Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_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: 11700749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 39 of 50
Found at i:9305871 original size:19 final size:20
Alignment explanation
Indices: 9305847--9305894 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
9305837 AATGATTTTC
*
9305847 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
9305866 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
9305886 TTTTGAAAA
1 TTTTGAAAA
9305895 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:9307141 original size:30 final size:31
Alignment explanation
Indices: 9307084--9307142 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
9307074 AATTTAAGGC
*
9307084 AAAATGTTTTTGGACTTGAATTGAATTTACA
1 AAAATGTTTTTGAACTTGAATTGAATTTACA
*
9307115 AAAATGTTTTTGAACTT-AATTTAATTTA
1 AAAATGTTTTTGAACTTGAATTGAATTTA
9307143 TTCAAAGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.46
Consensus pattern (31 bp):
AAAATGTTTTTGAACTTGAATTGAATTTACA
Found at i:9307251 original size:21 final size:21
Alignment explanation
Indices: 9307225--9307337 Score: 79
Period size: 21 Copynumber: 5.4 Consensus size: 21
9307215 GTGTCAAAGG
*
9307225 GCATCCATGCACCCCTGTAGT
1 GCATCCATGCACCCCTGCAGT
* * *
9307246 GCATCCATGCATCCCTACAAT
1 GCATCCATGCACCCCTGCAGT
* * *
9307267 GCATCAATGCATCCCTGCAAT
1 GCATCCATGCACCCCTGCAGT
* *
9307288 ACATCCATGTA--CCTGCACTAGT
1 GCATCCATGCACCCCTG--C-AGT
* *
9307310 GCATCGATGCA-CCATGCAGT
1 GCATCCATGCACCCCTGCAGT
9307330 GCATCCAT
1 GCATCCAT
9307338 ACACTCAAAC
Statistics
Matches: 73, Mismatches: 15, Indels: 9
0.75 0.15 0.09
Matches are distributed among these distances:
19 4 0.05
20 10 0.14
21 46 0.63
22 10 0.14
23 3 0.04
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.24
Consensus pattern (21 bp):
GCATCCATGCACCCCTGCAGT
Found at i:9307387 original size:20 final size:20
Alignment explanation
Indices: 9307362--9307435 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
9307352 AATGTAATTA
*
9307362 GTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCCTGCT
**
9307382 GTGCATCGATGCATCAAGGCT
1 GTGCATCGATGCATC-CTGCT
9307403 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
*
9307423 GTGCATCCATGCA
1 GTGCATCGATGCA
9307436 CGAAGGCTGC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 30 0.64
21 17 0.36
ACGTcount: A:0.19, C:0.28, G:0.24, T:0.28
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGCT
Found at i:9307409 original size:41 final size:41
Alignment explanation
Indices: 9307362--9307444 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
9307352 AATGTAATTA
* *
9307362 GTGCATCGATGCATCCTTCTGTGCATCGATGCATC-AAGGCT
1 GTGCATCGATGCATCCTGCTGTGCATCCATGCA-CGAAGGCT
9307403 GTGCATCGATGCATCCTGCTGTGCATCCATGCACGAAGGCT
1 GTGCATCGATGCATCCTGCTGTGCATCCATGCACGAAGGCT
9307444 G
1 G
9307445 CAACGGCTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
40 1 0.03
41 38 0.97
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.27
Consensus pattern (41 bp):
GTGCATCGATGCATCCTGCTGTGCATCCATGCACGAAGGCT
Found at i:9308754 original size:19 final size:20
Alignment explanation
Indices: 9308730--9308777 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
9308720 AATGATTTTC
*
9308730 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
9308749 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
9308769 TTTTGAAAA
1 TTTTGAAAA
9308778 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:9309848 original size:34 final size:30
Alignment explanation
Indices: 9309810--9309878 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
9309800 TTGATATAAC
9309810 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
9309844 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
9309873 AATTTA
1 AATTTA
9309879 TTAAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:9309889 original size:29 final size:30
Alignment explanation
Indices: 9309819--9309878 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
9309809 CAATTTAAGG
9309819 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
9309850 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
9309879 TTAAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:9310002 original size:22 final size:20
Alignment explanation
Indices: 9309977--9310028 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
9309967 ATCCCTACAA
9309977 TGCATCCATGCACC-TGCACTAG
1 TGCATCCATGCACCATG--C-AG
*
9309999 TGCATCGATGCACCATGCAG
1 TGCATCCATGCACCATGCAG
9310019 TGCATCCATG
1 TGCATCCATG
9310029 TACTCAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 11 0.41
21 1 0.04
22 13 0.48
23 2 0.07
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (20 bp):
TGCATCCATGCACCATGCAG
Found at i:9310117 original size:20 final size:20
Alignment explanation
Indices: 9310052--9310125 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
9310042 AATGCAATTA
*
9310052 GTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCCTGCT
* ** *
9310072 ATGCATCGATGCATCAAGGAT
1 GTGCATCGATGCATC-CTGCT
9310093 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
*
9310113 GTGCATCCATGCA
1 GTGCATCGATGCA
9310126 CGAAGGCTGC
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGCT
Found at i:9310531 original size:34 final size:32
Alignment explanation
Indices: 9310492--9310561 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
9310482 TTTTGTAAAG
* *
9310492 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
9310526 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
9310558 GGGA
1 GGGA
9310562 GTTTGTAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:9323235 original size:21 final size:21
Alignment explanation
Indices: 9323211--9323250 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9323201 ATCGATGTTT
9323211 CTTTTCAGGGCATCGATACCC
1 CTTTTCAGGGCATCGATACCC
* *
9323232 CTTTTCAGGGTATTGATAC
1 CTTTTCAGGGCATCGATAC
9323251 TCACTGCTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (21 bp):
CTTTTCAGGGCATCGATACCC
Found at i:9342042 original size:15 final size:15
Alignment explanation
Indices: 9342022--9342054 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
9342012 TCCAAAATGA
9342022 ATTATTAAATTATTT
1 ATTATTAAATTATTT
9342037 ATTATTAAATTATTT
1 ATTATTAAATTATTT
9342052 ATT
1 ATT
9342055 TAAAGATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTATTAAATTATTT
Found at i:9342063 original size:15 final size:15
Alignment explanation
Indices: 9342022--9342068 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
9342012 TCCAAAATGA
*
9342022 ATTATTAAATTATTT
1 ATTATAAAATTATTT
*
9342037 ATTATTAAATTATTT
1 ATTATAAAATTATTT
9342052 ATT-TAAAGATTAATTT
1 ATTATAAA-ATT-ATTT
9342068 A
1 A
9342069 ATATTTTAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 3 0.10
15 21 0.72
16 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
ATTATAAAATTATTT
Found at i:9343595 original size:18 final size:17
Alignment explanation
Indices: 9343567--9343615 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
9343557 AAATTAATGG
9343567 AGTAAAAAAATAAAAAA
1 AGTAAAAAAATAAAAAA
*
9343584 AGTAAAAGAAATTAAAAA
1 AGTAAAA-AAATAAAAAA
*
9343602 AGGAATAAAAATAA
1 AGTAA-AAAAATAA
9343616 TGTGTACATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 7 0.26
18 18 0.67
19 2 0.07
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (17 bp):
AGTAAAAAAATAAAAAA
Found at i:9343691 original size:40 final size:41
Alignment explanation
Indices: 9343674--9343775 Score: 170
Period size: 40 Copynumber: 2.5 Consensus size: 41
9343664 TATAATAAAG
*
9343674 TAAAAAAAATTAAAAATAAAGATATACATGATATTAAGAAA
1 TAAAAAAAATAAAAAATAAAGATATACATGATATTAAGAAA
9343715 T-AAAAAAATAAAAAATAAAGATATACATGATATTAAGAAA
1 TAAAAAAAATAAAAAATAAAGATATACATGATATTAAGAAA
*
9343755 TAAAAAAATAAAAAAAATAAA
1 TAAAAAAA-ATAAAAAATAAA
9343776 ATAAAGTAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
40 39 0.68
41 7 0.12
42 11 0.19
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.22
Consensus pattern (41 bp):
TAAAAAAAATAAAAAATAAAGATATACATGATATTAAGAAA
Found at i:9343774 original size:17 final size:19
Alignment explanation
Indices: 9343752--9343787 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
9343742 TGATATTAAG
9343752 AAATAAAA-AAA-TAAAAA
1 AAATAAAATAAAGTAAAAA
9343769 AAATAAAATAAAGTAAAAA
1 AAATAAAATAAAGTAAAAA
9343788 TAGAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 3 0.18
19 6 0.35
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (19 bp):
AAATAAAATAAAGTAAAAA
Found at i:9343915 original size:8 final size:8
Alignment explanation
Indices: 9343902--9343968 Score: 71
Period size: 8 Copynumber: 8.4 Consensus size: 8
9343892 AGAAAAATTA
*
9343902 ATACATCT
1 ATACATAT
9343910 ATACATAT
1 ATACATAT
*
9343918 ATATATAT
1 ATACATAT
*
9343926 ATATATAT
1 ATACATAT
*
9343934 ATATATAT
1 ATACATAT
*
9343942 ATATATAT
1 ATACATAT
*
9343950 ATATATAT
1 ATACATAT
*
9343958 ATATATAT
1 ATACATAT
9343966 ATA
1 ATA
9343969 TATAATGATA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 57 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (8 bp):
ATACATAT
Found at i:9343921 original size:2 final size:2
Alignment explanation
Indices: 9343909--9343991 Score: 125
Period size: 2 Copynumber: 42.0 Consensus size: 2
9343899 TTAATACATC
*
9343909 TA TA CA 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
*
9343951 TA TA TA TA TA TA TA TA TA TA TA -A TGA TA TA -A GA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA
9343992 ATGAAAACAA
Statistics
Matches: 75, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
1 2 0.03
2 71 0.95
3 2 0.03
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:9345588 original size:110 final size:108
Alignment explanation
Indices: 9345384--9345642 Score: 328
Period size: 110 Copynumber: 2.4 Consensus size: 108
9345374 AGTATTGTTC
* * *
9345384 CGAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG--GAACTGAGAAATTGTTTGTTGA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAGAACTGAGAAATTATTTGTTGA
* * *
9345447 CAGCTAGCCGCCCCTTTACTGTGAATTTGAGCTTGTGTTGTCT
66 CAGCTAGCCACCCCTTCACTGTGAAGTTGAGCTTGTGTTGTCT
* *
9345490 CGAGTTCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGA-AAAGTTATTTGT
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAA-G-AACTGAGAAA-TTATTTGT
* * *
9345554 TGACA-ATCAGTCACCCCTTCATTGTGAAGTTGAGCTTGTGTTGTCT
63 TGACAGCT-AGCCACCCCTTCACTGTGAAGTTGAGCTTGTGTTGTCT
* **
9345600 TGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAA
9345643 ATTGGGAAAC
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
106 37 0.28
109 5 0.04
110 89 0.68
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (108 bp):
CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAGAACTGAGAAATTATTTGTTGA
CAGCTAGCCACCCCTTCACTGTGAAGTTGAGCTTGTGTTGTCT
Found at i:9346439 original size:36 final size:36
Alignment explanation
Indices: 9346391--9346764 Score: 241
Period size: 36 Copynumber: 11.0 Consensus size: 36
9346381 GAAGATTTTG
*
9346391 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * **
9346427 TGTTTTAGGAGAAA-----T--A-A-ATTCAAAGATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA-AT-T
* *
9346456 TGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
9346492 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * *
9346529 AGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
9346565 TGTTT-AA-A-AAACATAT-TC-----A-A-ATATTT
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT
*
9346591 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
9346627 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * * *
9346663 TATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
*
9346691 ATGTTTCAAGAGAAACTGTCTCAAG-GTAGGCAAAATT
1 -TGTTTCAAGAGAAACTGTCTCAAGAG-AGACAAAATT
* *
9346728 TCGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 T-GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
9346765 CATTTAAATG
Statistics
Matches: 260, Mismatches: 40, Indels: 75
0.69 0.11 0.20
Matches are distributed among these distances:
26 8 0.03
27 8 0.03
28 7 0.03
29 34 0.13
30 3 0.01
31 1 0.00
32 1 0.00
33 7 0.03
34 6 0.02
35 6 0.02
36 108 0.42
37 66 0.25
