Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 62
Found at i:4187 original size:12 final size:10
Alignment explanation
Indices: 4172--4245 Score: 61
Period size: 8 Copynumber: 7.6 Consensus size: 10
4162 AAAGAAGAAG
4172 AAAAATAAGTGA
1 AAAAATAA-T-A
4184 AAAAATAATA
1 AAAAATAATA
4194 AAAAAT--TA
1 AAAAATAATA
4202 AAAAA-AAT-
1 AAAAATAATA
4210 AAAAA-AATA
1 AAAAATAATA
*
4219 AAAAATGAATG
1 AAAAAT-AATA
4230 AAAAA-AATGA
1 AAAAATAAT-A
4240 AAAAAT
1 AAAAAT
4246 GAGGGTTCAA
Statistics
Matches: 53, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
8 15 0.28
9 9 0.17
10 12 0.23
11 9 0.17
12 8 0.15
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (10 bp):
AAAAATAATA
Found at i:4204 original size:28 final size:27
Alignment explanation
Indices: 4161--4245 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 27
4151 TGCTTGAAGA
4161 AAAAGAAGAA-GAAAAATAAGTGAAAAAAT
1 AAAA-AAGAATGAAAAA-AA-TGAAAAAAT
* *
4190 AATAAAA-AATTAAAAAAAATAAAAAAAT
1 AA-AAAAGAA-TGAAAAAAATGAAAAAAT
4218 AAAAAATGAATGAAAAAAATGAAAAAAT
1 AAAAAA-GAATGAAAAAAATGAAAAAAT
4246 GAGGGTTCAA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
27 4 0.09
28 28 0.60
29 8 0.17
30 7 0.15
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.14
Consensus pattern (27 bp):
AAAAAAGAATGAAAAAAATGAAAAAAT
Found at i:4205 original size:9 final size:9
Alignment explanation
Indices: 4183--4244 Score: 63
Period size: 9 Copynumber: 6.6 Consensus size: 9
4173 AAAATAAGTG
4183 AAAAAATAA
1 AAAAAATAA
4192 TAAAAAATTAA
1 -AAAAAA-TAA
4203 AAAAAAT-A
1 AAAAAATAA
4211 AAAAAATAA
1 AAAAAATAA
*
4220 AAAATGAATGA
1 AAAA--AATAA
*
4231 AAAAAATGA
1 AAAAAATAA
4240 AAAAA
1 AAAAA
4245 TGAGGGTTCA
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
8 8 0.17
9 16 0.34
10 12 0.26
11 11 0.23
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.15
Consensus pattern (9 bp):
AAAAAATAA
Found at i:4210 original size:17 final size:18
Alignment explanation
Indices: 4183--4245 Score: 83
Period size: 17 Copynumber: 3.4 Consensus size: 18
4173 AAAATAAGTG
*
4183 AAAAAATAATAAAAAATT
1 AAAAAATAATAAAAAAAT
4201 AAAAAA-AATAAAAAAAT
1 AAAAAATAATAAAAAAAT
4218 AAAAAATGAATGAAAAAAAT
1 AAAAAAT-AAT-AAAAAAAT
4238 GAAAAAAT
1 -AAAAAAT
4246 GAGGGTTCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
17 16 0.40
18 6 0.15
19 3 0.08
20 8 0.20
21 7 0.17
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (18 bp):
AAAAAATAATAAAAAAAT
Found at i:5393 original size:55 final size:55
Alignment explanation
Indices: 5223--5949 Score: 916
Period size: 53 Copynumber: 13.7 Consensus size: 55
5213 AGGTTCCCCA
* * * *
5223 CGATCG-TGAAGA-TGTTCAAGTCTCATACTCTCTGAAGGAATA-GGGGCGGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
5275 CGATCGTTGAAGATTGTTC-A--CTTATACTCT-TGAA-AAATA--GGG-AGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * * *
5322 CGATAGTT-AAGATTGTTCGAGTCTTATACTCTCTGAGGAAATAGGGGGCGGACA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
5376 CGATCGTTGAAGATTGTTCAAGTCTCATACTCTCTGAAGAAATAGGGGGCGGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
5431 CGATCGTTGAAGATTGTTCAAGTCTTATACTCTCTGAAGAAATAGGGGGGAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * **
5486 CGATAGTTG-A-ATTGTTCGAGTCTTATACTCTCTGAGGAAATAGGGGTG--GAAA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGG-GCAGACG
* * * *
5538 CGATTGCTGAAGATTGTTCGGGTC-T-TACTCTCTGAAGAAATAGAGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
5591 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATA-GGGGCGGACA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
5645 CGATTGTTGAAGATTGTTCG-GTCTTATACTCTCTGAAGAAATAGGGGGAAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
5699 CGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
*
5752 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTC-GACGAAATA--GGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
5804 CGATTGATGAAGATTG-T-GAGTCTTATACTCTCTGAAGAAATGGGGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
5857 TGATCATTGAAGATTATTCGAGTCTTATACTCTCTGAAGAAAT-GGGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
5911 CGATTGTTAAAGATTGTTCGAGTCTTATACTCTCTGAAG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
5950 GACTATGGAG
Statistics
Matches: 591, Mismatches: 57, Indels: 52
0.84 0.08 0.07
Matches are distributed among these distances:
46 10 0.02
47 12 0.02
48 3 0.01
49 14 0.02
50 22 0.04
51 23 0.04
52 58 0.10
53 160 0.27
54 132 0.22
55 157 0.27
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (55 bp):
CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
Found at i:5526 original size:53 final size:55
Alignment explanation
Indices: 5223--5949 Score: 877
Period size: 55 Copynumber: 13.7 Consensus size: 55
5213 AGGTTCCCCA
* * * *
5223 CGATCG-TGAAGA-TGTTCAAGTCTCATACTCTCTGAAGGAATAGGGGCG-GACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGGAGACG
5275 CGATCGTTGAAGATTGTTC-A--CTTATACTCT-TGAA-AAATA---GGGAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGGAGACG
* * *
5322 CGATAGTT-AAGATTGTTCGAGTCTTATACTCTCTGAGGAAATAGGGGGCG-GACA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGG-GAGACG
* *
5376 CGATCGTTGAAGATTGTTCAAGTCTCATACTCTCTGAAGAAATAGGGGGCG-GACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGG-GAGACG
*
5431 CGATCGTTGAAGATTGTTCAAGTCTTATACTCTCTGAAGAAATAGGGGGGAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGGAGACG
* * *
5486 CGATAGTTG-A-ATTGTTCGAGTCTTATACTCTCTGAGGAAATAGGGGTGGA-A-A
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGG-GGAGACG
* * * * *
5538 CGATTGCTGAAGATTGTTCGGGTC-T-TACTCTCTGAAGAAATAGAGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGGAGACG
* *
5591 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGCG-GACA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGGAGACG
* *
5645 CGATTGTTGAAGATTGTTCG-GTCTTATACTCTCTGAAGAAATAGGGGGAAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGGAGACG
* * * *
5699 CGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGGAGACG
* *
5752 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTC-GACGAAATA--GGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGGAGACG
* *
5804 CGATTGATGAAGATTG-T-GAGTCTTATACTCTCTGAAGAAAT-GGGGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGG-AGACG
* * * *
5857 TGATCATTGAAGATTATTCGAGTCTTATACTCTCTGAAGAAAT-GGGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGGAGACG
* *
5911 CGATTGTTAAAGATTGTTCGAGTCTTATACTCTCTGAAG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
5950 GACTATGGAG
Statistics
Matches: 589, Mismatches: 55, Indels: 60
0.84 0.08 0.09
Matches are distributed among these distances:
46 12 0.02
47 12 0.02
49 14 0.02
50 22 0.04
51 24 0.04
52 60 0.10
53 156 0.26
54 123 0.21
55 166 0.28
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (55 bp):
CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGGAGACG
Found at i:5844 original size:266 final size:270
Alignment explanation
Indices: 5223--5949 Score: 959
Period size: 266 Copynumber: 2.7 Consensus size: 270
5213 AGGTTCCCCA
* * * * *
5223 CGATCG-TGAAGA-TGTTCAAGTCTCATACTCTCTGAAGGAATAGGGGCGGACGCGATCGTTGAA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGCGGACGCGATTGATGAA
* *
5286 GATTGTTCA--CTTATACTCT-TGAA-AAAT-AGGG-AGACGCGATAGTT-AAGATTGTTCGAGT
66 GATTGTTGAGTCTTATACTCTCTGAAGAAATGAGGGCAGACGCGATCGTTGAAGATTGTTCGAGT
* * * *
5344 CTTATACTCTCTGAGGAAATAGGGGGCGGACACGATCGTTGAAGATTGTTCAAGTCTCATACTCT
131 CTTATACTCTCTGAAGAAATA-GGGGCGGACACGATTGTTGAAGATTGTTC-GGTCTTATACTCT
** *
5409 CTGAAGAAATAGGGGGCGGACGCGATCGTTGAAGATTGTTCAAGTCTTATACTCTCTGAAGAAAT
194 CTGAAGAAATAGGGGGAAGACGCGATCGATGAAGATTGTTCAAGTCTTATACTCTCTGAAGAAAT
*
5474 AGGGGGGAGACG
259 AGGGGGCAGACG
* * * ** *
5486 CGATAGTTG-A-ATTGTTCGAGTCTTATACTCTCTGAGGAAATAGGGGTGGAAACGATTGCTGAA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGCGGACGCGATTGATGAA
*
5549 GATTGTTCGGGTC-T-TACTCTCTGAAGAAATAGAGGGCAGACGCGATCGTTGAAGATTGTTCGA
66 GATTGTT-GAGTCTTATACTCTCTGAAGAAAT-GAGGGCAGACGCGATCGTTGAAGATTGTTCGA
5612 GTCTTATACTCTCTGAAGAAATAGGGGCGGACACGATTGTTGAAGATTGTTCGGTCTTATACTCT
129 GTCTTATACTCTCTGAAGAAATAGGGGCGGACACGATTGTTGAAGATTGTTCGGTCTTATACTCT
* **
5677 CTGAAGAAATAGGGGGAAGACGCGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAAT
194 CTGAAGAAATAGGGGGAAGACGCGATCGATGAAGATTGTTCAAGTCTTATACTCTCTGAAGAAAT
5740 AGGGGGCAGACG
259 AGGGGGCAGACG
* *
5752 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTC-GACGAAATA-GGGCAGACGCGATTGATGAA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGCGGACGCGATTGATGAA
* * * *
5815 GATTG-TGAGTCTTATACTCTCTGAAGAAATGGGGGGCAGACGTGATCATTGAAGATTATTCGAG
66 GATTGTTGAGTCTTATACTCTCTGAAGAAAT-GAGGGCAGACGCGATCGTTGAAGATTGTTCGAG
* * * *
5879 TCTTATACTCTCTGAAGAAATGGGGGCAGACGCGATTGTTAAAGATTGTTCGAGTCTTATACTCT
130 TCTTATACTCTCTGAAGAAATAGGGGCGGACACGATTGTTGAAGATTGTTCG-GTCTTATACTCT
5944 CTGAAG
194 CTGAAG
5950 GACTATGGAG
Statistics
Matches: 407, Mismatches: 41, Indels: 28
0.86 0.09 0.06
Matches are distributed among these distances:
262 1 0.00
263 55 0.14
264 12 0.03
265 7 0.02
266 159 0.39
267 28 0.07
268 71 0.17
269 40 0.10
270 34 0.08
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (270 bp):
CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGCGGACGCGATTGATGAA
GATTGTTGAGTCTTATACTCTCTGAAGAAATGAGGGCAGACGCGATCGTTGAAGATTGTTCGAGT
CTTATACTCTCTGAAGAAATAGGGGCGGACACGATTGTTGAAGATTGTTCGGTCTTATACTCTCT
GAAGAAATAGGGGGAAGACGCGATCGATGAAGATTGTTCAAGTCTTATACTCTCTGAAGAAATAG
GGGGCAGACG
Found at i:8773 original size:26 final size:26
Alignment explanation
Indices: 8713--8773 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
8703 TAAAAGTGTT
*
8713 TTATTTTAATAATTATTAAAATTACA
1 TTATATTAATAATTATTAAAATTACA
*
8739 TTATATTAATAATTTTTTAAAA-TA-A
1 TTATATTAATAA-TTATTAAAATTACA
8764 TTATAGTTAA
1 TTATA-TTAA
8774 GCATAAAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 6 0.19
26 17 0.55
27 8 0.26
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (26 bp):
TTATATTAATAATTATTAAAATTACA
Found at i:14346 original size:20 final size:19
Alignment explanation
Indices: 14310--14363 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
14300 ATAGATACAA
*
14310 TCATAAGACAAGAAGACCAT
1 TCATAAGACATG-AGACCAT
*
14330 TCATAGAGACATGAGACCCT
1 TCATA-AGACATGAGACCAT
14350 TCATAAAGACATGA
1 TCAT-AAGACATGA
14364 AGACTACATC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 23 0.77
21 7 0.23
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (19 bp):
TCATAAGACATGAGACCAT
Found at i:16731 original size:13 final size:12
Alignment explanation
Indices: 16707--16754 Score: 60
Period size: 13 Copynumber: 3.8 Consensus size: 12
16697 GAGAAATGTT
*
16707 AGAAAGAGAAGA
1 AGAAAGAAAAGA
16719 AGAAAAGAAAAGA
1 AG-AAAGAAAAGA
*
16732 AGAAAGAAATAAA
1 AGAAAGAAA-AGA
16745 AGAAAGAAAA
1 AGAAAGAAAA
16755 AATTGAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 10 0.31
13 22 0.69
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (12 bp):
AGAAAGAAAAGA
Found at i:18949 original size:34 final size:34
Alignment explanation
Indices: 18885--19264 Score: 479
Period size: 34 Copynumber: 11.1 Consensus size: 34
18875 AGCAAAGTCA
* *
18885 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATC
1 ATCTTAAGCCTTCA-CAGAGAGTAGTGAAGCAACC
*
18920 ATCTTAAGCCTTCACAGAGTGTAGTGAAGC-ACC
1 ATCTTAAGCCTTCACAGAGAGTAGTGAAGCAACC
18953 ATCTTAAGCCTTCACAGAGGAGTAGTGAAGCAAACC
1 ATCTTAAGCCTTCACAGA-GAGTAGTGAAGC-AACC
*
18989 ATCTTAAGCCTTCACCAGAGA-TAGTGAAGCAATC
1 ATCTTAAGCCTTCA-CAGAGAGTAGTGAAGCAACC
19023 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGC-ACC
1 ATCTTAAGCCTTCACAG-AGAGTAGTGAAGCAACC
*
19057 ATCTTAAGCCTTCACAG-GAGTAGTGAAGTAACC
1 ATCTTAAGCCTTCACAGAGAGTAGTGAAGCAACC
* *
19090 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATC
1 ATCTTAAGCCTTCA-CAGAGAGTAGTGAAGCAACC
*
19125 ATCTTAAGTCTTCACAGAAGAGTAGTGAAGC-ACC
1 ATCTTAAGCCTTCACAG-AGAGTAGTGAAGCAACC
* *
19159 ATCTTAAGCCTTCATAGAG-GATAGTGAAACAAACC
1 ATCTTAAGCCTTCACAGAGAG-TAGTGAAGC-AACC
*
19194 ATCTTAAGCCTTCAAAGAGGAGTAGTGAAGC-ACC
1 ATCTTAAGCCTTCACAGA-GAGTAGTGAAGCAACC
* * *
19228 ATCTTAAG-CTTCACTGAAGAGTAGTAAAGCATCC
1 ATCTTAAGCCTTCACAG-AGAGTAGTGAAGCAACC
19262 ATC
1 ATC
19265 CATAAGACCT
Statistics
Matches: 306, Mismatches: 22, Indels: 35
0.84 0.06 0.10
Matches are distributed among these distances:
32 12 0.04
33 67 0.22
34 102 0.33
35 92 0.30
36 28 0.09
37 5 0.02
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (34 bp):
ATCTTAAGCCTTCACAGAGAGTAGTGAAGCAACC
Found at i:19129 original size:102 final size:102
Alignment explanation
Indices: 18885--19264 Score: 547
Period size: 102 Copynumber: 3.7 Consensus size: 102
18875 AGCAAAGTCA
* *
18885 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATCATCTTAAGCCTTCACAG-AGTGTAGTGAAG
1 ATCTTAAGCCTTCACCAGAGAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAAG
18949 CACCATCTTAAGCCTTCACAGAGGAGTAGTGAAGCAAACC
66 CACCATCTTAAGCCTTCAC--AGGAGTAGTGAAG-AAACC
18989 ATCTTAAGCCTTCACCAGAGA-TAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAAG
