Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 107 of 222
Found at i:34125547 original size:23 final size:23
Alignment explanation
Indices: 34125521--34125572 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
34125511 TAGAATTTTC
34125521 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
34125544 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
34125567 CTAAAT
1 CTAAAT
34125573 TTAAAAATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.38
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:34125585 original size:23 final size:23
Alignment explanation
Indices: 34125521--34125585 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
34125511 TAGAATTTTC
** *
34125521 CTAAATATTATCACTAAATAATT
1 CTAAATATTAAAAATAAATAATT
** *
34125544 CTAAATATTATCACTAAATAATT
1 CTAAATATTAAAAATAAATAATT
34125567 CTAAAT-TTAAAAATCAAAT
1 CTAAATATTAAAAAT-AAAT
34125586 TTAAACTAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 5 0.13
23 33 0.87
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (23 bp):
CTAAATATTAAAAATAAATAATT
Found at i:34129951 original size:20 final size:19
Alignment explanation
Indices: 34129903--34129951 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
34129893 AAAATAAAAT
*
34129903 AAAATAAAAATAGATTCAA
1 AAAATAAAAATAAATTCAA
* *
34129922 AAATACAAAAATAAATTTAA
1 AAA-ATAAAAATAAATTCAA
34129942 GAAAATAAAA
1 -AAAATAAAA
34129952 CAAATGGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.12
20 18 0.75
21 3 0.12
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.20
Consensus pattern (19 bp):
AAAATAAAAATAAATTCAA
Found at i:34130795 original size:13 final size:13
Alignment explanation
Indices: 34130777--34130819 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
34130767 TAGATTTTTC
34130777 CTAAATATTATCA
1 CTAAATATTATCA
34130790 CTAAATA--ATC-
1 CTAAATATTATCA
34130800 CTAAATATTATCA
1 CTAAATATTATCA
34130813 CTAAATA
1 CTAAATA
34130820 ATTCAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:34130802 original size:23 final size:23
Alignment explanation
Indices: 34130775--34130821 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
34130765 GCTAGATTTT
34130775 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
34130798 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
34130821 T
1 T
34130822 TCAAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:34130828 original size:23 final size:23
Alignment explanation
Indices: 34130779--34130828 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
34130769 GATTTTTCCT
*
34130779 AAATATTATCACTAAATAATCCT
1 AAATATTATCACTAAATAATCCA
*
34130802 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATCCA
34130825 AAAT
1 AAAT
34130829 TTAAAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:34137943 original size:3 final size:3
Alignment explanation
Indices: 34137935--34137989 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
34137925 AAAAATTACA
34137935 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
34137983 AAG AAG A
1 AAG AAG A
34137990 CTAAATTAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:34142710 original size:72 final size:72
Alignment explanation
Indices: 34142626--34142764 Score: 217
Period size: 72 Copynumber: 1.9 Consensus size: 72
34142616 CCAAATGAAT
* *
34142626 ATTAAAACTAAATAAAATCTGTTTGGGGATTTATTCCCGCTGTTTC-ACAAATTTTATTCGATTT
1 ATTAAAACTAAATAAAATCCGTTTGGGGATTTATTCCCGCTG-TTCAACAAATTTTATTCCATTT
34142690 TTTTCCAA
65 TTTTCCAA
* * *
34142698 ATTAAAAGTAAATAAAATCCGTTTTGGGATTTATTCCCGCTGTTCAACGAATTTTATTCCATTTT
1 ATTAAAACTAAATAAAATCCGTTTGGGGATTTATTCCCGCTGTTCAACAAATTTTATTCCATTTT
34142763 TT
66 TT
34142765 ATTATTTCTA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
71 3 0.05
72 58 0.95
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (72 bp):
ATTAAAACTAAATAAAATCCGTTTGGGGATTTATTCCCGCTGTTCAACAAATTTTATTCCATTTT
TTTCCAA
Found at i:34142904 original size:89 final size:89
Alignment explanation
Indices: 34142698--34143195 Score: 498
Period size: 89 Copynumber: 5.7 Consensus size: 89
34142688 TTTTTTCCAA
* * * ** * *
34142698 ATTAAAAGT-AAATAAAATCCGTTTTGGGATTTATTCCCGCTGTTCAACGAATTTTATTCC-ATT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCTACCGTTCAACGGATTTTATTCCAATT
* *** *
34142761 TT--TTATTATTTCTAAATGGGA-A
66 TTGATT-TTATTTCCAAAAACGAGT
* * * * * **
34142783 ATTAAAGTT-AAATAAAATTTGTTTCAGAATTTATTCCTATCGTTCAATAGATTTTATTCCAATT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCTACCGTTCAACGGATTTTATTCCAATT
34142847 TTGATTTTATTTCCAAAAACGAGT
66 TTGATTTTATTTCCAAAAACGAGT
34142871 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCC-AGCCGTTCAACGGATTTTATTCCAAT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCTA-CCGTTCAACGGATTTTATTCCAAT
* **
34142935 TTTCATTTTATTTTTAAAAACGAGT
65 TTTGATTTTATTTCCAAAAACGAGT
* * *
34142960 ATTAAAATTAAAATAAAATCTGTTTCGGAATTTATTCAC-GCCGTTCAACGAATTTTATTCCAAT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTC-CTACCGTTCAACGGATTTTATTCCAAT
* *
34143024 TTTGGTTTTATTTCCAAAAATGAGT
65 TTTGATTTTATTTCCAAAAACGAGT
* * *
34143049 ATTAAAATAAAAATAAAATCTGTTTCGAGATTTATT-CTCACCGTTCAACGGA-TTTATTAC-AT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCT-ACCGTTCAACGGATTTTATTCCAAT
* * * *
34143111 TTTGATTTTGTTGCCAAAAACAAGAA
65 TTTGATTTTATTTCCAAAAACGAG-T
* ** * * *
34143137 ATTAAAATT-AAATAAAATCTGTTCCAAGATTTATTCCTGCCGTTTAACAAGATTTTATT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCTACCGTTCAAC-GGATTTTATT
34143196 TGATTTTATT
Statistics
Matches: 345, Mismatches: 55, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
85 46 0.13
86 5 0.01
87 66 0.19
88 30 0.09
89 197 0.57
90 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (89 bp):
ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCTACCGTTCAACGGATTTTATTCCAATT
TTGATTTTATTTCCAAAAACGAGT
Found at i:34143035 original size:178 final size:175
Alignment explanation
Indices: 34142698--34143195 Score: 571
Period size: 178 Copynumber: 2.8 Consensus size: 175
34142688 TTTTTTCCAA
* * * * * *
34142698 ATTAAAAGT-AAATAAAATCCGTTTTGGGATTTATTCCCGCTGTTCAACGAATTTTATTCCATTT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCAGCCGTTCAACGGATTTTATTCCATTT
*** * * *
34142762 T-TTATTATTTCTAAATGGGA-AATTAAAGTTAAATAAAATTTGTTTCAGAATTTATTCCTATCG
66 TATT-TTATTTCTAAAAACGAGAATTAAAATTAAATAAAATCTGTTTCAGAATTTATTCCTACCG
*
34142825 TTCAATAGATTTTATTCCAATTTTGATTTTATTTCCAAAAACGAGT
130 TTCAAGAGATTTTATTCCAATTTTGATTTTATTTCCAAAAACGAGT
34142871 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCAGCCGTTCAACGGATTTTATTCCAATT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCAGCCGTTCAACGGATTTTATTCC-ATT
* * * *
34142936 TTCATTTTATTTTTAAAAACGAGTATTAAAATTAAAATAAAATCTGTTTCGGAATTTATTCAC-G
65 TT-ATTTTATTTCTAAAAACGAGAATTAAAATT-AAATAAAATCTGTTTCAGAATTTATTC-CTA
* *
34143000 CCGTTCAACGA-ATTTTATTCCAATTTTGGTTTTATTTCCAAAAATGAGT
127 CCGTTCAA-GAGATTTTATTCCAATTTTGATTTTATTTCCAAAAACGAGT
* * *
34143049 ATTAAAATAAAAATAAAATCTGTTTCGAGATTTATTCTCA-CCGTTCAACGGA-TTTATTACATT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTC-CAGCCGTTCAACGGATTTTATTCCATT
* * * * * *
34143112 TTGATTTTGTTGCCAAAAACAAGAAATTAAAATTAAATAAAATCTGTTCCA-AGATTTATTCCTG
65 TT-ATTTTATTTCTAAAAACGAG-AATTAAAATTAAATAAAATCTGTTTCAGA-ATTTATTCCTA
* *
34143176 CCGTTTAACAAGATTTTATT
127 CCGTTCAA-GAGATTTTATT
34143196 TGATTTTATT
Statistics
Matches: 279, Mismatches: 33, Indels: 22
0.84 0.10 0.07
Matches are distributed among these distances:
173 8 0.03
174 46 0.16
175 7 0.03
176 65 0.23
177 34 0.12
178 115 0.41
179 4 0.01
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (175 bp):
ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCAGCCGTTCAACGGATTTTATTCCATTT
TATTTTATTTCTAAAAACGAGAATTAAAATTAAATAAAATCTGTTTCAGAATTTATTCCTACCGT
TCAAGAGATTTTATTCCAATTTTGATTTTATTTCCAAAAACGAGT
Found at i:34143320 original size:167 final size:165
Alignment explanation
Indices: 34143141--34143465 Score: 472
Period size: 167 Copynumber: 2.0 Consensus size: 165
34143131 CAAGAAATTA
* ** *
34143141 AAATTAAATAAAATCTGTTCCAAGATTTATTCCTGCCGTTTAACAAGATTTTATTTGATTTTATT
1 AAATTAAATAAAATCTGTTCCAAGATTTATCCCCACCGTTTAACAAGATTTTATTTGATTTAATT
* * * * *
34143206 TTGTTTCTAAATTAGAATTAAATTAAATTAAATCTGTTTCAAGATATATT-CTTGTCGTTTAACA
66 TTATTTCTAAATTAGAATTAAATTAAATAAAATATGTTTCAAGAT-T-TTCCCT-CCGTTTAACA
* *
34143270 AGATTTTATTTGATTTTATTTTGTTTCCAAATTAGAAT
128 AGATTTTATTCGATATTATTTTGTTTCCAAATTAGAAT
*** *
34143308 AAATTAAATAAAATCTGTTTTGAGATTTATCCCCACCGTTTAACAAGATTTTATTTTATTTAATT
1 AAATTAAATAAAATCTGTTCCAAGATTTATCCCCACCGTTTAACAAGATTTTATTTGATTTAATT
34143373 TTATTTCTAAATTAGAATTAAATTAAATAAAATATGTTTCAAGATTTTCCCTCCGTTTAACAAGA
66 TTATTTCTAAATTAGAATTAAATTAAATAAAATATGTTTCAAGATTTTCCCTCCGTTTAACAAGA
*
34143438 TTTTATTCGATATTGTTTTGTTTCCAAA
131 TTTTATTCGATATTATTTTGTTTCCAAA
34143466 CAAAAACGTA
Statistics
Matches: 141, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
165 39 0.28
166 3 0.02
167 99 0.70
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (165 bp):
AAATTAAATAAAATCTGTTCCAAGATTTATCCCCACCGTTTAACAAGATTTTATTTGATTTAATT
TTATTTCTAAATTAGAATTAAATTAAATAAAATATGTTTCAAGATTTTCCCTCCGTTTAACAAGA
TTTTATTCGATATTATTTTGTTTCCAAATTAGAAT
Found at i:34143363 original size:83 final size:84
Alignment explanation
Indices: 34142697--34143544 Score: 479
Period size: 89 Copynumber: 9.9 Consensus size: 84
34142687 TTTTTTTCCA
* * *** * * * **
34142697 AATTAAAAGTAAATAAAATCCGTTTTGGGATTTATTCCCGCTGTTCAACGA-ATTTTATTCCATT
1 AATT-AAATTAAATAAAATCTGTTTCAAGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATT
* * **
34142761 TT-TTATTATTTCTAAATGGG
65 TTATT-TTGTTTCCAAATTAG
* *** * * **
34142781 AAATTAAAGTTAAATAAAATTTGTTTC-AGAATTTATTCCTATCGTTCAA-TAGATTTTATTCCA
1 -AATTAAA-TTAAATAAAATCTGTTTCAAG-ATTTATTCCCGCCGTTTAACAAGATTTTATT-TG
* *
34142844 ATTTTGATTTTATTTCCAAA-AACG
62 ATTTT-ATTTTGTTTCCAAATTA-G
** * * * *
34142868 AGTATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCAGCCGTTCAAC-GGATTTTATTCC
1 A--ATT-AAATT-AAATAAAATCTGTTTCAAGATTTATTCCCGCCGTTTAACAAGATTTTATT-T
* * ** *
34142932 AATTTTCATTTTATTTTTAAA-AACG
61 GATTTT-ATTTTGTTTCCAAATTA-G
* * * *
