Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000990.1 Hibiscus syriacus cultivar Beakdansim tig00001982_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: 274437
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:169 original size:14 final size:14
Alignment explanation
Indices: 116--171 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
106 AACGACGGAC
*
116 TTTTATATATATATT
1 TTTTAAATAT-TATT
* *
131 TTTT-AATTTTACT
1 TTTTAAATATTATT
*
144 TTTAAAATTATTATT
1 TTTTAAA-TATTATT
159 TTTTAAATATTAT
1 TTTTAAATATTAT
172 GAAAGTATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
13 6 0.19
14 11 0.34
15 15 0.47
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTAAATATTATT
Found at i:1944 original size:143 final size:148
Alignment explanation
Indices: 1653--1960 Score: 504
Period size: 143 Copynumber: 2.1 Consensus size: 148
1643 GGAGGATAAC
*
1653 GAGGAGAAG-AAAATAATGCAAGTAGTAGAAACAATTCAACTTCAAATTCCACCAATGATAAGCA
1 GAGGAGGAGAAAAATAATGCAAG-AGTAGAAACAATTCAACTTCAAATTCCACCAATGATAAGCA
*
1717 TTGAAGGCTAAAGAGGAGAAGAAAGAGAATACAGATACTGGAAAGAAACCAAATAGCACGGGGAC
65 TTGAAGGCTAAAGAGGAGAAGAAAGAGAATAAAGATACTGGAAAGAAACCAAATAGCACGGGGAC
1782 TGAACAAGCAGATGTGTTA
130 TGAACAAGCAGATGTGTTA
*
1801 GAGGAGGAGAAAAATAATGC-A-AGTAGAAACAATTCAACTTC-AATTCCCCCAATGATAAAGCA
1 GAGGAGGAGAAAAATAATGCAAGAGTAGAAACAATTCAACTTCAAATTCCACCAATGAT-AAGCA
1863 TTGAAGGCTAAAGAGGAGAAG-AA-AG-ATAAAGATACTGGAAAGAAACCAAATAGCACGGGGAC
65 TTGAAGGCTAAAGAGGAGAAGAAAGAGAATAAAGATACTGGAAAGAAACCAAATAGCACGGGGAC
1925 TGAACAAGCAGATGTGTTA
130 TGAACAAGCAGATGTGTTA
* *
1944 GAGGAGGATAAGAATAA
1 GAGGAGGAGAAAAATAA
1961 GAAGAGCCGA
Statistics
Matches: 153, Mismatches: 5, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
143 70 0.46
144 2 0.01
145 16 0.10
146 46 0.30
148 9 0.06
149 10 0.07
ACGTcount: A:0.47, C:0.13, G:0.24, T:0.16
Consensus pattern (148 bp):
GAGGAGGAGAAAAATAATGCAAGAGTAGAAACAATTCAACTTCAAATTCCACCAATGATAAGCAT
TGAAGGCTAAAGAGGAGAAGAAAGAGAATAAAGATACTGGAAAGAAACCAAATAGCACGGGGACT
GAACAAGCAGATGTGTTA
Found at i:20068 original size:10 final size:10
Alignment explanation
Indices: 20053--20078 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
20043 CACTTGTATT
20053 AATTAAAAAA
1 AATTAAAAAA
20063 AATTAAAAAA
1 AATTAAAAAA
20073 AATTAA
1 AATTAA
20079 CACTGAGTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
AATTAAAAAA
Found at i:22227 original size:2 final size:2
Alignment explanation
Indices: 22220--22258 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
22210 TAATGAAATC
22220 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22259 CTTGTGTGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23449 original size:12 final size:12
Alignment explanation
Indices: 23433--23526 Score: 100
Period size: 12 Copynumber: 7.8 Consensus size: 12
23423 TTACATTTGG
*
23433 TTTTATCATTAT
1 TTTTATTATTAT
*
23445 ATTTATTATTAT
1 TTTTATTATTAT
23457 TTTTATTATTAT
1 TTTTATTATTAT
23469 TTTTATTATTAT
1 TTTTATTATTAT
*
23481 TATTATTAGTT-T
1 TTTTATTA-TTAT
* *
23493 TGTTATTAATAT
1 TTTTATTATTAT
* *
23505 TATTATTATTAA
1 TTTTATTATTAT
*
23517 TATTATTATT
1 TTTTATTATT
23527 TTATTACAGA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
11 1 0.01
12 68 0.96
13 2 0.03
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.67
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:23455 original size:3 final size:3
Alignment explanation
Indices: 23447--23532 Score: 104
Period size: 3 Copynumber: 29.0 Consensus size: 3
23437 ATCATTATAT
* *
23447 TTA TTA TTA TTT TTA TTA TTA TTT TTA TTA TTA TTA TTA TTA GTT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * *
23492 TTG TTA TTA ATA TTA TTA TTA TTA ATA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23533 CAGATACAAC
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
2 4 0.06
3 65 0.92
4 2 0.03
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:36084 original size:1 final size:1
Alignment explanation
Indices: 36078--36156 Score: 59
Period size: 1 Copynumber: 79.0 Consensus size: 1
36068 ATTATGCTTG
* * ** * * ** * *
36078 AAAAAAAAAGAAAAAAAAAGAAAAAAAAGGAAAAGAGAAAAAAAAAGGAAAAAAAAAAGAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
36143 AAAAAAAGAAAAAA
1 AAAAAAAAAAAAAA
36157 GGGGGGTCAA
Statistics
Matches: 60, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (1 bp):
A
Found at i:36092 original size:10 final size:10
Alignment explanation
Indices: 36077--36156 Score: 83
Period size: 10 Copynumber: 7.7 Consensus size: 10
36067 TATTATGCTT
36077 GAAAAAAAAA
1 GAAAAAAAAA
36087 GAAAAAAAAA
1 GAAAAAAAAA
*
36097 GAAAAAAAAG
1 GAAAAAAAAA
36107 GAAAAGAGAAAA
1 GAAAA-A-AAAA
36119 -AAAAAGGAAAA
1 GAAAAA--AAAA
*
36130 AAAAAAGAAAA
1 GAAAAA-AAAA
36141 G-AAAAAAAA
1 GAAAAAAAAA
36150 GAAAAAA
1 GAAAAAA
36157 GGGGGGTCAA
Statistics
Matches: 62, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
9 5 0.08
10 34 0.55
11 15 0.24
12 8 0.13
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:36116 original size:27 final size:25
Alignment explanation
Indices: 36078--36156 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 25
36068 ATTATGCTTG
36078 AAAAAAAAAGAAAAAAAAAGAAAAA
1 AAAAAAAAAGAAAAAAAAAGAAAAA
*
36103 AAAGGAAAAGAGAAAAAAAAAGGAAAAA
1 AAA--AAAAAAGAAAAAAAAA-GAAAAA
36131 AAAAAGAAAAG-AAAAAAAAGAAAAA
1 AAAAA-AAAAGAAAAAAAAAGAAAAA
36156 A
1 A
36157 GGGGGGTCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
25 10 0.21
26 10 0.21
27 19 0.40
28 9 0.19
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAGAAAAAAAAAGAAAAA
Found at i:36129 original size:38 final size:35
Alignment explanation
Indices: 36077--36156 Score: 108
Period size: 39 Copynumber: 2.2 Consensus size: 35
36067 TATTATGCTT
36077 GAAAAAAAAAG-AAAAAAAAAGAAAAAAAAGGAAAAGA
1 GAAAAAAAAAGAAAAAAAAAAGAAAAAAAA--AAAA-A
*
36114 GAAAAAAAAAGGAAAAAAAAAAGAAAAGAAAAAAAA
1 GAAAAAAAAA-GAAAAAAAAAAGAAAAAAAAAAAAA
36150 GAAAAAA
1 GAAAAAA
36157 GGGGGGTCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
36 8 0.20
37 14 0.35
38 1 0.03
39 17 0.43
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (35 bp):
GAAAAAAAAAGAAAAAAAAAAGAAAAAAAAAAAAA
Found at i:37555 original size:115 final size:115
Alignment explanation
Indices: 37396--37694 Score: 519
Period size: 115 Copynumber: 2.6 Consensus size: 115
37386 GAATGTGCTC
* * *
37396 ATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTAGTTTGGTATGAAACCACAGAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGGTATGAAACCACAGAACCAA
37461 TCATTAAATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
66 TCATTAAATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
*
37511 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGATATGAAACCACAGAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGGTATGAAACCACAGAACCAA
**
37576 TCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
66 TCATTAAATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
* *
37626 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGGTA-GGAACTACAGAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGGTATGAAACCACAGAACCAA
37690 TCATT
66 TCATT
37695 GGAATTAAAA
Statistics
Matches: 175, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
114 19 0.11
115 156 0.89
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (115 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGGTATGAAACCACAGAACCAA
TCATTAAATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
Found at i:38738 original size:20 final size:20
Alignment explanation
Indices: 38675--38738 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
38665 CCAGAAGGAG
*
38675 TTCATAATGAGAAGAACTCA
1 TTCATAATGAGAAGAACTAA
* * *
38695 TCTGAAAAAG-GAAGAA-TAA
1 T-TCATAATGAGAAGAACTAA
*
38714 GTTCATAATGAGAAGAACTTA
1 -TTCATAATGAGAAGAACTAA
38735 TTCA
1 TTCA
38739 ACTTTTTGCT
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
19 7 0.22
20 18 0.56
21 7 0.22
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.25
Consensus pattern (20 bp):
TTCATAATGAGAAGAACTAA
Found at i:38805 original size:113 final size:113
Alignment explanation
Indices: 38673--39406 Score: 1084
Period size: 113 Copynumber: 6.5 Consensus size: 113
38663 TTCCAGAAGG
* *
38673 AGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAATAAGTTCATAATGAGAAGAACTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
* * * *
38738 AACTTTTTG-CTCGAATTCATCA-TTCGATGGATCAACATTACCAG-GTAG
66 AACCTTTTGCCT-GAATTCATCACTT-GATGGATCAACTTTTCCAGAG-AA
* *
38786 AGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAATAAGTTCATAATGAGAAGAACTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
* * *
38851 AACTTTTTGCTTGAATTCATCACTTGATGGATCATCTTTTCCAGAGAA
66 AACCTTTTGCCTGAATTCATCACTTGATGGATCAACTTTTCCAGAGAA
* *
38899 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
* *
38964 AACCTTTTGCCTGAATTCATCACTTGATAGATCAGCTTTTCCAGAGAA
66 AACCTTTTGCCTGAATTCATCACTTGATGGATCAACTTTTCCAGAGAA
*
39012 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
*
39077 AACCTTTTGCCTGAATTCATCACTTGATGGATCATCTTTTCCAGAGAA
66 AACCTTTTGCCTGAATTCATCACTTGATGGATCAACTTTTCCAGAGAA
*
39125 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
* *
39190 AACATTTTGCCTGAATTCATCACTTGATGGATCAGCTTTTCCAGAGAA
66 AACCTTTTGCCTGAATTCATCACTTGATGGATCAACTTTTCCAGAGAA
*
39238 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
** * * * * * * *
39303 AACCTTTTGTTTAAATTCATCAATTGATGGATTAACATTGCCAGATAG
66 AACCTTTTGCCTGAATTCATCACTTGATGGATCAACTTTTCCAGAGAA
* * **
39351 AGTTCATAATCAGAAGAACTCGTCAT-CTGAA-GAAGAAG-AGTTCATAATGAGAAGAA
1 AGTTCATAATGAGAAGAACTCATC-TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
39407 TTCGTCATCT
Statistics
Matches: 582, Mismatches: 35, Indels: 10
0.93 0.06 0.02
Matches are distributed among these distances:
111 18 0.03
112 7 0.01
113 552 0.95
114 5 0.01
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.28
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
AACCTTTTGCCTGAATTCATCACTTGATGGATCAACTTTTCCAGAGAA
Found at i:38851 original size:20 final size:20
Alignment explanation
Indices: 38788--38851 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
38778 CCAGGTAGAG
*
38788 TTCATAATGAGAAGAACTCA
1 TTCATAATGAGAAGAACTAA
* * *
38808 TCTGAAAAAG-GAAGAA-TAA
1 T-TCATAATGAGAAGAACTAA
*
38827 GTTCATAATGAGAAGAACTTA
1 -TTCATAATGAGAAGAACTAA
38848 TTCA
1 TTCA
38852 ACTTTTTGCT
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
19 7 0.22
20 18 0.56
21 7 0.22
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.25
Consensus pattern (20 bp):
TTCATAATGAGAAGAACTAA
Found at i:38945 original size:226 final size:226
Alignment explanation
Indices: 38423--39406 Score: 1220
Period size: 226 Copynumber: 4.3 Consensus size: 226
38413 TGGATTGACA
38423 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
1 TTTCCAGAGAAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * * *
38488 AGAAGAGCTTGTTCAATC-TTTTG-CTCAAATCCATCACTTGATGGACCAGCATTTCCAGAGAAA
63 AGAAGAACTTGTTCAA-CATTTTGCCT-GAATTCATCACTTGATGGATCAGCTTTTCCAGAGAAA
* * ** * *
38551 TTTCATAATGAGAAGAACTTATCAT-CTGAA-GAAGAATAAGTTCATAATGAGAAGAGA-TTGTT
126 GTTCATAATGAGAAGAACTCATC-TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA-ACTTATT
* * * *** *
38613 CAACTTTTTGCTCG-ACTCTATCGCAGAAAGAGATAGATCAGCATCAAT
189 CAACCTTTTGCTTGAATTC-AT--C---ACTTGATGGAT---CATC--T
* * *
