Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008017.1 Hibiscus syriacus cultivar Beakdansim tig00110483_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: 3132588
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 15
Found at i:1586404 original size:12 final size:12
Alignment explanation
Indices: 1586387--1586435 Score: 89
Period size: 12 Copynumber: 4.1 Consensus size: 12
1586377 TCTTCGGGGA
*
1586387 CTTTTTCTTATT
1 CTTTTTCTTCTT
1586399 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1586411 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1586423 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1586435 C
1 C
1586436 AGGATTATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1586406 original size:6 final size:6
Alignment explanation
Indices: 1586387--1586431 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
1586377 TCTTCGGGGA
* * *
1586387 CTTTTT CTTATT CTTTTT CTTCTT CTTTTT CTTCTT CTTTTT CTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTT
1586432 CTTCAGGATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (6 bp):
CTTTTT
Found at i:1586411 original size:3 final size:3
Alignment explanation
Indices: 1586391--1586435 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
1586381 CGGGGACTTT
* * * *
1586391 TTC TTA TTC TTT TTC TTC TTC TTT TTC TTC TTC TTT TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1586436 AGGATTATAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (3 bp):
TTC
Found at i:1587465 original size:20 final size:21
Alignment explanation
Indices: 1587440--1587491 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1587430 TTTTCCCAAT
*
1587440 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
1587460 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
1587481 TCGCAATGCGA
1 TCGCAATGCGA
1587492 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:1587565 original size:20 final size:20
Alignment explanation
Indices: 1587476--1587565 Score: 67
Period size: 20 Copynumber: 4.5 Consensus size: 20
1587466 TGCGAATTTG
* *
1587476 GAAAATCGCAATGCGATACT
1 GAAAATCGCAACGAGATACT
** *
1587496 GACTATCGCAACGAGATAAT
1 GAAAATCGCAACGAGATACT
*
1587516 ACAAAATCGCAACGAGAT--T
1 -GAAAATCGCAACGAGATACT
*** *
1587535 GACTTTCGCAACGAGATTCT
1 GAAAATCGCAACGAGATACT
1587555 GAAAATCGCAA
1 GAAAATCGCAA
1587566 TCATCTTCAA
Statistics
Matches: 52, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
18 13 0.25
19 1 0.02
20 24 0.46
21 14 0.27
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.20
Consensus pattern (20 bp):
GAAAATCGCAACGAGATACT
Found at i:1587800 original size:20 final size:20
Alignment explanation
Indices: 1587775--1587839 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
1587765 CAACGGGGAA
1587775 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
* **
1587795 ATCGCAA-TCG-AAAT-GAA
1 ATCGCAACGCGAAAATGGCT
* *
1587812 ATCACAATGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
1587832 ATCGCAAC
1 ATCGCAAC
1587840 AGAAAATCGC
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
17 7 0.21
18 6 0.18
19 6 0.18
20 14 0.42
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:1587889 original size:33 final size:32
Alignment explanation
Indices: 1587852--1587921 Score: 77
Period size: 33 Copynumber: 2.2 Consensus size: 32
1587842 AAAATCGCAA
*
1587852 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATCAAAATCGCATTGCGA-TTTCTCGT
** ***
1587885 TGCGATTTCATTTTCGCATTGCGATTTCTCGT
1 TGCGAAATCAAAATCGCATTGCGATTTCTCGT
1587917 TGCGA
1 TGCGA
1587922 TAGTCAGTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (32 bp):
TGCGAAATCAAAATCGCATTGCGATTTCTCGT
Found at i:1587933 original size:33 final size:32
Alignment explanation
Indices: 1587865--1587942 Score: 102
Period size: 33 Copynumber: 2.4 Consensus size: 32
1587855 GAAATGAAAA
* *
1587865 TCGCATTGCGATTTTCTCGTTGCGATTTCATTT
1 TCGCATTGCGA-TTTCTCGTTGCGATGTCAGTT
1587898 TCGCATTGCGATTTCTCGTTGCGATAGTCAGTT
1 TCGCATTGCGATTTCTCGTTGCGAT-GTCAGTT
**
1587931 TCGTGTTGCGAT
1 TCGCATTGCGAT
1587943 AGTCTGTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 14 0.35
33 26 0.65
ACGTcount: A:0.13, C:0.21, G:0.23, T:0.44
Consensus pattern (32 bp):
TCGCATTGCGATTTCTCGTTGCGATGTCAGTT
Found at i:1588067 original size:14 final size:14
Alignment explanation
Indices: 1588050--1588086 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1588040 ATCAATTAAA
1588050 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1588064 ACAAATCATCTTTT
1 ACAAATCAACATTT
1588078 ACAAATCAA
1 ACAAATCAA
1588087 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1589375 original size:20 final size:19
Alignment explanation
Indices: 1589313--1589378 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 19
1589303 TGACAGTGGC
* *
1589313 CTCTTGAACGGTGGGGGGA
1 CTCTTGAACGATTGGGGGA
** * *
1589332 CTCTTGAGGGATATAGGGGC
1 CTCTTGAACGAT-TGGGGGA
1589352 CTCTTGAACGATTGGAGGGA
1 CTCTTGAACGATTGG-GGGA
1589372 CTCTTGA
1 CTCTTGA
1589379 GGGATGACAG
Statistics
Matches: 35, Mismatches: 10, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
19 11 0.31
20 24 0.69
ACGTcount: A:0.20, C:0.17, G:0.38, T:0.26
Consensus pattern (19 bp):
CTCTTGAACGATTGGGGGA
Found at i:1589761 original size:20 final size:19
Alignment explanation
Indices: 1589738--1589805 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 19
1589728 GAAACTTAAA
1589738 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
*
1589758 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
1589778 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
1589797 ATCGCAACG
1 ATCGCAACG
1589806 ACAAAATTGC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 14 0.34
20 26 0.63
21 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:1589859 original size:32 final size:33
Alignment explanation
Indices: 1589818--1589888 Score: 117
Period size: 33 Copynumber: 2.2 Consensus size: 33
1589808 AAAATTGCAA
1589818 TGCGATTTTGTCATTGCGA-TTTCATTTCGCAT
1 TGCGATTTTGTCATTGCGATTTTCATTTCGCAT
* *
1589850 TGCGATTTTGTCGTTGTGATTTTCATTTCGCAT
1 TGCGATTTTGTCATTGCGATTTTCATTTCGCAT
1589883 TGCGAT
1 TGCGAT
1589889 AGCCATTTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 17 0.47
33 19 0.53
ACGTcount: A:0.14, C:0.17, G:0.21, T:0.48
Consensus pattern (33 bp):
TGCGATTTTGTCATTGCGATTTTCATTTCGCAT
Found at i:1589924 original size:20 final size:20
Alignment explanation
Indices: 1589873--1589916 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1589863 TTGTGATTTT
*
1589873 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
*
1589892 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCGTTGCGATAGC
1589912 CATTT
1 CATTT
1589917 TCGTGTTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:1592332 original size:37 final size:39
Alignment explanation
Indices: 1592271--1592373 Score: 111
Period size: 37 Copynumber: 2.7 Consensus size: 39
1592261 TATTATCGCG
* * * *
1592271 TTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCG-
1 TTGCGATAGTCAGTATCGCATTGCGAAAGTAAGTATCGA
* * * *
1592309 TTGCGAT-TTTATTATCGCATTGCGATAGTAAGTATCGCA
1 TTGCGATAGTCAGTATCGCATTGCGAAAGTAAGTATCG-A
1592348 TTGCGATAGTCAGTATCGCATTGCGA
1 TTGCGATAGTCAGTATCGCATTGCGA
1592374 TTTTCCCAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
37 23 0.45
38 6 0.12
39 7 0.14
40 15 0.29
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (39 bp):
TTGCGATAGTCAGTATCGCATTGCGAAAGTAAGTATCGA
Found at i:1592346 original size:20 final size:20
Alignment explanation
Indices: 1592244--1592374 Score: 126
Period size: 20 Copynumber: 6.7 Consensus size: 20
1592234 GGCTTTGAAA
*
1592244 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* * *
1592265 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
1592285 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
1592305 ATCG--TTGCGAT-TTTATT
1 ATCGCATTGCGATAGTCAGT
*
1592322 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
1592342 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
1592362 ATCGCATTGCGAT
1 ATCGCATTGCGAT
1592375 TTTCCCAATT
Statistics
Matches: 93, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
17 7 0.08
18 6 0.06
19 9 0.10
20 60 0.65
21 11 0.12
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:1592346 original size:57 final size:58
Alignment explanation
Indices: 1592244--1592377 Score: 171
Period size: 57 Copynumber: 2.3 Consensus size: 58
1592234 GGCTTTGAAA
* * *
1592244 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCG-ATTGCGATT-T-TATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
* * *
1592305 ATCG-TTGCGATTTTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGATTGCGATTTTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
1592362 ATCGCATTGCGATTTT
1 ATCG-ATTGCGATTTT
1592378 CCCAATTCGC
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
57 42 0.65
58 1 0.02
59 18 0.28