34142957 AGTATTAAAATTAAAATAAAATCTGTTTC-GGAATTTATTCACGCCGTTCAACGA-ATTTTATTC
1 A--ATT-AAATT-AAATAAAATCTGTTTCAAG-ATTTATTCCCGCCGTTTAACAAGATTTTATT-
** * * *
34143020 CAATTTTGGTTTTATTTCCAAAAATGAG
60 TGATTTT-ATTTTGTTTCC--AAATTAG
* * * * * * * **
34143048 TATTAAAATAAAAATAAAATCTGTTTCGAGATTTATTCTCACCGTTCAAC-GGA-TTTATTACAT
1 AATT-AAAT-TAAATAAAATCTGTTTCAAGATTTATTCCCGCCGTTTAACAAGATTTTATTTGAT
* **
34143111 TTTGATTTTGTTGCCAAAAACAAG
64 TTT-ATTTTGTTTCC--AAATTAG
* *
34143135 AAATTAAAATTAAATAAAATCTGTTCCAAGATTTATTCCTGCCGTTTAACAAGATTTTATTTGAT
1 -AATT-AAATTAAATAAAATCTGTTTCAAGATTTATTCCCGCCGTTTAACAAGATTTTATTTGAT
*
34143200 TTTATTTTGTTTCTAAATTAG
64 TTTATTTTGTTTCCAAATTAG
* * ** *
34143221 AATTAAATTAAATTAAATCTGTTTCAAGATATATTCTTGTCGTTTAACAAGATTTTATTTGATTT
1 AATTAAATTAAATAAAATCTGTTTCAAGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATTT
34143286 TATTTTGTTTCCAAATTAG
66 TATTTTGTTTCCAAATTAG
** * * *
34143305 AA-TAAATTAAATAAAATCTGTTTTGAGATTTATCCCCACCGTTTAACAAGATTTTATTTTATTT
1 AATTAAATTAAATAAAATCTGTTTCAAGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATTT
* * *
34143369 AATTTTATTTCTAAATTAG
66 TATTTTGTTTCCAAATTAG
* * * *
34143388 AATTAAATTAAATAAAATATGTTTCAAGA-TT-TTCCCTCCGTTTAACAAGATTTTATTCGATAT
1 AATTAAATTAAATAAAATCTGTTTCAAGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATTT
* ** *
34143451 TGTTTTGTTTCCAAACAAA
66 TATTTTGTTTCCAAATTAG
* * * ** * *
34143470 AACGT-AATCAAAT-AATTCTGTTTTGAGATTTATTCCCGTCGTTTAA-TAGATTTTATTTTGAT
1 AA-TTAAATTAAATAAAATCTGTTTCAAGATTTATTCCCGCCGTTTAACAAGATTTTA-TTTGAT
* *
34143532 ATAATTTTGTTTC
64 TTTATTTTGTTTC
34143545 AGGATTTAAT
Statistics
Matches: 629, Mismatches: 105, Indels: 60
0.79 0.13 0.08
Matches are distributed among these distances:
81 11 0.02
82 58 0.09
83 101 0.16
84 104 0.17
85 45 0.07
86 12 0.02
87 65 0.10
88 34 0.05
89 192 0.31
90 2 0.00
91 4 0.01
92 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (84 bp):
AATTAAATTAAATAAAATCTGTTTCAAGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATTT
TATTTTGTTTCCAAATTAG
Found at i:34152991 original size:40 final size:40
Alignment explanation
Indices: 34152943--34153116 Score: 179
Period size: 40 Copynumber: 4.3 Consensus size: 40
34152933 GAATGAATTT
*
34152943 ACATATGTGCCCCTATTTGTACTTCGGTACCCCTGAATGC
1 ACATACGTGCCCCTATTTGTACTTCGGTACCCCTGAATGC
* * * * **
34152983 TCATATGTGCCCTTGTTTGTACTTTAGTACCCCTGAATGC
1 ACATACGTGCCCCTATTTGTACTTCGGTACCCCTGAATGC
* * *
34153023 ACATACATGCCCATGTTTGTACTTCGGTACCCCTGAATGC
1 ACATACGTGCCCCTATTTGTACTTCGGTACCCCTGAATGC
* * * * *
34153063 GCATACGTACCCCTGA-ATGTACTTCGATACACCTGAATGC
1 ACATACGTGCCCCT-ATTTGTACTTCGGTACCCCTGAATGC
* *
34153103 ACTTACATGCCCCT
1 ACATACGTGCCCCT
34153117 GTTTATCCTC
Statistics
Matches: 110, Mismatches: 23, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
40 110 1.00
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.32
Consensus pattern (40 bp):
ACATACGTGCCCCTATTTGTACTTCGGTACCCCTGAATGC
Found at i:34153084 original size:80 final size:80
Alignment explanation
Indices: 34152958--34153120 Score: 220
Period size: 80 Copynumber: 2.0 Consensus size: 80
34152948 TGTGCCCCTA
* * * * ** *
34152958 TTTGTACTTCGGTACCCCTGAATGCTCATATGTGCCCTTGTTTGTACTTTAG-TACCCCTGAATG
1 TTTGTACTTCGGTACCCCTGAATGCGCATACGTACCCCTGAATGTAC-TTAGATACACCTGAATG
34153022 CACATACATGCCCATG
65 CACATACATGCCCATG
*
34153038 TTTGTACTTCGGTACCCCTGAATGCGCATACGTACCCCTGAATGTACTTCGATACACCTGAATGC
1 TTTGTACTTCGGTACCCCTGAATGCGCATACGTACCCCTGAATGTACTTAGATACACCTGAATGC
* *
34153103 ACTTACATGCCCCTG
66 ACATACATGCCCATG
34153118 TTT
1 TTT
34153121 ATCCTCTAGT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
79 3 0.04
80 69 0.96
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (80 bp):
TTTGTACTTCGGTACCCCTGAATGCGCATACGTACCCCTGAATGTACTTAGATACACCTGAATGC
ACATACATGCCCATG
Found at i:34153117 original size:20 final size:20
Alignment explanation
Indices: 34153010--34153117 Score: 67
Period size: 20 Copynumber: 5.4 Consensus size: 20
34153000 TGTACTTTAG
*
34153010 TACCCCTGAATGCACATACA
1 TACCCCTGAATGCACTTACA
* * ** * *
34153030 TGCCCATGTTTGTACTT-CGG
1 TACCCCTGAATGCACTTAC-A
* * *
34153050 TACCCCTGAATGCGCATACG
1 TACCCCTGAATGCACTTACA
*
34153070 TACCCCTGAATGTACTT-CGA
1 TACCCCTGAATGCACTTAC-A
*
34153090 TACACCTGAATGCACTTACA
1 TACCCCTGAATGCACTTACA
*
34153110 TGCCCCTG
1 TACCCCTG
34153118 TTTATCCTCT
Statistics
Matches: 62, Mismatches: 22, Indels: 8
0.67 0.24 0.09
Matches are distributed among these distances:
19 2 0.03
20 58 0.94
21 2 0.03
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (20 bp):
TACCCCTGAATGCACTTACA
Found at i:34154730 original size:40 final size:40
Alignment explanation
Indices: 34154632--34154894 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
34154622 TCCTCGTTCA
* * * * *
34154632 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
34154671 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
34154711 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
34154751 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
34154791 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
34154831 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
34154871 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34154895 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:34154903 original size:41 final size:41
Alignment explanation
Indices: 34154826--34154903 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
34154816 TTAGTATCTC
* * *
34154826 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
34154867 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
34154904 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:34159702 original size:25 final size:25
Alignment explanation
Indices: 34159674--34159763 Score: 103
Period size: 25 Copynumber: 3.6 Consensus size: 25
34159664 TCCTGTACAT
* *
34159674 GTATGCTCATACGAGCTGTGAATCA
1 GTATGCTCATACGAGCTATAAATCA
34159699 GTATGCTCACT-CGAGCTATAAATCA
1 GTATGCTCA-TACGAGCTATAAATCA
**
34159724 GTATGCTC-TCACGAGCTATAAATTG
1 GTATGCTCAT-ACGAGCTATAAATCA
*
34159749 GTATGCTCACACGAG
1 GTATGCTCATACGAG
34159764 TTGTGGAGTA
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
23 1 0.02
25 54 0.96
26 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (25 bp):
GTATGCTCATACGAGCTATAAATCA
Found at i:34160662 original size:20 final size:20
Alignment explanation
Indices: 34160637--34160688 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
34160627 AAAGATTATA
34160637 TTAATTTACTTTTAATTTAC
1 TTAATTTACTTTTAATTTAC
* *
34160657 TTAATTTGTCATTT-ATTTAC
1 TTAATTT-ACTTTTAATTTAC
34160677 -TAA-TTACTTTTA
1 TTAATTTACTTTTA
34160689 TAACATTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
17 4 0.15
18 2 0.08
19 3 0.12
20 13 0.50
21 4 0.15
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.60
Consensus pattern (20 bp):
TTAATTTACTTTTAATTTAC
Found at i:34162617 original size:16 final size:16
Alignment explanation
Indices: 34162596--34162628 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
34162586 TTTTGTTATC
*
34162596 GTATTAACTTAATTTA
1 GTATTAACTGAATTTA
34162612 GTATTAACTGAATTTA
1 GTATTAACTGAATTTA
34162628 G
1 G
34162629 CTAACTCAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (16 bp):
GTATTAACTGAATTTA
Found at i:34166666 original size:40 final size:40
Alignment explanation
Indices: 34166615--34166750 Score: 209
Period size: 40 Copynumber: 3.4 Consensus size: 40
34166605 TATATATGTC
* * *
34166615 CCCCCGTTTGTACTTCGGTACCCTTGAATGCACACACATG
1 CCCCTGTTTGTACTTCGGTACCCCTGAATGCACATACATG
34166655 CCCCTGTTTGTACTTCGGTACCCCTGAATGCACATACATG
1 CCCCTGTTTGTACTTCGGTACCCCTGAATGCACATACATG
* **
34166695 CCCCTGTTTGTACTTCGGTACCCCTGAATGCATATACACA
1 CCCCTGTTTGTACTTCGGTACCCCTGAATGCACATACATG
*
34166735 CCCCTGATTGTACTTC
1 CCCCTGTTTGTACTTC
34166751 AGTCCCTAAC
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.20, C:0.34, G:0.16, T:0.30
Consensus pattern (40 bp):
CCCCTGTTTGTACTTCGGTACCCCTGAATGCACATACATG
Found at i:34166680 original size:20 final size:20
Alignment explanation
Indices: 34166655--34166720 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
34166645 CACACACATG
34166655 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
** * * * *
34166675 CCCCTGAATGCACATAC-ATG
1 CCCCTGTTTGTAC-TTCGGTA
34166695 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
34166715 CCCCTG
1 CCCCTG
34166721 AATGCATATA
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
19 2 0.06
20 28 0.88
21 2 0.06
ACGTcount: A:0.15, C:0.35, G:0.18, T:0.32
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:34166800 original size:78 final size:78
Alignment explanation
Indices: 34166655--34166807 Score: 175
Period size: 78 Copynumber: 1.9 Consensus size: 78
34166645 CACACACATG
* * * ** *
34166655 CCCCTGTTTGTACTTCGGTACCCCTGAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCCT
1 CCCCTGATTGTACTTCAGTA-CCCTGAATGCACATACATGCCCCTGTTTATACCCCGGTAACCCT
34166720 GAATGCATATACACA
65 GAAT-CATATACACA
* * * *
34166735 CCCCTGATTGTACTTCAGT-CCCT-AACTGCACTTATATGCCCTTGTTTATACCCCGGTAACTCT
1 CCCCTGATTGTACTTCAGTACCCTGAA-TGCACATACATGCCCCTGTTTATACCCCGGTAACCCT
34166798 GAATCATATA
65 GAATCATATA
34166808 GTATAGGATT
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
77 8 0.13
78 37 0.60
80 17 0.27
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.32
Consensus pattern (78 bp):
CCCCTGATTGTACTTCAGTACCCTGAATGCACATACATGCCCCTGTTTATACCCCGGTAACCCTG
AATCATATACACA
Found at i:34182263 original size:21 final size:21
Alignment explanation
Indices: 34182237--34182301 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
34182227 TGCTATTTTT
34182237 TATATATTATATAATTTATAA
1 TATATATTATATAATTTATAA
*
34182258 TATATA-TAAATTAAATTTATAA
1 TATATATTATA-T-AATTTATAA
* *
34182280 TAGTATATAATATTA-TTATAA
1 TA-TATATTATATAATTTATAA
34182301 T
1 T
34182302 GTAAACATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
20 3 0.08
21 14 0.39
22 12 0.33
23 5 0.14
24 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TATATATTATATAATTTATAA
Found at i:34182277 original size:22 final size:24
Alignment explanation
Indices: 34182249--34182294 Score: 78