38661 ATTTCCAGA-AGGAGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAATAAGTTCATAATGA
1 -TTTCCAGAGA-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* * * * * *
38725 GAAGAACTTATTCAACTTTTTG-CTCGAATTCATCA-TTCGATGGATCAACATTACCAG-GTAGA
64 GAAGAACTTGTTCAACATTTTGCCT-GAATTCATCACTT-GATGGATCAGCTTTTCCAGAG-AAA
* *
38787 GTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAATAAGTTCATAATGAGAAGAACTTATTCA
126 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCA
*
38852 ACTTTTTGCTTGAATTCATCACTTGATGGATCATCT
191 ACCTTTTGCTTGAATTCATCACTTGATGGATCATCT
38888 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* * *
38953 AGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATAGATCAGCTTTTCCAGAGAAAGTTCA
66 AGAACTTGTTCAACATTTTGCCTGAATTCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCA
*
39018 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTT
131 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTT
*
39083 TTGCCTGAATTCATCACTTGATGGATCATCT
196 TTGCTTGAATTCATCACTTGATGGATCATCT
39114 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
39179 AGAACTTGTTCAACATTTTGCCTGAATTCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCA
66 AGAACTTGTTCAACATTTTGCCTGAATTCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCA
*
39244 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTATTCAACCTT
131 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTT
* * * * * *
39309 TTGTTTAAATTCATCAATTGATGGATTAACA
196 TTGCTTGAATTCATCACTTGATGGATCATCT
* * * * * **
39340 TTGCCAGATAGAGTTCATAATCAGAAGAACTCGTCAT-CTGAA-GAAGAAG-AGTTCATAATGAG
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATC-TGAAGAAGGAAGAAGAAGTTCATAATGAG
39402 AAGAA
65 AAGAA
39407 TTCGTCATCT
Statistics
Matches: 674, Mismatches: 58, Indels: 41
0.87 0.08 0.05
Matches are distributed among these distances:
224 18 0.03
225 7 0.01
226 447 0.66
227 8 0.01
229 4 0.01
232 7 0.01
235 6 0.01
236 102 0.15
237 45 0.07
238 4 0.01
239 26 0.04
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (226 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
AGAACTTGTTCAACATTTTGCCTGAATTCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCA
TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTT
TTGCTTGAATTCATCACTTGATGGATCATCT
Found at i:39131 original size:339 final size:337
Alignment explanation
Indices: 38404--39406 Score: 1263
Period size: 339 Copynumber: 2.9 Consensus size: 337
38394 ATTCAAATCT
* **
38404 ATCATTTGATGGATTGACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
1 ATCATTCGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAG
* ** *
38469 GAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAA-TCTTTTGCTCAAATCCATCACTTGATGGA
63 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACT-TTTTGCTTGAATTCATCACTTGATGGA
* * * * ** *
38533 CCAGCATTTCCAGAGAAATTTCATAATGAGAAGAACTTATCAT-CTGAA-GAAGAATAAGTTCAT
127 TCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATC-TGAAGAAGGAAGAAGAAGTTCAT
* * **
38596 AATGAGAAGAGA-TTGTTCAACTTTTTGCTCG-ACTCTATCGCAGAAAGAGATAGATCAGCATCA
191 AATGAGAAGA-ATTTGTTCAACCTTTTGCT-GAATTC-AT--C---AATTGATAGATCAG---C-
* *
38659 ATATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAATAAGTTCATAATG
244 -T-TTTCCAGAA-GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
*
38724 AGAAGAACTTATTCAACTTTTTGCTCGAATTC
306 AGAAGAACTTATTCAACCTTTTGCTCGAATTC
* * *
38756 ATCATTCGATGGATCAACATTACCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAAAAGGA
1 ATCATTCGATGGATCAACATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
38820 AGAATAAGTTCATAATGAGAAGAACTTATTCAACTTTTTGCTTGAATTCATCACTTGATGGATCA
65 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCA
*
38885 TCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
130 GCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* *
38950 AGAAGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATAGATCAGCTTTTCCAGAGAAAGT
195 AGAAGAATTTGTTCAACCTTTTG-CTGAATTCATCAATTGATAGATCAGCTTTTCCAGA-AGAGT
*
39015 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
258 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAAC
39080 CTTTTGC-CTGAATTC
323 CTTTTGCTC-GAATTC
* *
39095 ATCACTT-GATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 ATCA-TTCGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
39159 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACATTTTGCCTGAATTCATCACTTGATGGATCA
65 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCA
39224 GCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
130 GCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * * * * * *
39289 AGAAGAATTTATTCAACCTTTTGTTTAAATTCATCAATTGATGGATTAACATTGCCAGATAGAGT
195 AGAAGAATTTGTTCAACCTTTTG-CTGAATTCATCAATTGATAGATCAGCTTTTCCAGA-AGAGT
* * **
39354 TCATAATCAGAAGAACTCGTCAT-CTGAA-GAAGAAG-AGTTCATAATGAGAAGAA
258 TCATAATGAGAAGAACTCATC-TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
39407 TTCGTCATCT
Statistics
Matches: 583, Mismatches: 56, Indels: 39
0.86 0.08 0.06
Matches are distributed among these distances:
337 18 0.03
338 8 0.01
339 339 0.58
340 6 0.01
342 1 0.00
345 11 0.02
348 2 0.00
349 108 0.19
350 43 0.07
351 6 0.01
352 41 0.07
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (337 bp):
ATCATTCGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAG
CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
GAAGAATTTGTTCAACCTTTTGCTGAATTCATCAATTGATAGATCAGCTTTTCCAGAAGAGTTCA
TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTT
TTGCTCGAATTC
Found at i:39384 original size:19 final size:18
Alignment explanation
Indices: 39362--39423 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
39352 GTTCATAATC
39362 AGAAGAACTCGTCATCTGA
1 AGAAGAA-TCGTCATCTGA
** *
39381 AGAAGAAGAGTTCATAATG-
1 AGAAGAATCG-TCAT-CTGA
39400 AGAAGAATTCGTCATCTGA
1 AGAAGAA-TCGTCATCTGA
39419 AGAAG
1 AGAAG
39424 GAAGAATAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
18 3 0.09
19 27 0.82
20 3 0.09
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (18 bp):
AGAAGAATCGTCATCTGA
Found at i:39391 original size:38 final size:39
Alignment explanation
Indices: 39349--39428 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 39
39339 ATTGCCAGAT
39349 AGAGTTCATAATCAGAAGAACTCGTCATCTGAAGAA-GA
1 AGAGTTCATAATCAGAAGAACTCGTCATCTGAAGAAGGA
* *
39387 AGAGTTCATAATGAGAAGAATTCGTCATCTGAAGAAGGA
1 AGAGTTCATAATCAGAAGAACTCGTCATCTGAAGAAGGA
39426 AGA
1 AGA
39429 ATAAGTTCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 34 0.87
39 5 0.13
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.21
Consensus pattern (39 bp):
AGAGTTCATAATCAGAAGAACTCGTCATCTGAAGAAGGA
Found at i:39440 original size:154 final size:148
Alignment explanation
Indices: 39234--39611 Score: 568
Period size: 154 Copynumber: 2.5 Consensus size: 148
39224 GCTTTTCCAG
39234 AGAA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATT
1 AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA-AAGTTCATAATGAGAAGAATT
*
39298 TATTCAACCTTTTGTTTAAATTCATCAATTGATGGATTAACATTGCCAGATAGAGTTCATAATCA
65 TGTTCAACCTTTTGTTTAAATTCATCAATTGATGGATTAACATTGCCAGATAGAGTTCATAATCA
39363 GAAGAACTCGTCATCTGAAG-A
130 GAAGAA-T--TCATCTGAAGAA
39384 AGAAGAGTTCATAATGAGAAGAATTCGTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGA
1 AGAAGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAA-AAGTTCATAATGAGAAGA
* *
39449 ATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAA
62 ATTTGTTCAACCTTTTGTTTAAATTCATCAATTGATGGATTAACATTGCCAGATAGAGTTCATAA
*
39514 TGAGAAGAATTCATCTGAAGAA
127 TCAGAAGAATTCATCTGAAGAA
* * **
39536 AAAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAG--AAGTTCACAATGAGAAGAGCT
1 AGAAG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAGTTCATAATGAGAAGAATT
39598 TGTTCAACCTTTTG
65 TGTTCAACCTTTTG
39612 CATAATTCTA
Statistics
Matches: 213, Mismatches: 9, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
146 32 0.15
149 4 0.02
150 16 0.08
151 29 0.14
152 5 0.02
153 20 0.09
154 107 0.50
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (148 bp):
AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAGTTCATAATGAGAAGAATTT
GTTCAACCTTTTGTTTAAATTCATCAATTGATGGATTAACATTGCCAGATAGAGTTCATAATCAG
AAGAATTCATCTGAAGAA
Found at i:39589 original size:36 final size:37
Alignment explanation
Indices: 39505--39594 Score: 146
Period size: 37 Copynumber: 2.5 Consensus size: 37
39495 TGCCAGGTAG
*
39505 AGTTCATAATGAGAAGAATTCATCTGAAGAAAAAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGA
*
39542 AGTTCATAATGAGAAGAACTCATCTGAAG-AAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGA
*
39578 AGTTCACAATGAGAAGA
1 AGTTCATAATGAGAAGA
39595 GCTTGTTCAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
36 22 0.44
37 28 0.56
ACGTcount: A:0.49, C:0.10, G:0.21, T:0.20
Consensus pattern (37 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGA
Found at i:39771 original size:124 final size:122
Alignment explanation
Indices: 39541--39823 Score: 360
Period size: 124 Copynumber: 2.3 Consensus size: 122
39531 AAGAAAAAAG
*
39541 AAGTTCATAATGAGAAGAACTCATCTG---AAG-AAGAAGAAGTTCACAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCACAATGAGAAGAGCTTATT
* * * * * *
39602 CAACCTTTTGCATAATTCTATCACAGAAGTAGATAGATTAGCATCAACCTTTCCAG-AAA
66 CAACCTTTTGAATAACTCTATCACAGAAGGAAATAGATCAACATCAACC---CCAGCAAA
*
39661 AAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATT
1 AAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCACAATGAGAAGAGCTTATT
* * * * * *
39726 TAACCTTTTGAATGACTCTATCACATAAGGAAATAGGTCAACATCATCCCCAGCAGA
66 CAACCTTTTGAATAACTCTATCACAGAAGGAAATAGATCAACATCAACCCCAGCAAA
39783 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAGAAGAA
1 AAGTTCATAATGAGAAGAACTCATCTGAA-AAAGA-AAGAA
39824 TTTATTCAAC
Statistics
Matches: 142, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
120 27 0.19
121 4 0.03
122 31 0.22
123 8 0.06
124 72 0.51
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.24
Consensus pattern (122 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCACAATGAGAAGAGCTTATT
CAACCTTTTGAATAACTCTATCACAGAAGGAAATAGATCAACATCAACCCCAGCAAA
Found at i:39976 original size:6 final size:6
Alignment explanation
Indices: 39967--40019 Score: 70
Period size: 6 Copynumber: 8.8 Consensus size: 6
39957 GGTTTTATCA
* * * *
39967 TTATAT TTATTA TTATTT TTATTT TTATTT TTATTT TTATTA TTATTA
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
40015 TTATT
1 TTATT
40020 AGTTTTGTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (6 bp):
TTATTT
Found at i:39981 original size:3 final size:3
Alignment explanation
Indices: 39973--40064 Score: 98
Period size: 3 Copynumber: 31.0 Consensus size: 3
39963 ATCATTATAT
* * * *
39973 TTA TTA TTA TTT TTA TTT TTA TTT TTA TTT TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
40021 GTT- TTG TTA TTA ATA TTA TTA TTA TTA ATA TTA TTA TT- TTA TTA
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
40065 CAGATACAAC
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
2 4 0.05
3 67 0.92
4 2 0.03
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:39982 original size:18 final size:17
Alignment explanation
Indices: 39961--40064 Score: 95
Period size: 18 Copynumber: 6.0 Consensus size: 17
39951 ACATTTGGTT
*
39961 TTATCATTATATTTATTA
1 TTATTATTAT-TTTATTA
* *
39979 TTATTTTTATTTTTATTT
1 TTATTATTA-TTTTATTA
*
39997 TTATT-TT-TATTATTA
1 TTATTATTATTTTATTA