61 4 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (58 bp):
ATCGATTGCGATTTTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:1592733 original size:21 final size:21
Alignment explanation
Indices: 1592707--1592747 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1592697 TGAGATCGAC
*
1592707 AGTGAAGCAGATGGGTTTGGT
1 AGTGAAGCAGACGGGTTTGGT
1592728 AGTGAAGCAGACGGGTTTGG
1 AGTGAAGCAGACGGGTTTGG
1592748 GTAAACGGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.07, G:0.44, T:0.24
Consensus pattern (21 bp):
AGTGAAGCAGACGGGTTTGGT
Found at i:1593022 original size:41 final size:41
Alignment explanation
Indices: 1592836--1593028 Score: 197
Period size: 41 Copynumber: 4.7 Consensus size: 41
1592826 ATTACAAGCA
* * *
1592836 GCGTTTGTATAAAAATGCCACTAAAATATAAGTATATAGCG
1 GCGTTTGTATAAAAAAGCCACTAAAGTACAAGTATATAGCG
* * *
1592877 GCATTTGTATAAAGAAAGCCACAAAAGTACAAGTGTATAGCG
1 GCGTTTGTATAAA-AAAGCCACTAAAGTACAAGTATATAGCG
** * * * * *
1592919 ATGTTTGTATAAAAACGTCACCAAAATACAAGTTTATAGCG
1 GCGTTTGTATAAAAAAGCCACTAAAGTACAAGTATATAGCG
* * * * *
1592960 GCATTTGTATACAAACGCCACTAAAGTACGAGTATTTAGCG
1 GCGTTTGTATAAAAAAGCCACTAAAGTACAAGTATATAGCG
* *
1593001 GTGTTTGGATAAAAAAGCCACTAAAGTA
1 GCGTTTGTATAAAAAAGCCACTAAAGTA
1593029 TTACTCTGTT
Statistics
Matches: 122, Mismatches: 29, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
41 89 0.73
42 33 0.27
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (41 bp):
GCGTTTGTATAAAAAAGCCACTAAAGTACAAGTATATAGCG
Found at i:1597608 original size:153 final size:153
Alignment explanation
Indices: 1597330--1597636 Score: 614
Period size: 153 Copynumber: 2.0 Consensus size: 153
1597320 TCAGGAGTTA
1597330 TAACAGCTGAATAATGATGCAATGAACCTGAACTATTTTTTAGACAGGTTCATCTGGACGTTTCA
1 TAACAGCTGAATAATGATGCAATGAACCTGAACTATTTTTTAGACAGGTTCATCTGGACGTTTCA
1597395 GCTGTTACAATGAAGAGTTTTAATCCTGATTTTTTATGGACGATTTTAATCCTATTTCTAGCTTA
66 GCTGTTACAATGAAGAGTTTTAATCCTGATTTTTTATGGACGATTTTAATCCTATTTCTAGCTTA
1597460 TAAATAGAGAGTTGGATTCAACT
131 TAAATAGAGAGTTGGATTCAACT
1597483 TAACAGCTGAATAATGATGCAATGAACCTGAACTATTTTTTAGACAGGTTCATCTGGACGTTTCA
1 TAACAGCTGAATAATGATGCAATGAACCTGAACTATTTTTTAGACAGGTTCATCTGGACGTTTCA
1597548 GCTGTTACAATGAAGAGTTTTAATCCTGATTTTTTATGGACGATTTTAATCCTATTTCTAGCTTA
66 GCTGTTACAATGAAGAGTTTTAATCCTGATTTTTTATGGACGATTTTAATCCTATTTCTAGCTTA
1597613 TAAATAGAGAGTTGGATTCAACT
131 TAAATAGAGAGTTGGATTCAACT
1597636 T
1 T
1597637 CTCAACTCAC
Statistics
Matches: 154, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
153 154 1.00
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (153 bp):
TAACAGCTGAATAATGATGCAATGAACCTGAACTATTTTTTAGACAGGTTCATCTGGACGTTTCA
GCTGTTACAATGAAGAGTTTTAATCCTGATTTTTTATGGACGATTTTAATCCTATTTCTAGCTTA
TAAATAGAGAGTTGGATTCAACT
Found at i:1598552 original size:3 final size:3
Alignment explanation
Indices: 1598540--1598568 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
1598530 ATTAGCAGTC
1598540 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1598569 CAAACGCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1599258 original size:17 final size:18
Alignment explanation
Indices: 1599227--1599262 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
1599217 TCGTTAAAAC
1599227 ACCCTTCATTAACCTTCA
1 ACCCTTCATTAACCTTCA
1599245 ACCCTTCA-TAACCTTCA
1 ACCCTTCATTAACCTTCA
1599262 A
1 A
1599263 GCTACACATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.31, C:0.39, G:0.00, T:0.31
Consensus pattern (18 bp):
ACCCTTCATTAACCTTCA
Found at i:1602639 original size:19 final size:21
Alignment explanation
Indices: 1602603--1602641 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
1602593 TCATTATAAA
1602603 TATCAATACTTCTCCACAAAG
1 TATCAATACTTCTCCACAAAG
1602624 TATCAA-ACTT-TCCACAAA
1 TATCAATACTTCTCCACAAA
1602642 TACTAGAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.41, C:0.28, G:0.03, T:0.28
Consensus pattern (21 bp):
TATCAATACTTCTCCACAAAG
Found at i:1602999 original size:18 final size:18
Alignment explanation
Indices: 1602976--1603031 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
1602966 ATATTCATAA
1602976 TATTTTTAACTTTTAACT
1 TATTTTTAACTTTTAACT
*
1602994 TA-TTTT--CTTCATAA--
1 TATTTTTAACTT-TTAACT
1603008 TATTTTTAACTTTTAACT
1 TATTTTTAACTTTTAACT
1603026 TATTTT
1 TATTTT
1603032 CTTTCAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
14 2 0.07
15 7 0.23
16 6 0.20
17 7 0.23
18 8 0.27
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTTTAACTTTTAACT
Found at i:1603005 original size:32 final size:32
Alignment explanation
Indices: 1602969--1603034 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
1602959 CTTATATATA
1602969 TTCATAATATTTTTAACTTTTAACTTATTTTC
1 TTCATAATATTTTTAACTTTTAACTTATTTTC
1603001 TTCATAATATTTTTAACTTTTAACTTATTTTC
1 TTCATAATATTTTTAACTTTTAACTTATTTTC
1603033 TT
1 TT
1603035 TCAATTTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (32 bp):
TTCATAATATTTTTAACTTTTAACTTATTTTC
Found at i:1603916 original size:264 final size:264
Alignment explanation
Indices: 1603434--1603981 Score: 713
Period size: 264 Copynumber: 2.1 Consensus size: 264
1603424 TTCTTAAATT
* * * * *
1603434 CAAGGTTCCATCAGCTTAAAGTCTAATAATATTTTGGGCACAACCCATTTTATTATTAAAAACAT
1 CAAGGCTCCATCAGCTTAAACTCTAATAATATTTTAGACACAACCCATTTTATTATAAAAAACAT
* ** * *
1603499 TAAGATTCGAGATTGCAACATGCTTTCTTTGTGAACCATAACATTCTTGGATACAACTTATTTTA
66 TAAGATTCAAGATTGCAACATGCTTTCTTAATGAACCATAACATTCTTGGACACAACCTATTTTA
* *
1603564 TTAATAAAAATGTTAAAATTACATATTGTAACATATTTCTTAGTGAACCTGGACATTATTGGGTG
131 TTAATAAAAATGTTAAAATTACATATTGTAACATATTTCTTAGTGAACCTGGACATTATTGAGCG
* * * **
1603629 CAATCGTATTTATTATATATATTCATTACATTTTCAACTT-TTAACTTATTTCCTTATTGTGGGA
196 AAATCGTATTTATTATATATATTCATAACATTTT-AACTTATTAACTTATTTCCTTATCGTCAGA
1603693 ATATC
260 ATATC
* * ** * *
1603698 CAAGGCTCCATTAGCTTAAACTCTAATAATATTTTATACGTAACCTATTTTATTATAAAAAATAT
1 CAAGGCTCCATCAGCTTAAACTCTAATAATATTTTAGACACAACCCATTTTATTATAAAAAACAT
* * * * **
1603763 TAAGATTCAAGATTGCAATATGTTTTCTTAATGAACCATGACATTCTTGGGCGGAACCTATTTTA
66 TAAGATTCAAGATTGCAACATGCTTTCTTAATGAACCATAACATTCTTGGACACAACCTATTTTA
* *
1603828 TTAATAAAAATGTTAACATTACATATTGTAACATATTTCTTAGTGAACCAT-GATATTATTGAGC
131 TTAATAAAAATGTTAAAATTACATATTGTAACATATTTCTTAGTGAACC-TGGACATTATTGAGC
* * * * *
1603892 GAAATCGTATTTCTTATATATATTCATAATATTTTTAGTTATTAACTTATTTTCTTATCGTCAGA
195 GAAATCGTATTTATTATATATATTCATAACATTTTAACTTATTAACTTATTTCCTTATCGTCAGA
*
1603957 ATGTC
260 ATATC
* *
1603962 TAAGGCTCCATCAACTTAAA
1 CAAGGCTCCATCAGCTTAAA
1603982 ATTGACAATC
Statistics
Matches: 242, Mismatches: 40, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
263 3 0.01
264 238 0.98
265 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.40
Consensus pattern (264 bp):
CAAGGCTCCATCAGCTTAAACTCTAATAATATTTTAGACACAACCCATTTTATTATAAAAAACAT
TAAGATTCAAGATTGCAACATGCTTTCTTAATGAACCATAACATTCTTGGACACAACCTATTTTA
TTAATAAAAATGTTAAAATTACATATTGTAACATATTTCTTAGTGAACCTGGACATTATTGAGCG
AAATCGTATTTATTATATATATTCATAACATTTTAACTTATTAACTTATTTCCTTATCGTCAGAA
TATC
Found at i:1606657 original size:62 final size:62
Alignment explanation
Indices: 1606537--1606661 Score: 189
Period size: 62 Copynumber: 2.0 Consensus size: 62
1606527 AGGGTCGAGG
* * **
1606537 GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTCGAAACATATGGACT
*
1606599 GTTTACCTATGTTCTTCGGGACATATTGACTGATTACCTAGGTTCTTCGAAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTCGAAA-CATATGGACT
1606661 G
1 G
1606662 GTCCTTCGGG
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
62 56 0.98
63 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (62 bp):
GTTTACCTATGTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTCGAAACATATGGACT
Found at i:1606661 original size:31 final size:31
Alignment explanation
Indices: 1606537--1606647 Score: 195
Period size: 31 Copynumber: 3.6 Consensus size: 31
1606527 AGGGTCGAGG
1606537 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
1606568 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
1606599 GTTTACCTATGTTCTTCGGGACATATTGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
1606630 GATTACCTAGGTTCTTCG
1 GTTTACCTATGTTCTTCG
1606648 AAATCTATGG
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 77 1.00
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:1608637 original size:12 final size:12
Alignment explanation
Indices: 1608579--1608630 Score: 70
Period size: 12 Copynumber: 4.3 Consensus size: 12
1608569 AACTAGCCGA
1608579 GGTGGAGATGAT
1 GGTGGAGATGAT
*
1608591 GGTGGTGATGAT
1 GGTGGAGATGAT
*
1608603 GGTGGAGGTAGA-
1 GGTGGAGAT-GAT
1608615 GGTGGAGATGAT
1 GGTGGAGATGAT
1608627 GGTG
1 GGTG
1608631 ATGATGAAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
11 2 0.06
12 30 0.88
13 2 0.06
ACGTcount: A:0.21, C:0.00, G:0.54, T:0.25
Consensus pattern (12 bp):
GGTGGAGATGAT
Found at i:1610142 original size:27 final size:27
Alignment explanation
Indices: 1610112--1610165 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
