Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 83 of 284
Found at i:27708738 original size:43 final size:42
Alignment explanation
Indices: 27708645--27708875 Score: 171
Period size: 43 Copynumber: 5.4 Consensus size: 42
27708635 ATTTTTGGTC
* * *
27708645 AAAGCGCCGCTAAAGATTAGGGTCTTTTGCGGCGTTTGTGGAA-
1 AAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGT--AAT
* *
27708688 AAGGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTAAT
1 AAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTAAT
* * * **
27708730 GAAAGCGCCGCTAAAGACCCCTGATCTTTAGCGGCGCTTATCCCAA-
1 -AAAGCGCCGCTAAAGA-TCATGGTCTTTAGCGGCG-TT-T-GTAAT
* * * * *
27708776 AAA-TGCCGCTAAAGATCAGGGTCTTTAGCGGCGCTTCTACT
1 AAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTAAT
* * ** * **
27708817 AAAGCGCCGCTAAAGGTCTTATTCTTCAGCGGCGTTTGTGCT
1 AAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTAAT
27708859 AGAAGCGCCGCTAAAGA
1 A-AAGCGCCGCTAAAGA
27708876 CCAACACCTT
Statistics
Matches: 148, Mismatches: 31, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
40 2 0.01
41 6 0.04
42 30 0.20
43 76 0.51
44 26 0.18
45 5 0.03
46 1 0.01
47 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (42 bp):
AAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTAAT
Found at i:27711689 original size:124 final size:125
Alignment explanation
Indices: 27711418--27711791 Score: 642
Period size: 124 Copynumber: 3.0 Consensus size: 125
27711408 AGGGGTTTTA
* ** * *
27711418 GGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGATCAAATAATATAAAATCGCTTCTAGCAG
1 GGTCATGGAAGAAATAATTTCTTG-TGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAG
27711483 GATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTC
65 GATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTC
* * *
27711544 GGTCATGGAAGAAATAGTTTCTTGTGACGTTTGTGAGCAAATAGTATAAAATCGCTTCTAGTAGG
1 GGTCATGGAAGAAATAATTTCTTGTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGG
27711609 ATGCTATTTGAGAAGAATTTGT-AAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTC
66 ATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTC
*
27711668 GGTCATGGAAGAAATAATTTCTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGG
1 GGTCATGGAAGAAATAATTTCTTGTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGG
*
27711733 ATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
66 ATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGT
27711792 AGCATGTTTG
Statistics
Matches: 234, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
124 120 0.51
125 94 0.40
126 20 0.09
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (125 bp):
GGTCATGGAAGAAATAATTTCTTGTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGG
ATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTC
Found at i:27714983 original size:17 final size:17
Alignment explanation
Indices: 27714916--27714983 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
27714906 TATGTGAATG
*
27714916 TAAAATTATTAATT-GA
1 TAAAATTATTAATTATA
* *
27714932 TAAATTGTATTAATGATTA
1 TAAAAT-TATTAATTA-TA
*
27714951 GTAAAATTATCAAATTATA
1 -TAAAATTAT-TAATTATA
27714970 TAAAATTATTAATT
1 TAAAATTATTAATT
27714984 GTTAGTACCA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
16 5 0.12
17 11 0.28
18 9 0.22
19 6 0.15
20 9 0.22
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (17 bp):
TAAAATTATTAATTATA
Found at i:27715008 original size:117 final size:115
Alignment explanation
Indices: 27714801--27715045 Score: 402
Period size: 115 Copynumber: 2.1 Consensus size: 115
27714791 TAAGTTTGTG
*
27714801 AAATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAAATTATCAAATTATATAAAATTATTA
1 AAATTATTAATTGATAAATTGTATTAATGATTAGT-AAAAATTATCAAATTATATAAAATTATTA
* * * *
27714866 ATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
65 ATTGTTAGTACCAG-AAAAAAAATTTTCCAAATCTAACATTATGTGAAAGTA
27714918 AAATTATTAATTGATAAATTGTATTAATGATTAGT-AAAATTATCAAATTATATAAAATTATTAA
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATTATCAAATTATATAAAATTATTAA
27714982 TTGTTAGTACCAGGAAAAAATAATTTTCCAAATCTAACATTATGTGAAAGTA
66 TTGTTAGTACCA-GAAAAAA-AATTTTCCAAATCTAACATTATGTGAAAGTA
27715034 AAATTATTAATT
1 AAATTATTAATT
27715046 TAGTTTAGGG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
115 45 0.37
116 42 0.35
117 34 0.28
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (115 bp):
AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATTATCAAATTATATAAAATTATTAA
TTGTTAGTACCAGAAAAAAAATTTTCCAAATCTAACATTATGTGAAAGTA
Found at i:27715232 original size:38 final size:41
Alignment explanation
Indices: 27715096--27715314 Score: 171
Period size: 45 Copynumber: 5.0 Consensus size: 41
27715086 GTTTAGGGTT
*
27715096 TAGGATTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTTTAAGTTAA
1 TAGG-TTTAGGGTTTTTAATTAAATTAGGTTAGGG--TTT---TTAA
**
27715143 TTAGG-TTAGGGTTTTTAAGTT-AA-GGGGTT-GGGATTTTTAAA
1 -TAGGTTTAGGGTTTTTAA-TTAAATTAGGTTAGGG-TTTTT-AA
27715184 TTTAGGGTTTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAA
1 --TA-GGTTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAA
27715228 GTTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA
1 ---TA-GGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA
27715273 GTTTAAGGTTTAGGG-TTTTAATTAAATTAGGTTAGGGTTTTT
1 ---T-AGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTT
27715315 TATTTAATTA
Statistics
Matches: 155, Mismatches: 6, Indels: 24
0.84 0.03 0.13
Matches are distributed among these distances:
40 2 0.01
41 2 0.01
42 3 0.02
43 5 0.03
44 52 0.34
45 66 0.43
46 19 0.12
47 2 0.01
48 4 0.03
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (41 bp):
TAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA
Found at i:27715316 original size:68 final size:65
Alignment explanation
Indices: 27715102--27716158 Score: 722
Period size: 68 Copynumber: 15.6 Consensus size: 65
27715092 GGTTTAGGAT
* *
27715102 TTAGGGTTTTTAATTAAATTAAGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTT-AA
1 TTAGGGTTTTTAATT-AATTAGGTTAAGGTTTTTAA-TT-ATTAGGTTAGGG-TTTTAA-TTAAA
**
27715166 -GGGG
61 TTAGG
* *
27715170 TT-GGGATTTTTAA--ATTTAGGGTTTAGGGTTTTTAAGTTAATTAGGTTAGGG-TTT--TTAAG
1 TTAGGG-TTTTTAATTAATTA-GG-TTAAGGTTTTTAA-TT-ATTAGGTTAGGGTTTTAATTAA-
*
27715229 TTTAGGG
60 ATTA-GG
* *
27715236 TTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTT-TAAGGTTTAGGGTTTTAATTAAAT
1 -TTAGGGTTTTTAATT-AATTAGGTTAAGGTTTTTAA-TTATTAGG-TTAGGGTTTTAATTAAAT
27715300 TAGG
62 TAGG
* * *
27715304 TTAGGGTTTTTTATTTAATTAGGTTAAGGTTTTTAAGT-TTAGGGTTTAGGATTTTTAATTAAAT
1 TTAGGG-TTTTTAATTAATTAGGTTAAGGTTTTTAATTATTA-GG-TTAGG-GTTTTAATTAAAT
27715368 TAGG
62 TAGG
* *
27715372 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAAGGTTTTTAAGTT-AA
1 TTAGGGTTTTTAA-TTAATTAGGTTAAGGTTTTTAA-TT-ATTAGGTT-AGGGTTTTAA-TTAAA
***
27715436 GGGGG
61 TTAGG
*** *
27715441 TTAGGGTTTTTAAGTTAATTAGGTTAAGGTTTTTAAGTTAAGCGGGTTAGGG-TTT--TTAAGTT
1 TTAGGGTTTTTAA-TTAATTAGGTTAAGGTTTTTAA-TT-ATTAGGTTAGGGTTTTAATTAA-AT
27715503 TAGAG
62 TAG-G
* * *
27715508 TTTAGGGTTTTTAATTTAATTAGTTTAGGGGTTTTAATTTAATTAGGTTAGGG-TTT--TTAAGA
1 -TTAGGGTTTTTAA-TTAATTAGGTTAAGGTTTTTAA-TT-ATTAGGTTAGGGTTTTAATTAA-A
27715570 TTAGGG
61 TTA-GG
* *
27715576 TTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAA
1 -TTAGGGTTTTTAATT-AATTAGGTTAAGGTTTTTAATT--ATTAGGTTAGGG-TTTTAATTAAA
*
27715641 TTGGG
61 TTAGG
* *
27715646 TTAGGGTTTTTAAGT--TTAGGGTTTAAGGTTTTTAATTAAATTAGGTTAGGATTTTTAATTAAA
1 TTAGGGTTTTTAATTAATTA-GG-TTAAGGTTTTTAATT--ATTAGGTTAGG-GTTTTAATTAAA
27715709 TTAGG
61 TTAGG
* * *
27715714 TTAGGGTTTTGAGTTAATTAGGTTAAGGTTTTTAAGT-TTAGGGTTTAGGGTTTTTAATTAAATT
1 TTAGGGTTTTTAATTAATTAGGTTAAGGTTTTTAATTATTA-GG-TTAGGG-TTTTAATTAAATT
*
27715778 GGG
63 AGG
* *
27715781 TTAGGGTTTTTAAGT--TTAGGGTTTAAGGTTTTTAATTAAATTAGGTTAGGGTTTCTAAGT---
1 TTAGGGTTTTTAATTAATTA-GG-TTAAGGTTTTTAATT--ATTAGGTTAGGGTTT-TAATTAAA
27715841 TTAGGG
61 TTA-GG
* *
27715847 TTTAAGGTTTTTAATTAAATTAGGTT-AGAGTTTTTAATTAAATTAGGTTAGAGTTTTTAATTAA
1 -TTAGGGTTTTTAATT-AATTAGGTTAAG-GTTTTTAATT--ATTAGGTTAG-GGTTTTAATTAA
27715911 ATTAGG
60 ATTAGG
* * * *
27715917 TTAGGGTTTTTAAGTTCA--GGGTTTAAGGTTTTTAATTAAATTAGGTTAGAGTTTTTAATTTAA
1 TTAGGGTTTTTAA-TTAATTAGG-TTAAGGTTTTTAATT--ATTAGGTTAG-GGTTTTAATTAAA
27715980 TTAGG
61 TTAGG
* * * *
27715985 TTAGGGTTTTTAAGTTCA--GGGTTTAAGGTTTTTAATTAAATTAGGTTAGAGTTTTTAATTTAA
1 TTAGGGTTTTTAA-TTAATTAGG-TTAAGGTTTTTAATT--ATTAGGTTAG-GGTTTTAATTAAA
27716048 TTAGG
61 TTAGG
* * ** *
27716053 TTAGGGTTTTTAAGTTAATTAAGTTAGGGTTTTTAAGTTAAAAGGGTTAGGG-TTT--TTAAGTT
1 TTAGGGTTTTTAA-TTAATTAGGTTAAGGTTTTTAA-TTATTA-GGTTAGGGTTTTAATTAA-AT
27716115 TAGGG
62 TA-GG
*
27716120 TTTAAGGTTTTTAATTAAATTAGGTTAAGGTTTTTAATT
1 -TTAGGGTTTTTAATT-AATTAGGTTAAGGTTTTTAATT
27716159 TAAGGGTATT
Statistics
Matches: 839, Mismatches: 79, Indels: 143
0.79 0.07 0.13
Matches are distributed among these distances:
62 2 0.00
63 1 0.00
64 2 0.00
65 19 0.02
66 23 0.03
67 171 0.20
68 453 0.54
69 120 0.14
70 36 0.04
71 9 0.01
72 3 0.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.48
Consensus pattern (65 bp):
TTAGGGTTTTTAATTAATTAGGTTAAGGTTTTTAATTATTAGGTTAGGGTTTTAATTAAATTAGG
Found at i:27715403 original size:91 final size:90
Alignment explanation
Indices: 27715102--27716160 Score: 733
Period size: 91 Copynumber: 11.7 Consensus size: 90
27715092 GGTTTAGGAT
* * * *
27715102 TTAGGGTTTTTAATTAAATTAAG-TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGTTA
1 TTAGGGTTTTTAATTTAATTAGGTTTAGGGTTTTTAA-TTAAATTAGGTTAAGGTTTTTAAGTTT
*
27715165 AGGGGTT-GGGATTTTT-A--AATTTAGGG
65 A--GGTTAGGG-TTTTTAATTAAATTA-GG
* * * *
27715191 TTTAGGGTTTTTAAGTTAATTAGG-TTAGGGTTTTTAAGT---TTAGGGTTTAGGGTTTTTAATT
1 -TTAGGGTTTTTAATTTAATTAGGTTTAGGGTTTTTAATTAAATTA-GG-TTAAGGTTTTTAAGT
*
27715252 AAATTAGGTTAGGGTTTTTAAGTT---TAAGG
63 ---TTAGGTTAGGGTTTTTAA-TTAAATTAGG
* * *
27715281 TTTAGGG-TTTTAATTAAATTAGG-TTAGGGTTTTTTATTTAATTAGGTTAAGGTTTTTAAGTTT
1 -TTAGGGTTTTTAATTTAATTAGGTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTTTTAAGTTT
*
27715344 AGGGTTTAGGATTTTTAATTAAATTAGG
65 A-GG-TTAGGGTTTTTAATTAAATTAGG
*
27715372 TTAGGGTTTTTAATTTAATTAGG-TTAGGGTTTTTAAGTT-AATTAGGTTAAGGTTTTTAAGTTA
1 TTAGGGTTTTTAATTTAATTAGGTTTAGGGTTTTTAA-TTAAATTAGGTTAAGGTTTTTAAGTTT
27715435 AGGGGGTTAGGGTTTTTAAGTT-AATTAGG
65 A---GGTTAGGGTTTTTAA-TTAAATTAGG
* * ** * * * *
27715464 TTAAGGTTTTTAAGTTAA-GCGGGTTAGGGTTTTTAAGT---TTAGAGTTTAGGGTTTTTAATTT
1 TTAGGGTTTTTAATTTAATTAGGTTTAGGGTTTTTAATTAAATTAG-G-TTAAGGTTTTTAA-GT
* * *
27715525 AATTAGTTTAGGGGTTTTAATTTAATTAGG
63 --TTAGGTTAGGGTTTTTAATTAAATTAGG
* * *
27715555 TTAGGGTTTTTAA---GATTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAA
1 TTAGGGTTTTTAATTTAATTA-GGTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTTTTAAGT--
* *
27715617 ATTAGGTTAGGGTTTTTAATTTAATTGGG
63 -TTAGGTTAGGGTTTTTAATTAAATTAGG
* * *
27715646 TTAGGGTTTTTAAGTTT-A--GGGTTTAAGGTTTTTAATTAAATTAGGTT-AGGATTTTTAATTA
1 TTAGGGTTTTTAA-TTTAATTAGGTTTAGGGTTTTTAATTAAATTAGGTTAAGG-TTTTTAAGT-
* *
27715707 AATTAGGTTAGGGTTTTGAGTT-AATTAGG
63 --TTAGGTTAGGGTTTTTAATTAAATTAGG
* * * *
27715736 TTAAGGTTTTTAAGTTT-A--GGGTTTAGGGTTTTTAATTAAATTGGGTTAGGGTTTTTAAGTTT
1 TTAGGGTTTTTAA-TTTAATTAGGTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTTTTAAGTTT
*
27715798 AGGGTTTAAGGTTTTTAATTAAATTAGG
65 A-GG-TTAGGGTTTTTAATTAAATTAGG
* * * *
27715826 TTAGGGTTTCTAAGTTT-A--GGGTTTAAGGTTTTTAATTAAATTAGGTT-AGAGTTTTTAATTA
1 TTAGGGTTTTTAA-TTTAATTAGGTTTAGGGTTTTTAATTAAATTAGGTTAAG-GTTTTTAAGT-
*
27715887 AATTAGGTTAGAGTTTTTAATTAAATTAGG
63 --TTAGGTTAGGGTTTTTAATTAAATTAGG
* * * * *
27715917 TTAGGGTTTTTAAGTTCA--GGGTTTAAGGTTTTTAATTAAATTAGGTT-AGAGTTTTTAATTTA
1 TTAGGGTTTTTAATTTAATTAGGTTTAGGGTTTTTAATTAAATTAGGTTAAG-GTTTTTAA-GT-
* *
27715979 ATTAGGTTAGGGTTTTTAAGTT-CA--GGG
63 -TTAGGTTAGGGTTTTTAA-TTAAATTAGG
* * * * *
27716006 TTTAAGGTTTTTAATTAAATTAGG-TTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTA
1 -TTAGGGTTTTTAATTTAATTAGGTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTTTTAAG-T-
*
27716070 ATTAAGTTAGGGTTTTTAAGTTAAA--AGGG
63 -TTAGGTTAGGGTTTTTAA-TTAAATTA-GG
* *
27716099 TTAGGGTTTTTAAGTTT-A--GGGTTTAAGGTTTTTAATTAAATTAGGTTAAGGTTTTTAA-TTT
1 TTAGGGTTTTTAA-TTTAATTAGGTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTTTTAAGTTT
27716160 A
65 A
27716161 AGGGTATTAA
Statistics
Matches: 823, Mismatches: 85, Indels: 125
0.80 0.08 0.12
Matches are distributed among these distances:
87 12 0.01
88 9 0.01
89 74 0.09
90 228 0.28
91 401 0.49
92 80 0.10
93 16 0.02
94 3 0.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.48
Consensus pattern (90 bp):
TTAGGGTTTTTAATTTAATTAGGTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTTTTAAGTTTA
GGTTAGGGTTTTTAATTAAATTAGG
Found at i:27715412 original size:28 final size:23
Alignment explanation
Indices: 27715039--27716158 Score: 924
Period size: 23 Copynumber: 49.1 Consensus size: 23
27715029 AAGTAAAATT
* *
27715039 ATTAATTTAGTTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
27715062 ATTAAATTAGGTTAGAGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
**
27715085 AGTTTAGGGTTTAGGATTTAGGGTTTTTA
1 A--TTA--AATTAGG--TTAGGGTTTTTA
*
27715114 ATTAAATTAAGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
27715137 AGTT-AATTAGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