38 5 0.02
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:9346453 original size:67 final size:67
Alignment explanation
Indices: 9346309--9346505 Score: 211
Period size: 65 Copynumber: 2.9 Consensus size: 67
9346299 GGAAACGATC
* * * * * * *
9346309 TCAAAGATATCTGTTGTTTCATGAAAAACAGTCTCAAGGGAAACAAACTTTTGTTTTAAGG-CAA
1 TCAAAGAT-TTTG-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAA-ATTTGTTTT-AGGAGAA
9346373 ATAAAT
62 ATAAAT
**
9346379 TTGAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGAGAAATAA
1 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGAGAAATAA
9346444 AT
66 AT
* * * * *
9346446 TCAAAGA-TTT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAA
1 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGAGAAA
9346506 CTGTCTCAAG
Statistics
Matches: 110, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
65 45 0.41
66 6 0.05
67 21 0.19
68 29 0.26
69 3 0.03
70 6 0.05
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.31
Consensus pattern (67 bp):
TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGAGAAATAA
AT
Found at i:9346551 original size:37 final size:36
Alignment explanation
Indices: 9346466--9346564 Score: 135
Period size: 37 Copynumber: 2.7 Consensus size: 36
9346456 TGTTTCAAGG
* * * *
9346466 GAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAA
9346502 GAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAA
1 GAAACTGTCTCAAGAGAGACAAAA-TTAGTTCCAAAA
* *
9346539 GAAACTGTCTCAAGGGAGACGAAATT
1 GAAACTGTCTCAAGAGAGACAAAATT
9346565 TGTTTAAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
36 25 0.45
37 31 0.55
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.21
Consensus pattern (36 bp):
GAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAA
Found at i:9346645 original size:135 final size:137
Alignment explanation
Indices: 9346400--9346660 Score: 436
Period size: 135 Copynumber: 1.9 Consensus size: 137
9346390 GTGTTTCAAG
* *
9346400 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGAGAAATAAATTCAAAGATTTTGTTTCAAG
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTTA-GAAAAACAAATTCAAAGATTTTGTTTCAAG
*
9346465 GGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA
65 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA
9346530 GTTCCAAA
130 GTTCCAAA
* * *
9346538 AGAAACTGTCTCAAGGGAGACGAAATTTG-TTTA-AAAAACATATTCAAATATTTTGTTTCAAGG
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGAAAAACAAATTCAAAGATTTTGTTTCAAGG
*
9346601 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
66 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
9346661 TTTATTTCAA
Statistics
Matches: 116, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
135 84 0.72
137 4 0.03
138 28 0.24
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (137 bp):
AGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGAAAAACAAATTCAAAGATTTTGTTTCAAGG
GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAG
TTCCAAA
Found at i:9346762 original size:37 final size:37
Alignment explanation
Indices: 9346693--9346764 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
9346683 CAATGTTTAT
* *
9346693 GTTTCAAGAGAAACTGTCTCAAGGTAGGCAAAATTTC
1 GTTTCAAGAGAAACTATCTCAAGGTAGACAAAATTTC
*
9346730 GTTTCAAGGGAAACTATCTCAAGAG-AGACAAAATT
1 GTTTCAAGAGAAACTATCTCAAG-GTAGACAAAATT
9346765 CATTTAAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 30 0.97
38 1 0.03
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (37 bp):
GTTTCAAGAGAAACTATCTCAAGGTAGACAAAATTTC
Found at i:9346879 original size:36 final size:37
Alignment explanation
Indices: 9346795--9346881 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
9346785 CAATGTTTAT
* * * *
9346795 GTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTT
1 GTTTCAAGGGAAATTATCTCAAGCGAGACAAAATTTC
* *
9346832 GTTTCAAGGGAAATTATCTCAATCGAGATAAAA-TTC
1 GTTTCAAGGGAAATTATCTCAAGCGAGACAAAATTTC
9346868 GTTTCAAGGGAAAT
1 GTTTCAAGGGAAAT
9346882 GTTTTCAATG
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 16 0.36
37 28 0.64
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.29
Consensus pattern (37 bp):
GTTTCAAGGGAAATTATCTCAAGCGAGACAAAATTTC
Found at i:9346883 original size:204 final size:199
Alignment explanation
Indices: 9346492--9346968 Score: 641
Period size: 204 Copynumber: 2.4 Consensus size: 199
9346482 AGACGAAATT
*
9346492 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAG-GAGACAAAATTTAGTTCCAAAAGAAACTGTCTCAAGGGAG
** * *
9346557 ACGAAATTTGTTTAAAAAACATATTCAAATATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACA
65 ACGAAATTCATTTAAAAAACATATTCAAATATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACA
* *
9346622 AAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAATGTTTTCAAT
130 AAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAAT
9346687 GTTTA
195 GTTTA
* * * ** * *
9346692 TGTTTCAAGAGAAACTGTCTCAAGGTAGGCAAAATTTCGTTTCAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGG-AGACAAAATTTAGTTCCAAAAGAAACTGTCTCAAGGGAG
* ** * * *
9346757 ACAAAATTCATTTAAATGGAAATGTTTTC-AATGTTTATGTTTCAAGAGAAACTATCTCAAGGGA
65 ACGAAATTCATTTAAA---AAACATATTCAAATATTT-TGTTTCAAGAGAAACTATCTCAAGAGA
* ** * *
9346821 GACAAAATTTTGTTTCAAGGGAAATTATCTCAATCGAGATAAAATTCGTTTCAAGGGAAATGTTT
126 GACAAAA-TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTT
9346886 TCAATGTTTA
190 TCAATGTTTA
*
9346896 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAAGAAAATGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAA-GGAGACAAAATTTAGTTCCAAAAGAAACTGTCTCAAGGGAG
9346961 ACGAAATT
65 ACGAAATT
9346969 AGTTTTAATG
Statistics
Matches: 236, Mismatches: 34, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
199 1 0.00
200 68 0.29
202 6 0.03
203 38 0.16
204 121 0.51
205 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.30
Consensus pattern (199 bp):
TGTTTCAAGAGAAACTGTCTCAAGGAGACAAAATTTAGTTCCAAAAGAAACTGTCTCAAGGGAGA
CGAAATTCATTTAAAAAACATATTCAAATATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAA
AATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATG
TTTA
Found at i:9347013 original size:102 final size:102
Alignment explanation
Indices: 9346492--9346973 Score: 573
Period size: 102 Copynumber: 4.8 Consensus size: 102
9346482 AGACGAAATT
* * * ** *
9346492 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTTCAAGGGAAACTGTCTCAAGAGAG
* * * ** * *
9346557 ACGAAATTTGTTT-AA--AAAACATATTCAAATATTT-
66 ACAAAATTAGTTTCAAGGGAAATGTTTTC-AATGTTTA
* *
9346591 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT-GTTTCAAGGGAAACTGTCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTTCAAGGGAAACTGTCTCAAGAGAG
9346655 ACAAAATTTA-TTTCAAGGGAAATGTTTTCAATGTTTA
66 ACAAAA-TTAGTTTCAAGGGAAATGTTTTCAATGTTTA
* * * *
9346692 TGTTTCAAGAGAAACTGTCTCAAGGTAGGCAAAATTTCGTTTCAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTTCAAGGGAAACTGTCTCAAGAGAG
* *
9346757 ACAAAATTCA-TTTAAATGGAAATGTTTTCAATGTTTA
66 ACAAAATT-AGTTTCAAGGGAAATGTTTTCAATGTTTA
* * * * **
9346794 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAATTATCTCAATCGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTTCAAGGGAAACTGTCTCAAGAGAG
* *
9346859 ATAAAATTCGTTTCAAGGGAAATGTTTTCAATGTTTA
66 ACAAAATTAGTTTCAAGGGAAATGTTTTCAATGTTTA
* ** * *
9346896 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAAGAAAATGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTTCAAGGGAAACTGTCTCAAGAGAG
*
9346961 ACGAAATTAGTTT
66 ACAAAATTAGTTT
9346974 TAATGAAAAT
Statistics
Matches: 332, Mismatches: 43, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
98 31 0.09
99 39 0.12
100 6 0.02
101 42 0.13
102 214 0.64
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (102 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTTCAAGGGAAACTGTCTCAAGAGAG
ACAAAATTAGTTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:9347337 original size:106 final size:106
Alignment explanation
Indices: 9347161--9347483 Score: 459
Period size: 106 Copynumber: 3.0 Consensus size: 106
9347151 TGTATCGTTC
* * * * * ** *
9347161 CGAGTCCAATATCCTCCGCCGTGAAGTTAAAATTGGCT-CTAGAACTAAGAAATTATTTGTTGAC
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGA-AATTGGGAAATTGTTTGTTGAC
* * * * **
9347225 AGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTACTGTCT
65 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
9347267 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
* *
9347332 ACCAGCCATCCCTTCGTTGTGAAATTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
*
9347373 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
* *
9347438 ACCAGTCGTCCCTTCGTTGTGGAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
9347479 CGAGT
1 CGAGT
9347484 GGCATGATAT
Statistics
Matches: 195, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
106 193 0.99
107 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:9348142 original size:31 final size:32
Alignment explanation
Indices: 9348081--9348142 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
9348071 CCAAAGATTC
* *
9348081 CCCAATATTCGATGTTGAATCTCAAAAAATGG
1 CCCAAAATTCGATGTTAAATCTCAAAAAATGG
*
9348113 CCCAAAATTTGATGTTAAATCT-AAAAAATG
1 CCCAAAATTCGATGTTAAATCTCAAAAAATG
9348143 AACATTTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 8 0.30
32 19 0.70
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (32 bp):
CCCAAAATTCGATGTTAAATCTCAAAAAATGG
Found at i:9349254 original size:30 final size:30
Alignment explanation
Indices: 9349220--9349286 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
9349210 CATATTGTCT
9349220 TCTTTTT-TCTTCAATTTCCTTTGTTTTTTC
1 TCTTTTTATCTTCAATTTCCTTT-TTTTTTC
* ** *
9349250 TCTTTTTATTTTCTCTTTGCTTTTTTTTTC
1 TCTTTTTATCTTCAATTTCCTTTTTTTTTC
9349280 TCTTTTT
1 TCTTTTT
9349287 GTTCTGATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 21 0.66
31 11 0.34
ACGTcount: A:0.04, C:0.18, G:0.03, T:0.75
Consensus pattern (30 bp):
TCTTTTTATCTTCAATTTCCTTTTTTTTTC
Found at i:9349274 original size:13 final size:13
Alignment explanation
Indices: 9349234--9349275 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
9349224 TTTTCTTCAA
9349234 TTTC-CTTTGTTT
1 TTTCTCTTTGTTT
9349246 TTTCTCTTT-TTAT
1 TTTCTCTTTGTT-T
9349259 TTTCTCTTTGCTTT
1 TTTCTCTTTG-TTT
9349273 TTT
1 TTT
9349276 TTTCTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.23
13 14 0.54
14 4 0.15
15 2 0.08
ACGTcount: A:0.02, C:0.17, G:0.05, T:0.76
Consensus pattern (13 bp):
TTTCTCTTTGTTT
Found at i:9349287 original size:19 final size:18
Alignment explanation
Indices: 9349251--9349284 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
9349241 TGTTTTTTCT
9349251 CTTTTTATTTTCTCTTTG
1 CTTTTTATTTTCTCTTTG
9349269 CTTTTT-TTTTCTCTTT
1 CTTTTTATTTTCTCTTT
9349285 TTGTTCTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (18 bp):
CTTTTTATTTTCTCTTTG
Found at i:9350459 original size:27 final size:26
Alignment explanation
Indices: 9350424--9350474 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
9350414 AAGAAATTTC
*
9350424 ATGTTTATG-AAAATGCTTAAAAATGAA
1 ATGTATATGCAAAATGC--AAAAATGAA
9350451 ATGTATATGCAAAATGCAAAAATG
1 ATGTATATGCAAAATGCAAAAATG
9350475 CATGAAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 7 0.32
27 8 0.36
28 7 0.32
ACGTcount: A:0.49, C:0.06, G:0.16, T:0.29
Consensus pattern (26 bp):
ATGTATATGCAAAATGCAAAAATGAA
Found at i:9352379 original size:19 final size:19
Alignment explanation
Indices: 9352357--9352399 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
9352347 AAACACTTAA
*
9352357 AAAATAATAATAAAAT-AAT
1 AAAATAA-AACAAAATGAAT
*
9352376 AAAATTAAACAAAATGAAT
1 AAAATAAAACAAAATGAAT
9352395 AAAAT
1 AAAAT
9352400 GTTTAAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (19 bp):
AAAATAAAACAAAATGAAT
Found at i:9352635 original size:33 final size:33
Alignment explanation
Indices: 9352520--9352643 Score: 87
Period size: 33 Copynumber: 3.7 Consensus size: 33
9352510 TTACTAAAAC
* *
9352520 AAATAAAATAATAAATATATAATACTAAG-TA-AAAC
1 AAATAAAA-AA-AAA-ATATAATA-TATGATATAAAG
* *
9352555 AAATAAAAAAATAAATAT-ATACATGATATTAAG
1 AAATAAAAAAA-AAATATAATATATGATATAAAG
*
9352588 AAA-AAAAAGTAAAAATATAATATAT-ATATAAAT
1 AAATAAAAA--AAAAATATAATATATGATATAAAG
*