1610102 TAAATTTGGA
1610112 CTGTAGAAAACTGATGAACTTGAGGGG
1 CTGTAGAAAACTGATGAACTTGAGGGG
1610139 CTGTAGAAAACTGATGAACTTGAGGGG
1 CTGTAGAAAACTGATGAACTTGAGGGG
1610166 TTGTTGGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.22
Consensus pattern (27 bp):
CTGTAGAAAACTGATGAACTTGAGGGG
Found at i:1617421 original size:27 final size:27
Alignment explanation
Indices: 1617350--1617426 Score: 68
Period size: 27 Copynumber: 2.8 Consensus size: 27
1617340 ATTAATTGCA
1617350 AAATGTTTTT-TTTGAATTAAAAAATATT
1 AAAT-TTTTTATTT-AATTAAAAAATATT
* * * *
1617378 CAA-TTGTTATATAAATTAAAAAATTTT
1 AAATTTTTTAT-TTAATTAAAAAATATT
*
1617405 AAATTTTTTATTTAATTCAAAA
1 AAATTTTTTATTTAATTAAAAA
1617427 TTTGACCTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
26 4 0.11
27 25 0.66
28 9 0.24
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (27 bp):
AAATTTTTTATTTAATTAAAAAATATT
Found at i:1619395 original size:18 final size:18
Alignment explanation
Indices: 1619374--1619410 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1619364 GATGGTGGTA
* *
1619374 ATGACAATGATGATGAAG
1 ATGACAACGACGATGAAG
1619392 ATGACAACGACGATGAAG
1 ATGACAACGACGATGAAG
1619410 A
1 A
1619411 ATCTTCAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.27, T:0.16
Consensus pattern (18 bp):
ATGACAACGACGATGAAG
Found at i:1631921 original size:26 final size:26
Alignment explanation
Indices: 1631872--1631921 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
1631862 TTTTAACATA
* *
1631872 TACTGAAATAAGTTGCTCATCTTTTT
1 TACTGAAATAAGTTGCTAAACTTTTT
1631898 TACTGAAATAAGCTT-CTAAACTTT
1 TACTGAAATAAG-TTGCTAAACTTT
1631922 AATTTATACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.90
27 2 0.10
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (26 bp):
TACTGAAATAAGTTGCTAAACTTTTT
Found at i:1636465 original size:25 final size:25
Alignment explanation
Indices: 1636410--1636466 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 25
1636400 TAGATCTAGT
* * * **
1636410 ATTGCACTTGAAAGTGCCTCGTATT
1 ATTGCACTCGAAAATGCCTCATAGG
*
1636435 AATGCACTCGAAAATGCCTCATAGG
1 ATTGCACTCGAAAATGCCTCATAGG
1636460 ATTGCAC
1 ATTGCAC
1636467 CATAGGTTCC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (25 bp):
ATTGCACTCGAAAATGCCTCATAGG
Found at i:1638878 original size:24 final size:24
Alignment explanation
Indices: 1638851--1638896 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
1638841 TGTCTGTTGG
1638851 ACTTGTTTTTGGATAATTTATCGA
1 ACTTGTTTTTGGATAATTTATCGA
1638875 ACTTGTTTTTGGATAATTTATC
1 ACTTGTTTTTGGATAATTTATC
1638897 AATATCAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.52
Consensus pattern (24 bp):
ACTTGTTTTTGGATAATTTATCGA
Found at i:1639315 original size:7 final size:7
Alignment explanation
Indices: 1639293--1639328 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
1639283 TCAAAATTTA
*
1639293 TAAATAA
1 TAAATAT
*
1639300 TATATAT
1 TAAATAT
1639307 TAAATAT
1 TAAATAT
1639314 TAAATAT
1 TAAATAT
1639321 TAAATAT
1 TAAATAT
1639328 T
1 T
1639329 TAATTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TAAATAT
Found at i:1639413 original size:2 final size:2
Alignment explanation
Indices: 1639406--1639436 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1639396 AAGCTAAATA
1639406 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
1639437 TAAATATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1646243 original size:30 final size:32
Alignment explanation
Indices: 1646187--1646251 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
1646177 TCAAAAAACA
1646187 TAAAATATAGTCACTTTCATTTTTTATTTAAT
1 TAAAATATAGTCACTTTCATTTTTTATTTAAT
1646219 TAAAATATAGTCACTTT-A-TTTTTATTTAAT
1 TAAAATATAGTCACTTTCATTTTTTATTTAAT
1646249 TAA
1 TAA
1646252 GATGTGCGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 15 0.45
31 1 0.03
32 17 0.52
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.52
Consensus pattern (32 bp):
TAAAATATAGTCACTTTCATTTTTTATTTAAT
Found at i:1646474 original size:25 final size:24
Alignment explanation
Indices: 1646416--1646475 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
1646406 ATGTTTTTAA
1646416 ATTAAGTTAATAAAAAAAATATTT
1 ATTAAGTTAATAAAAAAAATATTT
*
1646440 AATAAGTTAATATACAAAAAATA-TT
1 ATTAAGTTAATA-A-AAAAAATATTT
*
1646465 ATTAATTTAAT
1 ATTAAGTTAAT
1646476 TATTTATACA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.35
25 12 0.39
26 8 0.26
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (24 bp):
ATTAAGTTAATAAAAAAAATATTT
Found at i:1647127 original size:19 final size:21
Alignment explanation
Indices: 1647091--1647146 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
1647081 ATATTTAAAC
1647091 TATAATAAGAATATAAAAAATAA
1 TATAATAA-AA-ATAAAAAATAA
*
1647114 -A-AATAAAAATAAAATATAA
1 TATAATAAAAATAAAAAATAA
1647133 TTATAATAAAAATA
1 -TATAATAAAAATA
1647147 TATTTTATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 10 0.34
20 2 0.07
21 6 0.21
22 11 0.38
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (21 bp):
TATAATAAAAATAAAAAATAA
Found at i:1647142 original size:16 final size:17
Alignment explanation
Indices: 1647121--1647159 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
1647111 TAAAAATAAA
1647121 AATAAAATATA-ATTAT
1 AATAAAATATATATTAT
*
1647137 AATAAAAATATATTTTAT
1 AAT-AAAATATATATTAT
1647155 AATAA
1 AATAA
1647160 CTCATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 10 0.50
18 7 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AATAAAATATATATTAT
Found at i:1647144 original size:17 final size:18
Alignment explanation
Indices: 1647124--1647159 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1647114 AAATAAAAAT
1647124 AAAATATA-ATTATAATA
1 AAAATATATATTATAATA
*
1647141 AAAATATATTTTATAATA
1 AAAATATATATTATAATA
1647159 A
1 A
1647160 CTCATTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAATATATATTATAATA
Found at i:1649451 original size:15 final size:15
Alignment explanation
Indices: 1649397--1649481 Score: 62
Period size: 15 Copynumber: 5.3 Consensus size: 15
1649387 AAGAATAAAA
*
1649397 AAAAATATGTATAAT
1 AAAAATATATATAAT
*
1649412 AATCAAATAAAATAATAAGT
1 AA--AAAT-ATAT-ATAA-T
1649432 AAAAATATATATAAT
1 AAAAATATATATAAT
* * *
1649447 AAAAATGTACATAAG
1 AAAAATATATATAAT
*
1649462 AAAAATATAATACAAT
1 AAAAATAT-ATATAAT
1649478 AAAA
1 AAAA
1649482 TACATGAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
15 22 0.41
16 12 0.22
17 7 0.13
18 6 0.11
19 4 0.07
20 3 0.06
ACGTcount: A:0.66, C:0.04, G:0.05, T:0.26
Consensus pattern (15 bp):
AAAAATATATATAAT
Found at i:1649485 original size:28 final size:28
Alignment explanation
Indices: 1649417--1649497 Score: 87
Period size: 30 Copynumber: 2.9 Consensus size: 28
1649407 ATAATAATCA
*
1649417 AATAAAATA-ATAAGTAAAAATAT-ATAT
1 AATAAAATACATAAG-AAAAATATAATAC
1649444 AATAAAAATGTACATAAGAAAAATATAATAC
1 AAT-AAAA--TACATAAGAAAAATATAATAC
*
1649475 AATAAAATACATGA-AAAAATATA
1 AATAAAATACATAAGAAAAATATA
1649498 GCTAAATACA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
27 12 0.26
28 10 0.21
30 14 0.30
31 11 0.23
ACGTcount: A:0.67, C:0.04, G:0.05, T:0.25
Consensus pattern (28 bp):
AATAAAATACATAAGAAAAATATAATAC
Found at i:1649505 original size:27 final size:27
Alignment explanation
Indices: 1649462--1649528 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 27
1649452 TGTACATAAG
1649462 AAAAATATAATACAATA-AAATACATGA
1 AAAAATATAATACAATACAAATA-ATGA
* *
1649489 AAAAATATAGCTA-AATACATATAATGA
1 AAAAATATA-ATACAATACAAATAATGA
*
1649516 GAAAATAATAATA
1 AAAAAT-ATAATA
1649529 AAAATATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
27 24 0.73
28 9 0.27
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.24
Consensus pattern (27 bp):
AAAAATATAATACAATACAAATAATGA
Found at i:1649599 original size:19 final size:21
Alignment explanation
Indices: 1649557--1649601 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
1649547 ATAAAAGCCA
*
1649557 AAATAGAGAAATATAGTAAAT
1 AAATAGAGAAAAATAGTAAAT
*
1649578 AAATAGA-AAAAATA-TAATT
1 AAATAGAGAAAAATAGTAAAT
1649597 AAATA
1 AAATA
1649602 ATAATAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 9 0.41
20 6 0.27
21 7 0.32
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (21 bp):
AAATAGAGAAAAATAGTAAAT
Found at i:1649634 original size:2 final size:2
Alignment explanation
Indices: 1649627--1649677 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
1649617 ATAGTATAAA
*
1649627 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA 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
1649669 AT AT AT AT A
1 AT AT AT AT A
1649678 GTAATAATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1649717 original size:30 final size:31
Alignment explanation
Indices: 1649623--1649736 Score: 94
Period size: 36 Copynumber: 3.6 Consensus size: 31
1649613 AGATATAGTA
*
1649623 TAAAATATATATATATATA-TATATATATATATATA
1 TAAAATATATATATATATAGCA-ATA-ATA-A-A-A
*
1649658 TAAATATATATATATATATAGTAATAATAAAA
