Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008824.1 Hibiscus syriacus cultivar Beakdansim tig00111996_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: 4603428
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 19
Found at i:2426770 original size:28 final size:28
Alignment explanation
Indices: 2426722--2426775 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
2426712 ATAATTCTTA
2426722 TTTACAAATCAAATTAAACAAATCAACT
1 TTTACAAATCAAATTAAACAAATCAACT
* **
2426750 TTTACAAATCAACTTTTACAAATCAA
1 TTTACAAATCAAATTAAACAAATCAA
2426776 TTAATCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (28 bp):
TTTACAAATCAAATTAAACAAATCAACT
Found at i:2428236 original size:21 final size:21
Alignment explanation
Indices: 2428210--2428281 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
2428200 ATGACGATGA
*
2428210 CCTCTTGAACGGTAGGAGGGG
1 CCTCTTGAACGATAGGAGGGG
* *
2428231 CTTCTTTG-ATGAT-GAGAGGGG
1 CCTC-TTGAACGATAG-GAGGGG
*
2428252 CCTCTTGAACGATAGGAGGCG
1 CCTCTTGAACGATAGGAGGGG
2428273 CCTCTTGAA
1 CCTCTTGAA
2428282 TGATGATATG
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
20 4 0.10
21 33 0.80
22 4 0.10
ACGTcount: A:0.21, C:0.19, G:0.35, T:0.25
Consensus pattern (21 bp):
CCTCTTGAACGATAGGAGGGG
Found at i:2428245 original size:42 final size:42
Alignment explanation
Indices: 2428189--2428287 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
2428179 GCGGGCGGGA
* * * *
2428189 CCTCTTGAACGATGACGA-TGACCTCTTGAACGGTAGGAGGGG
1 CCTCTTGAATGATGA-GAGGGACCTCTTGAACGATAGGAGGCG
* *
2428231 CTTCTTTG-ATGATGAGAGGGGCCTCTTGAACGATAGGAGGCG
1 CCTC-TTGAATGATGAGAGGGACCTCTTGAACGATAGGAGGCG
2428273 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
2428288 TATGTGCATC
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
41 5 0.11
42 39 0.83
43 3 0.06
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (42 bp):
CCTCTTGAATGATGAGAGGGACCTCTTGAACGATAGGAGGCG
Found at i:2428463 original size:4 final size:4
Alignment explanation
Indices: 2428431--2428476 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
2428421 GGGCCGCTGA
* * * *
2428431 AAAT AAAT TAAT ATAT AAAT CAGT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
2428477 TGCCGAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:2429938 original size:22 final size:22
Alignment explanation
Indices: 2429910--2429952 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
2429900 GAGATAGACG
*
2429910 GATTTCGTCGGAAATGTGGACA
1 GATTTCGTCGGAAATGGGGACA
*
2429932 GATTTCGTCGGATATGGGGAC
1 GATTTCGTCGGAAATGGGGAC
2429953 GGATGTCGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.14, G:0.35, T:0.28
Consensus pattern (22 bp):
GATTTCGTCGGAAATGGGGACA
Found at i:2430116 original size:20 final size:20
Alignment explanation
Indices: 2430093--2430131 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2430083 CATTTAACTT
2430093 TCGTATTACGAATTTGACTA
1 TCGTATTACGAATTTGACTA
* *
2430113 TCGTGTTGCGAATTTGACT
1 TCGTATTACGAATTTGACT
2430132 TCTGTGTTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (20 bp):
TCGTATTACGAATTTGACTA
Found at i:2430138 original size:20 final size:20
Alignment explanation
Indices: 2430101--2430143 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
2430091 TTTCGTATTA
2430101 CGAATTTGACTATCGTGTTG
1 CGAATTTGACTATCGTGTTG
2430121 CGAATTTGACT-TCTGTGTTG
1 CGAATTTGACTATC-GTGTTG
2430141 CGA
1 CGA
2430144 TTTACAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.19, C:0.16, G:0.26, T:0.40
Consensus pattern (20 bp):
CGAATTTGACTATCGTGTTG
Found at i:2430204 original size:20 final size:20
Alignment explanation
Indices: 2430150--2430204 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
2430140 GCGATTTACA
2430150 AATTCGCGTTGCGAAATTGG
1 AATTCGCGTTGCGAAATTGG
* *
2430170 AA-ACTGGGTTGCGAAATTGG
1 AATTC-GCGTTGCGAAATTGG
*
2430190 AATTCGCGTTACGAA
1 AATTCGCGTTGCGAA
2430205 TTTGTTGGTC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (20 bp):
AATTCGCGTTGCGAAATTGG
Found at i:2433677 original size:12 final size:12
Alignment explanation
Indices: 2433660--2433714 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
2433650 ATTATATATG
2433660 TTTCAAAACTAT
1 TTTCAAAACTAT
2433672 TTTCAAAACTAT
1 TTTCAAAACTAT
* * *
2433684 ATT-ATATATTA-
1 TTTCA-AAACTAT
*
2433695 TTTCAAAAATAT
1 TTTCAAAACTAT
2433707 TTTCAAAA
1 TTTCAAAA
2433715 TTATACTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
11 7 0.21
12 27 0.79
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.44
Consensus pattern (12 bp):
TTTCAAAACTAT
Found at i:2433708 original size:35 final size:35
Alignment explanation
Indices: 2433647--2433764 Score: 132
Period size: 35 Copynumber: 3.3 Consensus size: 35
2433637 ATTTTTCAAT
* *
2433647 TATATTATATA-TGTTTCAAAACTATTTTCAAAAC
1 TATATTATATATTATTTCAAAAATATTTTCAAAAC
*
2433681 TATATTATATATTATTTCAAAAATATTTTCAAAAT
1 TATATTATATATTATTTCAAAAATATTTTCAAAAC
* *
2433716 TATACTATATACATATATTTTCCAAAATTATTTTCAAAAC
1 TATA-T-TATATAT-TA-TTT-CAAAAATATTTTCAAAAC
2433756 TATA-TATAT
1 TATATTATAT
2433765 TTTTAAAAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
34 11 0.15
35 24 0.34
36 1 0.01
37 10 0.14
38 2 0.03
39 3 0.04
40 20 0.28
ACGTcount: A:0.43, C:0.10, G:0.01, T:0.46
Consensus pattern (35 bp):
TATATTATATATTATTTCAAAAATATTTTCAAAAC
Found at i:2433717 original size:23 final size:23
Alignment explanation
Indices: 2433655--2433718 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 23
2433645 ATTATATTAT
*
2433655 ATATGTTTCAAAACTATTTTCAAAA
1 ATAT-TTTCAAAATTA-TTTCAAAA
* * *
2433680 CTATATT-ATATATTATTTCAAAA
1 ATATTTTCA-AAATTATTTCAAAA
2433703 ATATTTTCAAAATTAT
1 ATATTTTCAAAATTAT
2433719 ACTATATACA
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
23 20 0.67
24 7 0.23
25 3 0.10
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (23 bp):
ATATTTTCAAAATTATTTCAAAA
Found at i:2433773 original size:19 final size:19
Alignment explanation
Indices: 2433744--2433783 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
2433734 TTTCCAAAAT
* *
2433744 TATTTTCAAAACTATA-TA
1 TATTTTTAAAAATATATTA
2433762 TATTTTTAAAAATATATTA
1 TATTTTTAAAAATATATTA
2433781 TAT
1 TAT
2433784 ATATATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTTTTAAAAATATATTA
Found at i:2433778 original size:45 final size:45
Alignment explanation
Indices: 2433728--2433861 Score: 117
Period size: 45 Copynumber: 2.9 Consensus size: 45
2433718 TACTATATAC
2433728 ATATATTTTCCAAAATTATTTTCAAAACTATATATATTTTTAAAA
1 ATATATTTTCCAAAATTATTTTCAAAACTATATATATTTTTAAAA
* ** * * * * * *
2433773 ATATATTATATATATATT-TTTTCCAAACTATATATATATATATAT
1 ATATATTTTCCA-AAATTATTTTCAAAACTATATATATTTTTAAAA
* *
2433818 ATATATATTCCAAACTATATATTTTATAAAACTATATATATTTT
1 ATATATTTTCCAAA--AT-TATTTT-CAAAACTATATATATTTT
2433862 ACAAAACTAT
Statistics
Matches: 65, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
44 1 0.02
45 39 0.60
46 6 0.09
47 1 0.02
48 4 0.06
49 14 0.22
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (45 bp):
ATATATTTTCCAAAATTATTTTCAAAACTATATATATTTTTAAAA
Found at i:2433808 original size:26 final size:26
Alignment explanation
Indices: 2433756--2433817 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 26
2433746 TTTTCAAAAC
2433756 TATATATA-TTTTTAAAAATATATTA
1 TATATATATTTTTTAAAAATATATTA
* *
2433781 TATATATATTTTTTCCAAACTATATATA
1 TATATATATTTTTT-AAAAATATAT-TA
2433809 TATATATAT
1 TATATATAT
2433818 ATATATATTC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 8 0.25
26 5 0.16
27 8 0.25
28 11 0.34
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.52
Consensus pattern (26 bp):
TATATATATTTTTTAAAAATATATTA
Found at i:2433839 original size:2 final size:2
Alignment explanation
Indices: 2433801--2433825 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2433791 TTTTCCAAAC
2433801 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2433826 TCCAAACTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2433857 original size:19 final size:19
Alignment explanation
Indices: 2433833--2433877 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
2433823 TATTCCAAAC
*
2433833 TATATATTTTATAAAACTA
1 TATATATTTTACAAAACTA
2433852 TATATATTTTACAAAACTA
1 TATATATTTTACAAAACTA
2433871 TATATAT
1 TATATAT
2433878 AACCAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (19 bp):
TATATATTTTACAAAACTA
Found at i:2434441 original size:89 final size:89
Alignment explanation
Indices: 2434254--2435710 Score: 1783
Period size: 89 Copynumber: 16.3 Consensus size: 89
2434244 AGACGAGTCA
*** * * * *
2434254 GCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAAGTTTTGATCCACATCGTTGCTCCTTTA
1 GCTCCACTACTCTTTAGGGGAGATCAGACTCGAG---A---TTGATTTGCTTCGCTGCTTCTTCA
* * *
2434319 GAAAGACCAAATCTGAATTAAGAAGAATAT
60 GGAAGACCAAATCTGAAATAAGAAGAATCT
* * * * *
2434349 GCTCCACTACTCTTTAGAGGAGATTAGACTTGAGATTGATTTGCTTCTCTGCTTTTTCAGGAAGA
1 GCTCCACTACTCTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
*
2434414 CCAAATCTAAAATAAGAAGAATCT
66 CCAAATCTGAAATAAGAAGAATCT
* *
2434438 GCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATT--TTTGATCCATATCGTTGCTCCTT
1 GCTCCACTACTCTTTAGGGGAGATCAGACTCGAG---ATTGATTTG---C-T-TCGCTGCTTCTT
* * *
2434501 TAGGAAGACCAAATCTGAATTAAGAAGAATAT
58 CAGGAAGACCAAATCTGAAATAAGAAGAATCT
* * * *
2434533 GCTCCACTACTCTTTAGAGGAGATTAGACTTGAGATTGATTTGCTTCGCTGCTTTTTCAGGAAGA
1 GCTCCACTACTCTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
*
2434598 CCAAATCTAAAATAAGAAGAATCT
66 CCAAATCTGAAATAAGAAGAATCT
*
2434622 GCTCCATTACTCTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
1 GCTCCACTACTCTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
*
2434687 CCAAATCTGAAATAAGAAGAATGT
66 CCAAATCTGAAATAAGAAGAATCT
* * * *
2434711 GCTCCACTACTCTTTAGAGGAGATCAGACTCAAGATTGATTTACTTCGCTG---CTT-ATGAAGA
1 GCTCCACTACTCTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
*
2434772 CCAAATCTGAAATAAGAAGAATTT
66 CCAAATCTGAAATAAGAAGAATCT
* * * * *
2434796 GTTCCATTACTCTTTAGGGGAGATCATACTCTAGATTGATTTGCTTCGCTGCTTCTTCAAGAAGA
1 GCTCCACTACTCTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* *
2434861 CCAAATATGAAATAAGAATAATCT
66 CCAAATCTGAAATAAGAAGAATCT
* * * * * * * * *
2434885 GTTCCATTAATCTTTAGGGTAGATTAGATTCAAGATTGATTTGTTTCGCTGTTTCTTCAGGAAGA
1 GCTCCACTACTCTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
*
2434950 CCAAATCTGAAATAAGAAGAATAT
66 CCAAATCTGAAATAAGAAGAATCT
2434974 GCTCCACTACTCTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
1 GCTCCACTACTCTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* *
2435039 TCAAATCTGAAATAAGAAGAATAT
66 CCAAATCTGAAATAAGAAGAATCT
* *
2435063 GCTCCACTACTCCTTACGGGG-GATCAGACTCGAGATTGA-TTGGTTCGCTGCTTCTTCAGGAAG
1 GCTCCACTACTCTTTA-GGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAG
**
2435126 ACCAAATCTGAAATAAGAAGAATGA
65 ACCAAATCTGAAATAAGAAGAATCT
* *
2435151 GCTCCACTACTCTTTAGAGGAGATCAGACTCGAGATTGATTTGCTT--C-GCTTCTT-ATGAAGA
1 GCTCCACTACTCTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
*
2435212 CCAAATCTGAAATAAGAAGAATTT
66 CCAAATCTGAAATAAGAAGAATCT
* * * * *
2435236 ACTCCATTACTCTTTAGGGGAGATCATACTCTAGATTGATTTGCTTCGCTGCTTCTTCAAGAAGA