9352621 AAATAAAAACAAAAATAGAATAT
1 AAATAAAAA-AAAAATATAATAT
9352644 TAAGAAAATA
Statistics
Matches: 73, Mismatches: 9, Indels: 16
0.74 0.09 0.16
Matches are distributed among these distances:
31 2 0.03
32 10 0.14
33 37 0.51
34 16 0.22
35 8 0.11
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.25
Consensus pattern (33 bp):
AAATAAAAAAAAAATATAATATATGATATAAAG
Found at i:9352655 original size:38 final size:38
Alignment explanation
Indices: 9352619--9352693 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 38
9352609 ATATATATAA
9352619 ATAA-ATAAAAAC-A-AAAATAGAATATTAAG-AAAAT
1 ATAATATAAAAACGATAAAATAGAATATTAAGAAAAAT
*
9352653 AT-ATATAAAAACGTATAAAATATAATATTAAGAAAAAT
1 ATAATATAAAAACG-ATAAAATAGAATATTAAGAAAAAT
9352691 ATA
1 ATA
9352694 TACATAGTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
33 1 0.03
34 10 0.29
36 1 0.03
37 15 0.44
38 7 0.21
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.25
Consensus pattern (38 bp):
ATAATATAAAAACGATAAAATAGAATATTAAGAAAAAT
Found at i:9352692 original size:17 final size:17
Alignment explanation
Indices: 9352631--9352693 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
9352621 AAATAAAAAC
*
9352631 AAAAATAGAATATTAAG
1 AAAAATATAATATTAAG
**
9352648 -AAAATATATATAAAAACG
1 AAAAATATA-ATATTAA-G
9352666 TATAAAATATAATATTAAG
1 -A-AAAATATAATATTAAG
9352685 AAAAATATA
1 AAAAATATA
9352694 TACATAGTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
16 7 0.19
17 13 0.36
18 2 0.06
19 1 0.03
20 5 0.14
21 8 0.22
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (17 bp):
AAAAATATAATATTAAG
Found at i:9352770 original size:25 final size:25
Alignment explanation
Indices: 9352725--9352772 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
9352715 TTAATACATC
* *
9352725 TATATATATATATAATGATATAAGA
1 TATATATATATAAAATAATATAAGA
9352750 TATATATA-ATGAAAATAATATAA
1 TATATATATAT-AAAATAATATAA
9352773 TATAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (25 bp):
TATATATATATAAAATAATATAAGA
Found at i:9352775 original size:19 final size:19
Alignment explanation
Indices: 9352728--9352777 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
9352718 ATACATCTAT
*
9352728 ATATATATATAATGATATA
1 ATATATATATAATGAAATA
*
9352747 AGATATATATAATGAAAATA
1 ATATATATATAATG-AAATA
9352767 ATATA-ATATAA
1 ATATATATATAA
9352778 ATAAAAAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (19 bp):
ATATATATATAATGAAATA
Found at i:9353463 original size:15 final size:15
Alignment explanation
Indices: 9353439--9353472 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
9353429 GACTTTCTTT
9353439 TATATATTTTAAAAA
1 TATATATTTTAAAAA
* *
9353454 TATATTTTTTAAATA
1 TATATATTTTAAAAA
9353469 TATA
1 TATA
9353473 ATATATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATATTTTAAAAA
Found at i:9353471 original size:2 final size:2
Alignment explanation
Indices: 9353466--9353513 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
9353456 TATTTTTTAA
9353466 AT AT AT A- 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
9353507 AT AT AT A
1 AT AT AT A
9353514 ATTTAAGGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9356220 original size:35 final size:35
Alignment explanation
Indices: 9356164--9356250 Score: 115
Period size: 35 Copynumber: 2.5 Consensus size: 35
9356154 TTCATGTTCA
* * *
9356164 AAATTCCAAAACACTTCAATTATATTCTAAACCCC
1 AAATTCCAAAATATTTTAATTATATTCTAAACCCC
*
9356199 AAATTCCAAAATATTTTAATTATATTCTAAACCCT
1 AAATTCCAAAATATTTTAATTATATTCTAAACCCC
*
9356234 AAATT--AAAGTATTTTAA
1 AAATTCCAAAATATTTTAA
9356251 AATTTAGAGT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 11 0.23
35 36 0.77
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.36
Consensus pattern (35 bp):
AAATTCCAAAATATTTTAATTATATTCTAAACCCC
Found at i:9356308 original size:34 final size:35
Alignment explanation
Indices: 9356234--9356309 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
9356224 TCTAAACCCT
9356234 AAATTAAAGTATTTTAAAATTTAGAGTTTAAAATG
1 AAATTAAAGTATTTTAAAATTTAGAGTTTAAAATG
* * * * *
9356269 TAATTAAATTATTTTAGAGTTTAG-GTTTAGAATG
1 AAATTAAAGTATTTTAAAATTTAGAGTTTAAAATG
9356303 AAATTAA
1 AAATTAA
9356310 GGATTGTGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
34 15 0.43
35 20 0.57
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (35 bp):
AAATTAAAGTATTTTAAAATTTAGAGTTTAAAATG
Found at i:9356882 original size:253 final size:252
Alignment explanation
Indices: 9356426--9357413 Score: 1532
Period size: 253 Copynumber: 3.9 Consensus size: 252
9356416 CTTCTTCTAA
* * *
9356426 CGGCAATGTAACGGCGTCAAACGACCGGTTACGTCGGGGACCATAATGCAAACAGACTAAATGTT
1 CGGCAATGTAACGACGTCAAACGACCGGTTACGTCGGGGACCATATTGCAAACAAACTAAATGTT
** * * * * * *
9356491 GGAGGAATGTATTGCAACTTTTAAAAGTTAGAGGACCTAAATGCAAGCATCAGAAAAGTTCAGTG
66 AAAAGATTGTATTGCAACTTTTAAAAGTTGGAGGACATAAATGCAAGCATCAGAAAAATTTAGTG
*
9356556 ACCATTACTATACTTTACCCTAAAATTTATAATGATGTTAATAACTAGTTTGAATAATTACGGTC
131 ACCATTACTATA-TTTACCCTAAAATTTATAATGATGTTAAAAACTAGTTTGAATAATTACGGTC
*
9356621 TATCCACATTTATTATAAGTTGATGAATAAGTCAGTATATATTTCAAATATTTTTAAT
195 TATCCACATTTATTACAAGTTGATGAATAAGTCAGTATATATTTCAAATATTTTTAAT
* * *
9356679 CGGCAATGTAACGGCGTCAAACGACCGATTACGTCGGGGACCATATTGCAAACAGACTAAATGTT
1 CGGCAATGTAACGACGTCAAACGACCGGTTACGTCGGGGACCATATTGCAAACAAACTAAATGTT
* * * ** * *
9356744 GAAGGACTGTATTAAAACTTTTAAAAGTTGGAGGACCTAAATGCAAGCATCAGAAAAGTTTAGTG
66 AAAAGATTGTATTGCAACTTTTAAAAGTTGGAGGACATAAATGCAAGCATCAGAAAAATTTAGTG
* *
9356809 ACCATTACTATACTTTACCCTAAAATTTATAATGATGTTAATAACTAGTTTGAATAATTACAGTC
131 ACCATTACTATA-TTTACCCTAAAATTTATAATGATGTTAAAAACTAGTTTGAATAATTACGGTC
* *
9356874 TGTCCACATTTATTATAAGTTGATGAATAAGTCAGTATATATTTCAAATATTTTTAAT
195 TATCCACATTTATTACAAGTTGATGAATAAGTCAGTATATATTTCAAATATTTTTAAT
*
9356932 CGGCAATGTAACGACGTCAAACGGCCGGTTACGTCGGGGACCATATTGCAAACAAACTAAATGTT
1 CGGCAATGTAACGACGTCAAACGACCGGTTACGTCGGGGACCATATTGCAAACAAACTAAATGTT
9356997 AAAAGATTGTATTGCAACTTTTAAAAGTTGGAGGACATAAATGCAAGCATCAGAAAAATTTAGTG
66 AAAAGATTGTATTGCAACTTTTAAAAGTTGGAGGACATAAATGCAAGCATCAGAAAAATTTAGTG
9357062 ACCATTAC--TA-TTACCCTAAAATTTATAATGATGTTAAAAACTA-TTTG--T-A--ACGGTCT
131 ACCATTACTATATTTACCCTAAAATTTATAATGATGTTAAAAACTAGTTTGAATAATTACGGTCT
*
9357118 ATCCACATTTATTACAAGTTGATGAATAAGTCAGTATATATTTGAATAATAGTTATATTAA-
196 ATCCACATTTATTACAAGTTGATGAATAAGTCAGTATATATTT-CA-AATA-TT-T-TTAAT
* * *
9357179 -GTCAATATAACGACGTC-AACGGCCGGTTACGTCGGGGACCATATTGCAAACAAACTAAATGTT
1 CGGCAATGTAACGACGTCAAACGACCGGTTACGTCGGGGACCATATTGCAAACAAACTAAATGTT
9357242 AAAAGATTGTATTGCAACTTTTAAAAGTTGGAGGACATAAATGCAAGCATCAGAAAAATTTAGTG
66 AAAAGATTGTATTGCAACTTTTAAAAGTTGGAGGACATAAATGCAAGCATCAGAAAAATTTAGTG
9357307 ACCATTACTATGATTTACCCTAAAATTTATAATGATGTTAAAAACTAGTTTGAATAATTACGGTC
131 ACCATTACTAT-ATTTACCCTAAAATTTATAATGATGTTAAAAACTAGTTTGAATAATTACGGTC
9357372 TATCCACATTTATTACAAGTTGATGAATAAGTCAGTATATAT
195 TATCCACATTTATTACAAGTTGATGAATAAGTCAGTATATAT
9357414 GATTTATTAT
Statistics
Matches: 692, Mismatches: 28, Indels: 28
0.93 0.04 0.04
Matches are distributed among these distances:
243 47 0.07
244 1 0.00
245 124 0.18
246 18 0.03
247 2 0.00
248 9 0.01
249 65 0.09
250 4 0.01
251 2 0.00
252 1 0.00
253 371 0.54
255 48 0.07
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (252 bp):
CGGCAATGTAACGACGTCAAACGACCGGTTACGTCGGGGACCATATTGCAAACAAACTAAATGTT
AAAAGATTGTATTGCAACTTTTAAAAGTTGGAGGACATAAATGCAAGCATCAGAAAAATTTAGTG
ACCATTACTATATTTACCCTAAAATTTATAATGATGTTAAAAACTAGTTTGAATAATTACGGTCT
ATCCACATTTATTACAAGTTGATGAATAAGTCAGTATATATTTCAAATATTTTTAAT
Found at i:9357380 original size:498 final size:501
Alignment explanation
Indices: 9356426--9357413 Score: 1526
Period size: 498 Copynumber: 2.0 Consensus size: 501
9356416 CTTCTTCTAA
* *
9356426 CGGCAATGTAACGGCGTCAAACGACCGGTTACGTCGGGGACCATAATGCAAACAGACTAAATGTT
1 CGGCAATGTAACGACGTCAAACGACCGGTTACGTCGGGGACCATAATGCAAACAAACTAAATGTT
** * * *
9356491 GGAGGAATGTATTGCAACTTTTAAAAGTTAGAGGACCTAAATGCAAGCATCAGAAAAGTTCAGTG
66 AAAAGAATGTATTGCAACTTTTAAAAGTTAGAGGACATAAATGCAAGCATCAGAAAAATTCAGTG
*
9356556 ACCATTACTATACTTTACCCTAAAATTTATAATGATGTTAATAACTAGTTTGAATAATTACGGTC
131 ACCATTAC-ATAC-TTACCCTAAAATTTATAATGATGTTAAAAACTAGTTTG-ATAA-TACGGTC
* *
9356621 TATCCACATTTATTATAAGTTGATGAATAAGTCAGTATATATTTCAAATATTTTTAATCGGCAAT
192 TATCCACATTTATTACAAGTTGATGAATAAGTCAGTATATATTTAAAATATTTTTAA-CGGCAAT
* * * * *
9356686 GTAACGGCGTCAAACGACCGATTACGTCGGGGACCATATTGCAAACAGACTAAATGTTGAAGGAC
256 ATAACGACGTCAAACGACCGATTACGTCGGGGACCATATTGCAAACAAACTAAATGTTAAAAGAC
* *
9356751 TGTATTAAAACTTTTAAAAGTTGGAGGACCTAAATGCAAGCATCAGAAAAGTTTAGTGACCATTA
321 TGTATTAAAACTTTTAAAAGTTGGAGGACATAAATGCAAGCATCAGAAAAATTTAGTGACCATTA
* *
9356816 CTATACTTTACCCTAAAATTTATAATGATGTTAATAACTAGTTTGAATAATTACAGTCTGTCCAC
386 CTATACTTTACCCTAAAATTTATAATGATGTTAAAAACTAGTTTGAATAATTACAGTCTATCCAC
*
9356881 ATTTATTATAAGTTGATGAATAAGTCAGTATATATTTCAAATATTTTTAAT
451 ATTTATTACAAGTTGATGAATAAGTCAGTATATATTTCAAATATTTTTAAT
* *
9356932 CGGCAATGTAACGACGTCAAACGGCCGGTTACGTCGGGGACCATATTGCAAACAAACTAAATGTT
1 CGGCAATGTAACGACGTCAAACGACCGGTTACGTCGGGGACCATAATGCAAACAAACTAAATGTT
* * *
9356997 AAAAGATTGTATTGCAACTTTTAAAAGTTGGAGGACATAAATGCAAGCATCAGAAAAATTTAGTG
66 AAAAGAATGTATTGCAACTTTTAAAAGTTAGAGGACATAAATGCAAGCATCAGAAAAATTCAGTG
9357062 ACCATTAC-TA-TTACCCTAAAATTTATAATGATGTTAAAAACTA-TTTG-T-A-ACGGTCTATC
131 ACCATTACATACTTACCCTAAAATTTATAATGATGTTAAAAACTAGTTTGATAATACGGTCTATC
*
9357121 CACATTTATTACAAGTTGATGAATAAGTCAGTATATATTTGAATAATAGTTATATTAA-GTCAAT
196 CACATTTATTACAAGTTGATGAATAAGTCAGTATATATTT-AA-AATA-TT-T-TTAACGGCAAT
* * *
9357185 ATAACGACGTC-AACGGCCGGTTACGTCGGGGACCATATTGCAAACAAACTAAATGTTAAAAGAT
256 ATAACGACGTCAAACGACCGATTACGTCGGGGACCATATTGCAAACAAACTAAATGTTAAAAGAC
**
9357249 TGTATTGCAACTTTTAAAAGTTGGAGGACATAAATGCAAGCATCAGAAAAATTTAGTGACCATTA
321 TGTATTAAAACTTTTAAAAGTTGGAGGACATAAATGCAAGCATCAGAAAAATTTAGTGACCATTA
*
9357314 CTATGA-TTTACCCTAAAATTTATAATGATGTTAAAAACTAGTTTGAATAATTACGGTCTATCCA
386 CTAT-ACTTTACCCTAAAATTTATAATGATGTTAAAAACTAGTTTGAATAATTACAGTCTATCCA
9357378 CATTTATTACAAGTTGATGAATAAGTCAGTATATAT
450 CATTTATTACAAGTTGATGAATAAGTCAGTATATAT
9357414 GATTTATTAT
Statistics
Matches: 444, Mismatches: 32, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
496 49 0.11
497 1 0.00
498 207 0.47
499 18 0.04
500 1 0.00
501 8 0.02
502 32 0.07
504 2 0.00
506 126 0.28
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (501 bp):
CGGCAATGTAACGACGTCAAACGACCGGTTACGTCGGGGACCATAATGCAAACAAACTAAATGTT
AAAAGAATGTATTGCAACTTTTAAAAGTTAGAGGACATAAATGCAAGCATCAGAAAAATTCAGTG
ACCATTACATACTTACCCTAAAATTTATAATGATGTTAAAAACTAGTTTGATAATACGGTCTATC
CACATTTATTACAAGTTGATGAATAAGTCAGTATATATTTAAAATATTTTTAACGGCAATATAAC
GACGTCAAACGACCGATTACGTCGGGGACCATATTGCAAACAAACTAAATGTTAAAAGACTGTAT
TAAAACTTTTAAAAGTTGGAGGACATAAATGCAAGCATCAGAAAAATTTAGTGACCATTACTATA
CTTTACCCTAAAATTTATAATGATGTTAAAAACTAGTTTGAATAATTACAGTCTATCCACATTTA
TTACAAGTTGATGAATAAGTCAGTATATATTTCAAATATTTTTAAT
Found at i:9357421 original size:36 final size:36
Alignment explanation
Indices: 9357379--9357449 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
9357369 GTCTATCCAC
9357379 ATTTATTACAAGTTGATGAATAAGTCAGTATATATG
1 ATTTATTACAAGTTGATGAATAAGTCAGTATATATG
*
9357415 ATTTATTATAAGTTGATGAATAAGTCAGTATATAT
1 ATTTATTACAAGTTGATGAATAAGTCAGTATATAT
9357450 TTCAAATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.41
Consensus pattern (36 bp):
ATTTATTACAAGTTGATGAATAAGTCAGTATATATG
Found at i:9358690 original size:17 final size:17
Alignment explanation
Indices: 9358668--9358701 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
9358658 TCATTTCAGG
9358668 GCATCAAGTTACTTCAC
1 GCATCAAGTTACTTCAC
9358685 GCATCAAGTTACTTCAC
1 GCATCAAGTTACTTCAC
9358702 CTCTGGTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (17 bp):
GCATCAAGTTACTTCAC
Found at i:9359181 original size:34 final size:34
Alignment explanation
Indices: 9359143--9359211 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
9359133 CATTCTTCCT
*
9359143 CTTCTCTGTCTTCTTCTTAGCATTGTCAAAATCC
1 CTTCTCTGTCTTCTTCTTAGCATTATCAAAATCC
*
9359177 CTTCTCTGTCTTCTTCTTAGCATTATTAAAATCC
1 CTTCTCTGTCTTCTTCTTAGCATTATCAAAATCC
9359211 C
1 C
9359212 AAATGTAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.19, C:0.29, G:0.07, T:0.45