*
40012 TTATTATTAGTTTTGTTA
1 TTATTATTA-TTTTATTA
*
40030 TTAATATTATTATTATTA
1 TTATTATTATT-TTATTA
*
40048 ATATTATTATTTTATTA
1 TTATTATTATTTTATTA
40065 CAGATACAAC
Statistics
Matches: 70, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
15 11 0.16
16 2 0.03
17 10 0.14
18 46 0.66
19 1 0.01
ACGTcount: A:0.29, C:0.01, G:0.02, T:0.68
Consensus pattern (17 bp):
TTATTATTATTTTATTA
Found at i:39989 original size:12 final size:12
Alignment explanation
Indices: 39959--40064 Score: 88
Period size: 12 Copynumber: 8.7 Consensus size: 12
39949 TTACATTTGG
*
39959 TTTTATCATTAT
1 TTTTATTATTAT
*
39971 ATTTATTATTAT
1 TTTTATTATTAT
*
39983 TTTTATTTTTAT
1 TTTTATTATTAT
39995 TTTTATTTTTATTAT
1 TTTTA---TTATTAT
* *
40010 TATTATTATTAG
1 TTTTATTATTAT
* *
40022 TTTTGTTATTAA
1 TTTTATTATTAT
*
40034 TATTATTATTAT
1 TTTTATTATTAT
**
40046 TAATATTATTA-
1 TTTTATTATTAT
40057 TTTTATTA
1 TTTTATTA
40065 CAGATACAAC
Statistics
Matches: 75, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
11 6 0.08
12 59 0.79
15 10 0.13
ACGTcount: A:0.28, C:0.01, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:43244 original size:4 final size:4
Alignment explanation
Indices: 43235--43269 Score: 61
Period size: 4 Copynumber: 8.5 Consensus size: 4
43225 ATCTTATAAT
43235 AATA AATA AATA AATA AATA AATA AATAA AATA AA
1 AATA AATA AATA AATA AATA AATA AAT-A AATA AA
43270 AATAATATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:43279 original size:16 final size:16
Alignment explanation
Indices: 43232--43279 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
43222 ATCATCTTAT
43232 AATAATAAATAAAT-A
1 AATAATAAATAAATAA
43247 AATAAATAAATAAATAA
1 AAT-AATAAATAAATAA
43264 AATAA-AAATAATATAA
1 AATAATAAATAA-ATAA
43280 TTATTATATG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.30
16 17 0.57
17 4 0.13
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
AATAATAAATAAATAA
Found at i:45620 original size:24 final size:22
Alignment explanation
Indices: 45565--45622 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 22
45555 CCGTGATTTT
*
45565 ATTTTAAGAGGTAAACTTATAA
1 ATTTTAAGAGATAAACTTATAA
*
45587 ATTTTAAAGATGATAAATTTATAAA
1 ATTTT-AAGA-GATAAACTTAT-AA
45612 ATTTTAAGAGA
1 ATTTTAAGAGA
45623 CAAAAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 5 0.16
23 6 0.19
24 13 0.42
25 7 0.23
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (22 bp):
ATTTTAAGAGATAAACTTATAA
Found at i:46755 original size:13 final size:13
Alignment explanation
Indices: 46737--46778 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
46727 AATTTTATAC
46737 TCAATTAAAAATT
1 TCAATTAAAAATT
** *
46750 TCAATT-TTATTT
1 TCAATTAAAAATT
46762 TCAATTAAAAATT
1 TCAATTAAAAATT
46775 TCAA
1 TCAA
46779 CTAGATGTTT
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (13 bp):
TCAATTAAAAATT
Found at i:46759 original size:25 final size:25
Alignment explanation
Indices: 46727--46778 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
46717 TTCAATTATA
46727 AATTTTATACTCAATTAAAAATTTC
1 AATTTTATACTCAATTAAAAATTTC
**
46752 AATTTTATTTTCAATTAAAAATTTC
1 AATTTTATACTCAATTAAAAATTTC
46777 AA
1 AA
46779 CTAGATGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (25 bp):
AATTTTATACTCAATTAAAAATTTC
Found at i:46814 original size:25 final size:25
Alignment explanation
Indices: 46786--46866 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 25
46776 CAACTAGATG
46786 TTTAATGTTTAATTATAAATATATA
1 TTTAATGTTTAATTATAAATATATA
** *
46811 TTTAAAT-TAAAAATTAAAAATATATA
1 TTT-AATGT-TTAATTATAAATATATA
* * *
46837 TTTAAGGATT-ATTTTAGAATATATA
1 TTTAATGTTTAATTATA-AATATATA
46862 TTTAA
1 TTTAA
46867 ATTAAAAATT
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
24 4 0.09
25 19 0.44
26 20 0.47
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (25 bp):
TTTAATGTTTAATTATAAATATATA
Found at i:46826 original size:26 final size:26
Alignment explanation
Indices: 46796--46882 Score: 99
Period size: 26 Copynumber: 3.4 Consensus size: 26
46786 TTTAATGTTT
*
46796 AATTATAAATATATATTTAAATTAAA
1 AATTAAAAATATATATTTAAATTAAA
46822 AATTAAAAATATATATTTAAGGATT---
1 AATTAAAAATATATATTTAA--ATTAAA
* * *
46847 ATTTTAGAATATATATTTAAATTAAA
1 AATTAAAAATATATATTTAAATTAAA
46873 AATTAAAAAT
1 AATTAAAAAT
46883 TTACTGTAGA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
23 3 0.06
25 17 0.35
26 26 0.53
28 3 0.06
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (26 bp):
AATTAAAAATATATATTTAAATTAAA
Found at i:48198 original size:77 final size:76
Alignment explanation
Indices: 48066--48228 Score: 245
Period size: 77 Copynumber: 2.1 Consensus size: 76
48056 TGTGTCACAA
* * * *
48066 TATTTTAAATAGAATAAATTATAGTTTTGATCGTTTTGATGGTCTAGTGTAACACTAGGCACATC
1 TATTATAAATAGAATAAATTATAGTTGTGATCGTTTTGATGGTCCAATGTAACACTAGGCACATC
48131 CAAATTTAAGG
66 CAAATTTAAGG
* * *
48142 TATTATAAATAGAATAAATTTATAGTTGTGATCGTTTTGATGGTCCAATGTGACACTTGGCCCAT
1 TATTATAAATAGAATAAA-TTATAGTTGTGATCGTTTTGATGGTCCAATGTAACACTAGGCACAT
*
48207 CCATATTTAAGG
65 CCAAATTTAAGG
48219 TATTATAAAT
1 TATTATAAAT
48229 TTAAACATAG
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
76 17 0.22
77 61 0.78
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.39
Consensus pattern (76 bp):
TATTATAAATAGAATAAATTATAGTTGTGATCGTTTTGATGGTCCAATGTAACACTAGGCACATC
CAAATTTAAGG
Found at i:50587 original size:14 final size:14
Alignment explanation
Indices: 50568--50597 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
50558 TATGGTTGTC
50568 AATAACTTGAAAAG
1 AATAACTTGAAAAG
50582 AATAACTTGAAAAG
1 AATAACTTGAAAAG
50596 AA
1 AA
50598 AAAACTTTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.07, G:0.13, T:0.20
Consensus pattern (14 bp):
AATAACTTGAAAAG
Found at i:52736 original size:21 final size:22
Alignment explanation
Indices: 52688--52733 Score: 56
Period size: 25 Copynumber: 2.0 Consensus size: 22
52678 CTGTGAACCT
*
52688 TATAAGTAAGTTAGGTACACGTGTG
1 TATAAGGAAGTTAGGTACAC--G-G
52713 TATAAGGAAGTTAGGTACACG
1 TATAAGGAAGTTAGGTACACG
52734 TATGTTGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.05
25 19 0.95
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28
Consensus pattern (22 bp):
TATAAGGAAGTTAGGTACACGG
Found at i:53693 original size:21 final size:20
Alignment explanation
Indices: 53556--53693 Score: 73
Period size: 21 Copynumber: 6.8 Consensus size: 20
53546 AAATGACCAA
**
53556 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
53575 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
53595 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
53615 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
53636 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
53657 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
53677 CAAGAATCGCAACGCGA
1 CAA-AATCGCAACGCGA
53694 ACACATAAAT
Statistics
Matches: 87, Mismatches: 26, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
19 16 0.18
20 29 0.33
21 42 0.48
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:53722 original size:20 final size:20
Alignment explanation
Indices: 53681--53869 Score: 200
Period size: 20 Copynumber: 9.4 Consensus size: 20
53671 GATTTTCAAG
*
53681 AATCGCAACGCGAA-CACATA
1 AATCGCAACGCGAATC-CGTA
* *
53701 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
53721 AATAGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
53741 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
53761 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
**
53781 AATCGCAACGATAATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
53801 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGAATCCGTA
**
53821 AATCGCAACGATAATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
53841 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGAATCCGTA
*
53861 AATCACAAC
1 AATCGCAAC
53870 ACTGAAATTT
Statistics
Matches: 148, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
20 147 0.99
21 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAATCCGTA
Found at i:54600 original size:24 final size:24
Alignment explanation
Indices: 54561--54607 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
54551 AAATTTGGTC
54561 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
54585 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
54608 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:57135 original size:33 final size:33
Alignment explanation
Indices: 57084--57296 Score: 195
Period size: 33 Copynumber: 6.2 Consensus size: 33
57074 CGGAAATTAC
*
57084 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAAC-ATGAAAATCGCAATGCGAAATGAA
*
57117 AATCCCAACATGAAAATCGCAATGCGGAAATG-A
1 AATCGCAACATGAAAATCGCAATGC-GAAATGAA
* * *
57150 AATCGCAATGCAAAATGAAAATCGCAACGAGAGAATCG-C
1 AATCGCAA--C---ATGAAAATCGCAATGCGA-AAT-GAA
*
57189 AATGCGGAA-ATGAAAATCGCAATGCGAAATGAA
1 AAT-CGCAACATGAAAATCGCAATGCGAAATGAA
*
57222 AATCGCAACGAT-AGAATCGCAATGCGAAATGAA
1 AATCGCAAC-ATGAAAATCGCAATGCGAAATGAA
*
57255 AATCGCAACGA-GAGAATCGCAATGCGGAAATGAA
1 AATCGCAAC-ATGAAAATCGCAATGC-GAAATGAA
57289 AATCGCAA
1 AATCGCAA
57297 TGCGAAATGA
Statistics
Matches: 153, Mismatches: 12, Indels: 29
0.79 0.06 0.15
Matches are distributed among these distances:
32 6 0.04
33 79 0.52
34 40 0.26
35 1 0.01
37 2 0.01
38 17 0.11
39 4 0.03
40 4 0.03
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (33 bp):
AATCGCAACATGAAAATCGCAATGCGAAATGAA
Found at i:57242 original size:86 final size:90
Alignment explanation
Indices: 57084--57314 Score: 356
Period size: 86 Copynumber: 2.7 Consensus size: 90
57074 CGGAAATTAC
*
57084 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCG
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG
57143 GAAATGAAATCGCAATGCAAAATGAA
65 GAAATGAAATCGCAATGCAAAATGAA
57169 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-C-G
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGG
* *
57232 ATA-G-AATCGCAATGCGAAATGAA
66 AAATGAAATCGCAATGCAAAATGAA
57255 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCA
57315 TTGCGATTCT
Statistics
Matches: 137, Mismatches: 3, Indels: 11
0.91 0.02 0.07
Matches are distributed among these distances:
85 25 0.18
86 93 0.68
87 1 0.01
88 4 0.03
89 1 0.01
91 13 0.09
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (90 bp):
AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGG
AAATGAAATCGCAATGCAAAATGAA
Found at i:57378 original size:54 final size:52
Alignment explanation
Indices: 57310--57428 Score: 220
Period size: 54 Copynumber: 2.2 Consensus size: 52
57300 GAAATGAAAA
57310 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
57363 TCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 T-CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
57416 TCGCATTGCGATT
1 TCGCATTGCGATT
57429 TTCATTTCGC
Statistics
Matches: 65, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
52 12 0.18
53 20 0.31
54 33 0.51
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:57454 original size:19 final size:19
Alignment explanation
Indices: 57329--57446 Score: 174
Period size: 19 Copynumber: 6.4 Consensus size: 19
57319 GATTCTCTCG
57329 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
57349 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
*
57369 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
57383 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