1 GCTCCACTACTCTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* * *
2435301 CCAAATATGAAATAAGAATAATTT
66 CCAAATCTGAAATAAGAAGAATCT
* * * * * * * * *
2435325 GTTCCATTAATCTTTACGGTAGATTAGACTCGAGATTGATTTTCTTCGCTGTTTCTTCAGGACGA
1 GCTCCACTACTCTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
2435390 CCAAATCTGAAATAAGAAGAATCT
66 CCAAATCTGAAATAAGAAGAATCT
* * * *
2435414 GCTCCACTACTCTTTAAGAGAGATCAAACTCGA-ATTGATTTGCTTCGCTGCTTCTTTAGGAAGA
1 GCTCCACTACTCTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
*
2435478 CCAAATATGAAATAAGAAGAATCT
66 CCAAATCTGAAATAAGAAGAATCT
* * * * * * *
2435502 G-TATCAATACTCTTTAGGGGAAATCATACTCGAGATTGATTTGCTTCACTTCTTCTTCAGAAAG
1 GCT-CCACTACTCTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAG
2435566 ACCAAATCTGAAA-AATGAAGAATCT
65 ACCAAATCTGAAATAA-GAAGAATCT
** * *
2435591 ATTCCACTACTATTTAGGGGAGATCAGACTCGAGATTGATTTTCTTCGCTGCTTCTTCAGGAAGA
1 GCTCCACTACTCTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* *
2435656 CCAAATATGAAATAAGAAGAATTT
66 CCAAATCTGAAATAAGAAGAATCT
* * *
2435680 ACTCTACTACTCTTTAGGTGAGATCAGACTC
1 GCTCCACTACTCTTTAGGGGAGATCAGACTC
2435711 AAGGAAACTT
Statistics
Matches: 1180, Mismatches: 156, Indels: 58
0.85 0.11 0.04
Matches are distributed among these distances:
85 143 0.12
86 10 0.01
87 6 0.01
88 165 0.14
89 732 0.62
90 12 0.01
91 1 0.00
92 7 0.01
93 1 0.00
94 5 0.00
95 98 0.08
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (89 bp):
GCTCCACTACTCTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
CCAAATCTGAAATAAGAAGAATCT
Found at i:2435244 original size:440 final size:442
Alignment explanation
Indices: 2434321--2435710 Score: 1938
Period size: 440 Copynumber: 3.1 Consensus size: 442
2434311 CTCCTTTAGA
* * * * *
2434321 AAGACCAAATCTGAATTAAGAAGAATATGCTCCACTACTCTTTAGAGGAGATTAGACT-TGAGAT
1 AAGACCAAATCTGAAATAAGAAGAATTTACTCCACTACTCTTTAGGGGAGATCAGACTCT-AGAT
* * * * * * * * *
2434385 TGATTTGCTTCTCTGCTTTTTCAGGAAGACCAAATCTAAAATAAGAAGAATCTGCTCCACTACTC
65 TGATTTGCTTCGCTGCTTCTTCAAGAAGACCAAATATGAAATAAGAATAATCTGTTCCATTAATC
* * * * * * *
2434450 TTTAGGGGAGATCAGACTCGAGAAAATT--TTTGATCCATATCGTTGCTCCTTTAGGAAGACCAA
130 TTTAGGGTAGATTAGACTC---AAGATTGATTTG-T-C-T-TCGCTGTTTCTTCAGGAAGACCAA
* * * *
2434513 ATCTGAATTAAGAAGAATATGCTCCACTACTCTTTAGAGGAGATTAGACTTGAGATTGATTTGCT
188 ATCTGAAATAAGAAGAATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGATTGATTTGCT
* * *
2434578 TCGCTGCTTTTTCAGGAAGACCAAATCTAAAATAAGAAGAATCTGCTCCATTACTCTTTAGGGGA
253 TCGCTGCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAATCTGCTCCAATACTCTTTAGGGGA
2434643 GATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAA
318 GATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAA
* * *
2434708 TGTGCTCCACTACTCTTTAGAGGAGATCAGACTCAAGATTGATTTACTTCGCTGCTTATG
383 TGAGCTCCACTACTCTTTAGAGGAGATCAGACTCGAGATTGATTTACTTCGCTTCTTATG
** * *
2434768 AAGACCAAATCTGAAATAAGAAGAATTTGTTCCATTACTCTTTAGGGGAGATCATACTCTAGATT
1 AAGACCAAATCTGAAATAAGAAGAATTTACTCCACTACTCTTTAGGGGAGATCAGACTCTAGATT
2434833 GATTTGCTTCGCTGCTTCTTCAAGAAGACCAAATATGAAATAAGAATAATCTGTTCCATTAATCT
66 GATTTGCTTCGCTGCTTCTTCAAGAAGACCAAATATGAAATAAGAATAATCTGTTCCATTAATCT
*
2434898 TTAGGGTAGATTAGATTCAAGATTGATTTGT-TTCGCTGTTTCTTCAGGAAGACCAAATCTGAAA
131 TTAGGGTAGATTAGACTCAAGATTGATTTGTCTTCGCTGTTTCTTCAGGAAGACCAAATCTGAAA
2434962 TAAGAAGAATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCT
196 TAAGAAGAATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCT
* * * *
2435027 TCTTCAGGAAGATCAAATCTGAAATAAGAAGAATATGCTCCACTACTCCTTACGGGG-GATCAGA
261 TCTTCAGGAAGACCAAATCTGAAATAAGAAGAATCTGCTCCAATACTCTTTA-GGGGAGATCAGA
*
2435091 CTCGAGATTGA-TTGGTTCGCTGCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAATGAGCTC
325 CTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAATGAGCTC
*
2435155 CACTACTCTTTAGAGGAGATCAGACTCGAGATTGATTTGCTTCGCTTCTTATG
390 CACTACTCTTTAGAGGAGATCAGACTCGAGATTGATTTACTTCGCTTCTTATG
* *
2435208 AAGACCAAATCTGAAATAAGAAGAATTTACTCCATTACTCTTTAGGGGAGATCATACTCTAGATT
1 AAGACCAAATCTGAAATAAGAAGAATTTACTCCACTACTCTTTAGGGGAGATCAGACTCTAGATT
*
2435273 GATTTGCTTCGCTGCTTCTTCAAGAAGACCAAATATGAAATAAGAATAATTTGTTCCATTAATCT
66 GATTTGCTTCGCTGCTTCTTCAAGAAGACCAAATATGAAATAAGAATAATCTGTTCCATTAATCT
* * *
2435338 TTACGGTAGATTAGACTCGAGATTGATTT-TCTTCGCTGTTTCTTCAGGACGACCAAATCTGAAA
131 TTAGGGTAGATTAGACTCAAGATTGATTTGTCTTCGCTGTTTCTTCAGGAAGACCAAATCTGAAA
* * * *
2435402 TAAGAAGAATCTGCTCCACTACTCTTTAAGAGAGATCAAACTCGA-ATTGATTTGCTTCGCTGCT
196 TAAGAAGAATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCT
* * * * *
2435466 TCTTTAGGAAGACCAAATATGAAATAAGAAGAATCTG-TATCAATACTCTTTAGGGGAAATCATA
261 TCTTCAGGAAGACCAAATCTGAAATAAGAAGAATCTGCT-CCAATACTCTTTAGGGGAGATCAGA
* * * * *
2435530 CTCGAGATTGATTTGCTTCACTTCTTCTTCAGAAAGACCAAATCTGAAA-AATGAAGAATCTA-T
325 CTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAAATAA-GAAGAAT-GAGC
* * * *
2435593 TCCACTACTATTTAGGGGAGATCAGACTCGAGATTGATTTTCTTCGCTGCTTCTTCAGG
388 TCCACTACTCTTTAGAGGAGATCAGACTCGAGATTGATTTACTT--C-GCTTCTT-ATG
* * *
2435652 AAGACCAAATATGAAATAAGAAGAATTTACTCTACTACTCTTTAGGTGAGATCAGACTC
1 AAGACCAAATCTGAAATAAGAAGAATTTACTCCACTACTCTTTAGGGGAGATCAGACTC
2435711 AAGGAAACTT
Statistics
Matches: 855, Mismatches: 74, Indels: 31
0.89 0.08 0.03
Matches are distributed among these distances:
438 5 0.01
439 81 0.09
440 408 0.48
441 154 0.18
442 6 0.01
443 7 0.01
444 61 0.07
445 1 0.00
446 4 0.00
447 127 0.15
448 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (442 bp):
AAGACCAAATCTGAAATAAGAAGAATTTACTCCACTACTCTTTAGGGGAGATCAGACTCTAGATT
GATTTGCTTCGCTGCTTCTTCAAGAAGACCAAATATGAAATAAGAATAATCTGTTCCATTAATCT
TTAGGGTAGATTAGACTCAAGATTGATTTGTCTTCGCTGTTTCTTCAGGAAGACCAAATCTGAAA
TAAGAAGAATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCT
TCTTCAGGAAGACCAAATCTGAAATAAGAAGAATCTGCTCCAATACTCTTTAGGGGAGATCAGAC
TCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAATGAGCTCC
ACTACTCTTTAGAGGAGATCAGACTCGAGATTGATTTACTTCGCTTCTTATG
Found at i:2442409 original size:19 final size:20
Alignment explanation
Indices: 2442353--2442426 Score: 114
Period size: 20 Copynumber: 3.8 Consensus size: 20
2442343 CATATAAATT
* *
2442353 TGTCCCAAAGGACCTATGTA
1 TGTCCCGAAGGACCTCTGTA
2442373 TGTCCCGAAGGACCTCTGTA
1 TGTCCCGAAGGACCTCTGTA
2442393 TGTCCCGAAGG-CCTCTGTA
1 TGTCCCGAAGGACCTCTGTA
*
2442412 TGTCTCGAAGGACCT
1 TGTCCCGAAGGACCT
2442427 ATGAACCCTC
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
19 18 0.36
20 32 0.64
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (20 bp):
TGTCCCGAAGGACCTCTGTA
Found at i:2442826 original size:20 final size:20
Alignment explanation
Indices: 2442801--2442894 Score: 145
Period size: 20 Copynumber: 4.8 Consensus size: 20
2442791 CATATAAATT
* *
2442801 TGTCCCAAAGGACCTATGTA
1 TGTCCCGAAGGACCTCTGTA
2442821 TGTCCCGAAGGACCTCTGTA
1 TGTCCCGAAGGACCTCTGTA
*
2442841 TGTCCCGAAGGACCTCTATA
1 TGTCCCGAAGGACCTCTGTA
2442861 TGTCCCGAAGG-CCTCTGTA
1 TGTCCCGAAGGACCTCTGTA
*
2442880 TGTCTCGAAGGACCT
1 TGTCCCGAAGGACCT
2442895 ATGAACCCTC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
19 17 0.25
20 51 0.75
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (20 bp):
TGTCCCGAAGGACCTCTGTA
Found at i:2448761 original size:20 final size:20
Alignment explanation
Indices: 2448736--2448773 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2448726 ATATGAAATT
*
2448736 TGTCCCGAATGACCTATGTA
1 TGTCCCGAAGGACCTATGTA
2448756 TGTCCCGAAGGACCTATG
1 TGTCCCGAAGGACCTATG
2448774 AACCCTCGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (20 bp):
TGTCCCGAAGGACCTATGTA
Found at i:2452242 original size:19 final size:20
Alignment explanation
Indices: 2452204--2452243 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
2452194 TTTGAAATTA
*
2452204 CTCCCCCTTACTATAACATTT
1 CTCCCCCTTA-TAAAACATTT
2452225 CTCCCCCTT-TAAAACATTT
1 CTCCCCCTTATAAAACATTT
2452244 TACACTTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.25, C:0.38, G:0.00, T:0.38
Consensus pattern (20 bp):
CTCCCCCTTATAAAACATTT
Found at i:2458385 original size:22 final size:21
Alignment explanation
Indices: 2458343--2458382 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2458333 GAGTTTATTT
*
2458343 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
2458364 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
2458383 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:2460493 original size:20 final size:20
Alignment explanation
Indices: 2460465--2460503 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2460455 CAAGAAATTA
2460465 ATTGATGCATCGATGCATGG
1 ATTGATGCATCGATGCATGG
* *
2460485 ATTGGTGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
2460504 CCCTTGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (20 bp):
ATTGATGCATCGATGCATGG
Found at i:2463700 original size:3 final size:3
Alignment explanation
Indices: 2463692--2463727 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
2463682 ACAAATAAAT
2463692 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2463728 TAAACTTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2463814 original size:12 final size:12
Alignment explanation
Indices: 2463793--2463852 Score: 61
Period size: 12 Copynumber: 5.0 Consensus size: 12
2463783 ATTAAATATG
2463793 TTTCAAAACTAT
1 TTTCAAAACTAT
*
2463805 TTTCATAACTAT
1 TTTCAAAACTAT
* *
2463817 ATT-ATATA-TATT
1 TTTCA-AAACTA-T
2463829 TTTCAAAACTAT
1 TTTCAAAACTAT
2463841 TTTCAAAACTAT
1 TTTCAAAACTAT
2463853 ACTATATATA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
11 3 0.08
12 32 0.84
13 3 0.08
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (12 bp):
TTTCAAAACTAT
Found at i:2463835 original size:36 final size:36
Alignment explanation
Indices: 2463780--2463963 Score: 221
Period size: 36 Copynumber: 5.1 Consensus size: 36
2463770 ATTTTTAAAT
* *
2463780 TATATTA-A-ATATGTTTCAAAACTATTTTCATAAC
1 TATATTATATATATATTTCAAAACTATTTTCAAAAC
*
2463814 TATATTATATATATTTTTCAAAACTATTTTCAAAAC
1 TATATTATATATATATTTCAAAACTATTTTCAAAAC
* * * *
2463850 TATACTATATATATTTTTCTAAACTATTTTCAAAAT
1 TATATTATATATATATTTCAAAACTATTTTCAAAAC
* * *
2463886 TATATTATATAT-TATTTAAAAAATATTTTCAAAAT
1 TATATTATATATATATTTCAAAACTATTTTCAAAAC
* *
2463921 TATACTATATATATATATTCCAAAATTATTTTCAAAAC
1 TATA-T-TATATATATATTTCAAAACTATTTTCAAAAC
2463959 TATAT
1 TATAT
2463964 ATTTTTAAAA
Statistics
Matches: 131, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
34 7 0.05
35 24 0.18
36 69 0.53
37 8 0.06
38 23 0.18
ACGTcount: A:0.43, C:0.10, G:0.01, T:0.47
Consensus pattern (36 bp):
TATATTATATATATATTTCAAAACTATTTTCAAAAC
Found at i:2463968 original size:16 final size:16
Alignment explanation
Indices: 2463947--2463979 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2463937 ATTCCAAAAT
2463947 TATTTTCAAAACTATA
1 TATTTTCAAAACTATA
*
2463963 TATTTTTAAAACTATA
1 TATTTTCAAAACTATA
2463979 T
1 T
2463980 TATATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTTTCAAAACTATA
Found at i:2463991 original size:23 final size:23
Alignment explanation
Indices: 2463959--2464011 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
2463949 TTTTCAAAAC
*
2463959 TATATATTTTTAAAACTATATTA
1 TATATATTTTCAAAACTATATTA
* *
2463982 TATATTTTTTCCAAACTATATTA