1 ATCTTAAGCCTTCACCAGAGAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAAG
*
19053 CACCATCTTAAGCCTTCACAGGAGTAGTGAAGTAACC
66 CACCATCTTAAGCCTTCACAGGAGTAGTGAAGAAACC
* *
19090 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATCATCTTAAGTCTTCACAGAAGAGTAGTGAAG
1 ATCTTAAGCCTTCACCAGAGAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAAG
* *
19155 CACCATCTTAAGCCTTCATA-GAGGATAGTGAAACAAACC
66 CACCATCTTAAGCCTTCACAGGA-G-TAGTG-AAGAAACC
* * * *
19194 ATCTTAAGCCTTCA-AAGAGGAGTAGTGAAGC-ACCATCTTAAG-CTTCACTGAAGAGTAGTAAA
1 ATCTTAAGCCTTCACCAGA-GAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAA
19256 GCATCCATC
65 GCA-CCATC
19265 CATAAGACCT
Statistics
Matches: 256, Mismatches: 13, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
101 26 0.10
102 96 0.38
103 52 0.20
104 82 0.32
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (102 bp):
ATCTTAAGCCTTCACCAGAGAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAAG
CACCATCTTAAGCCTTCACAGGAGTAGTGAAGAAACC
Found at i:19608 original size:20 final size:19
Alignment explanation
Indices: 19583--19650 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 19
19573 TCACAATTTA
19583 TAAGTCCTTCGGGCCATCTG
1 TAAGTCCTTCGGG-CATCTG
* * *
19603 TAAGTCTTTCGAGCATGATG
1 TAAGTCCTTCGGGCAT-CTG
*
19623 CTTAAATCCTTCGGGTCATCTG
1 --TAAGTCCTTCGGG-CATCTG
19645 TAAGTC
1 TAAGTC
19651 TTAGAGCAAG
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
19 3 0.08
20 18 0.50
22 12 0.33
23 3 0.08
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.34
Consensus pattern (19 bp):
TAAGTCCTTCGGGCATCTG
Found at i:20034 original size:20 final size:20
Alignment explanation
Indices: 20009--20124 Score: 63
Period size: 20 Copynumber: 5.7 Consensus size: 20
19999 TCACAATTTA
20009 TAAGTCCTTCGGGCCATCTG
1 TAAGTCCTTCGGGCCATCTG
* * *
20029 TAAGTCTTTCGAG-CATGATG
1 TAAGTCCTTCGGGCCAT-CTG
* *
20049 CTTAAATCCTTCGGGTCATCTG
1 --TAAGTCCTTCGGGCCATCTG
* * * * **
20071 TAAGTCTTTAGAGCAAGATG
1 TAAGTCCTTCGGGCCATCTG
**
20091 ATAAGTCCTTCGGGCCATCCA
1 -TAAGTCCTTCGGGCCATCTG
*
20112 TAAGACCTTCGGG
1 TAAGTCCTTCGGG
20125 TAGGATGTTT
Statistics
Matches: 67, Mismatches: 24, Indels: 10
0.66 0.24 0.10
Matches are distributed among these distances:
19 3 0.04
20 37 0.55
21 12 0.18
22 12 0.18
23 3 0.04
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (20 bp):
TAAGTCCTTCGGGCCATCTG
Found at i:20072 original size:42 final size:41
Alignment explanation
Indices: 20008--20109 Score: 141
Period size: 42 Copynumber: 2.5 Consensus size: 41
19998 TTCACAATTT
* * *
20008 ATAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCTGTAAGTCTTTAGAGCAAGATG
* *
20049 CTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCTGTAAGTCTTTAGAGCAAGATG
*
20091 ATAAGTCCTTCGGGCCATC
1 ATAAATCCTTCGGGCCATC
20110 CATAAGACCT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 16 0.31
42 36 0.69
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCTGTAAGTCTTTAGAGCAAGATG
Found at i:20270 original size:214 final size:214
Alignment explanation
Indices: 19260--20564 Score: 2009
Period size: 214 Copynumber: 6.1 Consensus size: 214
19250 AGTAAAGCAT
* *
19260 CCATCCATAAGACCTTCGGGTAGGAT-ATTTCACATGAATTTGAAAATG-AAAATGATGTTTTAA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATGTTTTAA
* * * * *
19323 GAAGATGAAACTTTTGAAAACGAAGAATGTTGATTTTCAAAATTTCACAATTTATAAGTCCTTTG
66 GAAGATGGAATTTTTGAAAACGAAGAATG-CGATTTTCAAAATTCCACAATTTATAAGTCC-TTC
* *
19388 GGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTTGGGTCATCTGTAAGCCTTTAGAG
129 GGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAG
19453 CAAGATGATAAGTCCTTCGGG
194 CAAGATGATAAGTCCTTCGGG
* *
19474 CCATCCATGAA-ACCTTCGGGTAGGATGTTTTCACATGAAATTGAAAATGAAAAA--A-----T-
1 CCATCCAT-AAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATGTTTTA
* *
19530 -GATGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
65 AGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTCCACAATTTATAAGTCCTTCG
* *
19594 GGCCATCTGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTC-TTAGAGC
130 GGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGC
19658 AAGATGATAAGT-CTTC-GG
195 AAGATGATAAGTCCTTCGGG
*
19676 CCATCC--AAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATAAAAAAATGATGTTTTA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAAT-GAAAAATGATGTTTTA
*
19739 AGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCC-CAATTCATAAGTCCTTC
65 AGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAA-TTCCACAATTTATAAGTCCTTC
*
19803 GGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCATTCGGGTCATCTGTAA-TCCTTTAGA
129 GGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGT-CTTTAGA
19867 GCAAGATGATAAGTCCTTCGGG
193 GCAAGATGATAAGTCCTTCGGG
* *
19889 CCATCCATAAGACCTTCGGGTAGGATGTTCTCAAATGAATTTGACAATGAAAAAAATGATGTTTT
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATG--AAAAATGATGTTTT
*
19954 AAGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTC
64 AAGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTCCACAATTTATAAGTCCTTC
* *
20019 GGGCCATCTGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAG
129 GGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAG
20084 CAAGATGATAAGTCCTTCGGG
194 CAAGATGATAAGTCCTTCGGG
*
20105 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATTAATTTGAAAATGAAAAATGATGTTTTAA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATGTTTTAA
*
20170 GAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATCCCACAATTTATAAGTCCTTCGG
66 GAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTCCACAATTTATAAGTCCTTCGG
* * *
20235 GCCATCAATAAGTCTTTCGAGCATGATGTTTAAATCATTCGGGTCATCTGTAAGCCTTTAGAGCA
131 GCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCA
*
20300 AGATGATAAGTCCTTTGGG
196 AGATGATAAGTCCTTCGGG
*
20319 ACATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATGTTTTAA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATGTTTTAA
* * * *
20384 GAAGATGGAAATTTTGTAAACGAAGAATGCGATTTTCAAAATCCCATAATTTATAAGTCCTTCGG
66 GAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTCCACAATTTATAAGTCCTTCGG
* * * *
20449 GCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCAGTAAATATTTCGAGCA
131 GCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCA
* * *
20514 TGATGCTTAAATCCTTCGGG
196 AGATG-ATAAGTCCTTCGGG
* *
20534 TCATCCATAAGACCTTCGGGCAGGATGTTTT
1 CCATCCATAAGACCTTCGGGTAGGATGTTTT
20565 TCACCAGGAT
Statistics
Matches: 1008, Mismatches: 57, Indels: 51
0.90 0.05 0.05
Matches are distributed among these distances:
199 2 0.00
200 35 0.03
201 5 0.00
202 8 0.01
203 5 0.00
204 19 0.02
205 56 0.06
206 30 0.03
207 26 0.03
208 1 0.00
209 2 0.00
210 109 0.11
211 22 0.02
212 4 0.00
213 8 0.01
214 368 0.37
215 103 0.10
216 204 0.20
217 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (214 bp):
CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATGTTTTAA
GAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTCCACAATTTATAAGTCCTTCGG
GCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCA
AGATGATAAGTCCTTCGGG
Found at i:20284 original size:430 final size:429
Alignment explanation
Indices: 19260--20564 Score: 2074
Period size: 430 Copynumber: 3.1 Consensus size: 429
19250 AGTAAAGCAT
* *
19260 CCATCCATAAGACCTTCGGGTAGGAT-ATTTCACATGAATTTGAAAATG-AAAATGATGTTTTAA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATGTTTTAA
* * * * *
19323 GAAGATGAAACTTTTGAAAACGAAGAATGTTGATTTTCAAAATTTCACAATTTATAAGTCCTTTG
66 GAAGATGGAATTTTTGAAAACGAAGAATG-CGATTTTCAAAATTCCACAATTTATAAGTCC-TTC
* *
19388 GGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTTGGGTCATCTGTAAGCCTTTAGAG
129 GGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCATTCGGGTCATCTGTAAGCCTTTAGAG
* *
19453 CAAGATGATAAGTCCTTCGGGCCATCCATGAA-ACCTTCGGGTAGGATGTTTTCACATGAAATTG
194 CAAGATGATAAGTCCTTCGGGCCATCCAT-AAGACCTTCGGGTAGGATGTTTTCAAATGAATTTG
19517 AAAATGAAAAAATGA-----T-----GATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAAT
258 AAAATGAAAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAAT
19572 TTCACAATTTATAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGG
323 TTCACAATTTATAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGG
19637 GTCATCTGTAAGTC-TTAGAGCAAGATGATAAGT-CTTC-GG
388 GTCATCTGTAAGTCTTTAGAGCAAGATGATAAGTCCTTCGGG
*
19676 CCATCC--AAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATAAAAAAATGATGTTTTA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAAT-GAAAAATGATGTTTTA
*
19739 AGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCC-CAATTCATAAGTCCTTC
65 AGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAA-TTCCACAATTTATAAGTCCTTC
*
19803 GGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCATTCGGGTCATCTGTAATCCTTTAGAG
129 GGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCATTCGGGTCATCTGTAAGCCTTTAGAG
*
19868 CAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTCTCAAATGAATTTGA
194 CAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGA
*
19933 CAATGAAAAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAAT
259 AAATG-AAAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAAT
19998 TTCACAATTTATAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGG
323 TTCACAATTTATAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGG
20063 GTCATCTGTAAGTCTTTAGAGCAAGATGATAAGTCCTTCGGG
388 GTCATCTGTAAGTCTTTAGAGCAAGATGATAAGTCCTTCGGG
*
20105 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATTAATTTGAAAATGAAAAATGATGTTTTAA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATGTTTTAA
*
20170 GAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATCCCACAATTTATAAGTCCTTCGG
66 GAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTCCACAATTTATAAGTCCTTCGG
*
20235 GCCATCAATAAGTCTTTCGAGCATGATGTTTAAATCATTCGGGTCATCTGTAAGCCTTTAGAGCA
131 GCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCATTCGGGTCATCTGTAAGCCTTTAGAGCA
* *
20300 AGATGATAAGTCCTTTGGGACATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAA
196 AGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAA
* * **
20365 ATG-AAAAATGATGTTTTAAGAAGATGGAAATTTTGTAAACGAAGAATGCGATTTTCAAAATCCC
261 ATGAAAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTC
* * *
20429 ATAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTC
326 ACAATTTATAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTC
* * * * * * *
20494 ATCAGTAAATATTTCGAGCATGATGCTTAAATCCTTCGGG
391 ATCTGTAAGTCTTTAGAGCAAGATG-ATAAGTCCTTCGGG
* *
20534 TCATCCATAAGACCTTCGGGCAGGATGTTTT
1 CCATCCATAAGACCTTCGGGTAGGATGTTTT
20565 TCACCAGGAT
Statistics
Matches: 824, Mismatches: 42, Indels: 33
0.92 0.05 0.04
Matches are distributed among these distances:
414 20 0.02
415 146 0.18
416 39 0.05
417 45 0.05
421 1 0.00
426 118 0.14
427 19 0.02
428 143 0.17
429 52 0.06
430 202 0.25
431 39 0.05
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (429 bp):
CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATGTTTTAA
GAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTCCACAATTTATAAGTCCTTCGG
GCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCATTCGGGTCATCTGTAAGCCTTTAGAGCA
AGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAA
ATGAAAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTC
ACAATTTATAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTC
ATCTGTAAGTCTTTAGAGCAAGATGATAAGTCCTTCGGG
Found at i:20500 original size:42 final size:42
Alignment explanation
Indices: 20441--20538 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
20431 AATTTATAAG
* * * *
20441 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAA
1 TCCTTCGGGTCATCAGTAAATATTTCGAGCATGATGCTTAAA
20483 TCCTTCGGGTCATCAGTAAATATTTCGAGCATGATGCTTAAA
1 TCCTTCGGGTCATCAGTAAATATTTCGAGCATGATGCTTAAA
20525 TCCTTCGGGTCATC
1 TCCTTCGGGTCATC
20539 CATAAGACCT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.34
Consensus pattern (42 bp):
TCCTTCGGGTCATCAGTAAATATTTCGAGCATGATGCTTAAA
Found at i:20531 original size:22 final size:21
Alignment explanation
Indices: 20464--20531 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
20454 CAGTAAGTCT
20464 TTCGAGCATGATGTTTAAATCC
1 TTCGAGCATGATG-TTAAATCC
* * **
20486 TTCGGGTCATCA-G-TAAATAT
1 TTCGAG-CATGATGTTAAATCC
20506 TTCGAGCATGATGCTTAAATCC
1 TTCGAGCATGATG-TTAAATCC
20528 TTCG
1 TTCG
20532 GGTCATCCAT
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
19 4 0.12
20 11 0.32
22 15 0.44
23 4 0.12
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (21 bp):
TTCGAGCATGATGTTAAATCC
Found at i:25014 original size:20 final size:19
Alignment explanation
Indices: 24985--25023 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
24975 CTCAATGATT
* *
24985 AATTAGTTTTTTTATAAAAA
1 AATTAATTTTATTA-AAAAA
25005 AATTAATTTTATTAAAAAA
1 AATTAATTTTATTAAAAAA
25024 TAATATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
AATTAATTTTATTAAAAAA
Found at i:26201 original size:27 final size:27
Alignment explanation