1 TAAA-ATATATATATATATAGCAATAATAAAA
* *
1649690 TGAAAATATGTATATATATA-CAA-AATAAGA
1 T-AAAATATATATATATATAGCAATAATAAAA
1649720 TAAAATA-ATATA-ATATA
1 TAAAATATATATATATATA
1649737 ATTATTATAA
Statistics
Matches: 72, Mismatches: 4, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
27 5 0.07
28 4 0.06
29 6 0.08
30 7 0.10
31 2 0.03
32 16 0.22
33 4 0.06
34 1 0.01
35 7 0.10
36 18 0.25
37 2 0.03
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.38
Consensus pattern (31 bp):
TAAAATATATATATATATAGCAATAATAAAA
Found at i:1649738 original size:10 final size:10
Alignment explanation
Indices: 1649588--1649748 Score: 67
Period size: 12 Copynumber: 14.9 Consensus size: 10
1649578 AAATAGAAAA
1649588 AATATAAT-T
1 AATATAATAT
1649597 AA-ATAATAAT
1 AATATAAT-AT
1649607 AATGATAGATAT
1 AAT-ATA-ATAT
* *
1649619 AGTATAAAAT
1 AATATAATAT
1649629 ATATATATATAT
1 A-ATATA-ATAT
1649641 ATATATATATAT
1 A-ATATA-ATAT
1649653 ATATATAAATAT
1 A-ATAT-AATAT
1649665 ATATATATATAT
1 A-ATATA-ATAT
* *
1649677 AGTAATAATAA
1 AAT-ATAATAT
*
1649688 AATGAAAATAT
1 AAT-ATAATAT
* *
1649699 GTATATATATAC
1 -AATATA-ATAT
* *
1649711 AAAATAAGAT
1 AATATAATAT
*
1649721 AAAATAATAT
1 AATATAATAT
1649731 AATATAAT-T
1 AATATAATAT
*
1649740 ATTATAATA
1 AATATAATA
1649749 AAAATAAATA
Statistics
Matches: 119, Mismatches: 20, Indels: 25
0.73 0.12 0.15
Matches are distributed among these distances:
8 5 0.04
9 10 0.08
10 25 0.21
11 25 0.21
12 51 0.43
13 3 0.03
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (10 bp):
AATATAATAT
Found at i:1651799 original size:2 final size:2
Alignment explanation
Indices: 1651794--1651854 Score: 106
Period size: 2 Copynumber: 31.0 Consensus size: 2
1651784 GGAAAAAATG
1651794 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1651836 TA TA TA TA TA -A TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA
1651855 GATAAATAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1652049 original size:17 final size:20
Alignment explanation
Indices: 1652014--1652050 Score: 53
Period size: 17 Copynumber: 2.0 Consensus size: 20
1652004 AAGTATATAT
1652014 AATAATAATAGTAAGAAAAA
1 AATAATAATAGTAAGAAAAA
1652034 AATAA-AATA-TAA-AAAAA
1 AATAATAATAGTAAGAAAAA
1652051 TTGAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.29
18 3 0.18
19 4 0.24
20 5 0.29
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (20 bp):
AATAATAATAGTAAGAAAAA
Found at i:1652432 original size:37 final size:37
Alignment explanation
Indices: 1652382--1652493 Score: 197
Period size: 37 Copynumber: 3.0 Consensus size: 37
1652372 TTGCTTATGG
*
1652382 ATCATATTTTTAGGAGTTTGAATCATAGTAAAACTTT
1 ATCATATTTTTAGGAGTTTGAATCATAGTAAAACTCT
*
1652419 ATCATACTTTTAGGAGTTTGAATCATAGTAAAACTCT
1 ATCATATTTTTAGGAGTTTGAATCATAGTAAAACTCT
*
1652456 ATCATATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
1 ATCATATTTTTAGGAGTTTGAATCATAGTAAAACTCT
1652493 A
1 A
1652494 ACGTTATGTT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (37 bp):
ATCATATTTTTAGGAGTTTGAATCATAGTAAAACTCT
Found at i:1653831 original size:110 final size:110
Alignment explanation
Indices: 1653636--1654175 Score: 882
Period size: 110 Copynumber: 4.9 Consensus size: 110
1653626 TTGTGTCGCT
* *
1653636 TCGAGTTCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTAT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
* *
1653701 TGACAGTCAGTCGCCTCTTCGCTGTGAAGTTGAGCTTGTTTTGTC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
* * ** *
1653746 CCGAGTCCAATATCCTTCGTTGCAAAGTTAAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
1653811 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
1653856 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
* *
1653921 TGATAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGATTGTGTTGTC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
* * **
1653966 TCGAGTCTAATATCCTTCGTTGTGAAGTTGAAATTGGGTCTGAATGAAACTGAAAAGTTGTTTGT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
*
1654031 TGACAGTCAGTCGCCCATTCGCTGTGAAGTTGAGCTTGTGTTGTC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
* * * * *
1654076 TCGAGTTCAATATCATTCACTGTGAAGTTGAAATTGACTCTGAATGAAACTAAAAAGTTATTTGT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
*
1654141 TGACCGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
1654176 AACCACCATC
Statistics
Matches: 396, Mismatches: 34, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
110 396 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (110 bp):
TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
Found at i:1658264 original size:16 final size:18
Alignment explanation
Indices: 1658243--1658280 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
1658233 CAAATGTAAA
1658243 AAAGATAA-AA-AAAAAT
1 AAAGATAAGAATAAAAAT
1658259 AAAGATAAGGAATAAAAAT
1 AAAGATAA-GAATAAAAAT
1658278 AAA
1 AAA
1658281 AATGAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
18 2 0.11
19 9 0.47
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (18 bp):
AAAGATAAGAATAAAAAT
Found at i:1658310 original size:16 final size:18
Alignment explanation
Indices: 1658278--1658324 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 18
1658268 GAATAAAAAT
1658278 AAAAATGAAATAAAGGGG
1 AAAAATGAAATAAAGGGG
*
1658296 AAAAAT-AAA-AAAGGGT
1 AAAAATGAAATAAAGGGG
*
1658312 AAATA-GAAATAAA
1 AAAAATGAAATAAA
1658325 TAAAATAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 13 0.52
17 6 0.24
18 6 0.24
ACGTcount: A:0.68, C:0.00, G:0.19, T:0.13
Consensus pattern (18 bp):
AAAAATGAAATAAAGGGG
Found at i:1658341 original size:3 final size:3
Alignment explanation
Indices: 1658333--1658373 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
1658323 AATAAAATAG
*
1658333 AAT AAT AAT AAT AAT AAT AAT AAT AAT ACT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1658374 AAACAGTAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1659052 original size:22 final size:21
Alignment explanation
Indices: 1659027--1659101 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 21
1659017 TGTGTACCCG
1659027 GATCCTATTTATATTGCTTAT
1 GATCCTATTTATATTGCTTAT
*
1659048 AGATCTTATTTATGA-TGCTT-T
1 -GATCCTATTTAT-ATTGCTTAT
*
1659069 GATGGCTATTTATATTGCTTAT
1 GAT-CCTATTTATATTGCTTAT
*
1659091 GGATCATATTT
1 -GATCCTATTT
1659102 TTAAGAGTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
20 4 0.09
21 13 0.30
22 22 0.51
23 4 0.09
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.51
Consensus pattern (21 bp):
GATCCTATTTATATTGCTTAT
Found at i:1659147 original size:37 final size:37
Alignment explanation
Indices: 1659093--1659167 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
1659083 TTGCTTATGG
1659093 ATCATATTTTTAAGAGTTTGAATCATAGTAAAACTCT
1 ATCATATTTTTAAGAGTTTGAATCATAGTAAAACTCT
* *
1659130 ATCATATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
1 ATCATATTTTTAAGAGTTTGAATCATAGTAAAACTCT
1659167 A
1 A
1659168 ACGTTATGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (37 bp):
ATCATATTTTTAAGAGTTTGAATCATAGTAAAACTCT
Found at i:1662257 original size:2 final size:2
Alignment explanation
Indices: 1662246--1662291 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
1662236 AACAAATACA
1662246 AT AT -T 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
1662287 AT AT A
1 AT AT A
1662292 ATTACTTTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1662687 original size:24 final size:25
Alignment explanation
Indices: 1662641--1662696 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 25
1662631 TTTTATATAT
**
1662641 TTTAAAATTTATATTCTATATTT-G
1 TTTAAAATTTATATAATATATTTAG
1662665 TTTAAAA-TTATATAATATGATTTAG
1 TTTAAAATTTATATAATAT-ATTTAG
1662690 TATTAAA
1 T-TTAAA
1662697 TAATTGACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 9 0.33
24 11 0.41
25 2 0.07
26 5 0.19
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (25 bp):
TTTAAAATTTATATAATATATTTAG
Found at i:1666516 original size:16 final size:16
Alignment explanation
Indices: 1666495--1666525 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1666485 TATAAAAATA
1666495 ATATAATTAATATTTT
1 ATATAATTAATATTTT
*
1666511 ATATAATTTATATTT
1 ATATAATTAATATTT
1666526 AGATTTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATATAATTAATATTTT
Found at i:1667408 original size:20 final size:20
Alignment explanation
Indices: 1667358--1667408 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
1667348 TTAAAAATTA
*
1667358 TAAAATAATTCTTATATTTT
1 TAAAATAATTCTTATACTTT
*
1667378 TGAAAAAAATTCTTA-ACTTT
1 T-AAAATAATTCTTATACTTT
1667398 TAAAATTAATT
1 TAAAA-TAATT
1667409 GTTTAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 4 0.15
20 10 0.38
21 12 0.46
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (20 bp):
TAAAATAATTCTTATACTTT
Found at i:1668211 original size:2 final size:2
Alignment explanation
Indices: 1668199--1668242 Score: 79
Period size: 2 Copynumber: 21.5 Consensus size: 2