**
27715160 AGTT-AA-GGGGTT-GGGATTTTT-
1 A-TTAAATTAGGTTAGGG-TTTTTA
*
27715181 A--AATTTAGGGTTTAGGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
27715204 AGTT-AATTAGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
*
27715227 AGT---TTAGGGTTTAGGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
27715249 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
27715272 AGTT---TAAGGTTTAGGG-TTTTA
1 A-TTAAATTAGG-TTAGGGTTTTTA
*
27715293 ATTAAATTAGGTTAGGGTTTTTT
1 ATTAAATTAGGTTAGGGTTTTTA
* *
27715316 ATTTAATTAGGTTAAGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
27715339 AGT---TTAGGGTTTAGGATTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
27715361 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
27715384 ATTTAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
27715407 AGTT-AATTAGGTTAAGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
***
27715430 AGTT-AAGGGGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
*
27715453 AGTT-AATTAGGTTAAGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
***
27715476 AGTT-AAGCGGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
*
27715499 AGT---TTAGAGTTTAGGGTTTTTA
1 ATTAAATTAG-G-TTAGGGTTTTTA
* * *
27715521 ATTTAATTAGTTTAGGGGTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
27715544 ATTTAATTAGGTTAGGGTTTTT-
1 ATTAAATTAGGTTAGGGTTTTTA
*
27715566 A--AGATTAGGGTTTAGGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
27715589 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
27715612 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
27715635 ATTTAATTGGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
27715658 AGT---TTAGGGTTTAAGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
*
27715680 ATTAAATTAGGTTAGGATTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
27715703 ATTAAATTAGGTTAGGGTTTTGA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
27715726 GTT-AATTAGGTTAAGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
27715748 AGT---TTAGGGTTTAGGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
*
27715770 ATTAAATTGGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
27715793 AGT---TTAGGGTTTAAGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
*
27715815 ATTAAATTAGGTTAGGGTTTCTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
27715838 AGT---TTAGGGTTTAAGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
*
27715860 ATTAAATTAGGTTAGAGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
27715883 ATTAAATTAGGTTAGAGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
27715906 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* * *
27715929 AGTT-CA--GGGTTTAAGGTTTTTA
1 A-TTAAATTAGG-TTAGGGTTTTTA
*
27715951 ATTAAATTAGGTTAGAGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
27715974 ATTTAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* * *
27715997 AGTT-CA--GGGTTTAAGGTTTTTA
1 A-TTAAATTAGG-TTAGGGTTTTTA
*
27716019 ATTAAATTAGGTTAGAGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
27716042 ATTTAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
27716065 AGTT-AATTAAGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
27716088 AGTTAAA--AGGGTTAGGGTTTTTA
1 A-TTAAATTA-GGTTAGGGTTTTTA
* *
27716111 AGT---TTAGGGTTTAAGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
*
27716133 ATTAAATTAGGTTAAGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
27716156 ATT
1 ATT
27716159 TAAGGGTATT
Statistics
Matches: 905, Mismatches: 109, Indels: 166
0.77 0.09 0.14
Matches are distributed among these distances:
19 1 0.00
20 23 0.03
21 43 0.05
22 192 0.21
23 550 0.61
24 36 0.04
25 40 0.04
27 8 0.01
29 12 0.01
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.48
Consensus pattern (23 bp):
ATTAAATTAGGTTAGGGTTTTTA
Found at i:27716170 original size:23 final size:23
Alignment explanation
Indices: 27716103--27716170 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
27716093 AAAGGGTTAG
27716103 GGTTTTTAAGTTT-AGGGT-TTAA
1 GGTTTTTAA-TTTAAGGGTATTAA
**
27716125 GGTTTTTAA-TTAA-ATTAGGTTAA
1 GGTTTTTAATTTAAGGGTA--TTAA
27716148 GGTTTTTAATTTAAGGGTATTAA
1 GGTTTTTAATTTAAGGGTATTAA
27716171 TGGGTAGTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 11
0.71 0.08 0.22
Matches are distributed among these distances:
20 3 0.08
21 1 0.03
22 9 0.25
23 17 0.47
24 4 0.11
25 2 0.06
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (23 bp):
GGTTTTTAATTTAAGGGTATTAA
Found at i:27716234 original size:25 final size:25
Alignment explanation
Indices: 27716204--27716301 Score: 180
Period size: 25 Copynumber: 3.9 Consensus size: 25
27716194 TATCAAAAAT
27716204 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
27716229 TTCTATTTTATTACATCAAATAATA-
1 TTCTATTTTATTACATCAAATAA-AC
27716254 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
27716279 TTCTATTTTATTACATCAAATAA
1 TTCTATTTTATTACATCAAATAA
27716302 TATTAAAATA
Statistics
Matches: 71, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
24 1 0.01
25 69 0.97
26 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.46
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:27716259 original size:50 final size:50
Alignment explanation
Indices: 27716195--27716305 Score: 208
Period size: 50 Copynumber: 2.3 Consensus size: 50
27716185 CTCAAATAAT
27716195 ATCAAA-AAT-TTCTATTTTATTACATCAAATAAACTTCTATTTTATTAC
1 ATCAAATAATATTCTATTTTATTACATCAAATAAACTTCTATTTTATTAC
27716243 ATCAAATAATATTCTATTTTATTACATCAAATAAACTTCTATTTTATTAC
1 ATCAAATAATATTCTATTTTATTACATCAAATAAACTTCTATTTTATTAC
27716293 ATCAAATAATATT
1 ATCAAATAATATT
27716306 AAAATATTCA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
48 6 0.10
49 3 0.05
50 52 0.85
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (50 bp):
ATCAAATAATATTCTATTTTATTACATCAAATAAACTTCTATTTTATTAC
Found at i:27717431 original size:7 final size:7
Alignment explanation
Indices: 27717419--27717443 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
27717409 TTATATAAAT
27717419 AATACTA
1 AATACTA
27717426 AATACTA
1 AATACTA
27717433 AATACTA
1 AATACTA
27717440 AATA
1 AATA
27717444 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:27717628 original size:20 final size:20
Alignment explanation
Indices: 27717591--27717628 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27717581 TTTATTTTTA
*
27717591 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
27717611 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
27717629 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:27718548 original size:12 final size:11
Alignment explanation
Indices: 27718523--27718564 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
27718513 ATTTTTACGG
*
27718523 TTTAAAAAAAT
1 TTTAAAAATAT
27718534 TTTAAAAATATT
1 TTTAAAAATA-T
*
27718546 TTTAAAATTAT
1 TTTAAAAATAT
27718557 TTTAAAAA
1 TTTAAAAA
27718565 AGGGAGTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TTTAAAAATAT
Found at i:27718604 original size:21 final size:22
Alignment explanation
Indices: 27718562--27718604 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
27718552 ATTATTTTAA
* *
27718562 AAAAGGGAGTTAAGAGGAATTT
1 AAAAGGAACTTAAGAGGAATTT
27718584 AAAAGGAACTTAAGA-GAATTT
1 AAAAGGAACTTAAGAGGAATTT
27718605 TTGAAGGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.49, C:0.02, G:0.26, T:0.23
Consensus pattern (22 bp):
AAAAGGAACTTAAGAGGAATTT
Found at i:27723083 original size:23 final size:23
Alignment explanation
Indices: 27723057--27723175 Score: 148
Period size: 23 Copynumber: 5.2 Consensus size: 23
27723047 ATAAGTGCCA
*
27723057 CACTGATATGTAGCCGAAGTTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
27723080 CACTGATACGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * * *
27723103 CACTAAAATGTTGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
27723126 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
27723149 CATTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
27723172 CACT
1 CACT
27723176 AATCAATAAC
Statistics
Matches: 78, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 78 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:27723144 original size:46 final size:46
Alignment explanation
Indices: 27723064--27723175 Score: 170
Period size: 46 Copynumber: 2.4 Consensus size: 46
27723054 CCACACTGAT
*
27723064 ATGTAGCCGAAGTTACCACTGATACGTAGCCGTAGCTACCACTAAA
1 ATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTACCACTAAA
* * * * *
27723110 ATGTTGCTGAAGCTACCACTGATATGTAGCCGTAGCTACCATTGAA
1 ATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTACCACTAAA
27723156 ATGTAGCCGAAGCTACCACT
1 ATGTAGCCGAAGCTACCACT
27723176 AATCAATAAC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 58 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (46 bp):
ATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTACCACTAAA
Found at i:27723192 original size:69 final size:68
Alignment explanation
Indices: 27723057--27723192 Score: 148
Period size: 69 Copynumber: 2.0 Consensus size: 68
27723047 ATAAGTGCCA
* * * ** **
27723057 CACTGATATGTAGCCGAAGTTACCACTGATACGTAGCCGTAGCTACCACTAAAATGTTGCTGAAG
1 CACTGATATGTAGCCGAAGCTACCACTGAAACGTAGCCGAAGCTACCACTAAAA-GTAACACAAG
27723122 CTAC
65 CTAC
* * *
27723126 CACTGATATGTAGCCGTAGCTACCATTGAAATGTAGCCGAAGCTACCACTAATCAA-TAACACAA
1 CACTGATATGTAGCCGAAGCTACCACTGAAACGTAGCCGAAGCTACCACTAA--AAGTAACACAA
27723190 GCT
64 GCT
27723193 GTTAGGTATC
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
69 53 0.96
71 2 0.04
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (68 bp):
CACTGATATGTAGCCGAAGCTACCACTGAAACGTAGCCGAAGCTACCACTAAAAGTAACACAAGC
TAC
Found at i:27725065 original size:11 final size:11
Alignment explanation
Indices: 27725051--27725088 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
27725041 ATTGTTTGAT
27725051 TTTTATAGAAA
1 TTTTATAGAAA
*
27725062 TTTTACAGAAA
1 TTTTATAGAAA
27725073 TTTTATAGAAA
1 TTTTATAGAAA
27725084 TTTTA
1 TTTTA
27725089 ATACAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (11 bp):
TTTTATAGAAA
Found at i:27728542 original size:18 final size:18
Alignment explanation
Indices: 27728519--27728566 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
27728509 AAAATTTGAG
* *
27728519 AAATGATGTTCATATTTT
1 AAATGATGTTCACATTTC
27728537 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
27728555 AAATGATGTTCA
1 AAATGATGTTCA
27728567 AATTGATGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:27729091 original size:72 final size:72
Alignment explanation
Indices: 27728991--27729162 Score: 260
Period size: 72 Copynumber: 2.4 Consensus size: 72
27728981 AACAACAATG
* * *
27728991 CTAAA-CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTGTACTT
1 CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTATACTT
27729055 ATTTATGA
66 ATTTAT-A
* *
27729063 GT-AATCTAGTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTATACTT
1 CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTATACTT
27729127 ATTTATA
66 ATTTATA
*
27729134 CTAAAT-TAATTTTATCAATAGTTGTTTAT
1 CTAAATCTAGTTTTATCAATAGTTGTTTAT
27729163 ATATGATTTT
Statistics
Matches: 90, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
71 25 0.28
72 65 0.72
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.53
Consensus pattern (72 bp):
CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTATACTT
ATTTATA
Found at i:27743973 original size:30 final size:31
Alignment explanation
Indices: 27743934--27743993 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
27743924 GGAGGTGAGA
*
27743934 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
27743965 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
27743994 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:27744221 original size:9 final size:9
Alignment explanation
Indices: 27744207--27744252 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
27744197 TATAGTTTGA
27744207 TATTCGAAT
1 TATTCGAAT
*
27744216 TATTCGAGT
1 TATTCGAAT
27744225 TATTCGAAT
1 TATTCGAAT
*
27744234 TATTCGAGT
1 TATTCGAAT
27744243 TATTCGAAT
1 TATTCGAAT
27744252 T
1 T
27744253 CGAAAACTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:27744230 original size:18 final size:18
Alignment explanation
Indices: 27744207--27744252 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
27744197 TATAGTTTGA
27744207 TATTCGAATTATTCGAGT
1 TATTCGAATTATTCGAGT
27744225 TATTCGAATTATTCGAGT
1 TATTCGAATTATTCGAGT
27744243 TATTCGAATT
1 TATTCGAATT
27744253 CGAAAACTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (18 bp):
TATTCGAATTATTCGAGT
Found at i:27744322 original size:9 final size:9
Alignment explanation
Indices: 27744305--27744335 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
27744295 TCGAGTTGAT
27744305 TCGAATAAC
1 TCGAATAAC
*
27744314 TCGATTAAC
1 TCGAATAAC
27744323 TCGAATAAC
1 TCGAATAAC
27744332 TCGA
1 TCGA
27744336 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:27747750 original size:15 final size:15
Alignment explanation
Indices: 27747712--27747761 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
27747702 ATGTATGTAT
27747712 ATGATAATAAGAAG-A
1 ATGATAATAA-AAGAA
27747727 A-GA-AATAAAATGAA
1 ATGATAATAAAA-GAA
27747741 AT-ATAATAAAAGAA
1 ATGATAATAAAAGAA
27747755 ATGATAA
1 ATGATAA
