Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007930.1 Hibiscus syriacus cultivar Beakdansim tig00110338_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: 2280901
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 12
Found at i:1780839 original size:125 final size:125
Alignment explanation
Indices: 1780647--1781005 Score: 397
Period size: 125 Copynumber: 2.9 Consensus size: 125
1780637 ACAATTGCGG
* * * * *
1780647 CGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATAGCGGCATTTG-GTTTAAAACCCCACAA
1 CGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCATTTGTG-TAAAAACGCCACTA
* *
1780711 AAGTACGTGTCTATAGCGGCGTTTGTGTA-AAAAACGCCACTAAAGTACGAATCTATAGCGA
65 AAGTACGAGTCTATAGCGGCGTTTG-GTATAAAAACGCCACAAAAGTACGAATCTATAGCGA
* *
1780772 CGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAATGCCACTAA
1 CGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCATTTGTGTAAAAACGCCACTAA
* * ** *
1780837 AGTACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTATGTGTCTATAGCGG
66 AGTACGAGTCTATAGCGGCGTTTGGTATAAAAACGCCACAAAAGTACGAATCTATAGCGA
* * * *
1780897 CGTTT-GAATAAAAACGCCACTAAAA-TAC-TAGTTTATAGCGGCATTTGTATAAAAACGCCACT
1 CGTTTGGTATTAAAACGCCAC-AAAAGTACGT-GTCTATAGCGGCATTTGTGTAAAAACGCCACT
* * * * * * * * *
1780959 ACATTACGATTCTTTAGCGGTGTTT-TTATACAAACGTCACTAAAGTA
64 AAAGTACGAGTCTATAGCGGCGTTTGGTATAAAAACGCCACAAAAGTA
1781006 TCTACATCCG
Statistics
Matches: 200, Mismatches: 30, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
123 18 0.09
124 67 0.34
125 114 0.57
126 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (125 bp):
CGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCATTTGTGTAAAAACGCCACTAA
AGTACGAGTCTATAGCGGCGTTTGGTATAAAAACGCCACAAAAGTACGAATCTATAGCGA
Found at i:1780977 original size:41 final size:42
Alignment explanation
Indices: 1780643--1781005 Score: 368
Period size: 41 Copynumber: 8.8 Consensus size: 42
1780633 TATGACAATT
* *
1780643 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATA
1 GCGGCGTTTGGTATAAAAACGCCACTAAAGTACGATTCTATA
* * * *
1780685 GCGGCATTTGGT-TTAAAACCCCACAAAAGTACG-TGTCTATA
1 GCGGCGTTTGGTATAAAAACGCCACTAAAGTACGAT-TCTATA
*
1780726 GCGGCGTTTGTGTA-AAAAACGCCACTAAAGTACGAATCTATA
1 GCGGCGTTTG-GTATAAAAACGCCACTAAAGTACGATTCTATA
* * *
1780768 GCGACGTTTGGTATTAAAACGCCACAAAAGTACG-TGTCTATA
1 GCGGCGTTTGGTATAAAAACGCCACTAAAGTACGAT-TCTATA
* * *
1780810 GCGGCGTTT-GTGTAAAAATGCCACTAAAGTACGAGTCTATA
1 GCGGCGTTTGGTATAAAAACGCCACTAAAGTACGATTCTATA
* * *
1780851 GCGGCGTTTGGTATTAAAACGCCACAAAAGTATG-TGTCTATA
1 GCGGCGTTTGGTATAAAAACGCCACTAAAGTACGAT-TCTATA
* * *
1780893 GCGGCGTTT-GAATAAAAACGCCACTAAAATACTAGTT-TATA
1 GCGGCGTTTGGTATAAAAACGCCACTAAAGTACGA-TTCTATA
* * * *
1780934 GCGGCATTT-GTATAAAAACGCCACTACATTACGATTCTTTA
1 GCGGCGTTTGGTATAAAAACGCCACTAAAGTACGATTCTATA
* * * *
1780975 GCGGTGTTT-TTATACAAACGTCACTAAAGTA
1 GCGGCGTTTGGTATAAAAACGCCACTAAAGTA
1781006 TCTACATCCG
Statistics
Matches: 265, Mismatches: 44, Indels: 25
0.79 0.13 0.07
Matches are distributed among these distances:
40 2 0.01
41 150 0.57
42 112 0.42
43 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (42 bp):
GCGGCGTTTGGTATAAAAACGCCACTAAAGTACGATTCTATA
Found at i:1783207 original size:16 final size:15
Alignment explanation
Indices: 1783181--1783289 Score: 93
Period size: 16 Copynumber: 7.1 Consensus size: 15
1783171 TCCAGCAAAG
1783181 AAAGA-AAAAAAGAA
1 AAAGAGAAAAAAGAA
1783195 AAAGATGAAAAAAGAA
1 AAAGA-GAAAAAAGAA
1783211 AAATGAGAAAAAAGAAA
1 AAA-GAGAAAAAAG-AA
* *
1783228 AAATATGAAAAAGGAA
1 AAAGA-GAAAAAAGAA
1783244 AAAG-GAAAAATGAGAA
1 AAAGAGAAAAA--AGAA
1783260 AAA-AG-AAAAA-AA
1 AAAGAGAAAAAAGAA
*
1783272 AAAGAAAAAAAAGGAA
1 AAAGAGAAAAAA-GAA
1783288 AA
1 AA
1783290 TTGAATCAAG
Statistics
Matches: 78, Mismatches: 5, Indels: 22
0.74 0.05 0.21
Matches are distributed among these distances:
12 5 0.06
13 2 0.03
14 16 0.21
15 4 0.05
16 37 0.47
17 14 0.18
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (15 bp):
AAAGAGAAAAAAGAA
Found at i:1783211 original size:7 final size:7
Alignment explanation
Indices: 1783181--1783289 Score: 78
Period size: 7 Copynumber: 14.1 Consensus size: 7
1783171 TCCAGCAAAG
1783181 AAAGAAAA
1 AAAG-AAA
1783189 AAAGAAA
1 AAAGAAA
1783196 AAGATGAAA
1 AA-A-GAAA
1783205 AAAGAAA
1 AAAGAAA
1783212 AATGAGAAA
1 AA--AGAAA
1783221 AAAGAAAA
1 AAAG-AAA
1783229 AATATGAAA
1 AA-A-GAAA
*
1783238 AAGGAAA
1 AAAGAAA
*
1783245 AAGGAAA
1 AAAGAAA
1783252 AATGAGAAA
1 AA--AGAAA
1783261 AAAGAAA
1 AAAGAAA
1783268 AAA-AAA
1 AAAGAAA
1783274 AGAA-AAA
1 A-AAGAAA
1783281 AAAGGAAA
1 AAA-GAAA
1783289 A
1 A
1783290 TTGAATCAAG
Statistics
Matches: 87, Mismatches: 2, Indels: 24
0.77 0.02 0.21
Matches are distributed among these distances:
6 6 0.07
7 40 0.46
8 15 0.17
9 25 0.29
10 1 0.01
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (7 bp):
AAAGAAA
Found at i:1783245 original size:40 final size:39
Alignment explanation
Indices: 1783181--1783271 Score: 139
Period size: 40 Copynumber: 2.3 Consensus size: 39
1783171 TCCAGCAAAG
1783181 AAAGAAAAAAAGAAAAAGATGAAAAAAGAAAAATGAGAAA
1 AAAGAAAAAAAGAAAAAGA-GAAAAAAGAAAAATGAGAAA
*
1783221 AAAGAAAAAATATGAAAAAG-GAAAAAGGAAAAATGAGAAA
1 AAAGAAAAAA-A-GAAAAAGAGAAAAAAGAAAAATGAGAAA
1783261 AAAGAAAAAAA
1 AAAGAAAAAAA
1783272 AAAGAAAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
39 1 0.02
40 39 0.81
41 1 0.02
42 7 0.15
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (39 bp):
AAAGAAAAAAAGAAAAAGAGAAAAAAGAAAAATGAGAAA
Found at i:1783247 original size:23 final size:23
Alignment explanation
Indices: 1783181--1783229 Score: 50
Period size: 23 Copynumber: 2.1 Consensus size: 23
1783171 TCCAGCAAAG
1783181 AAAGAAAAAA--AGAAAAAGATGAA
1 AAAGAAAAAATGAGAAAAA-A-GAA
1783204 AAA-AGAAAAATGAGAAAAAAGAA
1 AAAGA-AAAAATGAGAAAAAAGAA
1783227 AAA
1 AAA
1783230 ATATGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
22 1 0.04
23 14 0.61
24 1 0.04
25 7 0.30
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (23 bp):
AAAGAAAAAATGAGAAAAAAGAA
Found at i:1783252 original size:23 final size:23
Alignment explanation
Indices: 1783186--1783274 Score: 78
Period size: 23 Copynumber: 3.8 Consensus size: 23
1783176 CAAAGAAAGA
1783186 AAAAAAGAAAAAGATGAAAAA--AG
1 AAAAAAGAAAAAGA--AAAAATGAG
1783209 AAAAATGAGAAAAAAGAAAAAAT-ATG
1 AAAAA--AG-AAAAAGAAAAAATGA-G
* *
1783235 AAAAAGGAAAAAGGAAAAATGAG
1 AAAAAAGAAAAAGAAAAAATGAG
1783258 AAAAAAGAAAAA-AAAAA
1 AAAAAAGAAAAAGAAAAA
1783275 GAAAAAAAAG
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
22 4 0.07
23 29 0.52
24 7 0.12
25 3 0.05
26 13 0.23
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.06
Consensus pattern (23 bp):
AAAAAAGAAAAAGAAAAAATGAG
Found at i:1783272 original size:11 final size:11
Alignment explanation
Indices: 1783258--1783283 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1783248 GAAAAATGAG
1783258 AAAAAAGAAAA
1 AAAAAAGAAAA
1783269 AAAAAAGAAAA
1 AAAAAAGAAAA
1783280 AAAA
1 AAAA
1783284 GGAAAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:1788101 original size:22 final size:22
Alignment explanation
Indices: 1788075--1788151 Score: 145
Period size: 22 Copynumber: 3.5 Consensus size: 22
1788065 ATCTATACTC
1788075 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
1788097 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
1788119 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
1788141 TTCAAAGATGA
1 TTCAAAGATGA
1788152 AAGCTTTATT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:1788913 original size:76 final size:76
Alignment explanation
Indices: 1788826--1789867 Score: 1815
Period size: 76 Copynumber: 13.8 Consensus size: 76
1788816 CTATTTCCCA
*
1788826 CATCTGTAAGTCCTACAGTACATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1788891 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
1788902 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAATAGCCTTCGGGAGATTTTTGATGTTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTTCA
1788967 AAGCCTTAGGGT
65 AAGCCTTAGGGT
*
1788979 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAATAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1789044 AGCCTTAGAGT
66 AGCCTTAGGGT
* * *
1789055 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAATCCTTTGGGAGCTTTTTGATGTCTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1789120 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
1789131 CA-CAGGTAAGTCCTACAGTGCATGATGTTTACAAATAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATC-TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1789195 AAGCCTTAGGGT
65 AAGCCTTAGGGT
*
1789207 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAATAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1789272 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
1789283 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTAGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1789348 AGCCTTAGGGT
66 AGCCTTAGGGT
*
1789359 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCTGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1789424 AGCCTTAGGGT
66 AGCCTTAGGGT
1789435 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1789500 AGCCTTAGGGT
66 AGCCTTAGGGT
*
1789511 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1789576 AGCCTTAGGGT
66 AGCCTTAGGGT
*
1789587 CATCTGTAAGTCTTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1789652 AGCCTTAGGGT
66 AGCCTTAGGGT
1789663 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC-GGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1789727 AACCTTAGGGT
66 AGCCTTAGGGT
* * *
1789738 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGAAGCTTTTTGA--TCTT-AA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1789800 ACCCTTAGGGT
66 AGCCTTAGGGT
* *
1789811 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGAT
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT
1789868 CTTAAAGCCT
Statistics
Matches: 923, Mismatches: 38, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
73 64 0.07
74 3 0.00
75 74 0.08
76 706 0.76
77 76 0.08
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:1790049 original size:3 final size:3
Alignment explanation
Indices: 1790037--1790086 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
1790027 TTTTTCACTT
1790037 TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1790084 TTA
1 TTA
1790087 AATACATTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1791413 original size:19 final size:20
Alignment explanation
Indices: 1791374--1791422 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
1791364 ATGTTTAGTC
1791374 ATTATAATATTAAATAATTA
1 ATTATAATATTAAATAATTA
* *
1791394 ATTATAA-ATTAGATATTTA
1 ATTATAATATTAAATAATTA
*
1791413 ATTTTAATAT
1 ATTATAATAT
1791423 ATTCTAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
ATTATAATATTAAATAATTA
Found at i:1791572 original size:27 final size:27
Alignment explanation
Indices: 1791542--1791593 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
1791532 ATTTAAGTTA
*
1791542 TATTTTAATTTAAATATTAATTATTAT
1 TATTTTAATTTAAATATAAATTATTAT
* *
1791569 TATTTTATTTTTAATATAAATTATT
1 TATTTTAATTTAAATATAAATTATT
1791594 TTAATCCTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
TATTTTAATTTAAATATAAATTATTAT
Found at i:1797690 original size:37 final size:37
Alignment explanation
Indices: 1797617--1797691 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
1797607 AGTTAAAAAT
* *
1797617 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTAAAAATCATAAA
* *
1797654 ATTTATATAATTTTTTTTATAAAATTAAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTAAAAATCATAAA
1797691 A
1 A
1797692 AAGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTAAAAATCATAAA
Found at i:1797727 original size:25 final size:25
Alignment explanation
Indices: 1797698--1797748 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
1797688 AAAAAAGTTT
1797698 AATGAAATAGTAAAATTTTATTTTA
1 AATGAAATAGTAAAATTTTATTTTA
1797723 AATGAAATAGTAAAATTTTATTTTA
1 AATGAAATAGTAAAATTTTATTTTA
1797748 A
1 A
1797749 CTCCTAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (25 bp):
AATGAAATAGTAAAATTTTATTTTA
Found at i:1801783 original size:10 final size:10
Alignment explanation
Indices: 1801768--1801797 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1801758 TGTGCTCTAA
*
1801768 TTGATGTATT
1 TTGATGCATT
1801778 TTGATGCATT
1 TTGATGCATT
1801788 TTGATGCATT
1 TTGATGCATT
1801798 GATTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.20, C:0.07, G:0.20, T:0.53
Consensus pattern (10 bp):
TTGATGCATT
Found at i:1802752 original size:21 final size:21
Alignment explanation
Indices: 1802701--1802753 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
1802691 ATTATTACTA
1802701 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
1802722 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
1802743 TCGCAATGCGA
1 TCGCAATGCGA
1802754 ATTTGAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:1802794 original size:20 final size:20
Alignment explanation
Indices: 1802763--1802859 Score: 70
Period size: 20 Copynumber: 4.8 Consensus size: 20
1802753 AATTTGAAAA
*
1802763 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
1802783 ATCGTAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
* *
1802804 ATCGCAATGTGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
1802824 TTCGCAACGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
1802844 TTCGTAACACGATACT
1 ATCGCAACGCGATACT
1802860 TTCGCAACGA
Statistics
Matches: 59, Mismatches: 15, Indels: 6
0.74 0.19 0.08
Matches are distributed among these distances:
19 2 0.03
20 43 0.73
21 12 0.20
22 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:1802806 original size:41 final size:41
Alignment explanation
Indices: 1802760--1802837 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
1802750 GCGAATTTGA
*
1802760 AAAATCGCAATGCGATACTGACTATCGTAACGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
* *
1802801 AAAATCGCAATGTGATACTGACTTTCGCAACGCGATA
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATA
1802838 CTTACTTTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (41 bp):
AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
Found at i:1802923 original size:14 final size:14
Alignment explanation
Indices: 1802904--1802962 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
1802894 TTGTGTTTCA
1802904 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
1802918 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
1802935 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
1802951 TGTTGCGATTTT
1 CGTTGCGATTTT
1802963 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 18 0.49
15 3 0.08
16 3 0.08
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.10, C:0.15, G:0.24, T:0.51
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1802927 original size:33 final size:33
Alignment explanation
Indices: 1802899--1802978 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
1802889 ACGATTTGTG
*
1802899 TTTCACGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCACATTGCGATTTTGTCGTTGCGATTTTCA
* *
1802932 TTTCGCATTGCGATTTTGTTGTTGCGATTTTCA
1 TTTCACATTGCGATTTTGTCGTTGCGATTTTCA
*
1802965 TTTCGCATTGCGAT
1 TTTCACATTGCGAT
1802979 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.12, C:0.17, G:0.21, T:0.49
Consensus pattern (33 bp):
TTTCACATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:1802944 original size:19 final size:19
Alignment explanation
Indices: 1802920--1802978 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
1802910 GATTTTGTCG
1802920 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1802939 TTGCGATTTT--GTT-G--
1 TTGCGATTTTCATTTCGCA
1802953 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1802972 TTGCGAT
1 TTGCGAT
1802979 AGCCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 10 0.30
16 3 0.09
17 3 0.09
19 17 0.52
ACGTcount: A:0.14, C:0.17, G:0.20, T:0.49
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1802997 original size:20 final size:20
Alignment explanation
Indices: 1802952--1803077 Score: 164
Period size: 20 Copynumber: 6.3 Consensus size: 20
1802942 CGATTTTGTT
**
1802952 GTTGCGATTTTCATTT-CGC
1 GTTGCGATAGTCATTTCCGC
* * *
1802971 ATTGCGATAGCCATTTCCGT
1 GTTGCGATAGTCATTTCCGC
1802991 GTTGCGATAGTCATTTCCGC
1 GTTGCGATAGTCATTTCCGC
* *
1803011 GTTGCGATAGTTATTTCTGC
1 GTTGCGATAGTCATTTCCGC
*
1803031 GTTGCGATAGTCATTTACGC
1 GTTGCGATAGTCATTTCCGC
*
1803051 GTTGCGATAGTCATTTTCGC
1 GTTGCGATAGTCATTTCCGC
1803071 GTTGCGA
1 GTTGCGA
1803078 AAGTAAGTTT
Statistics
Matches: 92, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
19 12 0.13
20 80 0.87
ACGTcount: A:0.16, C:0.21, G:0.25, T:0.39
Consensus pattern (20 bp):
GTTGCGATAGTCATTTCCGC
Found at i:1803027 original size:40 final size:39
Alignment explanation
Indices: 1802951--1803117 Score: 165
Period size: 40 Copynumber: 4.2 Consensus size: 39
1802941 GCGATTTTGT
** * *
1802951 TGTTGCGATTTTCATTTCGCATTGCGATAGCCATTTCCG
1 TGTTGCGATAGTCATTTCGCGTTGCGATAGTCATTTCCG
* *
1802990 TGTTGCGATAGTCATTTCCGCGTTGCGATAGTTATTTCTG
1 TGTTGCGATAGTCATTT-CGCGTTGCGATAGTCATTTCCG
* *
1803030 CGTTGCGATAGTCATTTACGCGTTGCGATAGTCATTTTCG
1 TGTTGCGATAGTCATTT-CGCGTTGCGATAGTCATTTCCG
* * * * * *
1803070 CGTTGCGAAAGTAAGTTTCGTGTTGCGAAAGTAAGTTT-CG
1 TGTTGCGATAGTCA-TTTCGCGTTGCGATAGTCA-TTTCCG
1803110 TGTTGCGA
1 TGTTGCGA
1803118 AAGTAAACTA
Statistics
Matches: 108, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
39 15 0.14
40 87 0.81
41 6 0.06
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.38
Consensus pattern (39 bp):
TGTTGCGATAGTCATTTCGCGTTGCGATAGTCATTTCCG
Found at i:1803046 original size:60 final size:58
Alignment explanation
Indices: 1802964--1803117 Score: 182
Period size: 60 Copynumber: 2.6 Consensus size: 58
1802954 TGCGATTTTC
* * * *
1802964 ATTTCGCATTGCGATAGCCATTTCCGTGTTGCGATAGTCATTTCCGCGTTGCGATAGTT
1 ATTTCGCGTTGCGATAGTCATTT-CGTGTTGCGATAGTCATTTCCGCGTTGCGAAAGTA
* *
1803023 ATTTCTGCGTTGCGATAGTCATTTACGCGTTGCGATAGTCATTTTCGCGTTGCGAAAGTA
1 ATTTC-GCGTTGCGATAGTCATTT-CGTGTTGCGATAGTCATTTCCGCGTTGCGAAAGTA
* * *
1803083 AGTTTCGTGTTGCGAAAGTAAGTTTCGTGTTGCGA
1 A-TTTCGCGTTGCGATAGTCA-TTTCGTGTTGCGA
1803118 AAGTAAACTA
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
59 5 0.06
60 69 0.85
61 7 0.09
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (58 bp):
ATTTCGCGTTGCGATAGTCATTTCGTGTTGCGATAGTCATTTCCGCGTTGCGAAAGTA
Found at i:1803088 original size:20 final size:19
Alignment explanation
Indices: 1802991--1803123 Score: 122
Period size: 20 Copynumber: 6.7 Consensus size: 19
1802981 CCATTTCCGT
* *
1802991 GTTGCGATAGTCATTTCCGC
1 GTTGCGAAAGTAATTT-CGC
* *
1803011 GTTGCGATAGTTATTTCTGC
1 GTTGCGAAAGTAATTTC-GC
* *
1803031 GTTGCGATAGTCATTTACGC
1 GTTGCGAAAGTAATTT-CGC
* *
1803051 GTTGCGATAGTCATTTTCGC
1 GTTGCGAAAGT-AATTTCGC
*
1803071 GTTGCGAAAGTAAGTTTCGT
1 GTTGCGAAAGTAA-TTTCGC
*
1803091 GTTGCGAAAGTAAGTTTCGT
1 GTTGCGAAAGTAA-TTTCGC
1803111 GTTGCGAAAGTAA
1 GTTGCGAAAGTAA
1803124 ACTATTCTTC
Statistics
Matches: 102, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
19 2 0.02
20 96 0.94
21 4 0.04
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.36
Consensus pattern (19 bp):
GTTGCGAAAGTAATTTCGC
Found at i:1803536 original size:42 final size:42
Alignment explanation
Indices: 1803465--1803544 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
1803455 GACTCACCTG
* *
1803465 TCATCCCTCAAGAGTCTCCTCCAATCGTTCAAGAGGCCTCTA
1 TCATCCCTCAAGAGTCTCCCCCAACCGTTCAAGAGGCCTCTA
1803507 TCATCCCTCAAGAGTAC-CCCCCAACCGTTCAAGAGGCC
1 TCATCCCTCAAGAGT-CTCCCCCAACCGTTCAAGAGGCC
1803545 ATTGTCATCG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 34 0.97
43 1 0.03