Consensus pattern (34 bp):
CTTCTCTGTCTTCTTCTTAGCATTATCAAAATCC
Found at i:9359837 original size:20 final size:20
Alignment explanation
Indices: 9359782--9359836 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
9359772 ATAAGCAAAG
9359782 TTTACTCGAGAGAAAAGAAC
1 TTTACTCGAGAGAAAAGAAC
9359802 TTTACTCGAGAGAAAAGAAC
1 TTTACTCGAGAGAAAAGAAC
9359822 TTTACTCGAGA-AAAA
1 TTTACTCGAGAGAAAA
9359837 ACAAAGTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 4 0.11
20 31 0.89
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.22
Consensus pattern (20 bp):
TTTACTCGAGAGAAAAGAAC
Found at i:9366051 original size:15 final size:15
Alignment explanation
Indices: 9366025--9366072 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
9366015 TTTAAACATC
*
9366025 CAAACAAATCCAAAGT
1 CAAAC-AATCCAAAAT
*
9366041 CTAACAATCCACAAAAT
1 CAAACAAT-C-CAAAAT
9366058 CAAACAATCCAAAAT
1 CAAACAATCCAAAAT
9366073 ATTCAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 9 0.33
16 6 0.22
17 12 0.44
ACGTcount: A:0.56, C:0.27, G:0.02, T:0.15
Consensus pattern (15 bp):
CAAACAATCCAAAAT
Found at i:9368024 original size:20 final size:20
Alignment explanation
Indices: 9367995--9368032 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9367985 CCCCTTCAAA
*
9367995 GGGGGAATTGGTTCCCTCAT
1 GGGGGAATTGATTCCCTCAT
*
9368015 GGGGGTATTGATTCCCTC
1 GGGGGAATTGATTCCCTC
9368033 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.21, G:0.34, T:0.32
Consensus pattern (20 bp):
GGGGGAATTGATTCCCTCAT
Found at i:9371885 original size:20 final size:20
Alignment explanation
Indices: 9371843--9371885 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
9371833 TTATTTTCAT
* *
9371843 TTTTTAATTTTGAAACATCA
1 TTTTTAATTTTGAAAAATAA
9371863 TTTTTATATTTT-AAAAATAA
1 TTTTTA-ATTTTGAAAAATAA
9371883 TTT
1 TTT
9371886 CTCATAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTTAATTTTGAAAAATAA
Found at i:9374329 original size:22 final size:22
Alignment explanation
Indices: 9374301--9374386 Score: 75
Period size: 22 Copynumber: 3.9 Consensus size: 22
9374291 ATATTCATAG
* *
9374301 CAGTGCTAAGGCACTTTAGTAT
1 CAGTACTAAGGAACTTTAGTAT
* * *
9374323 CAGTGCTAATGAACTTTCGTAT
1 CAGTACTAAGGAACTTTAGTAT
* *
9374345 CAGTACTGAGGAACTTTCGTA-
1 CAGTACTAAGGAACTTTAGTAT
* *
9374366 CTAATACTAAGGCACTTTAGT
1 C-AGTACTAAGGAACTTTAGT
9374387 TATTTCATGG
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
21 1 0.02
22 52 0.98
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (22 bp):
CAGTACTAAGGAACTTTAGTAT
Found at i:9378933 original size:31 final size:30
Alignment explanation
Indices: 9378889--9378948 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
9378879 TATTATATAG
* *
9378889 ACATATATTTTCCATACCTT-TATCACATAA
1 ACATATATGTTCCAT-CATTGTATCACATAA
9378919 ACATATCATGTTCCATCATTGTATCACATA
1 ACATAT-ATGTTCCATCATTGTATCACATA
9378949 GCTTATACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.38
Consensus pattern (30 bp):
ACATATATGTTCCATCATTGTATCACATAA
Found at i:9379019 original size:25 final size:24
Alignment explanation
Indices: 9378991--9379052 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
9378981 CTTAATGCAT
* *
9378991 ATAATATGAATTCATGTCATGTATC
1 ATAATATGAATGCA-ATCATGTATC
9379016 ATAATATGAAATGCAATCATGTATC
1 ATAATATG-AATGCAATCATGTATC
*
9379041 AAAATATTGAAT
1 ATAATA-TGAAT
9379053 CTAGACTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 25 0.78
26 7 0.22
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (24 bp):
ATAATATGAATGCAATCATGTATC
Found at i:9385811 original size:30 final size:31
Alignment explanation
Indices: 9385777--9385836 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
9385767 TATTATATAG
*
9385777 ACATATAAT-TTCCATACCTT-TATCACATAA
1 ACATATAATGTTCCAT-CATTGTATCACATAA
9385807 ACATATAATGTTCCATCATTGTATCACATA
1 ACATATAATGTTCCATCATTGTATCACATA
9385837 GCTTATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 12 0.44
31 15 0.56
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.37
Consensus pattern (31 bp):
ACATATAATGTTCCATCATTGTATCACATAA
Found at i:9387325 original size:24 final size:25
Alignment explanation
Indices: 9387289--9387338 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
9387279 TTAAGTTTAT
9387289 AATTTGTC-AAAAAAACTGGGTATG
1 AATTTGTCAAAAAAAACTGGGTATG
*
9387313 AATTTG-CATAAAAAAATTGGGTATG
1 AATTTGTCA-AAAAAAACTGGGTATG
9387338 A
1 A
9387339 GTTTAAAGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 1 0.04
24 6 0.26
25 16 0.70
ACGTcount: A:0.44, C:0.06, G:0.20, T:0.30
Consensus pattern (25 bp):
AATTTGTCAAAAAAAACTGGGTATG
Found at i:9387596 original size:31 final size:31
Alignment explanation
Indices: 9387561--9387619 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
9387551 ACTTAACGCG
* * *
9387561 TTTAGTATCTAAACTATCAGTTTTTTTCCGT
1 TTTAGTACCTAAAATATCAATTTTTTTCCGT
*
9387592 TTTAGTACCTAAAATTTCAATTTTTTTC
1 TTTAGTACCTAAAATATCAATTTTTTTC
9387620 AAAACTTAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.25, C:0.15, G:0.07, T:0.53
Consensus pattern (31 bp):
TTTAGTACCTAAAATATCAATTTTTTTCCGT
Found at i:9394809 original size:6 final size:6
Alignment explanation
Indices: 9394800--9394827 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
9394790 AAATGTACTA
9394800 AATTAT AATTAT AATTAT AATTAT AATT
1 AATTAT AATTAT AATTAT AATTAT AATT
9394828 TATAGGTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTAT
Found at i:9401791 original size:36 final size:36
Alignment explanation
Indices: 9401721--9402287 Score: 866
Period size: 36 Copynumber: 15.7 Consensus size: 36
9401711 TATGTTTTTT
** * * *
9401721 CTTCACTACTCTTTTTGTGAAGGCTATGATGGCTTTG
1 CTTCACTACTC-TTCCGTGGAGGCTAAGATGACTTTG
* * *
9401758 CTTCACTTCTCTTCCGTGGAGGCTAAGACGGCTTTG
1 CTTCACTACTCTTCCGTGGAGGCTAAGATGACTTTG
9401794 CTTCACTACTCTTCCGTGGAGGCTAAGATGACTTTG
1 CTTCACTACTCTTCCGTGGAGGCTAAGATGACTTTG
* **
9401830 CTTCACTAGTCTTCTATGGAGGCTAAGATGACTTTG
1 CTTCACTACTCTTCCGTGGAGGCTAAGATGACTTTG
*
9401866 CTTCACTACTCTTCCATGGAGGCTAAGATGACTTTG
1 CTTCACTACTCTTCCGTGGAGGCTAAGATGACTTTG
* *
9401902 CTTCACTACCCTTCTGTGGAGGCTAAGATGACTTTG
1 CTTCACTACTCTTCCGTGGAGGCTAAGATGACTTTG
*
9401938 CTTCACTACTCTTCCGTGGAGGCTAAGATGAATTTG
1 CTTCACTACTCTTCCGTGGAGGCTAAGATGACTTTG
9401974 CTTCACTACTCTTCCGTGGAGGCTAAGATGACTTTG
1 CTTCACTACTCTTCCGTGGAGGCTAAGATGACTTTG
* *
9402010 CTTCACTACTCTTCCGTGGAGCCTAAGATGGCTTTG
1 CTTCACTACTCTTCCGTGGAGGCTAAGATGACTTTG
* *
9402046 CTTCACTACTCTTCCATGGAGGCTAAGATGGCTTTG
1 CTTCACTACTCTTCCGTGGAGGCTAAGATGACTTTG
*
9402082 CTTCACTACTCTTCTGTGGAGGCTAAGATGACTTTG
1 CTTCACTACTCTTCCGTGGAGGCTAAGATGACTTTG
*
9402118 CTTCACTACTCTTCCGTGGAGGCTAAGATGGCTTTG
1 CTTCACTACTCTTCCGTGGAGGCTAAGATGACTTTG
*
9402154 CTTCACTACTCTTCCGTGGAGGCTATGATTG-CTTTG
1 CTTCACTACTCTTCCGTGGAGGCTAAGA-TGACTTTG
* *
9402190 CTTCACTACTTTTCCGTGGAGGCTAAGATGGCTTTG
1 CTTCACTACTCTTCCGTGGAGGCTAAGATGACTTTG
* * *
9402226 CTTCACTACTCTTCCTTGGAGGATAAAATGACTTTG
1 CTTCACTACTCTTCCGTGGAGGCTAAGATGACTTTG
9402262 CTTCACTACTCTTCCGTGGAGGCTAA
1 CTTCACTACTCTTCCGTGGAGGCTAA
9402288 ATTTGAAATA
Statistics
Matches: 488, Mismatches: 40, Indels: 5
0.92 0.08 0.01
Matches are distributed among these distances:
35 2 0.00
36 474 0.97
37 12 0.02
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (36 bp):
CTTCACTACTCTTCCGTGGAGGCTAAGATGACTTTG
Found at i:9402612 original size:62 final size:62
Alignment explanation
Indices: 9402470--9403022 Score: 752
Period size: 62 Copynumber: 8.9 Consensus size: 62
9402460 GTTCCTCTGG
* *
9402470 GGAGTCAGAAATAATAAAGGTTGACTTCTCTTCACGAGGAAGTCAAA-ATTGACTCTACTGG
1 GGAGTCAGAAATAATAAATGTTGACTTCTCTTCACGAGGAAGTCAAAGATTGACTCTACTGA
* * * * *
9402531 GGAGTCAGGAATAATAAATGTTTACTTCTCTTCACGAGGGAGTCAAATATTGACTCTATTGA
1 GGAGTCAGAAATAATAAATGTTGACTTCTCTTCACGAGGAAGTCAAAGATTGACTCTACTGA
* * *
9402593 GGAGTCAAAAATAAAAAATGTTGACTTCTCTTCACGAGGAAGTCAAAGATTGACCCTACTGA
1 GGAGTCAGAAATAATAAATGTTGACTTCTCTTCACGAGGAAGTCAAAGATTGACTCTACTGA
* *
9402655 GGAGTCAGAAATAACAAATGTTAACTTCTCTTCACGAGGAAGTC-AAGAATTGACTCTACTGA
1 GGAGTCAGAAATAATAAATGTTGACTTCTCTTCACGAGGAAGTCAAAG-ATTGACTCTACTGA
* * * * * *
9402717 GGAGTCAAAAATAATAAAGGTTGATTTCTCTTTAAGAGGAAGTCAAAGATTAACTCTACT-A
1 GGAGTCAGAAATAATAAATGTTGACTTCTCTTCACGAGGAAGTCAAAGATTGACTCTACTGA
* * * *
9402778 GGGAGTCACAAATAATAAATGTTGACTTCTCTTCACGAGGAAATCAAGGATTGACTCTACTGG
1 -GGAGTCAGAAATAATAAATGTTGACTTCTCTTCACGAGGAAGTCAAAGATTGACTCTACTGA
** * * *
9402841 GGAGTCAGAAATAATAAACATTGACTTCTCTTCACGAGGAAATCAATGATTGACTCTACTGG
1 GGAGTCAGAAATAATAAATGTTGACTTCTCTTCACGAGGAAGTCAAAGATTGACTCTACTGA
* * * *
9402903 GGAGTCAGAAATAATAAATGTTGACTTCTCTTCACGAGAAAGTCAAGGATTGATTCTACTGG
1 GGAGTCAGAAATAATAAATGTTGACTTCTCTTCACGAGGAAGTCAAAGATTGACTCTACTGA
* * * *
9402965 GGAGTCAGAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGATTCTA
1 GGAGTCAGAAATAATAAATGTTGACTTCTCTTCACGAGGAAGTCAAAGATTGACTCTA
9403023 GAACACAAGA
Statistics
Matches: 439, Mismatches: 48, Indels: 9
0.89 0.10 0.02
Matches are distributed among these distances:
61 47 0.11
62 389 0.89
63 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (62 bp):
GGAGTCAGAAATAATAAATGTTGACTTCTCTTCACGAGGAAGTCAAAGATTGACTCTACTGA
Found at i:9412752 original size:3 final size:3
Alignment explanation
Indices: 9412744--9412773 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
9412734 TTTATGACTA
*
9412744 AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9412774 TAAGAGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9413698 original size:17 final size:14
Alignment explanation
Indices: 9413675--9413719 Score: 81
Period size: 14 Copynumber: 3.2 Consensus size: 14
9413665 ATCTTTTTTT
9413675 TTTGTTGTTGTCCG
1 TTTGTTGTTGTCCG
9413689 TTTGTTGTTGTCCG
1 TTTGTTGTTGTCCG
*
9413703 TTTGTTGTTGTCGG
1 TTTGTTGTTGTCCG
9413717 TTT
1 TTT
9413720 TTTTTCTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.00, C:0.11, G:0.29, T:0.60
Consensus pattern (14 bp):
TTTGTTGTTGTCCG
Found at i:9414157 original size:9 final size:9
Alignment explanation
Indices: 9414127--9414190 Score: 58
Period size: 9 Copynumber: 6.7 Consensus size: 9
9414117 GGGCCTTGTA
9414127 ATAATATAT
1 ATAATATAT
*
9414136 TTAATAATAAT
1 ATAAT-AT-AT
9414147 ATAATATAT
1 ATAATATAT
9414156 ATAATATAAT
1 ATAATAT-AT
*
9414166 AATAATATTT
1 -ATAATATAT
9414176 ATAATA-AT
1 ATAATATAT
9414184 AATAATA
1 -ATAATA
9414191 ATAATTTTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
8 1 0.02
9 25 0.54
10 7 0.15
11 13 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
ATAATATAT
Found at i:9414204 original size:3 final size:3
Alignment explanation
Indices: 9414137--9414195 Score: 70
Period size: 3 Copynumber: 20.3 Consensus size: 3
9414127 ATAATATATT
* *
9414137 TAA TAA TAA T-A TAA T-A TATA TAA T-A TAA TAA TAA TAT TTA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
9414180 TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T
9414196 TTTAATAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
2 6 0.12
3 39 0.81
4 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:9414568 original size:76 final size:76
Alignment explanation
Indices: 9414386--9416566 Score: 3910
Period size: 75 Copynumber: 28.9 Consensus size: 76
9414376 ATTGAAGGGT
* * ** *
9414386 TTTGAAAACATCAACAAGCTCCCGAAGGCTTTTTTTTTTTAAACATCATGCACTGCAGGACTTAC
1 TTTGAAAACATCAAAAAGATCCCGAAGGC----TTTTTGGAAACATCATGCACTGAAGGACTTAC
* *
9414451 AGATGACCCGAAGAC
62 AGATGACCCTAAGGC
*
9414466 -TTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGAGTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9414530 GACCCTAAGGC
66 GACCCTAAGGC
*
9414541 TTTGAAAACATCAAAAAGATCCTGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9414606 GACCCTAAGGC
66 GACCCTAAGGC
*
9414617 TTTGAAAACATCAAAAAGATTCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9414682 GACCCTAAGGC
66 GACCCTAAGGC
* *
9414693 TTT-AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9414757 GACCCTAAGGC
66 GACCCTAAGGC
*
9414768 TTT-AAAGCATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9414832 GACCCTAAGGC
66 GACCCTAAGGC
*
9414843 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTAAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9414908 GACCCTAAGGC
66 GACCCTAAGGC