27747762 GAAAGTGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
12 2 0.07
13 6 0.20
14 10 0.33
15 12 0.40
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.20
Consensus pattern (15 bp):
ATGATAATAAAAGAA
Found at i:27750016 original size:22 final size:22
Alignment explanation
Indices: 27749985--27750026 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
27749975 ATAAAATAAT
27749985 ATCTTATAAT-AGAATAAAAGG
1 ATCTTATAATAAGAATAAAAGG
*
27750006 ATCTATATAATAAGATTAAAA
1 ATCT-TATAATAAGAATAAAA
27750027 AAAATAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 6 0.33
23 8 0.44
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.31
Consensus pattern (22 bp):
ATCTTATAATAAGAATAAAAGG
Found at i:27750068 original size:19 final size:17
Alignment explanation
Indices: 27750026--27750069 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
27750016 TAAGATTAAA
*
27750026 AAAAATAAAAGACTAAT
1 AAAAATAAAAGACCAAT
*
27750043 AATAATAATAATGACCAAT
1 AAAAATAA-AA-GACCAAT
27750062 AAAAATAA
1 AAAAATAA
27750070 CAATAAATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (17 bp):
AAAAATAAAAGACCAAT
Found at i:27752037 original size:128 final size:128
Alignment explanation
Indices: 27751495--27751998 Score: 828
Period size: 128 Copynumber: 3.9 Consensus size: 128
27751485 GCAACGTCCC
* * * * *
27751495 GGAGATAGGATTTGTGGCTTAAATATGTTTCCCTACTCTTGAAGATAAGATTCACCGTCTCCGAT
1 GGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGAT
* *
27751560 CTCCTCCGCTACTGCTTAGGGAGATAAGATCTGTGATTTCCAACCTATTCCACTGCTGACCAG
66 CTCCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAG
* * *
27751623 GGAGATAGGACTTGTGGCTTAAATCTGTTTCCTTACTCTTGAAGATAAGATTCGCCGTATTCGAT
1 GGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGAT
* * * *
27751688 ATGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTTCAACCTATTCCACTGCTGACCAA
66 CTCCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAG
* *
27751751 TGAGATAGGACTTGTGGCTTAAATCTACTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGAT
1 GGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGAT
* * *
27751816 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGTTGACCAG
66 CTCCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAG
27751879 GGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGAT
1 GGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGAT
*
27751944 CTCCTCCGCTACTGCTTTGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTG
66 CTCCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTG
27751999 TAACCAATGG
Statistics
Matches: 349, Mismatches: 27, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
128 349 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (128 bp):
GGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGAT
CTCCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAG
Found at i:27754340 original size:26 final size:26
Alignment explanation
Indices: 27754311--27754378 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 26
27754301 TTCCCCCTCT
*
27754311 TTTTCATTTTCATTTTTTGAC-TTTGA
1 TTTTGATTTTCATTTTTTG-CTTTTGA
*
27754337 TTTTGATTTTTC-TTTTTTGCTTTTGC
1 TTTTGA-TTTTCATTTTTTGCTTTTGA
*
27754363 TTTTGATTTTGATTTT
1 TTTTGATTTTCATTTT
27754379 GATTTTTCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 5 0.14
26 26 0.72
27 5 0.14
ACGTcount: A:0.10, C:0.09, G:0.10, T:0.71
Consensus pattern (26 bp):
TTTTGATTTTCATTTTTTGCTTTTGA
Found at i:27754343 original size:6 final size:6
Alignment explanation
Indices: 27754325--27754384 Score: 57
Period size: 6 Copynumber: 9.7 Consensus size: 6
27754315 CATTTTCATT
* ** * *
27754325 TTTTGA CTTTGA TTTTGA TTTTTCTT TTTTGC TTTTGC TTTTGA TTTTGA
1 TTTTGA TTTTGA TTTTGA -TTTT-GA TTTTGA TTTTGA TTTTGA TTTTGA
27754375 TTTTGA TTTT
1 TTTTGA TTTT
27754385 TCTTCCCCCT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
6 37 0.82
7 8 0.18
ACGTcount: A:0.10, C:0.07, G:0.13, T:0.70
Consensus pattern (6 bp):
TTTTGA
Found at i:27759002 original size:22 final size:22
Alignment explanation
Indices: 27758971--27759012 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
27758961 ATAAAATAAT
27758971 ATCTTATAAT-AGAATAAAAGG
1 ATCTTATAATAAGAATAAAAGG
*
27758992 ATCTATATAATAAGATTAAAA
1 ATCT-TATAATAAGAATAAAA
27759013 AAAATAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 6 0.33
23 8 0.44
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.31
Consensus pattern (22 bp):
ATCTTATAATAAGAATAAAAGG
Found at i:27759054 original size:19 final size:17
Alignment explanation
Indices: 27759012--27759055 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
27759002 TAAGATTAAA
*
27759012 AAAAATAAAAGACTAAT
1 AAAAATAAAAGACCAAT
*
27759029 AATAATAATAATGACCAAT
1 AAAAATAA-AA-GACCAAT
27759048 AAAAATAA
1 AAAAATAA
27759056 CAATAAATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (17 bp):
AAAAATAAAAGACCAAT
Found at i:27761306 original size:55 final size:55
Alignment explanation
Indices: 27761246--27761405 Score: 320
Period size: 55 Copynumber: 2.9 Consensus size: 55
27761236 TTTGCCTCTG
27761246 GAGTGACCCAAACTTAATGAGAAAAAAATTCTTCTCTAAGGTCGTGAACTGACAA
1 GAGTGACCCAAACTTAATGAGAAAAAAATTCTTCTCTAAGGTCGTGAACTGACAA
27761301 GAGTGACCCAAACTTAATGAGAAAAAAATTCTTCTCTAAGGTCGTGAACTGACAA
1 GAGTGACCCAAACTTAATGAGAAAAAAATTCTTCTCTAAGGTCGTGAACTGACAA
27761356 GAGTGACCCAAACTTAATGAGAAAAAAATTCTTCTCTAAGGTCGTGAACT
1 GAGTGACCCAAACTTAATGAGAAAAAAATTCTTCTCTAAGGTCGTGAACT
27761406 TAATGTTGTA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 105 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (55 bp):
GAGTGACCCAAACTTAATGAGAAAAAAATTCTTCTCTAAGGTCGTGAACTGACAA
Found at i:27764003 original size:12 final size:13
Alignment explanation
Indices: 27763971--27764000 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
27763961 TGTCATGTTT
27763971 ATATTAATTTTTC
1 ATATTAATTTTTC
27763984 ATATTAATTTTTC
1 ATATTAATTTTTC
27763997 ATAT
1 ATAT
27764001 AATGTATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (13 bp):
ATATTAATTTTTC
Found at i:27767773 original size:29 final size:30
Alignment explanation
Indices: 27767714--27767771 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
27767704 TCCGAGCCTT
*
27767714 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
27767744 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
27767772 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:27768002 original size:13 final size:13
Alignment explanation
Indices: 27767984--27768014 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
27767974 TTCCAGCAAC
27767984 TATGAATTTATTT
1 TATGAATTTATTT
27767997 TATGAATTTATTT
1 TATGAATTTATTT
*
27768010 GATGA
1 TATGA
27768015 TGATCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:27768220 original size:50 final size:50
Alignment explanation
Indices: 27768109--27768357 Score: 309
Period size: 50 Copynumber: 4.8 Consensus size: 50
27768099 ATTTGGGTAA
*
27768109 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC----GA-CATG
* * * *
27768165 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTAGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
* *
27768215 AGAGGTCCCATGTAAGACCATGTCTGGGTCATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
* * * *
27768265 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
** *
27768315 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
27768358 TGTTATTATC
Statistics
Matches: 171, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
50 95 0.56
51 36 0.21
55 2 0.01
56 38 0.22
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
Found at i:27776944 original size:21 final size:21
Alignment explanation
Indices: 27776862--27776944 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
27776852 CATCGTTCAT
*
27776862 AGAAGCTCGT-A-AGCTGAAT
1 AGAAGCTCGTAAGAGCTGAAC
* * *
27776881 AGAAACTCTTAAGAGTTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
* *
27776902 AGAAGCTCATAAGAGTTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
*
27776923 AGAAGCTCGTAAGAGCTCAAC
1 AGAAGCTCGTAAGAGCTGAAC
27776944 A
1 A
27776945 AAAAGTAGAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
19 8 0.15
20 1 0.02
21 44 0.83
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.19
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGCTGAAC
Found at i:27785244 original size:36 final size:38
Alignment explanation
Indices: 27785195--27785284 Score: 112
Period size: 36 Copynumber: 2.4 Consensus size: 38
27785185 ACCCACTACC
* **
27785195 GTGGTGTGTAGGGTGGATGGG-CTACCATATC-CCTTT
1 GTGGTGTGTAGGGTGGATGGGCCTACCATAGCTCAATT
* * *
27785231 GTGGTGTGCAGGGTGAATGGGCCTACCGTAGCTCAATT
1 GTGGTGTGTAGGGTGGATGGGCCTACCATAGCTCAATT
27785269 GTGGTGTGTAGGGTGG
1 GTGGTGTGTAGGGTGG
27785285 TCGGAGTGGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
36 19 0.43
37 8 0.18
38 17 0.39
ACGTcount: A:0.14, C:0.14, G:0.41, T:0.30
Consensus pattern (38 bp):
GTGGTGTGTAGGGTGGATGGGCCTACCATAGCTCAATT
Found at i:27788197 original size:16 final size:16
Alignment explanation
Indices: 27788142--27788196 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
27788132 GAACTATTAT
27788142 ATTTTCCATCTTTCTA
1 ATTTTCCATCTTTCTA
* *
27788158 TTTTTTCCATCGCTTC-A
1 -ATTTTCCATC-TTTCTA
*
27788175 ATTTTCTATCTTTCTA
1 ATTTTCCATCTTTCTA
27788191 ATTTTC
1 ATTTTC
27788197 TTTCTACTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 3 0.10
16 15 0.48
17 10 0.32
18 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.02, T:0.58
Consensus pattern (16 bp):
ATTTTCCATCTTTCTA
Found at i:27788272 original size:13 final size:13
Alignment explanation
Indices: 27788256--27788286 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
27788246 TATTTTAATT
27788256 ATTTATCATTTAA
1 ATTTATCATTTAA
*
27788269 ATTTATTATTTAA
1 ATTTATCATTTAA
27788282 ATTTA
1 ATTTA
27788287 ATTTTAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (13 bp):
ATTTATCATTTAA
Found at i:27789759 original size:48 final size:48
Alignment explanation
Indices: 27789687--27789782 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
27789677 TTTCTTTGCT
* * ** *
27789687 TAAAAATGCCTAAGTCAGCCTAACTTGCAGTGATAAAGGATTCAACAG
1 TAAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAGAATTCAACAG
*
27789735 TAAAAACGCCTAAGTCAGCTTAACTCGCAACGATAAAGAATTCAACAG
1 TAAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAGAATTCAACAG
27789783 AATTGCCTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.21
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAGAATTCAACAG
Found at i:27797317 original size:3 final size:3
Alignment explanation
Indices: 27797309--27797409 Score: 202
Period size: 3 Copynumber: 33.7 Consensus size: 3
27797299 ATTTACGTTG
27797309 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27797357 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27797405 TTA TT
1 TTA TT
27797410 NCTACTTTTC
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 98 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:27799984 original size:11 final size:11
Alignment explanation
Indices: 27799968--27800014 Score: 55
Period size: 12 Copynumber: 4.5 Consensus size: 11
27799958 GAGTTCAGAC
27799968 TCAAAAAAAAA
1 TCAAAAAAAAA
27799979 TC--AAAAAAA
1 TCAAAAAAAAA
27799988 T-AAAAAAAAA
1 TCAAAAAAAAA
*
27799998 ACAAAAAAAAAA
1 TC-AAAAAAAAA
27800010 TCAAA
1 TCAAA
27800015 GTCAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
9 8 0.27
10 7 0.23
11 5 0.17
12 10 0.33
ACGTcount: A:0.83, C:0.09, G:0.00, T:0.09
Consensus pattern (11 bp):
TCAAAAAAAAA
Found at i:27800007 original size:20 final size:19
Alignment explanation
Indices: 27799970--27800006 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
27799960 GTTCAGACTC
*
27799970 AAAAAAAAATCAAAAAAAT
1 AAAAAAAAAACAAAAAAAT
27799989 AAAAAAAAAACAAAAAAA
1 AAAAAAAAAACAAAAAAA
27800007 AAATCAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.89, C:0.05, G:0.00, T:0.05
Consensus pattern (19 bp):
AAAAAAAAAACAAAAAAAT
Found at i:27802282 original size:45 final size:45
Alignment explanation
Indices: 27802175--27803978 Score: 1502
Period size: 45 Copynumber: 38.7 Consensus size: 45
27802165 TAGTTTGCAA
* * * * *
27802175 TTAAAAAGATTGAAACTACAACAGCGGATCTTACTTTCTTAGCATTG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCA--G
* * * *
27802222 TAGTAGAACAGATTGATGCTACAGCAGCAGATCTTGCTTCCCTGGCAG
1 T--TA-AAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAG
* * *
27802270 TTAAAAAGATTGAAGCTACAACAGCGTATCTTACTTCCCTGACATTGCAA
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTG-----GCAG
* * *
27802320 TTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGC-TTC----CCTGGCAG
** * * *** *
27802370 TGGAACAGATTGAAGCTACAGCAGAAAATCTTGCTTCCCCGGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAG
* * *
27802415 TTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGC-TTC----CCTGGCAG
** * * *** *
27802465 TGGAACAGATTGAAGCTACAGCAGAAAATCTTGCTTCCCCGGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAG
* *
27802510 TTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTGTTGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGC-TTCC--CTG--GCAG
* * * *
27802560 TGGAACAA-ATTGAAGCTAAAACAGCGGATCTTGCTTCTCC-AGCAG
1 T-TAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTC-CCTGGCAG
