matches: 151, Mismatches: 28, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
48 1 0.01
49 37 0.25
50 75 0.50
51 3 0.02
52 1 0.01
53 3 0.02
56 31 0.21
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
Found at i:13015352 original size:22 final size:22
Alignment explanation
Indices: 13015324--13015400 Score: 64
Period size: 22 Copynumber: 3.2 Consensus size: 22
13015314 GCAATTAATA
13015324 TATTAATATACATTATATTCTT
1 TATTAATATACATTATATTCTT
* * *
13015346 TATTAATTGTTATTAACTTTATATGACAT
1 TATTAA----TA-T-ACATTATAT-TCTT
13015375 TATTAATATACATTATATTCTT
1 TATTAATATACATTATATTCTT
13015397 TATT
1 TATT
13015401 CTTAATTTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
22 12 0.29
23 8 0.19
24 1 0.02
25 2 0.05
26 2 0.05
27 1 0.02
28 8 0.19
29 8 0.19
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.55
Consensus pattern (22 bp):
TATTAATATACATTATATTCTT
Found at i:13018156 original size:45 final size:45
Alignment explanation
Indices: 13018087--13018189 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 45
13018077 AATCAGTAAC
* *
13018087 GGTAGCAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATA
1 GGTAACAGTAACAGTAACAGTATTCAACACACAAAGTATTGAATA
* * *
13018132 TGTAACAGTAAC-GTTAACAGTATTCGACACACAAAGTATTGAATC
1 GGTAACAGTAACAG-TAACAGTATTCAACACACAAAGTATTGAATA
13018177 GGTAACAGTAACA
1 GGTAACAGTAACA
13018190 ATAGTCGGCA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
44 1 0.02
45 49 0.98
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (45 bp):
GGTAACAGTAACAGTAACAGTATTCAACACACAAAGTATTGAATA
Found at i:13018452 original size:40 final size:41
Alignment explanation
Indices: 13018396--13018479 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 41
13018386 CATTACTTCC
* * * *
13018396 GTAATTTCACAGTTCAATGCAGTACACATAAA-AATATTCA
1 GTAACTTCACAATTCAATGCAATACACAAAAACAATATTCA
* *
13018436 GTAACTTCACAATTCAATTCAATACTCAAAAACAATATTCA
1 GTAACTTCACAATTCAATGCAATACACAAAAACAATATTCA
13018477 GTA
1 GTA
13018480 TTCCATAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 26 0.70
41 11 0.30
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (41 bp):
GTAACTTCACAATTCAATGCAATACACAAAAACAATATTCA
Found at i:13023544 original size:23 final size:24
Alignment explanation
Indices: 13023518--13023567 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
13023508 ATGCCTATTT
* *
13023518 ATAGGCTTGTAAA-CCTTATTCTA
1 ATAGGATTGAAAATCCTTATTCTA
13023541 ATAGGATTGAAAATCCTTATTCTA
1 ATAGGATTGAAAATCCTTATTCTA
13023565 ATA
1 ATA
13023568 ATATTAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (24 bp):
ATAGGATTGAAAATCCTTATTCTA
Found at i:13023943 original size:15 final size:15
Alignment explanation
Indices: 13023923--13023957 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13023913 TTTTGCTCAC
13023923 AACAATATCACCACG
1 AACAATATCACCACG
* *
13023938 AACAATATTATCACG
1 AACAATATCACCACG
13023953 AACAA
1 AACAA
13023958 AATGATACCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.51, C:0.26, G:0.06, T:0.17
Consensus pattern (15 bp):
AACAATATCACCACG
Found at i:13032198 original size:10 final size:10
Alignment explanation
Indices: 13032183--13032210 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
13032173 ATATATCTAA
13032183 TTTATAATTG
1 TTTATAATTG
13032193 TTTATAATTG
1 TTTATAATTG
13032203 TTTATAAT
1 TTTATAAT
13032211 ATTTATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (10 bp):
TTTATAATTG
Found at i:13033901 original size:17 final size:17
Alignment explanation
Indices: 13033879--13033912 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13033869 GTCCCCTCAG