Period size: 22 Copynumber: 2.0 Consensus size: 24
34182239 TATATTATAT
34182249 AATTTATAATA-TATATAA-ATTA
1 AATTTATAATAGTATATAATATTA
34182271 AATTTATAATAGTATATAATATTA
1 AATTTATAATAGTATATAATATTA
34182295 TTATAATGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 11 0.50
23 7 0.32
24 4 0.18
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
AATTTATAATAGTATATAATATTA
Found at i:34191886 original size:27 final size:27
Alignment explanation
Indices: 34191855--34191911 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
34191845 TATTGGTTCC
34191855 TCAGTATACGTCAAATTAGGCTGAAAT
1 TCAGTATACGTCAAATTAGGCTGAAAT
34191882 TCAGTATACGTCAAATTAGGCTGAAAT
1 TCAGTATACGTCAAATTAGGCTGAAAT
34191909 TCA
1 TCA
34191912 ATCTCACTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.30
Consensus pattern (27 bp):
TCAGTATACGTCAAATTAGGCTGAAAT
Found at i:34205809 original size:14 final size:14
Alignment explanation
Indices: 34205790--34205819 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34205780 GCCAGTATTC
34205790 TATGTTGGCATAAT
1 TATGTTGGCATAAT
*
34205804 TATGTTGGCTTAAT
1 TATGTTGGCATAAT
34205818 TA
1 TA
34205820 GTCTTCCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (14 bp):
TATGTTGGCATAAT
Found at i:34206581 original size:8 final size:8
Alignment explanation
Indices: 34206568--34206593 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
34206558 GACCACAAAA
34206568 ATATTGGG
1 ATATTGGG
34206576 ATATTGGG
1 ATATTGGG
34206584 ATATTGGG
1 ATATTGGG
34206592 AT
1 AT
34206594 TAAGGTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.38
Consensus pattern (8 bp):
ATATTGGG
Found at i:34209582 original size:21 final size:21
Alignment explanation
Indices: 34209558--34209622 Score: 59
Period size: 17 Copynumber: 3.2 Consensus size: 21
34209548 GATAGCTCTA
34209558 TTTTACCAGGCAATTGGCTTT
1 TTTTACCAGGCAATTGGCTTT
* *
34209579 TTTTAACC--G---TTAGTTTT
1 TTTT-ACCAGGCAATTGGCTTT
34209596 ATTTTACCAGGCAATTGGCTTT
1 -TTTTACCAGGCAATTGGCTTT
34209618 TTTTA
1 TTTTA
34209623 TCCTGGTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
17 9 0.27
18 4 0.12
19 1 0.03
20 1 0.03
21 9 0.27
22 9 0.27
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.49
Consensus pattern (21 bp):
TTTTACCAGGCAATTGGCTTT
Found at i:34213530 original size:21 final size:20
Alignment explanation
Indices: 34213493--34213546 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
34213483 CGTAGCCTTG
*
34213493 TGTTGAGCCACAACAACCCTA
1 TGTTGAGCCATAACAA-CCTA
* *
34213514 TGTTGAGCCATATCAACCTG
1 TGTTGAGCCATAACAACCTA
*
34213534 TGTTTAGCCATAA
1 TGTTGAGCCATAA
34213547 AGCCTGCATG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (20 bp):
TGTTGAGCCATAACAACCTA
Found at i:34213542 original size:20 final size:21
Alignment explanation
Indices: 34213491--34213546 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
34213481 CACGTAGCCT
*
34213491 TGTGTTGAGCCACAACAACCC
1 TGTGTTGAGCCATAACAACCC
* *
34213512 TATGTTGAGCCATATCAA-CC
1 TGTGTTGAGCCATAACAACCC
*
34213532 TGTGTTTAGCCATAA
1 TGTGTTGAGCCATAA
34213547 AGCCTGCATG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (21 bp):
TGTGTTGAGCCATAACAACCC
Found at i:34217509 original size:37 final size:36
Alignment explanation
Indices: 34217424--34217515 Score: 130
Period size: 37 Copynumber: 2.5 Consensus size: 36
34217414 ATTTGGCGTC
*
34217424 TGAGCATTTGGCGTGTTATCGGTTGGATTAGCTCTT
1 TGAGCATTTGGCGTGTTTTCGGTTGGATTAGCTCTT
*
34217460 TGGAGCACTTGGCGTGTTTTCGGTTGGATTAGCTCTT
1 T-GAGCATTTGGCGTGTTTTCGGTTGGATTAGCTCTT
* *
34217497 ATGAGCGTTTGGCATGTTT
1 -TGAGCATTTGGCGTGTTT
34217516 CAGGTGGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
36 1 0.02
37 47 0.96
38 1 0.02
ACGTcount: A:0.13, C:0.14, G:0.32, T:0.41
Consensus pattern (36 bp):
TGAGCATTTGGCGTGTTTTCGGTTGGATTAGCTCTT
Found at i:34218688 original size:19 final size:19
Alignment explanation
Indices: 34218636--34218678 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
34218626 GTGTGTCCCT
34218636 TATTTT-TTGAAAATTTTCA
1 TATTTTCTTG-AAATTTTCA
*
34218655 TATTTTCTTGAAATTTTCT
1 TATTTTCTTGAAATTTTCA
34218674 TATTT
1 TATTT
34218679 GTTTTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.63
Consensus pattern (19 bp):
TATTTTCTTGAAATTTTCA
Found at i:34219053 original size:27 final size:26
Alignment explanation
Indices: 34219012--34219161 Score: 96
Period size: 27 Copynumber: 5.6 Consensus size: 26
34219002 CATTTTTCGT
*
34219012 CACAAGGTTTCCTTTATTCA-GATT-GC
1 CACAAGGCTTCCTTTA--CATGATTAGC
*
34219038 CACAAGGGCTTCCTTTACATGGTTAGC
1 CACAA-GGCTTCCTTTACATGATTAGC
*
34219065 CACAAAGGCTTCCTTTACATGGA-TA-A
1 CAC-AAGGCTTCCTTTACAT-GATTAGC
34219091 CATCAAAGGCTTCCTTTACATG-TATAGC
1 CA-C-AAGGCTTCCTTTACATGAT-TAGC
* * *
34219119 CACAAAGGCTCCCATTACAGAGATT-GC
1 CAC-AAGGCTTCCTTTACA-TGATTAGC
*
34219146 CACAAAGGCTTTCTTT
1 CAC-AAGGCTTCCTTT
34219162 TCAAATATGC
Statistics
Matches: 102, Mismatches: 11, Indels: 21
0.76 0.08 0.16
Matches are distributed among these distances:
25 2 0.02
26 11 0.11
27 81 0.79
28 7 0.07
29 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (26 bp):
CACAAGGCTTCCTTTACATGATTAGC
Found at i:34219152 original size:54 final size:53
Alignment explanation
Indices: 34219031--34219324 Score: 199
Period size: 54 Copynumber: 5.4 Consensus size: 53
34219021 TCCTTTATTC
* *
34219031 AGATTGCCACAAGGGCTTCCTTTACATGGT-TAGCCACAAAGGCTTCCTTTACATG
1 AGATTGCCACAAAGGCTTCCTTTACAT-GTAT-GCCACAAAGGCTTCCATTACA-G
** *
34219086 -GA-TAACATCAAAGGCTTCCTTTACATGTATAGCCACAAAGGCTCCCATTACAG
1 AGATTGCCA-CAAAGGCTTCCTTTACATGTAT-GCCACAAAGGCTTCCATTACAG
* * ** * * *
34219139 AGATTGCCACAAAGGCTTTCTTTTCAAATATGCCACAAAGGTTTTCATTTC--
1 AGATTGCCACAAAGGCTTCCTTTACATGTATGCCACAAAGGCTTCCATTACAG
* * * * *
34219190 ATATGTGCCACAAAGGCTTCCATTT-TAGGTATGCCACAAAGGATTCCATTTCAG
1 AGAT-TGCCACAAAGGCTTCC-TTTACATGTATGCCACAAAGGCTTCCATTACAG
* * * * *
34219244 ATATTCGCCACAAAGGCTTTCCTTTCAGAGGTCTGCCATAAAGGCATTCC-TCT-CAG
1 AGATT-GCCACAAAGGC-TTCCTTT-ACATGTATGCCACAAAGGC-TTCCAT-TACAG
*
34219300 AGGTTTGCCACAAAGGCTTTCCTTT
1 A-GATTGCCACAAAGGC-TTCCTTT
34219325 TCTGGTGTTT
Statistics
Matches: 196, Mismatches: 28, Indels: 29
0.77 0.11 0.11
Matches are distributed among these distances:
51 3 0.02
52 37 0.19
53 26 0.13
54 78 0.40
55 7 0.04
56 38 0.19
57 7 0.04
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (53 bp):
AGATTGCCACAAAGGCTTCCTTTACATGTATGCCACAAAGGCTTCCATTACAG
Found at i:34219179 original size:26 final size:26
Alignment explanation
Indices: 34219117--34219320 Score: 156
Period size: 26 Copynumber: 7.6 Consensus size: 26
34219107 TACATGTATA
** * *
34219117 GCCACAAAGGCTCCCATTACAGAGATT
1 GCCACAAAGGCTTTCATTTCAGATA-T
* *
34219144 GCCACAAAGGCTTTCTTTTCAAATAT
1 GCCACAAAGGCTTTCATTTCAGATAT
* * *
34219170 GCCACAAAGGTTTTCATTTCATATGT
1 GCCACAAAGGCTTTCATTTCAGATAT
* * *
34219196 GCCACAAAGGCTTCCATTTTAGGTAT
1 GCCACAAAGGCTTTCATTTCAGATAT
* *
34219222 GCCACAAAGGATTCCATTTCAGATATT
1 GCCACAAAGGCTTTCATTTCAGATA-T
* *
34219249 CGCCACAAAGGCTTTCCTTTCAGAGGTCT
1 -GCCACAAAGGCTTTCATTTCAGA--TAT
* * * * *
34219278 GCCATAAAGGCATTCCTCTCAGAGGTTT
1 GCCACAAAGGCTTTCATTTCAGA--TAT
34219306 GCCACAAAGGCTTTC
1 GCCACAAAGGCTTTC
34219321 CTTTTCTGGT
Statistics
Matches: 144, Mismatches: 29, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
26 65 0.45
27 20 0.14
28 57 0.40
29 1 0.01
30 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (26 bp):
GCCACAAAGGCTTTCATTTCAGATAT
Found at i:34219204 original size:52 final size:52
Alignment explanation
Indices: 34219094--34219270 Score: 160
Period size: 52 Copynumber: 3.3 Consensus size: 52
34219084 TGGATAACAT
* * ** * * * *
34219094 CAAAGGCTTCCTTTACATGTATAGCCACAAAGGCTCCCATTACAGAGATTGCCA
1 CAAAGGCTTTCTTTTCAAATAT-GCCACAAAGGATTCCATTTCA-ATATTGCCA
* *
34219148 CAAAGGCTTTCTTTTCAAATATGCCACAAAGGTTTTCATTTC-ATATGTGCCA
1 CAAAGGCTTTCTTTTCAAATATGCCACAAAGGATTCCATTTCAATAT-TGCCA
* **
34219200 CAAAGGCTTCCATTTT-AGGTATGCCACAAAGGATTCCATTTCAGATATTCGCCA
1 CAAAGGCTTTC-TTTTCAAATATGCCACAAAGGATTCCATTTCA-ATATT-GCCA
*
34219254 CAAAGGCTTTCCTTTCA
1 CAAAGGCTTTCTTTTCA
34219271 GAGGTCTGCC
Statistics
Matches: 101, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
51 3 0.03
52 37 0.37
53 24 0.24
54 37 0.37
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (52 bp):
CAAAGGCTTTCTTTTCAAATATGCCACAAAGGATTCCATTTCAATATTGCCA
Found at i:34221818 original size:17 final size:17
Alignment explanation
Indices: 34221796--34221829 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34221786 TATCAGTTGC
*
34221796 TATTTCAATAGCATTTT
1 TATTTCAATAACATTTT
34221813 TATTTCAATAACATTTT
1 TATTTCAATAACATTTT
34221830 CCATTTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.03, T:0.53
Consensus pattern (17 bp):
TATTTCAATAACATTTT
Found at i:34221837 original size:18 final size:17
Alignment explanation
Indices: 34221797--34221838 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
34221787 ATCAGTTGCT
* *
34221797 ATTTCAATAGCATTTTT
1 ATTTCAATAACATTTTC
34221814 ATTTCAATAACATTTTCC
1 ATTTCAATAACATTTT-C
34221832 ATTTCAA
1 ATTTCAA
34221839 AATCAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.33, C:0.17, G:0.02, T:0.48
Consensus pattern (17 bp):
ATTTCAATAACATTTTC
Found at i:34223288 original size:35 final size:34
Alignment explanation
Indices: 34223247--34223346 Score: 119
Period size: 35 Copynumber: 2.9 Consensus size: 34
34223237 AATGCGACGT
* *
34223247 TTAAAAGGTTGGGATAGATAGGTTCTAAGGCAACC
1 TTAAAAGGTTAGGATAGACAGG-TCTAAGGCAACC
* **
34223282 TTAAAAGGGTTAGAATAGACCTGTCTAAGGCAACC
1 TTAAAA-GGTTAGGATAGACAGGTCTAAGGCAACC
*
34223317 TTCAAAAGGTTAGGATAGACACGTCTAAGG
1 TT-AAAAGGTTAGGATAGACAGGTCTAAGG
34223347 TAATTTTTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
35 40 0.73
36 15 0.27
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (34 bp):
TTAAAAGGTTAGGATAGACAGGTCTAAGGCAACC
Found at i:34223291 original size:114 final size:113
Alignment explanation
Indices: 34223087--34223310 Score: 353
Period size: 114 Copynumber: 2.0 Consensus size: 113
34223077 AAGCATACAT
*
34223087 ATGCCGACCTTTAAAGAGTTGGGTCATGCCCACATCAAATGCGACGTTAAAAGGTTGGGATAGAC