57402 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
57421 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
57440 TTGCGAT
1 TTGCGAT
57447 AGTCATTTTT
Statistics
Matches: 91, Mismatches: 2, Indels: 11
0.88 0.02 0.11
Matches are distributed among these distances:
14 6 0.07
16 5 0.05
17 6 0.07
18 3 0.03
19 45 0.49
20 26 0.29
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:57572 original size:14 final size:14
Alignment explanation
Indices: 57553--57589 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
57543 CATCAATTAC
57553 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
57567 ACAAATCATCTTTT
1 ACAAATCAACTTTT
57581 ACAAATCAA
1 ACAAATCAA
57590 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:59548 original size:19 final size:19
Alignment explanation
Indices: 59506--59609 Score: 109
Period size: 19 Copynumber: 5.4 Consensus size: 19
59496 TAGTTTACTT
* *
59506 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TCAAAA
* * *
59526 TCGCAATGCGAAATGAGAA
1 TCGCAACGCGAAATCAAAA
* *
59545 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATCAAAA
*
59564 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATCAAAA
* *
59583 TCGCAACACGAAATGAAAA
1 TCGCAACGCGAAATCAAAA
59602 TCGCAACG
1 TCGCAACG
59610 ACAGAATCGC
Statistics
Matches: 70, Mismatches: 14, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
19 59 0.84
20 11 0.16
ACGTcount: A:0.47, C:0.25, G:0.17, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATCAAAA
Found at i:59575 original size:38 final size:38
Alignment explanation
Indices: 59506--59609 Score: 120
Period size: 38 Copynumber: 2.7 Consensus size: 38
59496 TAGTTTACTT
* * ** *
59506 TCGCAACACGAAACTTAAAATCGCAATGCGAAATGAGAA
1 TCGCAACACGAAAC-CAAAATCGCAACGCGAAACCAAAA
59545 TCGCAACGA-GAAACCAAAATCGCAACGCGAAACCAAAA
1 TCGCAAC-ACGAAACCAAAATCGCAACGCGAAACCAAAA
**
59583 TCGCAACACGAAATGAAAATCGCAACG
1 TCGCAACACGAAACCAAAATCGCAACG
59610 ACAGAATCGC
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
37 1 0.02
38 42 0.75
39 12 0.21
40 1 0.02
ACGTcount: A:0.47, C:0.25, G:0.17, T:0.11
Consensus pattern (38 bp):
TCGCAACACGAAACCAAAATCGCAACGCGAAACCAAAA
Found at i:59659 original size:33 final size:33
Alignment explanation
Indices: 59622--59726 Score: 88
Period size: 33 Copynumber: 3.2 Consensus size: 33
59612 AGAATCGCAA
*
59622 TGCGA-AATGAGAATCGCGTTGCGATTTTGTCGT
1 TGCGATAATG-GAATCGCGTTGCGATTCTGTCGT
** **
59655 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATAATGGAATCGCGTTGCGATTCTGTCGT
* ** * *
59688 TGCGAT-TTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATAATGGA-ATCGCGTTGCGATTCTGTCGT
59721 TGCGAT
1 TGCGAT
59727 TTTAAGTTTC
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
32 2 0.03
33 57 0.93
34 2 0.03
ACGTcount: A:0.12, C:0.19, G:0.28, T:0.41
Consensus pattern (33 bp):
TGCGATAATGGAATCGCGTTGCGATTCTGTCGT
Found at i:59676 original size:19 final size:18
Alignment explanation
Indices: 59635--59713 Score: 66
Period size: 14 Copynumber: 4.7 Consensus size: 18
59625 GAAATGAGAA
59635 TCGCGTTGCGATTTTG--
1 TCGCGTTGCGATTTTGTT
59651 T--CGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTT-GTT
*
59668 TCGCGTTGCGATTCTG--
1 TCGCGTTGCGATTTTGTT
*
59684 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTT-GTT
59701 TCGCGTTGCGATT
1 TCGCGTTGCGATT
59714 CTCTCGTTGC
Statistics
Matches: 50, Mismatches: 3, Indels: 17
0.71 0.04 0.24
Matches are distributed among these distances:
14 23 0.46
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 21 0.42
ACGTcount: A:0.08, C:0.19, G:0.28, T:0.46
Consensus pattern (18 bp):
TCGCGTTGCGATTTTGTT
Found at i:59723 original size:14 final size:14
Alignment explanation
Indices: 59671--59727 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
59661 TTTGGTTTCG
*
59671 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
59685 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
59704 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
59718 CGTTGCGATT
1 CGTTGCGATT
59728 TTAAGTTTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:59727 original size:33 final size:33
Alignment explanation
Indices: 59635--59745 Score: 159
Period size: 33 Copynumber: 3.3 Consensus size: 33
59625 GAAATGAGAA
* **
59635 TCGCGTTGCGATTTTGTCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTCTGTCGTTGCGATTTTAATT
*
59668 TCGCGTTGCGATTCTGTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTCTGTCGTTGCGATTTTAATT
*
59701 TCGCGTTGCGATTCTCTCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTCTGTCGTTGCGATTTTAA-TT
*
59735 TCGTGTTGCGA
1 TCGCGTTGCGA
59746 AAGTAACTAT
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 59 0.83
34 12 0.17
ACGTcount: A:0.09, C:0.19, G:0.27, T:0.45
Consensus pattern (33 bp):
TCGCGTTGCGATTCTGTCGTTGCGATTTTAATT
Found at i:60126 original size:92 final size:93
Alignment explanation
Indices: 59842--60156 Score: 587
Period size: 93 Copynumber: 3.4 Consensus size: 93
59832 TCAGGGTATT
*
59842 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTTCTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
59907 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
* *
59935 AGTTTAACAAAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
60000 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
60028 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
60092 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
60120 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
60157 AAGCAATCTA
Statistics
Matches: 216, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
92 77 0.36
93 139 0.64
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:61866 original size:20 final size:20
Alignment explanation
Indices: 61835--61898 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
61825 TTTTGGTTGA
61835 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
61855 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
61875 AAATGAAAATCGCAACGAGAG
1 -AATGAAAATCGCAACGAGAG
61896 AAT
1 AAT
61899 CGCAACGCGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.47, C:0.16, G:0.25, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:61887 original size:21 final size:21
Alignment explanation
Indices: 61833--61897 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
61823 TCTTTTGGTT
61833 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
61854 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
61874 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
61895 GAA
1 GAA
61898 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:61945 original size:19 final size:19
Alignment explanation
Indices: 61923--62030 Score: 73
Period size: 19 Copynumber: 5.7 Consensus size: 19
61913 AAAATCGCAA
** *
61923 TGCGATTTTGGTTTCTCGT
1 TGCGATTTTCATTTCGCGT
61942 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
61961 TGCGA--TTC---TCTCGT
1 TGCGATTTTCATTTCGCGT
*
61975 TGCGATTTTCATTTTTCTCGT
1 TGCGATTTTCA--TTTCGCGT
** *
61996 TGCAGATAGTCATTTTCACGT
1 TGC-GATTTTCA-TTTCGCGT
62017 TGCGATTTTCATTT
1 TGCGATTTTCATTT
62031 ATCTCGTTGC
Statistics
Matches: 72, Mismatches: 9, Indels: 16
0.74 0.09 0.16
Matches are distributed among these distances:
14 10 0.14
16 3 0.04
17 3 0.04
19 24 0.33
20 6 0.08
21 20 0.28
22 6 0.08
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.49
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:61994 original size:21 final size:21
Alignment explanation
Indices: 61969--62042 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
61959 GTTGCGATTC
61969 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
61990 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
62011 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
62032 TCTCGTTGCGA
1 TCTCGTTGCGA
62043 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:62164 original size:33 final size:33
Alignment explanation
Indices: 62122--62192 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
62112 AATACTAACT
62122 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
62155 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
62188 TGAAA
1 TGAAA
62193 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:62596 original size:20 final size:20
Alignment explanation
Indices: 62571--62763 Score: 246
Period size: 20 Copynumber: 9.6 Consensus size: 20
62561 CTTTAAAAAT
62571 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
62591 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
62611 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
62632 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
62652 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
62672 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
62692 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
62712 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
62732 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
62752 CGCGTTGCGATT
1 CGCGTTGCGATT
62764 CTGGAAAATC
Statistics
Matches: 152, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
20 134 0.88
21 18 0.12
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:69375 original size:14 final size:14
Alignment explanation
Indices: 69356--69384 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
69346 TATTAAGTAA
69356 ACCGACGTTGATTC
1 ACCGACGTTGATTC
69370 ACCGACGTTGATTC
1 ACCGACGTTGATTC
69384 A
1 A
69385 AGTCTAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (14 bp):
ACCGACGTTGATTC
Found at i:69664 original size:30 final size:30
Alignment explanation
Indices: 69585--69657 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
69575 ATCCATGAAT
* *
69585 TTTAGATAATATACTAATTTATCTTTAAAC
1 TTTACATAAAATACTAATTTATCTTTAAAC
*
69615 TTTACATAAAATACTAATTTAATC-TTAAAG
1 TTTACATAAAATACTAATTT-ATCTTTAAAC
*
69645 TTTATATAAAATA
1 TTTACATAAAATA
69658 TCAATTTGAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 35 0.92
31 3 0.08
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (30 bp):
TTTACATAAAATACTAATTTATCTTTAAAC
Found at i:71872 original size:183 final size:184
Alignment explanation
Indices: 71669--72055 Score: 638
Period size: 183 Copynumber: 2.1 Consensus size: 184
71659 ATTAAATTTT
*
71669 AAATATTAAATATATTATATATAACATATGGGCTTAA-CCCAAATCATTTAAAACCAAATTAATA
1 AAATATTAAATATATTATATATAACATATGGGC-TAAGCCCAAACCATTTAAAACCAAATTAATA
* *
71733 ATTTAAGATTCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAA-ATTATATAAATTT
65 ATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAATATTATATAAAATT
* *
71797 TTTATTTTATAATTATATATTATTTAAATTATTTGTAAACTGTTTTTT-AATTAAA
130 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACT-TTTTTTGAATTAAA
*
71852 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCAAATTAATAA
* *
71917 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAATTTTATCTAAAATTT
66 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAATATTATATAAAATTT
71982 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
* *
72036 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
72056 AATTAGAAAA
Statistics
Matches: 191, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
182 3 0.02
183 122 0.64
184 66 0.35
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (184 bp):
AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCAAATTAATAA
TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAATATTATATAAAATTT
TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
Found at i:72261 original size:2 final size:2
Alignment explanation
Indices: 72254--72288 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
72244 TCGTCAAAAG
72254 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
72289 CATTTTGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:74693 original size:2 final size:2
Alignment explanation
Indices: 74688--74715 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
74678 AGAATAAATT
74688 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
74716 AACTTGCACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:80487 original size:23 final size:24
Alignment explanation
Indices: 80469--80517 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
80459 AGTGAACATG
*
80469 TTCGTGAAC-TTTAAATGAACACA
1 TTCGTGAACATATAAATGAACACA
80492 TTCGTGAACATATAAATGAACACA
1 TTCGTGAACATATAAATGAACACA
80516 TT
1 TT
80518 TGTTCGCGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (24 bp):
TTCGTGAACATATAAATGAACACA
Found at i:120283 original size:380 final size:374
Alignment explanation
Indices: 119118--120615 Score: 2848
Period size: 374 Copynumber: 4.0 Consensus size: 374
119108 TGTGAATATA
119118 AAATTATTTTTAACTTTCATGTTAG---CTCC-TC---TGGGCTAAAAGCCTAAACGAACTGTTT
1 AAATTATTTTTAACTTTCATGTTAGCTCCTCCGTCAAATGGGCTAAAAGCCTAAACGAACTGTTT
119176 ATTAGTCGTCACTCGGACCTGAATTAGAGGGCATATGAAGGAAGAAATTTAGGAGATAGAAAAAG
66 ATTAGTCGTCACTCGGACCTGAATTAGAGGGCATATGAAGGAAGAAATTTAGGAGATAGAAAAAG
119241 GGAGAAGCACAGAAGAAAAACAGAAAGAGAATGGCATGGATATGGCTGGAAGCAGCACTTCCCCT
131 GGAGAAGCACAGAAGAAAAACAGAAAGAGAATGGCATGGATATGGCTGGAAGCAGCACTTCCCCT
119306 GGGGATCATAGCTGGAATGCTCTGTGTAATGGGCAATGCTCAGTATTTCATCCATAAAGCTTATC
196 GGGGATCATAGCTGGAATGCTCTGTGTAATGGGCAATGCTCAGTATTTCATCCATAAAGCTTATC
119371 ACGGCCGGGTTTGTTTCCCTTTTCCTTTTTCTAATTTAAAATATGAAATCTTTGATCCAATCCTT
261 ACGGCCGGGTTTGTTTCCCTTTTCCTTTTTCTAATTTAAAATATGAAATCTTTGATCCAATCCTT
119436 CATTGGGTTTTCAGTTTTGATTGAAATCGTTCGATAAAAATGAAATTCC
326 CATTGGGTTTTCAGTTTTGATTGAAATCGTTCGATAAAAATGAAATTCC
119485 AAATTATTTTTAACTTTCATGTTAGCTCCTCCGTCAAATGGGCTAAAAGCCTAAACGAACTGTTT
1 AAATTATTTTTAACTTTCATGTTAGCTCCTCCGTCAAATGGGCTAAAAGCCTAAACGAACTGTTT
119550 ATTAGTCGTCACTCGGACCTGAATTAGAGGGCATATGAAGGAAGAAATTTAGGAGATAGAAAAAG
66 ATTAGTCGTCACTCGGACCTGAATTAGAGGGCATATGAAGGAAGAAATTTAGGAGATAGAAAAAG
*
119615 GGAGAAGCACAGAAGAAAAACAGAAAGAGAATGGCATGGATATGGCTGGAATCAGCACTTCCCCT
131 GGAGAAGCACAGAAGAAAAACAGAAAGAGAATGGCATGGATATGGCTGGAAGCAGCACTTCCCCT
119680 GGGGATCATAGCTGGAATGCTCTGTGTAATGGGCAATGCTCAGTATTTCATCCATAAAGCTTATC
196 GGGGATCATAGCTGGAATGCTCTGTGTAATGGGCAATGCTCAGTATTTCATCCATAAAGCTTATC
119745 ACGGCCGGGTTTGTTTCCCTTTTCCTTTTTCTAATTTAAAATATGAAATCTTTGATCCAATCCTT
261 ACGGCCGGGTTTGTTTCCCTTTTCCTTTTTCTAATTTAAAATATGAAATCTTTGATCCAATCCTT
119810 CATTGGGTTTTCAGTTTTGATTGAAATCGTTCGATAAAAATGAAATTCC
326 CATTGGGTTTTCAGTTTTGATTGAAATCGTTCGATAAAAATGAAATTCC
* *
119859 AAATTATTTTTAACTTTCATGTTAGCTCCTCCGTCAAATGGGCTAAAAGCCGAAACGAGCTGTTT
1 AAATTATTTTTAACTTTCATGTTAGCTCCTCCGTCAAATGGGCTAAAAGCCTAAACGAACTGTTT
*
119924 ATTAGTCATCACTCGGACCTGAATTAGAGGGCATATGAAGGAAGAAATTTAGGAGATAGAAAAAG
66 ATTAGTCGTCACTCGGACCTGAATTAGAGGGCATATGAAGGAAGAAATTTAGGAGATAGAAAAAG
119989 GGAGAAGCACAGAAGAAAAACAGAAAGAGAATGGCAAGGATATGGATATGGCTGGAAGCAGCACT
131 GGAGAAGCACAGAAGAAAAACAGAAAGAGAATGGC------ATGGATATGGCTGGAAGCAGCACT
120054 TCCCCTGGGGATCATAGCTGGAATGCTCTGTGTAATGGGCAATGCTCAGTATTTCATCCATAAAG
190 TCCCCTGGGGATCATAGCTGGAATGCTCTGTGTAATGGGCAATGCTCAGTATTTCATCCATAAAG
120119 CTTATCACGGCCGGGTTTGTTTCCCTTTTCCTTTTTCTAATTTAAAATATGAAATCTTTGATCCA
255 CTTATCACGGCCGGGTTTGTTTCCCTTTTCCTTTTTCTAATTTAAAATATGAAATCTTTGATCCA
120184 ATCCTTCATTGGGTTTTCAGTTTTGATTGAAATCGTTCGATAAAAATGAAATTCC
320 ATCCTTCATTGGGTTTTCAGTTTTGATTGAAATCGTTCGATAAAAATGAAATTCC
120239 AAATTATTTTTAACTTTCATGTTAGCTCCTCCGTCAAATGGGCTAAAAGCCTAAACGAACTGTTT
1 AAATTATTTTTAACTTTCATGTTAGCTCCTCCGTCAAATGGGCTAAAAGCCTAAACGAACTGTTT
120304 ATTAGTCGTCACTCGGACCTGAATTAGAGGGCATATGAAGGAAGAAATTTAGGAGATAGAAAAAG
66 ATTAGTCGTCACTCGGACCTGAATTAGAGGGCATATGAAGGAAGAAATTTAGGAGATAGAAAAAG
120369 GGAGAAGCACAGAAGAAAAACAGAAAGAGAATGGCATGGATATGGCTGGAAGCAGCACTTCCCCT
131 GGAGAAGCACAGAAGAAAAACAGAAAGAGAATGGCATGGATATGGCTGGAAGCAGCACTTCCCCT
120434 GGGGATCATAGCTGGAATGCTCTGTGTAATGGGCAATGCTCAGTATTTCATCCATAAAGCTTATC
196 GGGGATCATAGCTGGAATGCTCTGTGTAATGGGCAATGCTCAGTATTTCATCCATAAAGCTTATC
120499 ACGGCCGGGTTTGTTTCCCTTTTCCTTTTTCTAATTTAAAATATGAAATCTTTGATCCAATCCTT
261 ACGGCCGGGTTTGTTTCCCTTTTCCTTTTTCTAATTTAAAATATGAAATCTTTGATCCAATCCTT
*
120564 CATTGGGTTTTCAATTTTGATTGAAATCGTTCGATAAAAATGAAATTCC
326 CATTGGGTTTTCAGTTTTGATTGAAATCGTTCGATAAAAATGAAATTCC
120613 AAA
1 AAA
120616 CAGCCGAAGC
Statistics
Matches: 1109, Mismatches: 9, Indels: 19
0.98 0.01 0.02
Matches are distributed among these distances:
367 25 0.02
370 4 0.00
371 2 0.00
374 708 0.64
380 370 0.33
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (374 bp):
AAATTATTTTTAACTTTCATGTTAGCTCCTCCGTCAAATGGGCTAAAAGCCTAAACGAACTGTTT
ATTAGTCGTCACTCGGACCTGAATTAGAGGGCATATGAAGGAAGAAATTTAGGAGATAGAAAAAG
GGAGAAGCACAGAAGAAAAACAGAAAGAGAATGGCATGGATATGGCTGGAAGCAGCACTTCCCCT
GGGGATCATAGCTGGAATGCTCTGTGTAATGGGCAATGCTCAGTATTTCATCCATAAAGCTTATC
ACGGCCGGGTTTGTTTCCCTTTTCCTTTTTCTAATTTAAAATATGAAATCTTTGATCCAATCCTT
CATTGGGTTTTCAGTTTTGATTGAAATCGTTCGATAAAAATGAAATTCC
Found at i:120590 original size:754 final size:741
Alignment explanation
Indices: 119118--120615 Score: 2834
Period size: 754 Copynumber: 2.0 Consensus size: 741
119108 TGTGAATATA
*
119118 AAATTATTTTTAACTTTCATGTTAGCTCCTCTGGGCTAAAAGCCTAAACGAACTGTTTATTAGTC
1 AAATTATTTTTAACTTTCATGTTAGCTCCTCTGGGCTAAAAGCCGAAACGAACTGTTTATTAGTC
*
119183 GTCACTCGGACCTGAATTAGAGGGCATATGAAGGAAGAAATTTAGGAGATAGAAAAAGGGAGAAG
66 ATCACTCGGACCTGAATTAGAGGGCATATGAAGGAAGAAATTTAGGAGATAGAAAAAGGGAGAAG
119248 CACAGAAGAAAAACAGAAAGAGAATGGCATGGATATGGCTGGAAGCAGCACTTCCCCTGGGGATC
131 CACAGAAGAAAAACAGAAAGAGAATGGCATGGATATGGCTGGAAGCAGCACTTCCCCTGGGGATC
119313 ATAGCTGGAATGCTCTGTGTAATGGGCAATGCTCAGTATTTCATCCATAAAGCTTATCACGGCCG
196 ATAGCTGGAATGCTCTGTGTAATGGGCAATGCTCAGTATTTCATCCATAAAGCTTATCACGGCCG
119378 GGTTTGTTTCCCTTTTCCTTTTTCTAATTTAAAATATGAAATCTTTGATCCAATCCTTCATTGGG
261 GGTTTGTTTCCCTTTTCCTTTTTCTAATTTAAAATATGAAATCTTTGATCCAATCCTTCATTGGG
119443 TTTTCAGTTTTGATTGAAATCGTTCGATAAAAATGAAATTCCAAATTATTTTTAACTTTCATGTT
326 TTTTCAGTTTTGATTGAAATCGTTCGATAAAAATGAAATTCCAAATTATTTTTAACTTTCATGTT
119508 AGCTCCTCCGTCAAATGGGCTAAAAGCCTAAACGAACTGTTTATTAGTCGTCACTCGGACCTGAA
391 AGCTCCTCCGTCAAATGGGCTAAAAGCCTAAACGAACTGTTTATTAGTCGTCACTCGGACCTGAA
119573 TTAGAGGGCATATGAAGGAAGAAATTTAGGAGATAGAAAAAGGGAGAAGCACAGAAGAAAAACAG
456 TTAGAGGGCATATGAAGGAAGAAATTTAGGAGATAGAAAAAGGGAGAAGCACAGAAGAAAAACAG
*
119638 AAAGAGAATGGCATGGATATGGCTGGAATCAGCACTTCCCCTGGGGATCATAGCTGGAATGCTCT
521 AAAGAGAATGGCATGGATATGGCTGGAAGCAGCACTTCCCCTGGGGATCATAGCTGGAATGCTCT
119703 GTGTAATGGGCAATGCTCAGTATTTCATCCATAAAGCTTATCACGGCCGGGTTTGTTTCCCTTTT
586 GTGTAATGGGCAATGCTCAGTATTTCATCCATAAAGCTTATCACGGCCGGGTTTGTTTCCCTTTT
*
119768 CCTTTTTCTAATTTAAAATATGAAATCTTTGATCCAATCCTTCATTGGGTTTTCAGTTTTGATTG
651 CCTTTTTCTAATTTAAAATATGAAATCTTTGATCCAATCCTTCATTGGGTTTTCAATTTTGATTG
119833 AAATCGTTCGATAAAAATGAAATTCC
716 AAATCGTTCGATAAAAATGAAATTCC
*
119859 AAATTATTTTTAACTTTCATGTTAGCTCCTCCGTCAAATGGGCTAAAAGCCGAAACGAGCTGTTT
1 AAATTATTTTTAACTTTCATGTTAG---CTCC-TC---TGGGCTAAAAGCCGAAACGAACTGTTT
119924 ATTAGTCATCACTCGGACCTGAATTAGAGGGCATATGAAGGAAGAAATTTAGGAGATAGAAAAAG
59 ATTAGTCATCACTCGGACCTGAATTAGAGGGCATATGAAGGAAGAAATTTAGGAGATAGAAAAAG
119989 GGAGAAGCACAGAAGAAAAACAGAAAGAGAATGGCAAGGATATGGATATGGCTGGAAGCAGCACT
124 GGAGAAGCACAGAAGAAAAACAGAAAGAGAATGGC------ATGGATATGGCTGGAAGCAGCACT
120054 TCCCCTGGGGATCATAGCTGGAATGCTCTGTGTAATGGGCAATGCTCAGTATTTCATCCATAAAG
183 TCCCCTGGGGATCATAGCTGGAATGCTCTGTGTAATGGGCAATGCTCAGTATTTCATCCATAAAG
120119 CTTATCACGGCCGGGTTTGTTTCCCTTTTCCTTTTTCTAATTTAAAATATGAAATCTTTGATCCA
248 CTTATCACGGCCGGGTTTGTTTCCCTTTTCCTTTTTCTAATTTAAAATATGAAATCTTTGATCCA
120184 ATCCTTCATTGGGTTTTCAGTTTTGATTGAAATCGTTCGATAAAAATGAAATTCCAAATTATTTT
313 ATCCTTCATTGGGTTTTCAGTTTTGATTGAAATCGTTCGATAAAAATGAAATTCCAAATTATTTT
120249 TAACTTTCATGTTAGCTCCTCCGTCAAATGGGCTAAAAGCCTAAACGAACTGTTTATTAGTCGTC
378 TAACTTTCATGTTAGCTCCTCCGTCAAATGGGCTAAAAGCCTAAACGAACTGTTTATTAGTCGTC
120314 ACTCGGACCTGAATTAGAGGGCATATGAAGGAAGAAATTTAGGAGATAGAAAAAGGGAGAAGCAC
443 ACTCGGACCTGAATTAGAGGGCATATGAAGGAAGAAATTTAGGAGATAGAAAAAGGGAGAAGCAC
120379 AGAAGAAAAACAGAAAGAGAATGGCATGGATATGGCTGGAAGCAGCACTTCCCCTGGGGATCATA
508 AGAAGAAAAACAGAAAGAGAATGGCATGGATATGGCTGGAAGCAGCACTTCCCCTGGGGATCATA
120444 GCTGGAATGCTCTGTGTAATGGGCAATGCTCAGTATTTCATCCATAAAGCTTATCACGGCCGGGT
573 GCTGGAATGCTCTGTGTAATGGGCAATGCTCAGTATTTCATCCATAAAGCTTATCACGGCCGGGT
120509 TTGTTTCCCTTTTCCTTTTTCTAATTTAAAATATGAAATCTTTGATCCAATCCTTCATTGGGTTT
638 TTGTTTCCCTTTTCCTTTTTCTAATTTAAAATATGAAATCTTTGATCCAATCCTTCATTGGGTTT
120574 TCAATTTTGATTGAAATCGTTCGATAAAAATGAAATTCC
703 TCAATTTTGATTGAAATCGTTCGATAAAAATGAAATTCC
120613 AAA
1 AAA
120616 CAGCCGAAGC
Statistics
Matches: 739, Mismatches: 5, Indels: 13
0.98 0.01 0.02
Matches are distributed among these distances:
741 25 0.03
744 4 0.01
745 2 0.00
748 124 0.17
754 584 0.79
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (741 bp):
AAATTATTTTTAACTTTCATGTTAGCTCCTCTGGGCTAAAAGCCGAAACGAACTGTTTATTAGTC
ATCACTCGGACCTGAATTAGAGGGCATATGAAGGAAGAAATTTAGGAGATAGAAAAAGGGAGAAG
CACAGAAGAAAAACAGAAAGAGAATGGCATGGATATGGCTGGAAGCAGCACTTCCCCTGGGGATC
ATAGCTGGAATGCTCTGTGTAATGGGCAATGCTCAGTATTTCATCCATAAAGCTTATCACGGCCG
GGTTTGTTTCCCTTTTCCTTTTTCTAATTTAAAATATGAAATCTTTGATCCAATCCTTCATTGGG
TTTTCAGTTTTGATTGAAATCGTTCGATAAAAATGAAATTCCAAATTATTTTTAACTTTCATGTT
AGCTCCTCCGTCAAATGGGCTAAAAGCCTAAACGAACTGTTTATTAGTCGTCACTCGGACCTGAA
TTAGAGGGCATATGAAGGAAGAAATTTAGGAGATAGAAAAAGGGAGAAGCACAGAAGAAAAACAG
AAAGAGAATGGCATGGATATGGCTGGAAGCAGCACTTCCCCTGGGGATCATAGCTGGAATGCTCT
GTGTAATGGGCAATGCTCAGTATTTCATCCATAAAGCTTATCACGGCCGGGTTTGTTTCCCTTTT
CCTTTTTCTAATTTAAAATATGAAATCTTTGATCCAATCCTTCATTGGGTTTTCAATTTTGATTG
AAATCGTTCGATAAAAATGAAATTCC
Found at i:127255 original size:21 final size:21
Alignment explanation
Indices: 127231--127281 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
127221 ATTAAACTAC
127231 TTTTGATATTAATTGAAATTT
1 TTTTGATATTAATTGAAATTT
* **
127252 TTTTGGTATTAATTGATTTTT
1 TTTTGATATTAATTGAAATTT
*
127273 TTTTTATAT
1 TTTTGATAT
127282 ATAAGTATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (21 bp):
TTTTGATATTAATTGAAATTT
Found at i:137352 original size:19 final size:19
Alignment explanation
Indices: 137325--137372 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
137315 ACACTGGTAA
*
137325 AACATTAAACAATTTTATT
1 AACAGTAAACAATTTTATT
137344 AACAGTAAACAATTTTATT
1 AACAGTAAACAATTTTATT
137363 AACAGTAAAC
1 AACAGTAAAC
137373 TTACAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.33
Consensus pattern (19 bp):
AACAGTAAACAATTTTATT
Found at i:139844 original size:14 final size:13
Alignment explanation
Indices: 139815--139852 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
139805 TGAGGGTTTA
139815 ATATTAATTT-TT
1 ATATTAATTTATT
139827 ATATTAATTTACTT
1 ATATTAATTTA-TT
139841 ATATTAAGTTTA
1 ATATTAA-TTTA
139853 AATTATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.43
14 9 0.39
15 4 0.17