ACGTcount: A:0.25, C:0.39, G:0.15, T:0.21
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCTCCCCCAACCGTTCAAGAGGCCTCTA
Found at i:1803553 original size:42 final size:42
Alignment explanation
Indices: 1803462--1803553 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
1803452 CCCGACTCAC
* *
1803462 CTGTCATCCCTCAAGAGTCTCCTCCAATCGTTCAAGAGGCCT
1 CTGTCATCCCTCAAGAGTCTCCCCCAACCGTTCAAGAGGCCT
*
1803504 CTATCATCCCTCAAGAGTAC-CCCCCAACCGTTCAAGAGGCCAT
1 CTGTCATCCCTCAAGAGT-CTCCCCCAACCGTTCAAGAGGCC-T
1803547 -TGTCATC
1 CTGTCATC
1803554 GTTGAAGAGG
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
42 42 0.95
43 2 0.05
ACGTcount: A:0.24, C:0.37, G:0.15, T:0.24
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCTCCCCCAACCGTTCAAGAGGCCT
Found at i:1804995 original size:14 final size:14
Alignment explanation
Indices: 1804961--1804999 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
1804951 TTGATTGTTT
1804961 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
1804975 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
1804989 TGTTGATTTGT
1 AATTGATTTGT
1805000 TTAATTGATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:1805165 original size:19 final size:19
Alignment explanation
Indices: 1805141--1805184 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
1805131 AACGAGATAT
1805141 TCGCAATGCGAAATAAAAA
1 TCGCAATGCGAAATAAAAA
*
1805160 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATAAAAA
*
1805179 TGGCAA
1 TCGCAA
1805185 CGAGAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (19 bp):
TCGCAATGCGAAATAAAAA
Found at i:1805235 original size:20 final size:20
Alignment explanation
Indices: 1805210--1805263 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
1805200 GCGATTTTCA
1805210 TTTCGCGTTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
*
1805230 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGCCAT
*
1805250 TTTCGTGTTGCGAT
1 TTTCGCGTTGCGAT
1805264 TTTCTCGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.13, C:0.20, G:0.26, T:0.41
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGCCAT
Found at i:1805451 original size:21 final size:21
Alignment explanation
Indices: 1805413--1805452 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1805403 GTTATCGCAA
*
1805413 TGCGATTTTCCAATTTCGCGT
1 TGCGATTTTCCAAATTCGCGT
1805434 TGCGA-TTTCCACAATTCGC
1 TGCGATTTTCCA-AATTCGC
1805453 AATGCAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.38
Consensus pattern (21 bp):
TGCGATTTTCCAAATTCGCGT
Found at i:1806289 original size:24 final size:24
Alignment explanation
Indices: 1806262--1806315 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1806252 GTATTCAAAA
*
1806262 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
1806286 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
1806310 TTTGAT
1 TTTGAT
1806316 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:1806507 original size:12 final size:12
Alignment explanation
Indices: 1806490--1806514 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1806480 ATATAATCCT
1806490 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1806502 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1806514 G
1 G
1806515 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1808856 original size:19 final size:19
Alignment explanation
Indices: 1808814--1808876 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
1808804 CAATCATCTT
* *
1808814 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAATGC-GA
1808834 AATGACTATCGCAATGCGA
1 AATGACTATCGCAATGCGA
**
1808853 AATGAAAATCGCAATGCGA
1 AATGACTATCGCAATGCGA
1808872 AATGA
1 AATGA
1808877 AAATCGCAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 24 0.62
20 15 0.38
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (19 bp):
AATGACTATCGCAATGCGA
Found at i:1808877 original size:19 final size:19
Alignment explanation
Indices: 1808821--1808924 Score: 101
Period size: 19 Copynumber: 5.7 Consensus size: 19
1808811 CTTAATGTCT
**
1808821 ATCGCAACGCGGAAATGACT
1 ATCGCAACGC-GAAATGAAA
*
1808841 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
1808860 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
**
1808879 ATCGCAA--CG--A-GGGA
1 ATCGCAACGCGAAATGAAA
*
1808893 ATCGCAAAGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
1808912 ATCGCAACGCGAA
1 ATCGCAACGCGAA
1808925 TTTAGTTTCG
Statistics
Matches: 71, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
14 9 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 47 0.66
20 9 0.13
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.12
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:1808972 original size:33 final size:33
Alignment explanation
Indices: 1808930--1809034 Score: 174
Period size: 33 Copynumber: 3.2 Consensus size: 33
1808920 GCGAATTTAG
* *
1808930 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1808963 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
* *
1808996 TTTTGCATTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1809029 TTTCGC
1 TTTCGC
1809035 ATTGTGATAG
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 67 1.00
ACGTcount: A:0.10, C:0.22, G:0.21, T:0.48
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
Found at i:1808987 original size:14 final size:14
Alignment explanation
Indices: 1808968--1809024 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
1808958 TTTCATTTCG
1808968 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1808982 CGTTGCGATTTTCATTTT
1 CGTTGCGA--TTC--TCT
*
1809000 GCATTGCGATTCTCT
1 -CGTTGCGATTCTCT
1809015 CGTTGCGATT
1 CGTTGCGATT
1809025 TTCATTTCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 17 0.50
15 2 0.06
16 3 0.09
17 3 0.09
18 2 0.06
19 7 0.21
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1809168 original size:14 final size:14
Alignment explanation
Indices: 1809149--1809185 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1809139 CATCAATTAA
1809149 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1809163 ACAAATCATCTTTT
1 ACAAATCAACTTTT
1809177 ACAAATCAA
1 ACAAATCAA
1809186 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:1812880 original size:20 final size:20
Alignment explanation
Indices: 1812855--1812958 Score: 100
Period size: 20 Copynumber: 5.6 Consensus size: 20
1812845 TTTTGGTTGA
*
1812855 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGCGAG
1812875 AATGAAAATCGCAACGCG-G
1 AATGAAAATCGCAACGCGAG
** *
1812894 AAATGACTATCGCAA--CTAG
1 -AATGAAAATCGCAACGCGAG
1812913 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGCGAG
1812928 AATGAAAATCGCAACGCGA-
1 AATGAAAATCGCAACGCGAG
1812947 AATGAAAATCGC
1 AATGAAAATCGC
1812959 GATGCGATTT
Statistics
Matches: 70, Mismatches: 6, Indels: 17
0.75 0.06 0.18
Matches are distributed among these distances:
14 7 0.10
16 4 0.06
17 2 0.03
18 1 0.01
19 27 0.39
20 29 0.41
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGCGAG
Found at i:1812897 original size:40 final size:38
Alignment explanation
Indices: 1812853--1812958 Score: 116
Period size: 33 Copynumber: 2.9 Consensus size: 38
1812843 TCTTTTGGTT
1812853 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACG-GAGAATGAAAATCGCAACGC
** *
1812892 GGAAATGACTATCGCAAC-TAG-A-G--AATCGCAACGC
1 -GAAATGAAAATCGCAACGGAGAATGAAAATCGCAACGC
1812926 GAAATGAAAATCGCAACGCGA-AATGAAAATCGC
1 GAAATGAAAATCGCAACG-GAGAATGAAAATCGC
1812959 GATGCGATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
33 15 0.28
34 11 0.20
35 2 0.04
36 2 0.04
37 1 0.02
38 8 0.15
40 15 0.28
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (38 bp):
GAAATGAAAATCGCAACGGAGAATGAAAATCGCAACGC
Found at i:1812965 original size:19 final size:19
Alignment explanation
Indices: 1812853--1812958 Score: 114
Period size: 19 Copynumber: 5.7 Consensus size: 19
1812843 TCTTTTGGTT
*
1812853 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
1812872 GAGAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
1812892 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
* *
1812910 --TA-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
1812926 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
1812945 GAAATGAAAATCGC
1 GAAATGAAAATCGC
1812959 GATGCGATTT
Statistics
Matches: 72, Mismatches: 8, Indels: 14
0.77 0.09 0.15
Matches are distributed among these distances:
14 9 0.12
15 1 0.01
16 1 0.01
18 2 0.03
19 29 0.40
20 28 0.39
21 2 0.03
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:1813009 original size:33 final size:33
Alignment explanation
Indices: 1812961--1813052 Score: 148
Period size: 33 Copynumber: 2.8 Consensus size: 33
1812951 AAAATCGCGA
**
1812961 TGCGATTTTGGTTTCGCGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
* *
1812994 TGCGATTTTCATTTCGCGTTGCGATTCTCTTGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
1813027 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTCATTTCGCGTTGCGATT
1813053 TTCATTCTCG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
Found at i:1813015 original size:19 final size:19
Alignment explanation
Indices: 1812955--1813058 Score: 93
Period size: 19 Copynumber: 6.0 Consensus size: 19
1812945 GAAATGAAAA
* **
1812955 TCGCGATGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
1812974 TCGCGTTGCGA--TT-A--
1 TCGCGTTGCGATTTTCATT
*
1812988 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
1813007 TCGCGTTGCGATTCTC--T
1 TCGCGTTGCGATTTTCATT
1813024 T---GTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1813040 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1813059 CTCGAAACTA
Statistics
Matches: 69, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
14 21 0.30
16 4 0.06
17 5 0.07
19 39 0.57
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1813735 original size:21 final size:20
Alignment explanation