9414919 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9414984 GACCCTAAGGC
66 GACCCTAAGGC
* *
9414995 TTT-AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9415059 GACCCTAAGGC
66 GACCCTAAGGC
9415070 TTT-AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9415134 GACCCTAAGGC
66 GACCCTAAGGC
*
9415145 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATTATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9415210 GACCCTAAGGC
66 GACCCTAAGGC
9415221 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9415286 GACCCTAAGGC
66 GACCCTAAGGC
*
9415297 TTT-AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9415361 GACCCTAAGGC
66 GACCCTAAGGC
* *
9415372 TTT-AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9415436 GACCCTAAGGC
66 GACCCTAAGGC
9415447 TTT-AAAACATCAAAAAGATCCCGAAGGCTTTTTGG-AACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9415510 GACCCTAAGGC
66 GACCCTAAGGC
*
9415521 TTTGAAAACATC-AAAAGATCCCGAAGGCTTTTTGGAAACATTATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9415585 GACCCTAAGGC
66 GACCCTAAGGC
9415596 TTTGAAAACATCAAAAAGATCCCGAAGGC-TTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9415660 GACCCTAAGGC
66 GACCCTAAGGC
*
9415671 TTT-AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
*
9415735 GACCATAAGGC
66 GACCCTAAGGC
*
9415746 TTTG-AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9415810 GACCCTAAGGC
66 GACCCTAAGGC
*
9415821 TTTGAAAACATCAAAAAGATTCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9415886 GACCCTAAGGC
66 GACCCTAAGGC
* *
9415897 TTT-AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9415961 GACCCTAAGGC
66 GACCCTAAGGC
*
9415972 TTT-AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9416036 GACCCTAAGGC
66 GACCCTAAGGC
*
9416047 TTTG-AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9416111 GACCCTAAGGC
66 GACCCTAAGGC
*
9416122 TTTGAAAACATCAAAAAGATCCTGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9416187 GACCCTAAGGC
66 GACCCTAAGGC
9416198 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9416263 GACCCTAAGGC
66 GACCCTAAGGC
* *
9416274 TTT-AAAACAACAAAAAGATCCCCAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9416338 GACCCTAAGGC
66 GACCCTAAGGC
*
9416349 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTAAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9416414 GACCCTAAGGC
66 GACCCTAAGGC
9416425 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9416490 GACCCTAAGGC
66 GACCCTAAGGC
9416501 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
9416566 G
66 G
9416567 TGGGAAATAG
Statistics
Matches: 2038, Mismatches: 51, Indels: 28
0.96 0.02 0.01
Matches are distributed among these distances:
74 88 0.04
75 1032 0.51
76 892 0.44
79 26 0.01
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (76 bp):
TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
GACCCTAAGGC
Found at i:9414972 original size:302 final size:302
Alignment explanation
Indices: 9414390--9416566 Score: 3961
Period size: 302 Copynumber: 7.2 Consensus size: 302
9414380 AAGGGTTTTG
* ** *
9414390 AAAACATCAACAAGCTCCCGAAGGCTTTTTTTTTTTAAACATCATGCACTGCAGGACTTACAGAT
1 AAAACATCAAAAAGCTCCCGAAGGC----TTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
* * *
9414455 GACCCGAAGACTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGG
62 GACCCTAAGGCTTTAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGG
* *
9414520 AGTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCTGAAGGCTTTTTGGAAACATCA
127 ACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCA
*
9414585 TGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATTCCGAAGGCTTTT
192 TGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTT
9414650 TGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
257 TGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
*
9414696 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
*
9414761 CTAAGGCTTTAAAGCATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTT
66 CTAAGGCTTTAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTT
9414826 ACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCA
131 ACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCA
*
9414891 CTAAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGA
196 CTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGA
9414956 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
261 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
*
9414998 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
9415063 CTAAGGCTTTAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTT
66 CTAAGGCTTTAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTT
*
9415128 ACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATTATGCA
131 ACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCA
9415193 CTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGA
196 CTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGA
9415258 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
261 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
9415300 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
* *
9415365 CTAAGGCTTTAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTT
66 CTAAGGCTTTAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTT
9415430 ACAGATGACCCTAAGGCTTT-AAAACATCAAAAAGATCCCGAAGGCTTTTTGG-AACATCATGCA
131 ACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCA
9415493 CTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATC-AAAAGATCCCGAAGGCTTTTTGGA
196 CTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGA
*
9415557 AACATTATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
261 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
*
9415599 GAAAACATCAAAAAGATCCCGAAGGC-TTTTGGAAACATCATGCACTGAAGGACTTACAGATGAC
1 -AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGAC
*
9415663 CCTAAGGCTTTAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACT
65 CCTAAGGCTTTAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACT
* *
9415728 TACAGATGACCATAAGGCTTTG-AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGC
130 TACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGC
*
9415792 ACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATTCCGAAGGCTTTTTGG
195 ACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGG
9415857 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
260 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
*
9415900 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
*
9415965 CTAAGGCTTTAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTT
66 CTAAGGCTTTAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTT
*
9416030 ACAGATGACCCTAAGGCTTTG-AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCA
131 ACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCA
*
9416094 CTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCTGAAGGCTTTTTGGA
196 CTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGA
9416159 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
261 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
*
9416201 GAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGAC
1 -AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGAC
* *
9416266 CCTAAGGCTTTAAAACAACAAAAAGATCCCCAAGGCTTTTTGGAAACATCATGCACTGAAGGACT
65 CCTAAGGCTTTAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACT
9416331 TACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGC
130 TACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGC
*
9416396 ACTAAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGG
195 ACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGG
9416461 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
260 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
*
9416504 GAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
1 -AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
9416567 TGGGAAATAG
Statistics
Matches: 1826, Mismatches: 38, Indels: 17
0.97 0.02 0.01
Matches are distributed among these distances:
299 217 0.12
300 149 0.08
301 367 0.20
302 859 0.47
303 210 0.12
306 24 0.01
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (302 bp):
AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
CTAAGGCTTTAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTT
ACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCA
CTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGA
AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
Found at i:9417269 original size:22 final size:22
Alignment explanation
Indices: 9417244--9417323 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 22
9417234 CATAAAGCTT
*
9417244 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
* * *
9417266 TCATCTTTAAAAAGAAAATTTG
1 TCATCTTTAAAAAGAGAATCTA
* * **
9417288 TCATCTCTGAAGTGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
*
9417310 TTATCTTTAAAAAG
1 TCATCTTTAAAAAG
9417324 TACAGATGTA
Statistics
Matches: 42, Mismatches: 16, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (22 bp):
TCATCTTTAAAAAGAGAATCTA
Found at i:9421249 original size:10 final size:10
Alignment explanation
Indices: 9421236--9421289 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
9421226 TCAATTTTCC
9421236 TTCTTTTTTT
1 TTCTTTTTTT
9421246 TTCTTTTTTT
1 TTCTTTTTTT
*
9421256 TTC---TTCT
1 TTCTTTTTTT
9421263 TTCTTTTTTT
1 TTCTTTTTTT
* *
9421273 CTTCTTGTTCT
1 -TTCTTTTTTT
9421284 TTCTTT
1 TTCTTT
9421290 GCTGGATAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
7 6 0.17
10 21 0.60
11 8 0.23
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:9421269 original size:15 final size:15
Alignment explanation
Indices: 9421236--9421278 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
9421226 TCAATTTTCC
9421236 TTCTTTTTTT-TTC-
1 TTCTTTTTTTCTTCT
9421249 TT-TTTTTTTCTTCT
1 TTCTTTTTTTCTTCT
9421263 TTCTTTTTTTCTTCT
1 TTCTTTTTTTCTTCT
9421278 T
1 T
9421279 GTTCTTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 7 0.26
13 5 0.19
14 2 0.07
15 13 0.48
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTCTTTTTTTCTTCT
Found at i:9421272 original size:18 final size:17
Alignment explanation
Indices: 9421245--9421278 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
9421235 CTTCTTTTTT
*
9421245 TTTCTTTTTTTTTCTTC
1 TTTCTTTTTTCTTCTTC
9421262 TTTCTTTTTTTCTTCTT
1 TTTC-TTTTTTCTTCTT
9421279 GTTCTTTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTCTTTTTTCTTCTTC
Found at i:9421287 original size:25 final size:25
Alignment explanation
Indices: 9421241--9421289 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
9421231 TTTCCTTCTT
* *
9421241 TTTTTTTCTTTTTTTTTCTTCTTTC
1 TTTTTTTCTTTTGTTCTCTTCTTTC
9421266 TTTTTTTCTTCTTGTTCT-TTCTTT
1 TTTTTTTCTT-TTGTTCTCTTCTTT
9421290 GCTGGATAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (25 bp):
TTTTTTTCTTTTGTTCTCTTCTTTC
Found at i:9421590 original size:2 final size:2
Alignment explanation
Indices: 9421583--9421610 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9421573 ACAACAAAGG
9421583 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
9421611 TAAAGGATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9426459 original size:20 final size:21
Alignment explanation
Indices: 9426436--9426478 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
9426426 ATTCAAAAAT
9426436 TTATTT-AATTTATAATCATA
1 TTATTTAAATTTATAATCATA
*
9426456 TTATTTCAAATTTATAATTATA
1 TTATTT-AAATTTATAATCATA
9426478 T
1 T
9426479 AAAAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
22 14 0.70
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
TTATTTAAATTTATAATCATA
Found at i:9426488 original size:17 final size:17
Alignment explanation
Indices: 9426468--9426506 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
9426458 ATTTCAAATT
9426468 TATAATTATATAAAAAA
1 TATAATTATATAAAAAA
* *
9426485 TATATTTATATATAAAA
1 TATAATTATATAAAAAA
9426502 TATAA
1 TATAA
9426507 ATAAAATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TATAATTATATAAAAAA
Found at i:9426748 original size:20 final size:20
Alignment explanation
Indices: 9426713--9426771 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 20