1 ATGCCGACCTTTAAAGAGTTGGATCATGCCCACATCAAATGCGACGTTAAAAGGTTGGGATAGAC
34223152 AGGTTCTAAAGCAACCTTAAAAGGGTT-GAGATAGA-CTCGTCTAAGTCC
66 AGGTTCTAAAGCAACCTTAAAAGGGTTAGA-ATAGACCT-GTCTAAGTCC
* **
34223200 ATGCTGACCTTTAAAGAGTTGGATCATGCCCATGTCAAATGCGACGTTTAAAAGGTTGGGATAGA
1 ATGCCGACCTTTAAAGAGTTGGATCATGCCCACATCAAATGCGACG-TTAAAAGGTTGGGATAGA
* *
34223265 TAGGTTCTAAGGCAACCTTAAAAGGGTTAGAATAGACCTGTCTAAG
65 CAGGTTCTAAAGCAACCTTAAAAGGGTTAGAATAGACCTGTCTAAG
34223311 GCAACCTTCA
Statistics
Matches: 102, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
113 42 0.41
114 56 0.55
115 4 0.04
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (113 bp):
ATGCCGACCTTTAAAGAGTTGGATCATGCCCACATCAAATGCGACGTTAAAAGGTTGGGATAGAC
AGGTTCTAAAGCAACCTTAAAAGGGTTAGAATAGACCTGTCTAAGTCC
Found at i:34224192 original size:39 final size:39
Alignment explanation
Indices: 34224143--34224220 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
34224133 ACCAAACTTG
* *
34224143 AATATTCTAACAACTTACGACTACTAAATCCAAAGATAA
1 AATATACTAACAACTTACAACTACTAAATCCAAAGATAA
34224182 AATATACTAACAACTTACAACTACTAAATCCAAAGATAA
1 AATATACTAACAACTTACAACTACTAAATCCAAAGATAA
34224221 CTATTCTCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.51, C:0.21, G:0.04, T:0.24
Consensus pattern (39 bp):
AATATACTAACAACTTACAACTACTAAATCCAAAGATAA
Found at i:34231176 original size:12 final size:12
Alignment explanation
Indices: 34231159--34231183 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34231149 GTCCGTACTG
34231159 AACTTAAATTTT
1 AACTTAAATTTT
34231171 AACTTAAATTTT
1 AACTTAAATTTT
34231183 A
1 A
34231184 GTTACAACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (12 bp):
AACTTAAATTTT
Found at i:34231453 original size:21 final size:20
Alignment explanation
Indices: 34231415--34231453 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
34231405 TGTTGGTGAT
*
34231415 CATTTGGTCATGTTTTGTGC
1 CATTTGGTCATGTCTTGTGC
*
34231435 CATTTGAGTTATGTCTTGT
1 CATTTG-GTCATGTCTTGT
34231454 TTTGGATGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.13, C:0.13, G:0.23, T:0.51
Consensus pattern (20 bp):
CATTTGGTCATGTCTTGTGC
Found at i:34237280 original size:40 final size:39
Alignment explanation
Indices: 34237183--34237404 Score: 196
Period size: 40 Copynumber: 5.6 Consensus size: 39
34237173 TCCTCGTTCA
* * * * *
34237183 AATGCCTTCGGGACATAGCCC-GTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
*
34237221 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
*
34237260 GAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * ** *
34237300 AAAGGCCTTCGGGGCTTAACCCGGAATTCGTACCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
** * * * *
34237340 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
34237381 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34237405 CAGCATTCAA
Statistics
Matches: 153, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
38 20 0.13
39 16 0.10
40 109 0.71
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:34237413 original size:41 final size:41
Alignment explanation
Indices: 34237336--34237413 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
34237326 TTCGTACCTC
* * *
34237336 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
34237377 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
34237414 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:34244761 original size:39 final size:40
Alignment explanation
Indices: 34244716--34244887 Score: 202
Period size: 40 Copynumber: 4.3 Consensus size: 40
34244706 GCTCCTCGTT
* * * *
34244716 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
34244756 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
* * *
34244795 CGAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
* * * * ** * *
34244835 CAAAGGCCTTCGGGGCTTAACCCGGAATTCGTATCTCGGA
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
34244875 CAAATGCCTTCGG
1 CAAATGCCTTCGG
34244888 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
39 35 0.30
40 82 0.70
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
Found at i:34244816 original size:40 final size:39
Alignment explanation
Indices: 34244718--34244940 Score: 196
Period size: 40 Copynumber: 5.6 Consensus size: 39
34244708 TCCTCGTTCA
* * * * *
34244718 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
*
34244757 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
*
34244796 GAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * ** * *
34244836 AAAGGCCTTCGGGGCTTAACCCGGAATTCGTATCTCGGAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
** * * * *
34244876 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
34244917 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34244941 CAGCATTCAA
Statistics
Matches: 153, Mismatches: 27, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
39 37 0.24
40 109 0.71
41 7 0.05
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:34244900 original size:80 final size:78
Alignment explanation
Indices: 34244716--34244940 Score: 218
Period size: 80 Copynumber: 2.8 Consensus size: 78
34244706 GCTCCTCGTT
* * * * * *
34244716 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAAT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
*
34244781 TTTAATAACTCGCA
65 ATTAATAACTCGCA
* * *
34244795 CGAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
** * *
34244860 AATTCGTATCTCGGA
64 AATTAATAACTCGCA
* * * * *
34244875 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAAT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
34244939 GA
63 GA
34244941 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
78 1 0.01
79 38 0.32
80 71 0.60
81 9 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAATACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTAATAACTCGCA
Found at i:34246572 original size:18 final size:18
Alignment explanation
Indices: 34246532--34246572 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
34246522 TTAATCTTTG
34246532 ATTTA-TTATTTTATTTT
1 ATTTATTTATTTTATTTT
*
34246549 AGTTATTTATTTTAATTTT
1 ATTTATTTATTTT-ATTTT
34246568 -TTTAT
1 ATTTAT
34246573 CTGACTGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 11 0.55
19 5 0.25
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTATTTATTTTATTTT
Found at i:34249690 original size:28 final size:28
Alignment explanation
Indices: 34249657--34249713 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
34249647 TATAGTTTTT
34249657 ATAATA-ATGATAAAGGTTATAATAATAA
1 ATAATATATGATAAA-GTTATAATAATAA
* * *
34249685 ATAATATATTATACAGTTATTATAATAA
1 ATAATATATGATAAAGTTATAATAATAA
34249713 A
1 A
34249714 AAAACAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 19 0.76
29 6 0.24
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (28 bp):
ATAATATATGATAAAGTTATAATAATAA
Found at i:34250715 original size:59 final size:60
Alignment explanation
Indices: 34250631--34250748 Score: 143
Period size: 60 Copynumber: 2.0 Consensus size: 60
34250621 ATGGATAAGT
* * * *
34250631 AGTTCGAATGTAAGATTTAATTTC-TTGAGTTGAA-ATTAA-GTTATGAATTATATATATAA
1 AGTTCGAATGTAAGATATAAGTTCTTTGAGCTGAACA-TAATATTATG-ATTATATATATAA
* *
34250690 AGTTTGAATGTATGATATAAGTTCTTTGAGCTGAACATAATATTATGATTATATATATA
1 AGTTCGAATGTAAGATATAAGTTCTTTGAGCTGAACATAATATTATGATTATATATATA
34250749 TATATGCATA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
59 20 0.40
60 24 0.48
61 6 0.12
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.42
Consensus pattern (60 bp):
AGTTCGAATGTAAGATATAAGTTCTTTGAGCTGAACATAATATTATGATTATATATATAA
Found at i:34250874 original size:63 final size:61
Alignment explanation
Indices: 34250749--34250952 Score: 220
Period size: 63 Copynumber: 3.3 Consensus size: 61
34250739 TATATATATA
* * * *
34250749 TATATGCATATATGGTTCAAATATA--TATATAAGTTCTTGAGCTGTATTTAATGTATGAATTT
1 TATATACATATGTGGTTCAAATATAGGT-TACAAGTT-TTGAGCTGAATTTAATGT-TGAATTT
*
34250811 TATATACATATGTGGTTCAAATATAGGTTACAAAGTTTGGAGCTGAATTTAATGTGTGAATTT
1 TATATACATATGTGGTTCAAATATAGGTTAC-AAGTTTTGAGCTGAATTTAATGT-TGAATTT
* * * *
34250874 TACATACATATGTGGTTCGAATATAGGTTACAATTCTTTGAGCTGAATTTTAATGTTGTAA--A
1 TATATACATATGTGGTTCAAATATAGGTTACAAGT-TTTGAGCTGAA-TTTAATGTTG-AATTT
34250936 T-TATACATATGTGGTTC
1 TATATACATATGTGGTTC
34250953 GAATGTTGTT
Statistics
Matches: 124, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
61 15 0.12
62 27 0.22
63 66 0.53
64 16 0.13
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (61 bp):
TATATACATATGTGGTTCAAATATAGGTTACAAGTTTTGAGCTGAATTTAATGTTGAATTT
Found at i:34251144 original size:41 final size:41
Alignment explanation
Indices: 34251082--34251185 Score: 111
Period size: 41 Copynumber: 2.5 Consensus size: 41
34251072 AGGATTAATG
* * * * *
34251082 CCTAGCAGACTTGATGTCGGTGAATTACT-TCAGACTTTATG
1 CCTAGCAGGCTTTATGCCGGTGAAATA-TATCAGACTTTATA
* * * *
34251123 TCTAGCAGGCTTTGTGCCGGTGAAATATATCAGGCTTTGTA
1 CCTAGCAGGCTTTATGCCGGTGAAATATATCAGACTTTATA
34251164 CCTAGCAGGCTTTATGCCGGTG
1 CCTAGCAGGCTTTATGCCGGTG
34251186 TTTTATACAA
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
40 1 0.02
41 50 0.98
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (41 bp):
CCTAGCAGGCTTTATGCCGGTGAAATATATCAGACTTTATA
Found at i:34257801 original size:14 final size:15
Alignment explanation
Indices: 34257777--34257805 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
34257767 TTTTTCTGTG
34257777 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
34257792 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
34257806 GTTTTGTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:34269778 original size:39 final size:40
Alignment explanation
Indices: 34269733--34269904 Score: 202
Period size: 40 Copynumber: 4.3 Consensus size: 40
34269723 GCTCCTCGTT
* * * *
34269733 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
34269773 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
* * *
34269812 CGAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
* * * * ** * *
34269852 CAAAGGCCTTCGGGGCTTAACCCGGAATTCGTATCTCGGA
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
34269892 CAAATGCCTTCGG
1 CAAATGCCTTCGG