Indices: 1813709--1813757 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
1813699 GTCAGTATCG
*
1813709 CATTGCGATTTTCCAAATTCA
1 CATTGCGA-TTTACAAATTCA
**
1813730 CATTGCGATTTACTTATTCA
1 CATTGCGATTTACAAATTCA
1813750 CATTGCGA
1 CATTGCGA
1813758 ATTGGGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (20 bp):
CATTGCGATTTACAAATTCA
Found at i:1813857 original size:20 final size:20
Alignment explanation
Indices: 1813834--1813879 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
1813824 GGAAACTGAT
*
1813834 TTGCGATAATAGAGATCGCG
1 TTGCGATAATAGAGATCGCA
* *
1813854 TTGCGA-ATTAGCGATCGCA
1 TTGCGATAATAGAGATCGCA
1813873 TTGCGAT
1 TTGCGAT
1813880 TTTGTTGGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (20 bp):
TTGCGATAATAGAGATCGCA
Found at i:1814808 original size:24 final size:24
Alignment explanation
Indices: 1814729--1814819 Score: 78
Period size: 23 Copynumber: 3.9 Consensus size: 24
1814719 CATCTAAGTG
* *
1814729 CCACGTAGAAATTGTCCCGAAGGA
1 CCACATAGAAATTGTCCCGAAAGA
** *
1814753 TAACATAG-TATTGTCCCGAAAGA
1 CCACATAGAAATTGTCCCGAAAGA
* * * *
1814776 CCGCGTAGAAATTGTCCTGAATGA
1 CCACATAGAAATTGTCCCGAAAGA
*
1814800 CCACATAG-AATTATCCCGAA
1 CCACATAGAAATTGTCCCGAA
1814820 GGACTGCATA
Statistics
Matches: 50, Mismatches: 16, Indels: 3
0.72 0.23 0.04
Matches are distributed among these distances:
23 27 0.54
24 23 0.46
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (24 bp):
CCACATAGAAATTGTCCCGAAAGA
Found at i:1814832 original size:47 final size:47
Alignment explanation
Indices: 1814734--1814832 Score: 117
Period size: 47 Copynumber: 2.1 Consensus size: 47
1814724 AAGTGCCACG
* * * *
1814734 TAGAAATTGTCCCGAAGGATAACATAGTATTGTCCCGAAAGACCGCG
1 TAGAAATTGTCCCGAAGGACAACATAGAATTATCCCGAAAGACCGCA
* * * * *
1814781 TAGAAATTGTCCTGAATGACCACATAGAATTATCCCGAAGGACTGCA
1 TAGAAATTGTCCCGAAGGACAACATAGAATTATCCCGAAAGACCGCA
1814828 TAGAA
1 TAGAA
1814833 CCTTCGACTC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (47 bp):
TAGAAATTGTCCCGAAGGACAACATAGAATTATCCCGAAAGACCGCA
Found at i:1815740 original size:56 final size:55
Alignment explanation
Indices: 1815672--1815800 Score: 156
Period size: 55 Copynumber: 2.3 Consensus size: 55
1815662 TACTTGTTGA
*
1815672 GAGTGTATCGATAACCTTGAAAACATCGAGTGTCATA-TGTGTATCGGTACACTGAG
1 GAGTGTATCGATAACCTTGAAAACATCGAGT-AC-TACTGTGTATCGGTACACTGAG
* * * *
1815728 GAGTGTAACGAT-ACCCTCAAAACATCTAGTACTACTTGTGTATCGGTACACTGAG
1 GAGTGTATCGATAACCTTGAAAACATCGAGTACTAC-TGTGTATCGGTACACTGAG
*
1815783 GAG-GTATCGATACCCTTG
1 GAGTGTATCGATAACCTTG
1815801 CAATTTCGAA
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
53 2 0.03
54 8 0.13
55 40 0.66
56 11 0.18
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (55 bp):
GAGTGTATCGATAACCTTGAAAACATCGAGTACTACTGTGTATCGGTACACTGAG
Found at i:1822573 original size:55 final size:55
Alignment explanation
Indices: 1822505--1822632 Score: 170
Period size: 55 Copynumber: 2.3 Consensus size: 55
1822495 TACCTGTTGA
* * *
1822505 GAGTGTATCAATACCCTTGAAACATCGAGTGTCA-TATGTGTATTGGTACACTGAG
1 GAGTGTATTAATACCCTTGAAACATAGAGTGTCACT-TGTGTATCGGTACACTGAG
** *
1822560 GAGTGTATTAATACCCTCAAAACATAGAGTGTTACTTGTGTATCGGTACACTGAG
1 GAGTGTATTAATACCCTTGAAACATAGAGTGTCACTTGTGTATCGGTACACTGAG
*
1822615 GAG-GTATTGATACCCTTG
1 GAGTGTATTAATACCCTTG
1822633 CAATTTGGGT
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
54 12 0.19
55 50 0.79
56 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (55 bp):
GAGTGTATTAATACCCTTGAAACATAGAGTGTCACTTGTGTATCGGTACACTGAG
Found at i:1823279 original size:22 final size:23
Alignment explanation
Indices: 1823225--1823279 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
1823215 GATAAAAATA
*
1823225 TGTCACTTCAGTGCAACCTTATG
1 TGTCACTTCGGTGCAACCTTATG
*
1823248 TGGCACTTCGGTGCAACC-TATG
1 TGTCACTTCGGTGCAACCTTATG
1823270 TTGTCA-TTCG
1 -TGTCACTTCG
1823280 AGATAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.29
23 20 0.71
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (23 bp):
TGTCACTTCGGTGCAACCTTATG
Found at i:1823984 original size:24 final size:24
Alignment explanation
Indices: 1823957--1824002 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
1823947 TAGATCAATG
*
1823957 TCACATAGTATGAACTCACATATA
1 TCACATAATATGAACTCACATATA
1823981 TCACATAATATGAACTCACATA
1 TCACATAATATGAACTCACATA
1824003 GTGCATATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (24 bp):
TCACATAATATGAACTCACATATA
Found at i:1830602 original size:61 final size:61
Alignment explanation
Indices: 1830518--1830632 Score: 167
Period size: 61 Copynumber: 1.9 Consensus size: 61
1830508 TAAGGTGGAT
* *
1830518 ACGACCTAATGTATCATGTCCGGATTAGCACTATAGCGTAAGCTTAGTGTAGGTGGTGGGC
1 ACGACCTAATGTATCATATCCGGATTAGCACTATAGCGTAAGCTTAGTGCAGGTGGTGGGC
* * * * *
1830579 ACGACCTTATGTGTTATATCCGGATTAGCACTATGGTGTAAGCTTAGTGCAGGT
1 ACGACCTAATGTATCATATCCGGATTAGCACTATAGCGTAAGCTTAGTGCAGGT
1830633 TTAGCACTAC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (61 bp):
ACGACCTAATGTATCATATCCGGATTAGCACTATAGCGTAAGCTTAGTGCAGGTGGTGGGC
Found at i:1830833 original size:47 final size:47
Alignment explanation
Indices: 1830742--1830899 Score: 243
Period size: 47 Copynumber: 3.4 Consensus size: 47
1830732 GTAAGTATGC
*
1830742 AAATAAGCTTACGAGCTTAT-GAA--T-AATGGCAAGTATATTGATA
1 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATATTGATA
*
1830785 AAATAAGCTTAAGAGCTTATGGAATTTAAATGGTAAGTATATTGATA
1 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATATTGATA
* * *
1830832 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAACTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATATTGATA
1830879 AAATAAGCTTACGAGCTTATG
1 AAATAAGCTTACGAGCTTATG
1830900 AGATAAATGA
Statistics
Matches: 105, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
43 19 0.18
44 3 0.03
46 1 0.01
47 82 0.78
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (47 bp):
AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATATTGATA
Found at i:1833749 original size:12 final size:14
Alignment explanation
Indices: 1833722--1833756 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
1833712 GCATAAGAGC
1833722 TAAAAAATATTATA
1 TAAAAAATATTATA
1833736 TAAAAAATATTATA
1 TAAAAAATATTATA
1833750 TAAAAAA
1 TAAAAAA
1833757 CAGAAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAAAAATATTATA
Found at i:1833774 original size:11 final size:11
Alignment explanation
Indices: 1833760--1833825 Score: 80
Period size: 11 Copynumber: 5.7 Consensus size: 11
1833750 TAAAAAACAG
1833760 AAGAAAAAGAA
1 AAGAAAAAGAA
1833771 AAGAAAATAGAA
1 AAGAAAA-AGAA
1833783 AA-AAAGAAGAA
1 AAGAAA-AAGAA
*
1833794 AAAAAAGAAGAAA
1 AAGAAA-AAG-AA
1833807 AAGAAAAAGAA
1 AAGAAAAAGAA
1833818 AAGAAAAA
1 AAGAAAAA
1833826 ATGGAAAGAA
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
11 26 0.52
12 17 0.34
13 7 0.14
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.02
Consensus pattern (11 bp):
AAGAAAAAGAA
Found at i:1833784 original size:29 final size:29
Alignment explanation
Indices: 1833751--1833826 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 29
1833741 AATATTATAT
*
1833751 AAAAAACAGAAGAAAAAGAA-AAGAAAATAG
1 AAAAAA-AGAAGAAAAAAAAGAAGAAAA-AG
1833781 AAAAAAAGAAGAAAAAAAAGAAGAAAAAG
1 AAAAAAAGAAGAAAAAAAAGAAGAAAAAG
1833810 AAAAAGAA-AAGAAAAAA
1 AAAAA-AAGAAGAAAAAA
1833827 TGGAAAGAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
29 28 0.65
30 15 0.35
ACGTcount: A:0.82, C:0.01, G:0.16, T:0.01
Consensus pattern (29 bp):
AAAAAAAGAAGAAAAAAAAGAAGAAAAAG
Found at i:1833786 original size:9 final size:9
Alignment explanation
Indices: 1833751--1833826 Score: 62
Period size: 9 Copynumber: 7.7 Consensus size: 9
1833741 AATATTATAT
*
1833751 AAAAAACAG
1 AAAAAAAAG
*
1833760 AAGAAAAAG
1 AAAAAAAAG
1833769 AAAAGAAAATAG
1 -AAA-AAAA-AG
1833781 AAAAAAAGAAG
1 -AAAAAA-AAG
1833792 AAAAAAAAG
1 AAAAAAAAG
*
1833801 AAGAAAAAG
1 AAAAAAAAG
1833810 AAAAAGAAAAG
1 -AAAA-AAAAG
1833821 AAAAAA
1 AAAAAA
1833827 TGGAAAGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
9 20 0.36
10 15 0.27
11 14 0.25
12 7 0.12
ACGTcount: A:0.82, C:0.01, G:0.16, T:0.01
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:1833789 original size:15 final size:14
Alignment explanation
Indices: 1833751--1833840 Score: 66
Period size: 13 Copynumber: 6.5 Consensus size: 14
1833741 AATATTATAT
1833751 AAAAAACAGAAGAAA-
1 AAAAAA-AGAA-AAAG
*
1833766 AAGAAAAGAAAATAG
1 AAAAAAAGAAAA-AG
1833781 AAAAAAAGAAGAAA-
1 AAAAAAAGAA-AAAG
1833795 AAAAAGAAGAAAAAG
1 AAAAA-AAGAAAAAG
1833810 --AAAAAG-AAAAG
1 AAAAAAAGAAAAAG
* *
1833821 AAAAAATG-GAAAG
1 AAAAAAAGAAAAAG
1833834 AAAAAAA
1 AAAAAAA
1833841 TGAGAGAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
11 5 0.08
12 3 0.05
13 20 0.32
14 13 0.21
15 20 0.32
16 2 0.03
ACGTcount: A:0.80, C:0.01, G:0.17, T:0.02
Consensus pattern (14 bp):
AAAAAAAGAAAAAG
Found at i:1833803 original size:41 final size:42
Alignment explanation
Indices: 1833751--1833851 Score: 127
Period size: 41 Copynumber: 2.4 Consensus size: 42
1833741 AATATTATAT
*
1833751 AAAAAACAGAAGAAAAAG-AAAAGAAAATAGAAAAAA-AG-AAG
1 AAAAAAAAGAAGAAAAAGAAAAAG-AAA-AGAAAAAATAGAAAG
*
1833792 AAAAAAAAGAAGAAAAAGAAAAAGAAAAGAAAAAATGGAAAG
1 AAAAAAAAGAAGAAAAAGAAAAAGAAAAGAAAAAATAGAAAG
*
1833834 AAAAAAATGAGAGAAAAA
1 AAAAAAAAGA-AGAAAAA
1833852 AAATATATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
40 8 0.15
41 21 0.40
42 17 0.32
43 7 0.13
ACGTcount: A:0.78, C:0.01, G:0.18, T:0.03
Consensus pattern (42 bp):
AAAAAAAAGAAGAAAAAGAAAAAGAAAAGAAAAAATAGAAAG
Found at i:1833825 original size:12 final size:11
Alignment explanation
Indices: 1833763--1833854 Score: 76
Period size: 12 Copynumber: 7.5 Consensus size: 11
1833753 AAAACAGAAG
1833763 AAAAAGAAAAGA
1 AAAAAGAAAA-A
*
1833775 AAATAGAAAAA
1 AAAAAGAAAAA
*
1833786 AAGAAGAAAAA
1 AAAAAGAAAAA
1833797 AAAGAAGAAAAA
1 AAA-AAGAAAAA
1833809 GAAAAAGAAAAGA