9426703 TAAATAAATA
* *
9426713 TTAAAACATGATTAAAATAGG
1 TTAAAA-ATAATTAAAATAAG
9426734 TTAAAAATAATT-AAATAAG
1 TTAAAAATAATTAAAATAAG
* * *
9426753 TTTATAATAAATAAAATAA
1 TTAAAAATAATTAAAATAA
9426772 ATATTATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
19 15 0.47
20 11 0.34
21 6 0.19
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (20 bp):
TTAAAAATAATTAAAATAAG
Found at i:9426817 original size:3 final size:3
Alignment explanation
Indices: 9426809--9426838 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
9426799 TTTATGACTA
*
9426809 AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9426839 TAAGAGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9427763 original size:14 final size:14
Alignment explanation
Indices: 9427744--9427781 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
9427734 CTTTTTTTTT
9427744 TTGTCCGTTTGTTG
1 TTGTCCGTTTGTTG
9427758 TTGTCCGTTTGTTG
1 TTGTCCGTTTGTTG
*
9427772 TTGTCGGTTT
1 TTGTCCGTTT
9427782 TTTTTCTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.00, C:0.13, G:0.29, T:0.58
Consensus pattern (14 bp):
TTGTCCGTTTGTTG
Found at i:9428219 original size:9 final size:9
Alignment explanation
Indices: 9428189--9428252 Score: 58
Period size: 9 Copynumber: 6.7 Consensus size: 9
9428179 GGGCCTTGTA
9428189 ATAATATAT
1 ATAATATAT
*
9428198 TTAATAATAAT
1 ATAAT-AT-AT
9428209 ATAATATAT
1 ATAATATAT
9428218 ATAATATAAT
1 ATAATAT-AT
*
9428228 AATAATATTT
1 -ATAATATAT
9428238 ATAATA-AT
1 ATAATATAT
9428246 AATAATA
1 -ATAATA
9428253 ATAATTTTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
8 1 0.02
9 25 0.54
10 7 0.15
11 13 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
ATAATATAT
Found at i:9428266 original size:3 final size:3
Alignment explanation
Indices: 9428199--9428257 Score: 70
Period size: 3 Copynumber: 20.3 Consensus size: 3
9428189 ATAATATATT
* *
9428199 TAA TAA TAA T-A TAA T-A TATA TAA T-A TAA TAA TAA TAT TTA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
9428242 TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T
9428258 TTTAATAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
2 6 0.12
3 39 0.81
4 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:9428990 original size:10 final size:10
Alignment explanation
Indices: 9428975--9429002 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
9428965 AAATTGCAGG
9428975 CGCAATCGAC
1 CGCAATCGAC
9428985 CGCAATCGAC
1 CGCAATCGAC
9428995 CGCAATCG
1 CGCAATCG
9429003 GTGTGAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.39, G:0.21, T:0.11
Consensus pattern (10 bp):
CGCAATCGAC
Found at i:9431032 original size:22 final size:22
Alignment explanation
Indices: 9430987--9431032 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
9430977 AATCCTTTTC
* *
9430987 AAGGGGATTGATTATTTGGTCA
1 AAGGGGATTGATCATTTGGCCA
9431009 AAGGGG-TTGATCATTTGAGCCA
1 AAGGGGATTGATCATTTG-GCCA
9431031 AA
1 AA
9431033 AATCATTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.30, C:0.09, G:0.30, T:0.30
Consensus pattern (22 bp):
AAGGGGATTGATCATTTGGCCA
Found at i:9433382 original size:21 final size:22
Alignment explanation
Indices: 9433358--9433420 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 22
9433348 GATCAATCGC
*
9433358 AAAAAGGGATTGATCC-TTTTG
1 AAAAAGGGATCGATCCTTTTTG
*
9433379 AAAAAGAGATCGATCCTTTTTG
1 AAAAAGGGATCGATCCTTTTTG
* *
9433401 TAAAA-GGATCAATCCTTTTT
1 AAAAAGGGATCGATCCTTTTT
9433421 ATAGAAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
21 27 0.75
22 9 0.25
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (22 bp):
AAAAAGGGATCGATCCTTTTTG
Found at i:9434158 original size:15 final size:16
Alignment explanation
Indices: 9434140--9434171 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
9434130 TTCATATCCC
9434140 AAATTTTC-TTTTTCA
1 AAATTTTCATTTTTCA
9434155 AAATTTTCATTTTTCA
1 AAATTTTCATTTTTCA
9434171 A
1 A
9434172 TTTTTAAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.56
Consensus pattern (16 bp):
AAATTTTCATTTTTCA
Found at i:9435996 original size:24 final size:24
Alignment explanation
Indices: 9435964--9436009 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
9435954 ATCGAGGGTT
9435964 CTATGTGGTCCTTCGGGACAAAAC
1 CTATGTGGTCCTTCGGGACAAAAC
*
9435988 CTATGTGGTCCTTTGGGACAAA
1 CTATGTGGTCCTTCGGGACAAA
9436010 TATGTGGTAC
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:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (24 bp):
CTATGTGGTCCTTCGGGACAAAAC
Found at i:9436015 original size:21 final size:23
Alignment explanation
Indices: 9435964--9436022 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
9435954 ATCGAGGGTT
9435964 CTATGTGGTCCTTCGGGACAAAA
1 CTATGTGGTCCTTCGGGACAAAA
*
9435987 CCTATGTGGTCCTTTGGGAC-AAA
1 -CTATGTGGTCCTTCGGGACAAAA
*
9436010 -TATGTGGTACTTC
1 CTATGTGGTCCTTC
9436023 TGTGCAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 11 0.34
23 3 0.09
24 18 0.56
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.32
Consensus pattern (23 bp):
CTATGTGGTCCTTCGGGACAAAA
Found at i:9442778 original size:23 final size:23
Alignment explanation
Indices: 9442715--9442781 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
9442705 GTCGAGGGTT
* *
9442715 CTATGTGGTCCTTCAGGACATAA
1 CTATGTGGTCCTTCGGGACAAAA
* * *
9442738 CTATGTGATCATTTGGGACAAAA
1 CTATGTGGTCCTTCGGGACAAAA
9442761 CTATGTGGTCCTTCGGGACAA
1 CTATGTGGTCCTTCGGGACAA
9442782 TTATGTGGCA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (23 bp):
CTATGTGGTCCTTCGGGACAAAA
Found at i:9442788 original size:21 final size:22
Alignment explanation
Indices: 9442715--9442797 Score: 80
Period size: 23 Copynumber: 3.7 Consensus size: 22
9442705 GTCGAGGGTT
*
9442715 CTATGTGGTCCTTCAGGACATAA
1 CTATGTGGTCCTTCGGGACA-AA
* * *
9442738 CTATGTGATCATTTGGGACAAAA
1 CTATGTGGTCCTTCGGGAC-AAA
9442761 CTATGTGGTCCTTCGGGAC-AA
1 CTATGTGGTCCTTCGGGACAAA
*
9442782 TTATGTGG-CACTTCGG
1 CTATGTGGTC-CTTCGG
9442798 TGCAATTATG
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.02
21 15 0.30
23 33 0.66
24 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (22 bp):
CTATGTGGTCCTTCGGGACAAA
Found at i:9442803 original size:21 final size:21
Alignment explanation
Indices: 9442716--9442809 Score: 66
Period size: 23 Copynumber: 4.3 Consensus size: 21
9442706 TCGAGGGTTC
* *
9442716 TATGTGGTCCTTCAGGACATAAC
1 TATGTGGTCCTTCGGGAC--AAT
* * * *
9442739 TATGTGATCATTTGGGACAAAAC
1 TATGTGGTCCTTCGGGAC--AAT
9442762 TATGTGGTCCTTCGGGACAAT
1 TATGTGGTCCTTCGGGACAAT
9442783 TATGTGG-CACTTCGGTG-CAAT
1 TATGTGGTC-CTTCGG-GACAAT
9442804 TATGTG
1 TATGTG
9442810 AGCTGTGGTG
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
20 1 0.02
21 25 0.42
22 1 0.02
23 33 0.55
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (21 bp):
TATGTGGTCCTTCGGGACAAT
Found at i:9452889 original size:2 final size:2
Alignment explanation
Indices: 9452882--9452917 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9452872 GATCGCCCAA
9452882 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
9452918 CTCGTTGTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:9455835 original size:30 final size:30
Alignment explanation
Indices: 9455789--9455874 Score: 147
Period size: 30 Copynumber: 2.9 Consensus size: 30
9455779 ATATTTAAGG
*
9455789 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTATTTGGACTTGAATTGAATTTA
9455820 CAAAATGTATTTGGACTTGAATTGAATTTA
1 CAAAATGTATTTGGACTTGAATTGAATTTA
9455850 CAAAATGTATTTGGACTT-AATTGAA
1 CAAAATGTATTTGGACTTGAATTGAA
9455875 ATTATTCAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
29 7 0.13
30 41 0.76
31 6 0.11
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (30 bp):
CAAAATGTATTTGGACTTGAATTGAATTTA
Found at i:9456257 original size:19 final size:20
Alignment explanation
Indices: 9456233--9456280 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
9456223 AATGATTTTC
*
9456233 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
9456252 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
9456272 TTTTGAAAA
1 TTTTGAAAA
9456281 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:9457594 original size:30 final size:30
Alignment explanation
Indices: 9457548--9457637 Score: 146
Period size: 30 Copynumber: 3.0 Consensus size: 30
9457538 CAATTTAAGG
* *
9457548 CAAAATGGTTTTTGGACTTGAATTAAATTTA
1 CAAAAT-GTATTTGGACTTGAATTGAATTTA
9457579 CAAAATGTATTTGGACTTGAATTGAATTTA
1 CAAAATGTATTTGGACTTGAATTGAATTTA
9457609 CAAAATGTATTTGGACTT-AATTGAATTTA
1 CAAAATGTATTTGGACTTGAATTGAATTTA
9457638 TTCAAAATTT
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
29 11 0.19
30 40 0.70
31 6 0.11
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.41
Consensus pattern (30 bp):
CAAAATGTATTTGGACTTGAATTGAATTTA
Found at i:9457843 original size:21 final size:21
Alignment explanation
Indices: 9457817--9457858 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
9457807 ATTTGAATAT
*
9457817 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
9457838 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
9457859 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:9457920 original size:21 final size:21
Alignment explanation
Indices: 9457887--9457926 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
9457877 TTTTTGCAGA
*
9457887 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
9457909 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
9457927 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:9458181 original size:34 final size:32
Alignment explanation
Indices: 9458142--9458211 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
9458132 TTTTGTAAAG
*
9458142 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
9458176 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
9458208 GGGA
1 GGGA
9458212 GTTTGTAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:9459328 original size:28 final size:28
Alignment explanation
Indices: 9459288--9459360 Score: 146
Period size: 28 Copynumber: 2.6 Consensus size: 28
9459278 TCACGTGAGC
9459288 TCACCATTTCCAACCCGTGCCAGTGCCT
1 TCACCATTTCCAACCCGTGCCAGTGCCT
9459316 TCACCATTTCCAACCCGTGCCAGTGCCT
1 TCACCATTTCCAACCCGTGCCAGTGCCT
9459344 TCACCATTTCCAACCCG
1 TCACCATTTCCAACCCG
9459361 GGCTTACCAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.19, C:0.44, G:0.12, T:0.25
Consensus pattern (28 bp):
TCACCATTTCCAACCCGTGCCAGTGCCT
Found at i:9468521 original size:108 final size:108
Alignment explanation
Indices: 9468327--9468558 Score: 335
Period size: 108 Copynumber: 2.1 Consensus size: 108
9468317 AGCAAAGTTA
* *
9468327 ATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACCATCTGAAGCCTTCACTGGAGAATAGTGAA
1 ATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACAATCTGAAGCCTTCACCGGAGAATAGTGAA
* *
9468392 GCAAACCATCCTAATCCTTCACCGGAGAATAGTGAAGCT-AACC
66 GCAAACCATCATAATCCTTCACCAGAGAATAGTGAAG-TAAACC
* * *
9468435 ATCTGAAGCCTTCACCGGAGA-ATAGTGAAGCAATCAATCTGAAGCCTTCACCGGAGAATAGTGA
1 ATCTTAAGCCTTCACCGAAGAGA-AGTGAAGCAAACAATCTGAAGCCTTCACCGGAGAATAGTGA
*
9468499 AGCAAACCATCATAAGT-CTTCACCAGAGAGTAGTGAAGTAAACC
65 AGCAAACCATCATAA-TCCTTCACCAGAGAATAGTGAAGTAAACC
*
9468543 ATCTTAAGTCTTCACC
1 ATCTTAAGCCTTCACC
9468559 AAAAAAGTAG
Statistics
Matches: 111, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
107 2 0.02
108 108 0.97
109 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (108 bp):
ATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACAATCTGAAGCCTTCACCGGAGAATAGTGAA
GCAAACCATCATAATCCTTCACCAGAGAATAGTGAAGTAAACC
Found at i:9468559 original size:36 final size:36
Alignment explanation
Indices: 9468327--9468593 Score: 304
Period size: 36 Copynumber: 7.4 Consensus size: 36
9468317 AGCAAAGTTA
*
9468327 ATCTTAAGCCTTCACCGAAGAGA-AGTGAAGCAAACC
1 ATCTTAAGCCTTCACCGGAGA-ATAGTGAAGCAAACC
* *
9468363 ATCTGAAGCCTTCACTGGAGAATAGTGAAGCAAACC
1 ATCTTAAGCCTTCACCGGAGAATAGTGAAGCAAACC
* * *
9468399 ATCCTAATCCTTCACCGGAGAATAGTGAAGCTAACC
1 ATCTTAAGCCTTCACCGGAGAATAGTGAAGCAAACC
* * *
9468435 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAATCA
1 ATCTTAAGCCTTCACCGGAGAATAGTGAAGCAAACC
*
9468471 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAACC
1 ATCTTAAGCCTTCACCGGAGAATAGTGAAGCAAACC
* * * * *
9468507 ATCATAAGTCTTCACCAGAGAGTAGTGAAGTAAACC
1 ATCTTAAGCCTTCACCGGAGAATAGTGAAGCAAACC
* ** *
9468543 ATCTTAAGTCTTCACCAAAAAAGTAGTGAAG-AAGATCC
1 ATCTTAAGCCTTCACCGGAGAA-TAGTGAAGCAA-A-CC
*
9468581 ATTTTAAGCCTTC
1 ATCTTAAGCCTTC
9468594 TCAGAAGAGT
Statistics
Matches: 199, Mismatches: 28, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
35 1 0.01
36 176 0.88
37 9 0.05
38 13 0.07
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (36 bp):
ATCTTAAGCCTTCACCGGAGAATAGTGAAGCAAACC
Found at i:9469110 original size:51 final size:51
Alignment explanation
Indices: 9468976--9469430 Score: 477
Period size: 51 Copynumber: 8.8 Consensus size: 51
9468966 AAGATTATTT
* * *
9468976 GAGTTCCATACTCCTTAAAGAAAGAAGGAGTGAACCCGTTTGAAGAGATGTC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATATG-C
* * * * *
9469028 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGC
1 -GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATATGC
* * *
9469080 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTAAAGATGTTC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATATGC
* ** * *
9469131 GAGTTCCATACTCCTTAAAGAGGGAAGGAGCGAACCCAG-TTGAAGATGTTC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCC-GTTTGAAGATATGC
* * * * * *
9469182 GAGTCCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG--TGAAGAGATGTTC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATATG--C
* * * * *
9469233 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTGAAGATGTTC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATATGC
* *
9469284 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATATGC
**
9469335 GAGTTCTATACTCCTTAAAGAGGGAAGGAGCGAACCCGTTTGAAGAATATGTC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAG-ATATG-C
* * * * *
9469388 TGAGTT-TCATACTCCCTAGAGAAATAGGGAGCGAACCCATTTG
1 -GAGTTCT-ATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTG
9469431 TTGAAAATTG
Statistics
Matches: 345, Mismatches: 48, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
49 7 0.02
50 1 0.00
51 246 0.71
52 5 0.01
53 53 0.15
54 33 0.10
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (51 bp):
GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATATGC
Found at i:9469185 original size:102 final size:102
Alignment explanation
Indices: 9468964--9469425 Score: 529
Period size: 102 Copynumber: 4.5 Consensus size: 102
9468954 GTGAACCAAA
* * *
9468964 TGAAGATTATTTGAGTTCCATACTCCTTAAAGAAAGAAGGAGTGAACCCGTTTGAAGAGATG-TC
1 TGAAGA-TATTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTT-AAGAGATGTTC
* *
9469028 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGT
64 -GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGT
*
9469068 GTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTAA-AGATGTTCG
1 -TGAAGATATTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTAAGAGATGTTCG
* **
9469132 AGTTCCATACTCCTTAAAGAGGGAAGGAGCGAACCCAGT
65 AGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCC-GT
* * * * * * *
9469171 TGAAGATGTTCGAGTCCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG-TGAAGAGATGTTCGA
1 TGAAGATATTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTAAGAGATGTTCGA
* * *
9469235 GTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATT
66 GTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCC-GT
* *
9469273 TGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGA-AGATGTTCGA
1 TGAAGATATTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTAAGAGATGTTCGA
* * **
9469337 GTTCTATACTCCTTAAAGAGGGAAGGAGCGAACCCGTT
66 GTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCG-T
* * * *
9469375 TGAAGAATATGTCTGAGTT-TCATACTCCCTAGAGAAATAGGGAGCGAACCC
1 TGAAG-ATAT-TC-GAGTTCT-ATACTCCTTAAAGAAAGAAGGAGCGAACCC
9469426 ATTTGTTGAA
Statistics
Matches: 308, Mismatches: 40, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
101 3 0.01
102 212 0.69
103 11 0.04
104 45 0.15
105 37 0.12
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (102 bp):
TGAAGATATTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTAAGAGATGTTCGA
GTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGT
Found at i:9469236 original size:153 final size:152
Alignment explanation
Indices: 9468976--9469429 Score: 594
Period size: 153 Copynumber: 2.9 Consensus size: 152
9468966 AAGATTATTT
*
9468976 GAGTTCCATACTCCTTAAAGAAAGAAGGAGTGAACCCGTTTGAAGA-GATGTCTGAGTTCCATAC
1 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATG-T-TC-GAGTTCCATAC
*
9469040 TCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATG--CGAGTTCTATACTCCTTAAAGAAA
63 TCCCTAGAGAAAGAGGGAGCGAACCC--GTGAAGA-ATGTTCGAGTTCTATACTCCCTAAAGAAA
* *
9469103 GAAGGAGCGAACCCGTTTAAAGATGTTC
125 GAGGGAGCGAACCCATTTAAAGATGTTC
** *
9469131 GAGTTCCATACTCCTTAAAGAGGGAAGGAGCGAACCCAG-TTGAAGATGTTCGAGTCCCATACTC
1 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCC-GTTTGAAGATGTTCGAGTTCCATACTC
9469195 CCTAGAGAAAGAGGGAGCGAACCCGTGAAGAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGG
65 CCTAGAGAAAGAGGGAGCGAACCCGTGAAGA-ATGTTCGAGTTCTATACTCCCTAAAGAAAGAGG
*
9469260 GAGCGAACCCATTTGAAGATGTTC
129 GAGCGAACCCATTTAAAGATGTTC
* *
9469284 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTCC
1 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCC
* * ** * * * *
9469349 TTAAAGAGGGAAGGAGCGAACCCGTTTGAAGAATATGTCTGAGTT-TCATACTCCCTAGAGAAAT
66 CTAGAGAAAGAGGGAGCGAACCCG--TGAAGAATGT-TC-GAGTTCT-ATACTCCCTAAAGAAAG
9469413 AGGGAGCGAACCCATTT
126 AGGGAGCGAACCCATTT
9469430 GTTGAAAATT
Statistics
Matches: 267, Mismatches: 22, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
151 10 0.04
152 1 0.00
153 161 0.60
154 5 0.02
155 51 0.19
156 39 0.15
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (152 bp):
GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCC
CTAGAGAAAGAGGGAGCGAACCCGTGAAGAATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGA
GCGAACCCATTTAAAGATGTTC
Found at i:9469467 original size:53 final size:52
Alignment explanation
Indices: 9469407--9469871 Score: 362
Period size: 53 Copynumber: 8.6 Consensus size: 52
9469397 TACTCCCTAG
* *
9469407 AGAAATAGGGAGCGAACCCATTTGTTGAAAATTGTGGGTCTTATACTCTCTGA
1 AGAAATAGGGAGC-AACCCATTTGTTGAAGATTGTGAGTCTTATACTCTCTGA
* * * * ** * * * *
9469460 AGGAATAGGGAACATACACGTTT-TCAAAAGATTTTCGAGTTTTATACTCCCTGG
1 AGAAATAGGGAGCA-ACCCATTTGT-TGAAGATTGT-GAGTCTTATACTCTCTGA
* * * *
9469514 AGAAAGAGGGAACGAACCCAATTGTTGAAGATTGTGGGTCTTATACTCTCTGA
1 AGAAATAGGGAGC-AACCCATTTGTTGAAGATTGTGAGTCTTATACTCTCTGA
* * * * *
9469567 AGAAATAGGGGGCAGACGCAATAGTTGAAGATTGTTCGGGTCTTATACTCTCTGA
1 AGAAATAGGGAGCA-ACCCATTTGTTGAAGATTG-T-GAGTCTTATACTCTCTGA
* * * *
9469622 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGAGCA-ACCCATTTGTTGAAGATTG-T-GAGTCTTATACTCTCTGA
* * * *
9469677 AGAAATAGGGGGCAGATGCGA-TTGATGAAGATTGTGAGTCTTATACTCTCTGA
1 AGAAATAGGGAGCA-A-CCCATTTGTTGAAGATTGTGAGTCTTATACTCTCTGA
* * *
9469730 AGAAATAGGGAGCAGACACGA-TTGATGAAGATTGTGGGTCTTATACTCTCTGA
1 AGAAATAGGGAGCA-AC-CCATTTGTTGAAGATTGTGAGTCTTATACTCTCTGA
* ** * * *
9469783 AGAAATAGGGGGCAGGCAAGTTTGTTGAAGA-TGATTCAAGTCTTATACCCTCTGA
1 AGAAATAGGGAGCAACCCA-TTTGTTGAAGATTG--T-GAGTCTTATACTCTCTGA
*
9469838 AGAAATAGGGAGCGAACCCATTTTTCTGAAGATT
1 AGAAATAGGGAGC-AACCCATTTGT-TGAAGATT
9469872 TATTGAATTC
Statistics
Matches: 342, Mismatches: 52, Indels: 32
0.80 0.12 0.08
Matches are distributed among these distances:
51 2 0.01
52 5 0.01
53 153 0.45
54 40 0.12
55 131 0.38
56 10 0.03
57 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (52 bp):
AGAAATAGGGAGCAACCCATTTGTTGAAGATTGTGAGTCTTATACTCTCTGA
Found at i:9469620 original size:55 final size:53
Alignment explanation
Indices: 9469532--9469847 Score: 404
Period size: 55 Copynumber: 5.8 Consensus size: 53
9469522 GGAACGAACC
*
9469532 CAATTGTTGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 CAATTGTTGAAGATTGTGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
9469585 CAATAGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 CAATTGTTGAAGATTG-T-GAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
9469640 CAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGATG
1 CAATTGTTGAAGATTG-T-GAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * * *
9469695 CGATTGATGAAGATTGTGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACA
1 CAATTGTTGAAGATTGTGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
9469748 CGATTGATGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAG--G
1 CAATTGTTGAAGATTGTGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
9469799 CAAGTTTGTTGAAGA-TGATTCAAGTCTTATACCCTCTGAAGAAATAGGG
1 CAA--TTGTTGAAGATTG--T-GAGTCTTATACTCTCTGAAGAAATAGGG
9469848 AGCGAACCCA
Statistics
Matches: 238, Mismatches: 18, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.01
52 2 0.01
53 105 0.44
54 3 0.01
55 126 0.53
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (53 bp):
CAATTGTTGAAGATTGTGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
Found at i:9469745 original size:108 final size:107
Alignment explanation
Indices: 9469407--9469968 Score: 466
Period size: 108 Copynumber: 5.2 Consensus size: 107
9469397 TACTCCCTAG
* * * * *
9469407 AGAAATAGGGAGC-GAACCCATTTGTTGAAAATTGTGGGTCTTATACTCTCTGAAGGAATAGGGA
1 AGAAATAGGGAGCAG-ACACAATTGTTGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGG
* * * * * * *
9469471 ACATACACG-TT-TTCAAAAGATT-TTCGAGTTTTATACTCCCTGG
65 GCAGA-GCGATTGTT--GAAGATTGTTCGAGTCTTATACTCTCTGA
* * *
9469514 AGAAAGAGGGAAC-GAACCCAATTGTTGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGG
1 AGAAATAGGGAGCAG-ACACAATTGTTGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGG
* * *
9469578 GCAGACGCAATAGTTGAAGATTGTTCGGGTCTTATACTCTCTGA
65 GCAGA-GCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * *
9469622 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
1 AGAAATAGGGAGCAGACACAATTGTTGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGG
*
9469687 GGCAGATGCGATTGATGAAGATTG-T-GAGTCTTATACTCTCTGA
64 GGCAGA-GCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* *
9469730 AGAAATAGGGAGCAGACACGATTGATGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGG
1 AGAAATAGGGAGCAGACACAATTGTTGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGG
* * *
9469795 CAG-GCAAGTTTGTTGAAGA-TGATTCAAGTCTTATACCCTCTGA
66 CAGAGC--GATTGTTGAAGATTG-TTCGAGTCTTATACTCTCTGA
* * * * ** * *
9469838 AGAAATAGGGAGC-GAACCCATTTTTCTGAAGATTTATTGAAT-TCTATACTCCCTGAAAAGAAT
1 AGAAATAGGGAGCAG-ACACAATTGT-TGAAGA-TT-GTGGGTCT-TATACTCTCTGAAGA-AAT
* * * *
9469901 AAGGAGCA-AGTACG-TTGATTGAAGATTGATCGAGTCCTATACTCTCTGA
60 AGGGGGCAGAG--CGATTG-TTGAAGATTGTTCGAGTCTTATACTCTCTGA
* *
9469950 AGGAATAAGGAGCAGACAC
1 AGAAATAGGGAGCAGACAC
9469969 GTTTTCAAAG
Statistics
Matches: 376, Mismatches: 56, Indels: 41
0.79 0.12 0.09
Matches are distributed among these distances:
104 2 0.01
105 2 0.01
106 42 0.11
107 72 0.19
108 125 0.33
109 11 0.03
110 50 0.13
111 19 0.05
112 49 0.13
113 3 0.01
114 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (107 bp):
AGAAATAGGGAGCAGACACAATTGTTGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGG
CAGAGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
Found at i:9470699 original size:28 final size:28
Alignment explanation
Indices: 9470659--9470731 Score: 146
Period size: 28 Copynumber: 2.6 Consensus size: 28
9470649 TCACGTGAGC
9470659 TCACCATTTCCAACCCGTGCCAGTGCCT
1 TCACCATTTCCAACCCGTGCCAGTGCCT
9470687 TCACCATTTCCAACCCGTGCCAGTGCCT
1 TCACCATTTCCAACCCGTGCCAGTGCCT
9470715 TCACCATTTCCAACCCG
1 TCACCATTTCCAACCCG
9470732 GGCTTACCAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.19, C:0.44, G:0.12, T:0.25
Consensus pattern (28 bp):
TCACCATTTCCAACCCGTGCCAGTGCCT
Found at i:9476233 original size:82 final size:82
Alignment explanation
Indices: 9476107--9476310 Score: 273
Period size: 82 Copynumber: 2.5 Consensus size: 82
9476097 AATATTGTGG
* * ** * * * **
9476107 CGTTTGTATAAAAACACCACTAAATTACAATTCTAGAGCGGCGTTTGTATAAAAATGCCACTAAA
1 CGTTTGTATAAAAACGCCACTAAAGTATGAGTCTATAGCAGCGTTTGTATAAAAACACCACTAAA
* *
9476172 GTTCGAGTCTATAGTGA
66 GTACAAGTCTATAGTGA
*