34269905 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
39 35 0.30
40 82 0.70
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
Found at i:34269833 original size:40 final size:39
Alignment explanation
Indices: 34269735--34269957 Score: 196
Period size: 40 Copynumber: 5.6 Consensus size: 39
34269725 TCCTCGTTCA
* * * * *
34269735 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
*
34269774 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
*
34269813 GAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * ** * *
34269853 AAAGGCCTTCGGGGCTTAACCCGGAATTCGTATCTCGGAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
** * * * *
34269893 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
34269934 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34269958 CAGCATTCAA
Statistics
Matches: 153, Mismatches: 27, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
39 37 0.24
40 109 0.71
41 7 0.05
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:34269917 original size:80 final size:78
Alignment explanation
Indices: 34269733--34269957 Score: 218
Period size: 80 Copynumber: 2.8 Consensus size: 78
34269723 GCTCCTCGTT
* * * * * *
34269733 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAAT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
*
34269798 TTTAATAACTCGCA
65 ATTAATAACTCGCA
* * *
34269812 CGAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
** * *
34269877 AATTCGTATCTCGGA
64 AATTAATAACTCGCA
* * * * *
34269892 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAAT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
34269956 GA
63 GA
34269958 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
78 1 0.01
79 38 0.32
80 71 0.60
81 9 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAATACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTAATAACTCGCA
Found at i:34271591 original size:18 final size:18
Alignment explanation
Indices: 34271551--34271591 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
34271541 TTAATCTTTG
34271551 ATTTA-TTATTTTATTTT
1 ATTTATTTATTTTATTTT
*
34271568 AGTTATTTATTTTAATTTT
1 ATTTATTTATTTT-ATTTT
34271587 -TTTAT
1 ATTTAT
34271592 CTGACTGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 11 0.55
19 5 0.25
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTATTTATTTTATTTT
Found at i:34274712 original size:28 final size:28
Alignment explanation
Indices: 34274679--34274735 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
34274669 TATAGTTTTT
34274679 ATAATA-ATGATAAAGGTTATAATAATAA
1 ATAATATATGATAAA-GTTATAATAATAA
* * *
34274707 ATAATATATTATACAGTTATTATAATAA
1 ATAATATATGATAAAGTTATAATAATAA
34274735 A
1 A
34274736 AAAACAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 19 0.76
29 6 0.24
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (28 bp):
ATAATATATGATAAAGTTATAATAATAA
Found at i:34275721 original size:21 final size:22
Alignment explanation
Indices: 34275695--34275737 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
34275685 GAGTTGAAAT
34275695 TAAAGTTATGAAT-TAT-ATATA
1 TAAAGTT-TGAATGTATGATATA
34275716 TAAAGTTTGAATGTATGATATA
1 TAAAGTTTGAATGTATGATATA
34275738 AGTTCTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (22 bp):
TAAAGTTTGAATGTATGATATA
Found at i:34275736 original size:20 final size:21
Alignment explanation
Indices: 34275695--34275738 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
34275685 GAGTTGAAAT
*
34275695 TAAAGTTATGAATTATATATA
1 TAAAGTTATGAATTATAGATA
34275716 TAAAGTT-TGAATGTAT-GATA
1 TAAAGTTATGAAT-TATAGATA
34275736 TAA
1 TAA
34275739 GTTCTTTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (21 bp):
TAAAGTTATGAATTATAGATA
Found at i:34275744 original size:60 final size:61
Alignment explanation
Indices: 34275659--34275778 Score: 156
Period size: 61 Copynumber: 2.0 Consensus size: 61
34275649 ATGGATAAGT
* * *
34275659 AGTTCGAATGTAAGATTTAATTTC-TTGAGTTGAA-ATTAA-AGTTATGAATTATATATATAA
1 AGTTCGAATGTAAGATATAAGTTCTTTGAGCTGAACA-TAATA-TTATGAATTATATATATAA
* *
34275719 AGTTTGAATGTATGATATAAGTTCTTTGAGCTGAACATAATATTATGAATTATATATATA
1 AGTTCGAATGTAAGATATAAGTTCTTTGAGCTGAACATAATATTATGAATTATATATATA
34275779 TATATGCATA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
60 20 0.38
61 30 0.58
62 2 0.04
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.42
Consensus pattern (61 bp):
AGTTCGAATGTAAGATATAAGTTCTTTGAGCTGAACATAATATTATGAATTATATATATAA
Found at i:34275903 original size:64 final size:63
Alignment explanation
Indices: 34275779--34275985 Score: 239
Period size: 64 Copynumber: 3.3 Consensus size: 63
34275769 TATATATATA
* * * *
34275779 TATATGCATATATGGTTCAAATATA--TATATAAAGTTCTTGAGCTGTATTTAATGTATGAATTT
1 TATATACATATGTGGTTCAAATATAGGT-TACAAAGTTCTTGAGCTGAATTTAATGT-TGAATTT
34275842 TATATACATATGTGGTTCAAATATAGGTTACAAAGTT-TTGGAGCTGAATTTAATGTGTGAATTT
1 TATATACATATGTGGTTCAAATATAGGTTACAAAGTTCTT-GAGCTGAATTTAATGT-TGAATTT
* *
34275906 TACATACATATGTGGTTCGAATATAGGTTACAAA-TTCTTTGAGCTGAATTTTAATGTTGTAA--
1 TATATACATATGTGGTTCAAATATAGGTTACAAAGTTC-TTGAGCTGAA-TTTAATGTTG-AATT
*
34275968 A
63 T
34275969 T-TATACATATGTGGTTC
1 TATATACATATGTGGTTC
34275986 GAATGTTTGT
Statistics
Matches: 128, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
62 15 0.12
63 28 0.22
64 72 0.56
65 13 0.10
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (63 bp):
TATATACATATGTGGTTCAAATATAGGTTACAAAGTTCTTGAGCTGAATTTAATGTTGAATTT
Found at i:34276180 original size:41 final size:41
Alignment explanation
Indices: 34276118--34276221 Score: 111
Period size: 41 Copynumber: 2.5 Consensus size: 41
34276108 AGGATTAATG
* * * * *
34276118 CCTAGCAGACTTGATGTCGGTGAATTACT-TCAGACTTTATG
1 CCTAGCAGGCTTTATGCCGGTGAAATA-TATCAGACTTTATA
* * * *
34276159 TCTAGCAGGCTTTGTGCCGGTGAAATATATCAGGCTTTGTA
1 CCTAGCAGGCTTTATGCCGGTGAAATATATCAGACTTTATA
34276200 CCTAGCAGGCTTTATGCCGGTG
1 CCTAGCAGGCTTTATGCCGGTG
34276222 TTTTATACAA
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
40 1 0.02
41 50 0.98
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (41 bp):
CCTAGCAGGCTTTATGCCGGTGAAATATATCAGACTTTATA
Found at i:34282991 original size:14 final size:15
Alignment explanation
Indices: 34282967--34282995 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
34282957 TTTTTCTGTG
34282967 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
34282982 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
34282996 AGTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:34283233 original size:28 final size:28
Alignment explanation
Indices: 34283187--34283242 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
34283177 TATAGTTTTT
34283187 ATAATAATTATAAAGGTTATAATAATAA
1 ATAATAATTATAAAGGTTATAATAATAA
*
34283215 ATAATATATTATAAA-GTTATTATAATAA
1 ATAATA-ATTATAAAGGTTATAATAATAA
34283243 CAAAAACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (28 bp):
ATAATAATTATAAAGGTTATAATAATAA
Found at i:34289144 original size:14 final size:15
Alignment explanation
Indices: 34289120--34289148 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
34289110 TTTTTCTGTG
34289120 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
34289135 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
34289149 AGTTTCATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:34290381 original size:21 final size:22
Alignment explanation
Indices: 34290355--34290397 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
34290345 GAGTTGAAAT
34290355 TAAAGTTATGAAT-TAT-ATATA
1 TAAAGTT-TGAATGTATGATATA
34290376 TAAAGTTTGAATGTATGATATA
1 TAAAGTTTGAATGTATGATATA
34290398 AGTTCTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (22 bp):
TAAAGTTTGAATGTATGATATA
Found at i:34290396 original size:20 final size:21
Alignment explanation
Indices: 34290355--34290398 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
34290345 GAGTTGAAAT
*
34290355 TAAAGTTATGAATTATATATA
1 TAAAGTTATGAATTATAGATA
34290376 TAAAGTT-TGAATGTAT-GATA
1 TAAAGTTATGAAT-TATAGATA
34290396 TAA
1 TAA
34290399 GTTCTTTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (21 bp):
TAAAGTTATGAATTATAGATA
Found at i:34290404 original size:60 final size:61
Alignment explanation
Indices: 34290319--34290438 Score: 156
Period size: 61 Copynumber: 2.0 Consensus size: 61
34290309 ATGGATAAGT
* * *
34290319 AGTTCGAATGTAAGATTTAATTTC-TTGAGTTGAA-ATTAA-AGTTATGAATTATATATATAA
1 AGTTCGAATGTAAGATATAAGTTCTTTGAGCTGAACA-TAATA-TTATGAATTATATATATAA
* *
34290379 AGTTTGAATGTATGATATAAGTTCTTTGAGCTGAACATAATATTATGAATTATATATATA
1 AGTTCGAATGTAAGATATAAGTTCTTTGAGCTGAACATAATATTATGAATTATATATATA
34290439 TGCACATATG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
60 20 0.38
61 30 0.58
62 2 0.04
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.42
Consensus pattern (61 bp):
AGTTCGAATGTAAGATATAAGTTCTTTGAGCTGAACATAATATTATGAATTATATATATAA
Found at i:34290501 original size:69 final size:69
Alignment explanation
Indices: 34290380--34290509 Score: 158
Period size: 69 Copynumber: 1.9 Consensus size: 69
34290370 TATATATAAA
* * *
34290380 GTTTGAATGTATGATATAAGTTCTTTGAGCTGAACATAATATTATGAATTATATATATATGCACA
1 GTTTGAATATATGATATAAGTTCTTTGAGCTGAACATAATAGTATGAATTATATACATATGCACA
34290445 TATG
66 TATG
* **
34290449 GTTTGAATATAT-ATATAAAGTTC-TTGAGCTGTATTTAAT-GTATGAATTTTATATACATATG
1 GTTTGAATATATGATAT-AAGTTCTTTGAGCTGAACATAATAGTATGAA--TTATATACATATG
34290510 TGGTTCAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
67 6 0.12
68 17 0.33
69 29 0.56
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.43
Consensus pattern (69 bp):
GTTTGAATATATGATATAAGTTCTTTGAGCTGAACATAATAGTATGAATTATATACATATGCACA
TATG
Found at i:34295575 original size:23 final size:25
Alignment explanation
Indices: 34295549--34295597 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
34295539 TGTAAATAAG
34295549 AAAAGAATTTC-TAGA-AATTTTCT
1 AAAAGAATTTCTTAGAGAATTTTCT
*
34295572 AAAATAATTTCTTTAGAGAATTTTCT
1 AAAAGAATTTC-TTAGAGAATTTTCT
34295598 CTCTACAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 10 0.45
25 4 0.18
26 8 0.36
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (25 bp):