* *
27802605 TTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTGTTGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGC-TTCC--CTG--GCAG
* * * *
27802655 TGGAACAA-ATTGAAGCTAAAACAGCGGATCTTGCTTCTCC-AGCAG
1 T-TAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTC-CCTGGCAG
* *
27802700 TTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTGTTGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGC-TTCC--CTG--GCAG
* * * *
27802750 TGGAACAA-ATTGAAGCTAAAACAGCGGATCTTGCTTCTCC-AGCAG
1 T-TAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTC-CCTGGCAG
* *
27802795 TTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTGTTGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGC-TTCC--CTG--GCAG
* * * **
27802845 TGGAACAA-ATTGAAGCTAAAACAGCGGATCTTGCTTCCCCAGCAG
1 T-TAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAG
** *
27802890 TTAAAAAGATTGAAGCTACAACAGCGGATCTTATTTTCCTAGTGTTGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTT-GCTTCC--CTG--GCAG
** ** *
27802940 TGGAACGGATTGAAGCTACAGCAGCGGATCTTGCTTCCCTGGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAG
* *
27802985 TTAAAAAGATTGAAGCTACAACAACGGATCTTACTTTCCTAGCATGGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGC-TTCC---C-TGGCAG
** * *
27803035 TGGAACAGATTGAAGCTACAGCAGCGGATCTTGCTTCCCTGGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAG
* *
27803080 TTAAAAAGATTGAAGCTACAACAACGGATCTTACTTTCCTAGCATGGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGC-TTCC---C-TGGCAG
** * *
27803130 TGGAACAGATTGAAGCTACAGCAGCGGATCTTGCTTCCCTGGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAG
* *
27803175 TTAAAAAGATTGAAGCTACAACAACGGATCTTACTTTCCTAGCATGGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGC-TTCC---C-TGGCAG
** * *
27803225 TGGAACAGATTGAAGCTACAGCAGCGGATCTTGCTTCCCTGGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAG
* * * *
27803270 TTAAAAAGATTGAAGCTACAACAACGGATCTTACTTTCCTAGCA-
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAG
**
27803314 TGTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCAGCAG
1 T-TAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAG
**
27803360 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCAGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAG
**
27803405 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCAGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAG
**
27803450 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCAGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAG
**
27803495 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCAGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAG
**
27803540 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCAGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAG
**
27803585 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCAGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAG
* ** * **** *
27803630 TTAAAAAGATTG-AGAT-C-TTA-C---T-TTCCTAGTGTTGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAG
** * * ** *
27803667 TGGAACAGATTGAAGCTACAACAGCAGATCTTGCTTCCCCAGCAA
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAG
* *
27803712 TTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTGTTGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGC-TTCC--CTG--GCAG
** * **
27803762 TGGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCAGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAG
* ** *
27803807 TTAAAAAGATTGAAGCTACAATAGCGGATCTTATTTTCCTAGTG-A-
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCT-G-GCAG
* ** *
27803852 TTAAAAAGATTGAAGCTACAATAGCGGATCTTATTTTCCTAGCATTGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTT-GCTTCC---C-TGGCAG
** * * *
27803902 TGGAACAGATTGAAGCTACAGCAGCGGATCTTGCTTCCCTAGCAG
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAG
*
27803947 TTAAAAAGATTGAAGCTACAACAGCGAATCTT
1 TTAAAAAGATTGAAGCTACAACAGCGGATCTT
27803979 ACTTTCCTAG
Statistics
Matches: 1425, Mismatches: 236, Indels: 194
0.77 0.13 0.10
Matches are distributed among these distances:
37 17 0.01
38 4 0.00
39 1 0.00
40 1 0.00
41 2 0.00
42 1 0.00
43 1 0.00
44 21 0.01
45 809 0.57
46 48 0.03
47 4 0.00
48 4 0.00
49 50 0.04
50 441 0.31
51 19 0.01
55 2 0.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (45 bp):
TTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAG
Found at i:27802338 original size:95 final size:92
Alignment explanation
Indices: 27802177--27804032 Score: 1740
Period size: 95 Copynumber: 19.9 Consensus size: 92
27802167 GTTTGCAATT
* * * * * *
27802177 AAAAAGATTGAAACTACAACAGCGGATCTTACTT-TCTTAGCATTGTAGTAGAACAGATTGATGC
1 AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTCAGCA--GT--TA-AAAAGATTGAAGC
* * * *
27802241 TACAGCAGCAGATCTTGC-TTCCCTGGCAGTT
61 TACAACAGCGGATCTTACTTTCCCTGGCAGTG
* * *
27802272 AAAAAGATTGAAGCTACAACAGCGTATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCT
1 AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCT--CA--GCAGTTAAAAAGATTGAAGCT
* *
27802337 ACAACAGCGGATCTTACTTTCTTAGCATTGCAGTG
62 ACAACAGCGGATCTTACTTTC----CCTGGCAGTG
* * * *** *
27802372 GAACAGATTGAAGCTACAGCAGAAAATCTTGCTTCCC-CGGCAGTTAAAAAGATTGAAGCTACAA
1 AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTCAGCAGTTAAAAAGATTGAAGCTACAA
* *
27802436 CAGCGGATCTTACTTTCTTAGCATTGCAGTG
66 CAGCGGATCTTACTTTC----CCTGGCAGTG
* * * *** *
27802467 GAACAGATTGAAGCTACAGCAGAAAATCTTGCTTCCC-CGGCAGTTAAAAAGATTGAAGCTACAA
1 AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTCAGCAGTTAAAAAGATTGAAGCTACAA
*
27802531 CAGCGGATCTTACTTTCCTAGTGTTGCAGTGG
66 CAGCGGATCTTACTTTCC--CTG--GCAGT-G
* * *
27802563 AACAA-ATTGAAGCTAAAACAGCGGATCTTGCTTCTC-CAGCAGTTAAAAAGATTGAAGCTACAA
1 AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTCAGCAGTTAAAAAGATTGAAGCTACAA
*
27802626 CAGCGGATCTTACTTTCCTAGTGTTGCAGTGG
66 CAGCGGATCTTACTTTCC--CTG--GCAGT-G
* * *
27802658 AACAA-ATTGAAGCTAAAACAGCGGATCTTGCTTCTC-CAGCAGTTAAAAAGATTGAAGCTACAA
1 AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTCAGCAGTTAAAAAGATTGAAGCTACAA
*
27802721 CAGCGGATCTTACTTTCCTAGTGTTGCAGTGG
66 CAGCGGATCTTACTTTCC--CTG--GCAGT-G
* * *
27802753 AACAA-ATTGAAGCTAAAACAGCGGATCTTGCTTCTC-CAGCAGTTAAAAAGATTGAAGCTACAA
1 AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTCAGCAGTTAAAAAGATTGAAGCTACAA
*
27802816 CAGCGGATCTTACTTTCCTAGTGTTGCAGTGG
66 CAGCGGATCTTACTTTCC--CTG--GCAGT-G
* *
27802848 AACAA-ATTGAAGCTAAAACAGCGGATCTTGCTTCCC-CAGCAGTTAAAAAGATTGAAGCTACAA
1 AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTCAGCAGTTAAAAAGATTGAAGCTACAA
* *
27802911 CAGCGGATCTTATTTTCCTAGTGTTGCAGTG
66 CAGCGGATCTTACTTTCC--CTG--GCAGTG
* ** * *
27802942 GAACGGATTGAAGCTACAGCAGCGGATCTTGCTTCCCT-GGCAGTTAAAAAGATTGAAGCTACAA
1 AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTCAGCAGTTAAAAAGATTGAAGCTACAA
*
27803006 CAACGGATCTTACTTTCCTAGCATGGCAGTG
66 CAGCGGATCTTACTTTCC---C-TGGCAGTG
* * * *
27803037 GAACAGATTGAAGCTACAGCAGCGGATCTTGCTTCCCT-GGCAGTTAAAAAGATTGAAGCTACAA
1 AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTCAGCAGTTAAAAAGATTGAAGCTACAA
*
27803101 CAACGGATCTTACTTTCCTAGCATGGCAGTG
66 CAGCGGATCTTACTTTCC---C-TGGCAGTG
* * * *
27803132 GAACAGATTGAAGCTACAGCAGCGGATCTTGCTTCCCT-GGCAGTTAAAAAGATTGAAGCTACAA
1 AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTCAGCAGTTAAAAAGATTGAAGCTACAA
*
27803196 CAACGGATCTTACTTTCCTAGCATGGCAGTG
66 CAGCGGATCTTACTTTCC---C-TGGCAGTG
* * * *
27803227 GAACAGATTGAAGCTACAGCAGCGGATCTTGCTTCCCT-GGCAGTTAAAAAGATTGAAGCTACAA
1 AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTCAGCAGTTAAAAAGATTGAAGCTACAA
* *
27803291 CAACGGATCTTACTTT-CCTAGCA-TG
66 CAGCGGATCTTACTTTCCCTGGCAGTG
27803316 TAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCC-CAGCAGTTAAAAAGATTGAAGCTACA
1 -AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTCAGCAGTTAAAAAGATTGAAGCTACA
* ** *
27803380 ACAGCGGATCTTGC-TTCCCCAGCAGTT
65 ACAGCGGATCTTACTTTCCCTGGCAGTG
27803407 AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCC-CAGCAGTTAAAAAGATTGAAGCTACAA
1 AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTCAGCAGTTAAAAAGATTGAAGCTACAA
* ** *
27803471 CAGCGGATCTTGC-TTCCCCAGCAGTT
66 CAGCGGATCTTACTTTCCCTGGCAGTG
27803497 AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCC-CAGCAGTTAAAAAGATTGAAGCTACAA
1 AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTCAGCAGTTAAAAAGATTGAAGCTACAA
* ** *
27803561 CAGCGGATCTTGC-TTCCCCAGCAGTT
66 CAGCGGATCTTACTTTCCCTGGCAGTG
* *
27803587 AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCC-CAGCAGTTAAAAAGATTG-AGAT-C-T
1 AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTCAGCAGTTAAAAAGATTGAAGCTACAA
* ** * * *
27803648 TA-C-TTTCCTAGTGT---T-GCAGTG
66 CAGCGGATCTTACTTTCCCTGGCAGTG
* * * *
27803669 GAACAGATTGAAGCTACAACAGCAGATCTTGCTTCCC-CAGCAATTAAAAAGATTGAAGCTACAA
1 AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTCAGCAGTTAAAAAGATTGAAGCTACAA
*
27803733 CAGCGGATCTTACTTTCCTAGTGTTGCAGTG
66 CAGCGGATCTTACTTTCC--CTG--GCAGTG
* *
27803764 GAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCC-CAGCAGTTAAAAAGATTGAAGCTACAA
1 AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTCAGCAGTTAAAAAGATTGAAGCTACAA
* * *
27803828 TAGCGGATCTTA-TTTTCCTAGTG-A-TT
66 CAGCGGATCTTACTTTCCCT-G-GCAGTG
* ** * ** *
27803854 AAAAAGATTGAAGCTACAATAGCGGATCTTATTTTCCTAGCATTGCAGTGGAACAGATTGAAGCT
1 AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCT--CA--GCAGTTAAAAAGATTGAAGCT
* * * *
27803919 ACAGCAGCGGATCTTGC-TTCCCTAGCAGTT
62 ACAACAGCGGATCTTACTTTCCCTGGCAGTG
* * * ** *
27803949 AAAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCTAGCATTGCAGTGGAACAGATTGAAGCT
1 AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCT--CA--GCAGTTAAAAAGATTGAAGCT
* * *
27804014 ACAACGGCGAATCTCACTT
62 ACAACAGCGGATCTTACTT
27804033 CCCCGATATT
Statistics
Matches: 1605, Mismatches: 109, Indels: 93
0.89 0.06 0.05
Matches are distributed among these distances:
82 56 0.03
83 3 0.00
84 1 0.00
85 4 0.00
86 3 0.00
87 7 0.00
88 1 0.00
89 7 0.00
90 347 0.22
91 4 0.00
92 4 0.00
93 5 0.00
94 8 0.00
95 1099 0.68
96 11 0.01
97 3 0.00
98 2 0.00
100 40 0.02
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (92 bp):
AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTCAGCAGTTAAAAAGATTGAAGCTACAA
CAGCGGATCTTACTTTCCCTGGCAGTG
Found at i:27802534 original size:190 final size:190
Alignment explanation
Indices: 27802276--27803848 Score: 2132
Period size: 190 Copynumber: 8.4 Consensus size: 190
27802266 GCAGTTAAAA
* * *
27802276 AGATTGAAGCTACAACAGCGTATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCC---CA--GCAGTTAAAAAGATTGAAGCTACAA
* * ***
27802341 CAGCGGATCTTACTTTCTTAGCATTGCAGTGGAACAGATTGAAGCTACAGCAGAAAATCTTGCTT
61 CAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTGCTT
* *
27802406 CCCCGGCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAGTGGAAC
126 CCCCAGCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* *** *
27802471 AGATTGAAGCTACAGCAGAAAATCTTGCTTCCCCGGCAGTTAAAAAGATTGAAGCTACAACAGCG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCCAGCAGTTAAAAAGATTGAAGCTACAACAGCG
** * * *
27802536 GATCTTACTTTCCTAGTGTTGCAGTGGAACAAATTGAAGCTAAAACAGCGGATCTTGCTTCTCCA
66 GATCTTACTTTCCTAGCATTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCA
**
27802601 GCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTGTTGCAGTGGAAC
131 GCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* * *
27802661 AAATTGAAGCTAAAACAGCGGATCTTGCTTCTCCAGCAGTTAAAAAGATTGAAGCTACAACAGCG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCCAGCAGTTAAAAAGATTGAAGCTACAACAGCG
** * * *
27802726 GATCTTACTTTCCTAGTGTTGCAGTGGAACAAATTGAAGCTAAAACAGCGGATCTTGCTTCTCCA
66 GATCTTACTTTCCTAGCATTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCA
**
27802791 GCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTGTTGCAGTGGAAC
131 GCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* *
27802851 AAATTGAAGCTAAAACAGCGGATCTTGCTTCCCCAGCAGTTAAAAAGATTGAAGCTACAACAGCG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCCAGCAGTTAAAAAGATTGAAGCTACAACAGCG
* ** * * **
27802916 GATCTTATTTTCCTAGTGTTGCAGTGGAACGGATTGAAGCTACAGCAGCGGATCTTGCTTCCCTG
66 GATCTTACTTTCCTAGCATTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCA
* *
27802981 GCAGTTAAAAAGATTGAAGCTACAACAACGGATCTTACTTTCCTAGCATGGCAGTGGAAC
131 GCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* ** *
27803041 AGATTGAAGCTACAGCAGCGGATCTTGCTTCCCTGGCAGTTAAAAAGATTGAAGCTACAACAACG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCCAGCAGTTAAAAAGATTGAAGCTACAACAGCG
* * **
27803106 GATCTTACTTTCCTAGCATGGCAGTGGAACAGATTGAAGCTACAGCAGCGGATCTTGCTTCCCTG
66 GATCTTACTTTCCTAGCATTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCA
* *
27803171 GCAGTTAAAAAGATTGAAGCTACAACAACGGATCTTACTTTCCTAGCATGGCAGTGGAAC
131 GCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* ** *
27803231 AGATTGAAGCTACAGCAGCGGATCTTGCTTCCCTGGCAGTTAAAAAGATTGAAGCTACAACAACG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCCAGCAGTTAAAAAGATTGAAGCTACAACAGCG
* *
27803296 GATCTTACTTTCCTAGCA-T---GT-AAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCA
66 GATCTTACTTTCCTAGCATTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCA
* * ** *
27803356 GCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTGC-TTCC--CCA--GCAGTTAAAA