9476189 CGTTTGTATAAAAATGCCACTAAAGTATGAGTCTATAGCAGCGTTTGTATAAAAACACCACTAAA
1 CGTTTGTATAAAAACGCCACTAAAGTATGAGTCTATAGCAGCGTTTGTATAAAAACACCACTAAA
*
9476254 GTACAAGTCTATAGTGG
66 GTACAAGTCTATAGTGA
* *
9476271 TGTTTGTATAAAAACGCCACTAAAGTATGAGTTTATAGCA
1 CGTTTGTATAAAAACGCCACTAAAGTATGAGTCTATAGCA
9476311 ATGTTTATAT
Statistics
Matches: 106, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
82 106 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (82 bp):
CGTTTGTATAAAAACGCCACTAAAGTATGAGTCTATAGCAGCGTTTGTATAAAAACACCACTAAA
GTACAAGTCTATAGTGA
Found at i:9476308 original size:41 final size:41
Alignment explanation
Indices: 9476103--9476308 Score: 243
Period size: 41 Copynumber: 5.0 Consensus size: 41
9476093 CATGAATATT
* * ** * *
9476103 GTGGCGTTTGTATAAAAACACCACTAAATTACAATTCTAGA
1 GTGGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTATA
* *
9476144 GCGGCGTTTGTATAAAAATGCCACTAAAGT-TCGAGTCTATA
1 GTGGCGTTTGTATAAAAACGCCACTAAAGTAT-GAGTCTATA
* *
9476185 GTGACGTTTGTATAAAAATGCCACTAAAGTATGAGTCTATA
1 GTGGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTATA
** * **
9476226 GCAGCGTTTGTATAAAAACACCACTAAAGTACAAGTCTATA
1 GTGGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTATA
* *
9476267 GTGGTGTTTGTATAAAAACGCCACTAAAGTATGAGTTTATA
1 GTGGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTATA
9476308 G
1 G
9476309 CAATGTTTAT
Statistics
Matches: 139, Mismatches: 24, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
41 138 0.99
42 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (41 bp):
GTGGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTATA
Found at i:9494792 original size:17 final size:17
Alignment explanation
Indices: 9494758--9494809 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
9494748 ACCGAACAAA
*
9494758 TTTATTATTTTAGAGAG
1 TTTATTAATTTAGAGAG
**
9494775 TTTATTAATTTATCGAG
1 TTTATTAATTTAGAGAG
*
9494792 --TATTAATTTAAAGAG
1 TTTATTAATTTAGAGAG
9494807 TTT
1 TTT
9494810 CTACTGTAGC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (17 bp):
TTTATTAATTTAGAGAG
Found at i:9498737 original size:84 final size:83
Alignment explanation
Indices: 9498585--9499333 Score: 775
Period size: 84 Copynumber: 9.0 Consensus size: 83
9498575 GCTATGTTGT
* * * ** *
9498585 AAATGATATGACCTCGAAGTTGAGTGTAATCGAACTCGGGGGTC--T-TTGGCAGATAGCCCTTC
1 AAATGATGTG-CCTCGGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTC
* *
9498647 TCGACTTAAGCTATGCTGC
65 TAGACTTAAGTTATGCTGC
* * * * * *
9498666 AAATGATGCGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGACAACCCTTC
1 AAATGATGTGCCTCGGAGCTGAGTGTAATCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTC
*
9498731 TAGACTTAAGTTGTGCTGC
65 TAGACTTAAGTTATGCTGC
* * *
9498750 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC--T-TTGGCAGATAGCCCTTC
1 AAATGATGTG-CCTCGGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTC
* *
9498812 TATACTTAAGCTATGCTGC
65 TAGACTTAAGTTATGCTGC
* * * * **
9498831 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTC
1 AAATGATGTGCCTCGGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTC
* * * *
9498896 TAGCCTTGAGTTATACTGT
65 TAGACTTAAGTTATGCTGC
* ** *
9498915 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC--T-TTGGCAGATAGCCCTTC
1 AAATGATGTG-CCTCGGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTC
* *
9498977 TCGACTTAAGCTATGCTGC
65 TAGACTTAAGTTATGCTGC
* * * *
9498996 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGACAACCCTTC
1 AAATGATGTGCCTCGGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTC
*
9499061 TAGACTTAAGTTGTGCTGC
65 TAGACTTAAGTTATGCTGC
* * *
9499080 AAATGATATGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTC
1 AAATGATGTGCCTCGGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTC
*
9499145 TCGACTTAAGTTATGCTGC
65 TAGACTTAAGTTATGCTGC
* * * **
9499164 AAATAATGTGCCCTCAGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTT
1 AAATGATGTG-CCTCGGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTT
* * * *
9499229 CTAGCCTTGAGTTATACTGT
64 CTAGACTTAAGTTATGCTGC
* * ** *
9499249 AAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGGGGGTC--T-TTGGCAGATAGCCCTTC
1 AAATGATGTG-CCTCGGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTC
* *
9499311 TCGACTTAAGCTATGCTGC
65 TAGACTTAAGTTATGCTGC
9499330 AAAT
1 AAAT
9499334 AGTTTGTTTA
Statistics
Matches: 550, Mismatches: 103, Indels: 30
0.81 0.15 0.04
Matches are distributed among these distances:
80 81 0.15
81 114 0.21
82 3 0.01
83 3 0.01
84 193 0.35
85 156 0.28
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (83 bp):
AAATGATGTGCCTCGGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
AGACTTAAGTTATGCTGC
Found at i:9498832 original size:165 final size:165
Alignment explanation
Indices: 9498585--9499333 Score: 1070
Period size: 165 Copynumber: 4.5 Consensus size: 165
9498575 GCTATGTTGT
* *
9498585 AAATGATATGACCTCGAAGTTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
1 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
* *
9498650 ACTTAAGCTATGCTGCAAATGATGCGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTC-TTTGG
66 ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG
** * *
9498714 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGC
131 -TCACAGACAACCCTTCTAGACTTAAGTTATACTGC
** **
9498750 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTAT
1 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
9498815 ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG
66 ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG
* * * *
9498880 TCACAGATAACCCTTCTAGCCTTGAGTTATACTGT
131 TCACAGACAACCCTTCTAGACTTAAGTTATACTGC
*
9498915 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
1 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
*
9498980 ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGT
66 ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG
** * *
9499045 TGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGC
131 TCACAGACAACCCTTCTAGACTTAAGTTATACTGC
* * * ** *
9499080 AAATGATATG-CCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTT
1 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC---T-TTGGCAGATAGCCCTT
* * ** * *
9499144 CTCGACTTAAGTTATGCTGCAAATAATGTGCCCTCAGAGCTGAGTGTAATCGAACTCGAAGGTCT
62 CTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCT
* * * *
9499209 TTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATACTGT
126 TTTGGTCACAGACAACCCTTCTAGACTTAAGTTATACTGC
* *
9499249 AAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
1 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
9499314 ACTTAAGCTATGCTGCAAAT
66 ACTTAAGCTATGCTGCAAAT
9499334 AGTTTGTTTA
Statistics
Matches: 516, Mismatches: 61, Indels: 13
0.87 0.10 0.02
Matches are distributed among these distances:
164 28 0.05
165 303 0.59
166 43 0.08
167 2 0.00
168 43 0.08
169 70 0.14
170 27 0.05
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (165 bp):
AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG
TCACAGACAACCCTTCTAGACTTAAGTTATACTGC
Found at i:9514634 original size:108 final size:108
Alignment explanation
Indices: 9514440--9514656 Score: 380
Period size: 108 Copynumber: 2.0 Consensus size: 108
9514430 TTCAGAAGCT
* *
9514440 GCTCCTGTTCCAGTTGCTAATGATATTCCTGTTTCAGCTGCTGCTAATAGTTCAAGCTCTCCTGC
1 GCTCCTGTTCCAGCTGCTAATGATATTCCTGTTTCAGCTGCTGCTAATAGTTCAAGCTCTCCTAC
9514505 GGTTTCTGTTTCAGCTGCTGGTGATACTCCAAGTTCTCACGAG
66 GGTTTCTGTTTCAGCTGCTGGTGATACTCCAAGTTCTCACGAG
* *
9514548 GCTCTTGTTCCAGCTGCTAATGATATTCCTGTTTCAGCTGCTGCTAATAGTTCAAGTTCTCCTAC
1 GCTCCTGTTCCAGCTGCTAATGATATTCCTGTTTCAGCTGCTGCTAATAGTTCAAGCTCTCCTAC
* *
9514613 GGTTTTTGTTTCAGCTGCTGGTGATACTCCAAGTTCTCATGAG
66 GGTTTCTGTTTCAGCTGCTGGTGATACTCCAAGTTCTCACGAG
9514656 G
1 G
9514657 TCCCAGTTGC
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 103 1.00
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.37
Consensus pattern (108 bp):
GCTCCTGTTCCAGCTGCTAATGATATTCCTGTTTCAGCTGCTGCTAATAGTTCAAGCTCTCCTAC
GGTTTCTGTTTCAGCTGCTGGTGATACTCCAAGTTCTCACGAG
Found at i:9522105 original size:17 final size:17
Alignment explanation
Indices: 9522079--9522118 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
9522069 GTTGATCGAA
* *
9522079 TTGACTATTGACCGGCG
1 TTGACCATTGACCAGCG
*
9522096 TTGACCATTGACCAGTG
1 TTGACCATTGACCAGCG
9522113 TTGACC
1 TTGACC
9522119 GGCCGTTGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (17 bp):
TTGACCATTGACCAGCG
Found at i:9524789 original size:88 final size:89
Alignment explanation
Indices: 9524622--9524898 Score: 396
Period size: 88 Copynumber: 3.1 Consensus size: 89
9524612 GCTGGTAAGT
* *
9524622 CCTTACGGACCTAAGGATACCCTTGGGTAGGTCCATAGGCCCCAAGGCATATCCTTAGGTTAGTT
1 CCTTACGGACCTAAGGATACCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAGGTTGGTT
* *
9524687 CCATTTTCTGTGTGCTTAGGGTAA
66 CCATTGTCTATGTGCTTAGGGTAA
9524711 CCTTA-GGACCTAAGGATACCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAGGTTGGTT
1 CCTTACGGACCTAAGGATACCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAGGTTGGTT
9524775 CTCATTGT-TATGTGCTTAGGGTAA
66 C-CATTGTCTATGTGCTTAGGGTAA
* * * *
9524799 CCCTACGGACCTAATGATACCCTTGGGTAGGCCCATAGGCCCCAAGGAATATCCTTAGGTTGGCT
1 CCTTACGGACCTAAGGATACCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAGGTTGGTT
* * * *
9524864 CCCTTTTACTGTGTGCTTGGGGTAA
66 CCATTGT-CTATGTGCTTAGGGTAA
*
9524889 TCCATACGGA
1 -CCTTACGGA
9524899 TGCAGTTCTG
Statistics
Matches: 170, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
88 81 0.48
89 67 0.39
90 14 0.08
91 8 0.05
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (89 bp):
CCTTACGGACCTAAGGATACCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAGGTTGGTT
CCATTGTCTATGTGCTTAGGGTAA
Found at i:9528516 original size:15 final size:14
Alignment explanation
Indices: 9528485--9528522 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
9528475 ACCCTTTGAA
9528485 AAAAGGATTTATAT
1 AAAAGGATTTATAT
9528499 AAAAGGATTTATAT
1 AAAAGGATTTATAT
*
9528513 TAAAGGATTT
1 AAAAGGATTT
9528523 GTTGAAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (14 bp):
AAAAGGATTTATAT
Found at i:9530581 original size:21 final size:20
Alignment explanation
Indices: 9530557--9530609 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
9530547 CCTTTAGGGG
*
9530557 AAGGGATTGATCATTTTCATC
1 AAGGGATCGATCATTTT-ATC
* *
9530578 AAGGGATCGATCCTTTTATG
1 AAGGGATCGATCATTTTATC
9530598 AAGGGATCGATC
1 AAGGGATCGATC
9530610 CAAAAGTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (20 bp):
AAGGGATCGATCATTTTATC
Found at i:9530603 original size:20 final size:21
Alignment explanation
Indices: 9530556--9530610 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
9530546 TCCTTTAGGG
* *
9530556 GAAGGGATTGATCATTTTCAT
1 GAAGGGATCGATCCTTTTCAT
*
9530577 CAAGGGATCGATCCTTTT-AT
1 GAAGGGATCGATCCTTTTCAT
9530597 GAAGGGATCGATCC
1 GAAGGGATCGATCC
9530611 AAAAGTTTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (21 bp):
GAAGGGATCGATCCTTTTCAT
Found at i:9530692 original size:21 final size:20
Alignment explanation
Indices: 9530625--9530697 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 20
9530615 GTTTCTAGAA
* *
9530625 TCTAAGGGATCGATCTTTTT
1 TCTAAGGGATCGAACCTTTT
* *
9530645 TC-AAGGAGATCGATCCTTTGA
1 TCTAAGG-GATCGAACCTTT-T
*
9530666 TATAAGGGATCGAACCTTTT
1 TCTAAGGGATCGAACCTTTT
*
9530686 TGCTAAGAGATC
1 T-CTAAGGGATC
9530698 AATCATTTGA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
19 4 0.10
20 14 0.33
21 20 0.48
22 4 0.10
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.34
Consensus pattern (20 bp):
TCTAAGGGATCGAACCTTTT
Found at i:9530707 original size:42 final size:41
Alignment explanation
Indices: 9530627--9530707 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 41
9530617 TTCTAGAATC
* * * *
9530627 TAAGGGATCGATCTTTTTTCAAGGAGATCGATCCTTTGATA
1 TAAGGGATCGACCTTTTTGCAAGGAGATCAATCATTTGATA
9530668 TAAGGGATCGAACCTTTTTGCTAA-GAGATCAATCATTTGA
1 TAAGGGATCG-ACCTTTTTGC-AAGGAGATCAATCATTTGA
9530708 GCAAAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 10 0.29
42 22 0.65
43 2 0.06
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.35
Consensus pattern (41 bp):
TAAGGGATCGACCTTTTTGCAAGGAGATCAATCATTTGATA
Done.