AAAAGAATTTCTTAGAGAATTTTCT
Found at i:34295856 original size:59 final size:61
Alignment explanation
Indices: 34295733--34295884 Score: 177
Period size: 59 Copynumber: 2.5 Consensus size: 61
34295723 TATTATTAGG
** * *
34295733 TTAAATTTAATATTAAATCTTATTAAATTAATAGAATATTTATCTACAAGATAAACATTAAA
1 TTAAATTTAATATTAAATAATATTAAATTAATAAAATATCTATCTA-AAGATAAACATTAAA
* **
34295795 TTAAATTTAATATTAAGGTAATATTAAATTAATAAAATA-CTAT-T-AAGATAAGTATTAAA
1 TTAAATTTAATATTAA-ATAATATTAAATTAATAAAATATCTATCTAAAGATAAACATTAAA
* *
34295854 TTAAATTTAATATTAAAT-CTATTAAAATAAT
1 TTAAATTTAATATTAAATAATATTAAATTAAT
34295885 TTTATTTTTG
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
57 11 0.14
58 1 0.01
59 29 0.37
61 1 0.01
62 19 0.24
63 18 0.23
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (61 bp):
TTAAATTTAATATTAAATAATATTAAATTAATAAAATATCTATCTAAAGATAAACATTAAA
Found at i:34297391 original size:17 final size:17
Alignment explanation
Indices: 34297369--34297413 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
34297359 TAAGTTGTCT
34297369 TTCTCACAATGTAAACG
1 TTCTCACAATGTAAACG
34297386 TTCTCACAATGTAAACG
1 TTCTCACAATGTAAACG
*
34297403 TTCTTACAATG
1 TTCTCACAATG
34297414 CCACTTGTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (17 bp):
TTCTCACAATGTAAACG
Found at i:34298595 original size:60 final size:59
Alignment explanation
Indices: 34298500--34298671 Score: 202
Period size: 60 Copynumber: 2.9 Consensus size: 59
34298490 AAAATTTTTA
* * * *
34298500 TGGCAAGCACTGAATGAAAAAGATGTCTTCGTGGCAAAACTCTAGAAAGGAAAACCTTTG
1 TGGCAAGTACTGAATGAAAAAGATGCCTTTGTGGCAAAACCCT-GAAAGGAAAACCTTTG
* * * *
34298560 TGGCAAGTACTGAATGAAAATGATGCCTTTATGGCAAAACCCTGTAAGGAAAGCCTTTG
1 TGGCAAGTACTGAATGAAAAAGATGCCTTTGTGGCAAAACCCTGAAAGGAAAACCTTTG
** * *
34298619 TGGTGAGTATTGAATGAAAAAAGATGCCTTTGTGGC-AAACCACTGAAAAGAAA
1 TGGCAAGTACTGAATG-AAAAAGATGCCTTTGTGGCAAAACC-CTGAAAGGAAA
34298672 TTCCTCAGTG
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
59 32 0.34
60 63 0.66
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (59 bp):
TGGCAAGTACTGAATGAAAAAGATGCCTTTGTGGCAAAACCCTGAAAGGAAAACCTTTG
Found at i:34303155 original size:23 final size:23
Alignment explanation
Indices: 34303129--34303173 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
34303119 ATATTTTAAT
34303129 GACTCTAATGACTTAGTAAATAC
1 GACTCTAATGACTTAGTAAATAC
*
34303152 GACTCTAATGACTTCGTAAATA
1 GACTCTAATGACTTAGTAAATA
34303174 TTCTATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (23 bp):
GACTCTAATGACTTAGTAAATAC
Found at i:34308447 original size:42 final size:42
Alignment explanation
Indices: 34308388--34308476 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
34308378 GTCTCAGCCT
*
34308388 GTGTCTCTACCCGTGTAACTCACTGGCTTGAGG-CACACGGTC
1 GTGTCTCTACCCGTGTAACTCACTGACTTG-GGTCACACGGTC
* * *
34308430 GTGTCTCTGCCCGTGTAACTCGCTGACTTGGGTCACACGGTT
1 GTGTCTCTACCCGTGTAACTCACTGACTTGGGTCACACGGTC
34308472 GTGTC
1 GTGTC
34308477 GTAGGCCGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 2 0.05
42 40 0.95
ACGTcount: A:0.13, C:0.29, G:0.28, T:0.29
Consensus pattern (42 bp):
GTGTCTCTACCCGTGTAACTCACTGACTTGGGTCACACGGTC
Found at i:34309407 original size:50 final size:50
Alignment explanation
Indices: 34309287--34309481 Score: 193
Period size: 50 Copynumber: 3.9 Consensus size: 50
34309277 TCATTGACGT
** * *
34309287 TATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGA
1 TATGAGAACTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* * * *
34309337 GATGAGAGGTCTCCCA--TAAGACCATGTCTAGGACATGGCATGGGCACCGA
1 TATGAGA--ACTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* * *
34309387 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGACATTGGCA--G-
1 TATGAGAACTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* * *
34309434 TACAGAAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TA-TGAGAAC-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
34309482 TGTTATTATC
Statistics
Matches: 119, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
47 2 0.02
48 12 0.10
49 33 0.28
50 67 0.56
52 5 0.04
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
TATGAGAACTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
Found at i:34317405 original size:26 final size:26
Alignment explanation
Indices: 34317369--34317420 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
34317359 TGTTTGGATA
34317369 CCGTAAGGGTGTTGGAGTTCCAAATT
1 CCGTAAGGGTGTTGGAGTTCCAAATT
34317395 CCGTAAGGGTGTTGGAGTTCCAAATT
1 CCGTAAGGGTGTTGGAGTTCCAAATT
34317421 AACTGAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (26 bp):
CCGTAAGGGTGTTGGAGTTCCAAATT
Found at i:34323123 original size:14 final size:14
Alignment explanation
Indices: 34323085--34323139 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
34323075 AATTTGGTTC
34323085 ATTTATTTTTTTATTT
1 ATTTA-TTTTTTA-TT
*
34323101 AATTAATTTTTTATT
1 -ATTTATTTTTTATT
* *
34323116 CTTTATTTTTTGTT
1 ATTTATTTTTTATT
34323130 ATTTATTTTT
1 ATTTATTTTT
34323140 AGGTGTTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
14 20 0.61
15 2 0.06
16 7 0.21
17 4 0.12
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (14 bp):
ATTTATTTTTTATT
Found at i:34326173 original size:6 final size:6
Alignment explanation
Indices: 34326157--34326199 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
34326147 CCCAAAAGAA
* *
34326157 AATTTT CATTTT AATTTT AATTTT -ATTTCC AATTTT AATTTT A
1 AATTTT AATTTT AATTTT AATTTT AATTT-T AATTTT AATTTT A
34326200 TTATTTTGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
5 4 0.13
6 23 0.74
7 4 0.13
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (6 bp):
AATTTT
Found at i:34327649 original size:19 final size:19
Alignment explanation
Indices: 34327625--34327664 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
34327615 ATCTCATCTC
34327625 ATTCA-TTGCATTTAGATTA
1 ATTCATTTGCATTTAG-TTA
34327644 ATTCATTTGCATTTAGTTA
1 ATTCATTTGCATTTAGTTA
34327663 AT
1 AT
34327665 AATAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (19 bp):
ATTCATTTGCATTTAGTTA
Found at i:34333294 original size:24 final size:26
Alignment explanation
Indices: 34333265--34333314 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
34333255 TGTTAAAACT
34333265 ATTTC-TAAAG-AAAACTCAAGAGAA
1 ATTTCTTAAAGAAAAACTCAAGAGAA
**
34333289 ATTTCTTGGAGAAAAACTCAAGAGAA
1 ATTTCTTAAAGAAAAACTCAAGAGAA
34333315 TTTGCAAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 3 0.14
26 14 0.64
ACGTcount: A:0.50, C:0.12, G:0.16, T:0.22
Consensus pattern (26 bp):
ATTTCTTAAAGAAAAACTCAAGAGAA
Found at i:34334530 original size:14 final size:14
Alignment explanation
Indices: 34334511--34334544 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
34334501 ATTCCCCAAA
*
34334511 AGCGCGTCCACGTC
1 AGCGCGTCCACATC
34334525 AGCGCGTCCACATC
1 AGCGCGTCCACATC
34334539 AGCGCG
1 AGCGCG
34334545 ATGTCAGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.41, G:0.29, T:0.12
Consensus pattern (14 bp):
AGCGCGTCCACATC
Found at i:34334806 original size:22 final size:21
Alignment explanation
Indices: 34334778--34334870 Score: 116
Period size: 22 Copynumber: 4.2 Consensus size: 21
34334768 AACTAAATCC
*
34334778 TTTCTCTCAATTTCTCTCTAA
1 TTTCTCTCAATTTCTCTCAAA
34334799 TATTCTCTCAAATTTCTCTCAAA
1 T-TTCTCTC-AATTTCTCTCAAA
*
34334822 TTTCTCTCAATTTCCTCTC-GA
1 TTTCTCTCAATTT-CTCTCAAA
34334843 TTTCCTCTCAATTTCCTCTCAAA
1 TTT-CTCTCAATTT-CTCTCAAA
34334866 TTTCT
1 TTTCT
34334871 ATTTAAAATA
Statistics
Matches: 64, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
21 10 0.16
22 37 0.58
23 17 0.27
ACGTcount: A:0.20, C:0.30, G:0.01, T:0.48
Consensus pattern (21 bp):
TTTCTCTCAATTTCTCTCAAA
Found at i:34334817 original size:11 final size:10
Alignment explanation
Indices: 34334778--34334870 Score: 105
Period size: 11 Copynumber: 8.5 Consensus size: 10
34334768 AACTAAATCC
34334778 TTTCTCTCAA
1 TTTCTCTCAA
34334788 TTTCTCTCTAA
1 TTTCTCTC-AA
34334799 TATTCTCTCAAA
1 T-TTCTCTC-AA
34334811 TTTCTCTCAAA
1 TTTCTCTC-AA
34334822 TTTCTCTCAA
1 TTTCTCTCAA
*
34334832 TTTCCTCTCGA
1 TTT-CTCTCAA
34334843 TTTCCTCTCAA
1 TTT-CTCTCAA
34334854 TTTCCTCTCAAA
1 TTT-CTCTC-AA
34334866 TTTCT
1 TTTCT
34334871 ATTTAAAATA
Statistics
Matches: 76, Mismatches: 3, Indels: 7
0.88 0.03 0.08
Matches are distributed among these distances:
10 13 0.17
11 48 0.63
12 15 0.20
ACGTcount: A:0.20, C:0.30, G:0.01, T:0.48
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:34334851 original size:44 final size:44
Alignment explanation
Indices: 34334778--34334870 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 44
34334768 AACTAAATCC
34334778 TTTCTCTCAATTTCTCTCTAATATTCTCTCAAATTT-CTCTCAAA
1 TTTCTCTCAATTTCTCTCTAATATTCTCTC-AATTTCCTCTCAAA
*
34334822 TTTCTCTCAATTTC-CTCTCGAT-TTCCTCTCAATTTCCTCTCAAA
1 TTTCTCTCAATTTCTCTCT-AATATT-CTCTCAATTTCCTCTCAAA
34334866 TTTCT
1 TTTCT
34334871 ATTTAAAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
43 11 0.24
44 34 0.76
ACGTcount: A:0.20, C:0.30, G:0.01, T:0.48
Consensus pattern (44 bp):
TTTCTCTCAATTTCTCTCTAATATTCTCTCAATTTCCTCTCAAA
Found at i:34339251 original size:21 final size:21
Alignment explanation
Indices: 34339227--34339281 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
34339217 CACCGACAAG
* * * *
34339227 CAGATTCCCTACCGGAGGAAC
1 CAGAATCCCCACCAGAGCAAC
34339248 CAGAATCCCCACCAGAGCAAC
1 CAGAATCCCCACCAGAGCAAC
* *
34339269 CACAACCCCCACC
1 CAGAATCCCCACC
34339282 GAAGGCTAGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.45, G:0.15, T:0.07
Consensus pattern (21 bp):
CAGAATCCCCACCAGAGCAAC
Found at i:34339436 original size:34 final size:33
Alignment explanation
Indices: 34339396--34339494 Score: 98
Period size: 34 Copynumber: 3.0 Consensus size: 33
34339386 GAATATTTTG
34339396 ATATTATTTGATGTAATAAAATAGAAATTCTTCT
1 ATATTATTT-ATGTAATAAAATAGAAATTCTTCT
* * *
34339430 ATATTATTCCATGTACTAAAATAGAAATT-TACT
1 ATATTATT-TATGTAATAAAATAGAAATTCTTCT
* *
34339463 -TATACATTT-T-TAATATAATAGAAATTCTTCT
1 ATAT-TATTTATGTAATAAAATAGAAATTCTTCT
34339494 A
1 A
34339495 ATAAGGCAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