1 TATATATTTTCAAAACTATATTA
2464005 TATATAT
1 TATATAT
2464012 ATATTTTTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.53
Consensus pattern (23 bp):
TATATATTTTCAAAACTATATTA
Found at i:2464016 original size:29 final size:28
Alignment explanation
Indices: 2463975--2464039 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 28
2463965 TTTTTAAAAC
2463975 TATATTATATATTTTTTCCAAACTATAT
1 TATATTATATATTTTTTCCAAACTATAT
2464003 TATATATATATATTTTTTCCAAACTATA-
1 TATAT-TATATATTTTTTCCAAACTATAT
*
2464031 TATTTTATA
1 TATATTATA
2464040 AAACTATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
27 4 0.11
28 9 0.26
29 22 0.63
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (28 bp):
TATATTATATATTTTTTCCAAACTATAT
Found at i:2464034 original size:31 final size:29
Alignment explanation
Indices: 2463975--2464031 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
2463965 TTTTTAAAAC
2463975 TATAT-TATATATTTTTTCCAAACTATAT
1 TATATATATATATTTTTTCCAAACTATAT
2464003 TATATATATATATTTTTTCCAAACTATAT
1 TATATATATATATTTTTTCCAAACTATAT
2464032 ATTTTATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 5 0.18
29 23 0.82
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (29 bp):
TATATATATATATTTTTTCCAAACTATAT
Found at i:2464043 original size:17 final size:17
Alignment explanation
Indices: 2464009--2464069 Score: 68
Period size: 19 Copynumber: 3.4 Consensus size: 17
2463999 ATATTATATA
* *
2464009 TATATATTTTTTCCAAAC
1 TATATATTTTAT-AAAAC
2464027 TATATATTTTATAAAAC
1 TATATATTTTATAAAAC
*
2464044 TATATATATTTTACAAAAC
1 --TATATATTTTATAAAAC
2464063 TATATAT
1 TATATAT
2464070 ATAACCAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
17 11 0.29
18 11 0.29
19 16 0.42
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATATTTTATAAAAC
Found at i:2464051 original size:19 final size:19
Alignment explanation
Indices: 2464027--2464071 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
2464017 TTTTCCAAAC
*
2464027 TATATATTTTATAAAACTA
1 TATATATTTTACAAAACTA
2464046 TATATATTTTACAAAACTA
1 TATATATTTTACAAAACTA
2464065 TATATAT
1 TATATAT
2464072 AACCAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (19 bp):
TATATATTTTACAAAACTA
Found at i:2466600 original size:22 final size:22
Alignment explanation
Indices: 2466582--2466656 Score: 123
Period size: 22 Copynumber: 3.4 Consensus size: 22
2466572 TTCCAGTTCG
* *
2466582 CGTTACGATAATCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
2466604 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
*
2466626 TGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
2466648 CGTTGCGAT
1 CGTTGCGAT
2466657 TTTCCAAATT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.37
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:2466780 original size:6 final size:6
Alignment explanation
Indices: 2466769--2466807 Score: 50
Period size: 5 Copynumber: 7.2 Consensus size: 6
2466759 GACACGTATT
2466769 ACCACG ACCACG ACCACG ACC-CG ACC-CG ACC-CG A-CACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
2466808 GACGGACGGC
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 1 0.03
5 16 0.50
6 15 0.47
ACGTcount: A:0.31, C:0.51, G:0.18, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:2467442 original size:22 final size:22
Alignment explanation
Indices: 2467416--2467509 Score: 95
Period size: 22 Copynumber: 4.4 Consensus size: 22
2467406 AATTTGGAAA
2467416 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * *
2467438 TTCGCAACAACAACTGTATACT
1 ATCGCAACGACAACTGTAGACT
* * **
2467460 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
2467479 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
*
2467501 ATTGCAACG
1 ATCGCAACG
2467510 CGAAATGGAA
Statistics
Matches: 54, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
19 12 0.22
20 2 0.04
21 2 0.04
22 38 0.70
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.21
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:2467530 original size:20 final size:20
Alignment explanation
Indices: 2467504--2467573 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
2467494 GTAGACTATT
2467504 GCAACGCGAAATGGAAAATC
1 GCAACGCGAAATGGAAAATC
* ** ** *
2467524 ACAACGCGATTTTCAACTATC
1 GCAACGCGAAATGGAA-AATC
2467545 GCAACGCGAAATGGAAAATC
1 GCAACGCGAAATGGAAAATC
2467565 GCAACGCGA
1 GCAACGCGA
2467574 TTTTCAACTA
Statistics
Matches: 37, Mismatches: 12, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
20 23 0.62
21 14 0.38
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.14
Consensus pattern (20 bp):
GCAACGCGAAATGGAAAATC
Found at i:2467551 original size:21 final size:21
Alignment explanation
Indices: 2467525--2467594 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
2467515 TGGAAAATCA
2467525 CAACGCGATTTTCAACTATCG
1 CAACGCGATTTTCAACTATCG
** ** *
2467546 CAACGCGAAATGGAA-AATCG
1 CAACGCGATTTTCAACTATCG
*
2467566 CAACGCGATTTTCAACTATAG
1 CAACGCGATTTTCAACTATCG
2467587 CAACGCGA
1 CAACGCGA
2467595 AATGAAACGC
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 15 0.41
21 22 0.59
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (21 bp):
CAACGCGATTTTCAACTATCG
Found at i:2467615 original size:41 final size:41
Alignment explanation
Indices: 2467498--2467598 Score: 175
Period size: 41 Copynumber: 2.5 Consensus size: 41
2467488 ACAACTGTAG
* *
2467498 ACTATTGCAACGCGAAATGGAAAATCACAACGCGATTTTCA
1 ACTATAGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
2467539 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATAGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
2467580 ACTATAGCAACGCGAAATG
1 ACTATAGCAACGCGAAATG
2467599 AAACGCGAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.20
Consensus pattern (41 bp):
ACTATAGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
Found at i:2473383 original size:2 final size:2
Alignment explanation
Indices: 2473378--2473462 Score: 75
Period size: 2 Copynumber: 42.5 Consensus size: 2
2473368 GTCTCTCAAT
* * * * *
2473378 TA TA TA TCA TA TA TA TG TA TA TCA GA TA TA -A AA GA AA TA TA TA
1 TA TA TA T-A TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
* *
2473421 TA TA TA TA TA TA TA -A TA TA TA TA CA TG 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
2473462 T
1 T
2473463 TATCAAAAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
1 2 0.03
2 63 0.93
3 3 0.04
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (2 bp):
TA
Found at i:2474115 original size:25 final size:25
Alignment explanation
Indices: 2474087--2474137 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
2474077 AATATTTTAT
2474087 ATATAAT-TAATATAAAAAATATAAA
1 ATATAATAT-ATATAAAAAATATAAA
* **
2474112 ATATTATATATATAATTAATATAAA
1 ATATAATATATATAAAAAATATAAA
2474137 A
1 A
2474138 AATATAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
ATATAATATATATAAAAAATATAAA
Found at i:2474115 original size:34 final size:34
Alignment explanation
Indices: 2474075--2474159 Score: 161
Period size: 34 Copynumber: 2.5 Consensus size: 34
2474065 CTCGAACCCA
*
2474075 AAAATATTTTATATATAATTAATATAAAAAATAT
1 AAAATATTATATATATAATTAATATAAAAAATAT
2474109 AAAATATTATATATATAATTAATATAAAAAATAT
1 AAAATATTATATATATAATTAATATAAAAAATAT
2474143 AAAATATTATATATATA
1 AAAATATTATATATATA
2474160 TATATATATA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (34 bp):
AAAATATTATATATATAATTAATATAAAAAATAT
Found at i:2475521 original size:2 final size:2
Alignment explanation
Indices: 2475514--2475543 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2475504 GCAACAACAC
*
2475514 TG TG TG TG TG TG TA TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2475544 AGAGAGAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (2 bp):
TG
Found at i:2482665 original size:21 final size:22
Alignment explanation
Indices: 2482641--2482684 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
2482631 ATTTATATTT
*
2482641 ATAAAAATATTATT-TTTTAAA
1 ATAAAAATATTATTAATTTAAA
2482662 ATAAAAATATTATTAATTTAAA
1 ATAAAAATATTATTAATTTAAA
2482684 A
1 A
2482685 AACTTCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
ATAAAAATATTATTAATTTAAA
Found at i:2491980 original size:18 final size:17
Alignment explanation
Indices: 2491954--2491987 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2491944 GTCTAAGGTA
2491954 AAAAATTAAGTTGAATTG
1 AAAAATTAAGTT-AATTG
*
2491972 AAAATTTAAGTTAATT
1 AAAAATTAAGTTAATT
2491988 AAATTGAAAG
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:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (17 bp):
AAAAATTAAGTTAATTG
Found at i:2493010 original size:38 final size:38
Alignment explanation
Indices: 2492936--2493047 Score: 146
Period size: 33 Copynumber: 3.1 Consensus size: 38
2492926 TTTTTATTAT
* * *
2492936 TTCGAGTCGGGTCGGGTTGGG-TTTTTTAAGTGTGATA
1 TTCGGGTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATA
*
2492973 TTCGGGTCGAGTCGGGTCGGGTTTTTTTAAGTTTGATA
1 TTCGGGTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATA
2493011 TTCGGGTC-A----GGTCGGGTTTTTTTAAGTGTGATA
1 TTCGGGTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATA
2493044 TTCG
1 TTCG
2493048 TAGGGCCGGG
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
33 27 0.39
37 19 0.28
38 23 0.33
ACGTcount: A:0.13, C:0.10, G:0.35, T:0.42
Consensus pattern (38 bp):
TTCGGGTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATA
Found at i:2493058 original size:31 final size:32
Alignment explanation
Indices: 2492957--2493059 Score: 93
Period size: 33 Copynumber: 3.0 Consensus size: 32
2492947 TCGGGTTGGG
*
2492957 TTTTTTAAGTGTGATATTCGGGTCGAGTCGGGTCGGGT
1 TTTTTTAAGTGTGATATTC-GGTC-A----GGCCGGGT
* *
2492995 TTTTTTAAGTTTGATATTCGGGTCAGGTCGGGT
1 TTTTTTAAGTGTGATATTC-GGTCAGGCCGGGT
2493028 TTTTTTAAGTGTGATATTC-GT-AGGGCCGGGT
1 TTTTTTAAGTGTGATATTCGGTCA-GGCCGGGT
2493059 T
1 T
2493060 CGGGTTTAGA
Statistics
Matches: 61, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
30 1 0.02
31 10 0.16
33 26 0.43
37 1 0.02
38 23 0.38
ACGTcount: A:0.15, C:0.10, G:0.33, T:0.43
Consensus pattern (32 bp):
TTTTTTAAGTGTGATATTCGGTCAGGCCGGGT
Found at i:2495739 original size:49 final size:49
Alignment explanation
Indices: 2495685--2495836 Score: 118
Period size: 49 Copynumber: 3.2 Consensus size: 49
2495675 TTATACATGT
2495685 TGAATTGTTTAATCCGATTTCCATATAGATTGCATGAATACATATGTGG
1 TGAATTGTTTAATCCGATTTCCATATAGATTGCATGAATACATATGTGG
* * * * * * * * ** ** *
2495734 TGAATTGCTT-GT-TG--CTCGA-ATAGA-GGAAAGAATGTTATACATGT
1 TGAATTGTTTAATCCGATTTCCATATAGATTGCATGAAT-ACATATGTGG
* *
2495778 TGAATTGTTTAATCCGATTGCCATATAGATTGCATGAATACACATGTGG
1 TGAATTGTTTAATCCGATTTCCATATAGATTGCATGAATACATATGTGG
2495827 TGAATTGTTT
1 TGAATTGTTT
2495837 CTTGTTCAAA
Statistics
Matches: 68, Mismatches: 28, Indels: 14
0.62 0.25 0.13
Matches are distributed among these distances:
43 6 0.09
44 19 0.28
45 4 0.06
46 1 0.01
47 1 0.01
48 3 0.04
49 28 0.41
50 6 0.09
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (49 bp):
TGAATTGTTTAATCCGATTTCCATATAGATTGCATGAATACATATGTGG
Found at i:2495816 original size:93 final size:93
Alignment explanation
Indices: 2495558--2495840 Score: 444
Period size: 92 Copynumber: 3.1 Consensus size: 93