1 -AAAAAGAAAA-A
1833822 AAAAATGGAAAGAA
1 AAAAA--GAAA-AA
1833836 AAAAATGAGAGAAA
1 AAAAA-GA-A-AAA
1833850 AAAAA
1 AAAAA
1833855 TATATTTCAC
Statistics
Matches: 67, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
11 12 0.18
12 29 0.43
13 6 0.09
14 18 0.27
15 2 0.03
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.03
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:1833840 original size:14 final size:13
Alignment explanation
Indices: 1833779--1833853 Score: 57
Period size: 14 Copynumber: 5.7 Consensus size: 13
1833769 AAAAGAAAAT
1833779 AGAAAAAAA-G-A
1 AGAAAAAAATGAA
*
1833790 AGAAAAAAAAGAA
1 AGAAAAAAATGAA
* *
1833803 GAAAAAGAAAAAGAA
1 -AGAAA-AAAATGAA
1833818 A-AGAAAAAATGGAA
1 AGA-AAAAAAT-GAA
*
1833832 AGAAAAAAATGAG
1 AGAAAAAAATGAA
1833845 AGAAAAAAA
1 AGAAAAAAA
1833854 ATATATTTCA
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
11 9 0.17
12 1 0.02
13 17 0.31
14 18 0.33
15 9 0.17
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.03
Consensus pattern (13 bp):
AGAAAAAAATGAA
Found at i:1837468 original size:61 final size:61
Alignment explanation
Indices: 1837380--1837494 Score: 185
Period size: 61 Copynumber: 1.9 Consensus size: 61
1837370 TAAGGTGGAT
* *
1837380 ACGACCTAATGTATCATGTCCAGATTAGCACTATAGCGTAAGCTTAGTGTAGGTGGTGGGC
1 ACGACCTAATGTATCATATCCAGATTAGCACTATAGCGTAAGCTTAGTGCAGGTGGTGGGC
* * *
1837441 ACGACCTTATGTATCATATCCGGATTAGCACTATGGCGTAAGCTTAGTGCAGGT
1 ACGACCTAATGTATCATATCCAGATTAGCACTATAGCGTAAGCTTAGTGCAGGT
1837495 TTAGCACTAC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (61 bp):
ACGACCTAATGTATCATATCCAGATTAGCACTATAGCGTAAGCTTAGTGCAGGTGGTGGGC
Found at i:1837695 original size:47 final size:47
Alignment explanation
Indices: 1837604--1837808 Score: 310
Period size: 47 Copynumber: 4.4 Consensus size: 47
1837594 GTAAGTATGC
*
1837604 AAATAAGCTTACGAGCTTAT-GAA--T-AATGGCAAGTATATTGATA
1 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATATTGATA
*
1837647 AAATAAGCTTAAGAGCTTATGGAATTTAAATGGTAAGTATATTGATA
1 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATATTGATA
* * * *
1837694 AAATAAGTTTATGAGCTTAGGGAATTTAAATGGTAAGTATGTTGATA
1 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATATTGATA
* *
1837741 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATATTGATA
1837788 AAATAAGCTTACGAGCTTATG
1 AAATAAGCTTACGAGCTTATG
1837809 AGATAAATGA
Statistics
Matches: 147, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
43 19 0.13
44 3 0.02
46 1 0.01
47 124 0.84
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (47 bp):
AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATATTGATA
Found at i:1838211 original size:12 final size:12
Alignment explanation
Indices: 1838194--1838220 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1838184 GGAAGTTACT
1838194 GTAGCATGAACA
1 GTAGCATGAACA
1838206 GTAGCATGAACA
1 GTAGCATGAACA
1838218 GTA
1 GTA
1838221 ACCACAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.15, G:0.26, T:0.19
Consensus pattern (12 bp):
GTAGCATGAACA
Found at i:1840703 original size:23 final size:24
Alignment explanation
Indices: 1840670--1840728 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
1840660 CAGTCGAAAC
* *
1840670 TGCCACATAGAAT-TGCATCAAAG
1 TGCCACGTAGAATATGCACCAAAG
*
1840693 TGCCACGTAGAATATGCACCGAAG
1 TGCCACGTAGAATATGCACCAAAG
1840717 TGCCACGTAGAA
1 TGCCACGTAGAA
1840729 ATTGTCCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 12 0.38
24 20 0.62
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.19
Consensus pattern (24 bp):
TGCCACGTAGAATATGCACCAAAG
Found at i:1840762 original size:47 final size:47
Alignment explanation
Indices: 1840711--1840822 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
1840701 AGAATATGCA
* *
1840711 CCGAAGTG-CCACGTAGAAATTGTCCTAAAAGACCACATAGTATTGTC
1 CCGAAG-GACCACGTAGAAATTGTCCCAAAAGACCACATAGAATTGTC
* * * *
1840758 CCGAAGGACCGCGTAGAAATTGTCCCGAAGGACCACGTAGAATTGTC
1 CCGAAGGACCACGTAGAAATTGTCCCAAAAGACCACATAGAATTGTC
* *
1840805 CCGAAAGACCGCGTAGAA
1 CCGAAGGACCACGTAGAA
1840823 CCCTCGACTC
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 1 0.02
47 56 0.98
ACGTcount: A:0.33, C:0.25, G:0.24, T:0.18
Consensus pattern (47 bp):
CCGAAGGACCACGTAGAAATTGTCCCAAAAGACCACATAGAATTGTC
Found at i:1840767 original size:23 final size:23
Alignment explanation
Indices: 1840695--1840822 Score: 125
Period size: 23 Copynumber: 5.4 Consensus size: 23
1840685 CATCAAAGTG
1840695 CCACGTAGAATATG-CACCGAAGTG-
1 CCACGTAGAAT-TGTC-CCGAAG-GA
** *
1840719 CCACGTAGAAATTGTCCTAAAAGA
1 CCACGTAG-AATTGTCCCGAAGGA
* *
1840743 CCACATAGTATTGTCCCGAAGGA
1 CCACGTAGAATTGTCCCGAAGGA
*
1840766 CCGCGTAGAAATTGTCCCGAAGGA
1 CCACGTAG-AATTGTCCCGAAGGA
*
1840790 CCACGTAGAATTGTCCCGAAAGA
1 CCACGTAGAATTGTCCCGAAGGA
*
1840813 CCGCGTAGAA
1 CCACGTAGAA
1840823 CCCTCGACTC
Statistics
Matches: 86, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
23 41 0.48
24 41 0.48
25 4 0.05
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (23 bp):
CCACGTAGAATTGTCCCGAAGGA
Found at i:1843064 original size:17 final size:17
Alignment explanation
Indices: 1843038--1843105 Score: 59
Period size: 17 Copynumber: 4.0 Consensus size: 17
1843028 AATATCAAAT
*
1843038 TTATTGAAAATTAAAAA
1 TTATTAAAAATTAAAAA
*
1843055 TTATTAAAAATT-GAAA
1 TTATTAAAAATTAAAAA
* *
1843071 -TATTTAAAAGTTCAAAA
1 TTA-TTAAAAATTAAAAA
*
1843088 TAATTAAAAATTATAAAA
1 TTATTAAAAATTA-AAAA
1843106 AATTAAAAGC
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
15 2 0.05
16 11 0.28
17 22 0.55
18 5 0.12
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.35
Consensus pattern (17 bp):
TTATTAAAAATTAAAAA
Found at i:1843120 original size:34 final size:32
Alignment explanation
Indices: 1843051--1843131 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 32
1843041 TTGAAAATTA
* * *
1843051 AAAATTATTAAAAATTGAAATATTTAAAAGTTC
1 AAAA-TATTAAAAATTGAAAAAATTAAAAGCTC
*
1843084 AAAATAATTAAAAATTATAAAAAATTAAAAGCTC
1 AAAAT-ATTAAAAATT-GAAAAAATTAAAAGCTC
1843118 AAAATATTCAAAAA
1 AAAATATT-AAAAA
1843132 GTATTTAGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
32 1 0.02
33 17 0.41
34 23 0.56
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.30
Consensus pattern (32 bp):
AAAATATTAAAAATTGAAAAAATTAAAAGCTC
Found at i:1843128 original size:43 final size:43
Alignment explanation
Indices: 1843046--1843130 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
1843036 ATTTATTGAA
* * * *
1843046 AATTAAAAATTATTAAAAATTGAAATATTTAAAAGTTCAAAAT
1 AATTAAAAATTATAAAAAATTGAAATACTCAAAAATTCAAAAT
1843089 AATTAAAAATTATAAAAAATT-AAA-AGCTCAAAATATTCAAAA
1 AATTAAAAATTATAAAAAATTGAAATA-CTCAAAA-ATTCAAAA
1843131 AGTATTTAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 1 0.03
42 8 0.22
43 27 0.75
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.31
Consensus pattern (43 bp):
AATTAAAAATTATAAAAAATTGAAATACTCAAAAATTCAAAAT
Found at i:1845807 original size:27 final size:25
Alignment explanation
Indices: 1845777--1845832 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
1845767 GAAATGTGTT
1845777 AGATAAACAAGGTAAAAAAAACAAATA
1 AGATAAACAAGG-AAAAAAAA-AAATA
*
1845804 AGAT--ACAAGGAAAAAATAAAATA
1 AGATAAACAAGGAAAAAAAAAAATA
1845827 A-ATAAA
1 AGATAAA
1845833 ATAAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
22 2 0.08
23 6 0.23
24 8 0.31
25 6 0.23
27 4 0.15
ACGTcount: A:0.71, C:0.05, G:0.11, T:0.12
Consensus pattern (25 bp):
AGATAAACAAGGAAAAAAAAAAATA
Found at i:1845831 original size:9 final size:9
Alignment explanation
Indices: 1845817--1845849 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
1845807 TACAAGGAAA
1845817 AAATAAAAT
1 AAATAAAAT
1845826 AAATAAAAT
1 AAATAAAAT
1845835 AAATAAAAT
1 AAATAAAAT
1845844 AAATAA
1 AAATAA
1845850 GTAAGATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAATAAAAT
Found at i:1845858 original size:18 final size:17
Alignment explanation
Indices: 1845817--1845870 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 17
1845807 TACAAGGAAA
*
1845817 AAATAAAATAAATAAAAT
1 AAATAAAATAAAT-AAGT
1845835 AAATAAAATAAATAAGT
1 AAATAAAATAAATAAGT
1845852 AAGATAAAA-AAAT-AGT
1 AA-ATAAAATAAATAAGT
1845868 AAA
1 AAA
1845871 GTAATAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
15 1 0.03
16 5 0.15
17 9 0.26
18 19 0.56
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (17 bp):
AAATAAAATAAATAAGT
Found at i:1845915 original size:2 final size:2
Alignment explanation
Indices: 1845910--1845942 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1845900 AAAGGAAAAA
1845910 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 A
1845943 CCCAAATACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1846430 original size:18 final size:17
Alignment explanation
Indices: 1846407--1846449 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
1846397 ATATATACAT
1846407 ATAATAATAATAACATAA
1 ATAATAATAATAA-ATAA
* *
1846425 ATAATAAAAATAAATGA
1 ATAATAATAATAAATAA
1846442 ATAA-AATA
1 ATAATAATA
1846450 TCCATATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 12 0.55
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATAA
Found at i:1846446 original size:14 final size:13
Alignment explanation
Indices: 1846409--1846447 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
1846399 ATATACATAT
1846409 AATAATAATAACATA
1 AATAATAA-AA-ATA
1846424 AATAATAAAAATA
1 AATAATAAAAATA
1846437 AATGAATAAAA
1 AAT-AATAAAA
1846448 TATCCATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.26
14 9 0.39
15 8 0.35
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (13 bp):
AATAATAAAAATA
Found at i:1846856 original size:37 final size:37
Alignment explanation
Indices: 1846806--1846910 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
1846796 GTGCTTGTGG
* * * *
1846806 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * * *
1846843 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