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (13 bp):
ATATTAATTTATT
Found at i:145184 original size:21 final size:21
Alignment explanation
Indices: 145158--145197 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
145148 CAGAACCCCA
*
145158 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
145179 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
145198 TCAAAGGGGG
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:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:149294 original size:20 final size:20
Alignment explanation
Indices: 149271--149322 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
149261 AACGCGATCC
149271 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
149291 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
149311 CCAAAATCGCAA
1 CCAGAATCGCAA
149323 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:149403 original size:20 final size:20
Alignment explanation
Indices: 149378--149571 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
149368 GATTTTCCAT
* *
149378 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
149398 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
149418 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
149438 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
149458 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
149478 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
149498 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
149518 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
149539 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
149559 AATCGCAACGCGA
1 AATCGCAACGCGA
149572 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:149423 original size:40 final size:39
Alignment explanation
Indices: 149374--149571 Score: 200
Period size: 40 Copynumber: 5.0 Consensus size: 39
149364 TTGCGATTTT
* ** *
149374 CCAT-AATCGCAACGCGAATATGAAAATCGCAACGCGAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
* *
149412 CACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTAT
1 C-CATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* ** * *
149453 CCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTAT
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* * **
149493 CCGTATATCGCAACGCGTATCCGTAAATCGCAACGATAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
*
149532 TACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -CCAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
149572 TATTTAAAGC
Statistics
Matches: 132, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 4 0.03
40 94 0.71
41 33 0.25
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
Found at i:149461 original size:60 final size:60
Alignment explanation
Indices: 149378--149570 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
149368 GATTTTCCAT
* ** * *
149378 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
149438 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
149498 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
149559 AATCGCAACGCG
1 AATCGCAACGCG
149571 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:149969 original size:33 final size:33
Alignment explanation
Indices: 149930--150000 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
149920 TTCACTTAGA
*
149930 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
149963 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
149996 TTTCA
1 TTTCA
150001 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:150139 original size:14 final size:14
Alignment explanation
Indices: 150120--150174 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
150110 AGAATGACTG
150120 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
150134 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
150153 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
150167 TCGCAACG
1 TCGCAACG
150175 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:150157 original size:33 final size:33
Alignment explanation
Indices: 150120--150190 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
150110 AGAATGACTG
**
150120 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
150153 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
150186 TCGCA
1 TCGCA
150191 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:150227 original size:14 final size:14
Alignment explanation
Indices: 150208--150264 Score: 69
Period size: 14 Copynumber: 3.7 Consensus size: 14
150198 TTTCATTTCG
150208 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
150222 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
150239 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
150255 CGTTGCGATT
1 CGTTGCGATT
150265 TCATTTCAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 18 0.47
15 1 0.03
16 5 0.13
17 5 0.13
18 1 0.03
19 8 0.21
ACGTcount: A:0.09, C:0.26, G:0.25, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:150242 original size:33 final size:32
Alignment explanation
Indices: 150191--150268 Score: 129
Period size: 33 Copynumber: 2.4 Consensus size: 32
150181 CAAAATCGCA
*
150191 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGA-TTTCATCTCGCGTTGCGATTCTCTCG
150224 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATT-TCATCTCGCGTTGCGATTCTCTCG
150257 TTGCGATTTCAT
1 TTGCGATTTCAT
150269 TTCAACCAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
32 6 0.14
33 37 0.86
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.44
Consensus pattern (32 bp):
TTGCGATTTCATCTCGCGTTGCGATTCTCTCG
Found at i:150244 original size:19 final size:18
Alignment explanation
Indices: 150186--150268 Score: 74
Period size: 19 Copynumber: 4.9 Consensus size: 18
150176 GAAACCAAAA
* *
150186 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATC
150205 TCGCGTTGCGA-TTC-TC
1 TCGCGTTGCGATTTCATC
150221 T--CGTTGCGATTGTCATC
1 TCGCGTTGCGATT-TCATC
150238 TCGCGTTGCGA-TTC-TC
1 TCGCGTTGCGATTTCATC
150254 T--CGTTGCGATTTCAT
1 TCGCGTTGCGATTTCAT
150269 TTCAACCAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
14 16 0.29
15 4 0.07
16 8 0.15
17 8 0.15
18 1 0.02
19 18 0.33
ACGTcount: A:0.11, C:0.25, G:0.22, T:0.42
Consensus pattern (18 bp):
TCGCGTTGCGATTTCATC
Found at i:152156 original size:91 final size:93
Alignment explanation
Indices: 151964--152429 Score: 858
Period size: 91 Copynumber: 5.1 Consensus size: 93
151954 TAGATTGCTT
*
151964 AGTAAATTT-ATCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
152028 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
152056 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTATATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
152120 -TTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
152147 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
152212 TTTG-CTTTG-TTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
152238 AGTAAATTTGTTC-GTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
152301 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
152329 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGT-TTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
152393 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
152421 AGTAAATTT
1 AGTAAATTT
152430 ATCCATTCAA
Statistics
Matches: 364, Mismatches: 3, Indels: 14
0.96 0.01 0.04
Matches are distributed among these distances:
89 6 0.02
90 53 0.15
91 168 0.46
92 84 0.23
93 53 0.15
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:152513 original size:19 final size:19
Alignment explanation
Indices: 152473--152601 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
152463 TAGTTTACTT
* *
152473 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
152493 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
152512 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
152531 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
152545 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
152564 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
152578 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
152597 TCGCA
1 TCGCA
152602 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:152552 original size:33 final size:32
Alignment explanation
Indices: 152509--152601 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
152499 CGCGAAACCA
**
152509 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
152541 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
152574 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
152602 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:152599 original size:52 final size:52
Alignment explanation
Indices: 152473--152601 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
152463 TAGTTTACTT
**
152473 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
152525 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
152578 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
152602 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:152619 original size:19 final size:19
Alignment explanation
Indices: 152597--152731 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
152587 GAAACCAAAA
*
152597 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
152616 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
152632 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
152649 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
152665 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
152682 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
152701 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
152721 TCGTGTTGCGA
1 TCGCGTTGCGA
152732 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:152638 original size:14 final size:14
Alignment explanation
Indices: 152619--152675 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
152609 TTTCATTTCG
152619 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
152633 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
152650 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
152666 CGTTGCGATT
1 CGTTGCGATT
152676 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:152644 original size:33 final size:33
Alignment explanation
Indices: 152602--152694 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
152592 CAAAATCGCA
*
152602 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
152635 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
152668 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
152695 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:154650 original size:14 final size:14
Alignment explanation
Indices: 154631--154666 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
154621 ATTGTTTAAT
154631 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
154645 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
154659 TGATTTGT
1 TGATTTGT
154667 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:154789 original size:19 final size:19
Alignment explanation
Indices: 154773--154873 Score: 133
Period size: 19 Copynumber: 5.6 Consensus size: 19
154763 AAAAATGACT
154773 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
154792 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
*
154810 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