131 GCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
27803411 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCCAGCAGTTAAAAAGATTGAAGCTACAACAGCG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCCAGCAGTTAAAAAGATTGAAGCTACAACAGCG
* * ** *
27803476 GATCTTGC-TTCC--CCA--GCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCA
66 GATCTTACTTTCCTAGCATTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCA
* * ** *
27803536 GCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTGC-TTCC--CCA--GCAGTTAAAA
131 GCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
27803591 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCCAGCAGTTAAAAAGATT---G-------A---
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCCAGCAGTTAAAAAGATTGAAGCTACAACAGCG
** *
27803643 GATCTTACTTTCCTAGTGTTGCAGTGGAACAGATTGAAGCTACAACAGCAGATCTTGCTTCCCCA
66 GATCTTACTTTCCTAGCATTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCA
* **
27803708 GCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTGTTGCAGTGGAAC
131 GCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
*
27803768 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCCAGCAGTTAAAAAGATTGAAGCTACAATAGCG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCCAGCAGTTAAAAAGATTGAAGCTACAACAGCG
*
27803833 GATCTTATTTTCCTAG
66 GATCTTACTTTCCTAG
27803849 TGATTAAAAA
Statistics
Matches: 1263, Mismatches: 88, Indels: 59
0.90 0.06 0.04
Matches are distributed among these distances:
167 7 0.01
168 4 0.00
170 1 0.00
172 77 0.06
173 4 0.00
177 60 0.05
179 6 0.00
180 220 0.17
182 2 0.00
184 4 0.00
185 70 0.06
186 2 0.00
187 1 0.00
190 776 0.61
192 1 0.00
195 28 0.02
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (190 bp):
AGATTGAAGCTACAACAGCGGATCTTGCTTCCCCAGCAGTTAAAAAGATTGAAGCTACAACAGCG
GATCTTACTTTCCTAGCATTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCA
GCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
Found at i:27803915 original size:140 final size:140
Alignment explanation
Indices: 27803673--27803990 Score: 501
Period size: 140 Copynumber: 2.3 Consensus size: 140
27803663 GCAGTGGAAC
* * * *
27803673 AGATTGAAGCTACAACAGCAGATCTTGCTTCCCCAGCAATTAAAAAGATTGAAGCTACAACAGCG
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCAATTAAAAAGATTGAAGCTACAACAGCG
**
27803738 GATCTTACTTTCCTAGTGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCA
66 GATCTTACTTTCCTAGCATTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCA
27803803 GCAGTTAAAA
131 GCAGTTAAAA
* * ** *
27803813 AGATTGAAGCTACAATAGCGGATCTTATTTTCCTAGTGATTAAAAAGATTGAAGCTACAATAGCG
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCAATTAAAAAGATTGAAGCTACAACAGCG
* * *
27803878 GATCTTATTTTCCTAGCATTGCAGTGGAACAGATTGAAGCTACAGCAGCGGATCTTGCTTCCCTA
66 GATCTTACTTTCCTAGCATTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCA
27803943 GCAGTTAAAA
131 GCAGTTAAAA
*
27803953 AGATTGAAGCTACAACAGCGAATCTTACTTTCCTAGCA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCA
27803991 TTGCAGTGGA
Statistics
Matches: 159, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
140 159 1.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (140 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCAATTAAAAAGATTGAAGCTACAACAGCG
GATCTTACTTTCCTAGCATTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCA
GCAGTTAAAA
Found at i:27804034 original size:95 final size:97
Alignment explanation
Indices: 27803852--27804314 Score: 412
Period size: 99 Copynumber: 4.7 Consensus size: 97
27803842 TTCCTAGTGA
* * *
27803852 TTAAAAAGATTGAAG-CTACAATAGCGGATCTTATTTTCCTAGC-ATTGCAGTGGAACAGATTGA
1 TTAAAAAGATTGAAGTC-ACAACAGCGAATCTTACTTTCCTAGCGA-TGCAGTGGAACAGATTGA
* * * **
27803915 AGCTACAGCAGCGGATCTTGCTT-CCC-TAGCAG
64 AGCTACAACGGCGAATCTCACTTCCCCATAGCAG
27803947 TTAAAAAGATTGAAG-CTACAACAGCGAATCTTACTTTCCTAGC-ATTGCAGTGGAACAGATTGA
1 TTAAAAAGATTGAAGTC-ACAACAGCGAATCTTACTTTCCTAGCGA-TGCAGTGGAACAGATTGA
27804010 AGCTACAACGGCGAATCTCACTTCCCCGATATTGCAAG
64 AGCTACAACGGCGAATCTCACTTCCCC-ATA--GC-AG
* * * * * * *
27804048 TT-AAAAGATTAAAGTCACAACGGCGAATCTTA-TTTCCCAACGATGCAGAGGAACATATTTAAG
1 TTAAAAAGATTGAAGTCACAACAGCGAATCTTACTTTCCTAGCGATGCAGTGGAACAGATTGAAG
* * *
27804111 CTACGACGGTGAATCTCATTTCCCCGATATTGCAAG
66 CTACAACGGCGAATCTCACTTCCCC-ATA--GC-AG
* * * * *
27804147 TT-AAAAGATTAAAGTCACAACAGCGAATCTTA-TTTCCCAGCGATACAGAGGAACATATTGAAG
1 TTAAAAAGATTGAAGTCACAACAGCGAATCTTACTTTCCTAGCGATGCAGTGGAACAGATTGAAG
* * *
27804210 CTACGACGGTGAATCTCACTTCCCCGACATAGCAA
66 CTACAACGGCGAATCTCACTT-CCC--CATAGCAG
* *
27804245 TTAAAATAGATTGAAGTCACGAA-GGCGAATCTTAC-TT-CTCAGGCGATGCAGTAGAACAGATT
1 TTAAAA-AGATTGAAGTCAC-AACAGCGAATCTTACTTTCCT-A-GCGATGCAGTGGAACAGATT
27804307 GAAGCTAC
62 GAAGCTAC
27804315 GGTGGTGAAT
Statistics
Matches: 320, Mismatches: 31, Indels: 28
0.84 0.08 0.07
Matches are distributed among these distances:
95 78 0.24
96 3 0.01
98 5 0.02
99 142 0.44
100 57 0.18
101 34 0.11
102 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (97 bp):
TTAAAAAGATTGAAGTCACAACAGCGAATCTTACTTTCCTAGCGATGCAGTGGAACAGATTGAAG
CTACAACGGCGAATCTCACTTCCCCATAGCAG
Found at i:27804044 original size:50 final size:50
Alignment explanation
Indices: 27803661--27804314 Score: 212
Period size: 50 Copynumber: 13.5 Consensus size: 50
27803651 TTTCCTAGTG
* *
27803661 TTGCAGTGGAACAGATTGAAGCTACAACAGC-AGATCTTGCTTCCCC---A
1 TTGCAGTGGAACAGATTGAAGCTACAACGGCGA-ATCTTACTTCCCCGATA
* ** * * * * * *
27803708 --GCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTT-TCCTAGTG
1 TTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGA-TA
* * *
27803756 TTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCC---A
1 TTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGATA
** * ** * **
27803803 --GCAGTTAAAAAGATTGAAGCTACAATAGCGGATCTTA-TTTTCC--TA
1 TTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGATA
* ** * ** * ** * *
27803848 GTG-A-TTAAAAAGATTGAAGCTACAATAGCGGATCTTA-TTTTCCTAGCA
1 TTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGA-TA
* * * *
27803896 TTGCAGTGGAACAGATTGAAGCTACAGCAGCGGATCTTGCTT-CCC--TA
1 TTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGATA
** * * * * *
27803943 --GCAGTTAAAAAGATTGAAGCTACAACAGCGAATCTTACTT-TCCTAGCA
1 TTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGA-TA
*
27803991 TTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGATA
1 TTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGATA
* * * *
27804041 TTGCAAGT-TAAAAGATTAAAG-TCACAACGGCGAATCTTATTTCCCAACG--A
1 TTGC-AGTGGAACAGATTGAAGCT-ACAACGGCGAATCTTACTTCCC--CGATA
* * * * * * *
27804091 -TGCAGAGGAACATATTTAAGCTACGACGGTGAATCTCATTTCCCCGATA
1 TTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGATA
* * * * *
27804140 TTGCAAGT-TAAAAGATTAAAG-TCACAACAGCGAATCTTATTTCCCAGCGATA
1 TTGC-AGTGGAACAGATTGAAGCT-ACAACGGCGAATCTTACTTCCC--CGATA
* * * * * *
27804192 ---CAGAGGAACATATTGAAGCTACGACGGTGAATCTCACTTCCCCGACA
1 TTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGATA
* * ** * ** **
27804239 TAGCAATTAAAATAGATTGAAG-TCACGAA-GGCGAATCTTACTTCTCAGGCGA
1 TTGC-AGTGGAACAGATTGAAGCT-AC-AACGGCGAATCTTACTTC-CCCGATA
*
27804291 -TGCAGTAGAACAGATTGAAGCTAC
1 TTGCAGTGGAACAGATTGAAGCTAC
27804315 GGTGGTGAAT
Statistics
Matches: 463, Mismatches: 98, Indels: 89
0.71 0.15 0.14
Matches are distributed among these distances:
44 6 0.01
45 141 0.30
46 1 0.00
47 8 0.02
48 8 0.02
49 62 0.13
50 185 0.40
51 41 0.09
52 11 0.02
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.25
Consensus pattern (50 bp):
TTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGATA
Found at i:27804125 original size:99 final size:100
Alignment explanation
Indices: 27803945--27804326 Score: 472
Period size: 99 Copynumber: 3.8 Consensus size: 100
27803935 CTTCCCTAGC
* * *
27803945 AGTTAAAAAGATTGAAG-CTACAACAGCGAATCTTACTTTCCTAGC-ATTGCAGTGGAACAGATT
1 AGTTAAAAAGATTAAAGTC-ACAACAGCGAATCTTA-TTTCCCAGCGA-TGCAGAGGAACAGATT
* *
27804008 GAAGCTACAACGGCGAATCTCACTTCCCCGATATTGCA
63 GAAGCTACGACGGTGAATCTCACTTCCCCGATATTGCA
* * * *
27804046 AGTT-AAAAGATTAAAGTCACAACGGCGAATCTTATTTCCCAACGATGCAGAGGAACATATTTAA
1 AGTTAAAAAGATTAAAGTCACAACAGCGAATCTTATTTCCCAGCGATGCAGAGGAACAGATTGAA
*
27804110 GCTACGACGGTGAATCTCATTTCCCCGATATTGCA
66 GCTACGACGGTGAATCTCACTTCCCCGATATTGCA
* *
27804145 AGTT-AAAAGATTAAAGTCACAACAGCGAATCTTATTTCCCAGCGATACAGAGGAACATATTGAA
1 AGTTAAAAAGATTAAAGTCACAACAGCGAATCTTATTTCCCAGCGATGCAGAGGAACAGATTGAA
* *
27804209 GCTACGACGGTGAATCTCACTTCCCCGACATAGCA
66 GCTACGACGGTGAATCTCACTTCCCCGATATTGCA
* * * *
27804244 A-TTAAAATAGATTGAAGTCACGAA-GGCGAATCTTACTTCTCAGGCGATGCAGTA-GAACAGAT
1 AGTTAAAA-AGATTAAAGTCAC-AACAGCGAATCTTATTTCCCA-GCGATGCAG-AGGAACAGAT
**
27804306 TGAAGCTACGGTGGTGAATCT
62 TGAAGCTACGACGGTGAATCT
27804327 AATTTCTCTA
Statistics
Matches: 249, Mismatches: 25, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
98 2 0.01
99 151 0.61
100 54 0.22
101 41 0.16
102 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.25
Consensus pattern (100 bp):
AGTTAAAAAGATTAAAGTCACAACAGCGAATCTTATTTCCCAGCGATGCAGAGGAACAGATTGAA
GCTACGACGGTGAATCTCACTTCCCCGATATTGCA
Found at i:27804505 original size:44 final size:42
Alignment explanation
Indices: 27804351--27804657 Score: 223
Period size: 44 Copynumber: 7.1 Consensus size: 42
27804341 CACAGTTAAA
*
27804351 CAGATTGAAAATCGCAGATCTTATCTCTTTGAAGTTGCAGTAGAG
1 CAGATT-AAAAT--CAGATCTTATCTCTCTGAAGTTGCAGTAGAG
*** * *
27804396 CAGA-TCGTATCCAG-TCTTATCTCCCTGAAGTTGTAGTGGAGTAG
1 CAGATTAAAAT-CAGATCTTATCTCTCTGAAGTTGCAGT--AG-AG
** * * *
27804440 ACAGA-GGAAACCA-ATCCTATCTCTCTAAAGTTGCAGTAGAG
1 -CAGATTAAAATCAGATCTTATCTCTCTGAAGTTGCAGTAGAG
* *
27804481 CGGATTAAAATCATAGATCTTATCTCTCTGAAGTTGCAATAGAG
1 CAGATTAAAATC--AGATCTTATCTCTCTGAAGTTGCAGTAGAG
* * * *
27804525 CAGA-TCACATCAG-TCTTATCTCCCTGAAGTTGCAGTGGAG
1 CAGATTAAAATCAGATCTTATCTCTCTGAAGTTGCAGTAGAG
* * * *
27804565 CAGATAGAAGAAGTCA-ATCCTATCTCCCTGAAGTTGCAGTGGAG
1 CAGAT-TAA-AA-TCAGATCTTATCTCTCTGAAGTTGCAGTAGAG
* *
27804609 CTGATTAAAACCGCAGATCTTATCTCTCTGAAGTTGCAGTAGAG
1 CAGATTAAAA--TCAGATCTTATCTCTCTGAAGTTGCAGTAGAG
27804653 CAGAT
1 CAGAT
27804658 CGCATCAGAT
Statistics
Matches: 205, Mismatches: 41, Indels: 33
0.73 0.15 0.12
Matches are distributed among these distances:
40 31 0.15
41 28 0.14
42 8 0.04
43 15 0.07
44 114 0.56
45 9 0.04
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (42 bp):
CAGATTAAAATCAGATCTTATCTCTCTGAAGTTGCAGTAGAG
Found at i:27804584 original size:128 final size:128
Alignment explanation
Indices: 27804365--27804665 Score: 440
Period size: 128 Copynumber: 2.3 Consensus size: 128
27804355 TTGAAAATCG
* * *
27804365 CAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTGAAGTTGT
1 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCAT-CAGTCTTATCTCCCTGAAGTTGC
* * * *
27804430 AGTGGAGTAGACAGAGGAAACCAATCCTATCTCTCTAAAGTTGCAGTAGAGCGGATTAAAATCA
65 AGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAACCA
* * *
27804494 TAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCACATCAGTCTTATCTCCCTGAAGTTGCA
1 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAGTCTTATCTCCCTGAAGTTGCA
* ** * * * *
27804559 GTGGAGCAGATAGAAGAAGTCAATCCTATCTCCCTGAAGTTGCAGTGGAGCTGATTAAAACCG
66 GTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAACCA
27804622 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAG
1 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAG
27804666 ATTTTATTTT
Statistics
Matches: 152, Mismatches: 20, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
128 116 0.76
129 36 0.24
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (128 bp):
CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAGTCTTATCTCCCTGAAGTTGCA
GTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAACCA
Found at i:27806592 original size:3 final size:3
Alignment explanation
Indices: 27806578--27806682 Score: 201
Period size: 3 Copynumber: 35.0 Consensus size: 3
27806568 TTTATTTACG
*
27806578 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27806626 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27806674 TTA TTA TTA
1 TTA TTA TTA
27806683 ATCCTTCCTC
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 100 1.00
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:27811202 original size:25 final size:24
Alignment explanation
Indices: 27811149--27811200 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
27811139 AATTTAATGG
* *
27811149 TAAAGTAATTAATTTAATATTTTT
1 TAAAGTAAATAAATTAATATTTTT
27811173 TAAAGTAAATAAATTAATATTTTT
1 TAAAGTAAATAAATTAATATTTTT
27811197 TAAA
1 TAAA
27811201 AGGATGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
TAAAGTAAATAAATTAATATTTTT
Found at i:27811382 original size:13 final size:13
Alignment explanation
Indices: 27811366--27811429 Score: 101
Period size: 13 Copynumber: 4.9 Consensus size: 13
27811356 TTTTCTTTAT
*
27811366 TGCTTTTGAGAAA
1 TGCTTTTGAGAAG
27811379 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
* *
27811392 TGTTTTTCAGAAG
1 TGCTTTTGAGAAG
27811405 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
27811418 TGCTTTTGAGAA
1 TGCTTTTGAGAA
27811430 ATTTGAGTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:27814819 original size:30 final size:27
Alignment explanation
Indices: 27814763--27814844 Score: 98