Indices: 26163--26216 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
26153 CCAACGGTCA
26163 AATTTATTAAGTGTGGGGTTTCATAAT
1 AATTTATTAAGTGTGGGGTTTCATAAT
26190 AATTTATTAAGTGTGGGGTTTCATAAT
1 AATTTATTAAGTGTGGGGTTTCATAAT
26217 GTTACCCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (27 bp):
AATTTATTAAGTGTGGGGTTTCATAAT
Found at i:32011 original size:21 final size:21
Alignment explanation
Indices: 31968--32025 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
31958 ATAGATACAA
* *
31968 TCATAAAGACAAG-A-ACCAT
1 TCATAAAGACATGAAGACCCT
*
31987 TCATAGAGACATGAAGACCCT
1 TCATAAAGACATGAAGACCCT
32008 TCATAAAGACATGAAGAC
1 TCATAAAGACATGAAGAC
32026 TACACCACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.33
20 1 0.03
21 21 0.64
ACGTcount: A:0.47, C:0.21, G:0.16, T:0.17
Consensus pattern (21 bp):
TCATAAAGACATGAAGACCCT
Found at i:34573 original size:13 final size:13
Alignment explanation
Indices: 34557--34589 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
34547 AGAAATGTAG
*
34557 AAAGAGAAGAAGA
1 AAAGAAAAGAAGA
34570 AAAGAAAAGAAG-
1 AAAGAAAAGAAGA
34582 AAAGAAAA
1 AAAGAAAA
34590 AATTGAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AAAGAAAAGAAGA
Found at i:34604 original size:13 final size:13
Alignment explanation
Indices: 34581--34610 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
34571 AAGAAAAGAA
34581 GAAAGAAAAAATT
1 GAAAGAAAAAATT
34594 GAAAGAAAAAATT
1 GAAAGAAAAAATT
34607 GAAA
1 GAAA
34611 ATGAGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (13 bp):
GAAAGAAAAAATT
Found at i:36878 original size:105 final size:105
Alignment explanation
Indices: 36749--37126 Score: 613
Period size: 105 Copynumber: 3.6 Consensus size: 105
36739 AGCAAAGTCA
* *
36749 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGTGTAGTGAAG
1 ATCTTAAGCCTTCACCAGAGAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAAG
36814 CACCATCTTAAGCCTTCACAGAGGAGTAGTGAAGCAAACC
66 CACCATCTTAAGCCTTCACAGAGGAGTAGTGAAGCAAACC
36854 ATCTTAAGCCTTCACCAGAGAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAAG
1 ATCTTAAGCCTTCACCAGAGAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAAG
*
36919 CACCATCTTAAGCCTTCAC--A-GAGTAGTGAAGTAAACC
66 CACCATCTTAAGCCTTCACAGAGGAGTAGTGAAGCAAACC
* *
36956 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATCATCTTAAGTCTTCACAGAAGAGTAGTGAAG
1 ATCTTAAGCCTTCACCAGAGAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAAG
* *
37021 CACCATCTTAAGCCTTCATAGAGGAGTAGTGAAACAAACC
66 CACCATCTTAAGCCTTCACAGAGGAGTAGTGAAGCAAACC
* * * *
37061 ATCTTAAGCCTTCA-AAGAGGAGTAGTGAAGC-ACCATCTTAAGCCTTCACTGAAGAGTAGTAAA
1 ATCTTAAGCCTTCACCAGA-GAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAA
37124 GCA
65 GCA
37127 AATCCATCCA
Statistics
Matches: 255, Mismatches: 14, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
102 97 0.38
103 1 0.00
104 34 0.13
105 123 0.48
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (105 bp):
ATCTTAAGCCTTCACCAGAGAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAAG
CACCATCTTAAGCCTTCACAGAGGAGTAGTGAAGCAAACC
Found at i:37479 original size:20 final size:19
Alignment explanation
Indices: 37451--37516 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 19
37441 CACAATTTAT
37451 AGTCCTTCGGGCCATCTGTA
1 AGTCCTTCGGG-CATCTGTA
* * *
37471 AGTCTTTCGAGCATGATGCTTA
1 AGTCCTTCGGGCAT-CTG--TA
*
37493 AATCCTTCGGGTCATCTGTA
1 AGTCCTTCGGG-CATCTGTA
37513 AGTC
1 AGTC
37517 TTTAGAGCAA
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
19 3 0.09
20 16 0.47
22 12 0.35
23 3 0.09
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (19 bp):
AGTCCTTCGGGCATCTGTA
Found at i:37512 original size:42 final size:41
Alignment explanation
Indices: 37453--37549 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 41
37443 CAATTTATAG
* * *
37453 TCCTTCGGGCCATCTGTAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTCGGGCCATCTGTAAGTCTTTAGAGCAAGATG-ATAAA
* *
37495 TCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATAAG
1 TCCTTCGGGCCATCTGTAAGTCTTTAGAGCAAGATGATAAA
37536 TCCTTCGGGCCATC
1 TCCTTCGGGCCATC
37550 CATAGACCTT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
41 16 0.33
42 33 0.67
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.32
Consensus pattern (41 bp):
TCCTTCGGGCCATCTGTAAGTCTTTAGAGCAAGATGATAAA
Found at i:37551 original size:200 final size:205
Alignment explanation
Indices: 37130--38413 Score: 1645
Period size: 214 Copynumber: 6.1 Consensus size: 205
37120 TAAAGCAAAT
* *
37130 CCATCCATAAGACCTTCGGGTAGGATATTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAA
1 CCATCCATAAGACCTTC-GGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGA----TT--
* * * *
37195 GAAGATGAAACTTTTGAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTTGG
59 --AGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCC-TTCG
* *
37260 GGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTTGGGTCATCTGTAAGCCTTTAGAGC
121 GGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGC
37325 AAGATGATAAGTCCTTCGGG
186 AAGATGATAAGTCCTTCGGG
* * *
37345 CCATCCATGA-ACCTTCGGGTAGGATGTTTTCACATGAAATTG-AAATG-AAAATGA-T-GATGG
1 CCATCCATAAGACCTTC-GGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATTAGATGG
*
37405 AATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTAT-AGTCCTTCGGGCCATCTG
65 AATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAG
*
37469 TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATA
130 TAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATA
37534 AGTCCTTCGGG
195 AGTCCTTCGGG
*
37545 CCATCCAT-AGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAAT-AAAAATGTGTTTTAAG
1 CCATCCATAAGACCTTC-GGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAA--TG-ATT---
* *
37608 AAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCCCAATTCATAAGTCCTTCGGG
59 -AGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGG
*
37673 CCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCATTCGGGTCATCTGTAA-TCCTTTAGAGCA
123 CCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGT-CTTTAGAGCA
37737 AGATGATAAGTCCTTCGGG
187 AGATGATAAGTCCTTCGGG
* *
37756 CCATCCAT-AGACCTTCGGTAGGATGTTCTC-AATGAATTTGACAATGAAAAATGATTTTAAGAA
1 CCATCCATAAGACCTTCGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGA--TT----A
37819 GATGGAA-TTTTG-AAACGAAGAATGCGATTTTCAAAA-TTCACAATTTATAAGTCCTTCGGGCC
60 GATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCC
* *
37881 ATCTGTAAGTC-TTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGC-A-A
125 ATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGA
37943 -GATAAGTCCTTCGGG
190 TGATAAGTCCTTCGGG
*
37958 CCATCCATAAGACCTTCGGTAGGATGTTTTCAAATTAATTTGAAAATGAAAAATGATGTTTTAAG
1 CCATCCATAAGACCTTCGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGA----TT---
**
38023 AAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATCCCACAATTTATAAGTCCTTCGGG
59 -AGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGG
* * *
38088 CCATCAATAAGTCTTTCGAGCATGATGTTTAAATCATTCGGGTCATCTGTAAGCCTTTAGAGCAA
123 CCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAA
*
38153 GATGATAAGTCCTTTGGG
188 GATGATAAGTCCTTCGGG
*
38171 ACATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATGTTTTAA
1 CCATCCATAAGACCTTC-GGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGA----TT--
* * ** *
38236 GAAGATGGAAATTTTGTAAACGAAGAATGCGATTTTCAAAATCCCATAATTTATAAGTCCTTC-G
59 --AGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGG
* * * *
38300 GCCATCAGTAAGTCTTTCGAGCATGATGTTT-AATCCTTCGGGTCATCAGTAAATATTTCGAGCA
122 GCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCA
* * *
38364 TGATGCTTAAATCCTTCGGG
187 AGATG-ATAAGTCCTTCGGG
* *
38384 TCATCCATAAGACCTTCGGCAGGATGTTTT
1 CCATCCATAAGACCTTCGGTAGGATGTTTT
38414 TCACCAGGAT
Statistics
Matches: 982, Mismatches: 56, Indels: 65
0.89 0.05 0.06
Matches are distributed among these distances:
199 1 0.00
200 122 0.12
201 13 0.01
202 71 0.07
203 24 0.02
204 23 0.02
205 46 0.05
206 51 0.05
207 30 0.03
208 31 0.03
209 61 0.06
210 114 0.12
211 106 0.11
212 51 0.05
213 93 0.09
214 136 0.14
215 9 0.01
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (205 bp):
CCATCCATAAGACCTTCGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATTAGATGGA
ATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
AAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATAA
GTCCTTCGGG
Found at i:37891 original size:20 final size:19
Alignment explanation
Indices: 37866--37932 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 19
37856 TCACAATTTA
37866 TAAGTCCTTCGGGCCATCTG
1 TAAGTCCTTCGGG-CATCTG
* *
37886 TAAGT-CTTCGAGCATGATG
1 TAAGTCCTTCGGGCAT-CTG
*
37905 CTTAAATCCTTCGGGTCATCTG
1 --TAAGTCCTTCGGG-CATCTG
37927 TAAGTC
1 TAAGTC
37933 TTTAGAGCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
18 3 0.08
19 8 0.22
20 10 0.28
21 4 0.11
22 8 0.22
23 3 0.08
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (19 bp):
TAAGTCCTTCGGGCATCTG
Found at i:38118 original size:415 final size:420
Alignment explanation
Indices: 37130--38413 Score: 1968
Period size: 415 Copynumber: 3.1 Consensus size: 420
37120 TAAAGCAAAT
* *
37130 CCATCCATAAGACCTTCGGGTAGGATATTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATGTTTTAA
* * * * *
37195 GAAGATGAAACTTTTGAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTTGG
66 GAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTCCACAATTTATAAGTCC-TTCG
* *
37260 GGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTTGGGTCATCTGTAAGCCTTTAGAGC
130 GGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCATTCGGGTCATCTGTAAGCCTTTAGAGC
*
37325 AAGATGATAAGTCCTTCGGGCCATCCAT-GAACCTTCGGGTAGGATGTTTTCACATGAAATTGAA
195 AAGATGATAAGTCCTTCGGGCCATCCATAG-ACCTTCGGGTAGGATGTTTTCA-ATGAATTTGAA
37389 ATG-AAAATGA---T-----GATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACA
258 ATGAAAAATGATTTTAAGAAGATGGAA-TTTTGAAAACGAAGAATGCGATTTTCAAAA-TTCACA
37445 ATTTAT-AGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATC
321 ATTTATAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATC
37509 TGTAAGTCTTTAGAGCAAGATGATAAGTCCTTCGGG
386 TGTAAGTCTTTAGAGC-AGATGATAAGTCCTTCGGG
37545 CCATCCAT-AGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAAT-AAAAATG-TGTTTTAA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATGTTTTAA
*
37607 GAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCC-CAATTCATAAGTCCTTCG
66 GAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAA-TTCCACAATTTATAAGTCCTTCG
*
37671 GGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCATTCGGGTCATCTGTAATCCTTTAGAGC
130 GGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCATTCGGGTCATCTGTAAGCCTTTAGAGC
*
37736 AAGATGATAAGTCCTTCGGGCCATCCATAGACCTTC-GGTAGGATGTTCTCAATGAATTTGACAA
195 AAGATGATAAGTCCTTCGGGCCATCCATAGACCTTCGGGTAGGATGTTTTCAATGAATTTGA-AA
37800 TGAAAAATGATTTTAAGAAGATGGAATTTTG-AAACGAAGAATGCGATTTTCAAAATTCACAATT
259 TGAAAAATGATTTTAAGAAGATGGAATTTTGAAAACGAAGAATGCGATTTTCAAAATTCACAATT
37864 TATAAGTCCTTCGGGCCATCTGTAAGTC-TTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGT
324 TATAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGT
37928 AAGTCTTTAGAGCA-A-GATAAGTCCTTCGGG
389 AAGTCTTTAGAGCAGATGATAAGTCCTTCGGG
*
37958 CCATCCATAAGACCTTC-GGTAGGATGTTTTCAAATTAATTTGAAAATGAAAAATGATGTTTTAA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATGTTTTAA
*
38022 GAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATCCCACAATTTATAAGTCCTTCGG
66 GAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTCCACAATTTATAAGTCCTTCGG
*
38087 GCCATCAATAAGTCTTTCGAGCATGATGTTTAAATCATTCGGGTCATCTGTAAGCCTTTAGAGCA
131 GCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCATTCGGGTCATCTGTAAGCCTTTAGAGCA
* *
38152 AGATGATAAGTCCTTTGGGACATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAA
196 AGATGATAAGTCCTTCGGGCCATCCAT-AGACCTTCGGGTAGGATGTTTTC-AATGAATTTG-AA
* *
38217 ATGAAAAATGATGTTTTAAGAAGATGGAAATTTTGTAAACGAAGAATGCGATTTTCAAAATCCCA
258 ATGAAAAATGA--TTTTAAGAAGATGG-AATTTTGAAAACGAAGAATGCGATTTTCAAAAT-TCA
* * *
38282 TAATTTATAAGTCCTTC-GGCCATCAGTAAGTCTTTCGAGCATGATG-TTTAATCCTTCGGGTCA
319 CAATTTATAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCA
* * * * * *
38345 TCAGTAAATATTTCGAGCATGATGCTTAAATCCTTCGGG
384 TCTGTAAGTCTTTAGAGCA-GATG-ATAAGTCCTTCGGG
* *
38384 TCATCCATAAGACCTTC-GGCAGGATGTTTT
1 CCATCCATAAGACCTTCGGGTAGGATGTTTT
38414 TCACCAGGAT
Statistics
Matches: 805, Mismatches: 33, Indels: 51
0.91 0.04 0.06
Matches are distributed among these distances:
409 9 0.01
410 18 0.02
411 106 0.13
412 60 0.07
413 62 0.08
414 57 0.07
415 164 0.20
416 69 0.09
417 61 0.08
418 27 0.03
419 8 0.01
420 14 0.02
421 7 0.01
422 70 0.09
423 31 0.04
424 1 0.00
425 1 0.00
426 40 0.05
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (420 bp):
CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATGTTTTAA
GAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTCCACAATTTATAAGTCCTTCGG
GCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCATTCGGGTCATCTGTAAGCCTTTAGAGCA