13033879 GGGAAACAAAAAACTAA
1 GGGAAACAAAAAACTAA
* *
13033896 GGGAAAGAAGAAACTAA
1 GGGAAACAAAAAACTAA
13033913 TTAAGTCTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.09, G:0.24, T:0.06
Consensus pattern (17 bp):
GGGAAACAAAAAACTAA
Found at i:13033970 original size:11 final size:11
Alignment explanation
Indices: 13033954--13033980 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
13033944 GAAGAAGGCT
13033954 AAGATCCTACA
1 AAGATCCTACA
13033965 AAGATCCTACA
1 AAGATCCTACA
13033976 AAGAT
1 AAGAT
13033981 TAAATTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.22, G:0.11, T:0.19
Consensus pattern (11 bp):
AAGATCCTACA
Found at i:13036443 original size:26 final size:26
Alignment explanation
Indices: 13036414--13036482 Score: 120
Period size: 26 Copynumber: 2.7 Consensus size: 26
13036404 CCAATATTGG
*
13036414 GAAGCTCACAAAGAGCCTTTAATCGA
1 GAAGCTCACAAAGAGCCTTTAATCAA
13036440 GAAGCTCACAAAGAGCCTTTAATCAA
1 GAAGCTCACAAAGAGCCTTTAATCAA
*
13036466 GAAGATCACAAAGAGCC
1 GAAGCTCACAAAGAGCC
13036483 ATATAACGGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.16
Consensus pattern (26 bp):
GAAGCTCACAAAGAGCCTTTAATCAA
Found at i:13043217 original size:31 final size:30
Alignment explanation
Indices: 13043193--13043613 Score: 456
Period size: 31 Copynumber: 13.8 Consensus size: 30
13043183 GTATATGTTT
*
13043193 TATACATTGCCGAA-TTGATTTGTATAAAGA
1 TATACATTGCCGAATTTGATTTGTAT-ATGA
* *
13043223 TATACATTGCCGAATTTGATTTCTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATAT-GA
* * *
13043254 TATACATTGACGAAATTGATTTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATAT-GA
* * *
13043285 TATACATTGTCGAATTTGAATTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATAT-GA
13043316 TATACATTGCCGAA-TTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATAT-GA
*
13043346 TATACATTGCCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATAT-GA
13043377 TATACATTGCCGAATTTGATTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATAT-GA
* *
13043408 TATACATTGCCGAA-TTGATTTATATATAAA
1 TATACATTGCCGAATTTGATTTGTATAT-GA
* *
13043438 TATACATTGTCGAATTTGATTTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATAT-GA
* * *
13043469 TATATATTGTCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATAT-GA
* * *
13043500 TATACATTGTCAAATTTGAATTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATAT-GA
* *
13043531 TATTCATTGCTGAA-TTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATAT-GA
*
13043561 TATACATTGCCGAATTTGATTCGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATAT-GA
* * *
13043592 TATATACTGTCGAA-TTGATTTG
1 TATACATTGCCGAATTTGATTTG
13043614 AGCATTGGAT
Statistics
Matches: 342, Mismatches: 44, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
30 102 0.30
31 240 0.70
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (30 bp):
TATACATTGCCGAATTTGATTTGTATATGA
Found at i:13043396 original size:123 final size:122
Alignment explanation
Indices: 13043193--13043613 Score: 551
Period size: 123 Copynumber: 3.4 Consensus size: 122
13043183 GTATATGTTT
* * * * *
13043193 TATACATTGCCGAA-TTGATTTGTATAAAGATATACATTGCCGAATTTGATTTCTTTATAGATAT
1 TATACATTGCCGAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATGGTTAT
* * * * *
13043257 ACATTGACGAAATTGATTTGTTTATAGATATACATTGTCGAATTTGAATTGTTTATAGA
66 ACATTGACGAATTTGATTTGTATATGGATATACATTG-CGAA-TTGATTTGTATATAGA
13043316 TATACATTGCCGAA-TTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATGGTTAT
1 TATACATTGCCGAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATGGTTAT
* * *
13043380 ACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTGATTTATATATAAA
66 ACATTGACGAATTTGATTTGTATATGGATATACATTG-CGAATTGATTTGTATATAGA
* * * *
13043438 TATACATTGTCGAATTTGATTTGTTTATAGATATATATTGTCGAATTTGATTTGTATATGGTTAT
1 TATACATTGCCGAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATGGTTAT
* * * *
13043503 ACATTGTCAAATTTGAATTGTATATGGATATTCATTGCTGAATTGATTTGTATATAGA
66 ACATTGACGAATTTGATTTGTATATGGATATACATTGC-GAATTGATTTGTATATAGA
* * * * *
13043561 TATACATTGCCGAATTTGATTCGTATATGGATATATACTGTCGAA-TTGATTTG
1 TATACATTGCCGAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTG
13043614 AGCATTGGAT
Statistics
Matches: 267, Mismatches: 29, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
122 34 0.13
123 233 0.87
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (122 bp):
TATACATTGCCGAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATGGTTAT
ACATTGACGAATTTGATTTGTATATGGATATACATTGCGAATTGATTTGTATATAGA
Found at i:13043623 original size:92 final size:92
Alignment explanation
Indices: 13043193--13043613 Score: 526
Period size: 92 Copynumber: 4.6 Consensus size: 92
13043183 GTATATGTTT
** * *
13043193 TATACATTGCCGAA-TTGATTTGTATAAAGATATACATTGCCGAATTTGATTTCTTTATAGATAT
1 TATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAA-TTGATTTGTATATAGATAT
* *
13043257 ACATTGAC-GAAATTGATTTGTTTATAGA
65 ACATTG-CTGAATTTGATTTGTATATAGA
* * * *
13043285 TATACATTGTCGAATTTGAATTGTTTATAGATATACATTGCCGAATTGATTTGTATATAGATATA
1 TATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATAGATATA
* * *
13043350 CATTGCCGAATTTGATTTGTATATGGT
66 CATTGCTGAATTTGATTTGTATATAGA
* *
13043377 TATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTGATTTATATATAAATATA
1 TATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATAGATATA
*
13043442 CATTG-TCGAATTTGATTTGTTTATAGA
66 CATTGCT-GAATTTGATTTGTATATAGA
* * * * * * *
13043469 TATATATTGTCGAATTTGATTTGTATATGGTTATACATTGTCAAATTTGAATTGTATATGGATAT
1 TATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAA-TTGATTTGTATATAGATAT
*
13043534 TCATTGCTGAA-TTGATTTGTATATAGA
65 ACATTGCTGAATTTGATTTGTATATAGA
* * * *
13043561 TATACATTGCCGAATTTGATTCGTATATGGATATATACTGTCGAATTGATTTG
1 TATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTGATTTG
13043614 AGCATTGGAT
Statistics
Matches: 285, Mismatches: 39, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
91 8 0.03
92 226 0.79
93 50 0.18
94 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (92 bp):
TATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATAGATATA
CATTGCTGAATTTGATTTGTATATAGA
Found at i:13044906 original size:91 final size:91
Alignment explanation
Indices: 13044751--13044934 Score: 359
Period size: 91 Copynumber: 2.0 Consensus size: 91
13044741 GTATGAAATC
13044751 CAAGTTTGTGAAGTTGTGACAAAACATCACGTCTACTTTTGGATCACATCACTAGGCTTTATCCA
1 CAAGTTTGTGAAGTTGTGACAAAACATCACGTCTACTTTTGGATCACATCACTAGGCTTTATCCA
13044816 TGTATTGGAACCCTTTTGGTTATGTA
66 TGTATTGGAACCCTTTTGGTTATGTA
*
13044842 CAAGTTTTTGAAGTTGTGACAAAACATCACGTCTACTTTTGGATCACATCACTAGGCTTTATCCA
1 CAAGTTTGTGAAGTTGTGACAAAACATCACGTCTACTTTTGGATCACATCACTAGGCTTTATCCA
13044907 TGTATTGGAACCCTTTTGGTTATGTA
66 TGTATTGGAACCCTTTTGGTTATGTA
13044933 CA
1 CA
13044935 TATGTTAGTT
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 92 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (91 bp):
CAAGTTTGTGAAGTTGTGACAAAACATCACGTCTACTTTTGGATCACATCACTAGGCTTTATCCA
TGTATTGGAACCCTTTTGGTTATGTA
Found at i:13045550 original size:21 final size:21
Alignment explanation
Indices: 13045497--13045551 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
13045487 AGAACGGTTC
**
13045497 AATATCAATATCCATCCCTTAA
1 AATATCAATA-CCATCCCCAAA