154824 ATCACAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
154843 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
154863 ATCGCAATGCG
1 ATCGCAATGCG
154874 TTTATAATTT
Statistics
Matches: 71, Mismatches: 4, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
13 1 0.01
14 8 0.11
16 4 0.06
18 10 0.14
19 29 0.41
20 19 0.27
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:154922 original size:33 final size:35
Alignment explanation
Indices: 154880--155174 Score: 237
Period size: 33 Copynumber: 8.5 Consensus size: 35
154870 TGCGTTTATA
154880 ATTTCGCATTGCGATT-ATCTCG-TTGCGATTTTC
1 ATTTCGCATTGCGATTCATCTCGATTGCGATTTTC
*
154913 ATTTCGCATTGCGATTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA-TTCATCTCG-ATTGCGATTTTC
*
154948 -TTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTCATCTCG-ATTGCGATTTTC
*
154983 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTCATCTCG-ATTGCGATTTTC
* *
155021 ATTTCGCATTGCGATTTTAATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA--TTCATCTCG-ATTGCGATTTTC
* *
155057 -TGTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTCATCTCG-ATTGCGATTTTC
155092 ATTTCGCATTGCGATTC-TCTCG-TTGCGATTTTC
1 ATTTCGCATTGCGATTCATCTCGATTGCGATTTTC
* *
155125 ATTTCCGCATTGCGATT-TTCAT-G-TTGGGATTTTC
1 ATTT-CGCATTGCGATTCATC-TCGATTGCGATTTTC
*
155159 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
155175 GTATTTTCCG
Statistics
Matches: 236, Mismatches: 8, Indels: 36
0.84 0.03 0.13
Matches are distributed among these distances:
32 6 0.03
33 82 0.35
34 36 0.15
35 23 0.10
36 15 0.06
37 6 0.03
38 68 0.29
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (35 bp):
ATTTCGCATTGCGATTCATCTCGATTGCGATTTTC
Found at i:154926 original size:19 final size:19
Alignment explanation
Indices: 154902--155174 Score: 345
Period size: 19 Copynumber: 15.4 Consensus size: 19
154892 GATTATCTCG
154902 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
154921 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
154939 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
154953 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
154972 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
154991 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
155010 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
155029 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
155048 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
155062 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
155081 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
155100 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
155114 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
155134 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
155148 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
155167 TTGCGATT
1 TTGCGATT
155175 GTATTTTCCG
Statistics
Matches: 225, Mismatches: 8, Indels: 42
0.82 0.03 0.15
Matches are distributed among these distances:
14 29 0.13
16 24 0.11
17 20 0.09
18 21 0.09
19 119 0.53
20 12 0.05
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:155088 original size:52 final size:52
Alignment explanation
Indices: 154880--155146 Score: 428
Period size: 52 Copynumber: 5.0 Consensus size: 52
154870 TGCGTTTATA
*
154880 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGA-TTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
154931 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* *
154983 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTA
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
*
155040 ATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
155092 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
155145 AT
1 AT
155147 GTTGGGATTT
Statistics
Matches: 203, Mismatches: 6, Indels: 12
0.92 0.03 0.05
Matches are distributed among these distances:
51 45 0.22
52 83 0.41
53 17 0.08
54 7 0.03
55 8 0.04
57 43 0.21
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:157679 original size:24 final size:24
Alignment explanation
Indices: 157645--157691 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
157635 CTGAAACATC
157645 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
157669 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
157692 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:158402 original size:20 final size:20
Alignment explanation
Indices: 158374--158742 Score: 442
Period size: 20 Copynumber: 18.4 Consensus size: 20
158364 AAATTTAAGT
* * * *
158374 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
158394 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
158414 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
158434 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
158454 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
158474 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
158494 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
158514 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
158534 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
158554 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
158574 GTTAC-AGTTTACGGATACGC
1 GTTGCGA-TTTACGGATACGC
158594 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
158614 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
158634 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
158654 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
158674 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
158694 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
158714 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
158734 GTTGCGATT
1 GTTGCGATT
158743 ATGGAAAATC
Statistics
Matches: 307, Mismatches: 32, Indels: 20
0.86 0.09 0.06
Matches are distributed among these distances:
19 6 0.02
20 295 0.96
21 6 0.02
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:165435 original size:51 final size:51
Alignment explanation
Indices: 165359--165465 Score: 196
Period size: 51 Copynumber: 2.1 Consensus size: 51
165349 AAAAATACTG
165359 GGAATGGAAGGGATAGTAGCAGTATCAGTATTAGTACCAGCAAGAATCCTA
1 GGAATGGAAGGGATAGTAGCAGTATCAGTATTAGTACCAGCAAGAATCCTA
* *
165410 GGAATGGAAGGGATAGTAGCAGTATCAGTATTGGTACCAGCAAGAATCCTT
1 GGAATGGAAGGGATAGTAGCAGTATCAGTATTAGTACCAGCAAGAATCCTA
165461 GGAAT
1 GGAAT
165466 TGATTGAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.22
Consensus pattern (51 bp):
GGAATGGAAGGGATAGTAGCAGTATCAGTATTAGTACCAGCAAGAATCCTA
Found at i:172587 original size:51 final size:51
Alignment explanation
Indices: 172511--172617 Score: 196
Period size: 51 Copynumber: 2.1 Consensus size: 51
172501 AAAAATACTG
172511 GGAATGGAAGGGATAGTAGCAGTATCAGTATTAGTACCAGCAAGAATCCTA
1 GGAATGGAAGGGATAGTAGCAGTATCAGTATTAGTACCAGCAAGAATCCTA
* *
172562 GGAATGGAAGGGATAGTAGCAGTATCAGTATTGGTACCAGCAAGAATCCTT
1 GGAATGGAAGGGATAGTAGCAGTATCAGTATTAGTACCAGCAAGAATCCTA
172613 GGAAT
1 GGAAT
172618 TGATTGAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.22
Consensus pattern (51 bp):
GGAATGGAAGGGATAGTAGCAGTATCAGTATTAGTACCAGCAAGAATCCTA
Found at i:173952 original size:19 final size:19
Alignment explanation
Indices: 173928--173964 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
173918 CGGACCGGTT
173928 GAAAACCGGAAAAAACCGG
1 GAAAACCGGAAAAAACCGG
* *
173947 GAAAACTGGGAAAAACCG
1 GAAAACCGGAAAAAACCG
173965 CGATTTTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.19, G:0.27, T:0.03
Consensus pattern (19 bp):
GAAAACCGGAAAAAACCGG
Found at i:175411 original size:33 final size:34
Alignment explanation
Indices: 175331--175426 Score: 122
Period size: 34 Copynumber: 2.9 Consensus size: 34
175321 AAAAAGACTA
* * * * *
175331 ATTATATTGTACATATGCTTAAGAATTTACAAAG
1 ATTATATTATACATATACATAAGAAATTACAAAC
* *
175365 ATTATATTCTACATATACGTAAGAAATTACAAAC
1 ATTATATTATACATATACATAAGAAATTACAAAC
175399 A-TATATTATACATATACATAAGAAATTA
1 ATTATATTATACATATACATAAGAAATTA
175427 TAAGTCATTA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 25 0.45
34 30 0.55
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (34 bp):
ATTATATTATACATATACATAAGAAATTACAAAC
Found at i:180562 original size:14 final size:14
Alignment explanation
Indices: 180543--180572 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
180533 GTAAGGTTTT
180543 ACCGGAAATTTTAA
1 ACCGGAAATTTTAA
180557 ACCGGAAATTTTAA
1 ACCGGAAATTTTAA
180571 AC
1 AC
180573 ATTTTAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (14 bp):
ACCGGAAATTTTAA
Found at i:180618 original size:21 final size:21
Alignment explanation
Indices: 180589--180628 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
180579 GATAGCGTCT
* *
180589 AAAATTAATATTTTCGGTATA
1 AAAAATAATATTTTAGGTATA
*
180610 AAAAATAATGTTTTAGGTA
1 AAAAATAATATTTTAGGTA
180629 GCGCTTTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.40
Consensus pattern (21 bp):
AAAAATAATATTTTAGGTATA
Found at i:181093 original size:24 final size:24
Alignment explanation
Indices: 181049--181094 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
181039 TTTTAATAGC
*
181049 TCTGTCTTTATGACATGTTTTTTT
1 TCTGTCTTTATGACATATTTTTTT
* *
181073 TCTGTCTTTGTGGCATATTTTT
1 TCTGTCTTTATGACATATTTTT
181095 CCTAACCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.13, G:0.15, T:0.61
Consensus pattern (24 bp):
TCTGTCTTTATGACATATTTTTTT
Found at i:182458 original size:16 final size:16
Alignment explanation
Indices: 182433--182485 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
182423 TTATTAATCA
*
182433 TTTAATTTTTATATTT
1 TTTAACTTTTATATTT
* *
182449 TTTAAGTTTTATAATT
1 TTTAACTTTTATATTT
*
182465 TTAAACTTTTAATATTAT
1 TTTAACTTTT-ATATT-T
182483 TTT
1 TTT
182486 TAAAATTTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
16 22 0.76
17 4 0.14
18 3 0.10
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (16 bp):
TTTAACTTTTATATTT
Found at i:183717 original size:2 final size:2
Alignment explanation
Indices: 183710--183748 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
183700 AGGAAACCTA
183710 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
183749 TTTAGATTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:188950 original size:60 final size:59
Alignment explanation
Indices: 188873--188987 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 59
188863 TAACATATGA
* *
188873 ATAGTCGAGTGACCATTTTATAACTT-TTAATAGCTGGGGGACTCAACAAAGCAATGTCCT
1 ATAGTCAAGTGACCATTTTATAA-TTATTAATAG-TGGGAGACTCAACAAAGCAATGTCCT
* * *
188933 ATAGTCAAGTGATCATTTTATAATTATTAATAGTTGGAGACTCAACAAAGGAATG
1 ATAGTCAAGTGACCATTTTATAATTATTAATAGTGGGAGACTCAACAAAGCAATG
188988 CCCTGTAACC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 21 0.43
60 28 0.57
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (59 bp):
ATAGTCAAGTGACCATTTTATAATTATTAATAGTGGGAGACTCAACAAAGCAATGTCCT
Found at i:189490 original size:27 final size:27
Alignment explanation
Indices: 189392--189493 Score: 163
Period size: 27 Copynumber: 3.8 Consensus size: 27
189382 TCAAGGAATC
189392 ATTTCTAATTAGAATT--ATTATTTCCG
1 ATTTCTAATTAGAATTAAATT-TTTCCG
*
189418 ATTTCTAATTAGAATTAATTTTTTCCG
1 ATTTCTAATTAGAATTAAATTTTTCCG
189445 ATTTCTAATTAGAATTAAATTTTTCCG
1 ATTTCTAATTAGAATTAAATTTTTCCG
*
189472 ATTTCTAATTATAATTAAATTT
1 ATTTCTAATTAGAATTAAATTT
189494 AACAACAACG
Statistics