AGATGATAAGTCCTTCGGGCCATCCATAGACCTTCGGGTAGGATGTTTTCAATGAATTTGAAATG
AAAAATGATTTTAAGAAGATGGAATTTTGAAAACGAAGAATGCGATTTTCAAAATTCACAATTTA
TAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAA
GTCTTTAGAGCAGATGATAAGTCCTTCGGG
Found at i:38240 original size:214 final size:213
Alignment explanation
Indices: 37400--38413 Score: 1580
Period size: 210 Copynumber: 4.8 Consensus size: 213
37390 TGAAAATGAT
**
37400 GATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTAT-AGTCCTTCGGGCC
1 GATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATCCCACAATTTATAAGTCCTTCGGGCC
* *
37464 ATCTGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGA
66 ATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGA
37529 TGATAAGTCCTTCGGGCCATCCAT-AGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAAT-
131 TGATAAGTCCTTCGGGCCATCCATAAGACCTTC-GGTAGGATGTTTTCAAATGAATTTGAAAATG
37592 AAAAATG-TGTTTTAAGAA
195 AAAAATGATGTTTTAAGAA
* *
37610 GATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCC-CAATTCATAAGTCCTTCGGGC
1 GATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAA-TCCCACAATTTATAAGTCCTTCGGGC
*
37674 CATCAGTAAGTCTTTCGAGCATGATGTTTAAATCATTCGGGTCATCTGTAA-TCCTTTAGAGCAA
65 CATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGT-CTTTAGAGCAA
* *
37738 GATGATAAGTCCTTCGGGCCATCCAT-AGACCTTCGGTAGGATGTTCTC-AATGAATTTGACAAT
129 GATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGTAGGATGTTTTCAAATGAATTTGAAAAT
37801 GAAAAATGA--TTTTAAGAA
194 GAAAAATGATGTTTTAAGAA
*
37819 GATGGAA-TTTTG-AAACGAAGAATGCGATTTTCAAAAT-TCACAATTTATAAGTCCTTCGGGCC
1 GATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATCCCACAATTTATAAGTCCTTCGGGCC
* *
37881 ATCTGTAAGTC-TTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGC-A-A
66 ATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGA
*
37943 -GATAAGTCCTTCGGGCCATCCATAAGACCTTCGGTAGGATGTTTTCAAATTAATTTGAAAATGA
131 TGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGTAGGATGTTTTCAAATGAATTTGAAAATGA
38007 AAAATGATGTTTTAAGAA
196 AAAATGATGTTTTAAGAA
38025 GATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATCCCACAATTTATAAGTCCTTCGGGCC
1 GATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATCCCACAATTTATAAGTCCTTCGGGCC
* * *
38090 ATCAATAAGTCTTTCGAGCATGATGTTTAAATCATTCGGGTCATCTGTAAGCCTTTAGAGCAAGA
66 ATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGA
* *
38155 TGATAAGTCCTTTGGGACATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATG
131 TGATAAGTCCTTCGGGCCATCCATAAGACCTTC-GGTAGGATGTTTTCAAATGAATTTGAAAATG
38220 AAAAATGATGTTTTAAGAA
195 AAAAATGATGTTTTAAGAA
* * *
38239 GATGGAAATTTTGTAAACGAAGAATGCGATTTTCAAAATCCCATAATTTATAAGTCCTTC-GGCC
1 GATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATCCCACAATTTATAAGTCCTTCGGGCC
* * * * *
38303 ATCAGTAAGTCTTTCGAGCATGATGTTT-AATCCTTCGGGTCATCAGTAAATATTTCGAGCATGA
66 ATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGA
* * * *
38367 TGCTTAAATCCTTCGGGTCATCCATAAGACCTTCGGCAGGATGTTTT
131 TG-ATAAGTCCTTCGGGCCATCCATAAGACCTTCGGTAGGATGTTTT
38414 TCACCAGGAT
Statistics
Matches: 744, Mismatches: 40, Indels: 38
0.91 0.05 0.05
Matches are distributed among these distances:
202 23 0.03
203 22 0.03
204 23 0.03
205 46 0.06
206 49 0.07
207 29 0.04
208 30 0.04
209 63 0.08
210 112 0.15
211 109 0.15
212 44 0.06
213 88 0.12
214 106 0.14
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (213 bp):
GATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATCCCACAATTTATAAGTCCTTCGGGCC
ATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGA
TGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGTAGGATGTTTTCAAATGAATTTGAAAATGA
AAAATGATGTTTTAAGAA
Found at i:38350 original size:41 final size:42
Alignment explanation
Indices: 38293--38388 Score: 142
Period size: 41 Copynumber: 2.3 Consensus size: 42
38283 AATTTATAAG
* * * *
38293 TCCTTC-GGCCATCAGTAAGTCTTTCGAGCATGATG-TTTAA
1 TCCTTCGGGTCATCAGTAAATATTTCGAGCATGATGCTTAAA
38333 TCCTTCGGGTCATCAGTAAATATTTCGAGCATGATGCTTAAA
1 TCCTTCGGGTCATCAGTAAATATTTCGAGCATGATGCTTAAA
38375 TCCTTCGGGTCATC
1 TCCTTCGGGTCATC
38389 CATAAGACCT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 6 0.12
41 26 0.52
42 18 0.36
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (42 bp):
TCCTTCGGGTCATCAGTAAATATTTCGAGCATGATGCTTAAA
Found at i:38381 original size:22 final size:21
Alignment explanation
Indices: 38315--38381 Score: 57
Period size: 22 Copynumber: 3.2 Consensus size: 21
38305 CAGTAAGTCT
*
38315 TTCGAGCATGATGTTTAATCC
1 TTCGAGCATGATGTTAAATCC
* * **
38336 TTCGGGTCATCA-G-TAAATAT
1 TTCGAG-CATGATGTTAAATCC
38356 TTCGAGCATGATGCTTAAATCC
1 TTCGAGCATGATG-TTAAATCC
38378 TTCG
1 TTCG
38382 GGTCATCCAT
Statistics
Matches: 33, Mismatches: 9, Indels: 7
0.67 0.18 0.14
Matches are distributed among these distances:
19 4 0.12
20 10 0.30
21 6 0.18
22 13 0.39
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (21 bp):
TTCGAGCATGATGTTAAATCC
Found at i:42830 original size:21 final size:20
Alignment explanation
Indices: 42800--42838 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
42790 CTCAATGATT
* *
42800 AATTAGTTTTTTTATAAAAAC
1 AATTAATTTTATTA-AAAAAC
42821 AATTAATTTTATTAAAAA
1 AATTAATTTTATTAAAAA
42839 TAATATATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (20 bp):
AATTAATTTTATTAAAAAAC
Found at i:43995 original size:19 final size:19
Alignment explanation
Indices: 43967--44006 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
43957 ATTAGTATAT
*
43967 TAATAGAATCTCTT-TAAAA
1 TAATAAAATCT-TTCTAAAA
43986 TAATAAAATCTTTCTAAAA
1 TAATAAAATCTTTCTAAAA
44005 TA
1 TA
44007 TTCAAATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.38
Consensus pattern (19 bp):
TAATAAAATCTTTCTAAAA
Found at i:44720 original size:99 final size:99
Alignment explanation
Indices: 44548--45124 Score: 904
Period size: 99 Copynumber: 5.8 Consensus size: 99
44538 AGAACGTGAG
* * *
44548 TCTTTTGTCAAGGATTTCGATCCAAACCGTCCTCAATTTCCTCTGGTGTATTACTCAAAAAAAGA
1 TCTTTTGTCAAGGATTTCGACCCAAACCGTCCTCAATTTCCCCTGGTGTATTACTCGAAAAAAGA
* *
44613 TGGCCAGTCTCAAGAGCAAGCAGAAAATGATAAA
66 TGGTCAGTCTCAAGAGCATGCAGAAAATGATAAA
* * *
44647 TCTTTTATCAAGGATTTCGACCCAAACCGTCCTCAATTTCCCCTGGTATATTACTCAAAAAAAGA
1 TCTTTTGTCAAGGATTTCGACCCAAACCGTCCTCAATTTCCCCTGGTGTATTACTCGAAAAAAGA
*
44712 TGGTCAGTCTAAAGAGCATGCAGAAAATGATAAA
66 TGGTCAGTCTCAAGAGCATGCAGAAAATGATAAA
44746 TCTTTTGTCAAGGATTTCGACCCAAACCGTCCTCAATTTCCCCTGGTGTATTACTCGAAAAAAGA
1 TCTTTTGTCAAGGATTTCGACCCAAACCGTCCTCAATTTCCCCTGGTGTATTACTCGAAAAAAGA
*
44811 TGGTCAGTCTCAAGAGCATGAAGAAAATGATAAA
66 TGGTCAGTCTCAAGAGCATGCAGAAAATGATAAA
* * *
44845 TCTTTTGTCAAGGATTTCGACCCAAATCGTCCTCAATTCCCCCTAGTGTATTACTCGAAAAAAGA
1 TCTTTTGTCAAGGATTTCGACCCAAACCGTCCTCAATTTCCCCTGGTGTATTACTCGAAAAAAGA
* * * *
44910 CGGCCAGTCTCAAGAGCATGCAAAAAATTATAAA
66 TGGTCAGTCTCAAGAGCATGCAGAAAATGATAAA
* * * * *
44944 TCTTTTGTTAAGGATTTCGATCCAAACCGTCCTCAATTCCCCCTAGTATATTACTCGAAAAAAGA
1 TCTTTTGTCAAGGATTTCGACCCAAACCGTCCTCAATTTCCCCTGGTGTATTACTCGAAAAAAGA
*
45009 TGG-CGAGTCTCGAGAGCATGCAGAAAATGATAAA
66 TGGTC-AGTCTCAAGAGCATGCAGAAAATGATAAA
** *
45043 TCTTTTGTCAAGGATTTCGACCCAAACCGTCCTCAATTTCCTTTGGTGTATTACTCCAAAAAAGA
1 TCTTTTGTCAAGGATTTCGACCCAAACCGTCCTCAATTTCCCCTGGTGTATTACTCGAAAAAAGA
45108 TGGTCAGTCTCAAGAGC
66 TGGTCAGTCTCAAGAGC
45125 CCACAAAAAC
Statistics
Matches: 439, Mismatches: 37, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
98 1 0.00
99 437 1.00
100 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (99 bp):
TCTTTTGTCAAGGATTTCGACCCAAACCGTCCTCAATTTCCCCTGGTGTATTACTCGAAAAAAGA
TGGTCAGTCTCAAGAGCATGCAGAAAATGATAAA
Found at i:49990 original size:19 final size:19
Alignment explanation
Indices: 49966--50004 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
49956 TTTGTAGAAG
49966 ATAAGCTACAAAGAAAAGA
1 ATAAGCTACAAAGAAAAGA
49985 ATAAGCTACAAAGAAAAGA
1 ATAAGCTACAAAGAAAAGA
50004 A
1 A
50005 GAAGATGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.64, C:0.10, G:0.15, T:0.10
Consensus pattern (19 bp):
ATAAGCTACAAAGAAAAGA
Found at i:54654 original size:363 final size:364
Alignment explanation
Indices: 53989--54706 Score: 1321
Period size: 363 Copynumber: 2.0 Consensus size: 364
53979 TTTAAAATAC
*
53989 AATATTTATAAAACATTAGTTTTTAGGGTAAATTATACTATTGACCACCTAATTATTTACCCTTT
1 AATATTTATAAAACATTAGTTTTTAGGGTAAAATATACTATTGACCACCTAATTATTTACCCTTT
*
54054 TAGTTTAACCACCGATTTTTGAATTTTGTCAATCGAGTCACCTAATTTAAATATTGTCAATCAAG
66 TAGTTTAACCACCGATTTTTCAATTTTGTCAATCGAGTCACCTAATTTAAATATTGTCAATCAAG
*
54119 CCACATGTCATTAAATATTAACGGAGGAGATGATGTGGCAGTTAATAAAATTTGTATAATTACAC
131 CCACATGTCATTAAATATTAACGGAGGAGATGATGTGGCAGTTAATAAAATTTATATAATTACAC
* **
54184 ATTTAATCCCCATTACTTGCACATTCTATTAATTTGGTTTTAACTTTTATTTAATTAAATAAATT
196 ATTTAATCCCCATTACTTACACATTCTATTAATTTGGTCCTAACTTTTATTTAATTAAATAAATT
*
54249 TAATCCTCAATCCGATTGTGACATGTGTCATTGTGTGATTGGATG-TTTTTTATATTTTTATTTA
261 TAATCCTCAATCCGATTGTGACATGTGTCATTATGTGATTGGATGTTTTTTTATATTTTTATTTA
54313 ATTTATTTTCCATCCAATCAAATGGTGCCATATGTCAAT
326 ATTTATTTTCCATCCAATCAAATGGTGCCATATGTCAAT
* *
54352 AATATTTATAAAATATTAGTTTTTAGGGTAAAATATACTATTGGCCACCTAATTATTTACCCTTT
1 AATATTTATAAAACATTAGTTTTTAGGGTAAAATATACTATTGACCACCTAATTATTTACCCTTT
*
54417 TAGTTTAACCACCGATTTTTCAATTTTGTCAATCGAGTCACTTAATTTAAATATTGTCAATCAAG
66 TAGTTTAACCACCGATTTTTCAATTTTGTCAATCGAGTCACCTAATTTAAATATTGTCAATCAAG
54482 CCACATGTCATTAAATATTAACGGAGGAGATGATGTGGCAGTTAATAAAATTTATATAATTACAC
131 CCACATGTCATTAAATATTAACGGAGGAGATGATGTGGCAGTTAATAAAATTTATATAATTACAC
* *
54547 ATTTAATCCTCATTACTTACACATTCTATTAATTTGGTCCTAACTTTTATTTAATTCAATAAATT
196 ATTTAATCCCCATTACTTACACATTCTATTAATTTGGTCCTAACTTTTATTTAATTAAATAAATT
54612 TAATCCTCAATCCGATTGTGACATGTGTCATTATGTGATTGGATGTTTTTTTATATTTTTATTTA
261 TAATCCTCAATCCGATTGTGACATGTGTCATTATGTGATTGGATGTTTTTTTATATTTTTATTTA
54677 ATTTATTTTCCATCCAATCAAATGGTGCCA
326 ATTTATTTTCCATCCAATCAAATGGTGCCA
54707 CGTGTCACCA
Statistics
Matches: 342, Mismatches: 12, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
363 293 0.86
364 49 0.14
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.42
Consensus pattern (364 bp):
AATATTTATAAAACATTAGTTTTTAGGGTAAAATATACTATTGACCACCTAATTATTTACCCTTT
TAGTTTAACCACCGATTTTTCAATTTTGTCAATCGAGTCACCTAATTTAAATATTGTCAATCAAG
CCACATGTCATTAAATATTAACGGAGGAGATGATGTGGCAGTTAATAAAATTTATATAATTACAC
ATTTAATCCCCATTACTTACACATTCTATTAATTTGGTCCTAACTTTTATTTAATTAAATAAATT
TAATCCTCAATCCGATTGTGACATGTGTCATTATGTGATTGGATGTTTTTTTATATTTTTATTTA
ATTTATTTTCCATCCAATCAAATGGTGCCATATGTCAAT
Found at i:57532 original size:81 final size:81
Alignment explanation
Indices: 57397--58156 Score: 880
Period size: 81 Copynumber: 9.4 Consensus size: 81
57387 ATTTTCTATT
* * * * * *
57397 ATTTT-AAGCCGATACCGAGCGTCACGTCTTACGGCAG-AGATGATGTTGGTCTTAAAGGAGAGC
1 ATTTTGAA-CCGAGACCGAGTGTCACGTCTTACGGCGGCA-ATGATGTTGATCTTAAAGGAGTGG
* * *
57460 CGAAATCATTCACCATTG
64 AGAAATCATTCACTAGTG
* * ** ** * * * *
57478 ATTTTGAATCGAGACCGAGCGTCATTTCTTACAACGGAAATGAAGTTGATCTTAAGGGAGCT-AA
1 ATTTTGAACCGAGACCGAGTGTCACGTCTTACGGCGGCAATGATGTTGATCTTAAAGGAG-TGGA
*
57542 GAAATCATTCACGAGTG
65 GAAATCATTCACTAGTG
* * * * * *
57559 ACTTTGAACCGATACCGAGCGTCACGTTTTACGGCGGCATTGATGTTGATCTTAAAGGAGTGAAG
1 ATTTTGAACCGAGACCGAGTGTCACGTCTTACGGCGGCAATGATGTTGATCTTAAAGGAGTGGAG
*
57624 AAATCATTCACTAGAG
66 AAATCATTCACTAGTG
* * * * *
57640 ACTTTGAACCGAGACTGAGCGTCACGTCTTACGGCGACAATGATGTTGATCTTAAAGGAGTGAAG
1 ATTTTGAACCGAGACCGAGTGTCACGTCTTACGGCGGCAATGATGTTGATCTTAAAGGAGTGGAG
*
57705 AAATCATTTACTAGTG
66 AAATCATTCACTAGTG
* ** * * * *
57721 AGTTTGAGTCGAGACCGAGCGTCACGTCTTACGGTGGCAATGATGTTGATCTTAAAGGAGTGCAA
1 ATTTTGAACCGAGACCGAGTGTCACGTCTTACGGCGGCAATGATGTTGATCTTAAAGGAGTGGAG
*
57786 AAACCATTCACTAGTG
66 AAATCATTCACTAGTG
* * *
57802 ATTTTGAGCTGAGACCGAGTGTCACGTCTTACGGCGGCAATGATGTTGATCTTAAAGAAGTGGAG
1 ATTTTGAACCGAGACCGAGTGTCACGTCTTACGGCGGCAATGATGTTGATCTTAAAGGAGTGGAG
57867 AAATCATTCACTAGTG
66 AAATCATTCACTAGTG
* * * *
57883 ATTTTGAGCCGAGATCGAGTGTCACGTCTTACGGCAGCAATGATGTGGATCTTAAAGGAGTGGAG
1 ATTTTGAACCGAGACCGAGTGTCACGTCTTACGGCGGCAATGATGTTGATCTTAAAGGAGTGGAG
57948 AAATCATTCACTAGTG
66 AAATCATTCACTAGTG
* * * * * * * * * *
57964 ATTTTGAACCAAGACCAAGTGTGATGTCTTATGGTGACAATGATGGTGATCTCAAAGTAGTGGAG
1 ATTTTGAACCGAGACCGAGTGTCACGTCTTACGGCGGCAATGATGTTGATCTTAAAGGAGTGGAG
*
58029 AAATCATTCACTTGTG
66 AAATCATTCACTAGTG
* *
58045 ATTTTGAACCGAGACCAAGTGTCACGTCTTACAGC-GCGAATGATGTTGATCTTAAAGGAGTGGA
1 ATTTTGAACCGAGACCGAGTGTCACGTCTTACGGCGGC-AATGATGTTGATCTTAAAGGAGTGGA
58109 GAAATCATTCACTAGTG
65 GAAATCATTCACTAGTG
* * *
58126 AGTTTGAACGGAGACCGAGTGTCACTTCTTA
1 ATTTTGAACCGAGACCGAGTGTCACGTCTTA
58157 TGGTCAAAAA
Statistics
Matches: 584, Mismatches: 90, Indels: 10
0.85 0.13 0.01
Matches are distributed among these distances:
80 2 0.00
81 579 0.99
82 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (81 bp):
ATTTTGAACCGAGACCGAGTGTCACGTCTTACGGCGGCAATGATGTTGATCTTAAAGGAGTGGAG
AAATCATTCACTAGTG
Found at i:58308 original size:108 final size:108
Alignment explanation
Indices: 58108--58328 Score: 293