*
13045519 AATATCGATACC-TCCCCAAA
1 AATATCAATACCATCCCCAAA
13045539 AGATATCAATACC
1 A-ATATCAATACC
13045552 GTTTCACTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 7 0.25
21 12 0.43
22 9 0.32
ACGTcount: A:0.42, C:0.29, G:0.04, T:0.25
Consensus pattern (21 bp):
AATATCAATACCATCCCCAAA
Found at i:13050299 original size:25 final size:23
Alignment explanation
Indices: 13050271--13050334 Score: 56
Period size: 25 Copynumber: 2.6 Consensus size: 23
13050261 CTATTATTAT
*
13050271 AGTTCGCATAGAAAAGTACAACATG
1 AGTTCGCATA-AAAA-TAAAACATG
* * *
13050296 AGTTCACACTACAACATAAAATATG
1 AGTTCGCA-TA-AAAATAAAACATG
13050321 AGTTCGCATAAAAA
1 AGTTCGCATAAAAA
13050335 CATGGGTTCG
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
23 3 0.10
24 2 0.06
25 21 0.68
26 5 0.16
ACGTcount: A:0.47, C:0.17, G:0.14, T:0.22
Consensus pattern (23 bp):
AGTTCGCATAAAAATAAAACATG
Found at i:13051590 original size:13 final size:13
Alignment explanation
Indices: 13051572--13051608 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
13051562 GGAGCATGCG
*
13051572 TAAAACATATCTT
1 TAAAACATAACTT
13051585 TAAAACATAACTT
1 TAAAACATAACTT
*
13051598 AAAAACATAAC
1 TAAAACATAAC
13051609 CTAGAAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.57, C:0.16, G:0.00, T:0.27
Consensus pattern (13 bp):
TAAAACATAACTT
Found at i:13051616 original size:13 final size:13
Alignment explanation
Indices: 13051586--13051619 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
13051576 ACATATCTTT
*
13051586 AAAACATAACTTA
1 AAAACATAACCTA
13051599 AAAACATAACCTA
1 AAAACATAACCTA
*
13051612 GAAACATA
1 AAAACATA
13051620 TCTTGAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.62, C:0.18, G:0.03, T:0.18
Consensus pattern (13 bp):
AAAACATAACCTA
Found at i:13056696 original size:472 final size:472
Alignment explanation
Indices: 13055814--13058111 Score: 3606
Period size: 472 Copynumber: 4.9 Consensus size: 472
13055804 TTCTGGGATG
* ** * *
13055814 TAACACCCCTTACCCGAGACCGTTGCCGGAGTCGAGCACAAGGAGTTACCTGACTTAACTTACTA
1 TAACACCCCTTACCCGAGACCGTTGTCGGAGTCGAGCATGATGCGTTACCTGACTTAACTTACTA
* * * *
13055879 GTTCGAATCATAAAAATTTGCTTTTAAAATTAATTCGCTCATGTTCAATC-A-ATGTCCTTAAAA
66 GTTCGGAGCATAAAAATTTGCTTTTAAAATTAATTCGCTCACGTTCAATCAATATGTCCCTAAAA
* ** * * * *
13055942 AGGGCCCTCGAGACACTAAAACATGCAACGGAAATAGTTTAGGTCTAAATCGGGAACATTAAAAA
131 AGGGCCCTCGAGACCCTAAAACATGCAACAAAAATGGTTCAGGTCCAAACCGGGAACATTAAAAA
* * *
13056007 TTTT-TCGAATACTTAAATAAATCAAAATAATTTATTTCACTATTCACAATAAAACAATTCACTT
196 TTTTCT-GAATACTTAAATAAATCAAAATAATTTATTTCACTATTCATAATAAAACTATCCACTT
* * * *
13056071 GCATGACAGTCACTAATTTAATTATAACTCGAGTTTAAAAACTTGAAATTTAAATCCATAAATTT
260 GCGTGACAGTCACTAATTTAATTATAACTCGAGTTTAAAAACTCGAAATTTAGATCCGTAAATTT
13056136 TTCCTAAAACTAGACTCATATATCTTCTTATCATAAAATTTCCAGAATTTTTGGGTTAGCCAAAT
325 TTCCTAAAACTAGACTCATATATCTTCTTATCATAAAATTTCCAGAATTTTTGGGTTAGCCAAAT
*
13056201 AGTACAGTTAATTTGTTAAAGTCTCCCCTGTTTCACTGTCCGACGGTTCTAACCTCTATTCACTA
390 AGTACAGTTAATTTGTTAAAGTCTCCCCTGTTTCACTGTCCGACGGTTCTGACCTCTATTCACTA
13056266 GAAATCAATTATCATAAA
455 GAAATCAATTATCATAAA
* *
13056284 TAACACCCCTTACTCGAGACCGTTGTCGGAGTCGAGCGTGATGCGTTACCTGACTTAACTTACTA
1 TAACACCCCTTACCCGAGACCGTTGTCGGAGTCGAGCATGATGCGTTACCTGACTTAACTTACTA
* *
13056349 GTTCGGAGCATAAAAATTTGCTTTTAAAATTAATTCTCTCATGTTCAATCAATATGTCCCTAAAA
66 GTTCGGAGCATAAAAATTTGCTTTTAAAATTAATTCGCTCACGTTCAATCAATATGTCCCTAAAA
* *
13056414 AGGACCCTCAAGACCCTAAAACATGCAACAAAAATGGTTCAGGTCCAAACCGGGAACATTAAAAA
131 AGGGCCCTCGAGACCCTAAAACATGCAACAAAAATGGTTCAGGTCCAAACCGGGAACATTAAAAA
*
13056479 TTTTCTGAATACTTAAATAAATCAAAATAATTTATTTCACAATTCATAATAAAACTATCCACTTG