2495548 GAGTGTTTCA
* * * * *
2495558 TTCTTGTTCGAATAGAGGAAAGAATGTTATGCATGTTGAATT-ATGAATCTGATTTCCATATAGA
1 TTCTTGCTCGAATAGAGGAAAGAATGTTATACATGTTGAATTGTTTAATCCGATTTCCATATAGA
*
2495622 TTGCATGAATACATATGTGGTGAATTAC
66 TTGCATGAATACATATGTGGTGAATTGC
* *
2495650 TTCTTGTTTGAATAGAGGAAA-AATGTTATACATGTTGAATTGTTTAATCCGATTTCCATATAGA
1 TTCTTGCTCGAATAGAGGAAAGAATGTTATACATGTTGAATTGTTTAATCCGATTTCCATATAGA
2495714 TTGCATGAATACATATGTGGTGAATTGC
66 TTGCATGAATACATATGTGGTGAATTGC
* *
2495742 TTGTTGCTCGAATAGAGGAAAGAATGTTATACATGTTGAATTGTTTAATCCGATTGCCATATAGA
1 TTCTTGCTCGAATAGAGGAAAGAATGTTATACATGTTGAATTGTTTAATCCGATTTCCATATAGA
* *
2495807 TTGCATGAATACACATGTGGTGAATTGT
66 TTGCATGAATACATATGTGGTGAATTGC
2495835 TTCTTG
1 TTCTTG
2495841 TTCAAATGGA
Statistics
Matches: 176, Mismatches: 13, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
91 19 0.11
92 84 0.48
93 73 0.41
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (93 bp):
TTCTTGCTCGAATAGAGGAAAGAATGTTATACATGTTGAATTGTTTAATCCGATTTCCATATAGA
TTGCATGAATACATATGTGGTGAATTGC
Found at i:2495856 original size:93 final size:93
Alignment explanation
Indices: 2495558--2495857 Score: 460
Period size: 93 Copynumber: 3.2 Consensus size: 93
2495548 GAGTGTTTCA
* * * *
2495558 TTCTTGTTCGAATAGAGGAAAGAATGTTATGCATGTTGAATT-ATGAATCTGATTTCCATATAGA
1 TTCTTGTTCGAATAGAGGAAAGAATGTTATACATGTTGAATTGTTTAATCCGATTTCCATATAGA
*
2495622 TTGCATGAATACATATGTGGTGAATTAC
66 TTGCATGAATACATATGTGGTGAATTGC
*
2495650 TTCTTGTTTGAATAGAGGAAA-AATGTTATACATGTTGAATTGTTTAATCCGATTTCCATATAGA
1 TTCTTGTTCGAATAGAGGAAAGAATGTTATACATGTTGAATTGTTTAATCCGATTTCCATATAGA
2495714 TTGCATGAATACATATGTGGTGAATTGC
66 TTGCATGAATACATATGTGGTGAATTGC
* * *
2495742 TTGTTGCTCGAATAGAGGAAAGAATGTTATACATGTTGAATTGTTTAATCCGATTGCCATATAGA
1 TTCTTGTTCGAATAGAGGAAAGAATGTTATACATGTTGAATTGTTTAATCCGATTTCCATATAGA
* *
2495807 TTGCATGAATACACATGTGGTGAATTGT
66 TTGCATGAATACATATGTGGTGAATTGC
* * *
2495835 TTCTTGTTCAAATGGATGAAAGA
1 TTCTTGTTCGAATAGAGGAAAGA
2495858 TTGAAATGTA
Statistics
Matches: 189, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
91 19 0.10
92 84 0.44
93 86 0.46
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (93 bp):
TTCTTGTTCGAATAGAGGAAAGAATGTTATACATGTTGAATTGTTTAATCCGATTTCCATATAGA
TTGCATGAATACATATGTGGTGAATTGC
Found at i:2495891 original size:93 final size:92
Alignment explanation
Indices: 2495558--2495873 Score: 306
Period size: 92 Copynumber: 3.4 Consensus size: 92
2495548 GAGTGTTTCA
* ** * * * * *
2495558 TTCTTGTTCGAATAGAGGAAAGAATGTTATGCATG-TTGAATT-ATGAATCTGATTTCCATATAG
1 TTCTTGTTCGAATAGAGGAAAGATTGAAATGTATGATT--ATTGTTTAATCCGATTGCCATATAG
*
2495621 ATTGCATGAATACATATGTGGTGAATTAC
64 ATTGCATGAATACATATGTGGTGAATTGC
* * * *
2495650 TTCTTGTTTGAATAGAGGAAAAATGTTATACATGT-TGA--ATTGTTTAATCCGATTTCCATATA
1 TTCTTGTTCGAATAGAGGAAAGAT-TGA-A-ATGTATGATTATTGTTTAATCCGATTGCCATATA
2495712 GATTGCATGAATACATATGTGGTGAATTGC
63 GATTGCATGAATACATATGTGGTGAATTGC
* * *
2495742 TTGTTGCTCGAATAGAGGAAAGAATGTTATACATGT-TGA--ATTGTTTAATCCGATTGCCATAT
1 TTCTTGTTCGAATAGAGGAAAG-AT-TGA-A-ATGTATGATTATTGTTTAATCCGATTGCCATAT
* *
2495804 AGATTGCATGAATACACATGTGGTGAATTGT
62 AGATTGCATGAATACATATGTGGTGAATTGC
* * *
2495835 TTCTTGTTCAAATGGATGAAAGATTGAAATGTATGATTA
1 TTCTTGTTCGAATAGAGGAAAGATTGAAATGTATGATTA
2495874 GTTGGTTAGA
Statistics
Matches: 191, Mismatches: 24, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
89 4 0.02
90 4 0.02
91 5 0.03
92 88 0.46
93 85 0.45
94 2 0.01
95 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.37
Consensus pattern (92 bp):
TTCTTGTTCGAATAGAGGAAAGATTGAAATGTATGATTATTGTTTAATCCGATTGCCATATAGAT
TGCATGAATACATATGTGGTGAATTGC
Found at i:2496066 original size:12 final size:12
Alignment explanation
Indices: 2496051--2496094 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 12
2496041 TATTATTAAA
2496051 ATTAAAATTATT
1 ATTAAAATTATT
2496063 ATTAAAATTATAT
1 ATTAAAATTAT-T
2496076 ATTATATATATTATT
1 ATTA-A-A-ATTATT
2496091 ATTA
1 ATTA
2496095 TTTAATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 11 0.39
13 5 0.18
14 1 0.04
15 6 0.21
16 5 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTAAAATTATT
Found at i:2497780 original size:20 final size:19
Alignment explanation
Indices: 2497755--2497796 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
2497745 CTATTTTATA
2497755 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
2497775 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
2497794 AAT
1 AAT
2497797 ATCGAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:2497788 original size:119 final size:117
Alignment explanation
Indices: 2497653--2497887 Score: 294
Period size: 120 Copynumber: 2.0 Consensus size: 117
2497643 TTTAATCCTA
* * * *
2497653 TTTTAATATTTATTTATTTTTCAATAT-TAA-GAAAGGGCAGTCTTAAAACAACTAGATGTCCAT
1 TTTTAATATTTATTTATTTTTCAATATCGAATAAAAGAGCAGTCTTAAAACAACTAGAAGT-CAT
* *
2497716 TTTCTGATATTTTTAAATAAATAAATATCCTATTTTATAAATTATATATTAATTG
65 TTTCTGATATTTCTAAATAAATAAATATCCTA-TTTATAAA-TATATATAAATTG
* * ** * *
2497771 TTTTAATTATTTATTTATTTTTTAATATCGAATAAAAGAGCTGTCTTAAGGCACCTAGAAGTCTT
1 TTTTAA-TATTTATTTATTTTTCAATATCGAATAAAAGAGCAGTCTTAAAACAACTAGAAGTCAT
**
2497836 TTTCTGATATTTCTAAATAAATAAATATTTTATTTATAAATATATATAAATT
65 TTTCTGATATTTCTAAATAAATAAATATCCTATTTATAAATATATATAAATT
2497888 AATATTTTTT
Statistics
Matches: 100, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
118 17 0.17
119 28 0.28
120 33 0.33
121 22 0.22
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (117 bp):
TTTTAATATTTATTTATTTTTCAATATCGAATAAAAGAGCAGTCTTAAAACAACTAGAAGTCATT
TTCTGATATTTCTAAATAAATAAATATCCTATTTATAAATATATATAAATTG
Found at i:2500045 original size:12 final size:12
Alignment explanation
Indices: 2500028--2500082 Score: 65
Period size: 12 Copynumber: 4.3 Consensus size: 12
2500018 ACATTCACAT
2500028 ATTTACATTTGC
1 ATTTACATTTGC
2500040 ATTTACATTTGC
1 ATTTACATTTGC
*
2500052 ATTTTTTACATTTGT
1 A---TTTACATTTGC
*
2500067 ATTTACATTTTC
1 ATTTACATTTGC
2500079 ATTT
1 ATTT
2500083 TTACATAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
12 26 0.70
15 11 0.30
ACGTcount: A:0.24, C:0.13, G:0.05, T:0.58
Consensus pattern (12 bp):
ATTTACATTTGC
Found at i:2500062 original size:27 final size:26
Alignment explanation
Indices: 2500029--2500088 Score: 93
Period size: 27 Copynumber: 2.3 Consensus size: 26
2500019 CATTCACATA
2500029 TTTACATTTGCATTTACATTTGCATTT
1 TTTACATTTGCATTTACATTTGCA-TT
* *
2500056 TTTACATTTGTATTTACATTTTCATT
1 TTTACATTTGCATTTACATTTGCATT
2500082 TTTACAT
1 TTTACAT
2500089 AATTACATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 9 0.29
27 22 0.71
ACGTcount: A:0.23, C:0.13, G:0.05, T:0.58
Consensus pattern (26 bp):
TTTACATTTGCATTTACATTTGCATT
Found at i:2502053 original size:26 final size:27
Alignment explanation
Indices: 2502023--2502074 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 27
2502013 ATTATACTCA
2502023 TCCAGCAAAGAAA-GAAAAAAGAAAAC
1 TCCAGCAAAGAAAGGAAAAAAGAAAAC
2502049 TCCAGCAAAGAAAGGAAAAAAGAAAA
1 TCCAGCAAAGAAAGGAAAAAAGAAAA
2502075 AAAGAGGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.65, C:0.13, G:0.17, T:0.04
Consensus pattern (27 bp):
TCCAGCAAAGAAAGGAAAAAAGAAAAC
Found at i:2502092 original size:17 final size:17
Alignment explanation
Indices: 2502059--2502138 Score: 85
Period size: 18 Copynumber: 4.6 Consensus size: 17
2502049 TCCAGCAAAG
2502059 AAAGGAAAAAAGAAAAA
1 AAAGGAAAAAAGAAAAA
2502076 AAGAGGAAAAAAGAAAAA
1 AA-AGGAAAAAAGAAAAA
*
2502094 AAAGGAAAGAAATAAAAA
1 AAAGGAAA-AAAGAAAAA
*
2502112 TAAA--AATAAAA-AACAA
1 -AAAGGAA-AAAAGAAAAA
2502128 AAAGGAAAAAA
1 AAAGGAAAAAA
2502139 AAATTAAATC
Statistics
Matches: 55, Mismatches: 2, Indels: 13
0.79 0.03 0.19
Matches are distributed among these distances:
15 3 0.05
16 8 0.15
17 15 0.27
18 26 0.47
19 3 0.05
ACGTcount: A:0.80, C:0.01, G:0.15, T:0.04
Consensus pattern (17 bp):
AAAGGAAAAAAGAAAAA
Found at i:2502140 original size:18 final size:17
Alignment explanation
Indices: 2502059--2502141 Score: 80
Period size: 17 Copynumber: 4.8 Consensus size: 17
2502049 TCCAGCAAAG
2502059 AAAGGAAAAAAGAAAAAA
1 AAAGGAAAAAA-AAAAAA
* *
2502077 AGAGGAAAAAAGAAAAA
1 AAAGGAAAAAAAAAAAA
*
2502094 AAAGGAAAGAAATAAAAAT
1 AAAGGAAA-AAA-AAAAAA
* *
2502113 AAA--AATAAAAAACAA
1 AAAGGAAAAAAAAAAAA
2502128 AAAGGAAAAAAAAA
1 AAAGGAAAAAAAAA
2502142 TTAAATCAAG
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
15 7 0.13
16 3 0.06
17 22 0.42
18 13 0.25
19 7 0.13
ACGTcount: A:0.81, C:0.01, G:0.14, T:0.04
Consensus pattern (17 bp):
AAAGGAAAAAAAAAAAA
Found at i:2504595 original size:114 final size:114
Alignment explanation
Indices: 2504394--2504617 Score: 367
Period size: 114 Copynumber: 2.0 Consensus size: 114
2504384 GTGCCACATT
* *
2504394 CTCATAGTAGAAATAAGGAGACCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTG
* * *
2504459 ATTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTG
66 ATTCGGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTG
2504508 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTG
* ** *
2504573 GTTCGGTAGGAACCCCGGAACCAATCATTGGAATTGAAAGATGAA
66 ATTCGGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAA
2504618 CTGCATGATC
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 101 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (114 bp):
CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTG
ATTCGGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTG
Found at i:2507204 original size:22 final size:22
Alignment explanation
Indices: 2507175--2507229 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
2507165 ATCTACACTC
*
2507175 TTCAAAGATGATAGGTTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
2507197 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
2507219 TTCAAAGATGA
1 TTCAAAGATGA
2507230 AAGCTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:2509957 original size:76 final size:76
Alignment explanation
Indices: 2509858--2510222 Score: 694
Period size: 76 Copynumber: 4.8 Consensus size: 76
2509848 CTATTTCCTA
* *
2509858 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2509923 AGCCTTAGGGT
66 AGCCTTAGGGT
2509934 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2509999 AGCCTTAGGGT
66 AGCCTTAGGGT
2510010 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2510075 AGCCTTAGGGT
66 AGCCTTAGGGT
2510086 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2510151 AGCCTTAGGGT
66 AGCCTTAGGGT
*
2510162 CATCTATAAGTCCTACAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTT
2510223 GTTATTTTGA
Statistics
Matches: 285, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
76 257 0.90
77 28 0.10
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:2510483 original size:76 final size:76
Alignment explanation
Indices: 2510391--2510594 Score: 354
Period size: 76 Copynumber: 2.7 Consensus size: 76
2510381 AAGCCTTCGG
*
2510391 GATGTTTTCAAAGCCTTAGGGTCATATTTAAGTCCTACAGTGCATGATGTTTCCAAAAAGACTTC
1 GATGTTTTCAAAGCCTTAGGGTCATATGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGACTTC
2510456 GGGAGCTTTTT
66 GGGAGCTTTTT
* * *
2510467 GATGTTTTCAAAGCCTTAGGGTCATCTGTAACTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