Period size: 108 Copynumber: 2.0 Consensus size: 108
58098 AAAGGAGTGG
* * * * *
58108 AGAAATCATTCACTAGTGAGTTTGAACGGAGACCGAGTGTCACTTCTTATGGTCAAAAATCGTTC
1 AGAAATCATTCACTAGTGAGTTTGAACGGAGACCAAGTATCACATCTTATAGTCAAAAATCATTC
**
58173 ACTAGTGATTTTGAACTGAGACCGAGTACCACATCTTATGGCC
66 ACTAGTGATTTTGAACCAAGACCGAGTACCACATCTTATGGCC
* *
58216 AGAAATCGTTCACTAGTGATTTTGAAAC-GAGACCAAGTATCACATCTTATAG-CAAGAAATCAT
1 AGAAATCATTCACTAGTGAGTTTG-AACGGAGACCAAGTATCACATCTTATAGTCAA-AAATCAT
* * * *
58279 TCACTAGTGATTTTGAACCAAGTCTGAGTACCACATTTTATGGCT
64 TCACTAGTGATTTTGAACCAAGACCGAGTACCACATCTTATGGCC
58324 AGAAA
1 AGAAA
58329 CTAGTGATTT
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
107 3 0.03
108 92 0.94
109 3 0.03
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (108 bp):
AGAAATCATTCACTAGTGAGTTTGAACGGAGACCAAGTATCACATCTTATAGTCAAAAATCATTC
ACTAGTGATTTTGAACCAAGACCGAGTACCACATCTTATGGCC
Found at i:58314 original size:54 final size:54
Alignment explanation
Indices: 58108--58328 Score: 264
Period size: 54 Copynumber: 4.1 Consensus size: 54
58098 AAAGGAGTGG
* * ** *
58108 AGAAATCATTCACTAGTGAGTTTGAACGGAGACCGAGTGTCACTTCTTATGGTCA
1 AGAAATCATTCACTAGTGATTTTGAACCGAGACCGAGTACCACATCTTATGG-CA
* * *
58163 A-AAATCGTTCACTAGTGATTTTGAACTGAGACCGAGTACCACATCTTATGGCC
1 AGAAATCATTCACTAGTGATTTTGAACCGAGACCGAGTACCACATCTTATGGCA
* * * * *
58216 AGAAATCGTTCACTAGTGATTTTGAAACGAGACCAAGTATCACATCTTATAGCA
1 AGAAATCATTCACTAGTGATTTTGAACCGAGACCGAGTACCACATCTTATGGCA
* * * * *
58270 AGAAATCATTCACTAGTGATTTTGAACCAAGTCTGAGTACCACATTTTATGGCT
1 AGAAATCATTCACTAGTGATTTTGAACCGAGACCGAGTACCACATCTTATGGCA
58324 AGAAA
1 AGAAA
58329 CTAGTGATTT
Statistics
Matches: 142, Mismatches: 23, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
53 2 0.01
54 139 0.98
55 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (54 bp):
AGAAATCATTCACTAGTGATTTTGAACCGAGACCGAGTACCACATCTTATGGCA
Found at i:64159 original size:26 final size:26
Alignment explanation
Indices: 64130--64184 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
64120 ACATTACCTT
*
64130 ATTGTTACAATTAATTAAGTGACTTG
1 ATTGTTACAATAAATTAAGTGACTTG
*
64156 ATTGTTACAATAAATTGAGTGACTTG
1 ATTGTTACAATAAATTAAGTGACTTG
64182 ATT
1 ATT
64185 ATAACTCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.42
Consensus pattern (26 bp):
ATTGTTACAATAAATTAAGTGACTTG
Found at i:65935 original size:8 final size:9
Alignment explanation
Indices: 65893--65934 Score: 52
Period size: 8 Copynumber: 4.7 Consensus size: 9
65883 GCTGGCATGC
65893 AATTATTATT
1 AATT-TTATT
65903 -ATTTTATT
1 AATTTTATT
65911 AATTTTAGTT
1 AATTTTA-TT
65921 AATTTT-TT
1 AATTTTATT
65929 AATTTT
1 AATTTT
65935 TCATATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 13 0.43
9 9 0.30
10 8 0.27
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (9 bp):
AATTTTATT
Found at i:75357 original size:2 final size:2
Alignment explanation
Indices: 75350--75381 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
75340 ATTGTATAAT
75350 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
75382 TATTAATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:76555 original size:2 final size:2
Alignment explanation
Indices: 76550--76614 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
76540 TTGATTTTTT
76550 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
76592 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
76615 TACTTATTCA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:80645 original size:20 final size:18
Alignment explanation
Indices: 80620--80673 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 18
80610 ATCCGATGAA
80620 AAAAAACCGAAAACCGAT
1 AAAAAACCGAAAACCGAT
* *
80638 CCAAAAAACCGATAACTGA-
1 --AAAAAACCGAAAACCGAT
80657 AAAAAACCG-AAACCGAT
1 AAAAAACCGAAAACCGAT
80674 TTAGTGTGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
16 5 0.17
17 9 0.31
20 15 0.52
ACGTcount: A:0.57, C:0.24, G:0.11, T:0.07
Consensus pattern (18 bp):
AAAAAACCGAAAACCGAT
Found at i:100365 original size:35 final size:35
Alignment explanation
Indices: 100272--100375 Score: 120
Period size: 35 Copynumber: 2.9 Consensus size: 35
100262 TGGGGTATGG
* *
100272 AGGTTCAGCTCTGATCAAGCTGGTAATTCCTTATAT
1 AGGTTCAGCACCGATC-AGCTGGTAATTCCTTATAT
* *** *
100308 ATGTTCAGTGTCGGTC-GACTGGTAATTCCTTATAT
1 AGGTTCAGCACCGATCAG-CTGGTAATTCCTTATAT
100343 AGGTTCAGCACCGATCAGCTGGTAATTCCTTAT
1 AGGTTCAGCACCGATCAGCTGGTAATTCCTTAT
100376 GGACATAAGG
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
34 1 0.02
35 43 0.78
36 11 0.20
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (35 bp):
AGGTTCAGCACCGATCAGCTGGTAATTCCTTATAT
Found at i:100591 original size:26 final size:26
Alignment explanation
Indices: 100561--100625 Score: 103
Period size: 26 Copynumber: 2.5 Consensus size: 26
100551 ATCCTGATAT
*
100561 TACTGTTTACTGTTAAATCTGATTTC
1 TACTGTATACTGTTAAATCTGATTTC
*
100587 TACTGGATACTGTTAAATCTGATTTC
1 TACTGTATACTGTTAAATCTGATTTC
*
100613 TATTGTATACTGT
1 TACTGTATACTGT
100626 ATGGGTAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.48
Consensus pattern (26 bp):
TACTGTATACTGTTAAATCTGATTTC
Found at i:105997 original size:21 final size:20
Alignment explanation
Indices: 105973--106105 Score: 126
Period size: 21 Copynumber: 6.3 Consensus size: 20
105963 CATATTCGCA
*
105973 TTGCGA-TAGTCCAAGTTCGCG
1 TTGCGATTATTCCAAGTT--CG
105994 TTGCGATTTATTCCAAGTTCG
1 TTGCGA-TTATTCCAAGTTCG
* *
106015 TTGCGA-TAGTCGAAGTTCGCG
1 TTGCGATTATTCCAAGTT--CG
*
106036 TTGCGATTTATTCCAAATTCG
1 TTGCGA-TTATTCCAAGTTCG
*
106057 TTGCGATTTATTCCAAATTCG
1 TTGCGA-TTATTCCAAGTTCG
*
106078 TTGCGATTTATTCCAAATTCG
1 TTGCGA-TTATTCCAAGTTCG
106099 TTGCGAT
1 TTGCGAT
106106 AGTCGAAGTT
Statistics
Matches: 100, Mismatches: 6, Indels: 13
0.84 0.05 0.11
Matches are distributed among these distances:
19 9 0.09
20 1 0.01
21 72 0.72
23 18 0.18
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (20 bp):
TTGCGATTATTCCAAGTTCG
Found at i:106024 original size:42 final size:42
Alignment explanation
Indices: 105973--106131 Score: 232
Period size: 42 Copynumber: 3.8 Consensus size: 42
105963 CATATTCGCA
*
105973 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
106015 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
* *
106057 TTGCGATTTATTCCAAATT--CGTTGCGATTTATTCCAAATTCG
1 TTGCGA--TAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
* *
106099 TTGCGATAGTCGAAGTTCGCGTTGTGATTTATT
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATT
106132 ACCATGACCA
Statistics
Matches: 104, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
40 8 0.08
42 88 0.85
44 8 0.08
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:106838 original size:21 final size:21
Alignment explanation
Indices: 106808--106920 Score: 140
Period size: 21 Copynumber: 5.4 Consensus size: 21
106798 AATATGTAAA
*
106808 TCGCAATGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
106829 TCGCATTGCGAT-TTACATA-T
1 TCGCATTGCGATAGTCCA-AGT
106849 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
*
106870 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
106891 TCGCGTTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
*
106912 TCGCGTTGC
1 TCGCATTGC
106921 AAATCTGGAA
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
20 17 0.21
21 65 0.79
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAGT
Found at i:106881 original size:41 final size:42
Alignment explanation
Indices: 106808--106920 Score: 142
Period size: 41 Copynumber: 2.7 Consensus size: 42
106798 AATATGTAAA
* *
106808 TCGCAATGCGATAGTCCAAGTTCGCATTGCGAT-TTAC-ATA-T
1 TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGT-CGA-AGT
106849 TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGT
* * *
106891 TCGCGTTGCGATAGTCGAAGTTCGCGTTGC
1 TCGCATTGCGATAGTCCAAGTTCGCATTGC
106921 AAATCTGGAA
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
41 34 0.53
42 30 0.47
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (42 bp):
TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGT
Found at i:107930 original size:19 final size:19
Alignment explanation
Indices: 107890--107945 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
107880 TGAATAACAT
* *
107890 ATATCAAATATTATAT-AA
1 ATATCAATTATAATATAAA
*
107908 ATAT-GATTATAATAATAAA
1 ATATCAATTATAAT-ATAAA
107927 ATATCAATTATAATATAAA
1 ATATCAATTATAATATAAA
107946 CGTACATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
17 6 0.19
18 6 0.19
19 11 0.35
20 8 0.26
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (19 bp):
ATATCAATTATAATATAAA
Found at i:108119 original size:31 final size:32
Alignment explanation
Indices: 108083--108152 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 32
108073 ATATAACTAA
* *
108083 AATTATATTT-TT-TATTATTAATATATCATAT
1 AATTATATTTATTATATTATTAA-AAATAATAT
*
108114 AATTAT-TTTATTATATTTTTAAAAATAATAT
1 AATTATATTTATTATATTATTAAAAATAATAT
108145 AA-TATATT
1 AATTATATT
108153 AACTCTACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
30 6 0.18
31 19 0.58
32 8 0.24
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (32 bp):
AATTATATTTATTATATTATTAAAAATAATAT
Found at i:110125 original size:21 final size:21
Alignment explanation
Indices: 110101--110217 Score: 116
Period size: 21 Copynumber: 5.6 Consensus size: 21
110091 TTTGGAATAA
*
110101 ATCGCAATGCGA-ACTTCGACT
1 ATCGCAATGCGATA-GTCGACT
*
110122 ATCGCATTGCGATAGTCGACT
1 ATCGCAATGCGATAGTCGACT
*
110143 ATCGCATTGCGATAGTCGACT
1 ATCGCAATGCGATAGTCGACT
*
110164 ATCGCAATGCGAT--T-TACAT
1 ATCGCAATGCGATAGTCGAC-T
* *
110183 ATTCGCATTGCGACAGTCGACT
1 A-TCGCAATGCGATAGTCGACT
*
110205 ATCGCATTGCGAT
1 ATCGCAATGCGAT
110218 TTACATATTC
Statistics
Matches: 82, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
18 2 0.02
19 3 0.04
20 10 0.12
21 61 0.74
22 4 0.05
23 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (21 bp):
ATCGCAATGCGATAGTCGACT
Found at i:110251 original size:21 final size:20
Alignment explanation
Indices: 110123--110361 Score: 148
Period size: 21 Copynumber: 11.6 Consensus size: 20
110113 ACTTCGACTA
*
110123 TCGCATTGCGATAGTCGACT
1 TCGCATTGCGATAGTCAACT
*
110143 ATCGCATTGCGATAGTCGACT
1 -TCGCATTGCGATAGTCAACT
* *
110164 ATCGCAATGCGAT-TTACATA-T
1 -TCGCATTGCGATAGT-CA-ACT
* *
110185 TCGCATTGCGACAGTCGACT
1 TCGCATTGCGATAGTCAACT
*
110205 ATCGCATTGCGAT-TTACATA-T
1 -TCGCATTGCGATAGT-CA-ACT
*
110226 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGT-CAACT
* * *
110247 TCGCATTGCGTTAGTTGAAGT
1 TCGCATTGCGATAG-TCAACT
* *
110268 TCGCGTTGCGATAGTCGACT
1 TCGCATTGCGATAGTCAACT
*
110288 ATCGCATTGCGAT-TTACATA-T
1 -TCGCATTGCGATAGT-CA-ACT
*
110309 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGT-CAACT
* *
110330 TCGCATTGCGTTAGTCAAAGT
1 TCGCATTGCGATAGTC-AACT
*
110351 TCGCGTTGCGA
1 TCGCATTGCGA
110362 ATCTGGAAAC
Statistics
Matches: 175, Mismatches: 27, Indels: 32
0.75 0.12 0.14
Matches are distributed among these distances:
19 1 0.01
20 45 0.26
21 125 0.71
22 4 0.02
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (20 bp):
TCGCATTGCGATAGTCAACT
Found at i:110271 original size:83 final size:83
Alignment explanation
Indices: 110184--110361 Score: 320
Period size: 83 Copynumber: 2.1 Consensus size: 83
110174 GATTTACATA
*
110184 TTCGCATTGCGACAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTC
1 TTCGCGTTGCGACAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTC
**
110249 GCATTGCGTTAGTTGAAG
66 GCATTGCGTTAGTCAAAG
*
110267 TTCGCGTTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTC
1 TTCGCGTTGCGACAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTC
110332 GCATTGCGTTAGTCAAAG
66 GCATTGCGTTAGTCAAAG
110350 TTCGCGTTGCGA
1 TTCGCGTTGCGA
110362 ATCTGGAAAC
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 91 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.33
Consensus pattern (83 bp):
TTCGCGTTGCGACAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTC
GCATTGCGTTAGTCAAAG
Found at i:110339 original size:41 final size:41
Alignment explanation
Indices: 110116--110324 Score: 248
Period size: 41 Copynumber: 5.0 Consensus size: 41
110106 AATGCGAACT
*
110116 TCGACTATCGCATTGCGATAGT-CGACTA-TCGCATTGCGATAG
1 TCGACTATCGCATTGCGAT-TTAC-A-TATTCGCATTGCGATAG
* *
110158 TCGACTATCGCAATGCGATTTACATATTCGCATTGCGACAG
1 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
110199 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
1 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
* * * * *
110240 TCCAAGT-TCGCATTGCGTTAGTTGA-A-GTTCGCGTTGCGATAG
1 T-CGACTATCGCATTGCG--A-TTTACATATTCGCATTGCGATAG
110282 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
1 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
110323 TC
1 TC
110325 CAAGTTCGCA
Statistics
Matches: 143, Mismatches: 15, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
39 3 0.02
40 4 0.03
41 84 0.59
42 47 0.33
43 2 0.01
44 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.32
Consensus pattern (41 bp):
TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
Found at i:110361 original size:62 final size:62
Alignment explanation
Indices: 110123--110345 Score: 233
Period size: 62 Copynumber: 3.6 Consensus size: 62
110113 ACTTCGACTA
* *
110123 TCGCATTGCGATAGTCGACTATCGCATTGCGATAGTCGACTATCGCAATGCGATTTACATAT
1 TCGCATTGCGATAGTCAACTATCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATAT
* * * * *
110185 TCGCATTGCGACAGTCGACTATCGCATTGCGAT--T-TACATATTCGCATTGCGATAGTCCA-AG
1 TCGCATTGCGATAGTCAACTATCGCATTGCGATAGTCGAC-TA-TCGCATTGCGAT-TTACATA-
110246 T
62 T
* * * *
110247 TCGCATTGCGTTAGTTGAAGT-TCGCGTTGCGATAGTCGACTATCGCATTGCGATTTACATAT
1 TCGCATTGCGATAG-TCAACTATCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATAT
* *
110309 TCGCATTGCGATAGTCCAAGT-TCGCATTGCGTTAGTC
1 TCGCATTGCGATAGT-CAACTATCGCATTGCGATAGTC
110346 AAAGTTCGCG
Statistics
Matches: 133, Mismatches: 18, Indels: 20
0.78 0.11 0.12
Matches are distributed among these distances:
59 2 0.02
60 3 0.02
61 13 0.10
62 94 0.71
63 16 0.12
64 3 0.02
65 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.32
Consensus pattern (62 bp):
TCGCATTGCGATAGTCAACTATCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATAT
Found at i:110786 original size:12 final size:12
Alignment explanation
Indices: 110758--110794 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
110748 GACGGGAATC
110758 CCCGCCCCGATTA
1 CCCGCCCCGA-TA
*
110771 CCCGGCCCGATA
1 CCCGCCCCGATA
110783 CCCGCCCCGATA
1 CCCGCCCCGATA
110795 AATATTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 13 0.59
13 9 0.41
ACGTcount: A:0.16, C:0.54, G:0.19, T:0.11
Consensus pattern (12 bp):
CCCGCCCCGATA
Found at i:110860 original size:40 final size:38
Alignment explanation
Indices: 110816--110901 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 38
110806 TAATTATTAT
110816 TATATATATAATATTAATAAATTAAAATTAAATTAAAATA
1 TATATATATAATATTAATAAATTAAAATTAAA-T-AAATA
* * * * *
110856 TATATATATAATATTTATATATTTAATTTAAATATATA
1 TATATATATAATATTAATAAATTAAAATTAAATAAATA
110894 TATATATA
1 TATATATA
110902 CCCGGCCCGA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
38 12 0.29
39 1 0.02
40 28 0.68
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (38 bp):
TATATATATAATATTAATAAATTAAAATTAAATAAATA
Found at i:110876 original size:17 final size:17
Alignment explanation
Indices: 110853--110897 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
110843 TTAAATTAAA
110853 ATATATATATATAATATT
1 ATATATATATATAAT-TT
110871 -TATATAT-T-TAATTT
1 ATATATATATATAATTT
*
110885 AAATATATATATA
1 ATATATATATATA
110898 TATACCCGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
14 2 0.09
15 10 0.43
16 2 0.09
17 9 0.39
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATATATATATAATTT
Found at i:113149 original size:30 final size:30
Alignment explanation
Indices: 113059--113139 Score: 135
Period size: 30 Copynumber: 2.7 Consensus size: 30
113049 TGATTTAATA
* *
113059 GACGAACATGGCAACCCGATTCAACTCACC
1 GACGAACACGGCAACCCGGTTCAACTCACC
*
113089 GACGAACACGGCAACCCTGTTCAACTCACC
1 GACGAACACGGCAACCCGGTTCAACTCACC
113119 GACGAACACGGCAACCCGGTT
1 GACGAACACGGCAACCCGGTT
113140 TATGTCACCG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.31, C:0.37, G:0.20, T:0.12
Consensus pattern (30 bp):
GACGAACACGGCAACCCGGTTCAACTCACC
Found at i:114059 original size:15 final size:16
Alignment explanation
Indices: 114035--114069 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
114025 CAAATCTCTT
114035 TTTTTCTATAATTTAA
1 TTTTTCTATAATTTAA
*
114051 TTTTT-TATAATTTTA
1 TTTTTCTATAATTTAA
114066 TTTT
1 TTTT
114070 ATTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTCTATAATTTAA
Found at i:114164 original size:62 final size:65
Alignment explanation
Indices: 114055--114185 Score: 171
Period size: 67 Copynumber: 2.0 Consensus size: 65
114045 ATTTAATTTT
* * * *
114055 TTATAATTTTATTTTATTTTATTTAGTCTCATGATTGCAATTGTTTATT-ATTTTTCTTACTATC
1 TTATAATTTTATTTTATTTTATTTA-TCTCA-GATTACAATTCTTTATTGATTTTTATTACCATC
114119 AA
64 AA
114121 TTATATATTTTATTTTATTTTATTT-TCT-A-ATTACAATTCTTTATTGATTTTTATTACCATCA
1 TTATA-ATTTTATTTTATTTTATTTATCTCAGATTACAATTCTTTATTGATTTTTATTACCATCA
114183 A
65 A
114184 TT
1 TT
114186 CTTTGTTCCT
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
62 14 0.24
63 17 0.29
64 1 0.02
65 3 0.05
66 5 0.08
67 19 0.32
ACGTcount: A:0.27, C:0.09, G:0.04, T:0.60
Consensus pattern (65 bp):
TTATAATTTTATTTTATTTTATTTATCTCAGATTACAATTCTTTATTGATTTTTATTACCATCAA
Found at i:114351 original size:17 final size:18
Alignment explanation
Indices: 114317--114351 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
114307 AATAAATAAA
*
114317 ATTTAAAAAACTTGATTT
1 ATTTAAAAAAATTGATTT
114335 ATTTAAAAAAATT-ATTT
1 ATTTAAAAAAATTGATTT
114352 GACTCAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
ATTTAAAAAAATTGATTT
Found at i:119804 original size:51 final size:51
Alignment explanation
Indices: 119728--119879 Score: 279
Period size: 51 Copynumber: 3.0 Consensus size: 51
119718 TACACTATTC
*
119728 GGTATCCATCGTGTAATTTGTCGTGCTATTTATCAAAATCAATAAAGTTAG
1 GGTATCCATCGTGTAATTTGTCGTGCTATTTATCAAAATCAATAGAGTTAG
*
119779 GGTATCCATCGTGTAATTTGTCGTGCTA-TTATCAAAATCAATAGAGTTAA
1 GGTATCCATCGTGTAATTTGTCGTGCTATTTATCAAAATCAATAGAGTTAG
119829 GGTATCCATCGTGTAATTTGTCGTGCTATTTATCAAAATCAATAGAGTTAG
1 GGTATCCATCGTGTAATTTGTCGTGCTATTTATCAAAATCAATAGAGTTAG
119880 AAGATGATAA
Statistics
Matches: 97, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
50 48 0.49
51 49 0.51
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (51 bp):
GGTATCCATCGTGTAATTTGTCGTGCTATTTATCAAAATCAATAGAGTTAG
Found at i:120065 original size:7 final size:7
Alignment explanation
Indices: 120053--120096 Score: 81
Period size: 7 Copynumber: 6.4 Consensus size: 7
120043 TCAAAATACC
120053 GAAAGCA
1 GAAAGCA
120060 GAAAGCA
1 GAAAGCA
120067 GAAAGCA
1 GAAAGCA
120074 GAAAGCA
1 GAAAGCA
120081 GAAAGCA
1 GAAAGCA
120088 GAAAG-A
1 GAAAGCA
120094 GAA
1 GAA
120097 TGAGGTACTA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.11
7 33 0.89
ACGTcount: A:0.59, C:0.11, G:0.30, T:0.00
Consensus pattern (7 bp):
GAAAGCA
Found at i:121605 original size:7 final size:7
Alignment explanation
Indices: 121593--121657 Score: 55
Period size: 7 Copynumber: 9.3 Consensus size: 7
121583 CCAATACTGA
121593 AAATTCT
1 AAATTCT
121600 AAATTCT
1 AAATTCT
*
121607 AAATTTT
1 AAATTCT
121614 AAA-TCATT
1 AAATTC--T
121622 AAATTCT
1 AAATTCT
121629 AAAATT-T
1 -AAATTCT
*
121636 AAATTTT
1 AAATTCT
121643 AAATT-T
1 AAATTCT
*
121649 AAACTCT
1 AAATTCT
121656 AA
1 AA
121658 CTAAAATTTG
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
6 11 0.22
7 27 0.55
8 9 0.18
9 2 0.04
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (7 bp):
AAATTCT
Found at i:121624 original size:22 final size:21
Alignment explanation
Indices: 121599--121651 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
121589 CTGAAAATTC
*
121599 TAAATTCTAAATTTTAAATCAT
1 TAAATTCTAAAATTTAAAT-AT
*
121621 TAAATTCTAAAATTTAAATTT
1 TAAATTCTAAAATTTAAATAT
121642 TAAATT-TAAA
1 TAAATTCTAAA
121652 CTCTAACTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 4 0.14
21 7 0.24
22 18 0.62
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAATTCTAAAATTTAAATAT
Found at i:128576 original size:21 final size:20
Alignment explanation
Indices: 128536--128577 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
128526 CCGACTTACA
*
128536 ATGCATTATGAACCATTATT
1 ATGCATTATCAACCATTATT
*
128556 ATGCATTATACAACTATTATT
1 ATGCATTAT-CAACCATTATT
128577 A
1 A
128578 GTTGTATGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (20 bp):
ATGCATTATCAACCATTATT
Found at i:133881 original size:20 final size:21
Alignment explanation
Indices: 133856--133897 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
133846 CCAACTTACA
133856 ATGCATTATA-AACCATTATT
1 ATGCATTATACAACCATTATT
*
133876 ATGCATTATACAACTATTATT
1 ATGCATTATACAACCATTATT
133897 A
1 A
133898 GTTGTATGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.40
Consensus pattern (21 bp):
ATGCATTATACAACCATTATT
Found at i:136144 original size:60 final size:57
Alignment explanation
Indices: 135981--136148 Score: 183
Period size: 59 Copynumber: 2.8 Consensus size: 57
135971 ACTTTTATTT
* *
135981 TAAATTGGTCCCTAAACTTTTAAATATTTCAATTTCATCCCTAAACTATGACTGCATTC
1 TAAATTGGTCCC-AAACTTTTGAATATTTCAATTTCATCCC-AAACTATGACTACATTC
*** * *
136040 TAAATCAATCCTCAAACTTTTGAGTATTTCAATTTCATCTCCAAATTATGACCTACATTC
1 TAAATTGGTCC-CAAACTTTTGAATATTTCAATTTCATC-CCAAACTATGA-CTACATTC
* * *
136100 TAAATTGGTCTCCAAACTTTTTGAACATTCCAATTTCAACCCAAACTAT
1 TAAATTGGTC-CCAAAC-TTTTGAATATTTCAATTTCATCCCAAACTAT
136149 ACATATATAC
Statistics
Matches: 89, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
59 40 0.45
60 30 0.34
61 19 0.21
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (57 bp):
TAAATTGGTCCCAAACTTTTGAATATTTCAATTTCATCCCAAACTATGACTACATTC
Found at i:144347 original size:195 final size:195
Alignment explanation
Indices: 144015--144405 Score: 739
Period size: 195 Copynumber: 2.0 Consensus size: 195
144005 CAGAATAAGA
*
144015 CAATCATATTAAAAGAAATAATAATCTTAGAGGAAAGATGATGAGGGCCAGATATTGAACCACAT
1 CAATCATATTAAAAGAAAAAATAATCTTAGAGGAAAGATGATGAGGGCCAGATATTGAACCACAT
144080 AGGTTATAGAATTAACAGCTAAAGAAAACTATTCTCATCAAAGGAACACCATAAATAAACAGTAG
66 AGGTTATAGAATTAACAGCTAAAGAAAACTATTCTCATCAAAGGAACACCATAAATAAACAGTAG
144145 CAACAGATATGAAACCTGAAAGAAATTCTATCTTCAAGGGCCATGTCATCGATTTAATCATAAAC
131 CAACAGATATGAAACCTGAAAGAAATTCTATCTTCAAGGGCCATGTCATCGATTTAATCATAAAC
*
144210 CAATCATATTAAAAGAAAAAATAATCTTTA-AGGAAAGATGCTGAGGGCCAGATATTGAACCACA
1 CAATCATATTAAAAGAAAAAATAATC-TTAGAGGAAAGATGATGAGGGCCAGATATTGAACCACA
*
144274 TAGGTTATAGAATTAACAGCTAAAGAAAACTATTCTCATCAAAGTAACACCATAAATAAACAGTA
65 TAGGTTATAGAATTAACAGCTAAAGAAAACTATTCTCATCAAAGGAACACCATAAATAAACAGTA
144339 GCAACAGATATGAAACCTGAAAGAAATTCTATCTTCAAGGGCCATGTCATCGATTTAATCATAAA
130 GCAACAGATATGAAACCTGAAAGAAATTCTATCTTCAAGGGCCATGTCATCGATTTAATCATAAA
144404 C
195 C
144405 C
1 C
144406 TAAAAGTACA
Statistics
Matches: 192, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
195 189 0.98
196 3 0.02
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (195 bp):
CAATCATATTAAAAGAAAAAATAATCTTAGAGGAAAGATGATGAGGGCCAGATATTGAACCACAT
AGGTTATAGAATTAACAGCTAAAGAAAACTATTCTCATCAAAGGAACACCATAAATAAACAGTAG
CAACAGATATGAAACCTGAAAGAAATTCTATCTTCAAGGGCCATGTCATCGATTTAATCATAAAC
Found at i:151921 original size:17 final size:18
Alignment explanation
Indices: 151892--151939 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
151882 CAAAAAAAAA
*
151892 TTAATTAAA-TAAAATA-
1 TTAAATAAATTAAAATAC
*
151908 TTAAA-AAATTTAAATAC
1 TTAAATAAATTAAAATAC
151925 TTAAATAAATTAAAA
1 TTAAATAAATTAAAA
151940 ACAAAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 3 0.12
16 10 0.38
17 5 0.19
18 8 0.31
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAAATAAATTAAAATAC
Found at i:153970 original size:19 final size:19
Alignment explanation
Indices: 153942--153979 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
153932 TGGTTATTTA
153942 ATTGTAATTATAGACGATT
1 ATTGTAATTATAGACGATT
* *
153961 ATTGTGATTATAGATGATT
1 ATTGTAATTATAGACGATT
153980 TATCTATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (19 bp):
ATTGTAATTATAGACGATT
Found at i:153994 original size:33 final size:33
Alignment explanation
Indices: 153957--154028 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
153947 AATTATAGAC
* * *
153957 GATTATTGTGATTATAGATGATTTATCTATTAT
1 GATTATTATGATTATAGACGATTCATCTATTAT
* *
153990 GATTACTATGATTATAGACGATTCATCTATTCT
1 GATTATTATGATTATAGACGATTCATCTATTAT
154023 GATTAT
1 GATTAT
154029 AGGTTGTGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.47
Consensus pattern (33 bp):
GATTATTATGATTATAGACGATTCATCTATTAT
Found at i:157947 original size:31 final size:31
Alignment explanation
Indices: 157905--157998 Score: 143
Period size: 31 Copynumber: 3.0 Consensus size: 31
157895 AGGGTCGAGA
* *
157905 GTTTACATATGTTCTTTGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
157936 GTTTACCTATGTTCTTCGGGACATATGAACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
157967 GATTACCTAGGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
157998 G
1 G
157999 GCCCTTCGGG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:158279 original size:25 final size:25
Alignment explanation
Indices: 158248--158300 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
158238 TATGATGAGT
158248 ATATGGTAAGTAAAAGGGATTAATG
1 ATATGGTAAGTAAAAGGGATTAATG
158273 ATATGGTAAGTAAAAGGGATTAATG
1 ATATGGTAAGTAAAAGGGATTAATG
158298 ATA
1 ATA
158301 GTTTTTGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.28
Consensus pattern (25 bp):
ATATGGTAAGTAAAAGGGATTAATG
Found at i:158693 original size:21 final size:21
Alignment explanation
Indices: 158669--158710 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
158659 GTAGCAGTAT
*
158669 TGTAGCAGGGTATCGGTACCC
1 TGTAGCAGGGTATCGATACCC