30 14 0.26
31 4 0.08
32 3 0.06
33 6 0.11
34 26 0.49
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.43
Consensus pattern (33 bp):
ATATTATTTATGTAATAAAATAGAAATTCTTCT
Found at i:34342726 original size:126 final size:126
Alignment explanation
Indices: 34342495--34342911 Score: 690
Period size: 126 Copynumber: 3.3 Consensus size: 126
34342485 CCAAACATGT
* * *
34342495 GCTATTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTACTGGCAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
* *
34342560 GCTTAAAGCGTTTTTGACACTATTTGCTTAAAAACCTCTACTCGAAATTATTTTTTCAGGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGA
*
34342621 GCTACTGTAGCAAAAGCCCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
* * *
34342686 ACTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGA
*
34342747 GCTACTGTAGCAAAAGCGCGTCCACGTGGTAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
* * *
34342812 GCTTAAAGTGTTTTTGACACTATTTGCTCAAAAATGTCTACTCGAAATTATCTTTTCAGGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGA
* * *
34342873 GCTACTATAGCAAGAGTGCGTCCACGTGGGAGCTTCTTT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTT
34342912 AAATTAACAA
Statistics
Matches: 270, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 270 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (126 bp):
GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
GCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGA
Found at i:34343092 original size:96 final size:96
Alignment explanation
Indices: 34342950--34343225 Score: 326
Period size: 96 Copynumber: 2.9 Consensus size: 96
34342940 CCTAAACCCC
*
34342950 AAACCCTAATTTATTTGAGTTTTTACTTAAAAACACTAAACACTAAACCCTAATCTAATTTTATA
1 AAACCCTAATTTATTT-AATTTTTACTTAAAAACACTAAACACTAAACCCTAATCTAATTTT-TA
34343015 AA-AATTTATAATTAATTTACTCAAGTAA-CTCT
64 AATAATTTATAATTAATTTACTCAAGTAACCT-T
* * * * * * * *
34343047 GAACCCTAATTTATTTAATTTTTCCTTAAAAACCCTTAACTCTAAACTCTTATCTGATTTTTAAA
1 AAACCCTAATTTATTTAATTTTTACTTAAAAACACTAAACACTAAACCCTAATCTAATTTTTAAA
*
34343112 TAATTTTTAATTAATTTACTCAAGTAACCTT
66 TAATTTATAATTAATTTACTCAAGTAACCTT
* * * * * *
34343143 AAACCCTAATTTAATTAATTTTTTCTTAAAAAAACAATAAACACGAAA-CCTAATCCAATTTTGA
1 AAACCCTAATTTATTTAATTTTTACTT--AAAAACACTAAACACTAAACCCTAATCTAATTTTTA
*
34343207 AA-ATTTTATAATTAATTTA
64 AATAATTTATAATTAATTTA
34343226 ATTGACAAAC
Statistics
Matches: 150, Mismatches: 25, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
95 4 0.03
96 102 0.68
97 30 0.20
98 14 0.09
ACGTcount: A:0.41, C:0.16, G:0.03, T:0.40
Consensus pattern (96 bp):
AAACCCTAATTTATTTAATTTTTACTTAAAAACACTAAACACTAAACCCTAATCTAATTTTTAAA
TAATTTATAATTAATTTACTCAAGTAACCTT
Found at i:34344367 original size:5 final size:5
Alignment explanation
Indices: 34344359--34344390 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
34344349 AAAGAAAAGA
34344359 AAATC AAATC AAATC AAATC AAATC AAATC AA
1 AAATC AAATC AAATC AAATC AAATC AAATC AA
34344391 GCAGATTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.62, C:0.19, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATC
Found at i:34345441 original size:5 final size:6
Alignment explanation
Indices: 34345429--34345457 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
34345419 TATAATATAA
34345429 TTATTT TTATTT TTATTT TTATTT TTATT
1 TTATTT TTATTT TTATTT TTATTT TTATT
34345458 CATATGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:34345884 original size:13 final size:12
Alignment explanation
Indices: 34345860--34345898 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
34345850 TCATGGATTA
34345860 TTGTTT-TTTAT
1 TTGTTTATTTAT
34345871 TTCGTTTATTTAT
1 TT-GTTTATTTAT
34345884 TTGTTTATATTAT
1 TTGTTTAT-TTAT
34345897 TT
1 TT
34345899 TTATGCCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 10 0.40
13 13 0.52
ACGTcount: A:0.15, C:0.03, G:0.08, T:0.74
Consensus pattern (12 bp):
TTGTTTATTTAT
Found at i:34345929 original size:15 final size:15
Alignment explanation
Indices: 34345906--34345938 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
34345896 TTTTTATGCC
34345906 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
34345921 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
34345936 ATT
1 ATT
34345939 ATAGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:34347492 original size:9 final size:9
Alignment explanation
Indices: 34347475--34347511 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
34347465 TGAGTTTTCG
34347475 AATTCGAAT
1 AATTCGAAT
*
34347484 AACTCGAAT
1 AATTCGAAT
34347493 AATTCGAAT
1 AATTCGAAT
34347502 AATTCGAAT
1 AATTCGAAT
34347511 A
1 A
34347512 TCAAACTATA
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:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:34347761 original size:30 final size:30
Alignment explanation
Indices: 34347725--34347782 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
34347715 AAACCTTTTA
*
34347725 TTTTCCCCCAAAATTTTTACTCCCTTCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCAC
* *
34347755 TTTTCCCCTAAAACTTTTATTCCCTTCC
1 TTTTCCCCCAAAACTTTTACTCCCTTCC
34347783 CATCTCACCT
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:0.19, C:0.38, G:0.00, T:0.43
Consensus pattern (30 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCAC
Found at i:34349685 original size:19 final size:19
Alignment explanation
Indices: 34349657--34349694 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
34349647 CCACTGTCAC
*
34349657 CCACCATAATTAAATTTGT
1 CCACCATAATCAAATTTGT
*
34349676 CCACCGTAATCAAATTTGT
1 CCACCATAATCAAATTTGT
34349695 TATTAACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.24, G:0.08, T:0.34
Consensus pattern (19 bp):
CCACCATAATCAAATTTGT
Found at i:34350429 original size:41 final size:41
Alignment explanation
Indices: 34350384--34350501 Score: 157
Period size: 41 Copynumber: 2.8 Consensus size: 41
34350374 CGGCCCGAAT
34350384 AATAATTTTTTTTTATTTTTTTAATTTTAAAATATTTTTAA
1 AATAATTTTTTTTTATTTTTTTAATTTTAAAATATTTTTAA
** *
34350425 AATAATTTTTTTAAATTTTTTTAATTTTAAAATATTTTTTA
1 AATAATTTTTTTTTATTTTTTTAATTTTAAAATATTTTTAA
* *
34350466 AATACTTTTTTAATTT-TTGTTTTAATTTTTAAAATA
1 AATAATTTTTT--TTTATTTTTTTAA-TTTTAAAATA
34350502 AATTTTTGGT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 48 0.72
42 8 0.12
43 11 0.16
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.64
Consensus pattern (41 bp):
AATAATTTTTTTTTATTTTTTTAATTTTAAAATATTTTTAA
Found at i:34350453 original size:30 final size:29
Alignment explanation
Indices: 34350419--34350482 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 29
34350409 TTTAAAATAT
34350419 TTTTAAAATAATTTTTTTAAAT-TTTTTTAA
1 TTTTAAAAT-A-TTTTTTAAATATTTTTTAA
34350449 TTTTAAAATATTTTTTAAATACTTTTTTAA
1 TTTTAAAATATTTTTTAAATA-TTTTTTAA
34350479 TTTT
1 TTTT
34350483 TGTTTTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
28 10 0.31
29 1 0.03
30 21 0.66
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (29 bp):
TTTTAAAATATTTTTTAAATATTTTTTAA
Found at i:34350476 original size:12 final size:11
Alignment explanation
Indices: 34350408--34350478 Score: 53
Period size: 11 Copynumber: 6.6 Consensus size: 11
34350398 ATTTTTTTAA
*
34350408 TTTTAAAATAT
1 TTTTTAAATAT
*
34350419 TTTTAAAATAATT
1 TTTTTAAAT-A-T
34350432 TTTTTAAAT-T
1 TTTTTAAATAT
34350442 TTTTT--A-A-
1 TTTTTAAATAT
*
34350449 TTTTAAAATAT
1 TTTTTAAATAT
34350460 TTTTTAAATACT
1 TTTTTAAATA-T
34350472 TTTTTAA
1 TTTTTAA
34350479 TTTTTGTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 15
0.73 0.04 0.22
Matches are distributed among these distances:
7 4 0.08
8 1 0.02
9 1 0.02
10 7 0.14
11 18 0.37
12 9 0.18
13 9 0.18
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTTAAATAT
Found at i:34351457 original size:27 final size:28
Alignment explanation
Indices: 34351421--34351480 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
34351411 TACTTCTATT
* *
34351421 TATTTCAAA-TTACATTTTAGTTATTTA
1 TATTTCAAAGTTACATTTTAGTCACTTA
* *
34351448 TATTTGAAATGTTACGTTTTAGTCACTTA
1 TATTTCAAA-GTTACATTTTAGTCACTTA
34351477 TATT
1 TATT
34351481 ATTGTTTTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 8 0.30
29 19 0.70
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.53
Consensus pattern (28 bp):
TATTTCAAAGTTACATTTTAGTCACTTA
Found at i:34355045 original size:18 final size:17
Alignment explanation
Indices: 34354986--34355046 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
34354976 GCACTCTTTC
*
34354986 TTTTCTTTCTCCAATCTTT
1 TTTTCTTT-TTCAAT-TTT
*
34355005 TTCTCTTTTTCAATTTT
1 TTTTCTTTTTCAATTTT
*
34355022 TGTTTCTTTTTCGATTTCT
1 T-TTTCTTTTTCAATTT-T
34355041 TTTTCT
1 TTTTCT
34355047 CTCGTCACTC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 4 0.11
18 23 0.64
19 9 0.25
ACGTcount: A:0.08, C:0.20, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTTCTTTTTCAATTTT
Found at i:34355989 original size:14 final size:14
Alignment explanation
Indices: 34355970--34356010 Score: 75
Period size: 13 Copynumber: 3.0 Consensus size: 14
34355960 ACTAGCTCTC
34355970 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
34355984 -TTTTTTTTCACAA
1 TTTTTTTTTCACAA
34355997 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
34356011 CTTGATATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 13 0.50
14 13 0.50
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTTTTTTCACAA
Found at i:34356028 original size:27 final size:27
Alignment explanation
Indices: 34355970--34356028 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
34355960 ACTAGCTCTC
* ** *
34355970 TTTTTTTTTCACAATTTTTTTTCACAA
1 TTTTTTTTTCACAACTTGATATCACAA
34355997 TTTTTTTTTCACAACTTGATATC-CAA
1 TTTTTTTTTCACAACTTGATATCACAA
*
34356023 TCTTTT
1 TTTTTT
34356029 AAGTTTGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.22, C:0.17, G:0.02, T:0.59
Consensus pattern (27 bp):
TTTTTTTTTCACAACTTGATATCACAA
Found at i:34356068 original size:13 final size:13
Alignment explanation
Indices: 34356043--34356082 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
34356033 TTGAATGGAA
34356043 TTTCGAATTTTTT
1 TTTCGAATTTTTT
34356056 TTT-GAATTTTTT