196 TTTTCTGAATACTTAAATAAATCAAAATAATTTATTTCACTATTCATAATAAAACTATCCACTTG
* *
13056544 TGTTACAGTCACTAATTTAATTATAACTCGAGTTTAAAAACTCGAAATTTAGATCCGTAAATTTT
261 CGTGACAGTCACTAATTTAATTATAACTCGAGTTTAAAAACTCGAAATTTAGATCCGTAAATTTT
13056609 TCCTAAAACTAGACTCATATATCTTCTTATCATAAAATTTCCAGAATTTTTGGGTTAGCCAAATA
326 TCCTAAAACTAGACTCATATATCTTCTTATCATAAAATTTCCAGAATTTTTGGGTTAGCCAAATA
* * *
13056674 GTACAGTTAATTTGTTAAAGTCTCCCATGTTTCACTGTCTGATGGTTCTGACCTCTATTCACTAG
391 GTACAGTTAATTTGTTAAAGTCTCCCCTGTTTCACTGTCCGACGGTTCTGACCTCTATTCACTAG
13056739 AAATCAATTATCATAAA
456 AAATCAATTATCATAAA
* *
13056756 TAACACCCCTTACCCGAGACCATTGTCGGAGTCGAGCATGATGCGTTAGCTGACTTAACTTACTA
1 TAACACCCCTTACCCGAGACCGTTGTCGGAGTCGAGCATGATGCGTTACCTGACTTAACTTACTA
* *
13056821 GTTCAGAGCATAAAAATTTGTTTTTAAAATTAATTCGCTCACGTTCAATCAATATGTCCCTAAAA
66 GTTCGGAGCATAAAAATTTGCTTTTAAAATTAATTCGCTCACGTTCAATCAATATGTCCCTAAAA
* * *
13056886 AGGGCCCTCGAGACCCTAAAACATGCAACAAAAATGGTTAAAGTCCAAACCAGGAACATTAAAAA
131 AGGGCCCTCGAGACCCTAAAACATGCAACAAAAATGGTTCAGGTCCAAACCGGGAACATTAAAAA
* **
13056951 TTTTCTGATTAGGTAAATAAATCAAAATAATTTATTTCACTATTCATAATAAAACTATCCACTTG
196 TTTTCTGAATACTTAAATAAATCAAAATAATTTATTTCACTATTCATAATAAAACTATCCACTTG
* * *
13057016 CGTGACAGTTACTAATTTAATTATAACTCAAGTTTAAAAACTCGAAATTTAGATCCGTAATTTTT
261 CGTGACAGTCACTAATTTAATTATAACTCGAGTTTAAAAACTCGAAATTTAGATCCGTAAATTTT
* * * *
13057081 TCCTAAAACTAGATTCATATATCTTATTATCATAAAATTTCCAGAATTTTTGGGTTCGGCAAATA
326 TCCTAAAACTAGACTCATATATCTTCTTATCATAAAATTTCCAGAATTTTTGGGTTAGCCAAATA
* * * * * *
13057146 CTTCAGTTAATTCGTTAAAGTCTCCCTTGTTTCACTATCTGACGGTTCTGACCTCTATTCACTAG
391 GTACAGTTAATTTGTTAAAGTCTCCCCTGTTTCACTGTCCGACGGTTCTGACCTCTATTCACTAG
13057211 AAATCAATTATCATAAA
456 AAATCAATTATCATAAA
* *
13057228 TAACACCCCTTACCCGAGACCATTGTCGGAGTCGAGCATGATGCGTTAGCTGACTTAACTTACTA
1 TAACACCCCTTACCCGAGACCGTTGTCGGAGTCGAGCATGATGCGTTACCTGACTTAACTTACTA
* *
13057293 GTTCGGAGCATAAAAATTTGTTTTTAAAATTAATTCGCTCACGTTCAATCAATATGTCTCTAAAA
66 GTTCGGAGCATAAAAATTTGCTTTTAAAATTAATTCGCTCACGTTCAATCAATATGTCCCTAAAA
* *
13057358 AGGGCCCT-GAGACCCTAAAACATACAACAAAAATGGTTTAGGTCCAAA-CGTGGAACATTAAAA
131 AGGGCCCTCGAGACCCTAAAACATGCAACAAAAATGGTTCAGGTCCAAACCG-GGAACATTAAAA
* * *
13057421 CTTTTCTAAATACTTAAATAAATCAAAATAATTTATTTCACTATTCATAATAAAACTATCTACTT
195 ATTTTCTGAATACTTAAATAAATCAAAATAATTTATTTCACTATTCATAATAAAACTATCCACTT
* *
13057486 -CGTGACAGTCACTAATTTAATTATAACTCGAGTTTAAAAACTCAAAATTTAGATCAGTAAATTT
260 GCGTGACAGTCACTAATTTAATTATAACTCGAGTTTAAAAACTCGAAATTTAGATCCGTAAATTT
* *
13057550 TTCCTAAAACTAGACTCACATATCTTCTTATCATAAAATTTCCAGAATTTTTGGGTTAGCAAAAT
325 TTCCTAAAACTAGACTCATATATCTTCTTATCATAAAATTTCCAGAATTTTTGGGTTAGCCAAAT
* * * * *
13057615 AGTAAATTTAATTTGTTAAACTCTCCCCTATTTCACTGTCCGACTGTTCTGACCTCTATTCACTA
390 AGTACAGTTAATTTGTTAAAGTCTCCCCTGTTTCACTGTCCGACGGTTCTGACCTCTATTCACTA
*
13057680 GAAATCAACTATCATAAA
455 GAAATCAATTATCATAAA
* *
13057698 TAACACCCCTTACCCGAGACTGTTG-CTGGAGTCGAACATGATGCGTTACCTGACTTAACTTACT
1 TAACACCCCTTACCCGAGACCGTTGTC-GGAGTCGAGCATGATGCGTTACCTGACTTAACTTACT
* * *
13057762 AGTTCAGAGCATAAAAATTTTCTTTTAAAATTAATTCACTCACGTTCAATCAATATGTCCCTAAA
65 AGTTCGGAGCATAAAAATTTGCTTTTAAAATTAATTCGCTCACGTTCAATCAATATGTCCCTAAA
* * *
13057827 AAGGGACCTCAAGACCCTAAAACATGCAACAAAAATGGTTCAGGTCCAAACCAGGAACATTAAAA
130 AAGGGCCCTCGAGACCCTAAAACATGCAACAAAAATGGTTCAGGTCCAAACCGGGAACATT-AAA
13057892 AATTTT-TGAATACTTAAATAAATCAAAATAATTTATTTCACTATTCATAATAAAACTATCCACT
194 AATTTTCTGAATACTTAAATAAATCAAAATAATTTATTTCACTATTCATAATAAAACTATCCACT
** * * **
13057956 TGCGTGACAGTCACTAATTTAATTATAACTTAAG-TTACGAAACTCTAAATTTAGATATGTAAAT