158690 TGTAGCAGGGTATCGATACCC
1 TGTAGCAGGGTATCGATACCC
158711 CTCCAGCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.24
Consensus pattern (21 bp):
TGTAGCAGGGTATCGATACCC
Found at i:158718 original size:22 final size:21
Alignment explanation
Indices: 158672--158718 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
158662 GCAGTATTGT
* **
158672 AGCAGGGTATCGGTACCCTGT
1 AGCAGGGTATCGATACCCTCC
158693 AGCAGGGTATCGATACCCCTCC
1 AGCAGGGTATCGATA-CCCTCC
158715 AGCA
1 AGCA
158719 TTTTAGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.23, C:0.30, G:0.28, T:0.19
Consensus pattern (21 bp):
AGCAGGGTATCGATACCCTCC
Found at i:158773 original size:10 final size:10
Alignment explanation
Indices: 158758--158784 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
158748 TTAACGGTAC
158758 TGTTCATTAA
1 TGTTCATTAA
158768 TGTTCATTAA
1 TGTTCATTAA
158778 TGTTCAT
1 TGTTCAT
158785 ATGGTATTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.52
Consensus pattern (10 bp):
TGTTCATTAA
Found at i:159447 original size:28 final size:26
Alignment explanation
Indices: 159394--159455 Score: 88
Period size: 28 Copynumber: 2.3 Consensus size: 26
159384 TAAAGTTATC
159394 TTTATTTTTTTAACTTATTAAATATT
1 TTTATTTTTTTAACTTATTAAATATT
*
159420 TTTATGTTTTCTTAATTTATTAAATATTT
1 TTTAT-TTTT-TTAACTTATTAAATA-TT
159449 TTTATTT
1 TTTATTT
159456 AATGTAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 5 0.16
27 4 0.12
28 16 0.50
29 7 0.22
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (26 bp):
TTTATTTTTTTAACTTATTAAATATT
Found at i:159508 original size:26 final size:26
Alignment explanation
Indices: 159443--159508 Score: 62
Period size: 30 Copynumber: 2.4 Consensus size: 26
159433 AATTTATTAA
*
159443 ATATTTTTTATTTAATGTAAAAATAT
1 ATATTTTTTATATAATGTAAAAATAT
*
159469 ATATTTCATCTTTATCATACT-TAAAAATAT
1 ATA-TT--T-TTTAT-ATAATGTAAAAATAT
159499 ATATTTTTTA
1 ATATTTTTTA
159509 AATATCTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
26 7 0.21
27 3 0.09
29 3 0.09
30 17 0.52
31 3 0.09
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATTTTTTATATAATGTAAAAATAT
Found at i:159585 original size:31 final size:30
Alignment explanation
Indices: 159535--159598 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
159525 ATATATTGAA
*
159535 ATATTTTATTATTAATTTAATATAAAAATAT
1 ATATTTTACTATTAATTTAA-ATAAAAATAT
* * * *
159566 ATATTTTACTCTTATTTTAAATTAAAGTAT
1 ATATTTTACTATTAATTTAAATAAAAATAT
159596 ATA
1 ATA
159599 ATATTTTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (30 bp):
ATATTTTACTATTAATTTAAATAAAAATAT
Found at i:159617 original size:33 final size:31
Alignment explanation
Indices: 159580--159731 Score: 98
Period size: 31 Copynumber: 4.9 Consensus size: 31
159570 TTTACTCTTA
* **
159580 TTTTAAATTAAAGTATATAATATTTTAATATAT
1 TTTTAAATTAAA--ATATAATAATAAAATATAT
**
159613 TTTTAAATTTTAATATAATAATAAAATATAT
1 TTTTAAATTAAAATATAATAATAAAATATAT
* * *
159644 TTTT-AATTTAAA-ATAAGAATAGAATATAT
1 TTTTAAATTAAAATATAATAATAAAATATAT
* * * * *
159673 TTTTAAGTGAAGATAAGAATAA-AATATATAT
1 TTTTAAATTAAAAT-ATAATAATAAAATATAT
* *
159704 TTTTATATT-AAAT-TAGTAAATAAAATAT
1 TTTTAAATTAAAATATAAT-AATAAAATAT
159732 TTATATATAT
Statistics
Matches: 91, Mismatches: 23, Indels: 13
0.72 0.18 0.10
Matches are distributed among these distances:
28 2 0.02
29 21 0.23
30 20 0.22
31 33 0.36
32 5 0.05
33 10 0.11
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (31 bp):
TTTTAAATTAAAATATAATAATAAAATATAT
Found at i:159654 original size:29 final size:29
Alignment explanation
Indices: 159606--159715 Score: 121
Period size: 29 Copynumber: 3.7 Consensus size: 29
159596 ATAATATTTT
* *
159606 AATATATTTTTAAATTTTAATATAATAATAA
1 AATATATTTTT-AA-TTTAAAATAAGAATAA
*
159637 AATATATTTTTAATTTAAAATAAGAATAG
1 AATATATTTTTAATTTAAAATAAGAATAA
* * *
159666 AATATATTTTTAAGTGAAGATAAGAATAA
1 AATATATTTTTAATTTAAAATAAGAATAA
*
159695 AATATATATTTTTATATTAAA
1 AATATAT-TTTTAAT-TTAAA
159716 TTAGTAAATA
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 45 0.68
30 7 0.11
31 14 0.21
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (29 bp):
AATATATTTTTAATTTAAAATAAGAATAA
Found at i:170432 original size:16 final size:17
Alignment explanation
Indices: 170396--170434 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
170386 GGATAAAAAA
170396 ATTT-AACAAATTATTT
1 ATTTAAACAAATTATTT
*
170412 GTTTAAACAAATTA-TT
1 ATTTAAACAAATTATTT
170428 ATTTAAA
1 ATTTAAA
170435 TTAATTGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (17 bp):
ATTTAAACAAATTATTT
Found at i:170637 original size:96 final size:97
Alignment explanation
Indices: 170536--170778 Score: 362
Period size: 97 Copynumber: 2.5 Consensus size: 97
170526 CGAATTAAAC
* *
170536 GAAATTTGTTCGGTTCGGTTAAAAAATTTCAAATAAATTTAGGTTTGATTCATGGTTAAAG-AAA
1 GAAATTTGTTCGGTTCGGTTAAAAATTTTCAAATAAATTTAGGTTCGATTCATGGTTAAAGAAAA
*
170600 AAATAGGTTAATTTGGTTTAGTTAATAATTTT
66 AAATAGGTTAATTTGGTTCAGTTAATAATTTT
* * *
170632 GAAATTTGTTCGGTTCGATTAAAATTTTTTAAATAAATTTAGGTTCGATTCATGGTTAAAGAAAA
1 GAAATTTGTTCGGTTCGGTTAAAAATTTTCAAATAAATTTAGGTTCGATTCATGGTTAAAGAAAA
*
170697 AAATCGGTTAATTTGGTTCAGTTAATAATTTT
66 AAATAGGTTAATTTGGTTCAGTTAATAATTTT
* ** * * *
170729 CAAATTAATTCAGTTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATT
1 GAAATTTGTTCGGTTCGGTTAAAAATTTTCAAATAAATTTAGGTTCGATT
170779 AACAGAAAAG
Statistics
Matches: 130, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
96 56 0.43
97 74 0.57
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.42
Consensus pattern (97 bp):
GAAATTTGTTCGGTTCGGTTAAAAATTTTCAAATAAATTTAGGTTCGATTCATGGTTAAAGAAAA
AAATAGGTTAATTTGGTTCAGTTAATAATTTT
Found at i:170737 original size:29 final size:29
Alignment explanation
Indices: 170704--170774 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
170694 AAAAAATCGG
170704 TTAATTTGGTTCAGTTAATAATTTTCAAA
1 TTAATTTGGTTCAGTTAATAATTTTCAAA
** *
170733 TTAATTCAGTTCGGTTAATAATTTTCAAA
1 TTAATTTGGTTCAGTTAATAATTTTCAAA
*
170762 TAAATTTTGGTTC
1 TTAA-TTTGGTTC
170775 GATTAACAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
29 29 0.83
30 6 0.17
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.48
Consensus pattern (29 bp):
TTAATTTGGTTCAGTTAATAATTTTCAAA
Found at i:170843 original size:137 final size:139
Alignment explanation
Indices: 170693--171016 Score: 454
Period size: 137 Copynumber: 2.3 Consensus size: 139
170683 ATGGTTAAAG
* * *
170693 AAAAAAATCGGTTAATTTGGTTCAGTTAATAATTTTCAAATTAATTCAGTTCGGTTAATAATTTT
1 AAAAAAATCGGTTAATTCGATTCGGTTAATAATTTTCAAATTAATTCAGTTCGGTTAATAATTTT
* *
170758 CAAATAAATTTTGGTTCGATTAACAGAAAAGAATTAATCAAATTTTTGCTTCAATTAATTCGATT
66 AAAATAAATTTTGGTTCGATTAACAGAAAAGAATTAACCAAATTTTTGCTTCAATTAATTCGATT
170823 AATAA-TT-
131 AATAATTTA
* * *
170830 AAAAAAATTGGTTAATTCGACTCGGTTAATAATTTTCAAATTAATTCGGTTCGGTTAATAATTTT
1 AAAAAAATCGGTTAATTCGATTCGGTTAATAATTTTCAAATTAATTCAGTTCGGTTAATAATTTT
* * *** * *
170895 AAAATAAATTTTGGTTCGATTAGCCGAGCCGAATTAACCAAATTTTTTCTTCGATTAATTCGATT
66 AAAATAAATTTTGGTTCGATTAACAGAAAAGAATTAACCAAATTTTTGCTTCAATTAATTCGATT
170960 AATAATTTAAA
131 AATAATTT--A
* * *
170971 AAAAAAATCAGTTAATTCGTTTCGGTTAATAATTTTCAAATAAATT
1 AAAAAAATCGGTTAATTCGATTCGGTTAATAATTTTCAAATTAATT
171017 TTGGTTCGAT
Statistics
Matches: 163, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
137 120 0.74
138 2 0.01
141 41 0.25
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.40
Consensus pattern (139 bp):
AAAAAAATCGGTTAATTCGATTCGGTTAATAATTTTCAAATTAATTCAGTTCGGTTAATAATTTT
AAAATAAATTTTGGTTCGATTAACAGAAAAGAATTAACCAAATTTTTGCTTCAATTAATTCGATT
AATAATTTA
Found at i:170873 original size:29 final size:29
Alignment explanation
Indices: 170841--170904 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
170831 AAAAAATTGG
*
170841 TTAATTCGACTCGGTTAATAATTTTCAAA
1 TTAATTCGACTCGGTTAATAATTTTAAAA
**
170870 TTAATTCGGTTCGGTTAATAATTTTAAAA
1 TTAATTCGACTCGGTTAATAATTTTAAAA
*
170899 TAAATT
1 TTAATT
170905 TTGGTTCGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (29 bp):
TTAATTCGACTCGGTTAATAATTTTAAAA
Found at i:171067 original size:112 final size:112
Alignment explanation
Indices: 170870--171128 Score: 365
Period size: 112 Copynumber: 2.3 Consensus size: 112
170860 AATTTTCAAA
* * * ** *
170870 TTAATTCGGTTCGGTTAATAATTTTAAAATAAATTTTGGTTCGATTAGCCGAGCCGAATTAACCA
1 TTAATTCGATTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACAAAACCGAATTAACCA
*
170935 AATTTTTTCTTCGATTAATTCGATTAATAATTTAAAAAAAAAATCAG
66 AAATTTTTCTTCGATTAATTCGATTAATAATTTAAAAAAAAAATCAG
* *
170982 TTAATTCGTTTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACAAAACTGAATTAACCA
1 TTAATTCGATTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACAAAACCGAATTAACCA
* * * * *
171047 AAATTTTTCTTCGATTAATTCGGTTAATAATTTTAAAAACAATTCGG
66 AAATTTTTCTTCGATTAATTCGATTAATAATTTAAAAAAAAAATCAG
* * *
171094 TTAATTTGATTCGATTAATAATTTTCAAATTAATT
1 TTAATTCGATTCGGTTAATAATTTTCAAATAAATT
171129 CGGTTCGTTA
Statistics
Matches: 130, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
112 130 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (112 bp):
TTAATTCGATTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACAAAACCGAATTAACCA
AAATTTTTCTTCGATTAATTCGATTAATAATTTAAAAAAAAAATCAG
Found at i:171145 original size:28 final size:29
Alignment explanation
Indices: 171094--171156 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 29
171084 AACAATTCGG
*
171094 TTAATTTGATTCGATTAATAATTTTCAAA
1 TTAATTCGATTCGATTAATAATTTTCAAA
*
171123 TTAATTCGGTTCG-TTAATAATTTTCAAA
1 TTAATTCGATTCGATTAATAATTTTCAAA
*
171151 TAAATT
1 TTAATT
171157 TTGGTTGCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
28 20 0.65
29 11 0.35
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.48
Consensus pattern (29 bp):
TTAATTCGATTCGATTAATAATTTTCAAA
Found at i:172439 original size:32 final size:32
Alignment explanation
Indices: 172391--172458 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
172381 TGTACACATA
* * * * *
172391 ATCTTCGATCTCTTACATAACATACTCCTTTT
1 ATCTTCAATCTATTACACAACAAACTCCTTTC
*
172423 ATCTTCAATCTATTACACAACAAAGTCCTTTC
1 ATCTTCAATCTATTACACAACAAACTCCTTTC
172455 ATCT
1 ATCT
172459 AACCAAAACT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.29, C:0.28, G:0.03, T:0.40
Consensus pattern (32 bp):
ATCTTCAATCTATTACACAACAAACTCCTTTC
Found at i:175322 original size:29 final size:30
Alignment explanation
Indices: 175284--175344 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 30
175274 AAATTTAAAC
* *
175284 AATTCTATTT-TTTTAATTTTATAAAAGTAA
1 AATTCTATTTATTATAATTTTA-AAAAATAA
175314 AATT-TATTTAATTATAATTTTAAAAAATAA
1 AATTCTATTT-ATTATAATTTTAAAAAATAA
175344 A
1 A
175345 CAAATTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 5 0.19
30 12 0.44
31 10 0.37
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (30 bp):
AATTCTATTTATTATAATTTTAAAAAATAA
Found at i:178637 original size:3 final size:3
Alignment explanation
Indices: 178629--178661 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
178619 GATTAATTTA
178629 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
178662 ATTGAAAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:179849 original size:41 final size:42
Alignment explanation
Indices: 179787--179904 Score: 116
Period size: 42 Copynumber: 2.8 Consensus size: 42
179777 TATTAAAAAT
* * *
179787 GCCGTAATATAGTAG-ACATTTAGCGGCGTTT-TAGCC-CAAAC
1 GCCGTAATAGAGTGGTA-ATTTAGCGGCATTTATA-CCACAAAC
*
179828 GCCGTAATAGAGTGGTAATTTAGCGGCATTTATACCACAAAT
1 GCCGTAATAGAGTGGTAATTTAGCGGCATTTATACCACAAAC
* * * **
179870 GCTGCAATAGAGTGGTAAATTAGCGATATTTATAC
1 GCCGTAATAGAGTGGTAATTTAGCGGCATTTATAC
179905 TTAAAATGCC
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
41 28 0.43
42 37 0.57
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (42 bp):
GCCGTAATAGAGTGGTAATTTAGCGGCATTTATACCACAAAC
Found at i:190717 original size:18 final size:18
Alignment explanation
Indices: 190669--190719 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
190659 TGCTATATAT
*
190669 GTCCCGAAGGACCACTAC
1 GTCCCGAAGGACTACTAC
190687 GTCCCGAAGGACTACTAC
1 GTCCCGAAGGACTACTAC
190705 GTCCCGAAGGACTAC
1 GTCCCGAAGGACTAC
190720 GTCCCAAACC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.27, C:0.35, G:0.24, T:0.14
Consensus pattern (18 bp):
GTCCCGAAGGACTACTAC
Found at i:190718 original size:15 final size:15
Alignment explanation
Indices: 190682--190754 Score: 65
Period size: 15 Copynumber: 4.3 Consensus size: 15
190672 CCGAAGGACC
190682 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
190697 ACTACTACGTCCCGAAGG
1 ---ACTACGTCCCGAAGG
190715 ACTACGTCCCAAACCGAAGG
1 ACTACGT--C---CCGAAGG
*
190735 ACTACGTCCCGAATG
1 ACTACGTCCCGAAGG
190750 ACTAC
1 ACTAC
190755 AATACCCTCG
Statistics
Matches: 49, Mismatches: 1, Indels: 13
0.78 0.02 0.21
Matches are distributed among these distances:
15 18 0.37
17 1 0.02
18 16 0.33
20 14 0.29
ACGTcount: A:0.30, C:0.34, G:0.21, T:0.15
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:193116 original size:21 final size:21