1 TTTCGAATTTTTT
*
34356068 TTTCGAGTTTTTT
1 TTTCGAATTTTTT
34356081 TT
1 TT
34356083 CGAGAAACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 12 0.48
13 13 0.52
ACGTcount: A:0.12, C:0.05, G:0.10, T:0.72
Consensus pattern (13 bp):
TTTCGAATTTTTT
Found at i:34356083 original size:12 final size:12
Alignment explanation
Indices: 34356043--34356086 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
34356033 TTGAATGGAA
*
34356043 TTTCGAATTTTT
1 TTTCGAGTTTTT
* *
34356055 TTTTGAATTTTTT
1 TTTCG-AGTTTTT
34356068 TTTCGAGTTTTT
1 TTTCGAGTTTTT
34356080 TTTCGAG
1 TTTCGAG
34356087 AAACTACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 17 0.63
13 10 0.37
ACGTcount: A:0.14, C:0.07, G:0.14, T:0.66
Consensus pattern (12 bp):
TTTCGAGTTTTT
Found at i:34360638 original size:43 final size:43
Alignment explanation
Indices: 34360558--34360689 Score: 167
Period size: 43 Copynumber: 3.1 Consensus size: 43
34360548 AATATTTTTT
* **
34360558 TAAAAATCATG-TTTTTAGCGGCGTTTGTGGTAGAAGCGTTGC
1 TAAAAATCATGATTTTTAGCGGCGTTTGTAGTAGAAGCGCCGC
* * * *
34360600 TAAAAATCATGATTTTTAGTGGCGCTTATAGTATAAGCGCCGC
1 TAAAAATCATGATTTTTAGCGGCGTTTGTAGTAGAAGCGCCGC
* * *
34360643 TAAAAGTCATGATCTTTAGCGGCGTTTGTAGTAGAAGCGACGC
1 TAAAAATCATGATTTTTAGCGGCGTTTGTAGTAGAAGCGCCGC
34360686 TAAA
1 TAAA
34360690 GTTAGCGACG
Statistics
Matches: 75, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 11 0.15
43 64 0.85
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (43 bp):
TAAAAATCATGATTTTTAGCGGCGTTTGTAGTAGAAGCGCCGC
Found at i:34361868 original size:169 final size:169
Alignment explanation
Indices: 34361589--34361925 Score: 620
Period size: 169 Copynumber: 2.0 Consensus size: 169
34361579 CAAGAACAAA
*
34361589 ACCCATGTTTGTATCATTTTCTGTCATTCCTTCCCTTGTTTTTTGTTTTCCTTTAAATGTTGTAT
1 ACCCATGTTTGTATCATTTTCTGTCATTCCTTCCCTTGTTTTTTGTTTTCCTTCAAATGTTGTAT
* *
34361654 TGGATCATAAACACTTGCAATGGATTGTTTCAAGGATAATGAATCAAAGCAGACAAATTCCCATG
66 TGGATCATAAACACTTGCAATGGATTATTTCAAGGACAATGAATCAAAGCAGACAAATTCCCATG
34361719 AAAAAGGTAATAGCACTGAACACTCACATGATCTAAGCG
131 AAAAAGGTAATAGCACTGAACACTCACATGATCTAAGCG
34361758 ACCCATGTTTGTATCATTTTCTGTCATTCCTTCCCTTGTTTTTTGTTTTCCTTCAAATGTTGTAT
1 ACCCATGTTTGTATCATTTTCTGTCATTCCTTCCCTTGTTTTTTGTTTTCCTTCAAATGTTGTAT
* *
34361823 TGGATCATAAACACTTGCAATGGATTATTTCAGGGACAATGAATCAAAGTAGACAAATTCCCATG
66 TGGATCATAAACACTTGCAATGGATTATTTCAAGGACAATGAATCAAAGCAGACAAATTCCCATG
*
34361888 AAGAAGGTAATAGCACTGAACACTCACATGATCTAAGC
131 AAAAAGGTAATAGCACTGAACACTCACATGATCTAAGC
34361926 CTTAACTCGG
Statistics
Matches: 162, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
169 162 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.35
Consensus pattern (169 bp):
ACCCATGTTTGTATCATTTTCTGTCATTCCTTCCCTTGTTTTTTGTTTTCCTTCAAATGTTGTAT
TGGATCATAAACACTTGCAATGGATTATTTCAAGGACAATGAATCAAAGCAGACAAATTCCCATG
AAAAAGGTAATAGCACTGAACACTCACATGATCTAAGCG
Found at i:34362366 original size:35 final size:35
Alignment explanation
Indices: 34362314--34362393 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 35
34362304 GAAAAAAAAT
* *
34362314 TTGCCTTAGACGTGTCTATCCCAA-TCTTTTGAAGG
1 TTGCCTTAAACGGGTCTATCCCAACT-TTTTGAAGG
* * *
34362349 TTGCCTTAAACGGGTCTATTCTAACTTTTTTAAGG
1 TTGCCTTAAACGGGTCTATCCCAACTTTTTGAAGG
34362384 TTGCCTTAAA
1 TTGCCTTAAA
34362394 ACCTATCTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 38 0.97
36 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (35 bp):
TTGCCTTAAACGGGTCTATCCCAACTTTTTGAAGG
Found at i:34362415 original size:36 final size:35
Alignment explanation
Indices: 34362328--34362416 Score: 90
Period size: 35 Copynumber: 2.5 Consensus size: 35
34362318 CTTAGACGTG
* * * * *
34362328 TCTATCCCAATCTTTTGAAGGTTGCCTTAAACGGG
1 TCTATCCTAAACTTTTTAAGGTTGCCTTAAACCGA
* *
34362363 TCTATTCT-AACTTTTTTAAGGTTGCCTTAAAACCTA
1 TCTATCCTAAAC-TTTTTAAGGTTGCCTT-AAACCGA
34362399 TCTATCCTAAACTTTTTA
1 TCTATCCTAAACTTTTTA
34362417 GCGTCACATT
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
34 2 0.05
35 21 0.49
36 17 0.40
37 3 0.07
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (35 bp):
TCTATCCTAAACTTTTTAAGGTTGCCTTAAACCGA
Found at i:34365060 original size:20 final size:20
Alignment explanation
Indices: 34365037--34365119 Score: 70
Period size: 20 Copynumber: 4.3 Consensus size: 20
34365027 TATATGCTTA
34365037 TATATTATTTTTAATAATTT
1 TATATTATTTTTAATAATTT
34365057 TATAATTA-TTTTACA-AATTT
1 TAT-ATTATTTTTA-ATAATTT
34365077 TATGA-T-TTTTTAAT-ATTT
1 TAT-ATTATTTTTAATAATTT
* * *
34365095 T-TACTATTTTTCATTATTT
1 TATATTATTTTTAATAATTT
34365114 TATATT
1 TATATT
34365120 TAAAAAAATA
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
16 1 0.02
17 2 0.04
18 13 0.25
19 11 0.21
20 20 0.38
21 5 0.10
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (20 bp):
TATATTATTTTTAATAATTT
Found at i:34368088 original size:75 final size:75
Alignment explanation
Indices: 34367966--34368112 Score: 179
Period size: 75 Copynumber: 2.0 Consensus size: 75
34367956 TATGAAAAAC
** * * ** *
34367966 ACATAATGCAGGTCTTAAAGGATGCTAATGTATTAATGTAATGCATTAACTAAAGACGCATTCAA
1 ACATAATGCACATCTTAAAAGATGCTAATGTATTAATGCAAAACATTAAATAAAGACGCATTCAA
*
34368031 TAAACAAGAA
66 CAAACAAGAA
* * *
34368041 ACATAATGCACATTTTAAAAGATG-TAGATGTATTAATGCAAAACATTAAATAAAGATGCATTTA
1 ACATAATGCACATCTTAAAAGATGCTA-ATGTATTAATGCAAAACATTAAATAAAGACGCATTCA
34368105 ACAAACAA
65 ACAAACAA
34368113 AACACTTCAT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
74 2 0.03
75 58 0.97
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (75 bp):
ACATAATGCACATCTTAAAAGATGCTAATGTATTAATGCAAAACATTAAATAAAGACGCATTCAA
CAAACAAGAA
Found at i:34369087 original size:25 final size:24
Alignment explanation
Indices: 34369044--34369097 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
34369034 GTATTGAAAT
*
34369044 TTAAAAATTTAAAAAAATATAAAGA
1 TTAAAAATATAAAAAAATATAAA-A
* * *
34369069 TTAAAAATATCAAATAATATCAAA
1 TTAAAAATATAAAAAAATATAAAA
34369093 TTAAA
1 TTAAA
34369098 TAACAATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (24 bp):
TTAAAAATATAAAAAAATATAAAA
Found at i:34370650 original size:116 final size:117
Alignment explanation
Indices: 34370303--34370956 Score: 411
Period size: 116 Copynumber: 5.6 Consensus size: 117
34370293 CATATGTTTA
** *** * * *
34370303 ATTGTACATTTCACATTGTT-CATCTATTGACCAGAGTGAGTTTTTTGGG-TTTCCTTTTCATTG
1 ATTGTACATTTTGCATT-TTCCATCTATTGAATGGACTGAGTTTTTCGGGTTTTCCATTTCATTG
* * * *
34370366 CTTTCAAGTATCTGGTCTTTA-AGA-GTTTCGATTGTGTTTTTTTTTCCTTCCATTTC
65 CTTTCAAGTGTCTGGTCTTTATA-ATGTTCCG-TTGTG-TTTTCTGT--TTCCATTTC
* * * *
34370422 A-TGTACATTTTCATTTTCATTTTCCATC-AGTTCAGTGGAGC-GAGTTTTTCAGGTTTTCCATT
1 ATTGTACA---T--TTTGCATTTTCCATCTA-TTGAATGGA-CTGAGTTTTTCGGGTTTTCCATT
** ** ** * * * *
34370484 TTGTTAATTTCAAGCATCTGGTC-CTATGA-GTTCTGTTCATGTTTTCTGTTTCCATTTC
59 TCATTGCTTTCAAGTGTCTGGTCTTTATAATGTTCCGTT-GTGTTTTCTGTTTCCATTTC
*
34370542 ATTGTACATTTTGCATTTTCCATCTATTGAATGGACTGA-TGTTTTCGGG-TTTCCATTTCATTT
1 ATTGTACATTTTGCATTTTCCATCTATTGAATGGACTGAGT-TTTTCGGGTTTTCCATTTCATTG
* * *
34370605 CTTTCAAGTGTCTGGTCTTTATAATG-TCCGATCGTATCTTCTGTTTCCATTTC
65 CTTTCAAGTGTCTGGTCTTTATAATGTTCCG-TTGTGTTTTCTGTTTCCATTTC
* ** * *** * * * * * *
34370658 ATTTTACGCTTTGTATTTTCCATGGGTTGAATGAAGTGACTTTTCCAGG-TTTCCATTTCACTGC
1 ATTGTACATTTTGCATTTTCCATCTATTGAATGGACTGAGTTTTTCGGGTTTTCCATTTCATTGC
*
34370722 TTTCAAGTGTCTGGCCTTTATAA-GTTCCGTTGTTGTTTTCTGTTT-C----C
66 TTTCAAGTGTCTGGTCTTTATAATGTTCCGTTG-TGTTTTCTGTTTCCATTTC
* * * * * * *
34370769 ATT-T-CATTTTGCATTTTCCATCCACTAAATGGAGTGAGTTTTTTGGGTTTTCTAGTTCATTGC
1 ATTGTACATTTTGCATTTTCCATCTATTGAATGGACTGAGTTTTTCGGGTTTTCCATTTCATTGC
* * * * * *
34370832 TTTCAAATATCTGCTCTTTGT-ATGTTCTGTTTGTGTTTTCTGATTCCATTTC
66 TTTCAAGTGTCTGGTCTTTATAATGTTCCG-TTGTGTTTTCTGTTTCCATTTC
* * * *
34370884 ATTGTACATTTTGCATTTTCTAT-TCATTGACTGGAGC-GAGTTTTTTGGGTTTTCCAATTCATT
1 ATTGTACATTTTGCATTTTCCATCT-ATTGAATGGA-CTGAGTTTTTCGGGTTTTCCATTTCATT
34370947 GCTTTCAAGT
64 GCTTTCAAGT
34370957 ACTCTTCATA
Statistics
Matches: 414, Mismatches: 88, Indels: 68
0.73 0.15 0.12
Matches are distributed among these distances:
109 31 0.07
110 45 0.11
111 8 0.02
115 35 0.08
116 140 0.34
117 60 0.14
118 7 0.02
119 1 0.00
120 10 0.02
121 7 0.02
122 11 0.03
123 34 0.08
124 25 0.06
ACGTcount: A:0.17, C:0.18, G:0.17, T:0.49
Consensus pattern (117 bp):
ATTGTACATTTTGCATTTTCCATCTATTGAATGGACTGAGTTTTTCGGGTTTTCCATTTCATTGC
TTTCAAGTGTCTGGTCTTTATAATGTTCCGTTGTGTTTTCTGTTTCCATTTC
Found at i:34377765 original size:30 final size:31
Alignment explanation
Indices: 34377697--34377766 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
34377687 TTAATATGCT
* *
34377697 ATTTGGTACCTGAGTTTCACTTTAATGTTCA
1 ATTTGGTACCTGAGTTTCACTTCAATATTCA
**
34377728 ATTTGGTACCTGAGTTTGGCTTCAATATT-A
1 ATTTGGTACCTGAGTTTCACTTCAATATTCA
*
34377758 TTTTGGTAC
1 ATTTGGTAC
34377767 TTGATTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 9 0.26
31 25 0.74
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.46
Consensus pattern (31 bp):
ATTTGGTACCTGAGTTTCACTTCAATATTCA
Found at i:34378926 original size:7 final size:8
Alignment explanation
Indices: 34378909--34378933 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
34378899 ATAATAAATA
34378909 TTTATTTT
1 TTTATTTT
34378917 TTTATTTT
1 TTTATTTT
34378925 TTTATTTT
1 TTTATTTT
34378933 T
1 T
34378934 AAAATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTATTTT
Found at i:34378957 original size:12 final size:11
Alignment explanation
Indices: 34378927--34378955 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
34378917 TTTATTTTTT
34378927 TATTTTTAAAA
1 TATTTTTAAAA
34378938 TATTTTTAAAA
1 TATTTTTAAAA
34378949 TATTTTT
1 TATTTTT
34378956 TATTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:34378974 original size:19 final size:18
Alignment explanation
Indices: 34378938--34378975 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
34378928 ATTTTTAAAA
*
34378938 TATTTTTAAAATATTTTT
1 TATTTTTAAAATAATTTT
34378956 TATTTTTAAAATAAATTTT
1 TATTTTTAAAAT-AATTTT
34378975 T
1 T
34378976 GGTGTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTTTTAAAATAATTTT
Done.