259 TGCGTGACAGTCACTAATTTAATTATAACTCGAGTTTA-AAAACTCGAAATTTAGATCCGTAAAT
* * * *
13058020 TTTTCCTAAAACTAGACTCATATATCTTCTTATCATAAAATTTCTAAAATTTCTAGGTTAGCCAA
323 TTTTCCTAAAACTAGACTCATATATCTTCTTATCATAAAATTTCCAGAATTTTTGGGTTAGCCAA
* *
13058085 ATAGTACAGTTAATTCGTTAAATTCTC
388 ATAGTACAGTTAATTTGTTAAAGTCTC
13058112 TCGTACAATG
Statistics
Matches: 1684, Mismatches: 134, Indels: 18
0.92 0.07 0.01
Matches are distributed among these distances:
469 1 0.00
470 421 0.25
471 214 0.13
472 1047 0.62
473 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (472 bp):
TAACACCCCTTACCCGAGACCGTTGTCGGAGTCGAGCATGATGCGTTACCTGACTTAACTTACTA
GTTCGGAGCATAAAAATTTGCTTTTAAAATTAATTCGCTCACGTTCAATCAATATGTCCCTAAAA
AGGGCCCTCGAGACCCTAAAACATGCAACAAAAATGGTTCAGGTCCAAACCGGGAACATTAAAAA
TTTTCTGAATACTTAAATAAATCAAAATAATTTATTTCACTATTCATAATAAAACTATCCACTTG
CGTGACAGTCACTAATTTAATTATAACTCGAGTTTAAAAACTCGAAATTTAGATCCGTAAATTTT
TCCTAAAACTAGACTCATATATCTTCTTATCATAAAATTTCCAGAATTTTTGGGTTAGCCAAATA
GTACAGTTAATTTGTTAAAGTCTCCCCTGTTTCACTGTCCGACGGTTCTGACCTCTATTCACTAG
AAATCAATTATCATAAA
Found at i:13057912 original size:942 final size:942
Alignment explanation
Indices: 13055814--13058111 Score: 3644
Period size: 942 Copynumber: 2.4 Consensus size: 942
13055804 TTCTGGGATG
* ** * *
13055814 TAACACCCCTTACCCGAGACCGTTGCCGGAGTCGAGCACAAGGAGTTACCTGACTTAACTTACTA
1 TAACACCCCTTACCCGAGACCGTTGCTGGAGTCGAGCATGATGCGTTACCTGACTTAACTTACTA
* * * *
13055879 GTTC-GAATCATAAAAATTTGCTTTTAAAATTAATTCGCTCATGTTCAATC-A-ATGTCCTTAAA
66 GTTCAG-AGCATAAAAATTTTCTTTTAAAATTAATTCGCTCACGTTCAATCAATATGTCCCTAAA
* ** * * * * *
13055941 AAGGGCCCTCGAGACACTAAAACATGCAACGGAAATAGTTTAGGTCTAAATCGGGAACATTAAAA
130 AAGGGCCCTCGAGACCCTAAAACATGCAACAAAAATGGTTAAGGTCCAAACCAGGAACATTAAAA
* * *
13056006 ATTTTTCGAATACTTAAATAAATCAAAATAATTTATTTCACTATTCACAATAAAACAATTCACTT
195 ATTTTT-GAATACTTAAATAAATCAAAATAATTTATTTCACTATTCATAATAAAACTATCCACTT
* * * * *
13056071 GCATGACAGTCACTAATTTAATTATAACTCGAGTTTAAAAACTTGAAATTTAAATCCATAAATTT
259 GCGTGACAGTCACTAATTTAATTATAACTCAAGTTTAAAAACTCGAAATTTAGATCCGTAAATTT
13056136 TTCCTAAAACTAGACTCATATATCTTCTTATCATAAAATTTCCAGAATTTTTGGGTTAGCCAAAT
324 TTCCTAAAACTAGACTCATATATCTTCTTATCATAAAATTTCCAGAATTTTTGGGTTAGCCAAAT
* *
13056201 AGTACAGTTAATTTGTTAAAGTCTCCCCTGTTTCACTGTCCGACGGTTCTAACCTCTATTCACTA
389 AGTACAGTTAATTCGTTAAAGTCTCCCCTGTTTCACTATCCGACGGTTCTAACCTCTATTCACTA
* * *
13056266 GAAATCAATTATCATAAATAACACCCCTTACTCGAGACCGTTGTCGGAGTCGAGCGTGATGCGTT
454 GAAATCAATTATCATAAATAACACCCCTTACCCGAGACCATTGTCGGAGTCGAGCATGATGCGTT
* *
13056331 ACCTGACTTAACTTACTAGTTCGGAGCATAAAAATTTGCTTTTAAAATTAATTCTCTCATGTTCA
519 ACCTGACTTAACTTACTAGTTCGGAGCATAAAAATTTGCTTTTAAAATTAATTCGCTCACGTTCA
*
13056396 ATCAATATGTCCCTAAAAAGGACCCTCAAGACCCTAAAACATGCAACAAAAATGGTTCAGGTCCA
584 ATCAATATGTCCCTAAAAAGGACCCTCAAGACCCTAAAACATACAACAAAAATGGTTCAGGTCCA
*
13056461 AACCGGGAACATTAAAAATTTTCTGAATACTTAAATAAATCAAAATAATTTATTTCACAATTCAT
649 AACCGGGAACATTAAAAATTTTCTAAATACTTAAATAAATCAAAATAATTTATTTCACAATTCAT
*
13056526 AATAAAACTATCCACTTGTGTTACAGTCACTAATTTAATTATAACTCGAGTTTAAAAACTCGAAA
714 AATAAAACTATCCACTTGTG-TACAGTCACTAATTTAATTATAACTCGAGTTTAAAAACTCAAAA
* *
13056591 TTTAGATCCGTAAATTTTTCCTAAAACTAGACTCATATATCTTCTTATCATAAAATTTCCAGAAT
778 TTTAGATCAGTAAATTTTTCCTAAAACTAGACTCACATATCTTCTTATCATAAAATTTCCAGAAT
* * * * *
13056656 TTTTGGGTTAGCCAAATAGTACAGTTAATTTGTTAAAGTCTCCCATGTTTCACTGTCTGATGGTT
843 TTTTGGGTTAGCAAAATAGTAAAGTTAATTTGTTAAACTCTCCCATATTTCACTGTCCGATGGTT
*
13056721 CTGACCTCTATTCACTAGAAATCAATTATCATAAA
908 CTGACCTCTATTCACTAGAAATCAACTATCATAAA
* *
13056756 TAACACCCCTTACCCGAGACCATTG-TCGGAGTCGAGCATGATGCGTTAGCTGACTTAACTTACT
1 TAACACCCCTTACCCGAGACCGTTGCT-GGAGTCGAGCATGATGCGTTACCTGACTTAACTTACT