Alignment explanation
Indices: 193092--193132 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
193082 ATGAAGCAAG
*
193092 GGAAGCAGAGAGAGCAACAAC
1 GGAAGCAGACAGAGCAACAAC
* *
193113 GGAAGTAGCCAGAGCAACAA
1 GGAAGCAGACAGAGCAACAA
193133 AGAAAGTAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.20, G:0.32, T:0.02
Consensus pattern (21 bp):
GGAAGCAGACAGAGCAACAAC
Found at i:193139 original size:21 final size:21
Alignment explanation
Indices: 193102--193141 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
193092 GGAAGCAGAG
* *
193102 AGAGCAACAACGGAAGTAGCC
1 AGAGCAACAAAGAAAGTAGCC
193123 AGAGCAACAAAGAAAGTAG
1 AGAGCAACAAAGAAAGTAG
193142 AGAAAGAAGC
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:0.50, C:0.17, G:0.28, T:0.05
Consensus pattern (21 bp):
AGAGCAACAAAGAAAGTAGCC
Found at i:193171 original size:21 final size:20
Alignment explanation
Indices: 193146--193194 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
193136 AAGTAGAGAA
193146 AGAAGCAATGATAACACAGAG
1 AGAAGCAA-GATAACACAGAG
*
193167 AGAAGC-AGCAGTAGCACAGAG
1 AGAAGCAAG-A-TAACACAGAG
193188 AGAAGCA
1 AGAAGCA
193195 GCGGCAACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 2 0.08
21 21 0.88
ACGTcount: A:0.49, C:0.16, G:0.29, T:0.06
Consensus pattern (20 bp):
AGAAGCAAGATAACACAGAG
Found at i:193195 original size:21 final size:21
Alignment explanation
Indices: 193158--193212 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
193148 AAGCAATGAT
*
193158 AACACAGAGAGAAGCAGCAGT
1 AACACAGAGAGAAGCAGCAGC
* *
193179 AGCACAGAGAGAAGCAGCGGC
1 AACACAGAGAGAAGCAGCAGC
193200 AACACAGAGAGAA
1 AACACAGAGAGAA
193213 ACAACATATC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.47, C:0.20, G:0.31, T:0.02
Consensus pattern (21 bp):
AACACAGAGAGAAGCAGCAGC
Found at i:193771 original size:43 final size:43
Alignment explanation
Indices: 193624--193789 Score: 178
Period size: 43 Copynumber: 3.9 Consensus size: 43
193614 CAGACCTTTA
* * *
193624 GCGGCGTTTGT-ATGAAAAACACCGCGAAATC-TCAACACCTATT
1 GCGGCGTTTGTGA-GAAAAACGCCGCTAAA-CATCAACACCTACT
* * *
193667 GCGGTGTTTGAGATAAAAACGCCGCTAAACATCAACACCTACT
1 GCGGCGTTTGTGAGAAAAACGCCGCTAAACATCAACACCTACT
*
193710 GCGGCGTTT-TCGACAAAAACGCCG-TAAAACATCAACACCTACT
1 GCGGCGTTTGT-GAGAAAAACGCCGCT-AAACATCAACACCTACT
* * *
193753 GCGGCGTTTGTGGGAAAAATGCCGCTAAACATAAACA
1 GCGGCGTTTGTGAGAAAAACGCCGCTAAACATCAACA
193790 TGAACAAACG
Statistics
Matches: 104, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
42 2 0.02
43 99 0.95
44 3 0.03
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.20
Consensus pattern (43 bp):
GCGGCGTTTGTGAGAAAAACGCCGCTAAACATCAACACCTACT
Found at i:194764 original size:21 final size:21
Alignment explanation
Indices: 194740--194784 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
194730 ATTTTGACTA
194740 TCGCATTGCCATTTCCCAAAT
1 TCGCATTGCCATTTCCCAAAT
* * * *
194761 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCCATTTCCCAAAT
194782 TCG
1 TCG
194785 TAATACGAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.29, G:0.16, T:0.38
Consensus pattern (21 bp):
TCGCATTGCCATTTCCCAAAT
Found at i:194845 original size:41 final size:41
Alignment explanation
Indices: 194794--194929 Score: 159
Period size: 41 Copynumber: 3.3 Consensus size: 41
194784 GTAATACGAA
* *
194794 TACGTAAATCGCAATGCGATTTTCCTAATTTGCATTGCGATT
1 TACGTAAATCGCAATGCGATTTACCTAA-TCGCATTGCGATT
* *
194836 TACGT-AATCGCATTGCGATTTACGTAATCGCATTGCGATT
1 TACGTAAATCGCAATGCGATTTACCTAATCGCATTGCGATT
* * * * * *
194876 TTCCTAATTCGCACTTCGATTTACGTAATCGCATTGCGATT
1 TACGTAAATCGCAATGCGATTTACCTAATCGCATTGCGATT
194917 TA-GTAAATCGCAA
1 TACGTAAATCGCAA
194930 CGAGATTCTG
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
40 23 0.29
41 52 0.65
42 5 0.06
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (41 bp):
TACGTAAATCGCAATGCGATTTACCTAATCGCATTGCGATT
Found at i:194850 original size:20 final size:20
Alignment explanation
Indices: 194794--194928 Score: 157
Period size: 20 Copynumber: 6.6 Consensus size: 20
194784 GTAATACGAA
*
194794 TACGTAAATCGCAATGCGATT
1 TACGT-AATCGCATTGCGATT
* * *
194815 TTCCTAATTTGCATTGCGATT
1 TACGTAA-TCGCATTGCGATT
194836 TACGTAATCGCATTGCGATT
1 TACGTAATCGCATTGCGATT
194856 TACGTAATCGCATTGCGATT
1 TACGTAATCGCATTGCGATT
* *
194876 TTCCTAATTCGCACTT-CGATT
1 TACGTAA-TCGCA-TTGCGATT
194897 TACGTAATCGCATTGCGATT
1 TACGTAATCGCATTGCGATT
194917 TA-GTAAATCGCA
1 TACGT-AATCGCA
194929 ACGAGATTCT
Statistics
Matches: 98, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
19 4 0.04
20 58 0.59
21 34 0.35
22 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (20 bp):
TACGTAATCGCATTGCGATT
Found at i:194877 original size:61 final size:62
Alignment explanation
Indices: 194794--194929 Score: 224
Period size: 61 Copynumber: 2.2 Consensus size: 62
194784 GTAATACGAA
*
194794 TACGTAAATCGCAATGCGATTTTCCTAATTTGCA-TTGCGATTTACGTAATCGCATTGCGATT
1 TACGTAAATCGCAATGCGATTTTCCTAATTCGCACTT-CGATTTACGTAATCGCATTGCGATT
*
194856 TACGT-AATCGCATTGCGATTTTCCTAATTCGCACTTCGATTTACGTAATCGCATTGCGATT
1 TACGTAAATCGCAATGCGATTTTCCTAATTCGCACTTCGATTTACGTAATCGCATTGCGATT
194917 TA-GTAAATCGCAA
1 TACGTAAATCGCAA
194930 CGAGATTCTG
Statistics
Matches: 69, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
60 2 0.03
61 60 0.87
62 7 0.10
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (62 bp):
TACGTAAATCGCAATGCGATTTTCCTAATTCGCACTTCGATTTACGTAATCGCATTGCGATT
Found at i:195817 original size:24 final size:24
Alignment explanation
Indices: 195790--195843 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
195780 GTATTCGAAA
195790 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
195814 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
195838 TTTGAT
1 TTTGAT
195844 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:195925 original size:69 final size:69
Alignment explanation
Indices: 195814--195984 Score: 297
Period size: 69 Copynumber: 2.5 Consensus size: 69
195804 ATACCCGGAC
* * * * *
195814 TTTGATCTTGGTCAATACTCGGATTTTGATGATTTTTCAGAAGAAGAAAGAGACTCTGCGTGTAA
1 TTTGATATTGGTCAATACCCGAATTTTGATGATTTTTCAGAAGAAGAAACAGACCCTGCGTGTAA
195879 TGAT
66 TGAT
195883 TTTGATATTGGTCAATACCCGAATTTTGATGATTTTTCAGAAGAAGAAACAGACCCTGCGTGTAA
1 TTTGATATTGGTCAATACCCGAATTTTGATGATTTTTCAGAAGAAGAAACAGACCCTGCGTGTAA
195948 TGAT
66 TGAT
195952 TTTGATATTGGTCAATACCCGAATTTTGATGAT
1 TTTGATATTGGTCAATACCCGAATTTTGATGAT
195985 GAAACAGCCG
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 97 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (69 bp):
TTTGATATTGGTCAATACCCGAATTTTGATGATTTTTCAGAAGAAGAAACAGACCCTGCGTGTAA
TGAT
Found at i:198433 original size:20 final size:19
Alignment explanation
Indices: 198405--198459 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
198395 CAATCATCTT
*
198405 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGC-GA
*
198425 AATGACTATCGCAATGCGA
1 AATGACTATCGCAACGCGA
**
198444 AATGAAAATCGCAACG
1 AATGACTATCGCAACG
198460 AGAGAATCGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:198474 original size:33 final size:33
Alignment explanation
Indices: 198432--198523 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
198422 GGAAATGACT
198432 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
198465 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
198498 ATCGCAAAGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
198524 AGTGAATTTA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:198488 original size:19 final size:18
Alignment explanation
Indices: 198412--198523 Score: 78
Period size: 19 Copynumber: 6.4 Consensus size: 18
198402 CTTAATGTCT
**
198412 ATCGCAACGCGGAAATGACT
1 ATCGCAA-GC-GAAATGAAA
198432 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
198451 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
198465 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
**
198484 ATCGCAA-CG--A-GGGA
1 ATCGCAAGCGAAATGAAA
198498 ATCGCAAAGCGAAATGAAA
1 ATCGC-AAGCGAAATGAAA
198517 ATCGCAA
1 ATCGCAA
198524 AGTGAATTTA
Statistics
Matches: 73, Mismatches: 9, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
14 17 0.23
15 4 0.05
16 4 0.05
17 4 0.05
18 4 0.05
19 31 0.42
20 9 0.12
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.12
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:198674 original size:20 final size:19
Alignment explanation
Indices: 198646--198700 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
198636 CAATCATCTT
*
198646 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGC-GA
*
198666 AATGACTATCGCAATGCGA
1 AATGACTATCGCAACGCGA
**
198685 AATGAAAATCGCAACG
1 AATGACTATCGCAACG
198701 AGAGAATCGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:198715 original size:33 final size:33
Alignment explanation
Indices: 198673--198764 Score: 157
Period size: 33 Copynumber: 2.8 Consensus size: 33
198663 GGAAATGACT
198673 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
198706 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
198739 ATCGTAAAGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
198765 AGTGAATTTA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:198719 original size:241 final size:241
Alignment explanation
Indices: 198296--198776 Score: 926
Period size: 241 Copynumber: 2.0 Consensus size: 241
198286 TCAGTTAGGC
*
198296 ATGTATTAGTAACTTGAGTTTGAAAATTGCTATGATATGTTCAGTTGTTATCACTTATTAGGCAT
1 ATGTATTAGTAACTTGAGTTTGAAAATTGCTATGATATATTCAGTTGTTATCACTTATTAGGCAT
*
198361 TCATTTGACTATCGCAACACGAAAATGATGTTCGCAATCATCTTAATGTCTATCGCAACGCGGAA
66 TCATTTGACTATCACAACACGAAAATGATGTTCGCAATCATCTTAATGTCTATCGCAACGCGGAA
198426 ATGACTATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAA
131 ATGACTATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAA
198491 CGAGGGAATCGCAAAGCGAAATGAAAATCGCAAAGTGAATTTAGTA
196 CGAGGGAATCGCAAAGCGAAATGAAAATCGCAAAGTGAATTTAGTA
198537 ATGTATTAGTAACTTGAGTTTGAAAATTGCTATGATATATTCAGTTGTTATCACTTATTAGGCAT
1 ATGTATTAGTAACTTGAGTTTGAAAATTGCTATGATATATTCAGTTGTTATCACTTATTAGGCAT
*
198602 TCATTTGACTATCACAACACGGAAATGATGTTCGCAATCATCTTAATGTCTATCGCAACGCGGAA
66 TCATTTGACTATCACAACACGAAAATGATGTTCGCAATCATCTTAATGTCTATCGCAACGCGGAA
198667 ATGACTATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAA
131 ATGACTATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAA
*
198732 CGAGGGAATCGTAAAGCGAAATGAAAATCGCAAAGTGAATTTAGT
196 CGAGGGAATCGCAAAGCGAAATGAAAATCGCAAAGTGAATTTAGT
198777 TTCGCGTTGC
Statistics
Matches: 236, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
241 236 1.00
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (241 bp):
ATGTATTAGTAACTTGAGTTTGAAAATTGCTATGATATATTCAGTTGTTATCACTTATTAGGCAT
TCATTTGACTATCACAACACGAAAATGATGTTCGCAATCATCTTAATGTCTATCGCAACGCGGAA
ATGACTATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAA
CGAGGGAATCGCAAAGCGAAATGAAAATCGCAAAGTGAATTTAGTA
Found at i:198729 original size:19 final size:19
Alignment explanation
Indices: 198653--198731 Score: 78
Period size: 19 Copynumber: 4.4 Consensus size: 19
198643 CTTAATGTCT
* **
198653 ATCGCAACGCGGAAATGACT
1 ATCGCAATGC-GAAATGAAA
198673 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
198692 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
198706 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
198725 ATCGCAA
1 ATCGCAA
198732 CGAGGGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
14 10 0.20
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 24 0.49
20 9 0.18
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:198766 original size:19 final size:19
Alignment explanation
Indices: 198653--198766 Score: 68
Period size: 19 Copynumber: 6.5 Consensus size: 19
198643 CTTAATGTCT
* **
198653 ATCGCAACGCGGAAATGACT
1 ATCGCAAAGC-GAAATGAAA
*
198673 ATCGCAATGCGAAATGAAA
1 ATCGCAAAGCGAAATGAAA
*
198692 ATCGC-AA-CG--A-GAGA
1 ATCGCAAAGCGAAATGAAA
*
198706 ATCGCAATGCGAAATGAAA
1 ATCGCAAAGCGAAATGAAA
**
198725 ATCGC-AA-CG--A-GGGA
1 ATCGCAAAGCGAAATGAAA
*
198739 ATCGTAAAGCGAAATGAAA
1 ATCGCAAAGCGAAATGAAA
198758 ATCGCAAAG
1 ATCGCAAAG
198767 TGAATTTAGT
Statistics
Matches: 70, Mismatches: 14, Indels: 21
0.67 0.13 0.20
Matches are distributed among these distances:
14 14 0.20
15 5 0.07
16 4 0.06
17 4 0.06
18 4 0.06
19 30 0.43
20 9 0.13
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.13
Consensus pattern (19 bp):
ATCGCAAAGCGAAATGAAA
Found at i:198818 original size:33 final size:33
Alignment explanation
Indices: 198776--198855 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
198766 GTGAATTTAG
198776 TTTCGCGTTGCGATTCCCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCCCTCGTTGCGATTTTCA
*
198809 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCCCTCGTTGCGATTTTCA
*
198842 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
198856 AGTCATTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.44
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCCCTCGTTGCGATTTTCA
Done.