1846880 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1846911 GACAAAAATG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:1847761 original size:105 final size:105
Alignment explanation
Indices: 1847453--1847978 Score: 717
Period size: 105 Copynumber: 5.0 Consensus size: 105
1847443 TTATTGTTCC
* * ** *
1847453 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACA
* * * * *
1847517 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
64 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1847559 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGA-A-T--GAAATT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
* *
1847619 CAGCGGTCCCTTTGTCGT-AGAGTTGAACTTGCATTGTCTG
66 CAGCGGTCCCTTCGTCGTGA-AGTTGAACTTGCGTTGTCTG
*
1847659 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTTGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1847724 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1847764 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
1847829 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
1847869 AAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAA
* * * *
1847934 CCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 GCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1847975 GAGT
1 GAGT
1847979 GTCACGATAT
Statistics
Matches: 378, Mismatches: 32, Indels: 20
0.88 0.07 0.05
Matches are distributed among these distances:
99 1 0.00
100 80 0.21
101 1 0.00
102 7 0.02
104 5 0.01
105 199 0.53
106 84 0.22
107 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:1848225 original size:36 final size:36
Alignment explanation
Indices: 1848178--1848253 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
1848168 TGTTTGGAGA
* * *
1848178 GAAACTGTCTCAAGGGAGACAAAATTCGTTTTAAGG
1 GAAACTATCTCAAGGGAGACAAAATTCATTTCAAGG
* *
1848214 GAAACTATCTCAAGTGAGATAAAATTCATTTCAAGG
1 GAAACTATCTCAAGGGAGACAAAATTCATTTCAAGG
1848250 GAAA
1 GAAA
1848254 TGTTTTCAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (36 bp):
GAAACTATCTCAAGGGAGACAAAATTCATTTCAAGG
Found at i:1848288 original size:101 final size:103
Alignment explanation
Indices: 1848153--1848342 Score: 276
Period size: 101 Copynumber: 1.9 Consensus size: 103
1848143 TTCGTTAAAT
** *
1848153 TGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAA-TTC-GTTTTAAGGGA
1 TGTTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTCTGTTTCAAGGGA
**
1848216 AACTATCTCAAGTGAGATAAAATTCATTTCAAGGGAAA
66 AACTATCTCAAGCAAGATAAAATTCATTTCAAGGGAAA
* * * *
1848254 TGTTTTCAATGTTTATGTTTCAAGAGAGATTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTCTGTTTCAAGGG
1848319 AAACTATCTCAAGCAAGATAAAAT
65 AAACTATCTCAAGCAAGATAAAAT
1848343 CTTCTTAAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
101 44 0.57
103 3 0.04
104 30 0.39
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (103 bp):
TGTTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTCTGTTTCAAGGGA
AACTATCTCAAGCAAGATAAAATTCATTTCAAGGGAAA
Found at i:1848433 original size:36 final size:36
Alignment explanation
Indices: 1848393--1848503 Score: 109
Period size: 36 Copynumber: 3.1 Consensus size: 36
1848383 CTTTCGAGTG
* *
1848393 AAAACGGTCTCAAGCGAGACAAATCTTGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
* ** * * *
1848429 AAAACAATCTTGAGTGAAATAAATCTT-TTTTCGAGA
1 AAAACAGTCTCAAGTGAGACAAATCTTGTTTT-AAGA
*
1848465 AAAACAGTCTCAAGTGAGACAAAGT-ATGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAA-TCTTGTTTTAAGA
1848501 AAA
1 AAA
1848504 CAAATTTGAG
Statistics
Matches: 57, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
35 4 0.07
36 48 0.84
37 5 0.09
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (36 bp):
AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
Found at i:1848514 original size:71 final size:74
Alignment explanation
Indices: 1848347--1848521 Score: 198
Period size: 72 Copynumber: 2.4 Consensus size: 74
1848337 TAAAATCTTC
* ** * *
1848347 TTAAAAAAAACAGCCTTGAGTGAAATGAAATGCCTTCTTTCGAGTGAAAACGGTCTCAAGCGAGA
1 TTAAGAAAAACAATCTTGAGTGAAAT-AAAT-CCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGA
*
1848412 CAAATCTTGTT
64 CAAATCATGTT
* *
1848423 TTAAGAAAAACAATCTTGAGTGAAATAAAT-CTTTTTTCGAG-AAAAACAGTCTCAAGTGAGACA
1 TTAAGAAAAACAATCTTGAGTGAAATAAATCCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGACA
1848486 AAGT-ATGTT
66 AA-TCATGTT
*
1848495 TTAAG-AAAACAAAT-TTGAGTGAGATAA
1 TTAAGAAAAAC-AATCTTGAGTGAAATAA
1848522 TCATCTGCAT
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
71 17 0.19
72 33 0.38
73 11 0.12
75 4 0.05
76 23 0.26
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (74 bp):
TTAAGAAAAACAATCTTGAGTGAAATAAATCCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGACA
AATCATGTT
Found at i:1849955 original size:183 final size:183
Alignment explanation
Indices: 1849645--1850181 Score: 986
Period size: 183 Copynumber: 2.9 Consensus size: 183
1849635 ATCAGGTTTA
*
1849645 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
* ** *
1849710 GCCAAGTGTCCGAGCAATGTCAT-GATTTGAATGTAATCTATTCATAAAGCCAGGGATTTCGAGT
66 GCCAAGTGTCCGAGCAGTGTCATAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
1849774 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
*
1849828 ACTGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
*
1849893 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGGCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
1849958 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
*
1850011 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGAAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1850076 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
1850141 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
1850182 CGGATTTAAT
Statistics
Matches: 343, Mismatches: 10, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
183 342 1.00
184 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (183 bp):
ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
Found at i:1854510 original size:15 final size:17
Alignment explanation
Indices: 1854468--1854524 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 17
1854458 TTTTTTAAAA
*
1854468 AAATATATAATAATAAT
1 AAATATATAAAAATAAT
* *
1854485 -GA-ATA-AAAAATGA-
1 AAATATATAAAAATAAT
1854498 AAATA-ATAAAAATAAT
1 AAATATATAAAAATAAT
1854514 AAATATATAAA
1 AAATATATAAA
1854525 GTTATAAGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
14 8 0.27
15 11 0.37
16 6 0.20
17 5 0.17
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (17 bp):
AAATATATAAAAATAAT
Found at i:1854730 original size:18 final size:17
Alignment explanation
Indices: 1854707--1854749 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
1854697 AAATATATAT
1854707 ATAATAATAATAACATAA
1 ATAATAATAATAA-ATAA
* *
1854725 ATAATAAAAATAAATGA
1 ATAATAATAATAAATAA
1854742 ATAA-AATA
1 ATAATAATA
1854750 TCCATATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 12 0.55
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATAA
Found at i:1854746 original size:14 final size:13
Alignment explanation
Indices: 1854709--1854747 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
1854699 ATATATATAT
1854709 AATAATAATAACATA
1 AATAATAA-AA-ATA
1854724 AATAATAAAAATA
1 AATAATAAAAATA
1854737 AATGAATAAAA
1 AAT-AATAAAA
1854748 TATCCATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.26
14 9 0.39
15 8 0.35
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (13 bp):
AATAATAAAAATA
Found at i:1856414 original size:20 final size:20
Alignment explanation
Indices: 1856389--1856431 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1856379 TCTAAGAGCC
1856389 CATTTAGAACCATATAGATG
1 CATTTAGAACCATATAGATG
* * *
1856409 CATTTAGGAGCATATAGTTG
1 CATTTAGAACCATATAGATG
1856429 CAT
1 CAT
1856432 GTGGTGGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (20 bp):
CATTTAGAACCATATAGATG
Found at i:1857954 original size:20 final size:22
Alignment explanation
Indices: 1857929--1857969 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
1857919 CACACCACCA
1857929 TCATTCCA-TTT-CCACATCAG
1 TCATTCCATTTTGCCACATCAG
1857949 TCATTCCATTTTGCCACATCA
1 TCATTCCATTTTGCCACATCA
1857970 TTATCATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 3 0.16
22 8 0.42
ACGTcount: A:0.24, C:0.34, G:0.05, T:0.37
Consensus pattern (22 bp):
TCATTCCATTTTGCCACATCAG
Found at i:1860136 original size:3 final size:3
Alignment explanation
Indices: 1860130--1860154 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1860120 ATTATGGTTC
1860130 GCT GCT GCT GCT GCT GCT GCT GCT G
1 GCT GCT GCT GCT GCT GCT GCT GCT G
1860155 TTTCTAGTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.36, T:0.32
Consensus pattern (3 bp):
GCT
Found at i:1867473 original size:18 final size:18
Alignment explanation
Indices: 1867450--1867489 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
1867440 GCACACCACG
1867450 CCACTGCCAAGGGTGGCA
1 CCACTGCCAAGGGTGGCA
1867468 CCACTGCCAAGGGTGGCA
1 CCACTGCCAAGGGTGGCA
1867486 CCAC
1 CCAC
1867490 AATTTGACGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.38, G:0.30, T:0.10
Consensus pattern (18 bp):
CCACTGCCAAGGGTGGCA
Found at i:1868695 original size:15 final size:16
Alignment explanation
Indices: 1868675--1868715 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
1868665 GTTTACTTCA
*
1868675 GAATGATT-AAGCGCT
1 GAATGATTCAAACGCT
*
1868690 GAATGATTCAAATGCT
1 GAATGATTCAAACGCT
1868706 GAATGATTCA
1 GAATGATTCA
1868716 GAGACTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:1877354 original size:857 final size:857
Alignment explanation
Indices: 1875702--1877424 Score: 3401
Period size: 857 Copynumber: 2.0 Consensus size: 857
1875692 TATACTGTTA
*
1875702 GTTCTCATCTGTTGTTTTTCCTCTTCCTTTCCGATATGCGAACCATCCAATTACATCCGTTTTCG