1 GATGTTTTCAAAGCCTTAGGGTCATATGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGACTTC
2510532 GGGAGCTTTTT
66 GGGAGCTTTTT
* *
2510543 GATGTTTTCAAAGCCTTAGGGTCATATGTAAGCCCTTCAGTGCATGATGTTT
1 GATGTTTTCAAAGCCTTAGGGTCATATGTAAGTCCTACAGTGCATGATGTTT
2510595 TCAACATTTC
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 120 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.35
Consensus pattern (76 bp):
GATGTTTTCAAAGCCTTAGGGTCATATGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGACTTC
GGGAGCTTTTT
Found at i:2510741 original size:3 final size:3
Alignment explanation
Indices: 2510727--2510792 Score: 71
Period size: 3 Copynumber: 21.7 Consensus size: 3
2510717 TCATTTCATT
* ** *
2510727 TTA TTT TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA ATA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
2510773 TTA -TA TATA TTA TTA TTA TT
1 TTA TTA T-TA TTA TTA TTA TT
2510793 TAATAAATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
2 2 0.04
3 44 0.85
4 6 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2510783 original size:22 final size:22
Alignment explanation
Indices: 2510733--2510791 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
2510723 CATTTTATTT
2510733 TTATTATTATTAA-A--AT-TA
1 TTATTATTATTAATATTATATA
2510751 TTATTATTATTAATATTATATA
1 TTATTATTATTAATATTATATA
*
2510773 TTA-TATATATTATTATTAT
1 TTATTAT-TATTAATATTAT
2510792 TTAATAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
18 13 0.37
19 1 0.03
21 5 0.14
22 16 0.46
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATTATTATTAATATTATATA
Found at i:2510802 original size:22 final size:22
Alignment explanation
Indices: 2510758--2510802 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
2510748 TTATTATTAT
* *
2510758 TATTAATATTATATATTATATA
1 TATTAATATTATATAATAAATA
* *
2510780 TATTATTATTATTTAATAAATA
1 TATTAATATTATATAATAAATA
2510802 T
1 T
2510803 TACAAACCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TATTAATATTATATAATAAATA
Found at i:2512201 original size:23 final size:24
Alignment explanation
Indices: 2512175--2512243 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 24
2512165 TTTAAATATA
2512175 TAGTTTTAATTTTATTCAT-TGTT
1 TAGTTTTAATTTTATTCATATGTT
* * *
2512198 TAGTTAT-ATGTTATTTTATATGTT
1 TAGTTTTAATTTTA-TTCATATGTT
* *
2512222 TACTTTTAATTATTATTAATAT
1 TAGTTTTAATT-TTATTCATAT
2512244 TATTATTATT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
22 5 0.14
23 10 0.29
24 9 0.26
25 8 0.23
26 3 0.09
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (24 bp):
TAGTTTTAATTTTATTCATATGTT
Found at i:2512474 original size:20 final size:19
Alignment explanation
Indices: 2512449--2512490 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
2512439 CTATTTTATA
2512449 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
2512469 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
2512488 AAT
1 AAT
2512491 ATCGAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:2512482 original size:119 final size:117
Alignment explanation
Indices: 2512345--2512581 Score: 298
Period size: 120 Copynumber: 2.0 Consensus size: 117
2512335 ATTTTAATCC
* * * * *
2512345 TGTTTTAATATTTATTTATTTTTCAATAT-TAA-GAAAGGGCAGTCTTAAAACAACTGGATGTCC
1 TGTTTTAATATTTATTTATTTTTCAATATCGAATAAAAGAGCAGTCTTAAAACAACTAGAAGTCC
* *
2512408 ATTTTCTGATATTTTTAAATAAATAAATATCCTATTTTATAAATTATATATTAAT
66 -TTTTCTGATATTTCTAAATAAATAAATATCCTA-TTTATAAA-TATATATAAAT
* * ** *
2512463 TGTTTTAATTATTTATTTATTTTTTAATATCGAATAAAAGAGCTGTCTTAAGGCACCTAGAAGTC
1 TGTTTTAA-TATTTATTTATTTTTCAATATCGAATAAAAGAGCAGTCTTAAAACAACTAGAAGTC
**
2512528 CTTTTCTGATATTTCTAAATAAATAAATATTTTATTTATAAATATATATAAAT
65 CTTTTCTGATATTTCTAAATAAATAAATATCCTATTTATAAATATATATAAAT
2512581 T
1 T
2512582 AATATTTTTT
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
118 19 0.19
119 28 0.27
120 32 0.31
121 23 0.23
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.46
Consensus pattern (117 bp):
TGTTTTAATATTTATTTATTTTTCAATATCGAATAAAAGAGCAGTCTTAAAACAACTAGAAGTCC
TTTTCTGATATTTCTAAATAAATAAATATCCTATTTATAAATATATATAAAT
Found at i:2516462 original size:39 final size:39
Alignment explanation
Indices: 2516405--2516509 Score: 156
Period size: 39 Copynumber: 2.7 Consensus size: 39
2516395 CCTGTACACC
*
2516405 CAGTAAGGGCTTACCCTGTGCACAAAGCAGAGGAGCCTG
1 CAGTAAGGACTTACCCTGTGCACAAAGCAGAGGAGCCTG
* * *
2516444 CAGTAAGGTCTTATCCTGTGCACAAAGCAGAGGAGCTTG
1 CAGTAAGGACTTACCCTGTGCACAAAGCAGAGGAGCCTG
* *
2516483 CAGTAAAGACTTACCCTGAGCACAAAG
1 CAGTAAGGACTTACCCTGTGCACAAAG
2516510 TCAAGGATCC
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.18
Consensus pattern (39 bp):
CAGTAAGGACTTACCCTGTGCACAAAGCAGAGGAGCCTG
Found at i:2517245 original size:18 final size:18
Alignment explanation
Indices: 2517222--2517257 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2517212 GAATATGGAA
2517222 AAATGAACTTCGAAATCG
1 AAATGAACTTCGAAATCG
2517240 AAATGAACTTCGAAATCG
1 AAATGAACTTCGAAATCG
2517258 GACTTAGGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (18 bp):
AAATGAACTTCGAAATCG
Found at i:2517951 original size:29 final size:31
Alignment explanation
Indices: 2517904--2517969 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
2517894 ATTTGGATCC
* *
2517904 AAATTTAATCAAAATTTCACTTTGGTCC-CA
1 AAATTTAATCAAAATTTCAATTTAGTCCTCA
*
2517934 TAATTTAATCAAAA-TTCAATTTAGTCCTCA
1 AAATTTAATCAAAATTTCAATTTAGTCCTCA
2517964 AAATTT
1 AAATTT
2517970 TTTAAAGATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 11 0.35
30 20 0.65
ACGTcount: A:0.39, C:0.17, G:0.05, T:0.39
Consensus pattern (31 bp):
AAATTTAATCAAAATTTCAATTTAGTCCTCA
Found at i:2523160 original size:14 final size:14
Alignment explanation
Indices: 2523136--2523168 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2523126 AACTTTTCGA
2523136 GTCAA-AGTCAACG
1 GTCAACAGTCAACG
2523149 GTCAACAGTCAACG
1 GTCAACAGTCAACG
*
2523163 ATCAAC
1 GTCAAC
2523169 GGTCGATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.39, C:0.27, G:0.18, T:0.15
Consensus pattern (14 bp):
GTCAACAGTCAACG
Found at i:2523177 original size:11 final size:11
Alignment explanation
Indices: 2523161--2523191 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2523151 CAACAGTCAA
2523161 CGATCAACGGT
1 CGATCAACGGT
2523172 CGATCAACGGT
1 CGATCAACGGT
*
2523183 CGGTCAACG
1 CGATCAACG
2523192 ATCAATGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (11 bp):
CGATCAACGGT
Found at i:2527733 original size:399 final size:401
Alignment explanation
Indices: 2526570--2528195 Score: 2176
Period size: 408 Copynumber: 4.0 Consensus size: 401
2526560 TCCACACCAT
* * * * *
2526570 AGAATTGTGGAATTCCTAATTGTGCTATCTTTAATGTCAATATCCTAAAAATCACAACACTCAAC
1 AGAATTGTGGAATTCTTGATTGTGCTATCTTTAGTGTCAACATCCTGAAAATCACAACACTCAAC
* *
2526635 GCAACATGTAAAGTGGAAAAAGAAAATAAAAAAATAAGAAACCCCAAGTCACTCCAAGGAAGTAG
66 GCAACATGTAAAGTGG---AA-AAAA-AAAAAAACAAGAAACCCCAAGTCACTCCAAGGAAGTAA
* * * *
2526700 TACACCGAGAGGCAAGTAAGTCGATCTTGTACTCTTTAAAACTCTCTTACCAAAACA-TTTTTTA
126 TACACCGAGAGGCAAATAAGTCAATCTTGTACTCTTTAAAACTCTCTTACCAAAA-AGCTTTTGA
* * * * * *
2526764 ATGCTCGTATTAGATTTCAATCGCTAACAAAGAGAAAAAAATTGCTTAAAACTCAAAGAGGTCAA
190 ATGCTCGTATTGGAGTTCAATCGCTAGCAAAGAG--GAAAATTACTTAAAGCTCAAAGAGGTCAA
* *
2526829 CAAAGGTAAGACTTCAAGAGAACGAGAATGTAAGGAAGAAGAAGTATGCAAACTCTTTTAGTCTT
253 CAAAGGTAAGACTTCAAGAGAACGAGAATGCAAGGAAGAAGAAGTATGCAAACTCTTTTAGTCCT
2526894 ACTAACACAAGGAGAAGAATGTTTTAGATGATGTAGAGTAACAAGGAAAGGTAAAACAAAGGAAC
318 ACTAACACAAGGAGAAGAATGTTTTAGATGATGTAGAGTAACAAGGAAAGGTAAAACAAAGGAAC
2526959 CTAAAGAATAAAAAAAATCAA
383 CTAAAGAAT--AAAAAATCAA
*
2526980 AGAATTGTGGAATTCTTGATTGTTCTATCTTTAGTGTCAACATCCTGAAAATCACAACACTCAAC
1 AGAATTGTGGAATTCTTGATTGTGCTATCTTTAGTGTCAACATCCTGAAAATCACAACACTCAAC
* * *
2527045 GCAACATGTAAAGTGAAAAAAGAAGAAAAAAACAAGAAACCCCAAGTCACTCTAAGAAAGTAATA
66 GCAACATGTAAAGTG-GAAAA-AA-AAAAAAACAAGAAACCCCAAGTCACTCCAAGGAAGTAATA
* * * **
2527110 CACCGAGAGGCAAGTAAG-AAGATTTTGTACTCTTTAAAACTCTCTTACCAAAATTCTTTTGAAT
128 CACCGAGAGGCAAATAAGTCA-ATCTTGTACTCTTTAAAACTCTCTTACCAAAAAGCTTTTGAAT
* * *
2527174 GAC-CGTATTGGAGTTCAATCGCTAGTAAAGAGGAAAAATTACTTAAAGCTCAAAAAAGTCAACA
192 G-CTCGTATTGGAGTTCAATCGCTAGCAAAGAGG-AAAATTACTTAAAGCTCAAAGAGGTCAACA
* * *
2527238 AAGGTAAGACTTCAAGAGAACGAGAATGCAAAGAAGAAGAAGTATGCAAACTTTTTTATTCCTAC
255 AAGGTAAGACTTCAAGAGAACGAGAATGCAAGGAAGAAGAAGTATGCAAACTCTTTTAGTCCTAC
* * * **
2527303 TAACACAAGGAGAAGAATATTTTATATGATGTTGAGTAACAAGGAAAGGTAAAACAAAAAAACCT
320 TAACACAAGGAGAAGAATGTTTTAGATGATGTAGAGTAACAAGGAAAGGTAAAACAAAGGAACCT
*
2527368 AAGGAATAAAAAATCAA
385 AAAGAATAAAAAATCAA
* * * * * * * *
2527385 AGAAGTATGGAATTCTTGGTTGTTCTATCTTTAGTGTCAACATCCTGGAAATCACAACAATTAAT
1 AGAATTGTGGAATTCTTGATTGTGCTATCTTTAGTGTCAACATCCTGAAAATCACAACACTCAAC
* * * ** *
2527450 GCAACATGTAAAGTGG-AAAAAAGAGAGA-AAGAAACCCCAAGTCACTATAAGGAAGTAACACAC
66 GCAACATGTAAAGTGGAAAAAAAAAAAAACAAGAAACCCCAAGTCACTCCAAGGAAGTAATACAC
* * * *
2527513 CAAGAGGCAAATAAGCCAATCTTATACTCTTTAAAACTCTCTTACCAAAAAGCTTTTGAATTCTC
131 CGAGAGGCAAATAAGTCAATCTTGTACTCTTTAAAACTCTCTTACCAAAAAGCTTTTGAATGCTC
* *
2527578 GTATTGGAGTTCAATCACTAGCAAAGAGGAAAATTACTTAAAGCTCAAAGAGGTCAACAAAGGCA
196 GTATTGGAGTTCAATCGCTAGCAAAGAGGAAAATTACTTAAAGCTCAAAGAGGTCAACAAAGGTA
* * *
2527643 AGACTTCAAGAGAACGATAATGTAAGGAAGAATAAGTATGCAAACTCTTTTAGTCCTACTAACAC
261 AGACTTCAAGAGAACGAGAATGCAAGGAAGAAGAAGTATGCAAACTCTTTTAGTCCTACTAACAC
*
2527708 AAGGAGAAGAATGTTTTACATGATGTAGAGTAACAAGGAAAGGTAAAACAAAGGAACCTAAAGAA
326 AAGGAGAAGAATGTTTTAGATGATGTAGAGTAACAAGGAAAGGTAAAACAAAGGAACCTAAAGAA
2527773 TAAAAAATCAA
391 TAAAAAATCAA
* *
2527784 AGAATTGTGGAATTACTT-ATTGTGCTACCTTAAGTGTCAACATCCTGAAAATCACAACACTCAA
1 AGAATTGTGGAATT-CTTGATTGTGCTATCTTTAGTGTCAACATCCTGAAAATCACAACACTCAA
* *
2527848 CGCAACATGTAAAGTGAAAAAAGAAAATTAAAAAAAAAACAAAAAAACCCCATGTCACTCCAAGG
65 CGCAACATGTAAAGTG------G-AAA--AAAAAAAAAAC-AAGAAACCCCAAGTCACTCCAAGG
* * *
2527913 AAGTAATACACCGAGAGGCAAATAAGTCGATCTTGTACTCTTTAAAACTCTCATACCAAAAAGAT
120 AAGTAATACACCGAGAGGCAAATAAGTCAATCTTGTACTCTTTAAAACTCTCTTACCAAAAAGCT
* * *
2527978 TTTTAATGCTTGTATTGGAGTTCAATCGCTAGCAAAGA-GAAAATTTTACTTAAAGCTCGAAGAG
185 TTTGAATGCTCGTATTGGAGTTCAATCGCTAGCAAAGAGGAAAA--TTACTTAAAGCTCAAAGAG
* *
2528042 GTCAACAAAGGTAAGACTTAAAGAGAATGAGAATGC----AAGAAGAAGTATGCAAACTCTTTTA
248 GTCAACAAAGGTAAGACTTCAAGAGAACGAGAATGCAAGGAAGAAGAAGTATGCAAACTCTTTTA
* * * * *
2528103 ATCCTACTAACACAATGAGAAGAATGTTTTAGATGATGTATAGTAAGAAGGAAAAGTAAAACAAA
313 GTCCTACTAACACAAGGAGAAGAATGTTTTAGATGATGTAGAGTAACAAGGAAAGGTAAAACAAA
*
2528168 GGAACCTAAAGAATAAAGAATCAA
378 GGAACCTAAAGAATAAAAAATCAA
2528192 AGAA
1 AGAA
2528196 AAGTTGGTAA
Statistics
Matches: 1074, Mismatches: 119, Indels: 48
0.87 0.10 0.04
Matches are distributed among these distances:
399 229 0.21
400 115 0.11
401 5 0.00
402 2 0.00
403 3 0.00
405 84 0.08
407 156 0.15
408 232 0.22
409 8 0.01
410 79 0.07
411 112 0.10
412 49 0.05
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.23
Consensus pattern (401 bp):
AGAATTGTGGAATTCTTGATTGTGCTATCTTTAGTGTCAACATCCTGAAAATCACAACACTCAAC
GCAACATGTAAAGTGGAAAAAAAAAAAAACAAGAAACCCCAAGTCACTCCAAGGAAGTAATACAC
CGAGAGGCAAATAAGTCAATCTTGTACTCTTTAAAACTCTCTTACCAAAAAGCTTTTGAATGCTC