1668189 ATAAGAATTT
1668199 TA TA CTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1668242 T
1 T
1668243 TATCTCAACA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 39 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1675751 original size:18 final size:18
Alignment explanation
Indices: 1675716--1675754 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1675706 GAAGAGTATG
**
1675716 ATTTCTCCTAGACTAATA
1 ATTTCTCCTAGAAGAATA
*
1675734 ATTTCTCCTTGAAGAATA
1 ATTTCTCCTAGAAGAATA
1675752 ATT
1 ATT
1675755 CAAATATAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (18 bp):
ATTTCTCCTAGAAGAATA
Found at i:1680587 original size:17 final size:18
Alignment explanation
Indices: 1680557--1680590 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1680547 TTTTTAATTG
1680557 AATAAAAATAATATATTA
1 AATAAAAATAATATATTA
1680575 AATAAAAAT-ATATATT
1 AATAAAAATAATATATT
1680591 TCTAGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AATAAAAATAATATATTA
Found at i:1690243 original size:20 final size:21
Alignment explanation
Indices: 1690218--1690310 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
1690208 TTTTCCCAAT
*
1690218 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
1690238 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
1690259 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
1690279 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
1690300 TCGCAATGCGA
1 TCGCAATGCGA
1690311 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:1690263 original size:41 final size:41
Alignment explanation
Indices: 1690218--1690310 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
1690208 TTTTCCCAAT
1690218 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1690259 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1690300 TCGCAATGCGA
1 TCGCAATGCGA
1690311 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:1690323 original size:41 final size:41
Alignment explanation
Indices: 1690237--1690371 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
1690227 GAATAAGTAA
* *
1690237 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
1690278 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
1690319 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
1690360 TTCGCAACGCGA
1 ATCGCAACGCGA
1690372 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:1690324 original size:20 final size:20
Alignment explanation
Indices: 1690299--1690392 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
1690289 AATTGGGAAA
*
1690299 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
1690319 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
1690340 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
1690360 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
1690380 TTCGCAACGCGAT
1 ATCGCAACGCGAT
1690393 TTACATAGCG
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 46 0.77
21 14 0.23
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:1690946 original size:19 final size:19
Alignment explanation
Indices: 1690908--1690974 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
1690898 TTCGAGAATG
1690908 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
1690928 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
1690947 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
1690966 AAAATCGCA
1 AAAATCGCA
1690975 TTGCGATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 30 0.73
20 11 0.27
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:1690992 original size:19 final size:19
Alignment explanation
Indices: 1690970--1691154 Score: 165
Period size: 19 Copynumber: 10.1 Consensus size: 19
1690960 GAAACCAAAA
* *
1690970 TCGCATTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
1690989 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
1691008 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
1691027 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
1691047 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
1691063 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
1691080 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
1691094 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
1691113 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
1691133 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
1691153 TC
1 TC
1691155 AACCAAAAGA
Statistics
Matches: 137, Mismatches: 16, Indels: 26
0.77 0.09 0.15
Matches are distributed among these distances:
14 20 0.15
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 59 0.43
20 49 0.36
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1691047 original size:39 final size:38
Alignment explanation
Indices: 1690970--1691059 Score: 162
Period size: 39 Copynumber: 2.3 Consensus size: 38
1690960 GAAACCAAAA
*
1690970 TCGCATTGCGATTTTTATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTTATTTCGCGTTGCGATTTTCATT
1691008 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTTATTTCGC-GTTGCGATTTTCATT
1691047 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1691060 GTCTGGTCGC
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 22 0.44
39 28 0.56
ACGTcount: A:0.11, C:0.19, G:0.22, T:0.48
Consensus pattern (38 bp):
TCGCGTTGCGATTTTTATTTCGCGTTGCGATTTTCATT
Found at i:1691070 original size:39 final size:39
Alignment explanation
Indices: 1690970--1691070 Score: 116
Period size: 39 Copynumber: 2.6 Consensus size: 39
1690960 GAAACCAAAA
* * **
1690970 TCGCATTGCGATTTTTATTTCGC-GTTGCGATTTTCATT
1 TCGCGTTGCGATTTCTAGGTCGCGGTTGCGATTTTCATT
* **
1691008 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTCTAGGTCGCGGTTGCGATTTTCATT
1691047 TCGCGTTGCGATTGTCT-GGTCGCG
1 TCGCGTTGCGATT-TCTAGGTCGCG
1691071 ATAGTCATTT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
38 22 0.39
39 33 0.58
40 2 0.04
ACGTcount: A:0.10, C:0.20, G:0.25, T:0.46
Consensus pattern (39 bp):
TCGCGTTGCGATTTCTAGGTCGCGGTTGCGATTTTCATT
Found at i:1691079 original size:33 final size:33
Alignment explanation
Indices: 1691042--1691129 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
1691032 GTTGCGATTT
* *
1691042 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
1691075 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
1691108 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
1691130 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:1691131 original size:20 final size:20
Alignment explanation
Indices: 1691097--1691154 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
1691087 GCGATTCTCT
**
1691097 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
1691117 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
1691137 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
1691155 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:1693209 original size:42 final size:42
Alignment explanation
Indices: 1693149--1693241 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
1693139 GCCCGAATCG
* * * *
1693149 CCTATCATCCCTCAAGAGTACACTCCTATCGTTGAAGAGGCC
1 CCTATCATTCCTCAAGAGTACACTCCCACCGTTCAAGAGGCC
* * *
1693191 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATTCCTCAAGAGTACACTCCCACCGTTCAAGAGGCC
* *
1693233 ACTGTCATT
1 CCTATCATT
1693242 GTTGAAGAGG
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.23, C:0.37, G:0.16, T:0.25
Consensus pattern (42 bp):
CCTATCATTCCTCAAGAGTACACTCCCACCGTTCAAGAGGCC
Found at i:1694645 original size:14 final size:14
Alignment explanation
Indices: 1694626--1694661 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1694616 ATTGTTTAAT
1694626 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
1694640 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
1694654 TGATTTGT
1 TGATTTGT
1694662 TTAATTGATG
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:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:1694902 original size:19 final size:19
Alignment explanation
Indices: 1694839--1694902 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 19
1694829 CGAAATTAAA
*
1694839 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
* *
1694858 TTCACATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
1694874 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
1694891 TTCGCATTGCGA
1 TTCGCATTGCGA
1694903 AATTAGCGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 10
0.66 0.14 0.20
Matches are distributed among these distances:
14 6 0.18
16 5 0.15
17 6 0.18
19 16 0.48
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:1694913 original size:33 final size:33
Alignment explanation
Indices: 1694836--1694918 Score: 107
Period size: 33 Copynumber: 2.5 Consensus size: 33
1694826 ACGCGAAATT
1694836 AAATTCGCGTTGCGATTTTCATTTCACATTGCG
1 AAATTCGCGTTGCGATTTTCATTTCACATTGCG
* *
1694869 --ATTCCCTCGTTGCGATTTTCATTTCGCATTGCG
1 AAATT--CGCGTTGCGATTTTCATTTCACATTGCG
*
1694902 AAATTAGCGTTGCGATT
1 AAATTCGCGTTGCGATT