1 GTTCTCATCTGTTGTTTTTCCTCTTCCTTTCCGATACGCGAACCATCCAATTACATCCGTTTTCG
1875767 TGTCGTGCATAGTAACATACATATTTTTCTGTCGTGGAGCGGTCGACTCTCGATTGAACAGAATT
66 TGTCGTGCATAGTAACATACATATTTTTCTGTCGTGGAGCGGTCGACTCTCGATTGAACAGAATT
1875832 ACAGATATTGTAATTTTTTATAGCCATCATCATTTCTTATTTCCTTGAAAACTCCATGCCTAAAT
131 ACAGATATTGTAATTTTTTATAGCCATCATCATTTCTTATTTCCTTGAAAACTCCATGCCTAAAT
1875897 ATAACTCACCATTATTTTTTGATGAGTAATATCCATAGTCTCCGAGATGAGGCATATCCGTAAAT
196 ATAACTCACCATTATTTTTTGATGAGTAATATCCATAGTCTCCGAGATGAGGCATATCCGTAAAT
1875962 TCTGGCCCATACATTGCACCATGATCAACTTCATACATGTATGCTGGAGGGTCAGTTTGTGTCAC
261 TCTGGCCCATACATTGCACCATGATCAACTTCATACATGTATGCTGGAGGGTCAGTTTGTGTCAC
1876027 ATTTGCTGGAACTTCATCCACATCATCATCATCATCGTCATCAGAGTTGAATTGCGGTGATTCTG
326 ATTTGCTGGAACTTCATCCACATCATCATCATCATCGTCATCAGAGTTGAATTGCGGTGATTCTG
1876092 GGTGAATGAATAGTCCAGTCTCAGCACCATCCGCACCAGGCTCACGAAGCGGTTCTTCTGGTGGA
391 GGTGAATGAATAGTCCAGTCTCAGCACCATCCGCACCAGGCTCACGAAGCGGTTCTTCTGGTGGA
1876157 GATGATGGTTCCTCCATGAACTGGAAGGCATATCGACATTCAGATCGAAAAAGCTCGCAGTCGAA
456 GATGATGGTTCCTCCATGAACTGGAAGGCATATCGACATTCAGATCGAAAAAGCTCGCAGTCGAA
1876222 TACCTTCCCTAGAGCTTGAAGCCATCGTGTCAAATGGAAACTACACAGATGGTTGCGTCGATGTC
521 TACCTTCCCTAGAGCTTGAAGCCATCGTGTCAAATGGAAACTACACAGATGGTTGCGTCGATGTC
1876287 ATCTCCATATTAAGGTCAAACGGATTTGCAGATGAATGCCTTCCCCTTGAACTGGACGCGATGTT
586 ATCTCCATATTAAGGTCAAACGGATTTGCAGATGAATGCCTTCCCCTTGAACTGGACGCGATGTT
1876352 GCCATACGGATTGTTCTTCAACCCACCTCGGTACATTAAAATCATTACACATTACTGTCGTTGGG
651 GCCATACGGATTGTTCTTCAACCCACCTCGGTACATTAAAATCATTACACATTACTGTCGTTGGG
1876417 TTGTCAACTTGATCAACTTGTTCAGCCAGCTGATGCAGAGGGATCCGAGACAGATGATGCTGAGC
716 TTGTCAACTTGATCAACTTGTTCAGCCAGCTGATGCAGAGGGATCCGAGACAGATGATGCTGAGC
*
1876482 TGTCAGATTGCACCTTGATGGCTCTGAGATACTATGAGTTGGCAGATCAGCGCAAAGGCGGGAAT
781 TGTCAGATTGCACCTTGATGGCTCTGAGATACTATGAGTTGGCAGATCAGCACAAAGGCGGGAAT
1876547 TGATTGTGATAT
846 TGATTGTGATAT
1876559 GTTCTCATCTGTTGTTTTTCCTCTTCCTTTCCGATACGCGAACCATCCAATTACATCCGTTTTCG
1 GTTCTCATCTGTTGTTTTTCCTCTTCCTTTCCGATACGCGAACCATCCAATTACATCCGTTTTCG
1876624 TGTCGTGCATAGTAACATACATATTTTTCTGTCGTGGAGCGGTCGACTCTCGATTGAACAGAATT
66 TGTCGTGCATAGTAACATACATATTTTTCTGTCGTGGAGCGGTCGACTCTCGATTGAACAGAATT
*
1876689 ACGGATATTGTAATTTTTTATAGCCATCATCATTTCTTATTTCCTTGAAAACTCCATGCCTAAAT
131 ACAGATATTGTAATTTTTTATAGCCATCATCATTTCTTATTTCCTTGAAAACTCCATGCCTAAAT
1876754 ATAACTCACCATTATTTTTTGATGAGTAATATCCATAGTCTCCGAGATGAGGCATATCCGTAAAT
196 ATAACTCACCATTATTTTTTGATGAGTAATATCCATAGTCTCCGAGATGAGGCATATCCGTAAAT
1876819 TCTGGCCCATACATTGCACCATGATCAACTTCATACATGTATGCTGGAGGGTCAGTTTGTGTCAC
261 TCTGGCCCATACATTGCACCATGATCAACTTCATACATGTATGCTGGAGGGTCAGTTTGTGTCAC
1876884 ATTTGCTGGAACTTCATCCACATCATCATCATCATCGTCATCAGAGTTGAATTGCGGTGATTCTG
326 ATTTGCTGGAACTTCATCCACATCATCATCATCATCGTCATCAGAGTTGAATTGCGGTGATTCTG
1876949 GGTGAATGAATAGTCCAGTCTCAGCACCATCCGCACCAGGCTCACGAAGCGGTTCTTCTGGTGGA
391 GGTGAATGAATAGTCCAGTCTCAGCACCATCCGCACCAGGCTCACGAAGCGGTTCTTCTGGTGGA
1877014 GATGATGGTTCCTCCATGAACTGGAAGGCATATCGACATTCAGATCGAAAAAGCTCGCAGTCGAA
456 GATGATGGTTCCTCCATGAACTGGAAGGCATATCGACATTCAGATCGAAAAAGCTCGCAGTCGAA
*
1877079 TACCTTCCCTAGAGCTTGAAGCCATCGTGTCAAATGGAAACTGCACAGATGGTTGCGTCGATGTC
521 TACCTTCCCTAGAGCTTGAAGCCATCGTGTCAAATGGAAACTACACAGATGGTTGCGTCGATGTC
1877144 ATCTCCATATTAAGGTCAAACGGATTTGCAGATGAATGCCTTCCCCTTGAACTGGACGCGATGTT
586 ATCTCCATATTAAGGTCAAACGGATTTGCAGATGAATGCCTTCCCCTTGAACTGGACGCGATGTT
1877209 GCCATACGGATTGTTCTTCAACCCACCTCGGTACATTAAAATCATTACACATTACTGTCGTTGGG
651 GCCATACGGATTGTTCTTCAACCCACCTCGGTACATTAAAATCATTACACATTACTGTCGTTGGG
1877274 TTGTCAACTTGATCAACTTGTTCAGCCAGCTGATGCAGAGGGATCCGAGACAGATGATGCTGAGC
716 TTGTCAACTTGATCAACTTGTTCAGCCAGCTGATGCAGAGGGATCCGAGACAGATGATGCTGAGC
1877339 TGTCAGATTGCACCTTGATGGCTCTGAGATACTATGAGTTGGCAGATCAGCACAAAGGCGGGAAT
781 TGTCAGATTGCACCTTGATGGCTCTGAGATACTATGAGTTGGCAGATCAGCACAAAGGCGGGAAT
1877404 TGATTGTGATAT
846 TGATTGTGATAT
1877416 GTTCCTCAT
1 GTT-CTCAT
1877425 TGGGGCCATT
Statistics
Matches: 861, Mismatches: 4, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
857 856 0.99
858 5 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (857 bp):
GTTCTCATCTGTTGTTTTTCCTCTTCCTTTCCGATACGCGAACCATCCAATTACATCCGTTTTCG
TGTCGTGCATAGTAACATACATATTTTTCTGTCGTGGAGCGGTCGACTCTCGATTGAACAGAATT
ACAGATATTGTAATTTTTTATAGCCATCATCATTTCTTATTTCCTTGAAAACTCCATGCCTAAAT
ATAACTCACCATTATTTTTTGATGAGTAATATCCATAGTCTCCGAGATGAGGCATATCCGTAAAT
TCTGGCCCATACATTGCACCATGATCAACTTCATACATGTATGCTGGAGGGTCAGTTTGTGTCAC
ATTTGCTGGAACTTCATCCACATCATCATCATCATCGTCATCAGAGTTGAATTGCGGTGATTCTG
GGTGAATGAATAGTCCAGTCTCAGCACCATCCGCACCAGGCTCACGAAGCGGTTCTTCTGGTGGA
GATGATGGTTCCTCCATGAACTGGAAGGCATATCGACATTCAGATCGAAAAAGCTCGCAGTCGAA
TACCTTCCCTAGAGCTTGAAGCCATCGTGTCAAATGGAAACTACACAGATGGTTGCGTCGATGTC
ATCTCCATATTAAGGTCAAACGGATTTGCAGATGAATGCCTTCCCCTTGAACTGGACGCGATGTT
GCCATACGGATTGTTCTTCAACCCACCTCGGTACATTAAAATCATTACACATTACTGTCGTTGGG
TTGTCAACTTGATCAACTTGTTCAGCCAGCTGATGCAGAGGGATCCGAGACAGATGATGCTGAGC
TGTCAGATTGCACCTTGATGGCTCTGAGATACTATGAGTTGGCAGATCAGCACAAAGGCGGGAAT
TGATTGTGATAT
Found at i:1881204 original size:15 final size:15
Alignment explanation
Indices: 1881180--1881214 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1881170 GTATTATTAA
*
1881180 ATTAATTTATAAAAT
1 ATTAAATTATAAAAT
1881195 ATTAAATTATAAAAT
1 ATTAAATTATAAAAT
1881210 ATTAA
1 ATTAA
1881215 TGTATAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTAAATTATAAAAT
Found at i:1881220 original size:15 final size:14
Alignment explanation
Indices: 1881180--1881221 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 14
1881170 GTATTATTAA
1881180 ATTAATTTATAAAAT
1 ATTAA-TTATAAAAT
1881195 ATTAAATTATAAAAT
1 ATT-AATTATAAAAT
1881210 ATTAATGTATAA
1 ATTAAT-TATAA
1881222 TTATAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.12
15 20 0.80
16 2 0.08
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (14 bp):
ATTAATTATAAAAT
Found at i:1883223 original size:14 final size:14
Alignment explanation
Indices: 1883204--1883235 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
1883194 AAGTGAGTGG
1883204 TTGAAGCTTTGTGT
1 TTGAAGCTTTGTGT
1883218 TTGAAGCTTTGTGT
1 TTGAAGCTTTGTGT
1883232 TTGA
1 TTGA
1883236 CGACTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.16, C:0.06, G:0.28, T:0.50
Consensus pattern (14 bp):
TTGAAGCTTTGTGT
Found at i:1883467 original size:30 final size:30
Alignment explanation
Indices: 1883422--1883481 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
1883412 TGAATAAAGA
1883422 TGAAGACGCACTGTCTTCCCAGCGACTTTC
1 TGAAGACGCACTGTCTTCCCAGCGACTTTC
* * *
1883452 TGAAGATGCATTGTCTTCCCGGCGACTTTC
1 TGAAGACGCACTGTCTTCCCAGCGACTTTC
1883482 GATAGATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.18, C:0.30, G:0.22, T:0.30
Consensus pattern (30 bp):
TGAAGACGCACTGTCTTCCCAGCGACTTTC
Found at i:1886941 original size:23 final size:23
Alignment explanation
Indices: 1886892--1886946 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
1886882 GTTTTTTCTC
1886892 TTTTTTTCTTTTTCGAACATCTT
1 TTTTTTTCTTTTTCGAACATCTT
*
1886915 TTTTCTTT-TTTTTCGAAC-TGTT
1 TTTT-TTTCTTTTTCGAACATCTT
1886937 GTTTTTTTCT
1 -TTTTTTTCT
1886947 CTCTCTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 6 0.21
23 19 0.68
24 3 0.11
ACGTcount: A:0.09, C:0.15, G:0.07, T:0.69
Consensus pattern (23 bp):
TTTTTTTCTTTTTCGAACATCTT
Found at i:1887449 original size:18 final size:18
Alignment explanation
Indices: 1887411--1887446 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1887401 ATCCTAACCT
*
1887411 AAACAATCATGTGTTCCC
1 AAACAATCATGTATTCCC
1887429 AAACAATCATGATATTCC
1 AAACAATCATG-TATTCC
1887447 AAAAATTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.25, G:0.08, T:0.28
Consensus pattern (18 bp):
AAACAATCATGTATTCCC
Found at i:1889183 original size:16 final size:16
Alignment explanation
Indices: 1889148--1889210 Score: 92
Period size: 16 Copynumber: 3.9 Consensus size: 16
1889138 TGATCGAATA
1889148 AAAAATAAAATAAAAT
1 AAAAATAAAATAAAAT
1889164 -AAAATAAAATAAAAT
1 AAAAATAAAATAAAAT
*
1889179 AAAAATAACATAAAAT
1 AAAAATAAAATAAAAT
*
1889195 AAAAACAAAAATAAAA
1 AAAAA-TAAAATAAAA
1889211 ATGTAATGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
15 15 0.36
16 19 0.45
17 8 0.19
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAAATAAAATAAAAT
Found at i:1889210 original size:5 final size:5
Alignment explanation
Indices: 1889149--1889198 Score: 82
Period size: 5 Copynumber: 9.8 Consensus size: 5
1889139 GATCGAATAA
*
1889149 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAAT AACAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAA
1889199 ACAAAAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
5 37 0.88
6 5 0.12
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:1889222 original size:28 final size:29
Alignment explanation
Indices: 1889148--1889212 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 29
1889138 TGATCGAATA
* * *
1889148 AAAAATAAAATAAAATAAAATAAAATAAAAT
1 AAAAATAACATAAAATTAAA-AACA-AAAAT
1889179 AAAAATAACATAAAA-TAAAAACAAAAAT
1 AAAAATAACATAAAATTAAAAACAAAAAT
1889207 AAAAAT
1 AAAAAT
1889213 GTAATGAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 11 0.35
29 3 0.10
30 3 0.10
31 14 0.45
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (29 bp):
AAAAATAACATAAAATTAAAAACAAAAAT
Found at i:1898803 original size:195 final size:195
Alignment explanation
Indices: 1898471--1898823 Score: 679
Period size: 195 Copynumber: 1.8 Consensus size: 195
1898461 TCAACTCTGT
*
1898471 TATTTGATTTTGTTTTTCGTTTGATTTGTTTTTTGCATTTGGTCAAGTTTTGCTTTGGAGTTTCT
1 TATTTGATTTTGTTTTTCGTTTGATTTGTTTTTTGCATTTGGTCAAGTTTTGCTTTGGAATTTCT
1898536 AATTTCTTATTCTTGATCTGTCATTTTCTTATGTTAAATCGTGTTTTTGTCTTCGCATATCTGAA
66 AATTTCTTATTCTTGATCTGTCATTTTCTTATGTTAAATCGTGTTTTTGTCTTCGCATATCTGAA
1898601 ATTTCTTTCCTGTGAACTATAAGAATCTCTCGATTCAATCCGTTTCTAGGTTTTTCTTTTTCCAG
131 ATTTCTTTCCTGTGAACTATAAGAATCTCTCGATTCAATCCGTTTCTAGGTTTTTCTTTTTCCAG