GTATTGGAGTTCAATCGCTAGCAAAGAGGAAAATTACTTAAAGCTCAAAGAGGTCAACAAAGGTA
AGACTTCAAGAGAACGAGAATGCAAGGAAGAAGAAGTATGCAAACTCTTTTAGTCCTACTAACAC
AAGGAGAAGAATGTTTTAGATGATGTAGAGTAACAAGGAAAGGTAAAACAAAGGAACCTAAAGAA
TAAAAAATCAA
Found at i:2528179 original size:408 final size:402
Alignment explanation
Indices: 2526570--2528195 Score: 2155
Period size: 399 Copynumber: 4.0 Consensus size: 402
2526560 TCCACACCAT
* * * * *
2526570 AGAATTGTGGAATTCCTAATTGTGCTATCTTTAA-TGTCAATATCCTAAAAATCACAACACTCAA
1 AGAATTGTGGAATTCTTGATTGTGCTA-CCTTAAGTGTCAACATCCTGAAAATCACAACACTCAA
*
2526634 CGCAACATGTAAAGTGGAAAAAGAAAATAAAAAA-ATAAGAAACCCCAAGTCACTCCAAGGAAGT
65 CGCAACATGTAAAGTGAAAAAAGAAAA-AAAAAACA-AAGAAACCCCAAGTCACTCCAAGGAAGT
* * *
2526698 AGTACACCGAGAGGCAAGTAAGTCGATCTTGTACTCTTTAAAACTCTCTTACCAAAACA-TTTTT
128 AATACACCGAGAGGCAAATAAGTCGATCTTGTACTCTTTAAAACTCTCTTACCAAAA-AGCTTTT
* * * * * * *
2526762 TAATGCTCGTATTAGATTTCAATCGCTAACAAAGAGAAAAAAATTGCTTAAAACTCAAAGAGGTC
192 GAATGCTCGTATTGGAGTTCAATCGCTAGCAAAGAG-GAAAAATTACTTAAAGCTCAAAGAGGTC
*
2526827 AACAAAGGTAAGACTTCAAGAGAACGAGAATGTAAGGAAGAAGAAGTATGCAAACTCTTTTAGTC
256 AACAAAGGTAAGACTTCAAGAGAACGAGAA--T--GCAAGAAGAAGTATGCAAACTCTTTTAGTC
*
2526892 TTACTAACACAAGGAGAAGAATGTTTTAGATGATGTAGAGTAACAAGGAAAGGTAAAACAAAGGA
317 CTACTAACACAAGGAGAAGAATGTTTTAGATGATGTAGAGTAACAAGGAAAGGTAAAACAAAGGA
2526957 ACCTAAAGAATAAAAAAAATCAA
382 ACCTAAAGAAT--AAAAAATCAA
* * *
2526980 AGAATTGTGGAATTCTTGATTGTTCTATCTTTAGTGTCAACATCCTGAAAATCACAACACTCAAC
1 AGAATTGTGGAATTCTTGATTGTGCTACCTTAAGTGTCAACATCCTGAAAATCACAACACTCAAC
* * *
2527045 GCAACATGTAAAGTGAAAAAAGAAGAAAAAAAC-AAGAAACCCCAAGTCACTCTAAGAAAGTAAT
66 GCAACATGTAAAGTGAAAAAAGAAAAAAAAAACAAAGAAACCCCAAGTCACTCCAAGGAAGTAAT
* ** * **
2527109 ACACCGAGAGGCAAGTAAGAAGATTTTGTACTCTTTAAAACTCTCTTACCAAAATTCTTTTGAAT
131 ACACCGAGAGGCAAATAAGTCGATCTTGTACTCTTTAAAACTCTCTTACCAAAAAGCTTTTGAAT
* * *
2527174 GAC-CGTATTGGAGTTCAATCGCTAGTAAAGAGGAAAAATTACTTAAAGCTCAAAAAAGTCAACA
196 G-CTCGTATTGGAGTTCAATCGCTAGCAAAGAGGAAAAATTACTTAAAGCTCAAAGAGGTCAACA
* *
2527238 AAGGTAAGACTTCAAGAGAACGAGAATGCAAAGAAGAAGAAGTATGCAAACTTTTTTATTCCTAC
260 AAGGTAAGACTTCAAGAGAACGAGAATGC----AAGAAGAAGTATGCAAACTCTTTTAGTCCTAC
* * * **
2527303 TAACACAAGGAGAAGAATATTTTATATGATGTTGAGTAACAAGGAAAGGTAAAACAAAAAAACCT
321 TAACACAAGGAGAAGAATGTTTTAGATGATGTAGAGTAACAAGGAAAGGTAAAACAAAGGAACCT
*
2527368 AAGGAATAAAAAATCAA
386 AAAGAATAAAAAATCAA
* * * * * * * * * *
2527385 AGAAGTATGGAATTCTTGGTTGTTCTATCTTTAGTGTCAACATCCTGGAAATCACAACAATTAAT
1 AGAATTGTGGAATTCTTGATTGTGCTACCTTAAGTGTCAACATCCTGAAAATCACAACACTCAAC
* * * ** *
2527450 GCAACATGTAAAGTG------GAAAAAAGAGAGAAAGAAACCCCAAGTCACTATAAGGAAGTAAC
66 GCAACATGTAAAGTGAAAAAAGAAAAAAAAAACAAAGAAACCCCAAGTCACTCCAAGGAAGTAAT
* * * *
2527509 ACACCAAGAGGCAAATAAGCCAATCTTATACTCTTTAAAACTCTCTTACCAAAAAGCTTTTGAAT
131 ACACCGAGAGGCAAATAAGTCGATCTTGTACTCTTTAAAACTCTCTTACCAAAAAGCTTTTGAAT
* *
2527574 TCTCGTATTGGAGTTCAATCACTAGCAAAGAGG-AAAATTACTTAAAGCTCAAAGAGGTCAACAA
196 GCTCGTATTGGAGTTCAATCGCTAGCAAAGAGGAAAAATTACTTAAAGCTCAAAGAGGTCAACAA
* * *
2527638 AGGCAAGACTTCAAGAGAACGATAATGTAAGGAAGAATAAGTATGCAAACTCTTTTAGTCCTACT
261 AGGTAAGACTTCAAGAGAACGAGAATGCAA-GAAG---AAGTATGCAAACTCTTTTAGTCCTACT
*
2527703 AACACAAGGAGAAGAATGTTTTACATGATGTAGAGTAACAAGGAAAGGTAAAACAAAGGAACCTA
322 AACACAAGGAGAAGAATGTTTTAGATGATGTAGAGTAACAAGGAAAGGTAAAACAAAGGAACCTA
2527768 AAGAATAAAAAATCAA
387 AAGAATAAAAAATCAA
2527784 AGAATTGTGGAATTACTT-ATTGTGCTACCTTAAGTGTCAACATCCTGAAAATCACAACACTCAA
1 AGAATTGTGGAATT-CTTGATTGTGCTACCTTAAGTGTCAACATCCTGAAAATCACAACACTCAA
* *
2527848 CGCAACATGTAAAGTGAAAAAAGAAAATTAAAAAAAAAACAAAAAAACCCCATGTCACTCCAAGG
65 CGCAACATGTAAAGTGAAAAAAG------AAAAAAAAAACAAAGAAACCCCAAGTCACTCCAAGG
* *
2527913 AAGTAATACACCGAGAGGCAAATAAGTCGATCTTGTACTCTTTAAAACTCTCATACCAAAAAGAT
124 AAGTAATACACCGAGAGGCAAATAAGTCGATCTTGTACTCTTTAAAACTCTCTTACCAAAAAGCT
* * * *
2527978 TTTTAATGCTTGTATTGGAGTTCAATCGCTAGCAAAGA-GAAAATTTTACTTAAAGCTCGAAGAG
189 TTTGAATGCTCGTATTGGAGTTCAATCGCTAGCAAAGAGGAAAA-ATTACTTAAAGCTCAAAGAG
* * *
2528042 GTCAACAAAGGTAAGACTTAAAGAGAATGAGAATGCAAGAAGAAGTATGCAAACTCTTTTAATCC
253 GTCAACAAAGGTAAGACTTCAAGAGAACGAGAATGCAAGAAGAAGTATGCAAACTCTTTTAGTCC
* * * *
2528107 TACTAACACAATGAGAAGAATGTTTTAGATGATGTATAGTAAGAAGGAAAAGTAAAACAAAGGAA
318 TACTAACACAAGGAGAAGAATGTTTTAGATGATGTAGAGTAACAAGGAAAGGTAAAACAAAGGAA
*
2528172 CCTAAAGAATAAAGAATCAA
383 CCTAAAGAATAAAAAATCAA
2528192 AGAA
1 AGAA
2528196 AAGTTGGTAA
Statistics
Matches: 1068, Mismatches: 119, Indels: 60
0.86 0.10 0.05
Matches are distributed among these distances:
395 2 0.00
396 4 0.00
399 229 0.21
400 115 0.11
403 1 0.00
405 85 0.08
407 148 0.14
408 217 0.20
409 10 0.01
410 78 0.07
411 128 0.12
412 51 0.05
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.23
Consensus pattern (402 bp):
AGAATTGTGGAATTCTTGATTGTGCTACCTTAAGTGTCAACATCCTGAAAATCACAACACTCAAC
GCAACATGTAAAGTGAAAAAAGAAAAAAAAAACAAAGAAACCCCAAGTCACTCCAAGGAAGTAAT
ACACCGAGAGGCAAATAAGTCGATCTTGTACTCTTTAAAACTCTCTTACCAAAAAGCTTTTGAAT
GCTCGTATTGGAGTTCAATCGCTAGCAAAGAGGAAAAATTACTTAAAGCTCAAAGAGGTCAACAA
AGGTAAGACTTCAAGAGAACGAGAATGCAAGAAGAAGTATGCAAACTCTTTTAGTCCTACTAACA
CAAGGAGAAGAATGTTTTAGATGATGTAGAGTAACAAGGAAAGGTAAAACAAAGGAACCTAAAGA
ATAAAAAATCAA
Found at i:2529242 original size:6 final size:6
Alignment explanation
Indices: 2529231--2529257 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2529221 AGTCATATTT
2529231 TTATCA TTATCA TTATCA TTATCA TTA
1 TTATCA TTATCA TTATCA TTATCA TTA
2529258 ATCCATTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (6 bp):
TTATCA
Found at i:2534070 original size:21 final size:22
Alignment explanation
Indices: 2534029--2534076 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 22
2534019 TGTTTCCCCT
2534029 GTATCGATACCCTCTATATA-G
1 GTATCGATACCCTCTATATAGG
2534050 GTATCGATA-CCTCT-TCCATAGG
1 GTATCGATACCCTCTAT--ATAGG
2534072 GTATC
1 GTATC
2534077 AGTATTGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 1 0.04
20 5 0.21
21 12 0.50
22 6 0.25
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (22 bp):
GTATCGATACCCTCTATATAGG
Found at i:2535029 original size:11 final size:12
Alignment explanation
Indices: 2535013--2535037 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2535003 AACTAAACTG
2535013 AAAAAATTGAAA
1 AAAAAATTGAAA
2535025 AAAAAATTGAAA
1 AAAAAATTGAAA
2535037 A
1 A
2535038 TGAATCTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAAAATTGAAA
Found at i:2536695 original size:280 final size:280
Alignment explanation
Indices: 2536194--2536753 Score: 1120
Period size: 280 Copynumber: 2.0 Consensus size: 280
2536184 ACAAACAGTC
2536194 ATAACTCCAAAAGACATGTTGACCAAATAATATCAAGACCCCATTAAAAAGGCAGTCGTAATTAT
1 ATAACTCCAAAAGACATGTTGACCAAATAATATCAAGACCCCATTAAAAAGGCAGTCGTAATTAT
2536259 GTTGCTCTATTGTTCTTCTTTTCTAAGGTTTGTTCATGTGGATCAATTGGAAGCGTTAGTCTATC
66 GTTGCTCTATTGTTCTTCTTTTCTAAGGTTTGTTCATGTGGATCAATTGGAAGCGTTAGTCTATC
2536324 TTTCTTTGATGTGTGCCTTGTGGTGCATCTATCAGGTATCTCAATGATTCCAAGTAACGACATCT
131 TTTCTTTGATGTGTGCCTTGTGGTGCATCTATCAGGTATCTCAATGATTCCAAGTAACGACATCT
2536389 TGGCGCTCATTAGAGTTGATGCTCTCAACTCTTTTGTTCAATTTTAGGACGTAATCATGTAAAAG
196 TGGCGCTCATTAGAGTTGATGCTCTCAACTCTTTTGTTCAATTTTAGGACGTAATCATGTAAAAG
2536454 AACATGATAGGTCTCAACGT
261 AACATGATAGGTCTCAACGT
2536474 ATAACTCCAAAAGACATGTTGACCAAATAATATCAAGACCCCATTAAAAAGGCAGTCGTAATTAT
1 ATAACTCCAAAAGACATGTTGACCAAATAATATCAAGACCCCATTAAAAAGGCAGTCGTAATTAT
2536539 GTTGCTCTATTGTTCTTCTTTTCTAAGGTTTGTTCATGTGGATCAATTGGAAGCGTTAGTCTATC
66 GTTGCTCTATTGTTCTTCTTTTCTAAGGTTTGTTCATGTGGATCAATTGGAAGCGTTAGTCTATC
2536604 TTTCTTTGATGTGTGCCTTGTGGTGCATCTATCAGGTATCTCAATGATTCCAAGTAACGACATCT
131 TTTCTTTGATGTGTGCCTTGTGGTGCATCTATCAGGTATCTCAATGATTCCAAGTAACGACATCT
2536669 TGGCGCTCATTAGAGTTGATGCTCTCAACTCTTTTGTTCAATTTTAGGACGTAATCATGTAAAAG
196 TGGCGCTCATTAGAGTTGATGCTCTCAACTCTTTTGTTCAATTTTAGGACGTAATCATGTAAAAG
2536734 AACATGATAGGTCTCAACGT
261 AACATGATAGGTCTCAACGT
2536754 TGTTCGACTA
Statistics
Matches: 280, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
280 280 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (280 bp):
ATAACTCCAAAAGACATGTTGACCAAATAATATCAAGACCCCATTAAAAAGGCAGTCGTAATTAT
GTTGCTCTATTGTTCTTCTTTTCTAAGGTTTGTTCATGTGGATCAATTGGAAGCGTTAGTCTATC
TTTCTTTGATGTGTGCCTTGTGGTGCATCTATCAGGTATCTCAATGATTCCAAGTAACGACATCT
TGGCGCTCATTAGAGTTGATGCTCTCAACTCTTTTGTTCAATTTTAGGACGTAATCATGTAAAAG
AACATGATAGGTCTCAACGT
Found at i:2543748 original size:22 final size:22
Alignment explanation
Indices: 2543723--2543764 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2543713 GGAATTAAGT
2543723 GGATGATGATGGTCTTGATGGA
1 GGATGATGATGGTCTTGATGGA
* *
2543745 GGATGTTGATGGTGTTGATG
1 GGATGATGATGGTCTTGATG
2543765 TTGAAATGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.02, G:0.43, T:0.36
Consensus pattern (22 bp):
GGATGATGATGGTCTTGATGGA
Found at i:2544953 original size:18 final size:18
Alignment explanation
Indices: 2544914--2544957 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
2544904 TATGTGAACT
2544914 TATATAATGTGTATAAGA
1 TATATAATGTGTATAAGA
2544932 TATA-AATGTGTACTATAG-
1 TATATAATGTGTA-TA-AGA
2544950 TATATAAT
1 TATATAAT
2544958 AATAACTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 8 0.35
18 10 0.43
19 5 0.22
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (18 bp):
TATATAATGTGTATAAGA
Found at i:2544954 original size:20 final size:18
Alignment explanation
Indices: 2544914--2544956 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
2544904 TATGTGAACT
2544914 TATAT-AATGTGTATAAG
1 TATATAAATGTGTATAAG
2544931 -ATATAAATGTGTACTATAG
1 TATATAAATGTGTA-TA-AG
2544950 TATATAA
1 TATATAA
2544957 TAATAACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.18
17 8 0.36
18 2 0.09
19 2 0.09
20 6 0.27
ACGTcount: A:0.44, C:0.02, G:0.14, T:0.40
Consensus pattern (18 bp):
TATATAAATGTGTATAAG
Found at i:2545723 original size:3 final size:3
Alignment explanation
Indices: 2545715--2545773 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
2545705 AATTTTTGGA
2545715 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2545763 ATT ATT ATT AT
1 ATT ATT ATT AT
2545774 CGAATATTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2547238 original size:46 final size:46
Alignment explanation
Indices: 2547165--2547389 Score: 333
Period size: 46 Copynumber: 4.9 Consensus size: 46
2547155 ATGAGTAGCA
* * * *
2547165 CCTTTTATGTCGTTAATGCATCGTTATGCATTTTCATTTGTGGTAT
1 CCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGGCAT
*
2547211 CCCTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGGCAT
1 CCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGGCAT
** * * *
2547257 CCTTTCATAACGATAATGCACTGTTATACATTTTCATTTGTGGTAT
1 CCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGGCAT
* *
2547303 CCTTTCATGCCGATAATGCACCGTTATGCATGTTCATTTGTGGCAT
1 CCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGGCAT
*
2547349 CCTTTCATGTCGATAATGCACTGTTATGCATTTTCATTTGT
1 CCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGT
2547390 TCATTCATTT
Statistics
Matches: 159, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 159 1.00
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.43
Consensus pattern (46 bp):
CCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGGCAT
Found at i:2553127 original size:14 final size:14
Alignment explanation
Indices: 2553108--2553138 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2553098 GTCTCCTATA
2553108 TATATATTTTTAAT
1 TATATATTTTTAAT
*
2553122 TATATATTTTTATT
1 TATATATTTTTAAT
2553136 TAT
1 TAT
2553139 TTACTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATATATTTTTAAT
Found at i:2553180 original size:25 final size:26
Alignment explanation
Indices: 2553128--2553186 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
2553118 TAATTATATA
*
2553128 TTTTTATTTATTTACTATATTCCTCTT
1 TTTTTATTTATTTACTATATT-CACTT
* *
2553155 TTTTTATTTTTTTATTATATT-ACTT
1 TTTTTATTTATTTACTATATTCACTT
*
2553180 TTATTAT
1 TTTTTAT
2553187 ATATATCTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 9 0.32
27 19 0.68
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.71
Consensus pattern (26 bp):
TTTTTATTTATTTACTATATTCACTT
Found at i:2553191 original size:2 final size:2
Alignment explanation
Indices: 2553184--2553229 Score: 51
Period size: 2 Copynumber: 23.5 Consensus size: 2
2553174 TTACTTTTAT
* *
2553184 TA TA TA TA TC T- TA TA TCA T- TA TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
2553225 TA TA T
1 TA TA T
2553230 GTATTAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
1 2 0.05
2 34 0.89
3 2 0.05
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2553288 original size:27 final size:27
Alignment explanation
Indices: 2553258--2553382 Score: 95
Period size: 27 Copynumber: 4.9 Consensus size: 27
2553248 TTGCTATGTA
2553258 TATATATTTTTTCTTAATATTATATTT
1 TATATATTTTTTCTTAATATTATATTT
** *
2553285 TATACGTTTTTTCTTAATATTCTATTT
1 TATATATTTTTTCTTAATATTATATTT
* * *
2553312 T-TGT-TTTTAT-TT-AT-TTATA-TA
1 TATATATTTTTTCTTAATATTATATTT
*
2553333 TATTATATTTTTACATT-ATATTAT-TTT
1 TA-TATATTTTTTC-TTAATATTATATTT
* *
2553360 TTTCTATTTTTTCTTAATATTAT
1 TATATATTTTTTCTTAATATTAT
2553383 GTATATCTTT
Statistics
Matches: 75, Mismatches: 15, Indels: 17
0.70 0.14 0.16
Matches are distributed among these distances:
21 2 0.03
22 4 0.05
23 4 0.05
24 6 0.08
25 7 0.09
26 21 0.28
27 31 0.41
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.67
Consensus pattern (27 bp):
TATATATTTTTTCTTAATATTATATTT
Found at i:2553360 original size:17 final size:16
Alignment explanation
Indices: 2553318--2553361 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
2553308 ATTTTTGTTT
*
2553318 TTATTTATTTATATATA
1 TTATTT-TTTACATATA
2553335 TTATATTTTTACATTATA
1 TTAT-TTTTTACA-TATA
2553353 TTATTTTTT
1 TTATTTTTT
2553362 TCTATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATTTTTTACATATA
Found at i:2553362 original size:18 final size:17
Alignment explanation
Indices: 2553318--2553362 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
2553308 ATTTTTGTTT
* *
2553318 TTATTTATTTATATATA
1 TTATTTTTTTACATATA
*
2553335 TTATATTTTTACATTATA
1 TTATTTTTTTACA-TATA
2553353 TTATTTTTTT
1 TTATTTTTTT
2553363 CTATTTTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (17 bp):
TTATTTTTTTACATATA
Found at i:2553420 original size:39 final size:35
Alignment explanation
Indices: 2553349--2553446 Score: 94
Period size: 39 Copynumber: 2.7 Consensus size: 35
2553339 ATTTTTACAT
*
2553349 TATA-TTATTTTTTT-CTAT-TTTTTCTTAATATTA
1 TATATTTATTTTTTTACT-TGTTTTACTTAATATTA
*
2553382 TGTATATCTTTATTTTTTTACTTGTTTTACTTAGTATTA
1 --TATA--TTTATTTTTTTACTTGTTTTACTTAATATTA
*
2553421 TATATTTATTGTTTTTATTTGTTTTA
1 TATATTTATT-TTTTTACTTGTTTTA
2553447 GTAAATTCTA
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
35 10 0.19
36 14 0.26
37 4 0.07
38 11 0.20
39 15 0.28
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.68
Consensus pattern (35 bp):
TATATTTATTTTTTTACTTGTTTTACTTAATATTA
Found at i:2553591 original size:11 final size:11
Alignment explanation
Indices: 2553575--2553600 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2553565 TTTTGTTTAT
2553575 TTTTATTATTA
1 TTTTATTATTA
2553586 TTTTATTATTA
1 TTTTATTATTA
2553597 TTTT
1 TTTT
2553601 TTTACGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:2553592 original size:17 final size:19
Alignment explanation
Indices: 2553556--2553598 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
2553546 TTTTTAAACA
*
2553556 TTTTATTCATTTTGTTTAT
1 TTTTATTCATTATGTTTAT
2553575 TTTTATT-ATTAT-TTTAT
1 TTTTATTCATTATGTTTAT
*
2553592 TATTATT
1 TTTTATT
2553599 TTTTTACGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 11 0.50
18 4 0.18
19 7 0.32
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTATTCATTATGTTTAT
Found at i:2553598 original size:23 final size:23
Alignment explanation
Indices: 2553571--2553618 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
2553561 TTCATTTTGT
*
2553571 TTATTTTTATTA-TTATTTTATTA
1 TTATTTTT-TTACGTATTTTATTA
*
2553594 TTATTTTTTTACGTATTTTGTTA
1 TTATTTTTTTACGTATTTTATTA
2553617 TT
1 TT
2553619 TTTCATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (23 bp):
TTATTTTTTTACGTATTTTATTA
Found at i:2556907 original size:69 final size:69
Alignment explanation
Indices: 2556788--2556925 Score: 208
Period size: 69 Copynumber: 2.0 Consensus size: 69
2556778 GATTTAAACT
2556788 ATGAGATTGATCAAGCACAATCATTTTCGAATCACTGAACCACTTCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTTCGAATCACTGAACCACTTCACTCGAAGATCATAGAGCA
2556853 TCAA
66 TCAA
* * * *
2556857 ATGAGATTGATCAAGCACAATCA-TTTCTGAATTACTGCATCAC-TCTACTCGAAGATCATGGAG
1 ATGAGATTGATCAAGCACAATCATTTTC-GAATCACTGAACCACTTC-ACTCGAAGATCATAGAG
2556920 CATCAA
64 CATCAA
2556926 GAGAGAGACA
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
68 6 0.10
69 57 0.90
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.26
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTTCGAATCACTGAACCACTTCACTCGAAGATCATAGAGCA
TCAA
Found at i:2558521 original size:36 final size:37
Alignment explanation
Indices: 2558474--2558558 Score: 127
Period size: 37 Copynumber: 2.3 Consensus size: 37
2558464 ATTAAAAACA
* * *
2558474 TTTCCCTTGAAAC-TAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
2558510 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
*
2558547 TTTCTCTTGAAA
1 TTTCCCTTGAAA
2558559 ATACACATTG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
36 13 0.30
37 31 0.70
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:2558542 original size:102 final size:102
Alignment explanation
Indices: 2558387--2558762 Score: 418
Period size: 101 Copynumber: 3.7 Consensus size: 102
2558377 TAAAAAGAAG
* * * * * *
2558387 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAATATGGTGTCCCTTGAGACAGTTTCTCT
1 ATTTCATCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
*
2558452 TGAAACATAAACATTAAAAACATTTCCCTTGAAACTA
66 TGAAACATAAACATTGAAAACATTTCCCTTGAAACTA
** *
2558489 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTCATCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
*
2558554 TGAAA-ATACACATTGAAAACATTTCCCTTGAAA-TAA
66 TGAAACATAAACATTGAAAACATTTCCCTTGAAACT-A
* * * *
2558590 ATTTCGTCTCTCTTGAGACAGTTTCCCTTTAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCT
1 ATTTCATCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
* ** * ** *** *
2558654 TTAAACA-AATTATTTGAATATGTTTTATTTGAAACAA
66 TGAAACATAAACA-TTGAAAACATTTCCCTTGAAACTA
* ** * * * *
2558691 ATTTCATCTCCCTTGAGACAGTTTCTTTTGAAACTAAGTTTTATCTCTCTTGAGACAGTTTCTCT
1 ATTTCATCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
2558756 TGAAACA
66 TGAAACA
2558763 AATTTCGTCT
Statistics
Matches: 237, Mismatches: 32, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
100 35 0.15
101 104 0.44
102 98 0.41
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (102 bp):
ATTTCATCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
TGAAACATAAACATTGAAAACATTTCCCTTGAAACTA
Found at i:2558628 original size:36 final size:36
Alignment explanation
Indices: 2558575--2558800 Score: 202
Period size: 36 Copynumber: 6.4 Consensus size: 36
2558565 ATTGAAAACA
* *
2558575 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAG
1 TTTCCCTTTAAACAAATTTCGTCTCTCTTGAGACAG
*
2558611 TTTCCCTTTAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTTAAACAAATTTCGTCTCTCTTGAGACAG
* *
2558647 TTTCCCTTTAAACAAA-----T-TAT-TTGA-ATATG
1 TTTCCCTTTAAACAAATTTCGTCTCTCTTGAGACA-G
** * *
2558676 TTT-TATTTGAAACAAATTTCATCTCCCTTGAGACAG
1 TTTCCCTTT-AAACAAATTTCGTCTCTCTTGAGACAG
* * **
2558712 TTT-CTTTTGAAACTAAGTTTTATCTCTCTTGAGACAG
1 TTTCCCTTT-AAAC-AAATTTCGTCTCTCTTGAGACAG
* *
2558749 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
1 TTTCCCTTTAAACAAATTTCGTCTCTCTTGAGACAG
*
2558785 TTTCCCTTGAAACAAA
1 TTTCCCTTTAAACAAA
2558801 ATCTTTGAAT
Statistics
Matches: 156, Mismatches: 22, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
28 5 0.03
29 15 0.10
30 2 0.01
31 1 0.01
34 1 0.01
35 1 0.01
36 100 0.64
37 29 0.19
38 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.41
Consensus pattern (36 bp):
TTTCCCTTTAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:2558848 original size:138 final size:138
Alignment explanation
Indices: 2558596--2558862 Score: 372
Period size: 138 Copynumber: 1.9 Consensus size: 138
2558586 ATAAATTTCG
* * *
2558596 TCTCTCTTGAGACAGTTTCCCTTTAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTTAAACA
1 TCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACA
* * ** ** * * *
2558661 AATTATTTGAATATGTTTTATTTGAAACAAATTTCATCTCCCTTGAGACAGTTTCTTTTGAAACT
66 AAATATTTGAATATATTCCACCTAAAACAAATTTCATCTCCCTTAAGACAGTTTCTCTTGAAACT
2558726 AAGTTTTA
131 AAGTTTTA
*
2558734 TCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACA
1 TCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACA
* * * **
2558799 AAATCTTTGAATTTATTCCCCCTAAAACAAATTTTGTCTCCCTTAAGACAGTTTCTCTTGAAAC
66 AAATATTTGAATATATTCCACCTAAAACAAATTTCATCTCCCTTAAGACAGTTTCTCTTGAAAC
2558863 ACAGAATCTT
Statistics
Matches: 111, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
138 111 1.00
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (138 bp):
TCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACA
AAATATTTGAATATATTCCACCTAAAACAAATTTCATCTCCCTTAAGACAGTTTCTCTTGAAACT
AAGTTTTA
Found at i:2558862 original size:65 final size:66
Alignment explanation
Indices: 2558758--2558931 Score: 210
Period size: 65 Copynumber: 2.6 Consensus size: 66
2558748 GTTTCTCTTG
* * * **
2558758 AAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAA-AATCTTTGAATTTATTCCCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAGAATCTTCAAATTTATTCCCCCT
2558822 A
66 A
* * *
2558823 AAACAAATTTTGTCTCCCTTAAGACAGTTTCTCTTGAAACACAGAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA-AGAATCTTCAAATTTATTCCCCC
2558888 TA
65 TA
* *
2558890 AAACAAAATTTTGTTTCCCTTGAGACCA-TTT-TCATGAAACAA
1 AAAC-AAATTTTGTCTCCCTTGAGA-CAGTTTCTCTTGAAACAA
2558932 CAGATATCTT
Statistics
Matches: 94, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
65 37 0.39
66 2 0.02
67 32 0.34
68 21 0.22
69 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (66 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAGAATCTTCAAATTTATTCCCCCT
A
Found at i:2559850 original size:110 final size:106