Period size: 30 Copynumber: 3.0 Consensus size: 27
27814753 AGATAAACTC
27814763 ACCGGCAGAGGGCAGAG-GAACAAAGA
1 ACCGGCAGAGGGCAGAGAGAACAAAGA
*
27814789 ACCGGCAGAGGGCAGAGATGAGGGCAAAGA
1 ACCGGCAGAGGGCAGAGA-GA--ACAAAGA
*
27814819 ACCAGCAGAGGGCAGAGAG--CAAAGA
1 ACCGGCAGAGGGCAGAGAGAACAAAGA
27814844 A
1 A
27814845 AGGCGTTCGT
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
25 7 0.14
26 17 0.34
28 2 0.04
29 1 0.02
30 23 0.46
ACGTcount: A:0.41, C:0.18, G:0.39, T:0.01
Consensus pattern (27 bp):
ACCGGCAGAGGGCAGAGAGAACAAAGA
Found at i:27817383 original size:102 final size:103
Alignment explanation
Indices: 27817240--27817444 Score: 376
Period size: 102 Copynumber: 2.0 Consensus size: 103
27817230 TTTATGTTTA
*
27817240 GTGATTTTTTTTGAGTAATTTTGATTTTTTATTTGAGAGTAAACGGTGAGAAGTAAAAGTTTAGG
1 GTGATTTTTTTGGAGTAATTTTGATTTTTTATTTGAGAGTAAACGGTGAGAAGTAAAAGTTTAGG
*
27817305 GGGAAAATAAAAAGTTTTGGGGAATAAAAGTTTGAGGG
66 GGGAAAATAAAAAATTTTGGGGAATAAAAGTTTGAGGG
*
27817343 GTGATTTTTTTGGA-TAATTTTGATTTTTTATTTGAGAGTAAAGGGTGAGAAGTAAAAGTTTAGG
1 GTGATTTTTTTGGAGTAATTTTGATTTTTTATTTGAGAGTAAACGGTGAGAAGTAAAAGTTTAGG
27817407 GGGAAAATAAAAAATTTTGGGGAATAAAAGTTTGAGGG
66 GGGAAAATAAAAAATTTTGGGGAATAAAAGTTTGAGGG
27817445 AAAGTAAATA
Statistics
Matches: 99, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
102 86 0.87
103 13 0.13
ACGTcount: A:0.35, C:0.00, G:0.28, T:0.37
Consensus pattern (103 bp):
GTGATTTTTTTGGAGTAATTTTGATTTTTTATTTGAGAGTAAACGGTGAGAAGTAAAAGTTTAGG
GGGAAAATAAAAAATTTTGGGGAATAAAAGTTTGAGGG
Found at i:27817818 original size:9 final size:9
Alignment explanation
Indices: 27817804--27817840 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
27817794 TATAGTTTGA
27817804 TATTCGAAT
1 TATTCGAAT
27817813 TATTCGAAT
1 TATTCGAAT
*
27817822 TATTCGAGT
1 TATTCGAAT
27817831 TATTCGAAT
1 TATTCGAAT
27817840 T
1 T
27817841 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:27817911 original size:9 final size:9
Alignment explanation
Indices: 27817894--27817924 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
27817884 TCGAGTTGAT
27817894 TCGAATAAC
1 TCGAATAAC
*
27817903 TCGATTAAC
1 TCGAATAAC
27817912 TCGAATAAC
1 TCGAATAAC
27817921 TCGA
1 TCGA
27817925 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:27825851 original size:45 final size:44
Alignment explanation
Indices: 27825754--27825859 Score: 115
Period size: 45 Copynumber: 2.4 Consensus size: 44
27825744 TACCCCACAG
* * * * *
27825754 ATGAAATCTGTCTTTGGCTGTGGATGCACAAAAATATCTCGTGA
1 ATGAAATTTGCCTCTGGTTGTGGATGCACAAAAATATCCCGTGA
* *
27825798 ATGAAATTTTCCTCTGGTTGTGGTTGCACAAAAAATATCCCGT-A
1 ATGAAATTTGCCTCTGGTTGTGGATGCAC-AAAAATATCCCGTGA
*
27825842 GATGGAATTTGCCTCTGG
1 -ATGAAATTTGCCTCTGG
27825860 CAGTGGATAC
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
44 24 0.47
45 27 0.53
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (44 bp):
ATGAAATTTGCCTCTGGTTGTGGATGCACAAAAATATCCCGTGA
Found at i:27842954 original size:44 final size:44
Alignment explanation
Indices: 27842904--27843513 Score: 700
Period size: 44 Copynumber: 13.9 Consensus size: 44
27842894 ATCTACTTCG
* *
27842904 AATCTTCCACCTATTCCGCTGCTGGCCAGGGAGATAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* ** * * *
27842948 AATCTTCCACCTATTCCGCTGCTAATAAGAGAGATAGGACATAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * * **
27842992 AATCTTCAACATATTCCACTGCTGTTCAGGGATCTAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * * *
27843036 GATCTTCCACCTATTCCACTGCTGTTCAAGGAGCTAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * *
27843080 TATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGGCTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * * * *
27843124 AATCTTCCACCTACTCCGCTGCTGATTAGGGGGATAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * * *
27843168 AATCTTTCACCTATTCCGCTGCTGTTCAGGGAGCTAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * * *
27843212 AATCTTCAACCTACTCCGCTGCTGGTCAGGGGGATAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * * * * *
27843256 AATCTTTCACATATTTCGCTGCTGTTCAGGGAGCTAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* *
27843300 AATCTTCAACCTATTCCACTACTGGTCAGGGAGATATGG-CTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATA-GGACTTAC
* * * *
27843344 AATCTTCCACCTACTCCACTACTGGTTAGGGGGATAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * *
27843388 AATCTTTCACCTACTCCACTGCTGGTCAGGGGGATAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * * * * *
27843432 AATCTTTCACCTATTCCGCTACTGTTTAGGGAGCTAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* *
27843476 AATCTTCAATCTATTCCACTGCTGGTCAGGGAGATAGG
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGG
27843514 GCTTTGTGAT
Statistics
Matches: 479, Mismatches: 85, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
43 2 0.00
44 475 0.99
45 2 0.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
Found at i:27849239 original size:6 final size:6
Alignment explanation
Indices: 27849230--27849254 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
27849220 TTTATTTTAT
27849230 TTAATA TTAATA TTAATA TTAATA T
1 TTAATA TTAATA TTAATA TTAATA T
27849255 AAATTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAATA
Found at i:27849276 original size:21 final size:21
Alignment explanation
Indices: 27849246--27849285 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27849236 TTAATATTAA
27849246 TATTAATATAAATTTTAAATT
1 TATTAATATAAATTTTAAATT
* **
27849267 TATTATTATATTTTTTAAA
1 TATTAATATAAATTTTAAA
27849286 AATATTTATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTAATATAAATTTTAAATT
Found at i:27849291 original size:21 final size:21
Alignment explanation
Indices: 27849244--27849291 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
27849234 TATTAATATT
27849244 AATATTAATATAAATTTTAAA
1 AATATTAATATAAATTTTAAA
** * **
27849265 TTTATTATTATATTTTTTAAA
1 AATATTAATATAAATTTTAAA
27849286 AATATT
1 AATATT
27849292 TATGTATTTT
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AATATTAATATAAATTTTAAA
Found at i:27856443 original size:17 final size:17
Alignment explanation
Indices: 27856418--27856451 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27856408 ATTATTTTAA
*
27856418 AATTAAATTAATTAATT
1 AATTAAATTAAATAATT
*
27856435 AATTCAATTAAATAATT
1 AATTAAATTAAATAATT
27856452 CACACAACCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTAAATTAAATAATT
Found at i:27863714 original size:30 final size:30
Alignment explanation
Indices: 27863680--27863747 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
27863670 AGATAAAATA
27863680 AAATTGGAAAAGTTACAGCTTATAAGAGTC
1 AAATTGGAAAAGTTACAGCTTATAAGAGTC
27863710 AAATTGGAAAAGTTACAGCTTATAAGAGTC
1 AAATTGGAAAAGTTACAGCTTATAAGAGTC
27863740 AAATTGGA
1 AAATTGGA
27863748 GATTCTTGCG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (30 bp):
AAATTGGAAAAGTTACAGCTTATAAGAGTC
Found at i:27865252 original size:18 final size:17
Alignment explanation
Indices: 27865224--27865258 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27865214 ATTATTAAGA
*
27865224 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
27865241 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
27865259 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:27865488 original size:44 final size:45
Alignment explanation
Indices: 27865423--27865513 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
27865413 ACCTCTATTC
* * *
27865423 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
27865467 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
27865512 CA
1 CA
27865514 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:27865515 original size:16 final size:16
Alignment explanation
Indices: 27865494--27865562 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
27865484 GATTAGCTAT
27865494 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
27865510 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
27865527 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
27865543 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
27865559 TACA
1 TACA
27865563 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:27865536 original size:33 final size:32
Alignment explanation
Indices: 27865494--27865562 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
27865484 GATTAGCTAT
27865494 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
27865527 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
27865559 TACA
1 TACA
27865563 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:27866511 original size:219 final size:219
Alignment explanation
Indices: 27866125--27866567 Score: 780
Period size: 219 Copynumber: 2.0 Consensus size: 219
27866115 CCAGGTTGAC
*
27866125 AAAGGTTGAAAATATACCTTAAAAAAATCTAGTAAGAGCTAACCAATTATATTATGAAGCCTCTA
1 AAAGGTTGAAAATATACCTTAAAAAAATCTAATAAGAGCTAACCAATTATATTATGAAGCCTCTA
27866190 TCTAAATCACAAACCACGGTCGCAACAAATCGCCCTAGCCTATACTTGATCCACCCAAAAGAAAA
66 TCTAAATCACAAACCACGGTCGCAACAAATCGCCCTAGCCTATACTTGATCCACCCAAAAGAAAA
*
27866255 ATGAATAGAATAACTCTTCAAACTTTTCAAAGAGGAAAAGAAAACCC-TTTATGTTAGTCAAATA
131 ACGAATAGAATAACTCTTCAAACTTTTCAAAGAGGAAAAGAAAACCCTTTTATGTTAGTCAAATA
27866319 ATGATATTTAGGTAACCACTGAAA
196 ATGATATTTAGGTAACCACTGAAA
*
27866343 AAAGGTTGGAAAATATACCTTAAAAAAATCTAATAAGAGCTAACCAATTGTATTATGAAGCCTCT
1 AAAGGTT-GAAAATATACCTTAAAAAAATCTAATAAGAGCTAACCAATTATATTATGAAGCCTCT
* * * *
27866408 ATCTAAATCACAAACCACGGTGGCAACAAATCGCCCTAGGCTTTACTTGATCCACCCGAAAGAAA
65 ATCTAAATCACAAACCACGGTCGCAACAAATCGCCCTAGCCTATACTTGATCCACCCAAAAGAAA
* *
27866473 AACGAATAGAATAACTCTTCAAACTTTTCAAAGAGGAAAATAAAACCCTTTTCTGTTAGTCAAAT
130 AACGAATAGAATAACTCTTCAAACTTTTCAAAGAGGAAAAGAAAACCCTTTTATGTTAGTCAAAT
*
27866538 AATGATCTTTAGGTAACCACTGAAA
195 AATGATATTTAGGTAACCACTGAAA
27866563 AAAGG
1 AAAGG
27866568 ATAATATCTT
Statistics
Matches: 213, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
218 7 0.03
219 162 0.76
220 44 0.21
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (219 bp):
AAAGGTTGAAAATATACCTTAAAAAAATCTAATAAGAGCTAACCAATTATATTATGAAGCCTCTA
TCTAAATCACAAACCACGGTCGCAACAAATCGCCCTAGCCTATACTTGATCCACCCAAAAGAAAA
ACGAATAGAATAACTCTTCAAACTTTTCAAAGAGGAAAAGAAAACCCTTTTATGTTAGTCAAATA
ATGATATTTAGGTAACCACTGAAA
Found at i:27868953 original size:21 final size:21
Alignment explanation
Indices: 27868929--27868971 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
27868919 TGAAATGAGA
*
27868929 AGTGAATTCTTTGATGGATTC
1 AGTGAATGCTTTGATGGATTC
27868950 AGTGAATGCTTTGATGGATTC
1 AGTGAATGCTTTGATGGATTC
27868971 A
1 A
27868972 ACTTGTTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (21 bp):
AGTGAATGCTTTGATGGATTC
Found at i:27870893 original size:7 final size:7
Alignment explanation
Indices: 27870881--27870908 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
27870871 TAATTTTAGG
27870881 TTGTGAC
1 TTGTGAC
27870888 TTGTGAC
1 TTGTGAC
27870895 TTGTGAC
1 TTGTGAC
27870902 TTGTGAC
1 TTGTGAC
27870909 ATATTATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.29, T:0.43
Consensus pattern (7 bp):
TTGTGAC
Found at i:27873436 original size:18 final size:18
Alignment explanation
Indices: 27873396--27873436 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
27873386 ACATTATAGA
*
27873396 ATAAATTTTAAAAATAAT
1 ATAAATTATAAAAATAAT
* *
27873414 TTAAATTATAAAAATTAT
1 ATAAATTATAAAAATAAT
27873432 ATAAA
1 ATAAA
27873437 ACCTTTTAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAAATTATAAAAATAAT
Found at i:27873476 original size:26 final size:27
Alignment explanation
Indices: 27873422--27873476 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
27873412 ATTTAAATTA
27873422 TAAAAATTATATAAAACCTTTTAATAAT
1 TAAAAATTATATAAAA-CTTTTAATAAT
* * *
27873450 TAAAAATTATTTTAAA-TTTTTATAAT
1 TAAAAATTATATAAAACTTTTAATAAT
27873476 T
1 T
27873477 TTTTTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 10 0.42
28 14 0.58
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (27 bp):
TAAAAATTATATAAAACTTTTAATAAT
Found at i:27873506 original size:21 final size:21
Alignment explanation
Indices: 27873480--27873519 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27873470 TATAATTTTT
27873480 TTAAAAAGTTAAAACAAAAAA
1 TTAAAAAGTTAAAACAAAAAA
**
27873501 TTAAAACTTTAAAACAAAA
1 TTAAAAAGTTAAAACAAAA
27873520 TATTTTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.68, C:0.07, G:0.03, T:0.23
Consensus pattern (21 bp):
TTAAAAAGTTAAAACAAAAAA
Found at i:27873549 original size:12 final size:11
Alignment explanation
Indices: 27873518--27873542 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27873508 TTTAAAACAA
27873518 AATATTTTTAT
1 AATATTTTTAT
27873529 AATATTTTTAT
1 AATATTTTTAT
27873540 AAT
1 AAT
27873543 TCTTTTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
AATATTTTTAT
Found at i:27874687 original size:15 final size:16
Alignment explanation
Indices: 27874669--27874698 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27874659 GGGAAAAGAA
27874669 AATAAA-TTAAAATAT
1 AATAAATTTAAAATAT
27874684 AATAAATTTAAAATA
1 AATAAATTTAAAATA
27874699 AAAAAGAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAATTTAAAATAT
Found at i:27877263 original size:26 final size:28
Alignment explanation