1694919 CTCTCGTTGC
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
31 3 0.07
33 36 0.86
35 3 0.07
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.40
Consensus pattern (33 bp):
AAATTCGCGTTGCGATTTTCATTTCACATTGCG
Found at i:1698726 original size:14 final size:14
Alignment explanation
Indices: 1698707--1698764 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
1698697 TTTCATTTCG
1698707 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
1698721 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
*
1698737 CGCATTACGATTTTGT
1 CG--TTGCGATTTTGT
1698753 CGTTGCGATTTT
1 CGTTGCGATTTT
1698765 CATTTCACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.56
16 8 0.22
18 8 0.22
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1698736 original size:32 final size:33
Alignment explanation
Indices: 1698694--1698780 Score: 140
Period size: 32 Copynumber: 2.7 Consensus size: 33
1698684 TGAACTTAAG
*
1698694 GATTTTCATTTCGCGTTGCGATTTTGTCGTTGC
1 GATTTTCATTTCGCATTGCGATTTTGTCGTTGC
*
1698727 GA-TTTCATTTCGCATTACGATTTTGTCGTTGC
1 GATTTTCATTTCGCATTGCGATTTTGTCGTTGC
*
1698759 GATTTTCATTTCACATTGCGAT
1 GATTTTCATTTCGCATTGCGAT
1698781 AGCCATTTCC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 30 0.61
33 19 0.39
ACGTcount: A:0.15, C:0.18, G:0.20, T:0.47
Consensus pattern (33 bp):
GATTTTCATTTCGCATTGCGATTTTGTCGTTGC
Found at i:1698787 original size:19 final size:20
Alignment explanation
Indices: 1698765--1698808 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1698755 TTGCGATTTT
1698765 CATTT-CACATTGCGATAGC
1 CATTTCCACATTGCGATAGC
* * *
1698784 CATTTCCGCGTTGCGATAGT
1 CATTTCCACATTGCGATAGC
1698804 CATTT
1 CATTT
1698809 TCGTATTGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (20 bp):
CATTTCCACATTGCGATAGC
Found at i:1698817 original size:20 final size:20
Alignment explanation
Indices: 1698772--1698819 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1698762 TTTCATTTCA
1698772 CATTGCGATAGCCATTTCCG
1 CATTGCGATAGCCATTTCCG
* * *
1698792 CGTTGCGATAGTCATTTTCG
1 CATTGCGATAGCCATTTCCG
*
1698812 TATTGCGA
1 CATTGCGA
1698820 AAGTAAACTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (20 bp):
CATTGCGATAGCCATTTCCG
Found at i:1699318 original size:18 final size:18
Alignment explanation
Indices: 1699292--1699336 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1699282 GTCGATCAGA
*
1699292 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
1699310 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
1699328 TGATGGCTC
1 TGATGGCTC
1699337 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:1700981 original size:22 final size:22
Alignment explanation
Indices: 1700956--1700999 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1700946 GATTTAGATA
1700956 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
1700978 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
1701000 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:1701211 original size:20 final size:20
Alignment explanation
Indices: 1701186--1701234 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
1701176 GATTATGTAT
*
1701186 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTAAG
1701206 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTAAG
*
1701226 TATCTCGTT
1 TATCGCGTT
1701235 ACGATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTAAG
Found at i:1701272 original size:20 final size:20
Alignment explanation
Indices: 1701166--1701280 Score: 79
Period size: 20 Copynumber: 5.7 Consensus size: 20
1701156 CGCTTTGAAA
*
1701166 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
1701187 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
1701207 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * * ** * *
1701227 ATCTCGTTACGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
1701248 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
1701268 ATCGCATTGCGAT
1 ATCGCATTGCGAT
1701281 TTTCCCAATT
Statistics
Matches: 74, Mismatches: 18, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
19 2 0.03
20 49 0.66
21 23 0.31
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:1701281 original size:41 final size:41
Alignment explanation
Indices: 1701206--1701283 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
1701196 CGAAAGTCAG
* * *
1701206 TATCGCGTTGCGAAAGTAAGTATCTCGTTACGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTACGATTTTTTAT
* * *
1701247 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTACGATTTT
1701284 CCCAATTCGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTACGATTTTTTAT
Found at i:1701298 original size:21 final size:21
Alignment explanation
Indices: 1701269--1701361 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
1701259 ATAGTCAGTA
1701269 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
1701290 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
1701310 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
1701331 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
1701351 TCGCATTGCGA
1 TCGCATTGCGA
1701362 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:1701299 original size:41 final size:41
Alignment explanation
Indices: 1701269--1701361 Score: 150
Period size: 41 Copynumber: 2.3 Consensus size: 41
1701259 ATAGTCAGTA
* *
1701269 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
* *
1701310 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
1701351 TCGCATTGCGA
1 TCGCATTGCGA
1701362 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:1704586 original size:23 final size:23
Alignment explanation
Indices: 1704560--1704605 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1704550 TCTCATTTGA
* *
1704560 TTACTGTCTGGTGGG-TCATTTTC
1 TTACTG-CTAGTGGGATCAATTTC
1704583 TTACTGCTAGTGGGATCAATTTC
1 TTACTGCTAGTGGGATCAATTTC
1704606 CAAGCGATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.15, C:0.17, G:0.24, T:0.43
Consensus pattern (23 bp):
TTACTGCTAGTGGGATCAATTTC
Found at i:1704599 original size:113 final size:113
Alignment explanation
Indices: 1704401--1704618 Score: 409
Period size: 113 Copynumber: 1.9 Consensus size: 113
1704391 AAAGAAGAAT
1704401 CCCCAACTCTTGGGCAGAATGATTCTCTATCACAACTCTCATTTGATTACTGTATGGTGGGTCAT
1 CCCCAACTCTTGGGCAGAATGATTCTCTATCACAACTCTCATTTGATTACTGTATGGTGGGTCAT
*
1704466 TTTCTTACTGCTAGTGGGATCAATTTACAGGCGATGAGGAGGAGGAAG
66 TTTCTTACTGCTAGTGGGATCAATTTACAAGCGATGAGGAGGAGGAAG
*
1704514 CCCCAACTCTTGGGCAGAATGATTCTCTATCACAACTCTCATTTGATTACTGTCTGGTGGGTCAT
1 CCCCAACTCTTGGGCAGAATGATTCTCTATCACAACTCTCATTTGATTACTGTATGGTGGGTCAT
*
1704579 TTTCTTACTGCTAGTGGGATCAATTTCCAAGCGATGAGGA
66 TTTCTTACTGCTAGTGGGATCAATTTACAAGCGATGAGGA
1704619 TAACTTTAGT
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
113 102 1.00
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (113 bp):
CCCCAACTCTTGGGCAGAATGATTCTCTATCACAACTCTCATTTGATTACTGTATGGTGGGTCAT
TTTCTTACTGCTAGTGGGATCAATTTACAAGCGATGAGGAGGAGGAAG
Found at i:1711471 original size:33 final size:33
Alignment explanation
Indices: 1711429--1711495 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
1711419 ATTGGGGTTC
*
1711429 GCCACAAAGGCTAAGGCCATTGAATTCAAAAAA
1 GCCACAAAGGCTAAGGCCACTGAATTCAAAAAA
1711462 GCCACAAAGGCTAAGGCCACTGAATTCAAAAAA
1 GCCACAAAGGCTAAGGCCACTGAATTCAAAAAA
1711495 G
1 G
1711496 TGACATTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.22, G:0.19, T:0.13
Consensus pattern (33 bp):
GCCACAAAGGCTAAGGCCACTGAATTCAAAAAA
Found at i:1712369 original size:21 final size:21
Alignment explanation
Indices: 1712343--1712392 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
1712333 TAGGTCATCC
*
1712343 AGGGTGCTGCCAGCCGATACT
1 AGGGTGCTGCCAGCCGACACT
*
1712364 AGGGTGCTGCCAGCTGACACT
1 AGGGTGCTGCCAGCCGACACT
1712385 AGGGTGCT
1 AGGGTGCT
1712393 ACTTAGTGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.18, C:0.26, G:0.36, T:0.20
Consensus pattern (21 bp):
AGGGTGCTGCCAGCCGACACT
Found at i:1724786 original size:39 final size:39
Alignment explanation
Indices: 1724716--1724791 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
1724706 ATCTATATCT
* * *
1724716 ATATATAATATAGTTTTTAAAACCCCATTTTTGAAATAC
1 ATATAAAATATAGTTTTTAAAACACAATTTTTGAAATAC
*
1724755 ATATAAAATATAGTTTTTAAAA-ATAATTTTTTGAAAT
1 ATATAAAATATAGTTTTTAAAACACAA-TTTTTGAAAT
1724792 TATATATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.03
39 31 0.97
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (39 bp):
ATATAAAATATAGTTTTTAAAACACAATTTTTGAAATAC
Found at i:1726205 original size:14 final size:16
Alignment explanation
Indices: 1726186--1726218 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
1726176 ATTTTATTAA
1726186 TTTTTTC-TAT-TATT
1 TTTTTTCATATATATT
1726200 TTTTTTCATATATATT
1 TTTTTTCATATATATT
1726216 TTT
1 TTT
1726219 AATCTAACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 3 0.18
16 7 0.41
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTCATATATATT
Found at i:1727936 original size:26 final size:26
Alignment explanation
Indices: 1727905--1727962 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
1727895 AGACATGTTG
*
1727905 TGCATTTTG-TTACTTTTCTTTACAT
1 TGCATTATGATTACTTTTCTTTACAT
* * *
1727930 TCGCATTATGATTCCTTTTTTTTTCAT
1 T-GCATTATGATTACTTTTCTTTACAT
1727957 TGCATT
1 TGCATT
1727963 CACATGTCTC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.04
26 12 0.44
27 14 0.52
ACGTcount: A:0.16, C:0.17, G:0.09, T:0.59
Consensus pattern (26 bp):
TGCATTATGATTACTTTTCTTTACAT
Found at i:1730079 original size:105 final size:105
Alignment explanation
Indices: 1729930--1730663 Score: 1265
Period size: 105 Copynumber: 7.0 Consensus size: 105
1729920 GGGTCGCTCA
* *
1729930 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCGATTTC
*
1729995 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
1730035 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCGATTTC
*
1730100 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
1730140 AGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCGATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCGATTTC
1730205 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
1730245 A-ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCGATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCGATTT
1730309 CAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCC
65 CAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
1730350 AGACAACGCAAGTTCAACTTCACGACGAGGGGACCGCTGGTTGTCAGCAAACATTTCTCGATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCGATTTC
*
1730415 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCT
66 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1730455 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCGATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCGATTTC
1730520 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
1730560 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTT-TCCAGTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAA-CATTTCTCGA-TT
* * * ** *
1730624 CCATAGCCAATTTCAACTTCACGGCGGAGGATATTGGACT
64 TCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACT
1730664 TAGAACAATA
Statistics
Matches: 604, Mismatches: 21, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
104 48 0.08
105 469 0.78
106 87 0.14
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (105 bp):
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCGATTTC
AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCC
Found at i:1731136 original size:165 final size:164
Alignment explanation
Indices: 1730861--1731353 Score: 767
Period size: 165 Copynumber: 3.0 Consensus size: 164
1730851 GTGTCTGCCA
1730861 ACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAGCTTAAG
1 ACCAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTGCAGCATAGCTTAAG
*
1730925 TCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCGAGGGCACATCATT
65 TCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCGAGGGCAAATCATT
*
1730990 TACAACATAACTCAAGGCTAGAAGGGTTATCTGTG
130 TACAACATAACTCAAGGCTAGAAGGGTTATCTGTC
* *
1731025 ACCAAAAGACCTTTGAGTTTGACTACGCTCAGCTCAACGACACATCATTTGCAGCATAGCTTAAG
1 ACC-AAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAG
* *
1731090 TCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATT
65 TCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCGAGGGCAAATCATT
*
1731155 TACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
130 TACAACATAACTCAAGGCTAGAAGGGTTATCTGTC
*
1731190 ACCAAAGACCTTTGAGTTCGACTACACTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGT
1 ACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGT
* * * * * * *
1731255 CGAGAAGGGCTATCTGCTAAAGA-CCTTCGAGTTCGATTATATTCAACTTAGA-GTCAAATCATT
66 CGAGAAGGGCTATCTGCCAAAGACCCTT-AAGTTCGATTACACTCAGCTTCGAGGGCAAATCATT
* * * *
1731318 TACAACATAGCTCAAGGCAAGAAGGGCTATTTGTC
130 TACAACATAACTCAAGGCTAGAAGGGTTATCTGTC
1731353 A
1 A
1731354 ATAAAATTGT
Statistics
Matches: 303, Mismatches: 23, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
163 44 0.15
164 105 0.35
165 154 0.51
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (164 bp):
ACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGT
CGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCGAGGGCAAATCATTT
ACAACATAACTCAAGGCTAGAAGGGTTATCTGTC
Found at i:1731327 original size:80 final size:79
Alignment explanation
Indices: 1730862--1731347 Score: 445
Period size: 80 Copynumber: 6.0 Consensus size: 79
1730852 TGTCTGCCAA
* * * * * *
1730862 CCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAGCTTAAGT
1 CCAAAGACC-TTGAGTTCGATTACACTCAGCT-TAACGGCACATCATTTACAGCATAGCTCAAGG
1730926 CGAGAAGGGCTATCTG
64 CGAGAAGGGCTATCTG
* * * * *
1730942 CCAAAGACCCTTAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGG
1 CCAAAGA-CCTTGAGTTCGATTACACTCAGCTT-AACGGCACATCATTTACAGCATAGCTCAAGG
* *
1731007 CTAGAAGGGTTATCTGTG
64 CGAGAAGGGCTATC--TG
* * * * * * *
1731025 ACCAAAAGACCTTTGAGTTTGACTACGCTCAGCTCAACGACACATCATTTGCAGCATAGCTTAAG
1 -CC-AAAGACC-TTGAGTTCGATTACACTCAGCTTAACGGCACATCATTTACAGCATAGCTCAAG
*
1731090 TCGAGAAGGGCTATCTG
63 GCGAGAAGGGCTATCTG
* * * *
1731107 CCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGG
1 CCAAAGA-CCTTGAGTTCGATTACACTCAGCTT-AACGGCACATCATTTACAGCATAGCTCAAGG
* *
1731172 CTAGAAGGGTTATCTG
64 CGAGAAGGGCTATCTG
* * * *
1731188 TCACCAAAGACCTTTGAGTTCGACTACACTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAA
1 ---CCAAAGACC-TTGAGTTCGATTACACTCAGCTTAACGGCACATCATTTACAGCATAGCTCAA
*
1731253 GTCGAGAAGGGCTATCTG
62 GGCGAGAAGGGCTATCTG
* * * * * * *
1731271 CTAAAGACCTTCGAGTTCGATTATATTCAACTTAGA-GTCAAATCATTTACAACATAGCTCAAGG
1 CCAAAGACCTT-GAGTTCGATTACACTCAGCTTA-ACGGCACATCATTTACAGCATAGCTCAAGG
*
1731335 CAAGAAGGGCTAT
64 CGAGAAGGGCTAT
1731348 TTGTCAATAA
Statistics
Matches: 325, Mismatches: 65, Indels: 32
0.77 0.15 0.08
Matches are distributed among these distances:
79 2 0.01
80 109 0.34
81 80 0.25
82 2 0.01
83 43 0.13
84 66 0.20
85 23 0.07
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (79 bp):
CCAAAGACCTTGAGTTCGATTACACTCAGCTTAACGGCACATCATTTACAGCATAGCTCAAGGCG
AGAAGGGCTATCTG
Found at i:1734077 original size:20 final size:20
Alignment explanation
Indices: 1734057--1734180 Score: 176
Period size: 20 Copynumber: 6.2 Consensus size: 20
1734047 TCTAAATTCA
* * *
1734057 CAACGCGAATATGTAAATCA
1 CAACGCGAATCTATAAATCG
* *
1734077 CAACGCGAATTTGTAAATCG
1 CAACGCGAATCTATAAATCG
1734097 CAACGCGAATCTATAAATCG
1 CAACGCGAATCTATAAATCG
1734117 CAACGCGAATCTATAAATCG
1 CAACGCGAATCTATAAATCG
1734137 CAACGCGAATCTATAAATCG
1 CAACGCGAATCTATAAATCG
* * *
1734157 CAACGCGAATTTGTAATTCG
1 CAACGCGAATCTATAAATCG
1734177 CAAC
1 CAAC
1734181 ACATAAGTCA
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 97 1.00
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.22
Consensus pattern (20 bp):
CAACGCGAATCTATAAATCG
Found at i:1734194 original size:20 final size:20
Alignment explanation
Indices: 1734171--1734216 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
1734161 GCGAATTTGT
*
1734171 AATTCGCAACACATAAGTCA
1 AATTCGCAACACAGAAGTCA
1734191 AATTCGCAACACAGAAGTCA
1 AATTCGCAACACAGAAGTCA
1734211 AATTCG
1 AATTCG
1734217 AAAAGCACGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.43, C:0.24, G:0.13, T:0.20
Consensus pattern (20 bp):
AATTCGCAACACAGAAGTCA
Found at i:1734200 original size:40 final size:40
Alignment explanation
Indices: 1734057--1734180 Score: 194
Period size: 40 Copynumber: 3.1 Consensus size: 40
1734047 TCTAAATTCA
* * *
1734057 CAACGCGAATATGTAAATCACAACGCGAATTTGTAAATCG
1 CAACGCGAATCTATAAATCGCAACGCGAATTTGTAAATCG
* *
1734097 CAACGCGAATCTATAAATCGCAACGCGAATCTATAAATCG
1 CAACGCGAATCTATAAATCGCAACGCGAATTTGTAAATCG
*
1734137 CAACGCGAATCTATAAATCGCAACGCGAATTTGTAATTCG
1 CAACGCGAATCTATAAATCGCAACGCGAATTTGTAAATCG
1734177 CAAC
1 CAAC
1734181 ACATAAGTCA
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.22
Consensus pattern (40 bp):
CAACGCGAATCTATAAATCGCAACGCGAATTTGTAAATCG
Found at i:1734372 original size:22 final size:22
Alignment explanation
Indices: 1734347--1734425 Score: 86
Period size: 22 Copynumber: 3.6 Consensus size: 22
1734337 TCACTCTCTA
* *
1734347 CGACGACATCCGTCCCTATCTC
1 CGACGAAATCCGTCCCCATCTC
* *
1734369 CGACAAAATTCGTCCCCATCTC
1 CGACGAAATCCGTCCCCATCTC
* * *
1734391 CGATGAAATTCATCCCCATCTC
1 CGACGAAATCCGTCCCCATCTC
*
1734413 TGACGAAATCCGT
1 CGACGAAATCCGT
1734426 ATATCTCCAT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.25, C:0.38, G:0.13, T:0.24
Consensus pattern (22 bp):
CGACGAAATCCGTCCCCATCTC
Found at i:1734822 original size:19 final size:20
Alignment explanation
Indices: 1734784--1734829 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
1734774 AAAATGAAAA
* * *
1734784 TCGCAACGCGATCTCGAA-T
1 TCGCAACGCAAACTCCAATT
1734803 TCGCAACGCAAACTCCAATT
1 TCGCAACGCAAACTCCAATT
1734823 TCGCAAC