Alignment explanation
Indices: 2559641--2559900 Score: 317
Period size: 110 Copynumber: 2.4 Consensus size: 106
2559631 ATGAAGGGGC
* * * *
2559641 TTCCCAGTTTTAGAGCCAATTTTAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCT
1 TTCCCAGTTCTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCT
* * *
2559706 CAACTTCACAATGAAGGGGCGACTGATTGTCAACAAACAACT
66 CAACTTCACAACGAAAGGGCGACTGACTGTCAACAAACAA-T
* * *
2559748 TT-TCAGTCTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACA
1 TTCCCAGT-TC--T-AGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACA
* * * *
2559812 AGCTCAACTTCACAGCGAAAGGGTGGCTGGCTGTCAACAAACAAT
62 AGCTCAACTTCACAACGAAAGGGCGACTGACTGTCAACAAACAAT
*
2559857 TTCCCAGTTCTAGAGCCAATTTCAACTTCAC-GACGGAGGATATT
1 TTCCCAGTTCTAGAGCCAATTTCAACTTCACAG-CGAAGGATATT
2559901 AGACTTAGAA
Statistics
Matches: 130, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
105 1 0.01
106 33 0.25
107 4 0.03
109 6 0.05
110 86 0.66
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (106 bp):
TTCCCAGTTCTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCT
CAACTTCACAACGAAAGGGCGACTGACTGTCAACAAACAAT
Found at i:2560743 original size:11 final size:11
Alignment explanation
Indices: 2560727--2560754 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
2560717 ACAACCACAC
2560727 CAACAAACGTG
1 CAACAAACGTG
2560738 CAACAAACGTG
1 CAACAAACGTG
2560749 CAACAA
1 CAACAA
2560755 CCGAGCAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.29, G:0.14, T:0.07
Consensus pattern (11 bp):
CAACAAACGTG
Found at i:2561287 original size:27 final size:28
Alignment explanation
Indices: 2561216--2561292 Score: 79
Period size: 27 Copynumber: 2.8 Consensus size: 28
2561206 TATATATATA
*
2561216 TATATTTTATTATATTTTTTTATTTATT
1 TATATTATATTATATTTTTTTATTTATT
** *
2561244 TACTA-TAT-TCCTCTTTTTTTATTTATT
1 TA-TATTATATTATATTTTTTTATTTATT
*
2561271 TATATTATATTAT-TTTTATTAT
1 TATATTATATTATATTTTTTTAT
2561293 ATATATCTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
26 2 0.05
27 29 0.74
28 6 0.15
29 2 0.05
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (28 bp):
TATATTATATTATATTTTTTTATTTATT
Found at i:2561297 original size:2 final size:2
Alignment explanation
Indices: 2561290--2561356 Score: 102
Period size: 2 Copynumber: 34.0 Consensus size: 2
2561280 TTATTTTTAT
*
2561290 TA TA TA TA TC T- TA TA TCA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
2561331 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
2561357 GATGTATTAA
Statistics
Matches: 61, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
1 2 0.03
2 57 0.93
3 2 0.03
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2561487 original size:31 final size:29
Alignment explanation
Indices: 2561392--2561491 Score: 89
Period size: 31 Copynumber: 3.4 Consensus size: 29
2561382 TATGTATATA
*
2561392 TATTTTTTCTTAATATTATATTTTATAC--
1 TATTTTTTTTTAATATTATATTTT-TACTT
* **
2561420 -ATTTTTTTCTTAATATTCTATTTTTGTTTT
1 TATTTTTTT-TTAATATTATATTTTT-ACTT
*
2561450 TATTTATTTTTATATATTATATTTTTACTT
1 TATTTTTTTTTA-ATATTATATTTTTACTT
2561480 TATTTTATTTTT
1 TATTTT-TTTTT
2561492 TTTCTATTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
27 8 0.14
28 14 0.25
30 10 0.18
31 24 0.43
ACGTcount: A:0.23, C:0.05, G:0.01, T:0.71
Consensus pattern (29 bp):
TATTTTTTTTTAATATTATATTTTTACTT
Found at i:2561499 original size:16 final size:15
Alignment explanation
Indices: 2561441--2561501 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 15
2561431 AATATTCTAT
2561441 TTTTGTTTTTA-TTTA
1 TTTT-TTTTTATTTTA
* * *
2561456 TTTTTATATATTATA
1 TTTTTTTTTATTTTA
*
2561471 TTTTTACTTTATTTTA
1 TTTTT-TTTTATTTTA
2561487 TTTTTTTTCTATTTT
1 TTTTTTTT-TATTTT
2561502 TCTTAATATC
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
14 4 0.11
15 14 0.39
16 18 0.50
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.77
Consensus pattern (15 bp):
TTTTTTTTTATTTTA
Found at i:2561499 original size:58 final size:58
Alignment explanation
Indices: 2561392--2561502 Score: 138
Period size: 58 Copynumber: 1.9 Consensus size: 58
2561382 TATGTATATA
*
2561392 TATTTTTTCTTAATATTATATTTTATACATTTTTTTCTTAATATTCTATTTTTGTTTT
1 TATTTTTTCTTAATATTATATTTTATACATTTTTTTATTAATATTCTATTTTTGTTTT
** *
2561450 TATTTATTT-TTATATATTATATTTT-TAC-TTTATTTTATTTTTTTTCTATTTTT
1 TATTT-TTTCTTA-ATATTATATTTTATACATTT-TTTTATTAATATTCTATTTTT
2561503 CTTAATATCA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
57 3 0.07
58 28 0.61
59 15 0.33
ACGTcount: A:0.22, C:0.05, G:0.01, T:0.72
Consensus pattern (58 bp):
TATTTTTTCTTAATATTATATTTTATACATTTTTTTATTAATATTCTATTTTTGTTTT
Found at i:2561719 original size:11 final size:11
Alignment explanation
Indices: 2561703--2561729 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2561693 ATTTTGTTTA
2561703 ATTTTATTATT
1 ATTTTATTATT
2561714 ATTTTATTATT
1 ATTTTATTATT
2561725 ATTTT
1 ATTTT
2561730 TTACGTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
ATTTTATTATT
Found at i:2563579 original size:46 final size:46
Alignment explanation
Indices: 2563509--2563674 Score: 251
Period size: 46 Copynumber: 3.6 Consensus size: 46
2563499 TTTATGTCGT
* *
2563509 TAATGCACTGTTATGCATTTTCATTTGTGGCATCCATTCATGCCGA
1 TAATGCACCGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGA
* ** * *
2563555 TATTGCACCACTATGCATTTTCATTTGTGGCACCCTTTCATGCCCA
1 TAATGCACCGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGA
*
2563601 TAATGCACCGTTATGCATTTTCATTTGTGGCATCCTTTCATGCTGA
1 TAATGCACCGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGA
*
2563647 TAATGCATCGTTATGCATTTTCATTTGT
1 TAATGCACCGTTATGCATTTTCATTTGT
2563675 TCATTCATTT
Statistics
Matches: 106, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 106 1.00
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (46 bp):
TAATGCACCGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGA
Found at i:2577177 original size:2 final size:2
Alignment explanation
Indices: 2577170--2577212 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2577160 TCCTAAAGAT
2577170 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2577212 T
1 T
2577213 TAGAATCTAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2577439 original size:21 final size:21
Alignment explanation
Indices: 2577394--2577442 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
2577384 CCTTTTAGAG
*
2577394 TTAGAGTTTAGAATTTAGGAT
1 TTAGAGTTTAGAATTTAGGAC
2577415 TTAGAGTTTAGAATTTAAGG-C
1 TTAGAGTTTAGAATTT-AGGAC
2577436 TTAGAGT
1 TTAGAGT
2577443 ATGGGGTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.33, C:0.02, G:0.24, T:0.41
Consensus pattern (21 bp):
TTAGAGTTTAGAATTTAGGAC
Found at i:2580218 original size:36 final size:37
Alignment explanation
Indices: 2580170--2580244 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 37
2580160 GTTTAAACTT
* *
2580170 TTTTTTTGAATGATTCAGGTGTCTAACGTTACAAACG
1 TTTTTTTGAATGATTCAGATGCCTAACGTTACAAACG
2580207 TTTTTTT-AATGATTCAGATGCCTAACGTTACAAACG
1 TTTTTTTGAATGATTCAGATGCCTAACGTTACAAACG
2580243 TT
1 TT
2580245 ACAACTTTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 29 0.81
37 7 0.19
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (37 bp):
TTTTTTTGAATGATTCAGATGCCTAACGTTACAAACG
Found at i:2582315 original size:43 final size:42
Alignment explanation
Indices: 2582244--2582351 Score: 136
Period size: 43 Copynumber: 2.7 Consensus size: 42
2582234 CTAAAGATAA
* *
2582244 AATATTATTTATAT-TAT-AT-ATTAATATATAAATAATATT
1 AATATTATTTATATATATAATAAATATTATATAAATAATATT
2582283 AATATTATTTATATATATTAATAAATATTATATAAATAATATT
1 AATATTATTTATATATA-TAATAAATATTATATAAATAATATT
* *
2582326 AATA-TATCTATACATATAA-AAATATT
1 AATATTATTTATATATATAATAAATATT
2582352 TTCTTTTTCC
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
39 14 0.23
40 9 0.15
41 4 0.07
42 12 0.20
43 22 0.36
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (42 bp):
AATATTATTTATATATATAATAAATATTATATAAATAATATT
Found at i:2582324 original size:28 final size:24
Alignment explanation
Indices: 2582254--2582316 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 24
2582244 AATATTATTT
2582254 ATATTATATATTAATATATAAATA
1 ATATTATATATTAATATATAAATA
*
2582278 ATATTAATATTATTTATATATATTAATAA
1 ATATT-ATA-TA-TTA-ATATATAAAT-A
2582307 ATATTATATA
1 ATATTATATA
2582317 AATAATATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
24 5 0.15
25 3 0.09
26 2 0.06
27 5 0.15
28 12 0.36
29 6 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
ATATTATATATTAATATATAAATA
Found at i:2582329 original size:9 final size:9
Alignment explanation
Indices: 2582244--2582329 Score: 60
Period size: 9 Copynumber: 10.1 Consensus size: 9
2582234 CTAAAGATAA
*
2582244 AATATTATT
1 AATATTAAT
*
2582253 TATATT-AT
1 AATATTAAT
2582261 -ATATTAAT
1 AATATTAAT
*
2582269 -ATATAAAT
1 AATATTAAT
2582277 AATATTAAT
1 AATATTAAT
* *
2582286 ATTATTTAT
1 AATATTAAT
2582295 ATATATTAAT
1 A-ATATTAAT
2582305 AAATATT-AT
1 -AATATTAAT
2582314 -ATA--AAT
1 AATATTAAT
2582320 AATATTAAT
1 AATATTAAT
2582329 A
1 A
2582330 TATCTATACA
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
6 2 0.03
7 11 0.18
8 10 0.16
9 26 0.43
10 11 0.18
11 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
AATATTAAT
Found at i:2582331 original size:34 final size:36
Alignment explanation
Indices: 2582258--2582332 Score: 91
Period size: 34 Copynumber: 2.1 Consensus size: 36
2582248 TTATTTATAT
* * *
2582258 TATATATTAATATATAAATAATATTAATATTATTTA
1 TATATATTAATATATAAATAATATAAATAATATTAA
* *
2582294 TATATATTAATA-A-ATATTATATAAATAATATTAA
1 TATATATTAATATATAAATAATATAAATAATATTAA
2582328 TATAT
1 TATAT
2582333 CTATACATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 21 0.62
35 1 0.03
36 12 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (36 bp):
TATATATTAATATATAAATAATATAAATAATATTAA
Found at i:2587577 original size:22 final size:22
Alignment explanation
Indices: 2587552--2587595 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
2587542 ATTAATATAG
* *
2587552 AATAAAATAAAATAACATAAAA
1 AATAAAACAAAATAAAATAAAA
**
2587574 AATAGGACAAAATAAAATAAAA
1 AATAAAACAAAATAAAATAAAA
2587596 TAAAGATATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.16
Consensus pattern (22 bp):
AATAAAACAAAATAAAATAAAA
Found at i:2587578 original size:27 final size:27
Alignment explanation
Indices: 2587548--2587599 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
2587538 AATTATTAAT
* *
2587548 ATAGAATAAAATAAAATAACATAAAAA
1 ATAGAACAAAATAAAATAAAATAAAAA
*
2587575 ATAGGACAAAATAAAATAAAATAAA
1 ATAGAACAAAATAAAATAAAATAAA
2587600 GATATTGCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.73, C:0.04, G:0.06, T:0.17
Consensus pattern (27 bp):
ATAGAACAAAATAAAATAAAATAAAAA
Found at i:2589283 original size:3 final size:3
Alignment explanation
Indices: 2589277--2589347 Score: 106
Period size: 3 Copynumber: 23.0 Consensus size: 3
2589267 AAGTAATTAG
2589277 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
2589325 AAC AAT AATT AACA AAT AAT AAT
1 AAT AAT AA-T AA-T AAT AAT AAT
2589348 TAACAAATAA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
3 57 0.92
4 5 0.08
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Done.