Indices: 27877234--27877301 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
27877224 TTCAAAAGTC
*
27877234 TGTAGTACCTTTTTA-AATT-AAAAATA
1 TGTATTACCTTTTTATAATTAAAAAATA
**
27877260 TGTATTAAATTTTTATAATTAAAAAATA
1 TGTATTACCTTTTTATAATTAAAAAATA
*
27877288 TGCATTACCTTTTT
1 TGTATTACCTTTTT
27877302 TTTAATTGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 12 0.35
27 4 0.12
28 18 0.53
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.47
Consensus pattern (28 bp):
TGTATTACCTTTTTATAATTAAAAAATA
Found at i:27885684 original size:10 final size:10
Alignment explanation
Indices: 27885669--27885700 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
27885659 TGTATAAACT
27885669 AATAGGACGA
1 AATAGGACGA
27885679 AATAGGACGA
1 AATAGGACGA
27885689 AATAGGACGA
1 AATAGGACGA
27885699 AA
1 AA
27885701 ATTAGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.53, C:0.09, G:0.28, T:0.09
Consensus pattern (10 bp):
AATAGGACGA
Found at i:27890222 original size:17 final size:18
Alignment explanation
Indices: 27890202--27890244 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
27890192 TAAAAAAATC
*
27890202 AAAATTTTAAAAA-ATAG
1 AAAATTATAAAAATATAG
*
27890219 AAAA-TATAAAAATATAT
1 AAAATTATAAAAATATAG
27890236 AAAATTATA
1 AAAATTATA
27890245 CAATATTGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 7 0.32
17 11 0.50
18 4 0.18
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (18 bp):
AAAATTATAAAAATATAG
Found at i:27890521 original size:16 final size:15
Alignment explanation
Indices: 27890495--27890528 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
27890485 TATATATGAT
*
27890495 ATTTTCTTTAATTTA
1 ATTTTCTTTAATTAA
27890510 ATTTTACTTTAATTAA
1 ATTTT-CTTTAATTAA
27890526 ATT
1 ATT
27890529 ACATAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTTCTTTAATTAA
Found at i:27893831 original size:29 final size:29
Alignment explanation
Indices: 27893787--27893842 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
27893777 CAAACTTTTG
* * * *
27893787 GGGTGTTATTGTAATTTTTCTAAAGTTAA
1 GGGTGTTACTGCAATTTTACCAAAGTTAA
27893816 GGGTGTTACTGCAATTTTACCAAAGTT
1 GGGTGTTACTGCAATTTTACCAAAGTT
27893843 GGGGCACCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (29 bp):
GGGTGTTACTGCAATTTTACCAAAGTTAA
Found at i:27897402 original size:20 final size:20
Alignment explanation
Indices: 27897379--27897421 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
27897369 TGTAGATTTT
27897379 TTTTGGATTGTATTT-TATTA
1 TTTT-GATTGTATTTGTATTA
**
27897399 TTTTTCTTGTATTTGTATTA
1 TTTTGATTGTATTTGTATTA
27897419 TTT
1 TTT
27897422 GGGAGTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.16, C:0.02, G:0.12, T:0.70
Consensus pattern (20 bp):
TTTTGATTGTATTTGTATTA
Found at i:27901691 original size:14 final size:14
Alignment explanation
Indices: 27901672--27901702 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
27901662 GTCTGTTAAG
27901672 TATTAGTTAACAGT
1 TATTAGTTAACAGT
*
27901686 TATTAGTTAGCAGT
1 TATTAGTTAACAGT
27901700 TAT
1 TAT
27901703 AAATTAACTG
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:0.06, G:0.16, T:0.45
Consensus pattern (14 bp):
TATTAGTTAACAGT
Found at i:27906651 original size:15 final size:15
Alignment explanation
Indices: 27906627--27906656 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27906617 ACACATTATA
*
27906627 TTCTATATATATAGT
1 TTCTAAATATATAGT
27906642 TTCTAAATATATAGT
1 TTCTAAATATATAGT
27906657 ATGCTAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (15 bp):
TTCTAAATATATAGT
Found at i:27907054 original size:12 final size:10
Alignment explanation
Indices: 27907025--27907071 Score: 58
Period size: 10 Copynumber: 4.4 Consensus size: 10
27907015 AATCAGAAGC
27907025 AAAATTTATT
1 AAAATTTATT
27907035 AAAATTTATT
1 AAAATTTATT
*
27907045 ATATAATTTATA
1 A-A-AATTTATT
27907057 AAAATTTTATT
1 AAAA-TTTATT
27907068 AAAA
1 AAAA
27907072 AATAACAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 13 0.41
11 11 0.34
12 8 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
AAAATTTATT
Found at i:27910609 original size:20 final size:21
Alignment explanation
Indices: 27910566--27910615 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
27910556 TGTCAATCCA
*
27910566 GTATCGATA-CTTTTCTTAAC
1 GTATCGATATATTTTCTTAAC
*
27910586 GTATCGATATATTTTC-TAAG
1 GTATCGATATATTTTCTTAAC
*
27910606 GTATCAATAT
1 GTATCGATAT
27910616 TCCTGCTCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (21 bp):
GTATCGATATATTTTCTTAAC
Found at i:27912115 original size:12 final size:12
Alignment explanation
Indices: 27912098--27912149 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
27912088 ATGAGTTATT
27912098 TAAGT-AAGCAAG
1 TAAGTAAAG-AAG
27912110 TAAGTAAAGAAG
1 TAAGTAAAGAAG
27912122 TAAG---AG-AG
1 TAAGTAAAGAAG
27912130 TAAGTAAAGAAG
1 TAAGTAAAGAAG
*
27912142 AAAGTAAA
1 TAAGTAAA
27912150 TATCATGAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
8 6 0.18
9 2 0.06
11 2 0.06
12 21 0.62
13 3 0.09
ACGTcount: A:0.58, C:0.02, G:0.25, T:0.15
Consensus pattern (12 bp):
TAAGTAAAGAAG
Found at i:27912124 original size:20 final size:20
Alignment explanation
Indices: 27912099--27912141 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
27912089 TGAGTTATTT
27912099 AAGTAAGCA-AGTAAGTAAAG
1 AAGTAAG-AGAGTAAGTAAAG
27912119 AAGTAAGAGAGTAAGTAAAG
1 AAGTAAGAGAGTAAGTAAAG
27912139 AAG
1 AAG
27912142 AAAGTAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.56, C:0.02, G:0.28, T:0.14
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAG
Found at i:27915269 original size:31 final size:32
Alignment explanation
Indices: 27915234--27915296 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
27915224 ATCTTTATAC
* *
27915234 CTTAAATTGAAAAGGATTTTTA-TATAGGGGG
1 CTTAAATTGAAAAGGACTTTTATTAAAGGGGG
*
27915265 CTTAAATTGAAAATGACTTTTATTAAAGGGGG
1 CTTAAATTGAAAAGGACTTTTATTAAAGGGGG
27915297 AGCAACCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.35
Consensus pattern (32 bp):
CTTAAATTGAAAAGGACTTTTATTAAAGGGGG
Found at i:27917196 original size:25 final size:25
Alignment explanation
Indices: 27917116--27917197 Score: 62
Period size: 25 Copynumber: 3.3 Consensus size: 25
27917106 TAAACTCCTC
* *
27917116 CGAGCTGAATATC-AGTACGCTCATA
1 CGAGCTGAAAATCGA-TAAGCTCATA
** *
27917141 CGAGCTGAGTATCGGTAAGCTC-TCA
1 CGAGCTGAAAATCGATAAGCTCAT-A
*
27917166 CAAGCT-ACAAATCGATAAGCTCATA
1 CGAGCTGA-AAATCGATAAGCTCATA
27917191 CGAGCTG
1 CGAGCTG
27917198 CGGTTAGTCC
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
24 2 0.05
25 41 0.93
26 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (25 bp):
CGAGCTGAAAATCGATAAGCTCATA
Found at i:27924905 original size:25 final size:24
Alignment explanation
Indices: 27924877--27924956 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 24
27924867 TGAACTCCTC
27924877 CGAGCTAAATATCGGTAAGCTCATA
1 CGAGCTAAA-ATCGGTAAGCTCATA
* * *
27924902 CGAGCTGAGATCAGTAAGCTC-TCA
1 CGAGCTAAAATCGGTAAGCTCAT-A
* *
27924926 TGAGCTACAAATTGGTAAGCTCATA
1 CGAGCTA-AAATCGGTAAGCTCATA
*
27924951 CAAGCT
1 CGAGCT
27924957 GCGATGAGTC
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
23 1 0.02
24 17 0.40
25 23 0.55
26 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (24 bp):
CGAGCTAAAATCGGTAAGCTCATA
Found at i:27926896 original size:373 final size:373
Alignment explanation
Indices: 27926204--27926958 Score: 1420
Period size: 373 Copynumber: 2.0 Consensus size: 373
27926194 ACACTCCCTA
*
27926204 TCGATGATTTTGAGTTGACCCTTTCGAGCTAACAATTTTGCTTTTACATTTTGAGGGTTCTTGGT
1 TCGATGATTTTGAGTTGACCCTTTCGAGCTAACAATTTTGCGTTTACATTTTGAGGGTTCTTGGT
27926269 TTTTGGGTTTTGGGGTTTAATTTTTGTCTCCATCTTTTGTACTCTTCGTTCTTTTGCCATTATAG
66 TTTTGGGTTTTGGGGTTTAATTTTTGTCTCCATCTTTTGTACTCTTCGTTCTTTTGCCATTATAG
*
27926334 TAAAATTACATTTGCTTGTCGTTTTTTATGCTCTTTAGAGGGGGGTTTCCATGTTTAATTTGTGT
131 TAAAATTACATTTGCTCGTCGTTTTTTATGCTCTTTAGAGGGGGGTTTCCATGTTTAATTTGTGT
27926399 GTTCAATTTCTCATTTTATTCAGCTATTTTTACTTGTTCATTGTTTAATTTAGTCGATCTCCAAC
196 GTTCAATTTCTCATTTTATTCAGCTATTTTTACTTGTTCATTGTTTAATTTAGTCGATCTCCAAC
* *
27926464 AGGTGGTTTCAGAGCTAGTTCAATTTTCGTAGATCAGCCCATTCATATATGGTAGCAATAAGGTT
261 AAGTGGTTTCAGAGCTAGTTCAATTTTCGTAGATCAGCCCATTCATATATGGCAGCAATAAGGTT
27926529 TGACATTGAGAAGTTTGATGGTGTTACAAATTTCAATATGTGGCAAGT
326 TGACATTGAGAAGTTTGATGGTGTTACAAATTTCAATATGTGGCAAGT
27926577 TCGATGATTTTGAGTTGACCCTTTCGAGCTAACAATTTTGCGTTTACATTTTGAGGGTTCTTGGT
1 TCGATGATTTTGAGTTGACCCTTTCGAGCTAACAATTTTGCGTTTACATTTTGAGGGTTCTTGGT
*
27926642 TTTTGGGTTTTGGGGTTTAGTTTTTGTCTCCATCTTTTGTACTCTTCGTTCTTTTGCCATTATAG
66 TTTTGGGTTTTGGGGTTTAATTTTTGTCTCCATCTTTTGTACTCTTCGTTCTTTTGCCATTATAG
* * * *
27926707 TAAAATTACATTTGCTCGTGGTTTTTTATGCTCTTTAGAGGGGGTTTTCCGTGTTTAATTTTTGT
131 TAAAATTACATTTGCTCGTCGTTTTTTATGCTCTTTAGAGGGGGGTTTCCATGTTTAATTTGTGT
27926772 GTTCAATTTCTCATTTTATTCAGCTATTTTTACTTGTTCATTGTTTAATTTAGTCGATCTCCAAC
196 GTTCAATTTCTCATTTTATTCAGCTATTTTTACTTGTTCATTGTTTAATTTAGTCGATCTCCAAC
27926837 AAGTGGTTTCAGAGCTAGTTCAATTTTCGTAGATCAGCCCATTCATATATGGCAGCAATAAGGTT
261 AAGTGGTTTCAGAGCTAGTTCAATTTTCGTAGATCAGCCCATTCATATATGGCAGCAATAAGGTT
27926902 TGACATTGAGAAGTTTGATGGTGTTACAAATTTCAATATGTGGCAAGT
326 TGACATTGAGAAGTTTGATGGTGTTACAAATTTCAATATGTGGCAAGT
27926950 TCGAATGAT
1 TCG-ATGAT
27926959 GGCAATTTTA
Statistics
Matches: 372, Mismatches: 9, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
373 367 0.99
374 5 0.01
ACGTcount: A:0.21, C:0.14, G:0.20, T:0.45
Consensus pattern (373 bp):
TCGATGATTTTGAGTTGACCCTTTCGAGCTAACAATTTTGCGTTTACATTTTGAGGGTTCTTGGT
TTTTGGGTTTTGGGGTTTAATTTTTGTCTCCATCTTTTGTACTCTTCGTTCTTTTGCCATTATAG
TAAAATTACATTTGCTCGTCGTTTTTTATGCTCTTTAGAGGGGGGTTTCCATGTTTAATTTGTGT
GTTCAATTTCTCATTTTATTCAGCTATTTTTACTTGTTCATTGTTTAATTTAGTCGATCTCCAAC
AAGTGGTTTCAGAGCTAGTTCAATTTTCGTAGATCAGCCCATTCATATATGGCAGCAATAAGGTT
TGACATTGAGAAGTTTGATGGTGTTACAAATTTCAATATGTGGCAAGT
Found at i:27930919 original size:20 final size:20
Alignment explanation
Indices: 27930894--27930933 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
27930884 AATATTTTTC
*
27930894 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
27930914 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
27930934 TCATTTTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:27930935 original size:34 final size:35
Alignment explanation
Indices: 27930882--27930948 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
27930872 CAAACACCAG
* * *
27930882 AAAATATTTTTCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAAAAAAGT
27930917 AAAACATTTTCCAG-AAATCATTTTACAAAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAAAAAA
27930949 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAAAAAAGT
Found at i:27938123 original size:40 final size:40
Alignment explanation
Indices: 27938072--27939016 Score: 1442
Period size: 40 Copynumber: 23.6 Consensus size: 40
27938062 CATTTGAATG
27938072 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
27938112 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* **
27938152 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
27938192 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* **
27938232 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
27938272 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* **
27938312 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
27938352 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* **
27938392 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
27938432 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* **
27938472 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
27938512 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* **
27938552 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
27938592 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* **
27938632 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
27938672 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* **
27938712 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
27938752 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* **
27938792 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
27938832 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* **
27938872 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
27938912 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * * *
27938952 ATATTCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
27938992 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
27939017 ATTGAGCTTG
Statistics
Matches: 812, Mismatches: 91, Indels: 4
0.90 0.10 0.00
Matches are distributed among these distances:
39 2 0.00
40 809 1.00
41 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:27939035 original size:80 final size:80
Alignment explanation
Indices: 27938072--27939016 Score: 1739
Period size: 80 Copynumber: 11.8 Consensus size: 80
27938062 CATTTGAATG
* **
27938072 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
27938137 TTTGTGCGAACTGAT
66 TTTGTGCGAACTGAT
27938152 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
27938217 TTTGTGCGAACTGAT
66 TTTGTGCGAACTGAT
27938232 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
27938297 TTTGTGCGAACTGAT
66 TTTGTGCGAACTGAT
27938312 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
27938377 TTTGTGCGAACTGAT