1 TCGCAAC
1734830 TCAGTTTCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.30, C:0.35, G:0.15, T:0.20
Consensus pattern (20 bp):
TCGCAACGCAAACTCCAATT
Found at i:1734882 original size:21 final size:21
Alignment explanation
Indices: 1734840--1734902 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
1734830 TCAGTTTCCA
* **
1734840 TTCCAATTTCGCATTGTAATT
1 TTCCAATTTCGCGTTGCGATT
*
1734861 TTCCAAATTCGCGTTGCGATT
1 TTCCAATTTCGCGTTGCGATT
1734882 TT-C-ATTTCGCGTTGCGATT
1 TTCCAATTTCGCGTTGCGATT
1734901 TT
1 TT
1734903 AAGTTTCAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 17 0.46
20 1 0.03
21 19 0.51
ACGTcount: A:0.17, C:0.21, G:0.16, T:0.46
Consensus pattern (21 bp):
TTCCAATTTCGCGTTGCGATT
Found at i:1736841 original size:12 final size:12
Alignment explanation
Indices: 1736815--1736856 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
1736805 TTTTTCGGTA
1736815 TTATTTATTTG-T
1 TTATTTA-TTGAT
1736827 TTATTTATTGAT
1 TTATTTATTGAT
* *
1736839 TTATGTATTAAT
1 TTATTTATTGAT
1736851 TTATTT
1 TTATTT
1736857 TTAGCGGTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 3 0.12
12 23 0.88
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (12 bp):
TTATTTATTGAT
Found at i:1737052 original size:20 final size:20
Alignment explanation
Indices: 1736996--1737058 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
1736986 GTCTGATTCA
*
1736996 CCTGTCATAGTTCAAGAGGC
1 CCTGTCATCGTTCAAGAGGC
*
1737016 CTCT-CCTATCGTTCAAGAGGC
1 C-CTGTC-ATCGTTCAAGAGGC
*
1737037 CCTGTCATCCTTCAAGAGGC
1 CCTGTCATCGTTCAAGAGGC
1737057 CC
1 CC
1737059 CTCCCACCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 19 0.53
21 17 0.47
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.25
Consensus pattern (20 bp):
CCTGTCATCGTTCAAGAGGC
Found at i:1738490 original size:64 final size:64
Alignment explanation
Indices: 1738414--1738562 Score: 253
Period size: 64 Copynumber: 2.3 Consensus size: 64
1738404 AAATTTATGT
1738414 ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTG
1 ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTG
* * ***
1738478 ATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTTTTGCTTGTTTAATTG
1 ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTG
1738542 ATTTGTAAAAGTTGATTTGTT
1 ATTTGTAAAAGTTGATTTGTT
1738563 GTTTTAAATT
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 80 1.00
ACGTcount: A:0.29, C:0.02, G:0.17, T:0.52
Consensus pattern (64 bp):
ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTG
Found at i:1738652 original size:20 final size:20
Alignment explanation
Indices: 1738624--1738745 Score: 129
Period size: 20 Copynumber: 6.1 Consensus size: 20
1738614 GTACATTTTT
* *
1738624 GCAACGCGAAAATCAAATTC
1 GCAATGCGAAAGTCAAATTC
1738644 GCAATGCGAAAGTCAAATTC
1 GCAATGCGAAAGTCAAATTC
***
1738664 GTGTTGC-AATAGTCAAATTC
1 GCAATGCGAA-AGTCAAATTC
* *
1738684 GCAATCCGAAAGTCAAATTA
1 GCAATGCGAAAGTCAAATTC
* *
1738704 GTAATGCGAAAGTCAAATTT
1 GCAATGCGAAAGTCAAATTC
* *
1738724 GCAACGCAAAAGTCAAATTC
1 GCAATGCGAAAGTCAAATTC
1738744 GC
1 GC
1738746 GTTGCGATTT
Statistics
Matches: 83, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
19 2 0.02
20 79 0.95
21 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (20 bp):
GCAATGCGAAAGTCAAATTC
Found at i:1738694 original size:40 final size:40
Alignment explanation
Indices: 1738629--1738752 Score: 144
Period size: 40 Copynumber: 3.1 Consensus size: 40
1738619 TTTTTGCAAC
* *
1738629 GCGAAAATCAAATTCGCAATGCGAAAGTCAAATTCGTGTT
1 GCGAAAGTCAAATTCGCAATCCGAAAGTCAAATTCGTGTT
* **
1738669 GC-AATAGTCAAATTCGCAATCCGAAAGTCAAATTAGTAAT
1 GCGAA-AGTCAAATTCGCAATCCGAAAGTCAAATTCGTGTT
* * *
1738709 GCGAAAGTCAAATTTGCAA-CGCAAAAGTCAAATTCGCGTT
1 GCGAAAGTCAAATTCGCAATC-CGAAAGTCAAATTCGTGTT
1738749 GCGA
1 GCGA
1738753 TTTTCGCGTT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.04
40 65 0.93
41 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (40 bp):
GCGAAAGTCAAATTCGCAATCCGAAAGTCAAATTCGTGTT
Found at i:1738738 original size:60 final size:60
Alignment explanation
Indices: 1738630--1738745 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
1738620 TTTTGCAACG
* **** *
1738630 CGAAAATCAAATTCGCAATGCGAAAGTCAAATTCGTGTTGCAATAGTCAAATTCGCAATC
1 CGAAAATCAAATTAGCAATGCGAAAGTCAAATTCGCAACGCAAAAGTCAAATTCGCAATC
* * *
1738690 CGAAAGTCAAATTAGTAATGCGAAAGTCAAATTTGCAACGCAAAAGTCAAATTCGC
1 CGAAAATCAAATTAGCAATGCGAAAGTCAAATTCGCAACGCAAAAGTCAAATTCGC
1738746 GTTGCGATTT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (60 bp):
CGAAAATCAAATTAGCAATGCGAAAGTCAAATTCGCAACGCAAAAGTCAAATTCGCAATC
Found at i:1742385 original size:20 final size:20
Alignment explanation
Indices: 1742337--1742382 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
1742327 AATTCAGTGT
1742337 TGCGAATTTGGAAATCGCAA
1 TGCGAATTTGGAAATCGCAA
*
1742357 TGTGAATTTGGAAAATCGCAA
1 TGCGAATTTGG-AAATCGCAA
1742378 TGCGA
1 TGCGA
1742383 TTTACATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (20 bp):
TGCGAATTTGGAAATCGCAA
Found at i:1747659 original size:24 final size:25
Alignment explanation
Indices: 1747604--1747661 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 25
1747594 GTATTTTTAC
*
1747604 TGGATTAATCAAGATTTACAAAATT
1 TGGATTAGTCAAGATTTACAAAATT
** * *
1747629 TATATTAGTCAGGATTTA-TAAATT
1 TGGATTAGTCAAGATTTACAAAATT
1747653 TGGATTAGT
1 TGGATTAGT
1747662 TGAAATTTAC
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (25 bp):
TGGATTAGTCAAGATTTACAAAATT
Found at i:1760422 original size:16 final size:17
Alignment explanation
Indices: 1760394--1760425 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1760384 ATCGCCGACC
1760394 AAATTTCACTATTCACG
1 AAATTTCACTATTCACG
1760411 AAATTT-ACTATTCAC
1 AAATTTCACTATTCAC
1760426 ATGAATAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.38
Consensus pattern (17 bp):
AAATTTCACTATTCACG
Found at i:1762502 original size:21 final size:21
Alignment explanation
Indices: 1762476--1762520 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1762466 GATTTCTGGG
* *
1762476 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1762497 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1762518 CAA
1 CAA
1762521 ACGAACAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1763469 original size:2 final size:2
Alignment explanation
Indices: 1763462--1763491 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1763452 GAACATGTGA
1763462 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
1763492 GTCTAAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1763867 original size:14 final size:14
Alignment explanation
Indices: 1763848--1763875 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1763838 GAAAAGAAGC
1763848 TATGTGATACGTGA
1 TATGTGATACGTGA
1763862 TATGTGATACGTGA
1 TATGTGATACGTGA
1763876 ATTATAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (14 bp):
TATGTGATACGTGA
Found at i:1764246 original size:149 final size:149
Alignment explanation
Indices: 1763976--1764586 Score: 1174
Period size: 149 Copynumber: 4.1 Consensus size: 149
1763966 GAGTCGAGGG
1763976 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1764041 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
1764106 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
1764125 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1764190 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
1764255 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
1764274 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1764339 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
1764404 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
1764423 TCTACGCGGTCTTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACAC--
1 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1764486 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
*
1764551 TATGGCACTACGGTGGAAT
131 TATGGCACTACGGTGCAAT
1764570 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
1764587 TGCAATTATA
Statistics
Matches: 458, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
146 1 0.00
147 97 0.21
149 360 0.79
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:1764580 original size:23 final size:23
Alignment explanation
Indices: 1764554--1764598 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1764544 ATCATTATAT
* *
1764554 GGCACTACGGTGGAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
1764577 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
1764599 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:1767749 original size:21 final size:21
Alignment explanation
Indices: 1767723--1767767 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1767713 GATTTCTGGG
* *
1767723 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1767744 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1767765 CAA
1 CAA
1767768 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Done.