13056820 AGTTCAGAGCATAAAAATTTGT-TTTTAAAATTAATTCGCTCACGTTCAATCAATATGTCCCTAA
65 AGTTCAGAGCATAAAAATTT-TCTTTTAAAATTAATTCGCTCACGTTCAATCAATATGTCCCTAA
*
13056884 AAAGGGCCCTCGAGACCCTAAAACATGCAACAAAAATGGTTAAAGTCCAAACCAGGAACATTAAA
129 AAAGGGCCCTCGAGACCCTAAAACATGCAACAAAAATGGTTAAGGTCCAAACCAGGAACATTAAA
* **
13056949 AATTTTCTGATTAGGTAAATAAATCAAAATAATTTATTTCACTATTCATAATAAAACTATCCACT
194 AATTTT-TGAATACTTAAATAAATCAAAATAATTTATTTCACTATTCATAATAAAACTATCCACT
* *
13057014 TGCGTGACAGTTACTAATTTAATTATAACTCAAGTTTAAAAACTCGAAATTTAGATCCGTAATTT
258 TGCGTGACAGTCACTAATTTAATTATAACTCAAGTTTAAAAACTCGAAATTTAGATCCGTAAATT
* * * *
13057079 TTTCCTAAAACTAGATTCATATATCTTATTATCATAAAATTTCCAGAATTTTTGGGTTCGGCAAA
323 TTTCCTAAAACTAGACTCATATATCTTCTTATCATAAAATTTCCAGAATTTTTGGGTTAGCCAAA
* * * * *
13057144 TACTTCAGTTAATTCGTTAAAGTCTCCCTTGTTTCACTATCTGACGGTTCTGACCTCTATTCACT
388 TAGTACAGTTAATTCGTTAAAGTCTCCCCTGTTTCACTATCCGACGGTTCTAACCTCTATTCACT
13057209 AGAAATCAATTATCATAAATAACACCCCTTACCCGAGACCATTGTCGGAGTCGAGCATGATGCGT
453 AGAAATCAATTATCATAAATAACACCCCTTACCCGAGACCATTGTCGGAGTCGAGCATGATGCGT
* *
13057274 TAGCTGACTTAACTTACTAGTTCGGAGCATAAAAATTTGTTTTTAAAATTAATTCGCTCACGTTC
518 TACCTGACTTAACTTACTAGTTCGGAGCATAAAAATTTGCTTTTAAAATTAATTCGCTCACGTTC
* * * *
13057339 AATCAATATGTCTCTAAAAAGGGCCCT-GAGACCCTAAAACATACAACAAAAATGGTTTAGGTCC
583 AATCAATATGTCCCTAAAAAGGACCCTCAAGACCCTAAAACATACAACAAAAATGGTTCAGGTCC
* *
13057403 AAA-CGTGGAACATTAAAACTTTTCTAAATACTTAAATAAATCAAAATAATTTATTTCACTATTC
648 AAACCG-GGAACATTAAAAATTTTCTAAATACTTAAATAAATCAAAATAATTTATTTCACAATTC
*
13057467 ATAATAAAACTATCTACTTCGTG-ACAGTCACTAATTTAATTATAACTCGAGTTTAAAAACTCAA
712 ATAATAAAACTATCCACTT-GTGTACAGTCACTAATTTAATTATAACTCGAGTTTAAAAACTCAA
13057531 AATTTAGATCAGTAAATTTTTCCTAAAACTAGACTCACATATCTTCTTATCATAAAATTTCCAGA
776 AATTTAGATCAGTAAATTTTTCCTAAAACTAGACTCACATATCTTCTTATCATAAAATTTCCAGA
* *
13057596 ATTTTTGGGTTAGCAAAATAGTAAATTTAATTTGTTAAACTCTCCCCTATTTCACTGTCCGACT-
841 ATTTTTGGGTTAGCAAAATAGTAAAGTTAATTTGTTAAACTCTCCCATATTTCACTGTCCGA-TG
13057660 GTTCTGACCTCTATTCACTAGAAATCAACTATCATAAA
905 GTTCTGACCTCTATTCACTAGAAATCAACTATCATAAA
* *
13057698 TAACACCCCTTACCCGAGACTGTTGCTGGAGTCGAACATGATGCGTTACCTGACTTAACTTACTA
1 TAACACCCCTTACCCGAGACCGTTGCTGGAGTCGAGCATGATGCGTTACCTGACTTAACTTACTA
*
13057763 GTTCAGAGCATAAAAATTTTCTTTTAAAATTAATTCACTCACGTTCAATCAATATGTCCCTAAAA
66 GTTCAGAGCATAAAAATTTTCTTTTAAAATTAATTCGCTCACGTTCAATCAATATGTCCCTAAAA
* * *
13057828 AGGGACCTCAAGACCCTAAAACATGCAACAAAAATGGTTCAGGTCCAAACCAGGAACATTAAAAA
131 AGGGCCCTCGAGACCCTAAAACATGCAACAAAAATGGTTAAGGTCCAAACCAGGAACATT-AAAA
13057893 ATTTTTGAATACTTAAATAAATCAAAATAATTTATTTCACTATTCATAATAAAACTATCCACTTG
195 ATTTTTGAATACTTAAATAAATCAAAATAATTTATTTCACTATTCATAATAAAACTATCCACTTG
* * * **
13057958 CGTGACAGTCACTAATTTAATTATAACTTAAG-TTACGAAACTCTAAATTTAGATATGTAAATTT
260 CGTGACAGTCACTAATTTAATTATAACTCAAGTTTA-AAAACTCGAAATTTAGATCCGTAAATTT
* * * *
13058022 TTCCTAAAACTAGACTCATATATCTTCTTATCATAAAATTTCTAAAATTTCTAGGTTAGCCAAAT
324 TTCCTAAAACTAGACTCATATATCTTCTTATCATAAAATTTCCAGAATTTTTGGGTTAGCCAAAT
*
13058087 AGTACAGTTAATTCGTTAAATTCTC
389 AGTACAGTTAATTCGTTAAAGTCTC
13058112 TCGTACAATG
Statistics
Matches: 1242, Mismatches: 101, Indels: 26
0.91 0.07 0.02
Matches are distributed among these distances:
941 4 0.00
942 664 0.53
943 123 0.10
944 450 0.36
945 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (942 bp):
TAACACCCCTTACCCGAGACCGTTGCTGGAGTCGAGCATGATGCGTTACCTGACTTAACTTACTA
GTTCAGAGCATAAAAATTTTCTTTTAAAATTAATTCGCTCACGTTCAATCAATATGTCCCTAAAA
AGGGCCCTCGAGACCCTAAAACATGCAACAAAAATGGTTAAGGTCCAAACCAGGAACATTAAAAA