1898666 TATTTGATTTTGTTTTTCGTTTGATTTGTTTTTTGCATTTGGTCAAGTTTTGCTTTGGAATTTCT
1 TATTTGATTTTGTTTTTCGTTTGATTTGTTTTTTGCATTTGGTCAAGTTTTGCTTTGGAATTTCT
1898731 AATTTCTTATTCTTGATCTGTCATTTTCTTATGTTAAATCGTGTTTTTGTCTTCGCATATCTGAA
66 AATTTCTTATTCTTGATCTGTCATTTTCTTATGTTAAATCGTGTTTTTGTCTTCGCATATCTGAA
* *
1898796 ATTTCTTTCCTGTGAACTGTAGGAATCT
131 ATTTCTTTCCTGTGAACTATAAGAATCT
1898824 ATAGATTTAT
Statistics
Matches: 155, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
195 155 1.00
ACGTcount: A:0.17, C:0.14, G:0.15, T:0.54
Consensus pattern (195 bp):
TATTTGATTTTGTTTTTCGTTTGATTTGTTTTTTGCATTTGGTCAAGTTTTGCTTTGGAATTTCT
AATTTCTTATTCTTGATCTGTCATTTTCTTATGTTAAATCGTGTTTTTGTCTTCGCATATCTGAA
ATTTCTTTCCTGTGAACTATAAGAATCTCTCGATTCAATCCGTTTCTAGGTTTTTCTTTTTCCAG
Found at i:1903850 original size:6 final size:6
Alignment explanation
Indices: 1903839--1903864 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1903829 ATCATTGGGT
1903839 AGAGGC AGAGGC AGAGGC AGAGGC AG
1 AGAGGC AGAGGC AGAGGC AGAGGC AG
1903865 GGATCATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.50, T:0.00
Consensus pattern (6 bp):
AGAGGC
Found at i:1907744 original size:12 final size:12
Alignment explanation
Indices: 1907727--1907752 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1907717 CATCAGTTGT
1907727 GCAATCTGTTAG
1 GCAATCTGTTAG
1907739 GCAATCTGTTAG
1 GCAATCTGTTAG
1907751 GC
1 GC
1907753 TTATGTTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (12 bp):
GCAATCTGTTAG
Found at i:1908865 original size:34 final size:35
Alignment explanation
Indices: 1908822--1908961 Score: 194
Period size: 35 Copynumber: 4.0 Consensus size: 35
1908812 TGAATAAGAA
* * *
1908822 GAACGAAAGGAAGCAT-TGCACTTTTGATTTAAGT
1 GAACGAAAGGAAGCATCAGCACTTTCGATTCAAGT
*
1908856 GAACGAAAGGAAGCATCAGCACTTTCGATTCAAGAA
1 GAACGAAAGGAAGCATCAGCACTTTCGATTCAAG-T
*
1908892 GAACGAAAGGAAGCAT-GGCACTTTCGATTCAAGT
1 GAACGAAAGGAAGCATCAGCACTTTCGATTCAAGT
* *
1908926 GAACGGAAGGAAGCATCCGCACTTTCGATTCAAGT
1 GAACGAAAGGAAGCATCAGCACTTTCGATTCAAGT
1908961 G
1 G
1908962 TTCATCTTTT
Statistics
Matches: 95, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
34 31 0.33
35 48 0.51
36 16 0.17
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (35 bp):
GAACGAAAGGAAGCATCAGCACTTTCGATTCAAGT
Found at i:1908930 original size:70 final size:70
Alignment explanation
Indices: 1908817--1908959 Score: 241
Period size: 70 Copynumber: 2.0 Consensus size: 70
1908807 GAAGGTGAAT
* * *
1908817 AAGAAGAACGAAAGGAAGCATTGCACTTTTGATTTAAGTGAACGAAAGGAAGCATCAGCACTTTC
1 AAGAAGAACGAAAGGAAGCATGGCACTTTCGATTCAAGTGAACGAAAGGAAGCATCAGCACTTTC
1908882 GATTC
66 GATTC
* *
1908887 AAGAAGAACGAAAGGAAGCATGGCACTTTCGATTCAAGTGAACGGAAGGAAGCATCCGCACTTTC
1 AAGAAGAACGAAAGGAAGCATGGCACTTTCGATTCAAGTGAACGAAAGGAAGCATCAGCACTTTC
1908952 GATTC
66 GATTC
1908957 AAG
1 AAG
1908960 TGTTCATCTT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.20
Consensus pattern (70 bp):
AAGAAGAACGAAAGGAAGCATGGCACTTTCGATTCAAGTGAACGAAAGGAAGCATCAGCACTTTC
GATTC
Found at i:1913091 original size:18 final size:18
Alignment explanation
Indices: 1913068--1913102 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1913058 GTTCTTAAGG
* *
1913068 AGTGGTCCTTCGGGACAC
1 AGTGGTCATACGGGACAC
1913086 AGTGGTCATACGGGACA
1 AGTGGTCATACGGGACA
1913103 AATTCTACGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.23, G:0.34, T:0.20
Consensus pattern (18 bp):
AGTGGTCATACGGGACAC
Found at i:1916392 original size:19 final size:19
Alignment explanation
Indices: 1916368--1916438 Score: 142
Period size: 19 Copynumber: 3.7 Consensus size: 19
1916358 GAATGCAATT
1916368 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAAGG
1916387 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAAGG
1916406 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAAGG
1916425 AGTGCATCGATGCA
1 AGTGCATCGATGCA
1916439 CCCCCTTAAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.21
Consensus pattern (19 bp):
AGTGCATCGATGCATAAGG
Found at i:1917136 original size:18 final size:18
Alignment explanation
Indices: 1917113--1917178 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
1917103 TGAGAACATG
1917113 TATGTGAAAGTGAAAAGC
1 TATGTGAAAGTGAAAAGC
*
1917131 TATGTGAAAG-GAATA-C
1 TATGTGAAAGTGAAAAGC
* *
1917147 -AAGTAAAAGTGAAAAGC
1 TATGTGAAAGTGAAAAGC
1917164 TATGTGATAAGTGAA
1 TATGTGA-AAGTGAA
1917179 TGTGAATTAC
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
15 7 0.18
16 5 0.13
17 5 0.13
18 14 0.37
19 7 0.18
ACGTcount: A:0.47, C:0.05, G:0.26, T:0.23
Consensus pattern (18 bp):
TATGTGAAAGTGAAAAGC
Found at i:1917440 original size:18 final size:18
Alignment explanation
Indices: 1917417--1917541 Score: 151
Period size: 18 Copynumber: 6.9 Consensus size: 18
1917407 GTTCTTAAGG
*
1917417 AGTGGTCTTTCGGGACAC
1 AGTGGTCCTTCGGGACAC
* *
1917435 AGTGGTCATTCGAGACAC
1 AGTGGTCCTTCGGGACAC
* * * *
1917453 AATGGTCATTTGGGATAC
1 AGTGGTCCTTCGGGACAC
*
1917471 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAC
* *
1917489 AGTTGTCCTTTGGGACAC
1 AGTGGTCCTTCGGGACAC
1917507 AGTGGTCCTTCGGGACAC
1 AGTGGTCCTTCGGGACAC
*
1917525 AGTGGTCCTACGGGACA
1 AGTGGTCCTTCGGGACA
1917542 AATTCTACGC
Statistics
Matches: 90, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 90 1.00
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAC
Found at i:1919883 original size:2 final size:2
Alignment explanation
Indices: 1919876--1919925 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
1919866 AGTAAGAAAG
1919876 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1919918 AT AT AT AT
1 AT AT AT AT
1919926 TGAGTATCGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1921904 original size:18 final size:18
Alignment explanation
Indices: 1921881--1921915 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1921871 GTTCTTAAGG
* *
1921881 AGTGGTCTTTCGGGACAT
1 AGTGGTCCTACGGGACAT
1921899 AGTGGTCCTACGGGACA
1 AGTGGTCCTACGGGACA
1921916 AATTCTATGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTACGGGACAT
Found at i:1922108 original size:13 final size:13
Alignment explanation
Indices: 1922071--1922110 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
1922061 CTCGTGAAAT
*
1922071 TGTATATGTAATA
1 TGTATATGTGATA
1922084 TGTTATATGTGATA
1 TG-TATATGTGATA
*
1922098 TGTATAAGTGATA
1 TGTATATGTGATA
1922111 AGTTAGGATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (13 bp):
TGTATATGTGATA
Found at i:1923147 original size:24 final size:26
Alignment explanation
Indices: 1923097--1923147 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
1923087 TTCTTTGCTT
*
1923097 TATTCTATTTTGAGCTTATGTTTCTA
1 TATTCTATTTTGAGCTTATGTTACTA
*
1923123 TATT-TATTTTTAG-TTATGTTACTA
1 TATTCTATTTTGAGCTTATGTTACTA
1923147 T
1 T
1923148 GTGTTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.48
25 8 0.35
26 4 0.17
ACGTcount: A:0.22, C:0.08, G:0.10, T:0.61
Consensus pattern (26 bp):
TATTCTATTTTGAGCTTATGTTACTA
Found at i:1924479 original size:20 final size:20
Alignment explanation
Indices: 1924454--1924505 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
1924444 CATGCATAGA
1924454 AGTATCGGTACTACCCATAC
1 AGTATCGGTACTACCCATAC
*
1924474 AGTATCGGTACTACCCATAT
1 AGTATCGGTACTACCCATAC
1924494 AGTATCGGTACT
1 AGTATCGGTACT
1924506 TCCCTTCAAG
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:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (20 bp):
AGTATCGGTACTACCCATAC
Found at i:1924651 original size:42 final size:42
Alignment explanation
Indices: 1924599--1924698 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 42
1924589 CAATCCCCTG
* *
1924599 GTATCGATACTACCCTCACAGTATCGATACCCTCTTTAACTA
1 GTATCGATACTACCCTCACAATATCGATACCCTCTTCAACTA
* * *
1924641 GTATCAATACTACCCTCATAATATCGATACCCTCTTCAACTG
1 GTATCGATACTACCCTCACAATATCGATACCCTCTTCAACTA
*
1924683 GTATCGTTACTACCCT
1 GTATCGATACTACCCT
1924699 TAAGAAATAC
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (42 bp):
GTATCGATACTACCCTCACAATATCGATACCCTCTTCAACTA
Found at i:1930474 original size:22 final size:22
Alignment explanation
Indices: 1930449--1930561 Score: 83
Period size: 22 Copynumber: 5.3 Consensus size: 22
1930439 CCACAGCTCG
1930449 TAATTTGTACCGAAGTGCCACA
1 TAATTTGTACCGAAGTGCCACA
* *
1930471 TAA-TTGT-CCGACG-GACACA
1 TAATTTGTACCGAAGTGCCACA
* * *
1930490 TAGGTTTGCACCGATGTGCCACA
1 TA-ATTTGTACCGAAGTGCCACA
** * *
1930513 TAGGTTGCACCAAAGTGCCACA
1 TAATTTGTACCGAAGTGCCACA
*
1930535 T-ATTTGTCCCGAAG-GACCACA
1 TAATTTGTACCGAAGTG-CCACA
1930556 TAATTT
1 TAATTT
1930562 ACCCGAAAGA
Statistics
Matches: 71, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
19 7 0.10
20 6 0.08
21 21 0.30
22 30 0.42
23 7 0.10
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (22 bp):
TAATTTGTACCGAAGTGCCACA
Found at i:1930556 original size:21 final size:20
Alignment explanation
Indices: 1930530--1930578 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
1930520 CACCAAAGTG
* *
1930530 CCACATATTTGTCCCGAAGGA
1 CCACATATTT-ACCCGAAAGA
1930551 CCACATAATTTACCCGAAAGA
1 CCACAT-ATTTACCCGAAAGA
1930572 CCACATA
1 CCACATA
1930579 AAACCTCGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 20 0.80
22 4 0.16
ACGTcount: A:0.37, C:0.31, G:0.12, T:0.20
Consensus pattern (20 bp):
CCACATATTTACCCGAAAGA
Found at i:1931225 original size:20 final size:20
Alignment explanation
Indices: 1931200--1931273 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
1931190 GTATCTAAAA
1931200 ATGGTATCGATACCATCCTC
1 ATGGTATCGATACCATCCTC
* *
1931220 ATGGTATCGATACTACCCTC
1 ATGGTATCGATACCATCCTC
** * *
1931240 ACAGTATC-ATACCCTCTTC
1 ATGGTATCGATACCATCCTC
1931259 AACTGGTATCGATAC
1 -A-TGGTATCGATAC
1931274 TACCTTTAAG
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
19 7 0.17
20 25 0.61
21 5 0.12
22 4 0.10
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGGTATCGATACCATCCTC
Done.