Matches: 71, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
26 16 0.23
27 53 0.75
28 2 0.03
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.51
Consensus pattern (27 bp):
ATTTCTAATTAGAATTAAATTTTTCCG
Found at i:189881 original size:20 final size:20
Alignment explanation
Indices: 189834--189986 Score: 150
Period size: 20 Copynumber: 7.6 Consensus size: 20
189824 AAATGACCAA
*
189834 CAAATTCGCAACACGA-ACT
1 CAAATTCGCAACACGATAGT
* * *
189853 CCAATTTCGCAACACAAAAGT
1 -CAAATTCGCAACACGATAGT
*
189874 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACACGATAGT
* *
189894 CAAATCCGCAACGCGATAGT
1 CAAATTCGCAACACGATAGT
* *
189914 CAAATCCGCAACGCGATAGT
1 CAAATTCGCAACACGATAGT
*
189934 CAAATTCACAA-AGCGATAGT
1 CAAATTCGCAACA-CGATAGT
*
189954 CAAATTCGCAACACTGA-ATTT
1 CAAATTCGCAACAC-GATA-GT
189975 CAAATTCGCAAC
1 CAAATTCGCAAC
189987 GCGAAACACA
Statistics
Matches: 115, Mismatches: 13, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
20 97 0.84
21 18 0.16
ACGTcount: A:0.39, C:0.27, G:0.14, T:0.19
Consensus pattern (20 bp):
CAAATTCGCAACACGATAGT
Found at i:190129 original size:20 final size:22
Alignment explanation
Indices: 190079--190129 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
190069 TCCATCTCTC
190079 ACTC-TCTCCGGCGAAATCCGT
1 ACTCATCTCCGGCGAAATCCGT
190100 ACTCATCTCCGGCGAAATCCGT
1 ACTCATCTCCGGCGAAATCCGT
190122 -CT-ATCTCC
1 ACTCATCTCC
190130 ATCTCTCAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 6 0.21
21 6 0.21
22 17 0.59
ACGTcount: A:0.20, C:0.39, G:0.16, T:0.25
Consensus pattern (22 bp):
ACTCATCTCCGGCGAAATCCGT
Found at i:191601 original size:20 final size:19
Alignment explanation
Indices: 191576--191667 Score: 121
Period size: 19 Copynumber: 4.7 Consensus size: 19
191566 TTAAATTCGT
* *
191576 GTTGCGAATTCGAAAATCTA
1 GTTGCGAATTTGAAATTC-A
191596 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
*
191615 GTTGTGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
*
191634 GTTGCGAATTTGAAATTCCGC
1 GTTGCGAATTTGAAATT-C-A
191655 GTTGCGAATTTGA
1 GTTGCGAATTTGA
191668 CTTTTGTGTT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
19 35 0.54
20 17 0.26
21 13 0.20
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.36
Consensus pattern (19 bp):
GTTGCGAATTTGAAATTCA
Found at i:191617 original size:19 final size:20
Alignment explanation
Indices: 191568--191707 Score: 133
Period size: 20 Copynumber: 7.0 Consensus size: 20
191558 TTGTGAAATT
* *
191568 AAATTCGTGTTGCGAATTCG
1 AAATTCGAGTTGCGAATTTG
* *
191588 AAAATCTAGTTGCGAATTTG
1 AAATTCGAGTTGCGAATTTG
*
191608 AAATTC-AGTTGTGAATTTG
1 AAATTCGAGTTGCGAATTTG
191627 AAATTC-AGTTGCGAATTTG
1 AAATTCGAGTTGCGAATTTG
*
191646 AAATTCCGCGTTGCGAATTTG
1 AAATT-CGAGTTGCGAATTTG
** * *
191667 ACTTTTGTGTTGCGAATTTG
1 AAATTCGAGTTGCGAATTTG
* *
191687 -ACTATCGCGTTGCGAATTTG
1 AAAT-TCGAGTTGCGAATTTG
191707 A
1 A
191708 CTTCTGTGTT
Statistics
Matches: 100, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
19 36 0.36
20 49 0.49
21 15 0.15
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (20 bp):
AAATTCGAGTTGCGAATTTG
Found at i:191638 original size:58 final size:59
Alignment explanation
Indices: 191557--191667 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 59
191547 ACTAAAACCT
* *
191557 GTTGTGAAATTAAATTCGTGTTGCGAATTCGAAAAT-CTAGTTGCGAATTTGAAATTCA
1 GTTGTGAAATTAAATTCGAGTTGCGAATTCGAAAATCCGAGTTGCGAATTTGAAATTCA
* * * *
191615 GTTGTGAATTTGAAATTC-AGTTGCGAATTTGAAATTCCGCGTTGCGAATTTGA
1 GTTGTGAAATT-AAATTCGAGTTGCGAATTCGAAAATCCGAGTTGCGAATTTGA
191668 CTTTTGTGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
58 25 0.56
59 20 0.44
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.37
Consensus pattern (59 bp):
GTTGTGAAATTAAATTCGAGTTGCGAATTCGAAAATCCGAGTTGCGAATTTGAAATTCA
Found at i:191680 original size:20 final size:20
Alignment explanation
Indices: 191655--191721 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
191645 GAAATTCCGC
191655 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGT
* * *
191675 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTTTTGT
*
191695 GTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTTTGT
191715 GTTGCGA
1 GTTGCGA
191722 TTTACAGATT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.16, C:0.15, G:0.27, T:0.42
Consensus pattern (20 bp):
GTTGCGAATTTGACTTTTGT
Found at i:191696 original size:40 final size:41
Alignment explanation
Indices: 191596--191746 Score: 156
Period size: 40 Copynumber: 3.8 Consensus size: 41
191586 CGAAAATCTA
* * * *
191596 GTTGCGAATTTGA-AATTC-AGTTGTGAATTTGAAATTC--A
1 GTTGCGAATTTGACAATTCGCGTTGCGAATTTG-ACTTCTGT
*
191634 GTTGCGAATTTGA-AATTCCGCGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACAATT-CGCGTTGCGAATTTGACTTCTGT
*
191675 GTTGCGAATTTGACTA-TCGCGTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACAATTCGCGTTGCGAATTTGACTTCTGT
*
191715 GTTGCG-ATTT-ACAGATTCGCGTTTCGAATTTG
1 GTTGCGAATTTGACA-ATTCGCGTTGCGAATTTG
191747 GAAAATCGTA
Statistics
Matches: 97, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
38 19 0.20
39 9 0.09
40 54 0.56
41 14 0.14
42 1 0.01
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.40
Consensus pattern (41 bp):
GTTGCGAATTTGACAATTCGCGTTGCGAATTTGACTTCTGT
Found at i:191840 original size:20 final size:19
Alignment explanation
Indices: 191791--191840 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
191781 TGATTTACAT
191791 ATTCGCGTTGCGAAATTGG
1 ATTCGCGTTGCGAAATTGG
** *
191810 AAACTGGGTTGCGAAATTGG
1 ATTC-GCGTTGCGAAATTGG
191830 AGTTCGCGTTG
1 A-TTCGCGTTG
191841 TGAATTTGTT
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
19 2 0.09
20 20 0.87
21 1 0.04
ACGTcount: A:0.22, C:0.14, G:0.34, T:0.30
Consensus pattern (19 bp):
ATTCGCGTTGCGAAATTGG
Found at i:203886 original size:17 final size:19
Alignment explanation
Indices: 203851--203887 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
203841 TGTAATTGAC
*
203851 TTTTGTTTCATATATATTT
1 TTTTGTTTCATATAAATTT
203870 TTTTGTTT-A-ATAAATTT
1 TTTTGTTTCATATAAATTT
203887 T
1 T
203888 AATTAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.47
18 1 0.06
19 8 0.47
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTTGTTTCATATAAATTT
Found at i:205362 original size:29 final size:29
Alignment explanation
Indices: 205320--205474 Score: 283
Period size: 29 Copynumber: 5.3 Consensus size: 29
205310 ACTGTGTATA
205320 AGCATGATATCAGATAGCATTATGACCGC
1 AGCATGATATCAGATAGCATTATGACCGC
205349 AGCATGATATCAGATAGCATTATGACCGC
1 AGCATGATATCAGATAGCATTATGACCGC
205378 AGCATGATATCAGATAGCATTATGACCGC
1 AGCATGATATCAGATAGCATTATGACCGC
205407 AGCATGATATCAGATAGCATTATGACCGC
1 AGCATGATATCAGATAGCATTATGACCGC
** *
205436 AGCATGATATCAGGCAGCATTATGACTGC
1 AGCATGATATCAGATAGCATTATGACCGC
205465 AGCATGATAT
1 AGCATGATAT
205475 GATATTATGC
Statistics
Matches: 123, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 123 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (29 bp):
AGCATGATATCAGATAGCATTATGACCGC
Found at i:205468 original size:14 final size:14
Alignment explanation
Indices: 205335--205469 Score: 62
Period size: 14 Copynumber: 9.4 Consensus size: 14
205325 GATATCAGAT
205335 AGCATTATGACCGC
1 AGCATTATGACCGC
* * *
205349 AGCATGAT-ATCAGAT
1 AGCATTATGA-CCG-C
205364 AGCATTATGACCGC
1 AGCATTATGACCGC
* * *
205378 AGCATGAT-ATCAGAT
1 AGCATTATGA-CCG-C
205393 AGCATTATGACCGC
1 AGCATTATGACCGC
* * *
205407 AGCATGAT-ATCAGAT
1 AGCATTATGA-CCG-C
205422 AGCATTATGACCGC
1 AGCATTATGACCGC
* *
205436 AGCATGAT-ATCAGGC
1 AGCATTATGA-C-CGC
*
205451 AGCATTATGACTGC
1 AGCATTATGACCGC
205465 AGCAT
1 AGCAT
205470 GATATGATAT
Statistics
Matches: 87, Mismatches: 22, Indels: 24
0.65 0.17 0.18
Matches are distributed among these distances:
13 4 0.05
14 42 0.48
15 37 0.43
16 4 0.05
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (14 bp):
AGCATTATGACCGC
Found at i:206823 original size:71 final size:71
Alignment explanation
Indices: 206694--206825 Score: 192
Period size: 71 Copynumber: 1.9 Consensus size: 71
206684 GTATATATAT
** *
206694 ATATATAACAAACATGAACCATACCTGAATTGCATTGTTCATGGAGCTCAAAATCAGAAATATAT
1 ATATATAACAAACATGAACCATACCTGAATTGCATCATTCATGGAGCTCAAAACCAGAAATATAT
206759 ATACGA
66 ATACGA
* * * * *
206765 ATATATAATAAATATGATCCATACCTGAATTGCATCATTCATGGAGCTTAAAGCCAGAAAT
1 ATATATAACAAACATGAACCATACCTGAATTGCATCATTCATGGAGCTCAAAACCAGAAAT
206826 TCAACGAAAC
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
71 53 1.00
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (71 bp):
ATATATAACAAACATGAACCATACCTGAATTGCATCATTCATGGAGCTCAAAACCAGAAATATAT
ATACGA
Found at i:211030 original size:31 final size:31
Alignment explanation
Indices: 210994--211052 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
210984 AACTTAAAAG
*
210994 AGTTTTGCAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
* *
211025 AGTTTTATAATATTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
211053 CCATACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.46
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:211100 original size:22 final size:22
Alignment explanation
Indices: 211073--211127 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
211063 ACAATAATAA
211073 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
*
211095 ATATTTTAAAATAAATTAATCC
1 ATATTTTAAAATAAATCAATCC
211117 ATATTTTAAAA
1 ATATTTTAAAA
211128 CTATCTCCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATTTTAAAATAAATCAATCC
Found at i:219791 original size:30 final size:30
Alignment explanation
Indices: 219755--219876 Score: 154
Period size: 30 Copynumber: 4.4 Consensus size: 30
219745 GTCCTCATAC
* *
219755 TCATCTTGTTCTTCATCCTGCTCTTCTTGT
1 TCATCTTGTTCTTCATGCTGCTCCTCTTGT
*
219785 TCATCTTGTTCTTCATACTG---CTC----
1 TCATCTTGTTCTTCATGCTGCTCCTCTTGT
219808 -C-TCTTGTTCTTCATGCTGCTCCTCTTGT
1 TCATCTTGTTCTTCATGCTGCTCCTCTTGT
219836 TCATCTTGTTCTTCATGCTGCTCCTCTTGT
1 TCATCTTGTTCTTCATGCTGCTCCTCTTGT
219866 TCATCTTGTTC
1 TCATCTTGTTC
219877 ATCCTGCTCC
Statistics
Matches: 80, Mismatches: 3, Indels: 18
0.79 0.03 0.18
Matches are distributed among these distances:
21 16 0.20
22 1 0.01
24 3 0.04
27 2 0.03
29 1 0.01
30 57 0.71
ACGTcount: A:0.07, C:0.30, G:0.11, T:0.51
Consensus pattern (30 bp):
TCATCTTGTTCTTCATGCTGCTCCTCTTGT
Found at i:219813 original size:21 final size:21
Alignment explanation
Indices: 219788--219837 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
219778 TTCTTGTTCA
219788 TCTTGTTCTTCATACTGCTCC
1 TCTTGTTCTTCATACTGCTCC
*
219809 TCTTGTTCTTCATGCTGCTCC
1 TCTTGTTCTTCATACTGCTCC
219830 TCTTGTTC
1 TCTTGTTC
219838 ATCTTGTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.06, C:0.32, G:0.12, T:0.50
Consensus pattern (21 bp):
TCTTGTTCTTCATACTGCTCC
Found at i:219827 original size:51 final size:51
Alignment explanation
Indices: 219758--219867 Score: 193
Period size: 51 Copynumber: 2.2 Consensus size: 51
219748 CTCATACTCA
*
219758 TCTTGTTCTTCATCCTGCTCTTCTTGTTCATCTTGTTCTTCATACTGCTCC
1 TCTTGTTCTTCATCCTGCTCCTCTTGTTCATCTTGTTCTTCATACTGCTCC
* *
219809 TCTTGTTCTTCATGCTGCTCCTCTTGTTCATCTTGTTCTTCATGCTGCTCC
1 TCTTGTTCTTCATCCTGCTCCTCTTGTTCATCTTGTTCTTCATACTGCTCC
219860 TCTTGTTC
1 TCTTGTTC
219868 ATCTTGTTCA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.06, C:0.31, G:0.12, T:0.51
Consensus pattern (51 bp):
TCTTGTTCTTCATCCTGCTCCTCTTGTTCATCTTGTTCTTCATACTGCTCC
Done.