66 TTTGTGCGAACTGAT
27938392 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
27938457 TTTGTGCGAACTGAT
66 TTTGTGCGAACTGAT
27938472 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
27938537 TTTGTGCGAACTGAT
66 TTTGTGCGAACTGAT
27938552 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
27938617 TTTGTGCGAACTGAT
66 TTTGTGCGAACTGAT
27938632 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
27938697 TTTGTGCGAACTGAT
66 TTTGTGCGAACTGAT
27938712 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
27938777 TTTGTGCGAACTGAT
66 TTTGTGCGAACTGAT
*
27938792 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
27938857 TTTGTGCGAACTGAT
66 TTTGTGCGAACTGAT
27938872 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
* *
27938937 ATTGTGC-AAGTTGAT
66 TTTGTGCGAA-CTGAT
* * ** * * * * *
27938952 ATATTCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
27939017 ATTGAGCTTG
Statistics
Matches: 848, Mismatches: 16, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
79 2 0.00
80 846 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAACTGAT
Found at i:27948194 original size:45 final size:45
Alignment explanation
Indices: 27948133--27948294 Score: 243
Period size: 45 Copynumber: 3.6 Consensus size: 45
27948123 TTGAAAAAAC
**
27948133 GAATAAGACCATAGTTGAAAGACACCGTGACACTATACCGGAAAT
1 GAATAAGACCATAGTTGAAAGACACTATGACACTATACCGGAAAT
* * *
27948178 AAATAAGACCATAGTTGAAAGACATTATGGCACTATACCGGAAAT
1 GAATAAGACCATAGTTGAAAGACACTATGACACTATACCGGAAAT
* * *
27948223 GAATAAAACCATAGTTGAAAGTCACTATGACACTATAACGGAAAT
1 GAATAAGACCATAGTTGAAAGACACTATGACACTATACCGGAAAT
*
27948268 GAATAAGACCTTAGTTGAAAGACACTA
1 GAATAAGACCATAGTTGAAAGACACTA
27948295 AGGCAACATG
Statistics
Matches: 103, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 103 1.00
ACGTcount: A:0.44, C:0.17, G:0.18, T:0.21
Consensus pattern (45 bp):
GAATAAGACCATAGTTGAAAGACACTATGACACTATACCGGAAAT
Found at i:27948313 original size:45 final size:44
Alignment explanation
Indices: 27948133--27948334 Score: 226
Period size: 45 Copynumber: 4.5 Consensus size: 44
27948123 TTGAAAAAAC
** *
27948133 GAATAAGACCATAGTTGAAAGACACCGTGACACTATACCGGAAAT
1 GAATAAGACCATAGTTGAAAGACACTATGGCACTATA-CGGAAAT
* *
27948178 AAATAAGACCATAGTTGAAAGACATTATGGCACTATACCGGAAAT
1 GAATAAGACCATAGTTGAAAGACACTATGGCACTATA-CGGAAAT
* * *
27948223 GAATAAAACCATAGTTGAAAGTCACTATGACACTATAACGGAAAT
1 GAATAAGACCATAGTTGAAAGACACTATGGCACTAT-ACGGAAAT
* * *
27948268 GAATAAGACCTTAGTTGAAAGACACTAAGGCAAC-ATGACGAAAAT
1 GAATAAGACCATAGTTGAAAGACACTATGGC-ACTAT-ACGGAAAT
* * *
27948313 GAATAGGACCATAATGGAAAGA
1 GAATAAGACCATAGTTGAAAGA
27948335 TCCAGCGTCC
Statistics
Matches: 134, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
45 131 0.98
46 3 0.02
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (44 bp):
GAATAAGACCATAGTTGAAAGACACTATGGCACTATACGGAAAT
Found at i:27948324 original size:90 final size:90
Alignment explanation
Indices: 27948128--27948334 Score: 256
Period size: 90 Copynumber: 2.3 Consensus size: 90
27948118 TTCGCTTGAA
* * *
27948128 AAAACGAATAAGACCATAGTTGAAAGACACCGTGACACTATACCGGAAATAAATAAGACCATAGT
1 AAAATGAATAAGACCATAGTTGAAAGACACCATGACACTATAACGGAAATAAATAAGACCATAGT
* *
27948193 TGAAAGACATTATGGCACTATACCG
66 TGAAAGACACTAAGGCACTATACCG
* * * * * *
27948218 GAAATGAATAAAACCATAGTTGAAAGTCACTATGACACTATAACGGAAATGAATAAGACCTTAGT
1 AAAATGAATAAGACCATAGTTGAAAGACACCATGACACTATAACGGAAATAAATAAGACCATAGT
27948283 TGAAAGACACTAAGGCAAC-ATGA-CG
66 TGAAAGACACTAAGGC-ACTAT-ACCG
* * *
27948308 AAAATGAATAGGACCATAATGGAAAGA
1 AAAATGAATAAGACCATAGTTGAAAGA
27948335 TCCAGCGTCC
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
90 95 0.97
91 3 0.03
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (90 bp):
AAAATGAATAAGACCATAGTTGAAAGACACCATGACACTATAACGGAAATAAATAAGACCATAGT
TGAAAGACACTAAGGCACTATACCG
Found at i:27949188 original size:16 final size:17
Alignment explanation
Indices: 27949169--27949203 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
27949159 GATTAAAAAT
27949169 TTAAGGGTTTTGA-AGG
1 TTAAGGGTTTTGAGAGG
27949185 TTAAGGGTTTTGAGAGG
1 TTAAGGGTTTTGAGAGG
27949202 TT
1 TT
27949204 TTAGAGGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (17 bp):
TTAAGGGTTTTGAGAGG
Found at i:27952927 original size:19 final size:18
Alignment explanation
Indices: 27952903--27952955 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
27952893 TTTATTAAAG
27952903 AAAGGAAACAAAATAACTA
1 AAAGGAAACAAAATAA-TA
* *
27952922 AAAGGAATCTAAATCAATA
1 AAAGGAAACAAAAT-AATA
*
27952941 AAATGAAA-AAAATAA
1 AAAGGAAACAAAATAA
27952956 AAAGATTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 2 0.07
18 4 0.14
19 20 0.71
20 2 0.07
ACGTcount: A:0.68, C:0.08, G:0.09, T:0.15
Consensus pattern (18 bp):
AAAGGAAACAAAATAATA
Found at i:27957352 original size:40 final size:40
Alignment explanation
Indices: 27957269--27957438 Score: 168
Period size: 41 Copynumber: 4.2 Consensus size: 40
27957259 CAAACACATC
* * *
27957269 CCTTTTCATTTGTTATCCTTTCCGGAT-A-TCAC-TTTCAA
1 CCTTTTCATGTGTTATCCTTTTCGAATAACTC-CTTTTCAA
* * * *
27957307 ACTTTTCATTTGATATCCTTTTTGAATATA-TCCTTTTCAA
1 CCTTTTCATGTGTTATCCTTTTCGAATA-ACTCCTTTTCAA
* *
27957347 CCTTTTCATGTGTTATCCTTTTCGGATAACTTTCTTTTCAA
1 CCTTTTCATGTGTTATCCTTTTCGAATAAC-TCCTTTTCAA
* *
27957388 CATTTTCATGTGTTATTCTTTTCGAATAACTTCCTTTTCAA
1 CCTTTTCATGTGTTATCCTTTTCGAATAAC-TCCTTTTCAA
*
27957429 CCATTTCATG
1 CCTTTTCATG
27957439 GATTCGAAAA
Statistics
Matches: 110, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 22 0.20
39 2 0.02
40 32 0.29
41 54 0.49
ACGTcount: A:0.21, C:0.22, G:0.08, T:0.50
Consensus pattern (40 bp):
CCTTTTCATGTGTTATCCTTTTCGAATAACTCCTTTTCAA
Found at i:27958464 original size:21 final size:21
Alignment explanation
Indices: 27958438--27958480 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
27958428 GATATGGTAT
27958438 ATTTATTCATTAAATCCGTTA
1 ATTTATTCATTAAATCCGTTA
*
27958459 ATTTATTCATTAAATTCGTTA
1 ATTTATTCATTAAATCCGTTA
27958480 A
1 A
27958481 CTTAAGATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.49
Consensus pattern (21 bp):
ATTTATTCATTAAATCCGTTA
Found at i:27961538 original size:15 final size:15
Alignment explanation
Indices: 27961518--27961554 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
27961508 GTGAAGTGTT
*
27961518 AAATGTTGATAAAAC
1 AAATGTCGATAAAAC
27961533 AAATGTCGATAAAAC
1 AAATGTCGATAAAAC
27961548 AAATGTC
1 AAATGTC
27961555 AAGTGAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.24
Consensus pattern (15 bp):
AAATGTCGATAAAAC
Found at i:27961803 original size:23 final size:23
Alignment explanation
Indices: 27961730--27961812 Score: 87
Period size: 23 Copynumber: 3.6 Consensus size: 23
27961720 ATTATTTCTA
27961730 TACG-TGCAAGTGATAATGGCAC
1 TACGATGCAAGTGATAATGGCAC
* * *
27961752 TACGTTGCAAGTGAAAATGACAC
1 TACGATGCAAGTGATAATGGCAC
* *
27961775 TACGATGCAAGTGTTAGTGGCAC
1 TACGATGCAAGTGATAATGGCAC
* *
27961798 TTCGATACAAAGTGA
1 TACGATGC-AAGTGA
27961813 CATCCTCATA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
22 4 0.08
23 40 0.82
24 5 0.10
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (23 bp):
TACGATGCAAGTGATAATGGCAC
Found at i:27963151 original size:29 final size:29
Alignment explanation
Indices: 27963122--27963195 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
27963112 TATTAATATA
*
27963122 AATAATATTA-GAATATTTTTATTTTTAT
1 AATAATATTATAAATATTTTTATTTTTAT
* *
27963150 AATTATTTTATAAATATTTTTATTTTT-T
1 AATAATATTATAAATATTTTTATTTTTAT
* *
27963178 GAATTATTTTATAAATAT
1 -AATAATATTATAAATAT
27963196 AATAAGGTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
28 9 0.22
29 32 0.78
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (29 bp):
AATAATATTATAAATATTTTTATTTTTAT
Found at i:27963157 original size:12 final size:12
Alignment explanation
Indices: 27963140--27963172 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
27963130 TAGAATATTT
27963140 TTATTTTTATAA
1 TTATTTTTATAA
27963152 TTA-TTTTATAA
1 TTATTTTTATAA
*
27963163 ATATTTTTAT
1 TTATTTTTAT
27963173 TTTTTGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATTTTTATAA
Found at i:27963160 original size:11 final size:11
Alignment explanation
Indices: 27963144--27963191 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
27963134 ATATTTTTAT
27963144 TTTTATAATTA
1 TTTTATAATTA
*
27963155 TTTTATAAATA
1 TTTTATAATTA
27963166 TTTT-T-ATT-
1 TTTTATAATTA
*
27963174 TTTT-GAATTA
1 TTTTATAATTA
27963184 TTTTATAA
1 TTTTATAA
27963192 ATATAATAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
8 4 0.13
9 5 0.17
10 5 0.17
11 16 0.53
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (11 bp):
TTTTATAATTA
Found at i:27981374 original size:44 final size:44
Alignment explanation
Indices: 27981326--27981414 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
27981316 TTAGAAAACT
*
27981326 ATGAAGTTTTACTGAAAAATATGCAAAA-TCTATAAACAAAACCC
1 ATGAAATTTTACTGAAAAATATGCAAAACT-TATAAACAAAACCC
* * *
27981370 ATGAAATTTTACTGAATAATGTTCAAAACTTATAAACAAAACCC
1 ATGAAATTTTACTGAAAAATATGCAAAACTTATAAACAAAACCC
27981414 A
1 A
27981415 GAATAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 39 0.98
45 1 0.03
ACGTcount: A:0.49, C:0.16, G:0.08, T:0.27
Consensus pattern (44 bp):
ATGAAATTTTACTGAAAAATATGCAAAACTTATAAACAAAACCC
Found at i:27996148 original size:43 final size:43
Alignment explanation
Indices: 27996101--27996200 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 43
27996091 TTAGGGTCTT
*
27996101 TAGCGGCAC-TTTTCCTACAAATGCCGCTAAAGAACATGATCTG
1 TAGCGGCACTTTTTCC-ACAAACGCCGCTAAAGAACATGATCTG
* * * *
27996144 TAGCGGCGCTTTTTCCACAAACGCCGCTAAAGATCATGACCTT
1 TAGCGGCACTTTTTCCACAAACGCCGCTAAAGAACATGATCTG
* *
27996187 TAGTGGCGCTTTTT
1 TAGCGGCACTTTTT
27996201 TAAAAATGCC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
43 44 0.88
44 6 0.12
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (43 bp):
TAGCGGCACTTTTTCCACAAACGCCGCTAAAGAACATGATCTG
Found at i:27996579 original size:21 final size:21
Alignment explanation
Indices: 27996534--27996582 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
27996524 TCTACGCTGC
*
27996534 TCTGCTTCCCTCGCTGCAGCC
1 TCTGCTTCCCTCGCTGCAGCA
*
27996555 TCTGCTTCTCTCGCTGTC-GCA
1 TCTGCTTCCCTCGCTG-CAGCA
27996576 TCTGCTT
1 TCTGCTT
27996583 TAAGCTACAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.04, C:0.41, G:0.18, T:0.37
Consensus pattern (21 bp):
TCTGCTTCCCTCGCTGCAGCA
Found at i:27996921 original size:29 final size:29
Alignment explanation
Indices: 27996889--27996992 Score: 97
Period size: 29 Copynumber: 3.4 Consensus size: 29
27996879 CTATCACTGG
27996889 AAGTTATTTATGTAGGCTATGTATTATGC
1 AAGTTATTTATGTAGGCTATGTATTATGC
* * *
27996918 AAGTTATTTATGTAAG-TGGTGTATTATGT
1 AAGTTATTTATGTAGGCT-ATGTATTATGC
27996947 AAGTTATGTAAGTTATGTAGGCTATGTATTAT-C
1 AAGTTA--T---TTATGTAGGCTATGTATTATGC
27996980 TAAGTT-TTTATGT
1 -AAGTTATTTATGT
27996993 TATTATGTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
28 7 0.11
29 30 0.49
31 2 0.03
34 21 0.34
35 1 0.02
ACGTcount: A:0.28, C:0.04, G:0.21, T:0.47
Consensus pattern (29 bp):
AAGTTATTTATGTAGGCTATGTATTATGC
Found at i:27996953 original size:9 final size:9
Alignment explanation
Indices: 27996941--27997014 Score: 55
Period size: 9 Copynumber: 8.2 Consensus size: 9
27996931 AAGTGGTGTA
27996941 TTATGTAAG
1 TTATGTAAG
27996950 TTATGTAAG
1 TTATGTAAG
*
27996959 TTATGTAGG
1 TTATGTAAG
*
27996968 CTATGT-A-
1 TTATGTAAG
*
27996975 TTATCTAAG
1 TTATGTAAG
*
27996984 TTTTTATGTTA-
1 ---TTATGTAAG
27996995 TTATGTAAG
1 TTATGTAAG
*
27997004 TTATGCAAG
1 TTATGTAAG
27997013 TT
1 TT
27997015 TCTATATAAC
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
7 4 0.08
8 8 0.16
9 32 0.64
12 6 0.12
ACGTcount: A:0.28, C:0.04, G:0.19, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:27996965 original size:25 final size:25
Alignment explanation
Indices: 27996925--27997014 Score: 67
Period size: 25 Copynumber: 3.4 Consensus size: 25
27996915 TGCAAGTTAT
**
27996925 TTATGTAAGTGGTGTATTATGTAAG
1 TTATGTAAGTTATGTATTATGTAAG
*
27996950 TTATGTAAGTTATGTAGGCTATGT-A-
1 TTATGTAAGTTATGTA--TTATGTAAG
*
27996975 TTATCTAAGTTTTTATGTTATTATGTAAG
1 TTATGTAAG---TTATG-TATTATGTAAG
*
27997004 TTATGCAAGTT
1 TTATGTAAGTT
27997015 TCTATATAAC
Statistics
Matches: 50, Mismatches: 7, Indels: 15
0.69 0.10 0.21
Matches are distributed among these distances:
25 22 0.44
26 3 0.06
27 10 0.20
28 6 0.12
29 9 0.18
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.48
Consensus pattern (25 bp):
TTATGTAAGTTATGTATTATGTAAG
Found at i:27997008 original size:63 final size:63
Alignment explanation
Indices: 27996896--27997014 Score: 154
Period size: 63 Copynumber: 1.9 Consensus size: 63
27996886 TGGAAGTTAT
* *
27996896 TTATGTAGGCTATGTATTATGCAAGTTATTTATGTAAGTGGTGTATTATGTAAGTTATGTAAG
1 TTATGTAGGCTATGTATTATGCAAGTTATTTATGTAAGTGATGTATTATGCAAGTTATGTAAG
* *
27996959 TTATGTAGGCTATGTATTAT-CTAAGTT-TTTATGTTA-TTATGTAAGTTATGCAAGTT
1 TTATGTAGGCTATGTATTATGC-AAGTTATTTATGTAAGTGATGT-A-TTATGCAAGTT
27997015 TCTATATAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
61 4 0.08
62 10 0.20
63 35 0.71
ACGTcount: A:0.28, C:0.04, G:0.21, T:0.47
Consensus pattern (63 bp):
TTATGTAGGCTATGTATTATGCAAGTTATTTATGTAAGTGATGTATTATGCAAGTTATGTAAG
Done.