TTTTTGAATACTTAAATAAATCAAAATAATTTATTTCACTATTCATAATAAAACTATCCACTTGC
GTGACAGTCACTAATTTAATTATAACTCAAGTTTAAAAACTCGAAATTTAGATCCGTAAATTTTT
CCTAAAACTAGACTCATATATCTTCTTATCATAAAATTTCCAGAATTTTTGGGTTAGCCAAATAG
TACAGTTAATTCGTTAAAGTCTCCCCTGTTTCACTATCCGACGGTTCTAACCTCTATTCACTAGA
AATCAATTATCATAAATAACACCCCTTACCCGAGACCATTGTCGGAGTCGAGCATGATGCGTTAC
CTGACTTAACTTACTAGTTCGGAGCATAAAAATTTGCTTTTAAAATTAATTCGCTCACGTTCAAT
CAATATGTCCCTAAAAAGGACCCTCAAGACCCTAAAACATACAACAAAAATGGTTCAGGTCCAAA
CCGGGAACATTAAAAATTTTCTAAATACTTAAATAAATCAAAATAATTTATTTCACAATTCATAA
TAAAACTATCCACTTGTGTACAGTCACTAATTTAATTATAACTCGAGTTTAAAAACTCAAAATTT
AGATCAGTAAATTTTTCCTAAAACTAGACTCACATATCTTCTTATCATAAAATTTCCAGAATTTT
TGGGTTAGCAAAATAGTAAAGTTAATTTGTTAAACTCTCCCATATTTCACTGTCCGATGGTTCTG
ACCTCTATTCACTAGAAATCAACTATCATAAA
Found at i:13058462 original size:49 final size:49
Alignment explanation
Indices: 13058402--13058531 Score: 138
Period size: 49 Copynumber: 2.6 Consensus size: 49
13058392 GATAATAACA
* * *
13058402 TGCCAAAGTCATGTCCCAAACATGGTCTTACATGGGATGTT-TCCTGTAC-
1 TGCCAATGTCATGTCCCAAACATGGTCTTACATGGGA-GTTCTCATAT-CG
* * *
13058451 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGTCATGTCCCAAACATGGTCTTACATGGGAGTTCTCATATC-G
* * *
13058501 TGCCTATGCCATGTCCTAAACATGGTCTTAC
1 TGCCAATGTCATGTCCCAAACATGGTCTTAC
13058532 GGGGGACCTT
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
48 4 0.06
49 37 0.56
50 25 0.38
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.32
Consensus pattern (49 bp):
TGCCAATGTCATGTCCCAAACATGGTCTTACATGGGAGTTCTCATATCG
Found at i:13058551 original size:50 final size:50
Alignment explanation
Indices: 13058492--13058590 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 50
13058482 ATGGGAGTTC
* * *
13058492 TCATATCGGTGCCTATGCCATGTCCTAAACATGGTCTTACGGGGGACCTT
1 TCATATCGGTGCCAACGCCATGTCCTAAACACGGTCTTACGGGGGACCTT
* * * *
13058542 TCATCTCGGTGCCAACGCCATGTCCTAGACACGGTCTTATGTGGGACCT
1 TCATATCGGTGCCAACGCCATGTCCTAAACACGGTCTTACGGGGGACCT
13058591 CTTATAACCT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.19, C:0.28, G:0.24, T:0.28
Consensus pattern (50 bp):
TCATATCGGTGCCAACGCCATGTCCTAAACACGGTCTTACGGGGGACCTT
Found at i:13065186 original size:7 final size:7
Alignment explanation
Indices: 13065176--13065221 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
13065166 ATTCTAAATA
13065176 CTAAGTC
1 CTAAGTC
13065183 CTAAGTC
1 CTAAGTC
13065190 CTAAGTC
1 CTAAGTC
*
13065197 CTAATTC
1 CTAAGTC
*
13065204 CTAATTC
1 CTAAGTC
*
13065211 CTAAATC
1 CTAAGTC
13065218 CTAA
1 CTAA
13065222 TTCTAATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.33
Consensus pattern (7 bp):
CTAAGTC
Found at i:13065222 original size:21 final size:21
Alignment explanation
Indices: 13065169--13065229 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
13065159 AAAAATCATT
* * *
13065169 CTAAATACTAAGTCCTAAGTC
1 CTAAATCCTAATTCCTAATTC
*
13065190 CTAAGTCCTAATTCCTAATTC
1 CTAAATCCTAATTCCTAATTC
13065211 CTAAATCCTAATT-CTAATT
1 CTAAATCCTAATTCCTAATT
13065230 TTTTATTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
20 6 0.17
21 29 0.83
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (21 bp):
CTAAATCCTAATTCCTAATTC
Found at i:13065224 original size:14 final size:14
Alignment explanation
Indices: 13065169--13065221 Score: 70
Period size: 14 Copynumber: 3.8 Consensus size: 14
13065159 AAAAATCATT
*
13065169 CTAAATACTAAGTC
1 CTAAATCCTAAGTC
*
13065183 CTAAGTCCTAAGTC
1 CTAAATCCTAAGTC
* *
13065197 CTAATTCCTAATTC
1 CTAAATCCTAAGTC
13065211 CTAAATCCTAA
1 CTAAATCCTAA
13065222 TTCTAATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (14 bp):
CTAAATCCTAAGTC
Done.